Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 197 of 444
Found at i:55119586 original size:94 final size:94
Alignment explanation
Indices: 55119425--55119673 Score: 444
Period size: 94 Copynumber: 2.6 Consensus size: 94
55119415 CCCTTCGGGA
* * *
55119425 CTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACACT
1 CTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACT
55119490 TTCACATTCATCACATTGGCCACTCGGCC
66 TTCACATTCATCACATTGGCCACTCGGCC
55119519 CTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACT
1 CTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACT
*
55119584 TTCACATTCATCACGTTGGCCACTCGGCC
66 TTCACATTCATCACATTGGCCACTCGGCC
55119613 CTATCACATATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATA
1 CTATCAC--ATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATA
55119674 CATATCTTGT
Statistics
Matches: 149, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
94 97 0.65
96 52 0.35
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (94 bp):
CTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACT
TTCACATTCATCACATTGGCCACTCGGCC
Found at i:55126420 original size:22 final size:23
Alignment explanation
Indices: 55126395--55126437 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
55126385 AATCCCCACA
*
55126395 TGGAGTGTAG-GGCTGGATGGAG
1 TGGAGTGTAGAGGATGGATGGAG
55126417 TGGAGTGTAGAGGATGGATGG
1 TGGAGTGTAGAGGATGGATGG
55126438 GTAGGACTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.21, C:0.02, G:0.53, T:0.23
Consensus pattern (23 bp):
TGGAGTGTAGAGGATGGATGGAG
Found at i:55131062 original size:30 final size:30
Alignment explanation
Indices: 55131026--55131103 Score: 138
Period size: 30 Copynumber: 2.6 Consensus size: 30
55131016 ATGTGCTAAG
55131026 GTCGTGTCTCTCACACGGTCGAGACACACA
1 GTCGTGTCTCTCACACGGTCGAGACACACA
*
55131056 GTCGTGTCTCTCACACGATCGAGACACACA
1 GTCGTGTCTCTCACACGGTCGAGACACACA
*
55131086 GCCGTGTCTCTCACACGG
1 GTCGTGTCTCTCACACGG
55131104 GCGTGTCGCC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.22, C:0.35, G:0.23, T:0.21
Consensus pattern (30 bp):
GTCGTGTCTCTCACACGGTCGAGACACACA
Found at i:55132107 original size:50 final size:50
Alignment explanation
Indices: 55131993--55132138 Score: 172
Period size: 50 Copynumber: 3.0 Consensus size: 50
55131983 CAAATAATAA
* * * *
55131993 GATGCCAACGCCATATCCCAGATATGGTCTTAT-ATGGGATCAC-TA-CTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTT-TCATGGGATCTCATATCTC
* * *
55132041 GTTGCCAATGCCATGTCCCAGACATGGTCTTTCATGGAATCTCATATGTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTTCATGGGATCTCATATCTC
** *
55132091 GATGCCAATGCCATGTCTTAGACATGGTCTTACATGGGATCTCATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTTCATGGGATCTCATATC
55132139 AATGCCATAT
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
47 1 0.01
48 35 0.43
49 2 0.02
50 44 0.54
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (50 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTTCATGGGATCTCATATCTC
Found at i:55134839 original size:53 final size:55
Alignment explanation
Indices: 55134782--55134916 Score: 136
Period size: 53 Copynumber: 2.5 Consensus size: 55
55134772 AACATACAAT
* *
55134782 TTCCATGTCTTGATATGGTCTTACGT-GGTATCC-TTACCTTAT-G-AACTCACCAA
1 TTCCATGTCTTGACATGGTCTTACATAGG-A-CCTTTACCTTATAGTAACTCACCAA
* * *
55134835 TTCCATG-CTTTGGCATGGTCTTACATAGGACCTTTGCCTTATAGTAACTCATCAA
1 TTCCATGTC-TTGACATGGTCTTACATAGGACCTTTACCTTATAGTAACTCACCAA
* * *
55134890 TGCCATGTCTTGACATAGTTTTACATA
1 TTCCATGTCTTGACATGGTCTTACATA
55134917 ATTTCCTTGC
Statistics
Matches: 67, Mismatches: 9, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
52 3 0.04
53 30 0.45
54 3 0.04
55 30 0.45
56 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.38
Consensus pattern (55 bp):
TTCCATGTCTTGACATGGTCTTACATAGGACCTTTACCTTATAGTAACTCACCAA
Found at i:55134968 original size:54 final size:53
Alignment explanation
Indices: 55134796--55134978 Score: 172
Period size: 55 Copynumber: 3.4 Consensus size: 53
55134786 ATGTCTTGAT
* * * * * *
55134796 ATGGTCTTACGTGGTATCCTTACCTTAT-GAACTCACCAATTCCATGCTTTGGC
1 ATGGTCTTACAT-ATATCCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGC
* * *
55134849 ATGGTCTTACATAGGA-CCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGAC
1 ATGGTCTTACATA-TATCC-TTGCCTTATAG-AACTCATCAATGCCATGCCTTGGC
* * * * *
55134904 ATAGTTTTACATAATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTGGGC
1 ATGGTCTTACAT-ATATCCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGC
55134958 ATGGTCTTACATGATATCCTT
1 ATGGTCTTACAT-ATATCCTT
55134979 ATCTTACCAA
Statistics
Matches: 103, Mismatches: 21, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
52 2 0.02
53 20 0.19
54 38 0.37
55 40 0.39
56 3 0.03
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (53 bp):
ATGGTCTTACATATATCCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGC
Found at i:55135012 original size:47 final size:47
Alignment explanation
Indices: 55134957--55135078 Score: 210
Period size: 47 Copynumber: 2.6 Consensus size: 47
55134947 CATGCCTGGG
*
55134957 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
55135004 CATGGTCTTACATGGA-ATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACAT-GATATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
55135051 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGATATCCTTGTCTTA
55135079 GTGCCAAGCC
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
46 1 0.01
47 68 0.96
48 2 0.03
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:55135104 original size:47 final size:46
Alignment explanation
Indices: 55134957--55135211 Score: 193
Period size: 47 Copynumber: 5.5 Consensus size: 46
55134947 CATGCCTGGG
* * ***
55134957 CATGGTCTTACATGATATCCTTATCTTA--CCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTATGCC-AA-GCCATG-TCTTGA
* ***
55135004 CATGGTCTTACATGGAATCCTTGTCTTA--CCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTATGCC-AA-GCCATG-TCTTGA
**
55135051 CATGGTCTTACATGGTATCCTTGTCTTAGTGCCAAGCCACATCTTGA
1 CATGGTCTTACATGGTATCCTTGTCTTA-TGCCAAGCCATGTCTTGA
* * * *
55135098 CGTGGTCTTACATGG-AGTCCTTAATC-AATGCCGATGCCATGTCTTGA
1 CATGGTCTTACATGGTA-TCCTT-GTCTTATGCC-AAGCCATGTCTTGA
* * *
55135145 CATGGTCTTACACGGGATCCTTGCCTTA--CCAATGCCATGTCTTGA
1 CATGGTCTTACATGGTATCCTTGTCTTATGCCAA-GCCATGTCTTGA
55135190 CATGGTCTTACATGGTATCCTT
1 CATGGTCTTACATGGTATCCTT
55135212 AACCATCAAT
Statistics
Matches: 176, Mismatches: 23, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
44 1 0.01
45 34 0.19
46 6 0.03
47 124 0.70
48 7 0.04
49 2 0.01
50 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (46 bp):
CATGGTCTTACATGGTATCCTTGTCTTATGCCAAGCCATGTCTTGA
Found at i:55140790 original size:16 final size:16
Alignment explanation
Indices: 55140769--55140839 Score: 124
Period size: 16 Copynumber: 4.4 Consensus size: 16
55140759 GTTTGGTTCA
*
55140769 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
55140785 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
*
55140801 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
55140817 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
55140833 CTGTAAT
1 CTGTAAT
55140840 AAGTAATTCA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.35, C:0.07, G:0.30, T:0.28
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:55140914 original size:44 final size:46
Alignment explanation
Indices: 55140821--55140914 Score: 140
Period size: 44 Copynumber: 2.1 Consensus size: 46
55140811 ATAGAGCTGT
*
55140821 AATGGAATAGAGCTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
*
55140867 AATGGAATAGAACTGTAAT-AGT-ATTCTTA-TGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAAGTAATTC-AACTGTTTGGTTGAATGG
55140911 AATG
1 AATG
55140915 ATGTTGTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
44 23 0.51
45 4 0.09
46 18 0.40
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.35
Consensus pattern (46 bp):
AATGGAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
Found at i:55141097 original size:58 final size:58
Alignment explanation
Indices: 55141018--55141143 Score: 182
Period size: 58 Copynumber: 2.2 Consensus size: 58
55141008 TTTTAATAAG
* *
55141018 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACCATATT-TTAACATA
1 ATTATTATTAAAAATAATTTAAT-AAAATAATAAATAATTTAACAAAATTCTTAACATA
* * * *
55141076 ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
55141134 ATTATTATTA
1 ATTATTATTA
55141144 TATGAATTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 22 0.36
58 39 0.64
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (58 bp):
ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
Found at i:55141163 original size:57 final size:56
Alignment explanation
Indices: 55141005--55141170 Score: 169
Period size: 58 Copynumber: 2.9 Consensus size: 56
55140995 TATTGTTATT
* * * *
55141005 AAATTTTAATA-AGATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACC
1 AAATTTTAACATA-ATTATTATT-AATATAATTTAAT-AAAATAATATATAATTTAACA
* *
55141063 ATATTTTAACATAATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATA
1 AAATTTTAACATAATTATTATT-AATATAATTTAATAAAATAATATATAATTTAACA
*
55141120 AAATTCTTAATATAATTATTATT-ATATGAA-TTAA-AAATCATAATATATAAT
1 AAATT-TTAACATAATTATTATTAATAT-AATTTAATAAA--ATAATATATAAT
55141171 ACTATAAAAA
Statistics
Matches: 95, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
55 3 0.03
56 8 0.08
57 36 0.38
58 47 0.49
59 1 0.01
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (56 bp):
AAATTTTAACATAATTATTATTAATATAATTTAATAAAATAATATATAATTTAACA
Found at i:55141181 original size:58 final size:57
Alignment explanation
Indices: 55141018--55141179 Score: 154
Period size: 57 Copynumber: 2.8 Consensus size: 57
55141008 TTTTAATAAG
* * * ** *
55141018 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACCATATT-TTAACATA
1 ATTATTATT-AATATAATTTAAT-AAAATAATATATAATCTAATAAAATTCTTAACATA
* *
55141076 ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTATT-AATATAATTTAATAAAATAATATATAATCTAATAAAATTCTTAACATA
55141134 ATTATTATT-ATATGAA-TTAA-AAATCATAATATATAATACT-ATAAAA
1 ATTATTATTAATAT-AATTTAATAAA--ATAATATATAAT-CTAATAAAA
55141180 ATAATATATA
Statistics
Matches: 92, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
55 3 0.03
56 8 0.09
57 42 0.46
58 39 0.42
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (57 bp):
ATTATTATTAATATAATTTAATAAAATAATATATAATCTAATAAAATTCTTAACATA
Found at i:55145408 original size:21 final size:21
Alignment explanation
Indices: 55145378--55145423 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
55145368 ACATATAAAG
* *
55145378 AAAAACTTATAATTATTTTTT
1 AAAAACTTATAATAAATTTTT
* *
55145399 AAAAATTTATTATAAATTTTT
1 AAAAACTTATAATAAATTTTT
55145420 AAAA
1 AAAA
55145424 TCAGAATAGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
AAAAACTTATAATAAATTTTT
Found at i:55146362 original size:46 final size:45
Alignment explanation
Indices: 55146295--55146460 Score: 185
Period size: 46 Copynumber: 3.6 Consensus size: 45
55146285 CGCCCCTAAG
* *
55146295 TGAACTCAGACTCAACTCAACGAGCTCGGGCATTTGCATCCAGAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA-AAA
* *
55146341 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC---A
1 TGAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCATC-CAAAA
* * *
55146388 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA-AAA
55146434 TGAACTCGGACTCAACTCAACGAGTTC
1 TGAACTCGGACTCAACTCAACGAGTTC
55146461 AGATGCTCAA
Statistics
Matches: 101, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 1 0.01
43 7 0.07
44 1 0.01
46 53 0.52
47 29 0.29
48 1 0.01
49 1 0.01
50 7 0.07
51 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCAAAA
Found at i:55146410 original size:93 final size:93
Alignment explanation
Indices: 55146296--55146466 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
55146286 GCCCCTAAGT
*
55146296 GAACTCAGACTCAACTCAACGAGCTCGGGCATTTGCATCCAGAAATGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTTGCATCCAGAAATGAACTCGGACTCAACTCAA
*
55146361 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
* * * *
55146389 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTTGCATCCAGAAATGAACTCGGACTCAACTCAA
55146454 CGAGTTCAGATGC
66 CGAGTTCAGATGC
55146467 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTTGCATCCAGAAATGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:55146482 original size:46 final size:45
Alignment explanation
Indices: 55146341--55146482 Score: 114
Period size: 46 Copynumber: 3.1 Consensus size: 45
55146331 CATCCAGAAA
*
55146341 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCAGATGCTC-A---ACCATCT-AG
* * * * *
55146388 CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTC--AGATGCT-CAACCATCTAG
55146434 TGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCAT-CTAG
55146480 TGA
1 TGA
55146483 CATGTCACTT
Statistics
Matches: 75, Mismatches: 11, Indels: 19
0.71 0.10 0.18
Matches are distributed among these distances:
44 9 0.12
45 2 0.03
46 31 0.41
47 29 0.39
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCAGATGCTCAACCATCTAG
Found at i:55149653 original size:28 final size:28
Alignment explanation
Indices: 55149621--55149689 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
55149611 GCGTAGATCA
55149621 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
55149649 CGAAATTATCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
55149677 CGATA-TACCCCTA
1 CGAAATTACCCCTA
55149690 GGGTTTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 7 0.18
28 31 0.82
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:55154131 original size:55 final size:54
Alignment explanation
Indices: 55154005--55154190 Score: 191
Period size: 55 Copynumber: 3.4 Consensus size: 54
55153995 ATACCATTGA
** * *
55154005 CATGTCTTGACATGGTCTTATGTGGTATCC-TTGCCTTAT-GAACTCACCAATGT
1 CATGTCTTGACATGGTCTTACATGGTA-CCTTTGCCTTATAGAACTCATCAATGC
* * *
55154058 CATG-CATTGGCATAGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAATGC
1 CATGTC-TTGACATGGTCTTACATGGTACCTTTGCCTTATAG-AACTCATCAATGC
* * *
55154113 CATGTCTTGACATGGTCTTACATGATTTCCTTT-CCTTATAGAACTTATCAATGC
1 CATGTCTTGACATGGTCTTACATG-GTACCTTTGCCTTATAGAACTCATCAATGC
* * *
55154167 CCTGCCTTGGCATGGTCTTACATG
1 CATGTCTTGACATGGTCTTACATG
55154191 ATATCCTTAT
Statistics
Matches: 111, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
52 3 0.03
53 29 0.26
54 34 0.31
55 39 0.35
56 6 0.05
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.37
Consensus pattern (54 bp):
CATGTCTTGACATGGTCTTACATGGTACCTTTGCCTTATAGAACTCATCAATGC
Found at i:55154185 original size:54 final size:54
Alignment explanation
Indices: 55154005--55154198 Score: 203
Period size: 54 Copynumber: 3.6 Consensus size: 54
55153995 ATACCATTGA
* * ** * * * *
55154005 CATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTAT-GAACTCACCAATGT
1 CATGCCTTGGCATGGTCTTACATGATATCCTTTCCTTATAGAACTCATCAATGC
* * **
55154058 CATGCATTGGCATAGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCAATGC
1 CATGCCTTGGCATGGTCTTACATGATATCCTTT-CCTTATAG-AACTCATCAATGC
* * * *
55154113 CATGTCTTGACATGGTCTTACATGATTTCCTTTCCTTATAGAACTTATCAATGC
1 CATGCCTTGGCATGGTCTTACATGATATCCTTTCCTTATAGAACTCATCAATGC
*
55154167 CCTGCCTTGGCATGGTCTTACATGATATCCTT
1 CATGCCTTGGCATGGTCTTACATGATATCCTT
55154199 ATCTTACCAA
Statistics
Matches: 115, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
52 4 0.03
53 26 0.23
54 41 0.36
55 39 0.34
56 5 0.04
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (54 bp):
CATGCCTTGGCATGGTCTTACATGATATCCTTTCCTTATAGAACTCATCAATGC
Found at i:55154230 original size:47 final size:47
Alignment explanation
Indices: 55154177--55154298 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
55154167 CCTGCCTTGG
* * *
55154177 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGATCCAAA
* *
55154224 CATGGTCTTACATGGTATCCTTGTCTTACCAAATTCTATGATCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGATCCAAA
55154271 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
55154299 ATGCCAATGT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGATCCAAA
Found at i:55168055 original size:48 final size:48
Alignment explanation
Indices: 55167986--55168102 Score: 180
Period size: 48 Copynumber: 2.4 Consensus size: 48
55167976 TAGGGTTATG
*
55167986 TGTGATCCTATGTAAGACCATGTCTAGGACATGGCATTGGCATTGATA
1 TGTGATCCTATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATA
* * *
55168034 TGTGATCCCATGTAAGACCATGTCTGGGACGTGGCATTGGCATCGATA
1 TGTGATCCTATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATA
* *
55168082 TTTGATCCTATGCAAGACCAT
1 TGTGATCCTATGTAAGACCAT
55168103 ATGGCATTGA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 62 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.30
Consensus pattern (48 bp):
TGTGATCCTATGTAAGACCATGTCTAGGACATGGCATTGGCATCGATA
Found at i:55171603 original size:49 final size:49
Alignment explanation
Indices: 55171514--55171608 Score: 145
Period size: 49 Copynumber: 1.9 Consensus size: 49
55171504 TCTATTGTGA
* * *
55171514 GGTCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* *
55171563 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
55171609 GGTTTGGCTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
Found at i:55172504 original size:22 final size:21
Alignment explanation
Indices: 55172476--55172533 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
55172466 ATGCAATCTT
* *
55172476 AGATATGATATGTAATCTTAG
1 AGATATGATTTGTAATCCTAG
55172497 AAGATATGATTTTGTAATCCTAG
1 -AGATATGA-TTTGTAATCCTAG
*
55172520 AGATTTGATTTGTA
1 AGATATGATTTGTA
55172534 GATACCCTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.19
22 15 0.47
23 11 0.34
ACGTcount: A:0.34, C:0.05, G:0.19, T:0.41
Consensus pattern (21 bp):
AGATATGATTTGTAATCCTAG
Found at i:55172731 original size:74 final size:74
Alignment explanation
Indices: 55172648--55172795 Score: 269
Period size: 74 Copynumber: 2.0 Consensus size: 74
55172638 TTTTTTTTTG
* *
55172648 AACAATAAGAATTCTTGAGAGCATTCACTCAAATTTCTCTCTCTCTTTTGTGTTCTTATTTTCTG
1 AACAATAAGAATTATTGAGAGCATTCACTCAAATTTCTCTCTCTCTCTTGTGTTCTTATTTTCTG
55172713 TGGCTTGTT
66 TGGCTTGTT
*
55172722 AACAATAAGAATTATTGAGAGCATTCACTCGAATTTCTCTCTCTCTCTTGTGTTCTTATTTTCTG
1 AACAATAAGAATTATTGAGAGCATTCACTCAAATTTCTCTCTCTCTCTTGTGTTCTTATTTTCTG
55172787 TGGCTTGTT
66 TGGCTTGTT
55172796 CTTGTCTCGT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.45
Consensus pattern (74 bp):
AACAATAAGAATTATTGAGAGCATTCACTCAAATTTCTCTCTCTCTCTTGTGTTCTTATTTTCTG
TGGCTTGTT
Found at i:55177720 original size:22 final size:22
Alignment explanation
Indices: 55177673--55177717 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
55177663 ATGCAATCTT
*
55177673 AGATATGATATGTAATATTAGA
1 AGATATGATATGTAATATCAGA
* *
55177695 AGATATGATTTTGTAATCTCAGA
1 AGATATGA-TATGTAATATCAGA
55177718 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (22 bp):
AGATATGATATGTAATATCAGA
Found at i:55178458 original size:36 final size:36
Alignment explanation
Indices: 55178418--55178492 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
55178408 GAATTATCAA
*
55178418 GTGAGTGGTATGTATAGGGACCTAGTTTTATAACAT
1 GTGAGTGGCATGTATAGGGACCTAGTTTTATAACAT
*
55178454 GTGAGTGGCATGTGTAGGGACCTAGTTTTATAACAT
1 GTGAGTGGCATGTATAGGGACCTAGTTTTATAACAT
55178490 GTG
1 GTG
55178493 TTATTATAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.25, C:0.09, G:0.31, T:0.35
Consensus pattern (36 bp):
GTGAGTGGCATGTATAGGGACCTAGTTTTATAACAT
Found at i:55184275 original size:48 final size:47
Alignment explanation
Indices: 55184220--55184362 Score: 214
Period size: 48 Copynumber: 3.0 Consensus size: 47
55184210 GGGTTATGTG
* * *
55184220 TGATCCCATGTAAAACCATGTCTGGGACATGACATTAGCATCGATAT
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATAT
55184267 ATGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATAGT
1 -TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA-T
* * *
55184316 TGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATAGATAT
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATAT
55184363 GAGACATCGT
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
47 1 0.01
48 86 0.98
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (47 bp):
TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATAT
Found at i:55184376 original size:48 final size:47
Alignment explanation
Indices: 55184219--55184383 Score: 161
Period size: 48 Copynumber: 3.4 Consensus size: 47
55184209 AGGGTTATGT
* * * * * *
55184219 GTGATCCCATGTAAAACCATGTCTGGGACATGACATTAGCATCGATA
1 GTGAACCCATGTAAGACCATATCTGGGACATGGCATTGGCATAGATA
* * * *
55184266 TATGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
1 -GTGAACCCATGTAAGACCATATCTGGGACATGGCATTGGCATAGATA
* *
55184314 GTTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATAGATA
1 G-TGAACCCATGTAAGACCATATCTGGGACATGGCATTGGCATAGATA
* *
55184362 -TGAGACATCGTGTAAGACCATA
1 GTGA-AC-CCATGTAAGACCATA
55184384 GTTGGGCTAT
Statistics
Matches: 103, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
46 3 0.03
47 1 0.01
48 99 0.96
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (47 bp):
GTGAACCCATGTAAGACCATATCTGGGACATGGCATTGGCATAGATA
Found at i:55186457 original size:29 final size:30
Alignment explanation
Indices: 55186415--55186505 Score: 111
Period size: 29 Copynumber: 3.2 Consensus size: 30
55186405 ACATGGCTTG
*
55186415 GAAT-TGATTCGGGCC-AGATGGGCCATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
*
55186443 GAATGTGATTTGGGCCTA-ATGGGCAATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
*
55186472 GAATGAGA-TTGGGCCTAG-TGGGCCATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
*
55186500 GCATGT
1 GAATGT
55186506 ATGTAGAATT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
28 26 0.48
29 27 0.50
30 1 0.02
ACGTcount: A:0.25, C:0.14, G:0.33, T:0.27
Consensus pattern (30 bp):
GAATGTGATTTGGGCCTAGATGGGCCATAT
Found at i:55191130 original size:68 final size:67
Alignment explanation
Indices: 55191058--55191207 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
55191048 CATCATGTGT
* * * *
55191058 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
55191120 ATGTAG
62 ATGTAG
** * *
55191126 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
55191191 AG
66 AG
55191193 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
55191208 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:55191163 original size:64 final size:64
Alignment explanation
Indices: 55191082--55191265 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
55191072 AGACATTATG
* *
55191082 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
55191146 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
55191211 AA
63 AA
* * * *
55191213 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
55191266 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:55195563 original size:68 final size:67
Alignment explanation
Indices: 55195491--55195640 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
55195481 CATCATGTGT
* * * *
55195491 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
55195553 ATGTAG
62 ATGTAG
** * *
55195559 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
55195624 AG
66 AG
55195626 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
55195641 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:55195596 original size:64 final size:64
Alignment explanation
Indices: 55195515--55195698 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
55195505 AGACATTATG
* *
55195515 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
55195579 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
55195644 AA
63 AA
* * * *
55195646 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
55195699 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:55200610 original size:2 final size:2
Alignment explanation
Indices: 55200603--55200627 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
55200593 TCATGACATG
55200603 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 T
55200628 GACTAGTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:55202108 original size:13 final size:13
Alignment explanation
Indices: 55202086--55202115 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
55202076 GTTAAAAACG
*
55202086 TAATTTAGTAAAA
1 TAATTAAGTAAAA
55202099 TAATTAAGTAAAA
1 TAATTAAGTAAAA
55202112 TAAT
1 TAAT
55202116 AAAACAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (13 bp):
TAATTAAGTAAAA
Found at i:55205258 original size:139 final size:139
Alignment explanation
Indices: 55205003--55205279 Score: 396
Period size: 139 Copynumber: 2.0 Consensus size: 139
55204993 TTTAGATGTG
* *
55205003 GCTCACAAGATCATTTCATTAGGGATTATCCTGAGTTTCCCGAGAAAGACAAATATTAGAATACA
1 GCTCACAAGATCATTTCATTAGGGATTATCCTGAGTTACCCAAGAAAGACAAATATTAGAATACA
* *
55205068 AGGCCAAGTAATACATCTATCAGAGGAAGACCACCTAGAAATACGAAAAATGGGACTAGTAGCAG
66 AGGCCAAGTAATACAGCTATCAGAGGAAGACCACCTAGAAATACGAAAAATGGGACTAGTAGCAA
55205133 AGGTGCGAT
131 AGGTGCGAT
* * *
55205142 GCTCACAAGATCATTTCATTCGGGATTCTCCT-AGGTTACCCAAGAAAGACTAATATCTA-AATA
1 GCTCACAAGATCATTTCATTAGGGATTATCCTGA-GTTACCCAAGAAAGACAAATAT-TAGAATA
* * * * * * *
55205205 CAATGCCAAGTAATATAGCTATCAGAGGGAGACTACCTATAAATACGAGAAATGTGACTAGTAGC
64 CAAGGCCAAGTAATACAGCTATCAGAGGAAGACCACCTAGAAATACGAAAAATGGGACTAGTAGC
55205270 AAAGGTGCGA
129 AAAGGTGCGA
55205280 CAAAGGATTC
Statistics
Matches: 122, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
138 1 0.01
139 119 0.98
140 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (139 bp):
GCTCACAAGATCATTTCATTAGGGATTATCCTGAGTTACCCAAGAAAGACAAATATTAGAATACA
AGGCCAAGTAATACAGCTATCAGAGGAAGACCACCTAGAAATACGAAAAATGGGACTAGTAGCAA
AGGTGCGAT
Found at i:55207557 original size:21 final size:20
Alignment explanation
Indices: 55207527--55207567 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
55207517 GATATCCAGC
55207527 CCCGTCCAACCAATACACCA
1 CCCGTCCAACCAATACACCA
55207547 CCCGTACCAACCAATACACCA
1 CCCGT-CCAACCAATACACCA
55207568 TGTGGGGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.37, C:0.49, G:0.05, T:0.10
Consensus pattern (20 bp):
CCCGTCCAACCAATACACCA
Found at i:55208035 original size:17 final size:19
Alignment explanation
Indices: 55208005--55208044 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
55207995 TGAATCTAAT
*
55208005 CCATATGGGGCCAC-CAGC
1 CCATATGGGCCCACACAGC
55208023 CCAT-TGGGCCCACACAGC
1 CCATATGGGCCCACACAGC
55208041 CCAT
1 CCAT
55208045 CTAGGCCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.23, C:0.42, G:0.23, T:0.12
Consensus pattern (19 bp):
CCATATGGGCCCACACAGC
Found at i:55220137 original size:37 final size:37
Alignment explanation
Indices: 55220080--55220182 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
55220070 CGAATAGTCC
*
55220080 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* *
55220117 CCACACGTAGTCATCAGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
55220154 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
55220183 ATATATTTCC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:55220391 original size:48 final size:48
Alignment explanation
Indices: 55220323--55220563 Score: 421
Period size: 48 Copynumber: 5.0 Consensus size: 48
55220313 ATATACACAC
*
55220323 ATCTCCTACAT-TTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
55220370 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
55220418 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
55220466 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
55220514 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
55220562 AT
1 AT
55220564 ATTTATCTTG
Statistics
Matches: 186, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
47 10 0.05
48 176 0.95
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:55224177 original size:57 final size:57
Alignment explanation
Indices: 55224105--55224262 Score: 228
Period size: 56 Copynumber: 2.8 Consensus size: 57
55224095 TGACTGATTT
* * *
55224105 GCACACATAGCGCTCGATTAAAGAACTCGCACACATAGTGCCTCAATTACCAATCTC
1 GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATCTC
** *
55224162 GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTG-CTCAACTACTGATCTG
1 GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATCTC
* * *
55224218 GCACACATAGTGCTCGGTTGAAGAACTTGCACACACAGTGCCTCA
1 GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCA
55224263 TAACTCCAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
56 49 0.54
57 42 0.46
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (57 bp):
GCACACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACCAATCTC
Found at i:55224199 original size:28 final size:27
Alignment explanation
Indices: 55224105--55224258 Score: 146
Period size: 28 Copynumber: 5.5 Consensus size: 27
55224095 TGACTGATTT
*
55224105 GCACACATAGCGCTCGATTAAAGAACTC
1 GCACACATAGTGCTCGATT-AAGAACTC
* **
55224133 GCACACATAGTGCCTCAATTACCAATCTC
1 GCACACATAGTG-CTCGATTAAGAA-CTC
55224162 GCACACATAGTGCTCGATTGAAGAACTC
1 GCACACATAGTGCTCGATT-AAGAACTC
* * * * *
55224190 GCACACATAGTGCTCAACTACTGATCTG
1 GCACACATAGTGCTCGATTA-AGAACTC
* *
55224218 GCACACATAGTGCTCGGTTGAAGAACTT
1 GCACACATAGTGCTCGATT-AAGAACTC
*
55224246 GCACACACAGTGC
1 GCACACATAGTGC
55224259 CTCATAACTC
Statistics
Matches: 102, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
27 1 0.01
28 76 0.75
29 25 0.25
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (27 bp):
GCACACATAGTGCTCGATTAAGAACTC
Found at i:55224334 original size:40 final size:40
Alignment explanation
Indices: 55224290--55224501 Score: 388
Period size: 40 Copynumber: 5.3 Consensus size: 40
55224280 CCTTCGAGGT
*
55224290 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
55224330 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCAGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
55224370 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
55224410 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
55224450 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
55224490 TTAGCCCGGATA
1 TTAGCCCGGATA
55224502 TATATAACTC
Statistics
Matches: 167, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 167 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
Found at i:55228866 original size:14 final size:14
Alignment explanation
Indices: 55228847--55228878 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
55228837 GATGTGAAAA
55228847 ATGTATGAAAATGT
1 ATGTATGAAAATGT
55228861 ATGTATGAAAATGT
1 ATGTATGAAAATGT
55228875 ATGT
1 ATGT
55228879 TTGTTTAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (14 bp):
ATGTATGAAAATGT
Found at i:55237243 original size:40 final size:40
Alignment explanation
Indices: 55237148--55237278 Score: 185
Period size: 40 Copynumber: 3.3 Consensus size: 40
55237138 GGACTATGAT
* *
55237148 CCGAAGGCATTCGTGCGAGTTACTAATTCCGGGCTAAGT-
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTC
* *
55237187 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTC
* *
55237227 CCGAAGGCATTTGTGCGATTTACTATAA-CCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTC
55237267 CCGAAGGCATTT
1 CCGAAGGCATTT
55237279 AAACGAGTAG
Statistics
Matches: 83, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 36 0.43
40 45 0.54
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTC
Found at i:55237301 original size:79 final size:79
Alignment explanation
Indices: 55237148--55237312 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
55237138 GGACTATGAT
* ***
55237148 CCGAAGGCATTCGTGCGAGTTACTAATTCCGGGCTAAGTCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTCGTGCGAGTTACTAATACCGGGCTAAGTCCGAAGGCATTGAAACGAGTTACTAA
*
55237213 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * * *
55237227 CCGAAGGCATTTGTGCGATTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTAAACGAG-TAGC
1 CCGAAGGCATTCGTGCGAGTTACTAAT-ACCGGGCTAAGT-CCGAAGGCATTGAAACGAGTTA-C
* *
55237290 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
55237306 CCGAAGG
1 CCGAAGG
55237313 TACGTGATTC
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.67
80 22 0.31
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGTTACTAATACCGGGCTAAGTCCGAAGGCATTGAAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:55238751 original size:2 final size:2
Alignment explanation
Indices: 55238744--55238775 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
55238734 TACAGCTTAG
55238744 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
55238776 GAATGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:55239137 original size:123 final size:123
Alignment explanation
Indices: 55238911--55239143 Score: 274
Period size: 123 Copynumber: 1.9 Consensus size: 123
55238901 GTTGTAATAG
* * * *
55238911 CCCTAATTTGACCCTGGTCGGAAAGTGGTTTCAGGACCACAAAATCGAGTCACAAAATTATATAA
1 CCCTAATGTGACCCTAGTCGGAAAGTGGTTTCAGGACCACAAAACCGAGTCACAAAAATATATAA
* * * * *
55238976 ATTTTCTTTTCTATGTTTATTATATGTAAAGTTTCATGTATGAAAGTATCTGTGACAC
66 ACTGTCTTTTCGATGCTTATTATATGTAAAGTTGCATGTATGAAAGTATCTGTGACAC
* * * *
55239034 CCCTAATGTGACCCTAGTCGGGAAGTGGTTTCGGGACCACAAAACCGAGTCATAAAAATA-ATTA
1 CCCTAATGTGACCCTAGTCGGAAAGTGGTTTCAGGACCACAAAACCGAGTCACAAAAATATATAA
* * *
55239098 GCTGTCATATTT-GATGCTTATTATATGTATA-TATGCATGTGTGAAA
66 ACTGTC-T-TTTCGATGCTTATTATATGTAAAGT-TGCATGTATGAAA
55239144 ATTTCATATT
Statistics
Matches: 91, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
122 7 0.08
123 81 0.89
124 3 0.03
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.33
Consensus pattern (123 bp):
CCCTAATGTGACCCTAGTCGGAAAGTGGTTTCAGGACCACAAAACCGAGTCACAAAAATATATAA
ACTGTCTTTTCGATGCTTATTATATGTAAAGTTGCATGTATGAAAGTATCTGTGACAC
Found at i:55241818 original size:96 final size:96
Alignment explanation
Indices: 55241712--55242012 Score: 489
Period size: 96 Copynumber: 3.2 Consensus size: 96
55241702 GTATGAGATA
55241712 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
55241777 CCTAATGGCCGATGTGATGAATGTGAAAGTG
66 CCTAATGGCCGATGTGATGAATGTGAAAGTG
55241808 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
*
55241873 CCTAATGGCCGATGTGATGAATGTGAAGGTG
66 CCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
55241904 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA--GTGTATATATGTGATAGGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
* * * * * *
55241967 CCGAGTGGCCAACGTGATGGATGTGGAAGTG
66 CCTAATGGCCGATGTGATGAATGTGAAAGTG
*
55241998 TATAAATGTGATAAG
1 TATATATGTGATAAG
55242013 TCCCGAAGGG
Statistics
Matches: 193, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
94 56 0.29
96 137 0.71
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (96 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
CCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:55241827 original size:47 final size:47
Alignment explanation
Indices: 55241712--55242012 Score: 467
Period size: 47 Copynumber: 6.3 Consensus size: 47
55241702 GTATGAGATA
55241712 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTG
55241761 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
55241808 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTG
*
55241857 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
55241904 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
55241951 TATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGGAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
55241998 TATAAATGTGATAAG
1 TATATATGTGATAAG
55242013 TCCCGAAGGG
Statistics
Matches: 239, Mismatches: 11, Indels: 6
0.93 0.04 0.02
Matches are distributed among these distances:
47 149 0.62
49 90 0.38
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:55246472 original size:22 final size:22
Alignment explanation
Indices: 55246447--55246569 Score: 67
Period size: 22 Copynumber: 5.3 Consensus size: 22
55246437 ACATGCATAT
55246447 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* *
55246469 ATGTGATGAATG-TGAACAT-G-CA
1 ATGTGAT-AAGGCCG-A-ATGGCCA
55246491 TATACGTGATAAGGCCGAATGGCCA
1 -AT--GTGATAAGGCCGAATGGCCA
* * *
55246516 ATGTGATGAATG-TGAACTTG-CA
1 ATGTGAT-AAGGCCGAA-TGGCCA
55246538 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
55246563 ATGTGAT
1 ATGTGAT
55246570 GAACTTGCAT
Statistics
Matches: 75, Mismatches: 10, Indels: 32
0.64 0.09 0.27
Matches are distributed among these distances:
22 26 0.35
23 15 0.20
24 15 0.20
25 19 0.25
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:55246477 original size:47 final size:47
Alignment explanation
Indices: 55246426--55246747 Score: 442
Period size: 47 Copynumber: 7.0 Consensus size: 47
55246416 GATTTTATGA
55246426 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
55246473 GATGAATGTGAACATGCATATACGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
55246520 GATGAATGTGAACTTGCATATGTGTGATAAGGCCGAATGGCCAA--T
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* * **
55246565 G-TG-A--TGAACTTGCATATGTGTGGGAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
55246608 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
**
55246655 GATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* * * ** * *
55246702 GATGAACGTGGAA-GTGTATATATGTGGCAAAGCCGAATGGCTAATG
1 GATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCAATG
55246748 CGAAACGTGT
Statistics
Matches: 247, Mismatches: 21, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
41 34 0.14
43 3 0.01
44 4 0.02
45 3 0.01
47 200 0.81
48 3 0.01
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.25
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:55246596 original size:135 final size:135
Alignment explanation
Indices: 55246434--55246708 Score: 469
Period size: 135 Copynumber: 2.0 Consensus size: 135
55246424 GAGATGAATG
*
55246434 TGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATACGTG
1 TGAACATGCATATATGTGAGAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATACGTG
* * *
55246499 ATAAGGCCGAATGGCCAATGTGATGAATGTGAACTTGCATATGTGTGATAAGGCCGAATGGCCAA
66 ATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAA
55246564 TGTGA
131 TGTGA
* * * *
55246569 TGAACTTGCATATGTGTGGGAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTG
1 TGAACATGCATATATGTGAGAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATACGTG
*
55246634 ATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCAA
66 ATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAA
55246699 TGTGA
131 TGTGA
55246704 TGAAC
1 TGAAC
55246709 GTGGAAGTGT
Statistics
Matches: 131, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
135 131 1.00
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (135 bp):
TGAACATGCATATATGTGAGAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATACGTG
ATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAA
TGTGA
Found at i:55246945 original size:46 final size:46
Alignment explanation
Indices: 55246721--55246931 Score: 359
Period size: 46 Copynumber: 4.6 Consensus size: 46
55246711 GGAAGTGTAT
* *
55246721 ATATGTGGCAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
55246767 ATATGAGGTAAAGCCTAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
55246813 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACATGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
* *
55246859 ATATGAGGTAAAGTCGAATGGCTAATGCGAAAGGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
55246905 ATATGAGGTAAAGCCAAATGGCTAATG
1 ATATGAGGTAAAGCCGAATGGCTAATG
55246932 TGAGATATGT
Statistics
Matches: 155, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 155 1.00
ACGTcount: A:0.36, C:0.10, G:0.31, T:0.23
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:55249491 original size:24 final size:21
Alignment explanation
Indices: 55249464--55249525 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 21
55249454 TCTTCTCACA
55249464 TTCTTTTTCACTCTCGATCTCTTT
1 TTCTTTTTCACTCT---TCTCTTT
55249488 TTCTTTTT--C-CTTCTCTTT
1 TTCTTTTTCACTCTTCTCTTT
55249506 TTCTTTTTCACT-TTCT-TTT
1 TTCTTTTTCACTCTTCTCTTT
55249525 T
1 T
55249526 AAATTTTCTC
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
18 15 0.43
19 4 0.11
20 5 0.14
21 2 0.06
22 1 0.03
24 8 0.23
ACGTcount: A:0.05, C:0.26, G:0.02, T:0.68
Consensus pattern (21 bp):
TTCTTTTTCACTCTTCTCTTT
Found at i:55249492 original size:6 final size:6
Alignment explanation
Indices: 55249483--55249525 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
55249473 ACTCTCGATC
* * **
55249483 TCTTTT TCTTTT TCCTTC TCTTTT TCTTTT TCACTT TCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT T
55249526 AAATTTTCTC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.74
Consensus pattern (6 bp):
TCTTTT
Found at i:55249502 original size:18 final size:19
Alignment explanation
Indices: 55249481--55249525 Score: 76
Period size: 18 Copynumber: 2.5 Consensus size: 19
55249471 TCACTCTCGA
55249481 TCTCTTTTTCTTTTTC-CT
1 TCTCTTTTTCTTTTTCACT
55249499 TCTCTTTTTCTTTTTCACT
1 TCTCTTTTTCTTTTTCACT
55249518 T-TCTTTTT
1 TCTCTTTTT
55249526 AAATTTTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 23 0.88
19 3 0.12
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (19 bp):
TCTCTTTTTCTTTTTCACT
Found at i:55249588 original size:21 final size:19
Alignment explanation
Indices: 55249550--55249618 Score: 68
Period size: 21 Copynumber: 3.5 Consensus size: 19
55249540 CGATCAATTT
*
55249550 TTTTTC-TTTTTCAATTTC
1 TTTTTCTTTTTTCACTTTC
55249568 GTTTTTCTTTTTCTCACTTTC
1 -TTTTTCTTTTT-TCACTTTC
**
55249589 TTTTTGCTTTTTTTCACACTC
1 TTTTT-C-TTTTTTCACTTTC
55249610 TTTTTCTTT
1 TTTTTCTTT
55249619 CATTTCTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
19 9 0.21
20 10 0.23
21 19 0.44
22 5 0.12
ACGTcount: A:0.07, C:0.20, G:0.03, T:0.70
Consensus pattern (19 bp):
TTTTTCTTTTTTCACTTTC
Found at i:55252137 original size:10 final size:10
Alignment explanation
Indices: 55252124--55252158 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
55252114 AAGCTCGGTT
55252124 GAGCTCAAAC
1 GAGCTCAAAC
*
55252134 GAGCTGAAAC
1 GAGCTCAAAC
*
55252144 GAGCTCAAAT
1 GAGCTCAAAC
55252154 GAGCT
1 GAGCT
55252159 GAGTTGAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.37, C:0.23, G:0.26, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:55252167 original size:20 final size:20
Alignment explanation
Indices: 55252121--55252168 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
55252111 TGTAAGCTCG
55252121 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
*** *
55252141 AACGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
55252161 GTTGAGCT
1 GTTGAGCT
55252169 GGACAGAGCT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:55254974 original size:28 final size:28
Alignment explanation
Indices: 55254942--55255040 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
55254932 GCAATAAGCC
*
55254942 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
55254970 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
55254998 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
55255027 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55255041 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:55262657 original size:28 final size:28
Alignment explanation
Indices: 55262625--55262723 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
55262615 GCAATAAGCC
*
55262625 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
55262653 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
55262681 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
55262710 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55262724 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:55265513 original size:37 final size:37
Alignment explanation
Indices: 55265459--55265534 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
55265449 ACTAACAAAG
*
55265459 TCCATAGTGATCCTTTCCCACTTCTAGAGTGGAATCT
1 TCCATAGTGATCATTTCCCACTTCTAGAGTGGAATCT
55265496 TCCATAGTGATCATTTCCCACTTCTAGAGTGGAATCT
1 TCCATAGTGATCATTTCCCACTTCTAGAGTGGAATCT
55265533 TC
1 TC
55265535 ACTGGCTGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (37 bp):
TCCATAGTGATCATTTCCCACTTCTAGAGTGGAATCT
Found at i:55276091 original size:27 final size:27
Alignment explanation
Indices: 55275985--55276097 Score: 106
Period size: 27 Copynumber: 4.2 Consensus size: 27
55275975 AGCATGGCTG
* *
55275985 CCAGAACAGATA-TTGT-GACAGAGTCA
1 CCAGATCAGATATTTGTAG-CAGAGCCA
*
55276011 CCAGATACAGATA-TTGTGGCAGAGCCA
1 CCAGAT-CAGATATTTGTAGCAGAGCCA
* * *
55276038 CCAGAAGCAAATATTTGTAGGAGAGCCA
1 CCAG-ATCAGATATTTGTAGCAGAGCCA
* *
55276066 CCAGATCAGATATTTATAGCAAAGCCA
1 CCAGATCAGATATTTGTAGCAGAGCCA
55276093 CCAGA
1 CCAGA
55276098 ATGTTTCCTC
Statistics
Matches: 72, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 5 0.07
27 49 0.68
28 18 0.25
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (27 bp):
CCAGATCAGATATTTGTAGCAGAGCCA
Found at i:55282103 original size:40 final size:40
Alignment explanation
Indices: 55282044--55282185 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
55282034 AAATTGAATG
* * *
55282044 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
55282084 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
55282124 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
55282164 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
55282186 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:55282186 original size:40 final size:39
Alignment explanation
Indices: 55282083--55282211 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
55282073 TGCTGGAAAT
* * *
55282083 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
55282123 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
55282163 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
55282203 TATATCCGG
1 TATATCCGG
55282212 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:55285570 original size:40 final size:40
Alignment explanation
Indices: 55285462--55285631 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
55285452 CGGGATTTAA
* * * * *
55285462 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
55285502 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
55285542 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
55285582 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
55285622 CCGGATATAT
1 CCGGATATAT
55285632 TTCCAATGTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 112 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:55293666 original size:40 final size:40
Alignment explanation
Indices: 55293558--55293767 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
55293548 CGGGATTTAA
* * * * *
55293558 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
55293598 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
55293638 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
55293678 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
55293718 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
55293758 CCGGATATAT
1 CCGGATATAT
55293768 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:55301493 original size:30 final size:31
Alignment explanation
Indices: 55301415--55301493 Score: 92
Period size: 30 Copynumber: 2.6 Consensus size: 31
55301405 CATAGTACCG
* *
55301415 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCCTGGATCTCTC
* *
55301445 TAT-TCTGGATTTCTTTATTCC-GGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCTGGATCTCTC
55301475 TATCTTGGATTTCTTTATT
1 TATCTTGGATTTCTTTATT
55301494 TGGTTTTCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
29 1 0.02
30 37 0.88
31 4 0.10
ACGTcount: A:0.11, C:0.18, G:0.15, T:0.56
Consensus pattern (31 bp):
TATCTTGGATTTCTTTATTCCTGGATCTCTC
Found at i:55301501 original size:14 final size:15
Alignment explanation
Indices: 55301424--55301503 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
55301414 GTATCTTGGG
*
55301424 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
55301439 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
55301454 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
55301469 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
55301484 TTTCTTTATT-TGGT
1 TTTCTTTATTCTGGA
55301498 TTTCTT
1 TTTCTT
55301504 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 11 0.21
15 41 0.77
16 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.14, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:55303471 original size:46 final size:46
Alignment explanation
Indices: 55303421--55303593 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
55303411 TGGTTGAGCA
* * *
55303421 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* *
55303467 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTT-T-GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CG
* * *
55303514 TCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* *
55303560 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
55303594 GGGGTGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 3 0.03
46 59 0.55
47 28 0.26
48 3 0.03
49 1 0.01
50 6 0.06
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
Found at i:55303577 original size:93 final size:93
Alignment explanation
Indices: 55303418--55303588 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
55303408 GGATGGTTGA
* *
55303418 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
55303483 TGAGTCCGAGTTCGTTTGATGTAACTAG
66 TGAGTCCGAGTTCGTTTGATGTAACTAG
* ** *
55303511 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
55303576 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
55303589 ACTTAGGGGT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTTTGATGTAACTAG
Found at i:55308021 original size:28 final size:28
Alignment explanation
Indices: 55307973--55308040 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
55307963 TTTAAAACTC
* *
55307973 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCAGTAATTTTGCTCTT
55308000 TAGGGGTAATTTCAGTAATTTTGCTCTT
1 TAGGGGTAATTTCAGTAATTTTGCTCTT
55308028 TAGGGGTAATTTC
1 TAGGGGTAATTTC
55308041 GTGATCTACG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 7 0.18
28 31 0.82
ACGTcount: A:0.21, C:0.10, G:0.25, T:0.44
Consensus pattern (28 bp):
TAGGGGTAATTTCAGTAATTTTGCTCTT
Found at i:55318427 original size:27 final size:26
Alignment explanation
Indices: 55318382--55318494 Score: 77
Period size: 27 Copynumber: 4.2 Consensus size: 26
55318372 CCCTGTTTAG
* *
55318382 AATACTTTAGTTTACTAAAATTACCGA
1 AATACCTTAGTTT-GTAAAATTACCGA
* *
55318409 AATACGCTTAGTTTGTAAAAATACTGA
1 AATAC-CTTAGTTTGTAAAATTACCGA
* * *
55318436 AATACCCTCGATTTGTAAAATTACTG-
1 AATACCTTAG-TTTGTAAAATTACCGA
* * *
55318462 AGTACCTTCGACTTGTAAAATTACC-A
1 AATACCTTAG-TTTGTAAAATTACCGA
55318488 AAGTACC
1 AA-TACC
55318495 CCAATTTACA
Statistics
Matches: 70, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
26 25 0.36
27 38 0.54
28 7 0.10
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.33
Consensus pattern (26 bp):
AATACCTTAGTTTGTAAAATTACCGA
Found at i:55318467 original size:26 final size:27
Alignment explanation
Indices: 55318397--55318485 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 27
55318387 TTTAGTTTAC
* * *
55318397 TAAAATTACCGAAATACGCT-TAGTTTG
1 TAAAATTACTGAAATACCCTCGA-TTTG
*
55318424 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCCTCGATTTG
* * *
55318451 TAAAATTACTG-AGTACCTTCGACTTG
1 TAAAATTACTGAAATACCCTCGATTTG
55318477 TAAAATTAC
1 TAAAATTAC
55318486 CAAAGTACCC
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 21 0.40
27 31 0.58
28 1 0.02
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTCGATTTG
Found at i:55318509 original size:26 final size:26
Alignment explanation
Indices: 55318480--55318539 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
55318470 CGACTTGTAA
55318480 AATTACCAAAGTACCCCAATTTACAG
1 AATTACCAAAGTACCCCAATTTACAG
*** * *
55318506 AATTACCATTTTACCCCGATTTACAT
1 AATTACCAAAGTACCCCAATTTACAG
55318532 AATTACCA
1 AATTACCA
55318540 TTTTACCCCG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (26 bp):
AATTACCAAAGTACCCCAATTTACAG
Found at i:55318540 original size:26 final size:26
Alignment explanation
Indices: 55318491--55318555 Score: 103
Period size: 26 Copynumber: 2.5 Consensus size: 26
55318481 ATTACCAAAG
*
55318491 TACCCCAATTTACAGAATTACCATTT
1 TACCCCGATTTACAGAATTACCATTT
*
55318517 TACCCCGATTTACATAATTACCATTT
1 TACCCCGATTTACAGAATTACCATTT
*
55318543 TACCCCGTTTTAC
1 TACCCCGATTTAC
55318556 CCTCGACTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.29, C:0.29, G:0.05, T:0.37
Consensus pattern (26 bp):
TACCCCGATTTACAGAATTACCATTT
Found at i:55318573 original size:37 final size:36
Alignment explanation
Indices: 55318514--55318584 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 36
55318504 AGAATTACCA
* *
55318514 TTTTACCCCGATTTACATAATTACCATTTTACCCCG
1 TTTTACCCCGACTTACAAAATTACCATTTTACCCCG
*
55318550 TTTTACCCTCGACTTACAAAATTACCGTTTTACCC
1 TTTTACCC-CGACTTACAAAATTACCATTTTACCC
55318585 TCGATTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 8 0.26
37 23 0.74
ACGTcount: A:0.25, C:0.31, G:0.06, T:0.38
Consensus pattern (36 bp):
TTTTACCCCGACTTACAAAATTACCATTTTACCCCG
Found at i:55318683 original size:27 final size:27
Alignment explanation
Indices: 55318550--55318684 Score: 157
Period size: 27 Copynumber: 5.0 Consensus size: 27
55318540 TTTTACCCCG
* **
55318550 TTTTACCCTCGACTTACAAAATTACCG
1 TTTTACCCTCGATTTACAAAATTACTA
55318577 TTTTACCCTCGATTTA-AAGAATTA-TCA
1 TTTTACCCTCGATTTACAA-AATTACT-A
* * * *
55318604 TTTTATCGTCGATTTATAGAATTACTA
1 TTTTACCCTCGATTTACAAAATTACTA
* *
55318631 TTTTACCCTTGATTTACAGAATTACTA
1 TTTTACCCTCGATTTACAAAATTACTA
55318658 TTTTACCCTCGATTTACAAAATTACTA
1 TTTTACCCTCGATTTACAAAATTACTA
55318685 AAATACCATT
Statistics
Matches: 92, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.02
27 88 0.96
28 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.41
Consensus pattern (27 bp):
TTTTACCCTCGATTTACAAAATTACTA
Found at i:55318683 original size:54 final size:54
Alignment explanation
Indices: 55318550--55318684 Score: 173
Period size: 54 Copynumber: 2.5 Consensus size: 54
55318540 TTTTACCCCG
* **
55318550 TTTTACCCTCGACTTACAAAATTACCGTTTTACCCTCGATTTAAAGAATTATCA
1 TTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTAAAGAATTATCA
* * * * * *
55318604 TTTTATCGTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTA-CTA
1 TTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTAAAGAATTATC-A
55318658 TTTTACCCTCGATTTACAAAATTACTA
1 TTTTACCCTCGATTTACAAAATTACTA
55318685 AAATACCATT
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
53 1 0.01
54 66 0.99
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.41
Consensus pattern (54 bp):
TTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATTTAAAGAATTATCA
Found at i:55318691 original size:27 final size:27
Alignment explanation
Indices: 55318634--55318882 Score: 146
Period size: 27 Copynumber: 9.1 Consensus size: 27
55318624 ATTACTATTT
* * ***
55318634 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTTGATTTACAAAATTACCAAAA
* *
55318661 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* * **
55318688 TACCATTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* **
55318715 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTACAAAATTACCAAAA
* *** *
55318742 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGATTTACAAAATTACCAAAA
** **
55318769 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* *
55318796 TACCCCTGATTTACAAAGTTA-CAGAAA
1 TACCCTTGATTTACAAAATTACCA-AAA
*
55318823 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACCA-AAA
* * **
55318852 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACCAAAA
55318879 TACC
1 TACC
55318883 TTTGGTTTGT
Statistics
Matches: 179, Mismatches: 35, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
26 2 0.01
27 151 0.84
28 7 0.04
29 19 0.11
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACCAAAA
Found at i:55318746 original size:81 final size:80
Alignment explanation
Indices: 55318661--55318882 Score: 200
Period size: 81 Copynumber: 2.7 Consensus size: 80
55318651 ATTACTATTT
* *
55318661 TACCCTCGATTTACAAAATTACTAAAATACCATTGGTTTGTAAAATTACCAAAATACCCCTAGTT
1 TACCCTTGATTT-CAAAATTACTAAAATACCATTGGTTTGTAAAATTACCAAAATACCCCT-GAT
55318726 TGTA-AAA-TTACCA-AAA
64 T-TACAAAGTTA-CAGAAA
* ** ** * ***
55318742 TACCCTTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATT
1 TACCCTTGATTT-CAAAATTACTAAAATACCATTGGTTTGTAAAATTACCAAAATACCCCTGATT
55318807 TACAAAGTTACAGAAA
65 TACAAAGTTACAGAAA
** **
55318823 TACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACC
1 TACCCTTGA-TTTC--AAAATTACTA-AAATACCATTGGTTTGTAAAATTACCAAAATACC
55318883 TTTGGTTTGT
Statistics
Matches: 109, Mismatches: 25, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
79 2 0.02
80 8 0.07
81 64 0.59
82 3 0.03
83 32 0.29
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (80 bp):
TACCCTTGATTTCAAAATTACTAAAATACCATTGGTTTGTAAAATTACCAAAATACCCCTGATTT
ACAAAGTTACAGAAA
Found at i:55318800 original size:54 final size:54
Alignment explanation
Indices: 55318661--55318800 Score: 192
Period size: 54 Copynumber: 2.6 Consensus size: 54
55318651 ATTACTATTT
* ** * *
55318661 TACCCTCGATTTACAAAATTACTAAAATACCATTGGTTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * *
55318715 TACCC-CTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
55318769 TACCCTCAATTTGTAAAATTACCAAAATACCC
1 TACCCTCAATTTGTAAAATTACCAAAATACCC
55318801 CTGATTTACA
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 73 0.97
55 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
Found at i:55318887 original size:27 final size:27
Alignment explanation
Indices: 55318674--55318891 Score: 154
Period size: 27 Copynumber: 8.0 Consensus size: 27
55318664 CCTCGATTTA
* *
55318674 CAAAATTACTAAAATACCATTGGTTTG
1 CAAAATTACCAAAATACCCTTGGTTTG
* * *
55318701 TAAAATTACCAAAATACCCCTAGTTTG
1 CAAAATTACCAAAATACCCTTGGTTTG
*
55318728 TAAAATTACCAAAATACCCTTGGTTTG
1 CAAAATTACCAAAATACCCTTGGTTTG
** * ***
55318755 TGAAATTACCGAAATACCCTCAATTTG
1 CAAAATTACCAAAATACCCTTGGTTTG
* * * *
55318782 TAAAATTACCAAAATACCCCTGATTTA
1 CAAAATTACCAAAATACCCTTGGTTTG
* *
55318809 CAAAGTTA-CAGAAATACCCTTGACTTT-
1 CAAAATTACCA-AAATACCCTTG-GTTTG
* * *
55318836 CTAAAAATTA-TAGAAATACCATTGGTTTA
1 C--AAAATTACCA-AAATACCCTTGGTTTG
** *
55318865 CAAAATTACTGAAATACCTTTGGTTTG
1 CAAAATTACCAAAATACCCTTGGTTTG
55318892 TTGATTTACC
Statistics
Matches: 156, Mismatches: 29, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
26 2 0.01
27 128 0.82
28 7 0.04
29 19 0.12
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
CAAAATTACCAAAATACCCTTGGTTTG
Found at i:55320193 original size:25 final size:25
Alignment explanation
Indices: 55320164--55320211 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
55320154 TTATAACATG
* * *
55320164 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
55320189 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
55320212 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:55320314 original size:20 final size:20
Alignment explanation
Indices: 55320254--55320314 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
55320244 ATAAATATGG
*
55320254 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
55320274 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
*
55320294 TATGTACGATATGCACATGA
1 TATGTATGATATGCACATGA
55320314 T
1 T
55320315 GTAATCATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:55320391 original size:24 final size:24
Alignment explanation
Indices: 55320364--55320481 Score: 193
Period size: 24 Copynumber: 5.0 Consensus size: 24
55320354 GAGGAAGTGA
55320364 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
55320388 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
55320412 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
55320435 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
** *
55320459 GGAAGGGCTTTTGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
55320482 TAGAAGAGGC
Statistics
Matches: 90, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
23 23 0.26
24 67 0.74
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:55320457 original size:47 final size:48
Alignment explanation
Indices: 55320364--55320481 Score: 193
Period size: 47 Copynumber: 2.5 Consensus size: 48
55320354 GAGGAAGTGA
55320364 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
*
55320412 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
** *
55320459 GGAAGGGCTTTTGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
55320482 TAGAAGAGGC
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
47 43 0.65
48 23 0.35
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
Found at i:55320480 original size:71 final size:72
Alignment explanation
Indices: 55320364--55320507 Score: 202
Period size: 71 Copynumber: 2.0 Consensus size: 72
55320354 GAGGAAGTGA
*
55320364 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
55320427 CCAGTTAT
65 CCAGTTAT
*** * * *
55320435 AAAAGGGCTTATGCCCCAGTTATTGGAAGGGCTTTTGCCCCAGTTATTAGAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
55320500 CAGTTAT
66 CAGTTAT
55320507 A
1 A
55320508 TGATAAAGCA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
71 52 0.81
72 12 0.19
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:55320482 original size:24 final size:24
Alignment explanation
Indices: 55320364--55320506 Score: 191
Period size: 24 Copynumber: 6.0 Consensus size: 24
55320354 GAGGAAGTGA
*
55320364 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
55320388 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
55320412 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
55320435 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
** *
55320459 GGAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
55320483 AGAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
55320507 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
23 22 0.20
24 76 0.70
25 11 0.10
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:55320733 original size:31 final size:31
Alignment explanation
Indices: 55320698--55320760 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
55320688 CGTTTACAGT
55320698 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
55320729 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
55320760 A
1 A
55320761 GCATGAAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:55323576 original size:27 final size:27
Alignment explanation
Indices: 55323542--55323879 Score: 450
Period size: 27 Copynumber: 12.6 Consensus size: 27
55323532 AAAGTACTCC
*
55323542 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
55323569 C-AGGTTATAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
55323596 CGATTTGCAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
55323623 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
55323650 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
55323677 CGATTTACAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
55323703 CAATTTACATAATTACCGTTTTACCCC
1 CGATTTACAGAATTACCGTTTTACCCT
* *
55323730 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
55323757 CGATTTACAGAATTACCGTTTTTCCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
55323784 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
55323811 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
55323838 TGATTTACAGAATTACTGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
*
55323864 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
55323880 TAAAATACCC
Statistics
Matches: 276, Mismatches: 30, Indels: 11
0.87 0.09 0.03
Matches are distributed among these distances:
26 40 0.14
27 234 0.85
28 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.39
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:55323755 original size:161 final size:161
Alignment explanation
Indices: 55323552--55323879 Score: 480
Period size: 161 Copynumber: 2.0 Consensus size: 161
55323542 CGATTTATAG
* * *
55323552 AATTACCGTTTTACCCTCAGGTTATAGAATTACCGTTTTACCCTCGATTTGCAAAATTACCGTTT
1 AATTACCGTTTTACCCCCAGGTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTT
* *
55323617 TACCCTCGATTTACAGAATTATCGTTTTACCCTC-AGTTTACAGAATTACTATTTTACCCTCGAT
66 TACCCTCGATTTACAGAATTACCATTTTACCCTCGA-TTTACAGAATTACTATTTTACCCTCGAT
*
55323681 TTACAGAATTACCGTTTTACCCCAATTTACAT
130 TTACAGAATTACCGTTTTACCCCAATTTACAA
* * * *
55323713 AATTACCGTTTTACCCCC-GATTTACATAATTATCGTTTTACCCTCGATTTACAGAATTACCGTT
1 AATTACCGTTTTACCCCCAG-GTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTT
* * * *
55323777 TTTCCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTGAT
65 TTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGAT
* *
55323842 TTACAGAATTACTGTTTTACCCCGATTTACAA
130 TTACAGAATTACCGTTTTACCCCAATTTACAA
55323874 AATTAC
1 AATTAC
55323880 TAAAATACCC
Statistics
Matches: 149, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
160 1 0.01
161 147 0.99
162 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.09, T:0.39
Consensus pattern (161 bp):
AATTACCGTTTTACCCCCAGGTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCGTTT
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
TACAGAATTACCGTTTTACCCCAATTTACAA
Found at i:55325146 original size:25 final size:25
Alignment explanation
Indices: 55325117--55325164 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
55325107 TTATAATATG
* * *
55325117 AAAATGACCGTTCTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
55325142 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
55325165 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:55325232 original size:20 final size:20
Alignment explanation
Indices: 55325207--55325246 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
55325197 ATAAATATGG
55325207 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
55325227 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
55325247 GGTAATCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:55325351 original size:23 final size:24
Alignment explanation
Indices: 55325297--55325401 Score: 160
Period size: 24 Copynumber: 4.4 Consensus size: 24
55325287 GAGGAAGTGA
*
55325297 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
55325321 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
55325344 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
55325368 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
55325392 AAAAGAGGCT
1 AAAAG-GGCT
55325402 AGGCCTCCAA
Statistics
Matches: 75, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
23 23 0.31
24 48 0.64
25 4 0.05
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:55325366 original size:47 final size:48
Alignment explanation
Indices: 55325297--55325401 Score: 160
Period size: 47 Copynumber: 2.2 Consensus size: 48
55325287 GAGGAAGTGA
55325297 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTAT-GCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTT-TGGCCCCAGTTATT
**
55325344 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTGGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTTGGCCCCAGTTATT
55325392 AAAAGAGGCT
1 AAAAG-GGCT
55325402 AGGCCTCCAA
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
46 1 0.02
47 42 0.79
48 6 0.11
49 4 0.08
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.26
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTTGGCCCCAGTTATT
Found at i:55325406 original size:24 final size:24
Alignment explanation
Indices: 55325297--55325415 Score: 143
Period size: 24 Copynumber: 5.0 Consensus size: 24
55325287 GAGGAAGTGA
* *
55325297 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTAGGCCCCAGTTATT
*
55325321 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTAGGCCCCAGTTATT
*
55325344 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
* *
55325368 GAAAGGGCTTTGGCCCCAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
*
55325392 AAAAGAGGC-TAGGCCTCCAATTAT
1 AAAAG-GGCTTAGGCC-CCAGTTAT
55325416 ATGATAAAGC
Statistics
Matches: 85, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 10 0.12
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTAGGCCCCAGTTATT
Found at i:55325642 original size:31 final size:31
Alignment explanation
Indices: 55325607--55325670 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
55325597 CGTTTACAGT
55325607 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
55325638 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
55325669 AA
1 AA
55325671 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:55327869 original size:31 final size:31
Alignment explanation
Indices: 55327834--55327897 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
55327824 CCTTTTCATA
*
55327834 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
55327865 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
55327896 TT
1 TT
55327898 ACGGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:55328143 original size:24 final size:24
Alignment explanation
Indices: 55328105--55328281 Score: 259
Period size: 24 Copynumber: 7.4 Consensus size: 24
55328095 CTAGAGGCCT
*
55328105 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
55328130 AGCCCTTTTTATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
55328154 AGCCC-TTTAATAACTGGGGCGTA
1 AGCCCTTTTAATAACTGGGGCATA
*
55328177 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
55328201 AGCCCTTTTGATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
55328225 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
55328249 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
55328272 AGCCCATTTT
1 AGCCC-TTTT
55328282 CACTTCCTCC
Statistics
Matches: 140, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
23 43 0.31
24 90 0.64
25 7 0.05
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:55328165 original size:47 final size:47
Alignment explanation
Indices: 55328112--55328281 Score: 277
Period size: 47 Copynumber: 3.6 Consensus size: 47
55328102 CCTAGCCTCT
* *
55328112 TTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
*
55328159 TTTAATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
* *
55328206 TTTTGATAACTAGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
55328254 TTTAATAACTGGGGCATAAGCCCATTTT
1 TTTAATAACTGGGGCATAAGCCC-TTTT
55328282 CACTTCCTCC
Statistics
Matches: 113, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
47 65 0.58
48 48 0.42
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
Found at i:55328191 original size:71 final size:72
Alignment explanation
Indices: 55328105--55328281 Score: 268
Period size: 71 Copynumber: 2.5 Consensus size: 72
55328095 CTAGAGGCCT
* *
55328105 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCC-TTTAATAACT
1 AGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTAGGGCATAAGCCCTTTTAATAACT
*
55328169 GGGGCGTA
65 GGGGCATA
* * *
55328177 AGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCCTTTTGATAACTG
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTAGGGCATAAGCCCTTTTAATAACTG
55328242 GGGCATA
66 GGGCATA
*
55328249 AGCCC-TTTAATAACTGGGGCATAAGCCCATTTT
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTT
55328282 CACTTCCTCC
Statistics
Matches: 95, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
71 70 0.74
72 25 0.26
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (72 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTAGGGCATAAGCCCTTTTAATAACTG
GGGCATA
Found at i:55328353 original size:9 final size:9
Alignment explanation
Indices: 55328339--55328415 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
55328329 ATCTCGTGTG
55328339 CATATCATA
1 CATATCATA
*
55328348 CATATCATGTG
1 CATATCA--TA
55328359 CATATCATA
1 CATATCATA
* *
55328368 CATGTCATGTG
1 CATATCA--TA
55328379 CATATCATA
1 CATATCATA
*
55328388 CATATCATGTG
1 CATATCA--TA
55328399 CATATCATA
1 CATATCATA
55328408 CATATCAT
1 CATATCAT
55328416 GTTTATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:55328358 original size:20 final size:20
Alignment explanation
Indices: 55328335--55328417 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
55328325 GAACATCTCG
55328335 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
55328355 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
55328375 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
55328395 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
55328415 TGT
1 TGT
55328418 TTATCAAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:55328364 original size:11 final size:11
Alignment explanation
Indices: 55328335--55328406 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
55328325 GAACATCTCG
55328335 TGTGCATATCA
1 TGTGCATATCA
*
55328346 --TACATATCA
1 TGTGCATATCA
55328355 TGTGCATATCA
1 TGTGCATATCA
* *
55328366 --TACATGTCA
1 TGTGCATATCA
55328375 TGTGCATATCA
1 TGTGCATATCA
*
55328386 --TACATATCA
1 TGTGCATATCA
55328395 TGTGCATATCA
1 TGTGCATATCA
55328406 T
1 T
55328407 ACATATCATG
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:55328493 original size:25 final size:25
Alignment explanation
Indices: 55328454--55328501 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
55328444 ATATATAAAC
* * *
55328454 CCTAGGGGTACAATGGTTATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
55328479 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
55328502 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:55331889 original size:43 final size:43
Alignment explanation
Indices: 55331837--55331948 Score: 170
Period size: 43 Copynumber: 2.6 Consensus size: 43
55331827 CCGGCATTAT
* *
55331837 GCCTGCTAGGCACGAAGGCCCGAATACAAATCACCGGTACGAA
1 GCCTACTAGGCACGAAGGCCCGAATACAAATCACCGGCACGAA
* * *
55331880 GCCTACTAGGGACGAAGGCCTGAATACATATCACCGGCACGAA
1 GCCTACTAGGCACGAAGGCCCGAATACAAATCACCGGCACGAA
*
55331923 GCCTACTAGGCACGAAGGCCCAAATA
1 GCCTACTAGGCACGAAGGCCCGAATA
55331949 TAATACCAGC
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.33, C:0.29, G:0.25, T:0.12
Consensus pattern (43 bp):
GCCTACTAGGCACGAAGGCCCGAATACAAATCACCGGCACGAA
Found at i:55332076 original size:40 final size:38
Alignment explanation
Indices: 55331946--55332104 Score: 192
Period size: 38 Copynumber: 4.1 Consensus size: 38
55331936 GAAGGCCCAA
* * * *
55331946 ATATAATACCAGCACTAGGCCTGCGGGATTTATCCCGG
1 ATATAATACCAGCACGAAGCCTGTGGGATTTAACCCGG
55331984 ATATAATACCAGCACGAAGCCTGTGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGTGGGATTTAACCCGG
** * * *
55332022 ATATTTTACTAGCACAAAGCCTGTGGGTCTTTAAGCCCGG
1 ATATAATACCAGCACGAAGCCTGTGGG-ATTTAA-CCCGG
** *
55332062 ATATAATACCAGCACGAAGCCTACGGGATTTAACTCGG
1 ATATAATACCAGCACGAAGCCTGTGGGATTTAACCCGG
55332100 ATATA
1 ATATA
55332105 CATCGAATAT
Statistics
Matches: 102, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
38 66 0.65
39 10 0.10
40 26 0.25
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGTGGGATTTAACCCGG
Found at i:55334235 original size:19 final size:19
Alignment explanation
Indices: 55334211--55334247 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
55334201 TCAATTTGGA
55334211 TAGAAATTCTATCTCACAT
1 TAGAAATTCTATCTCACAT
55334230 TAGAAATTCTATCTCACA
1 TAGAAATTCTATCTCACA
55334248 ACCACTTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (19 bp):
TAGAAATTCTATCTCACAT
Found at i:55336718 original size:43 final size:42
Alignment explanation
Indices: 55336629--55336760 Score: 194
Period size: 43 Copynumber: 3.1 Consensus size: 42
55336619 CCGGTATTAT
* *
55336629 GCCTGCTAGGCACGAAGGCCTGAATACAATCACCGGTACGAA
1 GCCTGCTAGGCACGAAGGCCTGAATACAATCACCAGCACGAA
55336671 GCCTGCTAGGCACGAAGGCCTGAATACATATCACCAGCACGAA
1 GCCTGCTAGGCACGAAGGCCTGAATACA-ATCACCAGCACGAA
* * * *
55336714 GCCTGCTAGGCACGAAGGCCCGAATATAAT-ACCAGCACTAG
1 GCCTGCTAGGCACGAAGGCCTGAATACAATCACCAGCACGAA
55336755 GCCTGC
1 GCCTGC
55336761 GGGATTTATC
Statistics
Matches: 83, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
41 15 0.18
42 30 0.36
43 38 0.46
ACGTcount: A:0.30, C:0.30, G:0.25, T:0.14
Consensus pattern (42 bp):
GCCTGCTAGGCACGAAGGCCTGAATACAATCACCAGCACGAA
Found at i:55336788 original size:38 final size:38
Alignment explanation
Indices: 55336732--55336933 Score: 269
Period size: 38 Copynumber: 5.3 Consensus size: 38
55336722 GGCACGAAGG
* * * *
55336732 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
55336770 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* ** * * *
55336808 CCCAGATATTTTACTAGCACGAAGCCTGTGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
55336847 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
55336886 CCCGGATATAATACCAGCACGAAGCCTACAGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
55336924 CTCGGATATA
1 CCCGGATATA
55336934 CATCGAATGT
Statistics
Matches: 143, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
38 106 0.74
39 10 0.07
40 27 0.19
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:55341434 original size:43 final size:43
Alignment explanation
Indices: 55341383--55341494 Score: 161
Period size: 43 Copynumber: 2.6 Consensus size: 43
55341373 CCAGCATTAC
* *
55341383 GCCTGCTAGGCATGAAGGCTCGAATACACATCACCGGTACGAA
1 GCCTGCTAGGCATGAAGGCCCGAATACACATCACCGGCACGAA
* ** *
55341426 GCTTGCTAGGCACAAAGGCCCGAATACACATCTCCGGCACGAA
1 GCCTGCTAGGCATGAAGGCCCGAATACACATCACCGGCACGAA
*
55341469 GCCTGCTAGGCATGAAGGCCGGAATA
1 GCCTGCTAGGCATGAAGGCCCGAATA
55341495 TAATACCAGC
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.29, C:0.29, G:0.27, T:0.15
Consensus pattern (43 bp):
GCCTGCTAGGCATGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:55341558 original size:38 final size:38
Alignment explanation
Indices: 55341487--55341686 Score: 224
Period size: 38 Copynumber: 5.2 Consensus size: 38
55341477 GGCATGAAGG
* * *
55341487 CCGGAATATAATACCAGCACTAGGCCTGC-GGATTTATC
1 CCGG-ATATAATACCAGCACGAAGCCTGCGGGATTTAAC
* *
55341525 CCGGATATAATACCAGCACGAAGCGTTCGGGATTTAAC
1 CCGGATATAATACCAGCACGAAGCCTGCGGGATTTAAC
* ** * *
55341563 CCAGATATTTTACCAGCACGAAGCCTGTGGGTCTTTAAGC
1 CCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA-C
*
55341603 CCGGATATAATACAAGCACGAAGCCTGCGGGATTTAAC
1 CCGGATATAATACCAGCACGAAGCCTGCGGGATTTAAC
* * *
55341641 TCGAATATAATACCAG-ACGAAGCCTACGGGATTTAAC
1 CCGGATATAATACCAGCACGAAGCCTGCGGGATTTAAC
*
55341678 TCGGATATA
1 CCGGATATA
55341687 CATCGAATAT
Statistics
Matches: 136, Mismatches: 23, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
37 48 0.35
38 51 0.38
39 10 0.07
40 27 0.20
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (38 bp):
CCGGATATAATACCAGCACGAAGCCTGCGGGATTTAAC
Found at i:55341671 original size:37 final size:38
Alignment explanation
Indices: 55341490--55341686 Score: 202
Period size: 37 Copynumber: 5.2 Consensus size: 38
55341480 ATGAAGGCCG
* * *
55341490 GAATATAATACCAGCACTAGGCCTGC-GGATTTATCCC
1 GAATATAATACCAGCACGAAGCCTGCGGGATTTAACCC
* * *
55341527 GGATATAATACCAGCACGAAGCGTTCGGGATTTAACCC
1 GAATATAATACCAGCACGAAGCCTGCGGGATTTAACCC
** * *
55341565 -AGATATTTTACCAGCACGAAGCCTGTGGGTCTTTAAGCCC
1 GA-ATATAATACCAGCACGAAGCCTGCGGG-ATTTAA-CCC
* * *
55341605 GGATATAATACAAGCACGAAGCCTGCGGGATTTAACTC
1 GAATATAATACCAGCACGAAGCCTGCGGGATTTAACCC
* *
55341643 GAATATAATACCAG-ACGAAGCCTACGGGATTTAACTC
1 GAATATAATACCAGCACGAAGCCTGCGGGATTTAACCC
*
55341680 GGATATA
1 GAATATA
55341687 CATCGAATAT
Statistics
Matches: 131, Mismatches: 24, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
37 49 0.37
38 46 0.35
39 10 0.08
40 26 0.20
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (38 bp):
GAATATAATACCAGCACGAAGCCTGCGGGATTTAACCC
Found at i:55345198 original size:44 final size:44
Alignment explanation
Indices: 55345100--55345224 Score: 125
Period size: 44 Copynumber: 2.9 Consensus size: 44
55345090 TTTTCTCAAA
* * *
55345100 TCACTGGCATT-TCGCCTGTTAGGCTCG-AGGCCG-ATATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCGAATATCAGT
55345141 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCGAATAGT-A-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCGAATA-TCAGT
** * *
55345184 CTCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGG-CCGAATA
55345225 ATCAAGTCAA
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
41 10 0.14
42 14 0.20
43 7 0.10
44 32 0.45
45 8 0.11
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCGAATATCAGT
Found at i:55345599 original size:43 final size:43
Alignment explanation
Indices: 55345551--55345662 Score: 206
Period size: 43 Copynumber: 2.6 Consensus size: 43
55345541 ACCGCATTAC
* *
55345551 GCCTGCTAGGCACGAAGGCCCGAATACGCATCACCGGTACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
55345594 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
55345637 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
55345663 TAATACCAGC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.29, C:0.33, G:0.28, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:55345703 original size:38 final size:38
Alignment explanation
Indices: 55345655--55345855 Score: 303
Period size: 38 Copynumber: 5.3 Consensus size: 38
55345645 GGCACGAAGG
* * * *
55345655 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
55345693 CCCGGATATAATACCAGCATGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* ** *
55345731 CCCAGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
55345770 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
55345808 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
55345846 CCCAGATATA
1 CCCGGATATA
55345856 CATCGAATAT
Statistics
Matches: 147, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
38 113 0.77
39 34 0.23
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:55345787 original size:77 final size:76
Alignment explanation
Indices: 55345660--55345855 Score: 302
Period size: 77 Copynumber: 2.6 Consensus size: 76
55345650 GAAGGCCCGA
* * * *
55345660 ATATAATACCAGCACTAGGCCTGCGGGATTTATCCCGGATATAATACCAGCATGAAGCCTGCGGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCTGCGGG
55345725 ATTTAACCCAG
66 ATTTAACCCAG
** *
55345736 ATATTTTACCAGCACGAAGCCTGCGGGTCTTTAACCCGGATATAATACCAGCACGAAGCCTGCGG
1 ATATAATACCAGCACGAAGCCTGCGGG-ATTTAACCCGGATATAATACCAGCACGAAGCCTGCGG
*
55345801 GATTTAACCCGG
65 GATTTAACCCAG
*
55345813 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAGATATA
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATA
55345856 CATCGAATAT
Statistics
Matches: 107, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
76 37 0.35
77 70 0.65
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.22
Consensus pattern (76 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCCTGCGGG
ATTTAACCCAG
Done.