Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 66 of 322
Found at i:21124318 original size:38 final size:38
Alignment explanation
Indices: 21124267--21124342 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
21124257 CTAACCGTTG
21124267 CCAACATTTCCATACCTCTCAACGGACAACATACAAAA
1 CCAACATTTCCATACCTCTCAACGGACAACATACAAAA
*
21124305 CCAACATTTCCATACCTCTCGACGGACAACATACAAAA
1 CCAACATTTCCATACCTCTCAACGGACAACATACAAAA
21124343 TGATTATAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.41, C:0.34, G:0.07, T:0.18
Consensus pattern (38 bp):
CCAACATTTCCATACCTCTCAACGGACAACATACAAAA
Found at i:21125048 original size:39 final size:40
Alignment explanation
Indices: 21124929--21125113 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
21124919 GCTACTCGTT
*
21124929 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
21124969 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
21125009 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACACGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
21125048 CAAATGCCTTC-GAATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
21125089 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21125114 CATCATTCGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 1 0.01
39 32 0.26
40 79 0.64
41 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:21125073 original size:79 final size:81
Alignment explanation
Indices: 21124931--21125113 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
21124921 TACTCGTTCA
* * * *
21124931 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACACGCACAAATGCCTTCGGAACTTAACCCGGA
* *
21124995 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
**
21125011 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACACGCACAAATGCCTTC-GAATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACACGCACAAATGCCTTCGGAA-CTTAACCCGG
* *
21125073 ATATGGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
21125090 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
21125114 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 2 0.02
79 58 0.66
80 28 0.32
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACACGCACAAATGCCTTCGGAACTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:21133077 original size:39 final size:40
Alignment explanation
Indices: 21132963--21133143 Score: 208
Period size: 40 Copynumber: 4.5 Consensus size: 40
21132953 GCTACTCGTT
*
21132963 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
21133003 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
21133043 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
21133082 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
21133123 CAAA-GCCTTCGAGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
21133144 TGGACATCAT
Statistics
Matches: 120, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.27
40 74 0.62
41 12 0.10
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:21133131 original size:79 final size:79
Alignment explanation
Indices: 21132963--21133143 Score: 197
Period size: 79 Copynumber: 2.3 Consensus size: 79
21132953 GCTACTCGTT
* *
21132963 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAA-GCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
21133028 ATTTAGTAACTCACAC
64 ATATAGTAACTCACAC
* **
21133044 CAATGCCTTCGGGCTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
21133107 ATATGGTCACTTAGCA-
64 ATATAGTAACTCA-CAC
*
21133123 CAAAGCCTTCGAGACTTAGCC
1 CAAAGCCTTCG-GGCTTAGCC
21133144 TGGACATCAT
Statistics
Matches: 85, Mismatches: 11, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
78 4 0.05
79 59 0.69
80 19 0.22
81 3 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
CAAAGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTCACAC
Found at i:21137301 original size:43 final size:43
Alignment explanation
Indices: 21137229--21137358 Score: 129
Period size: 43 Copynumber: 3.0 Consensus size: 43
21137219 CAGAAAGCTC
* * * ** *
21137229 ATACAATGCCAACGTCCCAGATGTGGTCTTACATGTAAA-CAT
1 ATACGATGCCAATGTCCCAAACATGGTCTTACACGTAAATCAT
* * * * *
21137271 ATATCGATGCCACTGTCCCAGACA-GTGTCTTATACGAAAATCAA
1 ATA-CGATGCCAATGTCCCAAACATG-GTCTTACACGTAAATCAT
21137315 ATACGATGCCAATGTCCCAAACATGGTCTTACACGTAAATCAT
1 ATACGATGCCAATGTCCCAAACATGGTCTTACACGTAAATCAT
21137358 A
1 A
21137359 AGTCAATGTC
Statistics
Matches: 70, Mismatches: 14, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
42 4 0.06
43 60 0.86
44 6 0.09
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (43 bp):
ATACGATGCCAATGTCCCAAACATGGTCTTACACGTAAATCAT
Found at i:21141219 original size:42 final size:42
Alignment explanation
Indices: 21141107--21141228 Score: 138
Period size: 43 Copynumber: 2.9 Consensus size: 42
21141097 TACAGTACCA
* * * **
21141107 ATGCCATATCCCAGATATGGTATTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTAAGCTCAAATCG
* *
21141149 ATGCCAATAGCCCAGCTATGGTCTTACACG-AAGCTACAAATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTAAGCT-CAAATCG
* *
21141192 ATGCCATATCCCAAATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGTAAGCTCA
21141229 GTAACCCTAA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
42 32 0.48
43 34 0.52
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTAAGCTCAAATCG
Found at i:21152282 original size:39 final size:40
Alignment explanation
Indices: 21152182--21152366 Score: 193
Period size: 40 Copynumber: 4.7 Consensus size: 40
21152172 TTGAATGATG
* * *
21152182 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
21152221 ATCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
21152262 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAT
*
21152302 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
21152340 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
21152367 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 80 0.66
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:21152388 original size:79 final size:79
Alignment explanation
Indices: 21152235--21152399 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
21152225 GGACTAAGAT
* **
21152235 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
* *
21152300 ATTCGGGTTAAGTC
66 ATTCCGGTTAAATC
* * *
21152314 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
21152377 TATA-TCCGGTTAAATT
63 TAAATTCCGGTTAAATC
21152393 CCGAAGG
1 CCGAAGG
21152400 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 50 0.68
80 21 0.29
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATTCCGGTTAAATC
Found at i:21155998 original size:69 final size:69
Alignment explanation
Indices: 21155911--21156045 Score: 198
Period size: 69 Copynumber: 2.0 Consensus size: 69
21155901 TAAATATCCG
* * * * * * *
21155911 TTACCGTGTATTGATGATTTGTTTGATCAACTAAAGGGAGCCTCAGTGTTTTCAAAGATAGATTT
1 TTACCGCGTATCGATGATTTGTTCGACCAACTAAAGGGAGCCTCAATGTTCTCAAAAATAGATTT
21155976 GTCA
66 GTCA
*
21155980 TTACCGCGTATCGATGATTTGTTCGACCAACTGAAGGGAGCCTCAATGTTCTCAAAAATAGATTT
1 TTACCGCGTATCGATGATTTGTTCGACCAACTAAAGGGAGCCTCAATGTTCTCAAAAATAGATTT
21156045 G
66 G
21156046 AGATCGGGCT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.34
Consensus pattern (69 bp):
TTACCGCGTATCGATGATTTGTTCGACCAACTAAAGGGAGCCTCAATGTTCTCAAAAATAGATTT
GTCA
Found at i:21157051 original size:296 final size:296
Alignment explanation
Indices: 21156510--21157102 Score: 1087
Period size: 296 Copynumber: 2.0 Consensus size: 296
21156500 TTTGTCAAAG
21156510 GTTTCTCGATGATAGCCACACCAATGACGAAGCTACTTCAAAAGGATGTTAAGTTCGAATGGACG
1 GTTTCTCGATGATAGCCACACCAATGACGAAGCTACTTCAAAAGGATGTTAAGTTCGAATGGACG
21156575 GAGAAATGTCAGAAAAGTTTCGATCAACTGAAAACTCATTTGACTGAAGCTCCAATTTTAGTGCA
66 GAGAAATGTCAGAAAAGTTTCGATCAACTGAAAACTCATTTGACTGAAGCTCCAATTTTAGTGCA
21156640 ACCCGAATCAGGCAAAGAGTTTGTCATTTATAGTGACGCATCCCTACTTGGGTTGGGTTGCGTAT
131 ACCCGAATCAGGCAAAGAGTTTGTCATTTATAGTGACGCATCCCTACTTGGGTTGGGTTGCGTAT
* *
21156705 TGATGCAAGAAGGTCGAGTGGTGGCTTATGCGTCGAGACAATTAAAGCCACATGAGAAAAATTAT
196 TGATGCAAGAAGGTCGAGTGGTGGCCTATGCGTCGAGACAATTAAAGCCACACGAGAAAAATTAT
*** *
21156770 CCGACCCATGATCTTGCACTAGCTGCCATCGTCTTT
261 CCGACCCATGATCTCAAACTAGCTGCCATCGTATTT
21156806 GTTTCTCGATGATAGCCACACCAATGACGAAGCTACTTCAAAAGGATGTTAAGTTCGAATGGACG
1 GTTTCTCGATGATAGCCACACCAATGACGAAGCTACTTCAAAAGGATGTTAAGTTCGAATGGACG
*
21156871 GAGAAATGTCAGAAAAGTTTCGATCAACTGAAAACTTATTTGACTGAAGCTCCAATTTTAGTGCA
66 GAGAAATGTCAGAAAAGTTTCGATCAACTGAAAACTCATTTGACTGAAGCTCCAATTTTAGTGCA
21156936 ACCCGAATCAGGCAAAGAGTTTGTCATTTATAGTGACGCATCCCTACTTGGGTTGGGTTGCGTAT
131 ACCCGAATCAGGCAAAGAGTTTGTCATTTATAGTGACGCATCCCTACTTGGGTTGGGTTGCGTAT
* * * *
21157001 TGATGCAAGAAGGTCGAGTTGTGGCCTATGTGTCGAGACAATTGAAGCCACACGAGAGAAATTAT
196 TGATGCAAGAAGGTCGAGTGGTGGCCTATGCGTCGAGACAATTAAAGCCACACGAGAAAAATTAT
21157066 CCGACCCATGATCTCAAACTAGCTGCCATCGTATTT
261 CCGACCCATGATCTCAAACTAGCTGCCATCGTATTT
21157102 G
1 G
21157103 CTTTGAAAAT
Statistics
Matches: 286, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
296 286 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (296 bp):
GTTTCTCGATGATAGCCACACCAATGACGAAGCTACTTCAAAAGGATGTTAAGTTCGAATGGACG
GAGAAATGTCAGAAAAGTTTCGATCAACTGAAAACTCATTTGACTGAAGCTCCAATTTTAGTGCA
ACCCGAATCAGGCAAAGAGTTTGTCATTTATAGTGACGCATCCCTACTTGGGTTGGGTTGCGTAT
TGATGCAAGAAGGTCGAGTGGTGGCCTATGCGTCGAGACAATTAAAGCCACACGAGAAAAATTAT
CCGACCCATGATCTCAAACTAGCTGCCATCGTATTT
Found at i:21157925 original size:170 final size:170
Alignment explanation
Indices: 21157633--21157969 Score: 638
Period size: 170 Copynumber: 2.0 Consensus size: 170
21157623 GAAACGTTGG
21157633 TTTTGGTGGCATGGTATAAAACGAGACATCTCCGACTTTGTTTCGAGATGTTTAATATGTCAACA
1 TTTTGGTGGCATGGTATAAAACGAGACATCTCCGACTTTGTTTCGAGATGTTTAATATGTCAACA
* *
21157698 AGTGAAAGCGGAACATCAAGTGCCTTCAGGATTACTTCAGCCGATCATGATACCCGAGTGGAAAT
66 AGTGAAAGCGAAACATCAAGTGCCTTCAGGATTACTTCAGCCGATCATGAGACCCGAGTGGAAAT
21157763 GGGATCGAGTCACAATGGACTTTGTGTCCGGACTGCCCAA
131 GGGATCGAGTCACAATGGACTTTGTGTCCGGACTGCCCAA
*
21157803 TTTTGGTGGCATGGTATGAAACGAGACATCTCCGACTTTGTTTCGAGATGTTTAATATGTCAACA
1 TTTTGGTGGCATGGTATAAAACGAGACATCTCCGACTTTGTTTCGAGATGTTTAATATGTCAACA
*
21157868 AGTGAAAGCGAAACATCAAGTGCCTTCAGGATTACTTCAGCCGATTATGAGACCCGAGTGGAAAT
66 AGTGAAAGCGAAACATCAAGTGCCTTCAGGATTACTTCAGCCGATCATGAGACCCGAGTGGAAAT
21157933 GGGATCGAGTCACAATGGACTTTGTGTCCGGACTGCC
131 GGGATCGAGTCACAATGGACTTTGTGTCCGGACTGCC
21157970 ATTGTCAGGA
Statistics
Matches: 163, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
170 163 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (170 bp):
TTTTGGTGGCATGGTATAAAACGAGACATCTCCGACTTTGTTTCGAGATGTTTAATATGTCAACA
AGTGAAAGCGAAACATCAAGTGCCTTCAGGATTACTTCAGCCGATCATGAGACCCGAGTGGAAAT
GGGATCGAGTCACAATGGACTTTGTGTCCGGACTGCCCAA
Found at i:21160727 original size:39 final size:40
Alignment explanation
Indices: 21160632--21160854 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
21160622 TTGAATGATG
*
21160632 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
21160670 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
21160711 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
21160750 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
21160789 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
21160828 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
21160855 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:21160818 original size:79 final size:81
Alignment explanation
Indices: 21160632--21160854 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
21160622 TTGAATGATG
* * *
21160632 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
21160694 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
21160711 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
21160772 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
21160789 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
21160853 TG
66 TG
21160855 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:21160876 original size:79 final size:79
Alignment explanation
Indices: 21160632--21160887 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
21160622 TTGAATGATG
* * * *
21160632 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
21160693 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
21160711 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
21160775 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
21160789 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
21160852 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
21160869 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
21160888 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:21162385 original size:219 final size:218
Alignment explanation
Indices: 21161992--21162426 Score: 834
Period size: 219 Copynumber: 2.0 Consensus size: 218
21161982 AATTGTCCCA
* *
21161992 ACCAAAAATTCTAGAAAAAATATGTAGATGTACATATGAGTCTAGTTTCAGGGAAAATTTACGGA
1 ACCAAAAATTCTAGAAAAAATATGTAGATGGACATATGAGTCTAGTTTCAGGGAAAATTTACAGA
21162057 ACTGGATTCCGAGTTTCTGAACTCAAGATATGATTTTTAAAGAGACTATTACGCAGATTGGCAGT
66 ACTGGATTCCGAGTTTCTGAACTCAAGATATGATTTTTAAAGAGACTATTACGCAGATTGGCAGT
21162122 GTCTGGAAATTTTTTTAAAAGTCTGTTAACACCTCGTGTTCGACTCCGGTGACGGTCTCGGGTTC
131 GTCTGGAAATTTTTTTAAAAGTCTGTTAACACCTCGTGTTCGACTCCGGTGACGGTCTCGGGTTC
21162187 GGGGTGTTACATCAAATACCCTT
196 GGGGTGTTACATCAAATACCCTT
*
21162210 ACCAAAAATTCTAGAAAAAAATATGTAGATGGGCATATGAGTCTAGTTTCAGGGAAAATTTACAG
1 ACCAAAAATTCTAG-AAAAAATATGTAGATGGACATATGAGTCTAGTTTCAGGGAAAATTTACAG
21162275 AACTGGATTCCGAGTTTCTGAACTCAAGATATGATTTTTAAAGAGACTATTACGCAGATTGGCAG
65 AACTGGATTCCGAGTTTCTGAACTCAAGATATGATTTTTAAAGAGACTATTACGCAGATTGGCAG
21162340 TGTCTGGAAATTTTTTTAAAAGTCTGTTAACACCTCGTGTTCGACTCCGGTGACGGTCTCGGGTT
130 TGTCTGGAAATTTTTTTAAAAGTCTGTTAACACCTCGTGTTCGACTCCGGTGACGGTCTCGGGTT
21162405 CGGGGTGTTACATCAAATACCC
195 CGGGGTGTTACATCAAATACCC
21162427 CCACACTTAA
Statistics
Matches: 213, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
218 14 0.07
219 199 0.93
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (218 bp):
ACCAAAAATTCTAGAAAAAATATGTAGATGGACATATGAGTCTAGTTTCAGGGAAAATTTACAGA
ACTGGATTCCGAGTTTCTGAACTCAAGATATGATTTTTAAAGAGACTATTACGCAGATTGGCAGT
GTCTGGAAATTTTTTTAAAAGTCTGTTAACACCTCGTGTTCGACTCCGGTGACGGTCTCGGGTTC
GGGGTGTTACATCAAATACCCTT
Found at i:21164252 original size:76 final size:76
Alignment explanation
Indices: 21164171--21164323 Score: 288
Period size: 76 Copynumber: 2.0 Consensus size: 76
21164161 TTTCAAAATA
*
21164171 TAGAGATAAAAATAAAATAAAATAAATAATAGGTGTTTATAGAGGAATGGGAGCACACGGCTGTA
1 TAGAGATAAAAATAAAATAAAATAAATAATAGGTGTTTATAGAGAAATGGGAGCACACGGCTGTA
21164236 GGGCACGCCCG
66 GGGCACGCCCG
*
21164247 TAGAGATAAAAATAAAATAAAATAAATAATAGGTGTTTATAGAGAAATGGGGGCACACGGCTGTA
1 TAGAGATAAAAATAAAATAAAATAAATAATAGGTGTTTATAGAGAAATGGGAGCACACGGCTGTA
21164312 GGGCACGCCCG
66 GGGCACGCCCG
21164323 T
1 T
21164324 GTGCTCTAAG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.42, C:0.12, G:0.26, T:0.20
Consensus pattern (76 bp):
TAGAGATAAAAATAAAATAAAATAAATAATAGGTGTTTATAGAGAAATGGGAGCACACGGCTGTA
GGGCACGCCCG
Found at i:21181537 original size:14 final size:15
Alignment explanation
Indices: 21181515--21181544 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
21181505 GAATATCAAG
21181515 ACATGAATTAAGAAC
1 ACATGAATTAAGAAC
21181530 ACAT-AATTAAGAAC
1 ACATGAATTAAGAAC
21181544 A
1 A
21181545 AGCCAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.57, C:0.13, G:0.10, T:0.20
Consensus pattern (15 bp):
ACATGAATTAAGAAC
Found at i:21182753 original size:29 final size:28
Alignment explanation
Indices: 21182704--21182759 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
21182694 TTTTTCATTT
*
21182704 ATTTCACATTTTAACCACTAAATTTACAC
1 ATTTCACAATTTAACCACT-AATTTACAC
* *
21182733 ATTTCACAATTTAGCCCCTAATTTACA
1 ATTTCACAATTTAACCACTAATTTACA
21182760 TTTTTATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.38
Consensus pattern (28 bp):
ATTTCACAATTTAACCACTAATTTACAC
Found at i:21191673 original size:39 final size:39
Alignment explanation
Indices: 21191615--21191758 Score: 182
Period size: 39 Copynumber: 3.7 Consensus size: 39
21191605 TTCAGTGATG
*
21191615 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
*
21191654 TATATCCGGACTTAAGGTCCGTAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * * * *
21191693 TATAACTGGACTTAAGGTCCACAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
* * *
21191732 TATGTCCGGGC-TAAAGTCCCGCAGGCT
1 TATATCCGGACTTAAGGT-CCGCAGGCT
21191759 TCGAGCTGGT
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
38 5 0.06
39 85 0.94
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:21191767 original size:78 final size:78
Alignment explanation
Indices: 21191622--21191774 Score: 184
Period size: 78 Copynumber: 2.0 Consensus size: 78
21191612 ATGTATATCC
* * * * * * *
21191622 GGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCGTAGGCTATGTGC
1 GGACTTAAGGTCCACAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGCTATGAGC
21191687 TGGAATTATAACT
66 TGGAATTATAACT
* *
21191700 GGACTTAAGGTCCACAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAGGCT-TCGA
1 GGACTTAAGGTCCACAGGCTACGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAGGCTAT-GA
*
21191763 GCTGGTATTATA
64 GCTGGAATTATA
21191775 CCAGGTTTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
77 6 0.10
78 57 0.90
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (78 bp):
GGACTTAAGGTCCACAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGCTATGAGC
TGGAATTATAACT
Found at i:21201753 original size:55 final size:55
Alignment explanation
Indices: 21201676--21201779 Score: 190
Period size: 55 Copynumber: 1.9 Consensus size: 55
21201666 AGTAATGGAT
*
21201676 CCTGATCCCGACCGAGCGGTAGCTGATGATCTTGAGAGTGTGGCGCCTGATCCCG
1 CCTGATCCCGACCGAGCAGTAGCTGATGATCTTGAGAGTGTGGCGCCTGATCCCG
*
21201731 CCTGATCCCGACCGAGTAGTAGCTGATGATCTTGAGAGTGTGGCGCCTG
1 CCTGATCCCGACCGAGCAGTAGCTGATGATCTTGAGAGTGTGGCGCCTG
21201780 CTCCTGCACA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.17, C:0.27, G:0.33, T:0.23
Consensus pattern (55 bp):
CCTGATCCCGACCGAGCAGTAGCTGATGATCTTGAGAGTGTGGCGCCTGATCCCG
Found at i:21204495 original size:47 final size:47
Alignment explanation
Indices: 21204426--21204944 Score: 817
Period size: 47 Copynumber: 11.1 Consensus size: 47
21204416 GAAATGATAG
*
21204426 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
21204473 TAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATGTGTGG
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
21204520 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * *
21204567 TAAGGCCAAATGGTCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
21204614 TAAGGTCAAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
21204661 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
21204706 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
21204753 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
21204800 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAGGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
21204847 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
21204894 TAAGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
21204941 TAAG
1 TAAG
21204945 TCCCGAAGGG
Statistics
Matches: 445, Mismatches: 25, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
45 45 0.10
47 400 0.90
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:21204563 original size:23 final size:23
Alignment explanation
Indices: 21204536--21204657 Score: 74
Period size: 23 Copynumber: 5.2 Consensus size: 23
21204526 CTAATGGCCG
21204536 ATGTGATGAATGTGAAAGTGTAT
1 ATGTGATGAATGTGAAAGTGTAT
* **
21204559 ATGTG-TGATAAG-GCCAAA-TGGTCG
1 ATGTGATGA-ATGTG--AAAGT-GTAT
21204583 ATGTGATGAATGTGAAAGTGTAT
1 ATGTGATGAATGTGAAAGTGTAT
* * ***
21204606 ATGTG-TGATAAGGTCAAA-TAGCCG
1 ATGTGATG--AATGTGAAAGT-GTAT
21204630 ATGTGATGAATGTGAAAGTGTAT
1 ATGTGATGAATGTGAAAGTGTAT
21204653 ATGTG
1 ATGTG
21204658 TGATAAGGCC
Statistics
Matches: 71, Mismatches: 16, Indels: 24
0.64 0.14 0.22
Matches are distributed among these distances:
22 6 0.08
23 32 0.45
24 27 0.38
25 6 0.08
ACGTcount: A:0.33, C:0.05, G:0.31, T:0.31
Consensus pattern (23 bp):
ATGTGATGAATGTGAAAGTGTAT
Found at i:21205011 original size:122 final size:122
Alignment explanation
Indices: 21204869--21205112 Score: 470
Period size: 122 Copynumber: 2.0 Consensus size: 122
21204859 GCCGATGTGA
*
21204869 TGAATGTGAAAGTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATA
1 TGAATGTGAAAGTGTATATATGTGACAAGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATA
21204934 AATGTGATAAGTCCCGAAGGGCATTTGTGTCAGCACTATATCCGGGTTAAAACCCCG
66 AATGTGATAAGTCCCGAAGGGCATTTGTGTCAGCACTATATCCGGGTTAAAACCCCG
*
21204991 TGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATA
1 TGAATGTGAAAGTGTATATATGTGACAAGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATA
21205056 AATGTGATAAGTCCCGAAGGGCATTTGTGTCAGCACTATATCCGGGTTAAAACCCCG
66 AATGTGATAAGTCCCGAAGGGCATTTGTGTCAGCACTATATCCGGGTTAAAACCCCG
21205113 CAGGCTTTAT
Statistics
Matches: 120, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
122 120 1.00
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (122 bp):
TGAATGTGAAAGTGTATATATGTGACAAGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATA
AATGTGATAAGTCCCGAAGGGCATTTGTGTCAGCACTATATCCGGGTTAAAACCCCG
Found at i:21218016 original size:30 final size:30
Alignment explanation
Indices: 21217931--21218027 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
21217921 TAAACTAAAA
* *
21217931 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * * * *
21217961 TGAGTTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
21217991 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
21218020 ATGAGCTA
1 -TGAGCTA
21218028 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
29 1 0.02
30 49 0.98
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:21220203 original size:6 final size:6
Alignment explanation
Indices: 21220192--21220216 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
21220182 TTTTTCAATC
21220192 TCATTT TCATTT TCATTT TCATTT T
1 TCATTT TCATTT TCATTT TCATTT T
21220217 GCTTTTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TCATTT
Found at i:21220206 original size:18 final size:18
Alignment explanation
Indices: 21220183--21220225 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
21220173 TTCGTTCTCT
21220183 TTTTCAATCTCATTTT-C
1 TTTTCAATCTCATTTTGC
* *
21220200 ATTTTCATTTTCATTTTGC
1 -TTTTCAATCTCATTTTGC
21220219 TTTTCAA
1 TTTTCAA
21220226 AGGCTTTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 20 0.95
19 1 0.05
ACGTcount: A:0.19, C:0.19, G:0.02, T:0.60
Consensus pattern (18 bp):
TTTTCAATCTCATTTTGC
Found at i:21220234 original size:12 final size:12
Alignment explanation
Indices: 21220218--21220249 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
21220208 TTTCATTTTG
21220218 CTTTTCAAAGGC
1 CTTTTCAAAGGC
*
21220230 TTTTTCAAAGGC
1 CTTTTCAAAGGC
21220242 CTTTTCAA
1 CTTTTCAA
21220250 GTTCTCTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (12 bp):
CTTTTCAAAGGC
Found at i:21220314 original size:5 final size:5
Alignment explanation
Indices: 21220304--21220360 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
21220294 CTCTTGCCTC
*
21220304 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
21220351 TCTTT TCTTT
1 TCTTT TCTTT
21220361 GTTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:21220344 original size:15 final size:14
Alignment explanation
Indices: 21220304--21220360 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
21220294 CTCTTGCCTC
*
21220304 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
21220319 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
21220334 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
21220351 TCTTTTCTTT
1 TCTTTTCTTT
21220361 GTTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:21220361 original size:21 final size:21
Alignment explanation
Indices: 21220304--21220371 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
21220294 CTCTTGCCTC
* *
21220304 TCTTTTCTTTT-TATTTCATTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
21220325 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
21220346 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
21220366 CTCTTT
1 -TCTTT
21220372 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.18
21 27 0.69
22 5 0.13
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:21221310 original size:18 final size:17
Alignment explanation
Indices: 21221277--21221313 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
21221267 CATTAAACAC
21221277 TTTTTTTTCAGATTTTT
1 TTTTTTTTCAGATTTTT
21221294 TTTTCTTTTC-GATTTTT
1 TTTT-TTTTCAGATTTTT
21221311 TTT
1 TTT
21221314 GAATTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.08, C:0.08, G:0.05, T:0.78
Consensus pattern (17 bp):
TTTTTTTTCAGATTTTT
Found at i:21222712 original size:33 final size:33
Alignment explanation
Indices: 21222675--21222741 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
21222665 GCCTTTAATA
*
21222675 TCCATACATGCATTCGACATATGCATGAATTTG
1 TCCATACATGCATTCGACACATGCATGAATTTG
21222708 TCCATACATGCATTCGACACATGCATGAATTTG
1 TCCATACATGCATTCGACACATGCATGAATTTG
21222741 T
1 T
21222742 AGAAACATTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (33 bp):
TCCATACATGCATTCGACACATGCATGAATTTG
Found at i:21223174 original size:30 final size:30
Alignment explanation
Indices: 21223089--21223185 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
21223079 TAAACTAAAA
* *
21223089 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * * * *
21223119 TGAGTTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
21223149 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
21223178 ATGAGCTA
1 -TGAGCTA
21223186 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
29 1 0.02
30 49 0.98
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:21237629 original size:83 final size:83
Alignment explanation
Indices: 21237527--21238015 Score: 834
Period size: 83 Copynumber: 5.9 Consensus size: 83
21237517 GAAGCAGATC
* **
21237527 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATAACAGATATGACTCTCA
1 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTGCAGATATGACTCTCA
*
21237592 AACGTTCTCAAATAGACT
66 AACGTTCTCAAACAGACT
* **
21237610 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATAACAGATATGACTCTCA
1 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTGCAGATATGACTCTCA
*
21237675 AACGTTCTCAAATAGACT
66 AACGTTCTCAAACAGACT
21237693 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTGCAGATATGACTCTCA
1 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTGCAGATATGACTCTCA
21237758 AACGTTCTCAAACAGACT
66 AACGTTCTCAAACAGACT
*
21237776 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTCCAGATATGACTCTCA
1 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTGCAGATATGACTCTCA
* *
21237841 AATGTTCTCAAACAGATT
66 AACGTTCTCAAACAGACT
*
21237859 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTGCAGATATGACTCTCA
1 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTGCAGATATGACTCTCA
* *
21237924 AATGTCCTCAAACAGACT
66 AACGTTCTCAAACAGACT
* *
21237942 CAAGATGGTTTGGCATCCTTGTGCTTACAATGAACAAATCGAGGACGTTGCAGATATGACTCTCA
1 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTGCAGATATGACTCTCA
21238007 AACGTTCTC
66 AACGTTCTC
21238016 GAATTTCTAG
Statistics
Matches: 392, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 392 1.00
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (83 bp):
CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTGCAGATATGACTCTCA
AACGTTCTCAAACAGACT
Found at i:21238542 original size:83 final size:83
Alignment explanation
Indices: 21238430--21238796 Score: 608
Period size: 83 Copynumber: 4.4 Consensus size: 83
21238420 TCCCTAAAAC
* *
21238430 GTTCTCAGACAGACTCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTG
1 GTTCTCAAACAGACTCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTG
21238495 CAGATATGACTCTCAAAT
66 CAGATATGACTCTCAAAT
* *
21238513 GTTCTCAAACAGATTTAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTG
1 GTTCTCAAACAGACTCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTG
21238578 CAGATATGACTCTCAAAT
66 CAGATATGACTCTCAAAT
** *
21238596 GCCCTCAAACAGACTCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAATAAATCGAGGACGTTG
1 GTTCTCAAACAGACTCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTG
21238661 CAGATATGACTCTCAAAT
66 CAGATATGACTCTCAAAT
* * *
21238679 GTCCTCAAAAAGACTCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTG
1 GTTCTCAAACAGACTCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTG
21238744 CAGATATGACTCTCAAAT
66 CAGATATGACTCTCAAAT
* ** *
21238762 GTTCTCAAGCAGACTCAAGATAATTTGACATCCTT
1 GTTCTCAAACAGACTCAAGATGGTTTGGCATCCTT
21238797 ACAAATCGAA
Statistics
Matches: 265, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 265 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (83 bp):
GTTCTCAAACAGACTCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTG
CAGATATGACTCTCAAAT
Found at i:21245102 original size:27 final size:27
Alignment explanation
Indices: 21245064--21245172 Score: 141
Period size: 27 Copynumber: 4.1 Consensus size: 27
21245054 GAAGCGTCCA
21245064 GGTGGC-CATGCCACATTTATCTGTTCT
1 GGTGGCTC-TGCCACATTTATCTGTTCT
*
21245091 GGTGGCTCTGCCACATATATCTGTTCT
1 GGTGGCTCTGCCACATTTATCTGTTCT
* *
21245118 GGTGTCTCTGCCACAATTATCTGTTCT
1 GGTGGCTCTGCCACATTTATCTGTTCT
* * *
21245145 GGTGACTCTGTCACA-TCATCTGTTCT
1 GGTGGCTCTGCCACATTTATCTGTTCT
21245171 GG
1 GG
21245173 CAGCAATGCT
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
26 12 0.16
27 61 0.82
28 1 0.01
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.38
Consensus pattern (27 bp):
GGTGGCTCTGCCACATTTATCTGTTCT
Found at i:21252715 original size:27 final size:27
Alignment explanation
Indices: 21252666--21252776 Score: 118
Period size: 27 Copynumber: 4.1 Consensus size: 27
21252656 AGGAAGCGTC
* * * *
21252666 CTGGTGGCTATGCCATATTTATCTGAT
1 CTGGTGGCTCTGCCACATATATCTGTT
*
21252693 CTGGTGGCTCTGGCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
*
21252720 CTGGTGGCTCTGCCACA-ATTTTCTGTT
1 CTGGTGGCTCTGCCACATA-TATCTGTT
* * *
21252747 CTGGTGACTCTGTCACAT-TATCTGTC
1 CTGGTGGCTCTGCCACATATATCTGTT
21252773 CTGG
1 CTGG
21252777 CAGCAATGCT
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
26 11 0.15
27 60 0.85
ACGTcount: A:0.14, C:0.23, G:0.23, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGTT
Found at i:21252750 original size:54 final size:53
Alignment explanation
Indices: 21252663--21252776 Score: 149
Period size: 54 Copynumber: 2.1 Consensus size: 53
21252653 TGGAGGAAGC
* *
21252663 GTCCTGGTGGCTATGCCATATTTATCTGATCTGGTGGCTCTGGCACATATATCT
1 GTCCTGGTGGCTATGCCAAATTTATCTGATCTGGTGACTCTGGCACAT-TATCT
* * * *
21252717 GTTCTGGTGGCTCTGCCACAATTT-TCTGTTCTGGTGACTCTGTCACATTATCT
1 GTCCTGGTGGCTATGCCA-AATTTATCTGATCTGGTGACTCTGGCACATTATCT
21252770 GTCCTGG
1 GTCCTGG
21252777 CAGCAATGCT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
53 11 0.21
54 37 0.71
55 4 0.08
ACGTcount: A:0.14, C:0.24, G:0.24, T:0.39
Consensus pattern (53 bp):
GTCCTGGTGGCTATGCCAAATTTATCTGATCTGGTGACTCTGGCACATTATCT
Found at i:21254663 original size:43 final size:43
Alignment explanation
Indices: 21254597--21254752 Score: 167
Period size: 41 Copynumber: 3.7 Consensus size: 43
21254587 AGCTCGTACA
21254597 ATGCCAATGTCCCAGAC-GTGGTCTTACATAAAATCAGATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACATAAAATCAGATATCG
* ** *
21254640 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATC--ATATAG
1 ATGCCAATGTCCCAGACAGGGTCTTACATAAAATCAGATATCG
* * ** *
21254681 ATGCCAATGTCCCAAACATGGTCTTACATGTGAATCATGA-ATCA
1 ATGCCAATGTCCCAGACAGGGTCTTACAT-AAAATCA-GATATCG
*
21254725 ATGCCAATGTCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACAGGGTCTTACA
21254753 CGATAACACA
Statistics
Matches: 95, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
41 30 0.32
42 4 0.04
43 30 0.32
44 30 0.32
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACATAAAATCAGATATCG
Found at i:21254748 original size:85 final size:84
Alignment explanation
Indices: 21254597--21254755 Score: 230
Period size: 85 Copynumber: 1.9 Consensus size: 84
21254587 AGCTCGTACA
* * * *
21254597 ATGCCAATGTCCCAGACGTGGTCTTACATAAAATCAGATATCGATGCCACTGTCCCAGACAGGGT
1 ATGCCAATGTCCCAAACATGGTCTTACATAAAATCAGATATCAATGCCAATGTCCCAGACAGGGT
21254662 CTTACACGAAATCATATAG
66 CTTACACGAAATCATATAG
** *
21254681 ATGCCAATGTCCCAAACATGGTCTTACATGTGAATCATGA-ATCAATGCCAATGTCCCAGACATG
1 ATGCCAATGTCCCAAACATGGTCTTACAT-AAAATCA-GATATCAATGCCAATGTCCCAGACAGG
21254745 GTCTTACACGA
64 GTCTTACACGA
21254756 TAACACATAT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
84 27 0.41
85 37 0.56
86 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (84 bp):
ATGCCAATGTCCCAAACATGGTCTTACATAAAATCAGATATCAATGCCAATGTCCCAGACAGGGT
CTTACACGAAATCATATAG
Found at i:21254779 original size:44 final size:44
Alignment explanation
Indices: 21254596--21254779 Score: 163
Period size: 44 Copynumber: 4.3 Consensus size: 44
21254586 AAGCTCGTAC
* * *
21254596 AATGCCAATGTCCCAGACGTGGTCTTACA-TAAAATCAGATATC-G
1 AATGCCAATGTCCCAGACATGGTCTTACACGATAATC--ATATCAG
* *
21254640 -ATGCCACTGTCCCAGACAGGGTCTTACACGA-AATCATAT-AG
1 AATGCCAATGTCCCAGACATGGTCTTACACGATAATCATATCAG
* *
21254681 -ATGCCAATGTCCCAAACATGGTCTTACATG-TGAATCATGAATC--
1 AATGCCAATGTCCCAGACATGGTCTTACACGAT-AATCAT--ATCAG
*
21254724 AATGCCAATGTCCCAGACATGGTCTTACACGATAACACATATCAG
1 AATGCCAATGTCCCAGACATGGTCTTACACGATAA-TCATATCAG
*
21254769 AAT-CCTATGTC
1 AATGCCAATGTC
21254780 ATGACATATG
Statistics
Matches: 116, Mismatches: 12, Indels: 24
0.76 0.08 0.16
Matches are distributed among these distances:
41 31 0.27
42 6 0.05
43 32 0.28
44 40 0.34
45 7 0.06
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (44 bp):
AATGCCAATGTCCCAGACATGGTCTTACACGATAATCATATCAG
Found at i:21255887 original size:13 final size:13
Alignment explanation
Indices: 21255869--21255893 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21255859 ACAAACGATA
21255869 AAATTTTCACACG
1 AAATTTTCACACG
21255882 AAATTTTCACAC
1 AAATTTTCACAC
21255894 ATATCACATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:21256063 original size:25 final size:24
Alignment explanation
Indices: 21256003--21256064 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
21255993 GGCTGTTACA
* *
21256003 GAATTACAGCTTGTGAGAGCATAC
1 GAATTACAGCTCGAGAGAGCATAC
* * *
21256027 CAATCTATAGCTCGAGTGAGCATATC
1 GAAT-TACAGCTCGAGAGAGCATA-C
21256053 GAATTACAGCTC
1 GAATTACAGCTC
21256065 ATACAAGCAT
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
24 3 0.10
25 22 0.76
26 4 0.14
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (24 bp):
GAATTACAGCTCGAGAGAGCATAC
Found at i:21256238 original size:9 final size:9
Alignment explanation
Indices: 21256224--21256249 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
21256214 ACAGGTATAC
21256224 ACATGAAAT
1 ACATGAAAT
21256233 ACATGAAAT
1 ACATGAAAT
21256242 ACATGAAA
1 ACATGAAA
21256250 ATGATGTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (9 bp):
ACATGAAAT
Found at i:21261710 original size:18 final size:18
Alignment explanation
Indices: 21261689--21261731 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
21261679 TCAGTGCGAA
* *
21261689 AATAGTAATTAGTGCAGT
1 AATAGTAATCAGTCCAGT
21261707 AATAGTAATCAGTCCAGT
1 AATAGTAATCAGTCCAGT
*
21261725 AACAGTA
1 AATAGTA
21261732 TACAAGTCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.28
Consensus pattern (18 bp):
AATAGTAATCAGTCCAGT
Found at i:21262099 original size:27 final size:27
Alignment explanation
Indices: 21262044--21262204 Score: 207
Period size: 27 Copynumber: 6.0 Consensus size: 27
21262034 ATATGCATAC
* * *
21262044 ACCACTTAAGGGCAAAACAGTCATCTT
1 ACCACATAAAGGCAAAACAGTCATTTT
* *
21262071 ACC-CTATAAAGGCAAAATAGTTATTTT
1 ACCAC-ATAAAGGCAAAACAGTCATTTT
*
21262098 ACCACATAAAGGCAAAACAATCATTTT
1 ACCACATAAAGGCAAAACAGTCATTTT
* *
21262125 ACCACATAAGGGCAAAACAGTTATTTT
1 ACCACATAAAGGCAAAACAGTCATTTT
* *
21262152 ACCACATAAAGGCAAAACTGTCACTTT
1 ACCACATAAAGGCAAAACAGTCATTTT
*
21262179 ACCACATAAAGGCAAAATAGTCATTT
1 ACCACATAAAGGCAAAACAGTCATTT
21262205 AATTAATTTG
Statistics
Matches: 114, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
26 1 0.01
27 112 0.98
28 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.25
Consensus pattern (27 bp):
ACCACATAAAGGCAAAACAGTCATTTT
Found at i:21268686 original size:39 final size:40
Alignment explanation
Indices: 21268591--21268813 Score: 248
Period size: 39 Copynumber: 5.7 Consensus size: 40
21268581 TTGAATGATG
*
21268591 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
21268629 ATCCGGACTAA-TATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAGT-CCCGAAGGCATTTGTGCGAGATACTAAT
21268670 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
21268709 TCCGGGCTAAG-CCCGTAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
21268748 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
21268787 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
21268814 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 15, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
38 1 0.01
39 91 0.57
40 56 0.35
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:21268785 original size:79 final size:80
Alignment explanation
Indices: 21268591--21268813 Score: 262
Period size: 79 Copynumber: 2.8 Consensus size: 80
21268581 TTGAATGATG
* * * **
21268591 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAATATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTAATATCCGGGCTAA-GCCCGAAGGCAT
*
21268653 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
*
21268670 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAGCCCGTAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-ATTACTAATATCCGGGCTAAGCCCGAAGGCATT
*
21268732 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * *
21268748 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAATATCCGGGCTAAG-CCCGAAGGCATT
21268812 TG
65 TG
21268814 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
78 46 0.37
79 54 0.44
80 23 0.19
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAATATCCGGGCTAAGCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:21268836 original size:79 final size:79
Alignment explanation
Indices: 21268643--21268846 Score: 186
Period size: 79 Copynumber: 2.6 Consensus size: 79
21268633 GGACTAATAT
** * * *
21268643 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGATACT
*
21268706 AATTCCGGGCTAAGC
65 AATACCGGGCTAAGC
* ** * *
21268721 CCGTAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACT
*
21268785 -ATAACCGGGCTATGTC
65 AAT-ACCGGGCTAAG-C
* * *
21268801 CCGAAGGCATTTGAACGAG-GAGCTATATCC-AGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGAGTTAAGTCCCGAAGG
21268847 TACGTGATTT
Statistics
Matches: 107, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
77 1 0.01
78 36 0.34
79 46 0.43
80 24 0.22
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:21270294 original size:47 final size:47
Alignment explanation
Indices: 21270218--21270347 Score: 188
Period size: 47 Copynumber: 2.8 Consensus size: 47
21270208 CTTCGGGACT
* * * * *
21270218 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * *
21270265 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
21270312 TATCACATATATACACTTTCACATTCATCACATCGG
1 TATCACATATATACACTTTCACATTCATCACATCGG
21270348 NNNNNNNNNN
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
Found at i:21279232 original size:39 final size:40
Alignment explanation
Indices: 21279137--21279359 Score: 248
Period size: 39 Copynumber: 5.7 Consensus size: 40
21279127 TTGAATGATG
*
21279137 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
**
21279175 ATCCGAACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
21279216 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
21279255 TCCGGGCTAAG-CCCGTAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
21279294 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
21279333 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
21279360 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 15, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
39 91 0.57
40 57 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:21279331 original size:79 final size:81
Alignment explanation
Indices: 21279137--21279359 Score: 264
Period size: 79 Copynumber: 2.8 Consensus size: 81
21279127 TTGAATGATG
* * ** *
21279137 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGAACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTAATATCCGGGCTAAGACCCGAAGGCAT
*
21279199 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
*
21279216 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-CCCGTAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-ATTACTAATATCCGGGCTAAGACCCGAAGGCAT
*
21279277 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * *
21279294 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAATATCCGGGCTAAGACCCGAAGGCATT
21279358 TG
66 TG
21279360 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
78 46 0.37
79 54 0.44
80 23 0.19
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:21279381 original size:79 final size:79
Alignment explanation
Indices: 21279189--21279392 Score: 204
Period size: 79 Copynumber: 2.6 Consensus size: 79
21279179 GAACTAAGAT
** * *
21279189 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACT
*
21279252 AATTCCGGGCTAAGC
65 AATACCGGGCTAAGC
* ** *
21279267 CCGTAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACT
*
21279331 -ATAACCGGGCTATGTC
65 AAT-ACCGGGCTAAG-C
* * *
21279347 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
21279393 TACGTGATTT
Statistics
Matches: 108, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
77 1 0.01
78 36 0.33
79 47 0.44
80 24 0.22
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:21282913 original size:41 final size:40
Alignment explanation
Indices: 21282778--21282922 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
21282768 CTCGCACAAG
* * * * * *
21282778 GCCTTCGGGTCATAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
21282818 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
21282858 GCCTTC-CGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
*
21282899 GCCTTCGGGACTTAGCCTGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
21282923 CATTCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 2 0.02
40 58 0.66
41 26 0.30
42 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:21284150 original size:38 final size:38
Alignment explanation
Indices: 21284108--21284183 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
21284098 CAAGAACTCC
21284108 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
*
21284146 TTCCTCCTTCCTTAGAATTTTTGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
21284184 AAAGGATGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:21286232 original size:40 final size:40
Alignment explanation
Indices: 21286155--21286379 Score: 256
Period size: 40 Copynumber: 5.6 Consensus size: 40
21286145 AACCCAAGTA
* * * * *
21286155 CCTTCGGGATTTAG-CCGGATACAGTAACTCGCCCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
21286194 CCTTCAGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
21286234 CCTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATG
** * *
21286277 CCTTCGAAACTTCGCCCGGATATAGTCACTAGCACAGATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
** *
21286317 CCTTCGGGACTTAGCCCGGATATAGGAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
21286357 CCTTCGGGACTTAGCCTGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
21286380 TATCCGAATA
Statistics
Matches: 157, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 12 0.08
40 110 0.70
43 34 0.22
44 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:21286275 original size:83 final size:79
Alignment explanation
Indices: 21286155--21286379 Score: 290
Period size: 83 Copynumber: 2.8 Consensus size: 79
21286145 AACCCAAGTA
* * * * *
21286155 CCTTCGGGATTTAG-CCGGATACAGTAACTCGCCCAAATGCCTTCAGGTCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTC-GGACTTAGCCCGGATATAG
21286219 TCACTAGCACAAATG
65 TCACTAGCACAAATG
* * *
21286234 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGAAACTTCGCCCGGATA
1 CCTTCGGGACTTAGCCCGGATATAG-AA--ACTCGCACAAATGCCTTCG-GACTTAGCCCGGATA
*
21286299 TAGTCACTAGCACAGATG
62 TAGTCACTAGCACAAATG
* *
21286317 CCTTCGGGACTTAGCCCGGATATAGGAACTCGCACAAATGCCTTCGGGACTTAGCCTGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTC-GGACTTAGCCCGGATAT
21286380 TATCCGAATA
Statistics
Matches: 126, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
79 13 0.10
80 39 0.31
81 2 0.02
82 2 0.02
83 70 0.56
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGAAACTCGCACAAATGCCTTCGGACTTAGCCCGGATATAGT
CACTAGCACAAATG
Found at i:21295081 original size:45 final size:45
Alignment explanation
Indices: 21295017--21295102 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
21295007 CCAAAACATG
*
21295017 TGTCACATATATCACGAACTCAGACCACAACTCAATGAGTTTGGA
1 TGTCACATATATCACGAACTCAAACCACAACTCAATGAGTTTGGA
* *
21295062 TGTCACATATATCATGAACTCAAACCACGACTCAATGAGTT
1 TGTCACATATATCACGAACTCAAACCACAACTCAATGAGTT
21295103 CAGATCACAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (45 bp):
TGTCACATATATCACGAACTCAAACCACAACTCAATGAGTTTGGA
Found at i:21302026 original size:43 final size:43
Alignment explanation
Indices: 21301823--21302042 Score: 230
Period size: 45 Copynumber: 5.1 Consensus size: 43
21301813 CATGCTATAT
* * * * *
21301823 CATATCGATGCCACTATCCCAGACAAGGTTTTACACG-AATCA
1 CATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAAACA
* *
21301865 AATA-CGATGCCGATGTCCCAGACATGGTCTTACAC-ATAACCACA
1 CATATCGATGCCAATGTCCCAGACATGGTCTTACACGA-AA--ACA
* * *
21301909 TATATCGATGCCAATGTCCCAGACGTGGTCTTACATGAAAACA
1 CATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAAACA
* * * *
21301952 CATATATCGATGCCAACGTCCTAGACGTGGTCTTACACGAGAACA
1 C--ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAAACA
* *
21301997 CATATCGATGCCAATGACCCAAACATGGTCTTACACGAAAACA
1 CATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAAACA
21302040 CAT
1 CAT
21302043 TTTGAAATCT
Statistics
Matches: 148, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
41 26 0.18
42 5 0.03
43 42 0.28
44 5 0.03
45 69 0.47
46 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.22
Consensus pattern (43 bp):
CATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAAACA
Found at i:21302031 original size:88 final size:89
Alignment explanation
Indices: 21301824--21302042 Score: 236
Period size: 88 Copynumber: 2.5 Consensus size: 89
21301814 ATGCTATATC
* * * * * * *
21301824 ATATCGATGCCACT-ATCCCAGACAAGGTTTTACACG-AATCA-A-ATA-CGATGCCGATGTCCC
1 ATATCGATGCCAATGA-CCCAAACATGGTCTTACACGAAAACACATATATCGATGCCAACGTCCC
*
21301884 AGACATGGTCTTACACATAACCACA
65 AGACATGGTCTTACACAGAACCACA
* * * * *
21301909 TATATCGATGCCAATGTCCCAGACGTGGTCTTACATGAAAACACATATATCGATGCCAACGTCCT
1 -ATATCGATGCCAATGACCCAAACATGGTCTTACACGAAAACACATATATCGATGCCAACGTCCC
*
21301974 AGACGTGGTCTTACACGAGAA-CAC-
65 AGACATGGTCTTACAC-AGAACCACA
21301998 ATATCGATGCCAATGACCCAAACATGGTCTTACACGAAAACACAT
1 ATATCGATGCCAATGACCCAAACATGGTCTTACACGAAAACACAT
21302043 TTTGAAATCT
Statistics
Matches: 111, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
86 29 0.26
87 4 0.04
88 42 0.38
89 3 0.03
90 30 0.27
91 3 0.03
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.22
Consensus pattern (89 bp):
ATATCGATGCCAATGACCCAAACATGGTCTTACACGAAAACACATATATCGATGCCAACGTCCCA
GACATGGTCTTACACAGAACCACA
Found at i:21303139 original size:14 final size:15
Alignment explanation
Indices: 21303122--21303150 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
21303112 TCACGAAAAT
21303122 TTCACACAT-ATAAA
1 TTCACACATAATAAA
21303136 TTCACACATAATAAA
1 TTCACACATAATAAA
21303151 CACAGAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:21303224 original size:58 final size:58
Alignment explanation
Indices: 21303153--21303268 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
21303143 ATAATAAACA
*
21303153 CAGAATGTAATTTTAAAATATTTTTTGACTCGAATTCGTGGTCCCGAAACCTCCATTC
1 CAGAATATAATTTTAAAATATTTTTTGACTCGAATTCGTGGTCCCGAAACCTCCATTC
21303211 CAGAATATAATTTTAAAATATTTTTTGACTCGAATTCGTGGTCCCGAAACCTCCATTC
1 CAGAATATAATTTTAAAATATTTTTTGACTCGAATTCGTGGTCCCGAAACCTCCATTC
21303269 TGATTAGGGT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (58 bp):
CAGAATATAATTTTAAAATATTTTTTGACTCGAATTCGTGGTCCCGAAACCTCCATTC
Found at i:21307995 original size:13 final size:13
Alignment explanation
Indices: 21307977--21308001 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21307967 CCGAAACTAG
21307977 AAAGAAAAAAAAC
1 AAAGAAAAAAAAC
21307990 AAAGAAAAAAAA
1 AAAGAAAAAAAA
21308002 ATGCTCATCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.04, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAC
Found at i:21309175 original size:39 final size:40
Alignment explanation
Indices: 21309080--21309341 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
21309070 TTGAATGATG
*
21309080 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
21309118 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
21309159 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
21309198 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
21309237 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
21309276 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
21309315 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
21309342 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:21317109 original size:40 final size:39
Alignment explanation
Indices: 21317078--21317287 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
21317068 GGACTAAGAT
* *
21317078 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
21317118 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
21317158 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
21317198 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
21317238 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
21317277 CCGAAGGCATT
1 CCGAAGGCATT
21317288 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:21317241 original size:120 final size:120
Alignment explanation
Indices: 21317025--21317287 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
21317015 TTGAATGCTG
* *
21317025 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
21317089 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
21317145 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
21317208 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
21317264 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
21317288 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:21317307 original size:79 final size:80
Alignment explanation
Indices: 21317078--21317322 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
21317068 GGACTAAGAT
* * * * * * * ** *
21317078 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
21317141 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
21317158 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
21317223 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
21317238 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
21317302 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
21317316 CCGAAGG
1 CCGAAGG
21317323 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:21319269 original size:18 final size:16
Alignment explanation
Indices: 21319246--21319280 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
21319236 TCTTAAAAAG
21319246 ATAAAAGTAAAAACATAA
1 ATAAAA-TAAAAA-ATAA
21319264 ATAAAATAAAAAATAA
1 ATAAAATAAAAAATAA
21319280 A
1 A
21319281 AGTTTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 6 0.35
18 6 0.35
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (16 bp):
ATAAAATAAAAAATAA
Found at i:21322299 original size:27 final size:27
Alignment explanation
Indices: 21322269--21322446 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
21322259 ATATTGAGTC
* * * *
21322269 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
21322296 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21322323 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
21322351 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
21322378 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
21322405 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21322432 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21322447 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:21322408 original size:82 final size:81
Alignment explanation
Indices: 21322290--21322445 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
21322280 TGCTATATAA
* *
21322290 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
21322355 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
21322372 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
21322436 CACTTAGTGC
65 CACTTAGTGC
21322446 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:21327146 original size:25 final size:25
Alignment explanation
Indices: 21327110--21327158 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
21327100 TAAAGAATTC
21327110 GCACACACAGTGCCTCA-ATTCATTT
1 GCACACACAGTGCCT-ATATTCATTT
*
21327135 GCACACATAGTGCCTATATTCATT
1 GCACACACAGTGCCTATATTCATT
21327159 CGTTATTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.31
Consensus pattern (25 bp):
GCACACACAGTGCCTATATTCATTT
Found at i:21327390 original size:40 final size:40
Alignment explanation
Indices: 21327329--21327642 Score: 538
Period size: 40 Copynumber: 7.8 Consensus size: 40
21327319 CACATCACCG
* * * *
21327329 GCACGAATGCCCTTCAGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACTA
*
21327369 GCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACTA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACTA
21327409 GCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACTA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACTA
*
21327449 GCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACTA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACTA
*
21327489 GCACGAATGCTCTTCGGGACTTAGCTCGGATATAACACTA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACTA
*
21327529 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACTA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACTA
*
21327569 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACTA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACTA
*
21327609 GCACGAATGCTCTTTGGGACTTAGCCCGGATATA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATATA
21327643 TAACTCTCAA
Statistics
Matches: 261, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 261 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
GCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACTA
Found at i:21327553 original size:23 final size:23
Alignment explanation
Indices: 21327527--21327593 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
21327517 GATATAACAC
21327527 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
* * **
21327550 TAGCCCGGATG-T-AAC---AC-
1 TAGCACGAATGCTCTTCGGGACT
21327567 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
21327590 TAGC
1 TAGC
21327594 CCGGATGTAA
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
17 9 0.30
18 3 0.10
19 1 0.03
21 1 0.03
22 3 0.10
23 13 0.43
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (23 bp):
TAGCACGAATGCTCTTCGGGACT
Found at i:21329193 original size:46 final size:46
Alignment explanation
Indices: 21329140--21329276 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
21329130 TATATATACA
* * *
21329140 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
* * *
21329186 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
* ** *
21329232 TATCTCATACACATTTCTTATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATAT
21329277 ATACATGTTC
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.26, C:0.31, G:0.08, T:0.36
Consensus pattern (46 bp):
CATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:21329311 original size:47 final size:47
Alignment explanation
Indices: 21329255--21329491 Score: 321
Period size: 47 Copynumber: 5.0 Consensus size: 47
21329245 TTTCTTATTA
* *
21329255 GCCATTCGGCCTTACCACATATATACATGTTCACATTCCTCACATTG
1 GCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTG
* *
21329302 GCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTG
* **
21329349 GCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTG
* *
21329396 GCCATTCGGCCTTATCACACATATATATACTGGTTCACATTCATCACATTT
1 GCCATTCGGCCTTAT--CACATATATACA-T-GTTCACATTCATCACATTG
* * **
21329447 GCCATTCGGCCTTATCTCATATAGACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACAT
21329492 AAAATCCTAC
Statistics
Matches: 169, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
47 118 0.70
49 17 0.10
50 1 0.01
51 33 0.20
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTG
Found at i:21333381 original size:47 final size:47
Alignment explanation
Indices: 21333327--21333520 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
21333317 TTAGGATTTT
** * *
21333327 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
21333374 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAGTGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
21333421 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
21333468 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
21333515 ATGTGA
1 ATGTGA
21333521 AATATGTATG
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:21333554 original size:48 final size:48
Alignment explanation
Indices: 21333491--21333625 Score: 218
Period size: 49 Copynumber: 2.8 Consensus size: 48
21333481 GAACATGCAT
21333491 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
* *
21333539 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATTATATGAGATATGT
1 ATATGTGGTAAAGCCGAATGGCT-AATGTGAAATA-TGTATGAGATATGC
*
21333588 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
21333626 GGCGATGTGC
Statistics
Matches: 80, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
47 1 0.01
48 35 0.44
49 43 0.54
50 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (48 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:21333938 original size:37 final size:37
Alignment explanation
Indices: 21333848--21333938 Score: 146
Period size: 37 Copynumber: 2.5 Consensus size: 37
21333838 GTGGATGATG
* * *
21333848 ACTATGTGTGGAGATTATGTCCGGGTAAGACCCGATG
1 ACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGATA
21333885 ACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGATA
1 ACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGATA
*
21333922 ACTTCGTGTGGAGATTT
1 ACTACGTGTGGAGATTT
21333939 CATCTGAGCT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (37 bp):
ACTACGTGTGGAGATTTTGTCCGGGTAAGACCCGATA
Found at i:21342610 original size:49 final size:49
Alignment explanation
Indices: 21341262--21342567 Score: 2361
Period size: 49 Copynumber: 26.9 Consensus size: 49
21341252 GAAATGATAG
*
21341262 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
*
21341309 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
*
21341358 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
21341407 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
21341456 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
21341505 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
21341554 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
21341603 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
21341652 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
21341701 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
21341750 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
21341799 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
21341848 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
21341897 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
21341946 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
21341995 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
21342044 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
*
21342093 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
* *
21342142 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
21342191 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
*
21342238 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
*
21342287 T--GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
* *
21342332 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
* *
21342379 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
* * *
21342426 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
*
21342475 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
*
21342522 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
21342568 TGACAGGGCT
Statistics
Matches: 1235, Mismatches: 14, Indels: 18
0.97 0.01 0.01
Matches are distributed among these distances:
45 12 0.01
47 286 0.23
49 937 0.76
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGAGA
Found at i:21342796 original size:37 final size:37
Alignment explanation
Indices: 21342740--21342818 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
21342730 CCGAGCTCTA
* * *
21342740 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
21342777 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
21342814 AAGAC
1 AAGAC
21342819 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:21344332 original size:46 final size:46
Alignment explanation
Indices: 21344179--21344339 Score: 186
Period size: 46 Copynumber: 3.5 Consensus size: 46
21344169 GGGTGTTACA
* ***
21344179 GACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCG
1 GACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCG
* * *
21344225 GACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-CGAACTCG
1 GACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATAAGTGAACTCG
21344272 GACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCG
1 GACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCG
21344318 GACTCAACTCAACGAGTTCGGA
1 GACTCAACTCAACGAGTTCGGA
21344340 TGCTCAACCA
Statistics
Matches: 96, Mismatches: 10, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 49 0.51
47 29 0.30
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
GACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCG
Found at i:21345722 original size:17 final size:18
Alignment explanation
Indices: 21345681--21345723 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
21345671 TGTATTTACT
21345681 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
21345699 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
21345716 TATTATAT
1 TATTATAT
21345724 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:21345734 original size:18 final size:17
Alignment explanation
Indices: 21345711--21345747 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
21345701 ATATAAAGTA
*
21345711 AATTATATTATATTATAT
1 AATTATAATATATTA-AT
21345729 AATTATAATATATTAAT
1 AATTATAATATATTAAT
21345746 AA
1 AA
21345748 AATAAAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTATAATATATTAAT
Found at i:21353029 original size:17 final size:18
Alignment explanation
Indices: 21352988--21353030 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
21352978 TGTATTTACT
21352988 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
21353006 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
21353023 TATTATAT
1 TATTATAT
21353031 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:21353041 original size:18 final size:17
Alignment explanation
Indices: 21353018--21353054 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
21353008 ATATAAAGTA
*
21353018 AATTATATTATATTATAT
1 AATTATAATATATTA-AT
21353036 AATTATAATATATTAAT
1 AATTATAATATATTAAT
21353053 AA
1 AA
21353055 AATAAAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTATAATATATTAAT
Found at i:21361409 original size:42 final size:39
Alignment explanation
Indices: 21361343--21361486 Score: 153
Period size: 40 Copynumber: 3.6 Consensus size: 39
21361333 CGACAAATCA
* ** * *
21361343 GCTATATGTGGCACTTAAAGTGCGATTCGACATAGCTTCA
1 GCTATATATGGCACTTAGTGTGCGATT-GAGATAGCTTCG
*
21361383 GCTATACATATGGCACTTAGTGTGCGACTTGAGATAGCTTTG
1 GCTAT--ATATGGCACTTAGTGTGCGA-TTGAGATAGCTTCG
*
21361425 GCTATATATGGCACTTAGTGTGCAATTTGAGATAGCTTCG
1 GCTATATATGGCACTTAGTGTGCGA-TTGAGATAGCTTCG
* * *
21361465 GCTATGTACGACACTTAGTGTG
1 GCTATATATGGCACTTAGTGTG
21361487 TGAGATATTG
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
40 56 0.63
42 31 0.35
43 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (39 bp):
GCTATATATGGCACTTAGTGTGCGATTGAGATAGCTTCG
Found at i:21383833 original size:28 final size:29
Alignment explanation
Indices: 21383792--21383848 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
21383782 ATTTTACAAT
*
21383792 TTAACCCCTCAATTTACACTTTTCTCAAA
1 TTAACCCCTCAATTGACACTTTTCTCAAA
* * *
21383821 TTAATCCCT-AATTGACATTTTTGTCAAA
1 TTAACCCCTCAATTGACACTTTTCTCAAA
21383849 AATCACTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.40
Consensus pattern (29 bp):
TTAACCCCTCAATTGACACTTTTCTCAAA
Found at i:21386761 original size:42 final size:42
Alignment explanation
Indices: 21386703--21386851 Score: 178
Period size: 42 Copynumber: 3.5 Consensus size: 42
21386693 GTTCCAATGT
* *
21386703 CATATTCC-AGATATGGTCTCACATGGAA-TCTCATATCGA-GC
1 CATA-TCCTAGATATGGTCTTACA-CGAAGTCTCATATCGATGC
* * *
21386744 CAATAGCCTAGCTATGGTCTTACACGAAGTCTCATATTGATGC
1 C-ATATCCTAGATATGGTCTTACACGAAGTCTCATATCGATGC
* * *
21386787 CATATCCCAGATATGGTCTTACACGAAGTATCATAACGATGC
1 CATATCCTAGATATGGTCTTACACGAAGTCTCATATCGATGC
21386829 CATATCCTAGATATGGTCTTACA
1 CATATCCTAGATATGGTCTTACA
21386852 TGTAATCTCA
Statistics
Matches: 92, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
41 6 0.07
42 83 0.90
43 3 0.03
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (42 bp):
CATATCCTAGATATGGTCTTACACGAAGTCTCATATCGATGC
Found at i:21388390 original size:14 final size:13
Alignment explanation
Indices: 21388358--21388396 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
21388348 GTTTATTTTA
*
21388358 ATTAATTAAA-AT
1 ATTAATAAAATAT
21388370 ATTAATAAAATAT
1 ATTAATAAAATAT
21388383 ATTTAATAAAATAT
1 A-TTAATAAAATAT
21388397 TGTTAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 9 0.38
13 3 0.12
14 12 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
ATTAATAAAATAT
Found at i:21388394 original size:25 final size:26
Alignment explanation
Indices: 21388359--21388417 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
21388349 TTTATTTTAA
21388359 TTAATTAAAATATTAATAAAAT-ATAT
1 TTAA-TAAAATATTAATAAAATAATAT
**
21388385 TTAATAAAATATTGTTAAAATAATAT
1 TTAATAAAATATTAATAAAATAATAT
*
21388411 TAAATAA
1 TTAATAA
21388418 TTTTAGATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 15 0.52
26 14 0.48
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (26 bp):
TTAATAAAATATTAATAAAATAATAT
Found at i:21391107 original size:41 final size:41
Alignment explanation
Indices: 21391050--21391172 Score: 176
Period size: 41 Copynumber: 2.9 Consensus size: 41
21391040 GTAGTAGTGA
21391050 AATTAAATGGGAGGGTAAGAGAATAAAAAATTTTATAAATC
1 AATTAAATGGGAGGGTAAGAGAATAAAAAATTTTATAAATC
*
21391091 AATTAAATGGGAGGGTAAGAGAAT-AAAATTTTGTATAAATC
1 AATTAAATGGGAGGGTAAGAGAATAAAAAATTT-TATAAATC
*
21391132 AATTAAATGGGAGGGTATTAGAGATAATAAAAAATTGTATA
1 AATTAAATGGGAGGGTA--AGAG--AATAAAAAATTTTATA
21391173 GTTCAGAGGA
Statistics
Matches: 73, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
40 7 0.10
41 49 0.67
43 4 0.05
45 7 0.10
46 6 0.08
ACGTcount: A:0.49, C:0.02, G:0.21, T:0.28
Consensus pattern (41 bp):
AATTAAATGGGAGGGTAAGAGAATAAAAAATTTTATAAATC
Found at i:21392497 original size:20 final size:20
Alignment explanation
Indices: 21392472--21392510 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
21392462 TATAATTAAT
*
21392472 TATTGATGAAAATGGATATA
1 TATTGATAAAAATGGATATA
21392492 TATTGATAAAAATGGATAT
1 TATTGATAAAAATGGATAT
21392511 GGATTTCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.18, T:0.36
Consensus pattern (20 bp):
TATTGATAAAAATGGATATA
Found at i:21394096 original size:45 final size:45
Alignment explanation
Indices: 21394027--21394157 Score: 183
Period size: 45 Copynumber: 2.9 Consensus size: 45
21394017 ATGAAATCTA
*
21394027 AACTCATTTGAGTTGTGGTCTGAGTTCATGATATATGTGACGTCCG
1 AACTCA-TTGAGTTGTGGTATGAGTTCATGATATATGTGACGTCCG
* * *
21394073 AACTCATTGAGTTGTGGTTTGAGTTCATGATATATGTGATGTCTG
1 AACTCATTGAGTTGTGGTATGAGTTCATGATATATGTGACGTCCG
* *
21394118 AATTCATTGAGTTGTGATATGAGTT-AGTGATATATGTGAC
1 AACTCATTGAGTTGTGGTATGAGTTCA-TGATATATGTGAC
21394158 ACATGTTTTG
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
44 1 0.01
45 70 0.91
46 6 0.08
ACGTcount: A:0.24, C:0.10, G:0.26, T:0.40
Consensus pattern (45 bp):
AACTCATTGAGTTGTGGTATGAGTTCATGATATATGTGACGTCCG
Found at i:21394401 original size:15 final size:15
Alignment explanation
Indices: 21394369--21394397 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
21394359 ATTTTTAGTG
21394369 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
21394384 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
21394398 ATTTTCGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:21394740 original size:27 final size:27
Alignment explanation
Indices: 21394709--21394760 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
21394699 AAAAGAAAGA
21394709 AAGAAAAGAAAGCTTTAGGTATTCGAC
1 AAGAAAAGAAAGCTTTAGGTATTCGAC
21394736 AAGAAAAGAAAGCTTTAGGTATTCG
1 AAGAAAAGAAAGCTTTAGGTATTCG
21394761 GCACTTTGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.23
Consensus pattern (27 bp):
AAGAAAAGAAAGCTTTAGGTATTCGAC
Found at i:21395506 original size:43 final size:43
Alignment explanation
Indices: 21395442--21395613 Score: 158
Period size: 43 Copynumber: 4.0 Consensus size: 43
21395432 CATAGGATTT
* *
21395442 TCGATATGTG-TTCTCGTGTAAGACCACGTCTAGGACGTTGGCA
1 TCGATATGTGATT-TCGAGTAAGACCACGTCTGGGACGTTGGCA
* * *
21395485 TTGATATGTGATTTCGAGTAAGACCATGTCTGGGACATTGGCA
1 TCGATATGTGATTTCGAGTAAGACCACGTCTGGGACGTTGGCA
* * *
21395528 TCG-TAATTGTGA-TTCGTGTAAGACC-TGTCTGGAACAG-TGGCA
1 TCGAT-A-TGTGATTTCGAGTAAGACCACGTCTGGGAC-GTTGGCA
* * *
21395570 TCGACATGTGATTAC-ATGTAAGACCACGTATGGGACGTTGGCA
1 TCGATATGTGATTTCGA-GTAAGACCACGTCTGGGACGTTGGCA
21395613 T
1 T
21395614 TGTACGATAT
Statistics
Matches: 105, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
41 5 0.05
42 30 0.29
43 63 0.60
44 7 0.07
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (43 bp):
TCGATATGTGATTTCGAGTAAGACCACGTCTGGGACGTTGGCA
Found at i:21395580 original size:85 final size:86
Alignment explanation
Indices: 21395455--21395613 Score: 200
Period size: 85 Copynumber: 1.9 Consensus size: 86
21395445 ATATGTGTTC
* * * * *
21395455 TCGTGTAAGACCACGTCTAGGACGTTGGCATTGATATGTGATTTCGA-GTAAGACCATGTCTGGG
1 TCGTGTAAGACCACGTCTAGGACGTTGGCATCGACATGTGATTAC-ATGTAAGACCACGTATGGG
21395519 ACATTGGCATCGTAATTGTGAT
65 ACATTGGCATCGTAATTGTGAT
*
21395541 TCGTGTAAGACC-TGTCT-GGAACAG-TGGCATCGACATGTGATTACATGTAAGACCACGTATGG
1 TCGTGTAAGACCACGTCTAGG-AC-GTTGGCATCGACATGTGATTACATGTAAGACCACGTATGG
*
21395603 GACGTTGGCAT
64 GACATTGGCAT
21395614 TGTACGATAT
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
84 3 0.05
85 47 0.75
86 13 0.21
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (86 bp):
TCGTGTAAGACCACGTCTAGGACGTTGGCATCGACATGTGATTACATGTAAGACCACGTATGGGA
CATTGGCATCGTAATTGTGAT
Found at i:21398547 original size:14 final size:14
Alignment explanation
Indices: 21398507--21398570 Score: 76
Period size: 14 Copynumber: 4.6 Consensus size: 14
21398497 ACCTAAACCG
*
21398507 ACCAATTCATTCAT
1 ACCATTTCATTCAT
* *
21398521 ACCCCTTT-GTTCAT
1 A-CCATTTCATTCAT
21398535 ACCATTTCATTCAT
1 ACCATTTCATTCAT
*
21398549 ACCATTTCGTTCAT
1 ACCATTTCATTCAT
21398563 ACCATTTC
1 ACCATTTC
21398571 GACCATTCTT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
13 5 0.12
14 33 0.79
15 4 0.10
ACGTcount: A:0.25, C:0.31, G:0.03, T:0.41
Consensus pattern (14 bp):
ACCATTTCATTCAT
Found at i:21398547 original size:28 final size:28
Alignment explanation
Indices: 21398507--21398570 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
21398497 ACCTAAACCG
* *
21398507 ACCAATTCATTCATACCCCTTT-GTTCAT
1 ACCATTTCATTCATA-CCATTTCGTTCAT
21398535 ACCATTTCATTCATACCATTTCGTTCAT
1 ACCATTTCATTCATACCATTTCGTTCAT
21398563 ACCATTTC
1 ACCATTTC
21398571 GACCATTCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 5 0.15
28 28 0.85
ACGTcount: A:0.25, C:0.31, G:0.03, T:0.41
Consensus pattern (28 bp):
ACCATTTCATTCATACCATTTCGTTCAT
Found at i:21398571 original size:14 final size:14
Alignment explanation
Indices: 21398516--21398571 Score: 78
Period size: 14 Copynumber: 4.0 Consensus size: 14
21398506 GACCAATTCA
*
21398516 TTCATACCCCTTT-G
1 TTCATA-CCATTTCG
*
21398530 TTCATACCATTTCA
1 TTCATACCATTTCG
21398544 TTCATACCATTTCG
1 TTCATACCATTTCG
21398558 TTCATACCATTTCG
1 TTCATACCATTTCG
21398572 ACCATTCTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
13 5 0.13
14 33 0.87
ACGTcount: A:0.21, C:0.30, G:0.05, T:0.43
Consensus pattern (14 bp):
TTCATACCATTTCG
Found at i:21399788 original size:51 final size:50
Alignment explanation
Indices: 21399712--21399813 Score: 150
Period size: 51 Copynumber: 2.0 Consensus size: 50
21399702 ATGTCAAATG
* * * *
21399712 TATGTTTGAACAATATGATTTCTTATATTTCTCTTTTAAGTTATCGTAGAA
1 TATGTTTCAACAACAAGATTTCTTATATTTCT-ATTTAAGTTATCGTAGAA
*
21399763 TATGTTTCAACAACAAGATTTCTTATATTTCTATTTAAGTTATTGTAGAA
1 TATGTTTCAACAACAAGATTTCTTATATTTCTATTTAAGTTATCGTAGAA
21399813 T
1 T
21399814 GTATTAAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
50 17 0.37
51 29 0.63
ACGTcount: A:0.31, C:0.10, G:0.11, T:0.48
Consensus pattern (50 bp):
TATGTTTCAACAACAAGATTTCTTATATTTCTATTTAAGTTATCGTAGAA
Found at i:21405511 original size:17 final size:17
Alignment explanation
Indices: 21405489--21405528 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
21405479 CAATTCGCCA
* *
21405489 TTTGGCGAACTTTAAGT
1 TTTGGCGAACTCTAAGG
*
21405506 TTTGGCGAGCTCTAAGG
1 TTTGGCGAACTCTAAGG
21405523 TTTGGC
1 TTTGGC
21405529 AGACTTTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.17, C:0.15, G:0.30, T:0.38
Consensus pattern (17 bp):
TTTGGCGAACTCTAAGG
Found at i:21405929 original size:31 final size:31
Alignment explanation
Indices: 21405891--21405952 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
21405881 TGAAGGTTCG
21405891 TAGTATTTAGCTAACATCCACATTAGTACCA
1 TAGTATTTAGCTAACATCCACATTAGTACCA
* *
21405922 TAGTATTTAGCTAACATCTACGTTAGTACCA
1 TAGTATTTAGCTAACATCCACATTAGTACCA
21405953 ACTCCCAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (31 bp):
TAGTATTTAGCTAACATCCACATTAGTACCA
Found at i:21408009 original size:24 final size:24
Alignment explanation
Indices: 21407977--21408043 Score: 98
Period size: 24 Copynumber: 2.8 Consensus size: 24
21407967 TAAGCTAATG
* * *
21407977 AACAATAAGCTCTATCGAGCTGGA
1 AACAGTAAGCTCTAACGAGCTGAA
21408001 AACAGTAAGCTCTAACGAGCTGAA
1 AACAGTAAGCTCTAACGAGCTGAA
*
21408025 AACAGTAAGCTCTTACGAG
1 AACAGTAAGCTCTAACGAG
21408044 TTGATATATC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (24 bp):
AACAGTAAGCTCTAACGAGCTGAA
Found at i:21416920 original size:22 final size:24
Alignment explanation
Indices: 21416877--21416927 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
21416867 TTTCACCCTT
* * *
21416877 AAAATCGTAACCTTAATTCCTAA-
1 AAAATCCTAACCCTAATCCCTAAC
21416900 AAAATCCTAACCCTAA-CCCTAAC
1 AAAATCCTAACCCTAATCCCTAAC
21416923 AAAAT
1 AAAAT
21416928 TAAAAAATCC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATCCTAACCCTAATCCCTAAC
Found at i:21416935 original size:31 final size:33
Alignment explanation
Indices: 21416897--21416968 Score: 94
Period size: 31 Copynumber: 2.2 Consensus size: 33
21416887 CCTTAATTCC
*
21416897 TAAAAAATCCTAACCCTAACCC-TAACAAAA-T
1 TAAAAAATCCTAACCCTAACCCTTAAAAAAAGT
* *
21416928 TAAAAAATCCTCATCCTAACCCTTAAAAAAAGT
1 TAAAAAATCCTAACCCTAACCCTTAAAAAAAGT
21416961 TAAGAAAA
1 TAA-AAAA
21416969 GAGAGAGTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
31 20 0.57
32 7 0.20
33 4 0.11
34 4 0.11
ACGTcount: A:0.53, C:0.24, G:0.03, T:0.21
Consensus pattern (33 bp):
TAAAAAATCCTAACCCTAACCCTTAAAAAAAGT
Found at i:21417923 original size:30 final size:30
Alignment explanation
Indices: 21417889--21417949 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
21417879 ATTTTATTGT
*
21417889 TAATTTTGTTATTATTTTAAAGGCATTTGC
1 TAATTTTGTTATTATCTTAAAGGCATTTGC
*
21417919 TAATTTTGTTATTATCTTAGAGGCATTTGC
1 TAATTTTGTTATTATCTTAAAGGCATTTGC
21417949 T
1 T
21417950 TATTAAGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.08, G:0.15, T:0.52
Consensus pattern (30 bp):
TAATTTTGTTATTATCTTAAAGGCATTTGC
Found at i:21418656 original size:126 final size:126
Alignment explanation
Indices: 21418431--21418871 Score: 697
Period size: 126 Copynumber: 3.5 Consensus size: 126
21418421 TAATTAAATT
* *
21418431 AGGATGCACTGTCAGCAAAATTACTG-AAAAAGCTTCCACGTGGATGCTCTTTTGCTACAGTAGT
1 AGGATGCACTATCAGCAAAATTACTGAAAAAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGT
* * *
21418495 ATTTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTTCAAAACGCTTCAAGC
66 ATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACACTTCAAGC
* * *
21418556 AGGATGCACTGTCAGTAAAATTACTGAAAAAAGCTTCTACGTGGACGCTCTTTTGCTACAGTAGT
1 AGGATGCACTATCAGCAAAATTACTGAAAAAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGT
* *
21418621 ATCTGAAAAAATAATTTTGAGAAGATGTTTTTGAACAAATAGTGTCCAAAACACTTCAAGC
66 ATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACACTTCAAGC
* * * *
21418682 AGGATGCACTATCAGCAAAATTACTGAAAAAAGCTTCTACGTAGACGCTCTTTTGCTACAATAAT
1 AGGATGCACTATCAGCAAAATTACTGAAAAAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGT
* *
21418747 ATCTAAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACACGTCAAGC
66 ATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACACTTCAAGC
* * *
21418808 AGGATGCACTATCAGCAGAATTACTAAAAAAAGC-CCCACGTGGACGCTCTTTTGCTACAGTAGT
1 AGGATGCACTATCAGCAAAATTACTGAAAAAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGT
21418872 TCCTATTTGG
Statistics
Matches: 291, Mismatches: 24, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
125 50 0.17
126 241 0.83
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (126 bp):
AGGATGCACTATCAGCAAAATTACTGAAAAAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGT
ATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACACTTCAAGC
Found at i:21422430 original size:18 final size:18
Alignment explanation
Indices: 21422404--21422446 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
21422394 GACTAGGAAA
* * *
21422404 AGGAAACATATAAGGGTT
1 AGGATACATATAAAGGCT
21422422 AGGATACATATAAAGGCT
1 AGGATACATATAAAGGCT
21422440 AGGATAC
1 AGGATAC
21422447 GCACTTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAAGGCT
Found at i:21424156 original size:21 final size:20
Alignment explanation
Indices: 21424132--21424179 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
21424122 CTTTTTTGCA
21424132 AAAATT-AAAGAAAGCTTTGAG
1 AAAATTGAAAGAAA--TTTGAG
21424153 AAAATTTGAAAGAAATTTGAG
1 AAAA-TTGAAAGAAATTTGAG
*
21424174 AGAATT
1 AAAATT
21424180 TGGAGAGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 2 0.08
21 13 0.54
22 2 0.08
23 7 0.29
ACGTcount: A:0.52, C:0.02, G:0.19, T:0.27
Consensus pattern (20 bp):
AAAATTGAAAGAAATTTGAG
Found at i:21424180 original size:21 final size:21
Alignment explanation
Indices: 21424138--21424201 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 21
21424128 TGCAAAAATT
*
21424138 AAAGAAAGCTTTGAGAAAATTTG
1 AAAGAAA--TTTGAGAGAATTTG
21424161 AAAGAAATTTGAGAGAATTTG
1 AAAGAAATTTGAGAGAATTTG
*
21424182 -GAGAGAATTTAGAGAGAATT
1 AAAGA-AATTT-GAGAGAATT
21424202 ATGAGATGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
20 3 0.08
21 18 0.49
22 9 0.24
23 7 0.19
ACGTcount: A:0.47, C:0.02, G:0.25, T:0.27
Consensus pattern (21 bp):
AAAGAAATTTGAGAGAATTTG
Found at i:21424195 original size:9 final size:10
Alignment explanation
Indices: 21424147--21424207 Score: 68
Period size: 11 Copynumber: 5.7 Consensus size: 10
21424137 TAAAGAAAGC
*
21424147 TTTGAGAAAA
1 TTTGAGAGAA
*
21424157 TTTGAAAGAAA
1 TTTGAGAG-AA
21424168 TTTGAGAGAA
1 TTTGAGAGAA
21424178 TTTGGAGAGAA
1 TTT-GAGAGAA
21424189 TTTAGAGAGAA
1 TTT-GAGAGAA
21424200 TTATGAGA
1 TT-TGAGA
21424208 TGACTTTTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
10 11 0.25
11 32 0.73
12 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.30
Consensus pattern (10 bp):
TTTGAGAGAA
Found at i:21427481 original size:71 final size:71
Alignment explanation
Indices: 21427402--21427562 Score: 295
Period size: 71 Copynumber: 2.3 Consensus size: 71
21427392 CGTTTTGCCT
* * *
21427402 TTATTTTGATATGGATCTTCTTCCAATTTGTTCTCATTGAAGATTAATGCTGCCGTTGTGTAAAT
1 TTATTTTGATATGGATCTTCTGCCAATTGGTTCTCATGGAAGATTAATGCTGCCGTTGTGTAAAT
21427467 TTAATA
66 TTAATA
21427473 TTATTTTGATATGGATCTTCTGCCAATTGGTTCTCATGGAAGATTAATGCTGCCGTTGTGTAAAT
1 TTATTTTGATATGGATCTTCTGCCAATTGGTTCTCATGGAAGATTAATGCTGCCGTTGTGTAAAT
21427538 TTAATA
66 TTAATA
21427544 TTATTTTGATATGGATCTT
1 TTATTTTGATATGGATCTT
21427563 GATCTTTATT
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 87 1.00
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (71 bp):
TTATTTTGATATGGATCTTCTGCCAATTGGTTCTCATGGAAGATTAATGCTGCCGTTGTGTAAAT
TTAATA
Found at i:21431744 original size:24 final size:24
Alignment explanation
Indices: 21431699--21431745 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
21431689 AAATATGAGT
*
21431699 AGGAAAGAATTCAACTTGAGATTG
1 AGGAAAGAATTAAACTTGAGATTG
21431723 AGGAAAGAATTGAAACTT-AGATT
1 AGGAAAGAATT-AAACTTGAGATT
21431746 TAAAGGATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.45, C:0.06, G:0.23, T:0.26
Consensus pattern (24 bp):
AGGAAAGAATTAAACTTGAGATTG
Found at i:21432431 original size:24 final size:24
Alignment explanation
Indices: 21432403--21432484 Score: 74
Period size: 24 Copynumber: 3.2 Consensus size: 24
21432393 TTAACGGTTT
*
21432403 ATTTTAAATGTTGAATATTATTTA
1 ATTTTAAATTTTGAATATTATTTA
** *
21432427 ATTTTTTTTCATTTATGTAATATTAATTA
1 A---TTTTAAATTT-TG-AATATTATTTA
*
21432456 ATTTTAATTTTTGAATATTATTTA
1 ATTTTAAATTTTGAATATTATTTA
21432480 ATTTT
1 ATTTT
21432485 TTTCATTTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
24 16 0.36
25 2 0.04
26 7 0.16
27 7 0.16
28 2 0.04
29 11 0.24
ACGTcount: A:0.33, C:0.01, G:0.05, T:0.61
Consensus pattern (24 bp):
ATTTTAAATTTTGAATATTATTTA
Found at i:21432503 original size:24 final size:24
Alignment explanation
Indices: 21432423--21432506 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 24
21432413 TTGAATATTA
21432423 TTTAATTTTTTTTCATTTATGTAAT
1 TTTAA-TTTTTTTCATTTATGTAAT
* * * * *
21432448 ATTAATTAATTTTAATTTTTGAATATT
1 TTTAATT-TTTTTCATTTATG--TAAT
21432475 ATTTAATTTTTTTCATTTATGTAAT
1 -TTTAATTTTTTTCATTTATGTAAT
21432500 TTTAATT
1 TTTAATT
21432507 AATTTGTATT
Statistics
Matches: 45, Mismatches: 10, Indels: 9
0.70 0.16 0.14
Matches are distributed among these distances:
24 9 0.20
25 17 0.38
27 13 0.29
28 6 0.13
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (24 bp):
TTTAATTTTTTTCATTTATGTAAT
Found at i:21432518 original size:52 final size:53
Alignment explanation
Indices: 21432403--21432511 Score: 184
Period size: 52 Copynumber: 2.1 Consensus size: 53
21432393 TTAACGGTTT
* *
21432403 ATTTTAAATGTTGAATATTATTTAATTTTTTTTCATTTATGTAATATTAATTA
1 ATTTTAATTTTTGAATATTATTTAATTTTTTTTCATTTATGTAATATTAATTA
*
21432456 ATTTTAATTTTTGAATATTATTTAA-TTTTTTTCATTTATGTAATTTTAATTA
1 ATTTTAATTTTTGAATATTATTTAATTTTTTTTCATTTATGTAATATTAATTA
21432508 ATTT
1 ATTT
21432512 GTATTTTATA
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
52 30 0.57
53 23 0.43
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (53 bp):
ATTTTAATTTTTGAATATTATTTAATTTTTTTTCATTTATGTAATATTAATTA
Found at i:21434011 original size:30 final size:30
Alignment explanation
Indices: 21433963--21434046 Score: 114
Period size: 30 Copynumber: 2.8 Consensus size: 30
21433953 GGGACGGGTG
* *
21433963 CATCAACAGCGCCCACACAATCACCGGGCC
1 CATCAACAGTGCCTACACAATCACCGGGCC
* *
21433993 CATCAATAGTGCCTACACAATCATCGGGCC
1 CATCAACAGTGCCTACACAATCACCGGGCC
**
21434023 CATCAACAGTATCTACACAATCAC
1 CATCAACAGTGCCTACACAATCAC
21434047 TAGGCCCAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.33, C:0.38, G:0.13, T:0.15
Consensus pattern (30 bp):
CATCAACAGTGCCTACACAATCACCGGGCC
Done.