Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000851.1 Hibiscus syriacus cultivar Beakdansim tig00001644_pilon, whole genome shotgun sequence
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: 7304151
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 24 of 31
Found at i:5624986 original size:45 final size:45
Alignment explanation
Indices: 5624930--5625033 Score: 136
Period size: 45 Copynumber: 2.3 Consensus size: 45
5624920 CCGAAGGCTT
* ** *
5624930 TTTTGAAAACATCCTGCACTATAGGTCTTATGGATGACCCGAAGG
1 TTTTGAAAACATCATGCACTATAGGTCTTACAGATGACCCGAAGA
* * *
5624975 TTTTGAAAACATCATGCACTGTAGGTCTTACAGATGTCTCGAAGA
1 TTTTGAAAACATCATGCACTATAGGTCTTACAGATGACCCGAAGA
*
5625020 TTTTGAAAATATCA
1 TTTTGAAAACATCA
5625034 AAAAGCTTCT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (45 bp):
TTTTGAAAACATCATGCACTATAGGTCTTACAGATGACCCGAAGA
Found at i:5625116 original size:45 final size:45
Alignment explanation
Indices: 5625051--5625148 Score: 151
Period size: 45 Copynumber: 2.2 Consensus size: 45
5625041 TCTAAAGGCT
* *
5625051 TTTTGAAAACATTATACACTGTAGGTCTTACAAATGTCCTGAAGG
1 TTTTGAAAACATCATACACTGTAGGTCTTACAAATGTCCCGAAGG
* * *
5625096 TTTTGAAAACATCCTGCACTGTAGGTCTTACAGATGTCCCGAAGG
1 TTTTGAAAACATCATACACTGTAGGTCTTACAAATGTCCCGAAGG
5625141 TTTTGAAA
1 TTTTGAAA
5625149 TTATCAAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (45 bp):
TTTTGAAAACATCATACACTGTAGGTCTTACAAATGTCCCGAAGG
Found at i:5625139 original size:121 final size:121
Alignment explanation
Indices: 5624843--5625230 Score: 578
Period size: 121 Copynumber: 3.2 Consensus size: 121
5624833 TCAAAAAGCT
5624843 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGTCCCGAAGGTTTTGAAAAT
1 CCCGAAGG--TTTTGAAAACATCATGCACTGTAGGTCTTACAGATGTCCCGAAGGTTTTGAAAAT
* * * * *
5624908 ATCAAAAAGCTCCCGAAGGCTTTTTTGAAAACATCCTGCACTATAGGTCTTATGGATGA
64 ATCAAAAAGCTACCAAAGGC-TTTTTGAAAACATCATACACTGTAGGTCTTATGGATGA
* *
5624967 CCCGAAGGTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGTCTCGAAGATTTTGAAAATAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGTCCCGAAGGTTTTGAAAATAT
* * * *** *
5625032 CAAAAAGCTTCTAAAGGCTTTTTGAAAACATTATACACTGTAGGTCTTACAAATGT
66 CAAAAAGCTACCAAAGGCTTTTTGAAAACATCATACACTGTAGGTCTTATGGATGA
* * *
5625088 CCTGAAGGTTTTGAAAACATCCTGCACTGTAGGTCTTACAGATGTCCCGAAGGTTTTGAAATTAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGTCCCGAAGGTTTTGAAAATAT
*
5625153 CAAAAAGCTACCAAAGGCTTTGTGAAAACATCATACACTGTAGGTCTTATGGATGA
66 CAAAAAGCTACCAAAGGCTTTTTGAAAACATCATACACTGTAGGTCTTATGGATGA
*
5625209 CCCGAAGGTTTTGAAAATATCA
1 CCCGAAGGTTTTGAAAACATCA
5625231 AAAAGCTCCC
Statistics
Matches: 235, Mismatches: 29, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
121 157 0.67
122 70 0.30
124 8 0.03
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (121 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGTCCCGAAGGTTTTGAAAATAT
CAAAAAGCTACCAAAGGCTTTTTGAAAACATCATACACTGTAGGTCTTATGGATGA
Found at i:5625230 original size:76 final size:75
Alignment explanation
Indices: 5625092--5625305 Score: 315
Period size: 76 Copynumber: 2.9 Consensus size: 75
5625082 AAATGTCCTG
* *
5625092 AAGG-TTTTGAAAACATCCTGCACTGTAGGTCTTACAGATGTCCCGAAGGTTTTGAAATTATCAA
1 AAGGCTTTTGAAAACATCCTGCACTGTAGGTCTTACAGATGACCCGAAGGTTTTGAAAATATCAA
5625156 AAAGCTACCA
66 AAAGCTACCA
* * **
5625166 AAGGCTTTGTGAAAACATCATACACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAAAATATCA
1 AAGGCTTT-TGAAAACATCCTGCACTGTAGGTCTTACAGATGACCCGAAGGTTTTGAAAATATCA
* *
5625231 AAAAGCTCCCG
65 AAAAGCTACCA
*
5625242 AAGGCTTTTTGAAAACATCCTGCACTGTA-GTCTTACAGATGACCCGAAGGTTTTGAAAACATCA
1 AAGGC-TTTTGAAAACATCCTGCACTGTAGGTCTTACAGATGACCCGAAGGTTTTGAAAATATCA
5625306 TACACTGTAG
Statistics
Matches: 124, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
74 4 0.03
75 35 0.28
76 82 0.66
77 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (75 bp):
AAGGCTTTTGAAAACATCCTGCACTGTAGGTCTTACAGATGACCCGAAGGTTTTGAAAATATCAA
AAAGCTACCA
Found at i:5625303 original size:44 final size:45
Alignment explanation
Indices: 5625238--5625350 Score: 156
Period size: 45 Copynumber: 2.5 Consensus size: 45
5625228 TCAAAAAGCT
* *
5625238 CCCGAAGGCTTTTTGAAAACATCCTGCACTGTA-GTCTTACAGATGA
1 CCCGAAGG--TTTTGAAAACATCATACACTGTAGGTCTTACAGATGA
*
5625284 CCCGAAGGTTTTGAAAACATCATACACTGTAGGTCTTACAGATGT
1 CCCGAAGGTTTTGAAAACATCATACACTGTAGGTCTTACAGATGA
* *
5625329 CACGAAGGTTTTGAAAATATCA
1 CCCGAAGGTTTTGAAAACATCA
5625351 AAAAGCTCTT
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
44 21 0.34
45 32 0.52
46 8 0.13
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.28
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATACACTGTAGGTCTTACAGATGA
Found at i:5625338 original size:120 final size:121
Alignment explanation
Indices: 5625166--5625426 Score: 391
Period size: 120 Copynumber: 2.1 Consensus size: 121
5625156 AAAGCTACCA
** *
5625166 AAGGCTTTGTGAAAACATCATACACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAAAATATCA
1 AAGG-TTT-TGAAAACATCATACACTGTAGGTCTTACAGATGACACGAAGGTTTTGAAAATATCA
* *
5625231 AAAAGCTCCCGAAGGCTTTTTGAAAACATCCTGCACTGTA-GTCTTACAG-ATGACCCG
64 AAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTATAGGTCTTA-AGAATGACCCG
*
5625288 AAGGTTTTGAAAACATCATACACTGTAGGTCTTACAGATGTCACGAAGGTTTTGAAAATATCAAA
1 AAGGTTTTGAAAACATCATACACTGTAGGTCTTACAGATGACACGAAGGTTTTGAAAATATCAAA
** *
5625353 AAGCTCTTGAAGGCTTTTTGAAAACATCATGCACTATAGGTCTTATGAATGACCCG
66 AAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTATAGGTCTTAAGAATGACCCG
*
5625409 AAGGTTTTGAAAATATCA
1 AAGGTTTTGAAAACATCA
5625427 AAAAGCTCCC
Statistics
Matches: 127, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
120 89 0.70
121 34 0.27
122 4 0.03
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.29
Consensus pattern (121 bp):
AAGGTTTTGAAAACATCATACACTGTAGGTCTTACAGATGACACGAAGGTTTTGAAAATATCAAA
AAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTATAGGTCTTAAGAATGACCCG
Found at i:5625377 original size:196 final size:195
Alignment explanation
Indices: 5624777--5625480 Score: 827
Period size: 196 Copynumber: 3.6 Consensus size: 195
5624767 GACCCCAAGG
* *
5624777 TTTTGAAAACATCATGCACTGTAAGTCTTACT-GATGTCCCGAAGGTTTTGAAAATATCAAAAAG
1 TTTTGAAAACATCATGCACTGTAGGTCTTA-TGGATGACCCGAAGGTTTTGAAAATATCAAAAAG
5624841 CTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGTCCCGAAGGTTTTGAAA
65 CTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGTCCCGAAGGTTTTGAAA
* * * * * * * * * * ** **
5624906 ATATCAAAAAGCTCCCGAAGGCTTTTTTGAAAACATCCTGCACTATAGG-TCT----TATGGATG
130 ACATCATACA-CT---GTAGG---TCTT--ACAGAT-GT-CACGA-AGGTTTTGAAATATCAAAA
5624966 A-C-CCGAAGG--
183 AGCTCCGAAGGCT
** * * *
5624975 TTTTGAAAACATCATGCACTGTAGGTCTTACAGATGTCTCGAAGATTTTGAAAATATCAAAAAGC
1 TTTTGAAAACATCATGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAAAATATCAAAAAGC
* ** * * * *
5625040 TTCTAAAGGCTTTTTGAAAACATTATACACTGTAGGTCTTACAAATGTCCTGAAGGTTTTGAAAA
66 TCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGTCCCGAAGGTTTTGAAAA
* * * *
5625105 CATCCTGCACTGTAGGTCTTACAGATGTCCCGAAGGTTTTGAAATTATCAAAAAGCTACCAAAGG
131 CATCATACACTGTAGGTCTTACAGATGTCACGAAGGTTTTGAAA-TATCAAAAAGCT-CCGAAGG
5625170 CT
194 CT
* *
5625172 TTGTGAAAACATCATACACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAAAATATCAAAAAGC
1 TTTTGAAAACATCATGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAAAATATCAAAAAGC
* *
5625237 TCCCGAAGGCTTTTTGAAAACATCCTGCACTGTA-GTCTTACAGATGACCCGAAGGTTTTGAAAA
66 TCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGTCCCGAAGGTTTTGAAAA
*
5625301 CATCATACACTGTAGGTCTTACAGATGTCACGAAGGTTTTGAAAATATCAAAAAGCTCTTGAAGG
131 CATCATACACTGTAGGTCTTACAGATGTCACGAAGGTTTTG-AAATATCAAAAAGCTC-CGAAGG
5625366 CT
194 CT
* *
5625368 TTTTGAAAACATCATGCACTATAGGTCTTATGAATGACCCGAAGGTTTTGAAAATATCAAAAAGC
1 TTTTGAAAACATCATGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAAAATATCAAAAAGC
5625433 TCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGT
66 TCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGT
5625481 GGGAAATAGT
Statistics
Matches: 435, Mismatches: 56, Indels: 31
0.83 0.11 0.06
Matches are distributed among these distances:
186 3 0.01
187 5 0.01
188 1 0.00
189 4 0.01
191 3 0.01
192 5 0.01
193 1 0.00
194 4 0.01
195 7 0.02
196 177 0.41
197 103 0.24
198 122 0.28
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (195 bp):
TTTTGAAAACATCATGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAAAATATCAAAAAGC
TCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGTCCCGAAGGTTTTGAAAA
CATCATACACTGTAGGTCTTACAGATGTCACGAAGGTTTTGAAATATCAAAAAGCTCCGAAGGCT
Found at i:5625418 original size:76 final size:76
Alignment explanation
Indices: 5625284--5625479 Score: 299
Period size: 76 Copynumber: 2.6 Consensus size: 76
5625274 TTACAGATGA
* *
5625284 CCCGAAGG--TTTTGAAAACATCATACACTGTAGGTCTTACAGATGTCACGAAGGTTTTGAAAAT
1 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACACGAAGGTTTTGAAAAT
5625347 ATCAAAAAGCT
66 ATCAAAAAGCT
** * * *
5625358 CTTGAAGGCTTTTTGAAAACATCATGCACTATAGGTCTTA-TGAATGACCCGAAGGTTTTGAAAA
1 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAG-ATGACACGAAGGTTTTGAAAA
5625422 TATCAAAAAGCT
65 TATCAAAAAGCT
5625434 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATG
1 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATG
5625480 TGGGAAATAG
Statistics
Matches: 107, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
74 6 0.06
75 1 0.01
76 99 0.93
77 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (76 bp):
CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACACGAAGGTTTTGAAAAT
ATCAAAAAGCT
Found at i:5626213 original size:22 final size:22
Alignment explanation
Indices: 5626158--5626215 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
5626148 CATAAAGCTT
*
5626158 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
5626180 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
5626202 TCATCTTTGAAGAG
1 TCATCTTTGAAGAG
5626216 TATAGATGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (22 bp):
TCATCTTTGAAGAGAGAATCTA
Found at i:5626656 original size:54 final size:54
Alignment explanation
Indices: 5626581--5626907 Score: 438
Period size: 54 Copynumber: 6.1 Consensus size: 54
5626571 ATAATCACTG
* * * * * *
5626581 GTTCATAAAACATTTGGCAACATATTCATCATTTCCTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCATGTGGCTTCTGCACAGAT
* * *
5626635 GTTCGTAAAATATTTGACAACACATTCATCCTTTCATGTGGTTTTTGCACAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCATGTGGCTTCTGCACAGAT
* * *
5626689 GTTTGTAATACATTTGACAACACATTCATCCTTTCATGTGGTTTCTGCACAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCATGTGGCTTCTGCACAGAT
* *
5626743 GTTCGTAATACATTTGACAACACATTCATCCTTTCATGTGGTTTCTGCACAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCATGTGGCTTCTGCACAGAT
* * *
5626797 GTTCATAAAACATTTGACAACACATTCATCCTTTCCTGTGTCTTCTGCACAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCATGTGGCTTCTGCACAGAT
* * * * * * *
5626851 GTTTGTAATATATTTGAAAACATATTCATCCTTTCCTGTGGCTTTTGCACAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCATGTGGCTTCTGCACAGAT
5626905 GTT
1 GTT
5626908 TGCCAGTGAA
Statistics
Matches: 246, Mismatches: 27, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 246 1.00
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTCATGTGGCTTCTGCACAGAT
Found at i:5629658 original size:23 final size:23
Alignment explanation
Indices: 5629627--5629695 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
5629617 CACTACAGCT
*
5629627 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* **
5629650 CGTAGAATTGCACCGGAGTGCTG
1 CGTAGAATTGCACCGAAGTGCCA
*
5629673 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
5629696 TATAATAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:5629946 original size:30 final size:30
Alignment explanation
Indices: 5629905--5629973 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
5629895 ACATAATTTG
* * **
5629905 TATCACGTAGACATATTATTTTTATACCTT
1 TATCACATAGACATATCATTTCCATACCTT
*
5629935 TATCACATAGACATATCATTTCCATACTTT
1 TATCACATAGACATATCATTTCCATACCTT
5629965 TATCACATA
1 TATCACATA
5629974 ACTCATATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.42
Consensus pattern (30 bp):
TATCACATAGACATATCATTTCCATACCTT
Found at i:5630339 original size:20 final size:20
Alignment explanation
Indices: 5630316--5630368 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
5630306 TAATGGAGGT
5630316 ATGCATCGATGCACTACACC
1 ATGCATCGATGCACTACACC
5630336 ATGCATCGATGCACTACACC
1 ATGCATCGATGCACTACACC
5630356 ATGCATCGATGCA
1 ATGCATCGATGCA
5630369 TAAATCCTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (20 bp):
ATGCATCGATGCACTACACC
Found at i:5630426 original size:58 final size:59
Alignment explanation
Indices: 5630337--5630449 Score: 151
Period size: 58 Copynumber: 1.9 Consensus size: 59
5630327 CACTACACCA
5630337 TGCATCGATGCACTACACCATGCATCGATGCATAAAT-CCTATTCGATGTTTGTATGGGG
1 TGCATCGATGCACTACACCATGCATCGATGCATAAATGCC-ATTCGATGTTTGTATGGGG
* ** *
5630396 TGCATCGATGCACT-C-CCTATGCATCTATGCATCGATGGCATTCGATGTTTGTAT
1 TGCATCGATGCACTACACC-ATGCATCGATGCATAAATGCCATTCGATGTTTGTAT
5630450 TTTAAAAGAG
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
57 2 0.04
58 31 0.65
59 15 0.31
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (59 bp):
TGCATCGATGCACTACACCATGCATCGATGCATAAATGCCATTCGATGTTTGTATGGGG
Found at i:5632270 original size:132 final size:132
Alignment explanation
Indices: 5632033--5632279 Score: 440
Period size: 132 Copynumber: 1.9 Consensus size: 132
5632023 GACATTAGCC
* * *
5632033 TTCATTGGACTAATTAAACGGATCAACTCATCATAATGTTTTTGATTTGACAATCACAGTGGAGC
1 TTCATTGGACTAATTAAACGGATCAACTCATCACAATGTCTTTGACTTGACAATCACAGTGGAGC
*
5632098 AAACACCGAACTGCCAAATACCCGATCAAGGTTATGCTTTGAATATATGATTTCTTATTCTCTTT
66 AAACACCGAACTGCCAAATACCCGATCAAGGTCATGCTTTGAATATATGATTTCTTATTCTCTTT
5632163 TT
131 TT
* *
5632165 TTCATTGGACTAATTAAAGGGTTCAACTCATCACAATGTCTTTGACTTGACAATCACAGTGGAGC
1 TTCATTGGACTAATTAAACGGATCAACTCATCACAATGTCTTTGACTTGACAATCACAGTGGAGC
5632230 AAACACCGAACTGCCAAATACCCGATCAAGGTCATGCTTTGAATATATGA
66 AAACACCGAACTGCCAAATACCCGATCAAGGTCATGCTTTGAATATATGA
5632280 CTTTTTTCCC
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 109 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (132 bp):
TTCATTGGACTAATTAAACGGATCAACTCATCACAATGTCTTTGACTTGACAATCACAGTGGAGC
AAACACCGAACTGCCAAATACCCGATCAAGGTCATGCTTTGAATATATGATTTCTTATTCTCTTT
TT
Found at i:5634416 original size:46 final size:44
Alignment explanation
Indices: 5634316--5634422 Score: 128
Period size: 45 Copynumber: 2.4 Consensus size: 44
5634306 CAAAAAGTGC
*
5634316 AATGCAAAGATGCAAATATAAAATAAAAATGAATGAAAATATAAA
1 AATGCAAA-ATACAAATATAAAATAAAAATGAATGAAAATATAAA
* **
5634361 AAGGC-AAATACAAATATAAAAAATAAAAATGTAATGAAAA-ATACG
1 AATGCAAAATACAAATAT--AAAATAAAAATG-AATGAAAATATAAA
5634406 AATGCAAAATACAAATA
1 AATGCAAAATACAAATA
5634423 AAACAAAGGT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
43 9 0.17
44 2 0.04
45 23 0.43
46 19 0.36
ACGTcount: A:0.64, C:0.07, G:0.10, T:0.19
Consensus pattern (44 bp):
AATGCAAAATACAAATATAAAATAAAAATGAATGAAAATATAAA
Found at i:5636758 original size:2 final size:2
Alignment explanation
Indices: 5636751--5636775 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5636741 AAATATAAAC
5636751 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
5636776 ACGTATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5637375 original size:22 final size:22
Alignment explanation
Indices: 5637331--5637380 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 22
5637321 ATATATATAT
*
5637331 ATATATATTTAATTTATTAAAA
1 ATATATATTTAATTCATTAAAA
5637353 ATATGATATTT-ATTCATTTAAAA
1 ATAT-ATATTTAATTCA-TTAAAA
5637376 ATATA
1 ATATA
5637381 AGAAAATGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
ATATATATTTAATTCATTAAAA
Found at i:5637618 original size:2 final size:2
Alignment explanation
Indices: 5637611--5637662 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
5637601 ATTTAAACAA
5637611 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
5637653 AT AT TT AT AT
1 AT AT AT AT AT
5637663 GACTAATATG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:5637984 original size:2 final size:2
Alignment explanation
Indices: 5637977--5638022 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
5637967 ATTTTACCTA
5637977 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5638019 AT AT
1 AT AT
5638023 TTATGCCAGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5657423 original size:2 final size:2
Alignment explanation
Indices: 5657418--5657446 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5657408 CACACACATG
5657418 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5657447 TCATTAGGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5660415 original size:29 final size:29
Alignment explanation
Indices: 5660383--5660481 Score: 89
Period size: 29 Copynumber: 3.4 Consensus size: 29
5660373 AATGAATAAT
* *
5660383 AAATAAAGTAAAAAC-GAATGAAATAAAGA
1 AAATAAA-TAAAAACAAAAAGAAATAAAGA
* *
5660412 AAATAAATAATAACAAAAAGAAATACAGA
1 AAATAAATAAAAACAAAAAGAAATAAAGA
* *
5660441 AAATAAA-AATAAA-AGATAA-AAATAAATA
1 AAATAAATAA-AAACA-AAAAGAAATAAAGA
5660469 AAATAAATAAAAA
1 AAATAAATAAAAA
5660482 TGAATAATAA
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
28 26 0.45
29 32 0.55
ACGTcount: A:0.75, C:0.03, G:0.07, T:0.15
Consensus pattern (29 bp):
AAATAAATAAAAACAAAAAGAAATAAAGA
Found at i:5660454 original size:25 final size:27
Alignment explanation
Indices: 5660402--5660478 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 27
5660392 AAAAACGAAT
5660402 GAAATAAAGAAAATAAATAATAACAAAAA
1 GAAATAAAGAAAATAAATAAT-A-AAAAA
*
5660431 GAAATACAGAAAATAAA-AATAAAAGATA
1 GAAATAAAGAAAATAAATAATAAAA-A-A
* *
5660459 AAAATAAATAAAATAAATAA
1 GAAATAAAGAAAATAAATAA
5660479 AAATGAATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
26 3 0.07
27 2 0.05
28 18 0.44
29 18 0.44
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.16
Consensus pattern (27 bp):
GAAATAAAGAAAATAAATAATAAAAAA
Found at i:5660461 original size:7 final size:6
Alignment explanation
Indices: 5660440--5660496 Score: 53
Period size: 6 Copynumber: 9.0 Consensus size: 6
5660430 AGAAATACAG
*
5660440 AAAATA AAAATA AAAGATA AAAATA AATAA-A ATAAATA AAAATGA ATAATA
1 AAAATA AAAATA AAA-ATA AAAATA AA-AATA A-AAATA AAAAT-A AAAATA
*
5660491 ATAATA
1 AAAATA
5660497 TATACATGGC
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
6 29 0.64
7 16 0.36
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (6 bp):
AAAATA
Found at i:5660496 original size:19 final size:19
Alignment explanation
Indices: 5660403--5660494 Score: 64
Period size: 19 Copynumber: 4.8 Consensus size: 19
5660393 AAAACGAATG
*
5660403 AAATAAAGAAAATAAATAA
1 AAATAAATAAAATAAATAA
* * * * *
5660422 TAACAAAAAGAAATACA-GA
1 AAATAAATA-AAATAAATAA
5660441 AAATAAA-AATAA-AAGATAA
1 AAATAAATAA-AATAA-ATAA
5660460 AAATAAATAAAATAAATAA
1 AAATAAATAAAATAAATAA
*
5660479 AAATGAATAATAATAA
1 AAATAAATAA-AATAA
5660495 TATATACATG
Statistics
Matches: 56, Mismatches: 10, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
17 2 0.04
18 4 0.07
19 35 0.62
20 15 0.27
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.17
Consensus pattern (19 bp):
AAATAAATAAAATAAATAA
Found at i:5660718 original size:21 final size:19
Alignment explanation
Indices: 5660701--5660771 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 19
5660691 AAAAAATAGT
5660701 AATATAATATAAATAAATA
1 AATATAATATAAATAAATA
* * *
5660720 GAAAACCAAAATAAATAAATA
1 -AATA-TAATATAAATAAATA
* *
5660741 TATAAAATA-AAAT-AATA
1 AATATAATATAAATAAATA
5660758 AATATAAT-TAAATA
1 AATATAATATAAATA
5660772 TATATGTATA
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
17 14 0.36
18 4 0.10
19 3 0.08
20 5 0.13
21 13 0.33
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.27
Consensus pattern (19 bp):
AATATAATATAAATAAATA
Found at i:5660769 original size:10 final size:9
Alignment explanation
Indices: 5660657--5660773 Score: 57
Period size: 9 Copynumber: 12.8 Consensus size: 9
5660647 AATAGAGAAA
5660657 AAATAATAAT
1 AAAT-ATAAT
5660667 AACA-ATAAT
1 AA-ATATAAT
5660676 -AATGATAAT
1 AAAT-ATAAT
*
5660685 AACA-ATAAA
1 AA-ATATAAT
5660694 AAATAGTAAT
1 AAATA-TAAT
5660704 ATAATATAAAT
1 A-AATAT-AAT
*
5660715 AAATAGAA-
1 AAATATAAT
** *
5660723 AACCAAAAT
1 AAATATAAT
5660732 AAATA-AAT
1 AAATATAAT
* *
5660740 ATATAAAAT
1 AAATATAAT
5660749 AAA-ATAAT
1 AAATATAAT
5660757 AAATATAATT
1 AAATATAA-T
5660767 AAATATA
1 AAATATA
5660774 TATGTATAAG
Statistics
Matches: 83, Mismatches: 11, Indels: 26
0.69 0.09 0.22
Matches are distributed among these distances:
7 1 0.01
8 21 0.25
9 31 0.37
10 20 0.24
11 10 0.12
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (9 bp):
AAATATAAT
Found at i:5660771 original size:22 final size:22
Alignment explanation
Indices: 5660682--5660763 Score: 73
Period size: 21 Copynumber: 3.9 Consensus size: 22
5660672 TAATAATGAT
*
5660682 AATAACAATAAA-AAATA-GTAA
1 AATAA-AATAAATAAATATATAA
* * *
5660703 TATAATATAAATAAATAGA-AA
1 AATAAAATAAATAAATATATAA
**
5660724 ACCAAAATAAATAAATATATAA
1 AATAAAATAAATAAATATATAA
5660746 AATAAAAT-AATAAATATA
1 AATAAAATAAATAAATATA
5660764 ATTAAATATA
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
20 5 0.10
21 35 0.73
22 8 0.17
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (22 bp):
AATAAAATAAATAAATATATAA
Found at i:5661961 original size:2 final size:2
Alignment explanation
Indices: 5661954--5662026 Score: 84
Period size: 2 Copynumber: 38.0 Consensus size: 2
5661944 TTAAATAACC
*
5661954 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT GAT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
5661996 A- AT AT CAT AT A- AT A- AT AT -T AT AT AT AT AT AT
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5662027 GCTATAATTT
Statistics
Matches: 62, Mismatches: 2, Indels: 14
0.79 0.03 0.18
Matches are distributed among these distances:
1 5 0.08
2 53 0.85
3 4 0.06
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5663419 original size:37 final size:37
Alignment explanation
Indices: 5663359--5663619 Score: 193
Period size: 39 Copynumber: 7.2 Consensus size: 37
5663349 GAAACGTTTT
* * * *
5663359 CAAAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGA
1 CAAAATTT-TGTTTCAAGGGAAACTATCTCAAGCGAGA
*
5663397 CAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGA
1 CAAAATTTTGTTTCAAGGGAAACTATCTCAAGCGAGA
** * * *
5663434 CAAAA-TTCATTTCAAGGGAAA-TGTTTTCAA---TG-
1 CAAAATTTTGTTTCAAGGGAAACT-ATCTCAAGCGAGA
* * * * * *
5663466 -----TTTATGTTTCAAGAGAAATTTTCTTAAGGGAGT
1 CAAAATTT-TGTTTCAAGGGAAACTATCTCAAGCGAGA
5663499 CAAAATTTTGTTTCAAGGGAAACTATCTCAAGCGAGA
1 CAAAATTTTGTTTCAAGGGAAACTATCTCAAGCGAGA
* *
5663536 TAAAATCTTTTGTTTCGAGGGAAACTATCTCAAGCGAGA
1 CAAAA--TTTTGTTTCAAGGGAAACTATCTCAAGCGAGA
* *
5663575 CAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCAAGA
1 CAAAAT-TT-TGTTTCAAGGGAAACTATCTCAAGCGAGA
*
5663614 TAAAAT
1 CAAAAT
5663620 CTTCTTTAAA
Statistics
Matches: 180, Mismatches: 26, Indels: 33
0.75 0.11 0.14
Matches are distributed among these distances:
28 2 0.01
29 16 0.09
30 1 0.01
32 1 0.01
33 1 0.01
35 1 0.01
36 19 0.11
37 59 0.33
38 12 0.07
39 68 0.38
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (37 bp):
CAAAATTTTGTTTCAAGGGAAACTATCTCAAGCGAGA
Found at i:5663448 original size:102 final size:102
Alignment explanation
Indices: 5663341--5663541 Score: 330
Period size: 102 Copynumber: 2.0 Consensus size: 102
5663331 ATATTTTGTG
5663341 TTTCAAGGGAAACGTTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
1 TTTCAAGGGAAACGTTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
5663406 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
66 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
* * * * * *
5663443 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAATTTTCTTAAGGGAGTCAAAATTTT
1 TTTCAAGGGAAACGTTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
* *
5663508 GTTTCAAGGGAAACTATCTCAAGCGAGATAAAAT
66 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAAT
5663542 CTTTTGTTTC
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
102 91 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (102 bp):
TTTCAAGGGAAACGTTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
Found at i:5663454 original size:36 final size:37
Alignment explanation
Indices: 5663370--5663454 Score: 118
Period size: 37 Copynumber: 2.3 Consensus size: 37
5663360 AAAGTTTATG
* * * **
5663370 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTG
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTCA
5663407 TTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TTCA
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTCA
5663443 TTTCAAGGGAAA
1 TTTCAAGGGAAA
5663455 TGTTTTCAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 14 0.33
37 29 0.67
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (37 bp):
TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTCA
Found at i:5663557 original size:39 final size:39
Alignment explanation
Indices: 5663504--5663622 Score: 202
Period size: 39 Copynumber: 3.1 Consensus size: 39
5663494 GGAGTCAAAA
*
5663504 TTTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATC
1 TTTTGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATC
*
5663543 TTTTGTTTCGAGGGAAACTATCTCAAGCGAGACAAAATC
1 TTTTGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATC
* *
5663582 TTCTGTTTCGAGGGAAACTATCTCAAGCAAGATAAAATC
1 TTTTGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATC
5663621 TT
1 TT
5663623 CTTTAAAAAT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.30
Consensus pattern (39 bp):
TTTTGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATC
Found at i:5668034 original size:16 final size:16
Alignment explanation
Indices: 5668013--5668043 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
5668003 ACGTGAGGAT
5668013 TATTTTCTTTTTATTC
1 TATTTTCTTTTTATTC
5668029 TATTTTCTTTTTATT
1 TATTTTCTTTTTATT
5668044 TACTGTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (16 bp):
TATTTTCTTTTTATTC
Found at i:5668899 original size:21 final size:19
Alignment explanation
Indices: 5668878--5668915 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
5668868 AACTTTTTCT
*
5668878 TTTCTCTTTCTTTATTAATC
1 TTTCTCTTTCATT-TTAATC
5668898 TTTCTCTTTCATTTTAAT
1 TTTCTCTTTCATTTTAAT
5668916 GCCGGCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTCTCTTTCATTTTAATC
Found at i:5671083 original size:24 final size:24
Alignment explanation
Indices: 5671055--5671105 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
5671045 TGGTGGTTGA
5671055 TTTTAATGGTTGT-TTGAACTTTAT
1 TTTTAATGG-TGTATTGAACTTTAT
* *
5671079 TTTTAATGGTGTATTTAAGTTTAT
1 TTTTAATGGTGTATTGAACTTTAT
5671103 TTT
1 TTT
5671106 GGTTCTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 3 0.12
24 21 0.88
ACGTcount: A:0.22, C:0.02, G:0.16, T:0.61
Consensus pattern (24 bp):
TTTTAATGGTGTATTGAACTTTAT
Found at i:5678917 original size:20 final size:19
Alignment explanation
Indices: 5678888--5678925 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
5678878 TATGCTCGGA
5678888 GGGAACCGATTCCCCCCAG
1 GGGAACCGATTCCCCCCAG
5678907 GGGATACCGATTCCCCCCA
1 GGGA-ACCGATTCCCCCCA
5678926 CTGTTCAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.21, C:0.42, G:0.24, T:0.13
Consensus pattern (19 bp):
GGGAACCGATTCCCCCCAG
Found at i:5679849 original size:88 final size:88
Alignment explanation
Indices: 5679700--5679879 Score: 254
Period size: 88 Copynumber: 2.0 Consensus size: 88
5679690 ATCGTATAGA
* * *
5679700 TATTATAATCGCCTTTATCAGGCTAGTTGAATATTATCCATAAAGCCCGGACGTTTAACCAATTG
1 TATTATAATCACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCAGGACGTTTAACCAATTG
5679765 CTCTAGAGGGACAACTCAAGCTT
66 CTCTAGAGGGACAACTCAAGCTT
* * * *
5679788 TATTATAATCATCTTTATCAGGCTAGCTGAATCTTATCTATAAAGCCAATG-CGTTTAACCAATT
1 TATTATAATCACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCC-AGGACGTTTAACCAATT
* * *
5679852 GCTTTATAGGGACAGCTCAAGCTT
65 GCTCTAGAGGGACAACTCAAGCTT
5679876 TATT
1 TATT
5679880 GTATATATAT
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
88 80 0.99
89 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.34
Consensus pattern (88 bp):
TATTATAATCACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCAGGACGTTTAACCAATTG
CTCTAGAGGGACAACTCAAGCTT
Found at i:5684704 original size:2 final size:2
Alignment explanation
Indices: 5684697--5684743 Score: 57
Period size: 2 Copynumber: 25.0 Consensus size: 2
5684687 GTAAATAAAC
5684697 AT AT AT AT AT -T A- AT AT CAT AT A- AT A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT
5684736 AT AT AT AT
1 AT AT AT AT
5684744 GCTATAATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
1 4 0.10
2 34 0.85
3 2 0.05
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:5689898 original size:16 final size:17
Alignment explanation
Indices: 5689855--5689900 Score: 62
Period size: 16 Copynumber: 2.8 Consensus size: 17
5689845 TGAAAGGAAC
5689855 CCAAATCG-AAATCAAT
1 CCAAATCGAAAATCAAT
5689871 CCAAA-CTGAAAAT-AAT
1 CCAAATC-GAAAATCAAT
5689887 CCAAATCGAAAATC
1 CCAAATCGAAAATC
5689901 TATATATACT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.04
16 20 0.77
17 5 0.19
ACGTcount: A:0.52, C:0.24, G:0.07, T:0.17
Consensus pattern (17 bp):
CCAAATCGAAAATCAAT
Found at i:5690106 original size:32 final size:31
Alignment explanation
Indices: 5690064--5690155 Score: 96
Period size: 32 Copynumber: 2.9 Consensus size: 31
5690054 ACCCAAACTA
5690064 AAAATCAACTAATTCGATATTGACCCGACCC
1 AAAATCAACTAATTCGATATTGACCCGACCC
* * *
5690095 AAAATCTAACTAA-TCTGATATTAACCCAACCT
1 AAAATC-AACTAATTC-GATATTGACCCGACCC
* * *
5690127 AAAAGTCAACTGATCCGATATTGATCCGA
1 AAAA-TCAACTAATTCGATATTGACCCGA
5690156 ACTGAAAAAC
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
31 8 0.16
32 38 0.78
33 3 0.06
ACGTcount: A:0.40, C:0.25, G:0.10, T:0.25
Consensus pattern (31 bp):
AAAATCAACTAATTCGATATTGACCCGACCC
Found at i:5691388 original size:2 final size:2
Alignment explanation
Indices: 5691377--5691419 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
5691367 AGATTTAATA
5691377 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5691418 AT
1 AT
5691420 TTGTTAGAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:5694943 original size:28 final size:24
Alignment explanation
Indices: 5694887--5694943 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 24
5694877 TACAAAAATT
5694887 ATATA-CATATATTATTAATTATA
1 ATATACCATATATTATTAATTATA
5694910 ATATACCATATATGTATATATATATATA
1 ATATACCATATAT-TAT-TA-AT-TATA
5694938 ATATAC
1 ATATAC
5694944 ATTACTTATG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
23 5 0.17
24 7 0.24
25 3 0.10
26 2 0.07
27 2 0.07
28 10 0.34
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (24 bp):
ATATACCATATATTATTAATTATA
Found at i:5697137 original size:3 final size:3
Alignment explanation
Indices: 5697124--5697170 Score: 60
Period size: 3 Copynumber: 15.3 Consensus size: 3
5697114 GCAAATGTAA
*
5697124 AAT AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAC AAT -AT AATT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
5697170 A
1 A
5697171 TTTTTAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 31 0.79
4 6 0.15
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:5697477 original size:51 final size:51
Alignment explanation
Indices: 5697411--5697702 Score: 327
Period size: 51 Copynumber: 5.5 Consensus size: 51
5697401 CATAAAACAA
* *
5697411 GTCTGTTCTCTATTCCTTCAGAGAGTATAGGACTAAATCTTCAACAAATGT
1 GTCTGCTCCCTATTCCTTCAGAGAGTATAGGACTAAATCTTCAACAAATGT
* * * *
5697462 GTCCGCTCCCCATTCCTTCAGAGAGTATAGGACTCAATCTTCAATCAAACGT
1 GTCTGCTCCCTATTCCTTCAGAGAGTATAGGACTAAATCTTCAA-CAAATGT
* * * *
5697514 GTCTGCTCCCTATTTCTTCAGAGAGTATATGACTTAAACAACCTTCAACAAACGT
1 GTCTGCTCCCTATTCCTTCAGAGAGTATAGGAC-T--A-AATCTTCAACAAATGT
* *
5697569 GTCCT-CTCCCTATTCCTTCAGAAAGTATAGGACTCAATCTTCAACAAATGT
1 GT-CTGCTCCCTATTCCTTCAGAGAGTATAGGACTAAATCTTCAACAAATGT
* * *
5697620 GTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAATAATTTTCAAC-ATTCGT
1 GTCTGCTCCCTATTCCTTCAGAGAGTATAGGACT---A-AATCTTCAACAAAT-GT
*
5697675 GTCTGCTCCCTATTTCTTCAGAGAGTAT
1 GTCTGCTCCCTATTCCTTCAGAGAGTAT
5697703 TAGACTCGAA
Statistics
Matches: 205, Mismatches: 24, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
50 2 0.01
51 82 0.40
52 35 0.17
53 1 0.00
54 3 0.01
55 72 0.35
56 10 0.05
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (51 bp):
GTCTGCTCCCTATTCCTTCAGAGAGTATAGGACTAAATCTTCAACAAATGT
Found at i:5697578 original size:55 final size:54
Alignment explanation
Indices: 5697392--5697831 Score: 393
Period size: 55 Copynumber: 8.2 Consensus size: 54
5697382 ATAAAACTCA
** * *
5697392 AACAATCTTCATA-AAACAAGTCTGTTCTCTATTCCTTCAGAGAGTATAGGAC-T
1 AACAATCTTCA-ACAAACGTGTCTGCTCCCTATTCCTTCAGAGAGTATAGGACTT
* * *
5697445 -A-AATCTTCAACAAATGTGTCCGCTCCCCATTCCTTCAGAGAGTATAGGAC-T
1 AACAATCTTCAACAAACGTGTCTGCTCCCTATTCCTTCAGAGAGTATAGGACTT
* *
5697496 --CAATCTTCAATCAAACGTGTCTGCTCCCTATTTCTTCAGAGAGTATATGACTT
1 AACAATCTTCAA-CAAACGTGTCTGCTCCCTATTCCTTCAGAGAGTATAGGACTT
* *
5697549 AAACAACCTTCAACAAACGTGTCCT-CTCCCTATTCCTTCAGAAAGTATAGGAC-T
1 -AACAATCTTCAACAAACGTGT-CTGCTCCCTATTCCTTCAGAGAGTATAGGACTT
* * *
5697603 --CAATCTTCAACAAATGTGTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCG
1 AACAATCTTCAACAAACGTGTCTGCTCCCTATTCCTTCAGAGAGTATAGGACT-T
* * ** * *
5697656 AATAATTTTCAACATTCGTGTCTGCTCCCTATTTCTTCAGAGAGTATTA-GACTCG
1 AACAATCTTCAACAAACGTGTCTGCTCCCTATTCCTTCAGAGAGTA-TAGGACT-T
* * ** * * * *
5697711 AACAATTTTCAATATTCATGTCTGCTCCCTATTGCTTAAGAAAGTAT-GAGACTT
1 AACAATCTTCAACAAACGTGTCTGCTCCCTATTCCTTCAGAGAGTATAG-GACTT
* * ** * *
5697765 GAACAATCTTCAACAATCGTGTCTGCTCTCTATTTGTTCAGAGAGTATAAGACTCG
1 -AACAATCTTCAACAAACGTGTCTGCTCCCTATTCCTTCAGAGAGTATAGGACT-T
5697821 AACAATCTTCA
1 AACAATCTTCA
5697832 TTTGCTTCAC
Statistics
Matches: 323, Mismatches: 45, Indels: 36
0.80 0.11 0.09
Matches are distributed among these distances:
50 3 0.01
51 93 0.29
52 36 0.11
53 1 0.00
54 2 0.01
55 175 0.54
56 13 0.04
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (54 bp):
AACAATCTTCAACAAACGTGTCTGCTCCCTATTCCTTCAGAGAGTATAGGACTT
Found at i:5711087 original size:4 final size:4
Alignment explanation
Indices: 5711078--5711103 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
5711068 TAATGCAAAA
5711078 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
5711104 CAAGTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:5712647 original size:3 final size:3
Alignment explanation
Indices: 5712629--5712681 Score: 63
Period size: 3 Copynumber: 17.3 Consensus size: 3
5712619 GCAAATGTAA
* *
5712629 AAT AAT AAAT ATT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT -AT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
5712674 AATT AAT A
1 AA-T AAT A
5712682 TTTATAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
2 2 0.05
3 35 0.81
4 6 0.14
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:5714544 original size:2 final size:2
Alignment explanation
Indices: 5714537--5714582 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
5714527 AGCAATGCCA
5714537 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5714579 AT AT
1 AT AT
5714583 CTTATAATTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5716188 original size:2 final size:2
Alignment explanation
Indices: 5716181--5716216 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
5716171 TGAGAAACGT
5716181 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5716217 AGTTAGGACC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5717083 original size:57 final size:58
Alignment explanation
Indices: 5717013--5717125 Score: 192
Period size: 57 Copynumber: 2.0 Consensus size: 58
5717003 TAGGATTACT
*
5717013 AAAATGTAGCATTACCTGACACATTACTG-GAATGTTACATTATTGTGTTTGGTTGCC
1 AAAATGTAACATTACCTGACACATTACTGAGAATGTTACATTATTGTGTTTGGTTGCC
* *
5717070 AAAATGTAACATTACCTGACACGTTATTGAGAATGTTACATTATTGTGTTTGGTTG
1 AAAATGTAACATTACCTGACACATTACTGAGAATGTTACATTATTGTGTTTGGTTG
5717126 GTTTGGCAGG
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
57 26 0.50
58 26 0.50
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.38
Consensus pattern (58 bp):
AAAATGTAACATTACCTGACACATTACTGAGAATGTTACATTATTGTGTTTGGTTGCC
Found at i:5722385 original size:21 final size:24
Alignment explanation
Indices: 5722360--5722413 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
5722350 AAAAGTTATG
*
5722360 TTATAATTT-TT-ATA-ATATTAA
1 TTATAATTTCTTAATATATATAAA
*
5722381 TTATAATTTCTTAATATTTATAAA
1 TTATAATTTCTTAATATATATAAA
5722405 TTATAATTT
1 TTATAATTT
5722414 ATTTTATAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 9 0.32
22 2 0.07
23 3 0.11
24 14 0.50
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TTATAATTTCTTAATATATATAAA
Found at i:5722397 original size:20 final size:21
Alignment explanation
Indices: 5722360--5722398 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
5722350 AAAAGTTATG
*
5722360 TTATAATTTTTATAATATTAA
1 TTATAATTTCTATAATATTAA
5722381 TTATAATTTCT-TAATATT
1 TTATAATTTCTATAATATT
5722399 TATAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (21 bp):
TTATAATTTCTATAATATTAA
Found at i:5727522 original size:19 final size:19
Alignment explanation
Indices: 5727498--5727562 Score: 112
Period size: 19 Copynumber: 3.4 Consensus size: 19
5727488 GGAACACTTA
5727498 GTGCATCGGTGCACTAAGG
1 GTGCATCGGTGCACTAAGG
5727517 GTGCATCGGTGCACTAAGG
1 GTGCATCGGTGCACTAAGG
* *
5727536 GTGCATCCGTGCACTAAGT
1 GTGCATCGGTGCACTAAGG
5727555 GTGCATCG
1 GTGCATCG
5727563 ATGCGTGAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.20, C:0.23, G:0.34, T:0.23
Consensus pattern (19 bp):
GTGCATCGGTGCACTAAGG
Found at i:5727644 original size:64 final size:64
Alignment explanation
Indices: 5727554--5727742 Score: 199
Period size: 65 Copynumber: 2.9 Consensus size: 64
5727544 GTGCACTAAG
* * * *
5727554 TGTGCATCGATGCGTGAAATGCATTCGATGTTTCAA-ACA-AGCAT-GAGTGCATCGATGCATGG
1 TGTGCATCGGTGCATAAAAT-CATTCGATGTTTCAATA-ATA-CATGGAGTGCATCGATGCATGA
*
5727616 TT
63 TA
*
5727618 TGTGCATCGGTGCATAAAATCAATTCGATGTTTTAATAATACATGGAGTGCATCGATGCATGATA
1 TGTGCATCGGTGCATAAAATC-ATTCGATGTTTCAATAATACATGGAGTGCATCGATGCATGATA
* * * *
5727683 TGTGAATCGGTACATAAAATCTATTCGAT-TTTCAATTAAAACAAGG-GTGCATCGATGCAT
1 TGTGCATCGGTGCATAAAATC-ATTCGATGTTTCAA-TAATACATGGAGTGCATCGATGCAT
5727743 TGAATTATGC
Statistics
Matches: 108, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
63 1 0.01
64 53 0.49
65 54 0.50
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (64 bp):
TGTGCATCGGTGCATAAAATCATTCGATGTTTCAATAATACATGGAGTGCATCGATGCATGATA
Found at i:5727761 original size:65 final size:64
Alignment explanation
Indices: 5727576--5727761 Score: 191
Period size: 65 Copynumber: 2.9 Consensus size: 64
5727566 CGTGAAATGC
* * * *
5727576 ATTCGATGTTTCAA-ACAAGC-ATGAGTGCATCGATGCATGGTTTGTGCATCGGTGCATAAAATC
1 ATTCGATGTTTCAATA-AAACAAGGAGTGCATCGATGCAT-GATTGTGCATCGGTACATAAAATC
5727639 A
64 A
* * * * *
5727640 ATTCGATGTTTTAATAATACATGGAGTGCATCGATGCATGATATGTGAATCGGTACATAAAATCT
1 ATTCGATGTTTCAATAAAACAAGGAGTGCATCGATGCATGAT-TGTGCATCGGTACATAAAATCA
* *
5727705 ATTCGAT-TTTCAATTAAAACAAGG-GTGCATCGATGCATTGAATTATGCATCCGTACA
1 ATTCGATGTTTCAA-TAAAACAAGGAGTGCATCGATGCA-TG-ATTGTGCATCGGTACA
5727762 CTTACCTGAA
Statistics
Matches: 101, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
64 35 0.35
65 64 0.63
66 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (64 bp):
ATTCGATGTTTCAATAAAACAAGGAGTGCATCGATGCATGATTGTGCATCGGTACATAAAATCA
Found at i:5729819 original size:11 final size:11
Alignment explanation
Indices: 5729803--5729882 Score: 61
Period size: 13 Copynumber: 6.7 Consensus size: 11
5729793 TGGGCAAGAT
*
5729803 TTTGAAAACAA
1 TTTGAAAAAAA
5729814 TTTGAAAATAATA
1 TTTGAAAA-AA-A
**
5729827 TTTGAAAATTA
1 TTTGAAAAAAA
5729838 TTTGAAAATAATA
1 TTTGAAAA-AA-A
**
5729851 TTTGAAAATTA
1 TTTGAAAAAAA
5729862 TTTGAAAATAATA
1 TTTGAAAA-AA-A
5729875 TTTGAAAA
1 TTTGAAAA
5729883 TCATAATACA
Statistics
Matches: 54, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
11 26 0.48
12 1 0.02
13 27 0.50
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.39
Consensus pattern (11 bp):
TTTGAAAAAAA
Found at i:5729831 original size:13 final size:13
Alignment explanation
Indices: 5729813--5729883 Score: 114
Period size: 13 Copynumber: 5.8 Consensus size: 13
5729803 TTTGAAAACA
5729813 ATTTGAAAATAAT
1 ATTTGAAAATAAT
5729826 ATTTGAAAAT--T
1 ATTTGAAAATAAT
5729837 ATTTGAAAATAAT
1 ATTTGAAAATAAT
5729850 ATTTGAAAAT--T
1 ATTTGAAAATAAT
5729861 ATTTGAAAATAAT
1 ATTTGAAAATAAT
5729874 ATTTGAAAAT
1 ATTTGAAAAT
5729884 CATAATACAT
Statistics
Matches: 54, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
11 22 0.41
13 32 0.59
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (13 bp):
ATTTGAAAATAAT
Found at i:5729834 original size:24 final size:24
Alignment explanation
Indices: 5729803--5729883 Score: 144
Period size: 24 Copynumber: 3.4 Consensus size: 24
5729793 TGGGCAAGAT
**
5729803 TTTGAAAACAATTTGAAAATAATA
1 TTTGAAAATTATTTGAAAATAATA
5729827 TTTGAAAATTATTTGAAAATAATA
1 TTTGAAAATTATTTGAAAATAATA
5729851 TTTGAAAATTATTTGAAAATAATA
1 TTTGAAAATTATTTGAAAATAATA
5729875 TTTGAAAAT
1 TTTGAAAAT
5729884 CATAATACAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 55 1.00
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.40
Consensus pattern (24 bp):
TTTGAAAATTATTTGAAAATAATA
Found at i:5730452 original size:24 final size:20
Alignment explanation
Indices: 5730422--5730475 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 20
5730412 CTTCATGATT
5730422 TATCGATGCACATTCAAAGGGATG
1 TATCGATGCAC-TTCAAA--G-TG
*
5730446 TATCGATGCACTTCATAGTG
1 TATCGATGCACTTCAAAGTG
5730466 TATCGATGCA
1 TATCGATGCA
5730476 TTATGCACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 12 0.41
21 1 0.03
23 5 0.17
24 11 0.38
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (20 bp):
TATCGATGCACTTCAAAGTG
Found at i:5730460 original size:44 final size:44
Alignment explanation
Indices: 5730380--5730475 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 44
5730370 GGCAGTGTGC
* *
5730380 ATCGAT-CACATTCAAGGAGTGCATCGGTGCATCTTCAT-GATTT
1 ATCGATGCACATTCAAGGAGTGCATCGATGCATCTTCATAG-TGT
*
5730423 ATCGATGCACATTCAAAGG-GATGTATCGATGCA-CTTCATAGTGT
1 ATCGATGCACATTC-AAGGAG-TGCATCGATGCATCTTCATAGTGT
5730467 ATCGATGCA
1 ATCGATGCA
5730476 TTATGCACAA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
43 6 0.13
44 25 0.54
45 15 0.33
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (44 bp):
ATCGATGCACATTCAAGGAGTGCATCGATGCATCTTCATAGTGT
Found at i:5734295 original size:22 final size:21
Alignment explanation
Indices: 5734253--5734292 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
5734243 GAGATTATTT
*
5734253 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTAAAATA
5734274 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
5734293 ATAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:5736307 original size:64 final size:65
Alignment explanation
Indices: 5736239--5736372 Score: 157
Period size: 64 Copynumber: 2.1 Consensus size: 65
5736229 ACTAAGGGTA
* * * *
5736239 CATCGATGTGTGAAATGC-ATTCGAAGTTTCAA-ACAAACAT-GAGTGCATCGATGCATGGTTTG
1 CATCGATGTATAAAAT-CAATTCGAAGTTTCAATA-AAACATGGAGTGCATCGATGCATGATATG
5736301 TG
64 TG
* * * *
5736303 CATCGGTGTATAAAATCAATTCGATGTTTTAATAATACATGGAGTGCATCGATGCATGATATGTG
1 CATCGATGTATAAAATCAATTCGAAGTTTCAATAAAACATGGAGTGCATCGATGCATGATATGTG
5736368 CATCG
1 CATCG
5736373 GTACATAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
63 1 0.02
64 30 0.51
65 28 0.47
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (65 bp):
CATCGATGTATAAAATCAATTCGAAGTTTCAATAAAACATGGAGTGCATCGATGCATGATATGTG
Found at i:5736394 original size:65 final size:64
Alignment explanation
Indices: 5736275--5736395 Score: 170
Period size: 65 Copynumber: 1.9 Consensus size: 64
5736265 TTTCAAACAA
* * ** *
5736275 ACATGAGTGCATCGATGCATGGTTTGTGCATCGGTGTATAAAATCAATTCGATGTTTTAATAAT
1 ACATGAGTGCATCGATGCATGATATGTGCATCGGTACATAAAAGCAATTCGATGTTTTAATAAT
* *
5736339 ACATGGAGTGCATCGATGCATGATATGTGCATCGGTACATAAAAGCTATTTGATGTT
1 ACAT-GAGTGCATCGATGCATGATATGTGCATCGGTACATAAAAGCAATTCGATGTT
5736396 CAATTAAAAC
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
64 4 0.08
65 45 0.92
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (64 bp):
ACATGAGTGCATCGATGCATGATATGTGCATCGGTACATAAAAGCAATTCGATGTTTTAATAAT
Found at i:5739066 original size:23 final size:23
Alignment explanation
Indices: 5739037--5739117 Score: 69
Period size: 23 Copynumber: 3.6 Consensus size: 23
5739027 GCATGGCAGT
5739037 GTGCATCGATGCATATTCAAGGA
1 GTGCATCGATGCATATTCAAGGA
* * *
5739060 GTGCATCGGTGCATCTTC-ATGA
1 GTGCATCGATGCATATTCAAGGA
* *
5739082 -TGTATCGATGCACATTCAAAGG-
1 GTGCATCGATGCATATTC-AAGGA
*
5739104 GATGCATCAATGCA
1 G-TGCATCGATGCA
5739118 CTTCATAGTG
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
21 13 0.30
22 3 0.07
23 18 0.41
24 10 0.23
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (23 bp):
GTGCATCGATGCATATTCAAGGA
Found at i:5739099 original size:44 final size:44
Alignment explanation
Indices: 5739041--5739137 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 44
5739031 GGCAGTGTGC
* **
5739041 ATCGATGCATATTC-AA-GGAGTGCATCGGTGCATCTTCAT-GATGT
1 ATCGATGCACATTCAAAGGGA-TGCATCAATGCA-CTTCATAG-TGT
5739085 ATCGATGCACATTCAAAGGGATGCATCAATGCACTTCATAGTGT
1 ATCGATGCACATTCAAAGGGATGCATCAATGCACTTCATAGTGT
5739129 ATCGATGCA
1 ATCGATGCA
5739138 TTACACACAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
44 31 0.66
45 13 0.28
46 3 0.06
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (44 bp):
ATCGATGCACATTCAAAGGGATGCATCAATGCACTTCATAGTGT
Found at i:5761095 original size:43 final size:44
Alignment explanation
Indices: 5761040--5761330 Score: 382
Period size: 43 Copynumber: 6.8 Consensus size: 44
5761030 GGTCTTATAT
* * * *
5761040 TTGCACATAGCAAAAGAG-CCTAGGGAAACTGTAAGGCTTACCC
1 TTGCACACAGCAAAAGGGACCTGGGGGAACTGTAAGGCTTACCC
* * *
5761083 TTGCACACAGC-AAAGGAACCT-GAGAAACTGTAAGGCTTACCC
1 TTGCACACAGCAAAAGGGACCTGGGGGAACTGTAAGGCTTACCC
* * *
5761125 TTGCACACAGC-AAAGGAAACTGGGGGAACTGTAAGGCTTATCC
1 TTGCACACAGCAAAAGGGACCTGGGGGAACTGTAAGGCTTACCC
* *
5761168 TTGCACACAGC-AAAGGGACTTGGGGAAACTGTAAGGCTTACCC
1 TTGCACACAGCAAAAGGGACCTGGGGGAACTGTAAGGCTTACCC
*
5761211 TTGCACATAG-AAAAGGGACCTGGGGGAACTGTAAGGCTTACCC
1 TTGCACACAGCAAAAGGGACCTGGGGGAACTGTAAGGCTTACCC
*
5761254 TTGCACACAAC-AAAGGGACCTGGGGGAACTGTAAGGCTTACCC
1 TTGCACACAGCAAAAGGGACCTGGGGGAACTGTAAGGCTTACCC
* *
5761297 TTGCACACAAC-AAAGGGACCTAGGGGAACTGTAA
1 TTGCACACAGCAAAAGGGACCTGGGGGAACTGTAA
5761331 CGGTAATTAA
Statistics
Matches: 225, Mismatches: 19, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
42 44 0.20
43 181 0.80
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.18
Consensus pattern (44 bp):
TTGCACACAGCAAAAGGGACCTGGGGGAACTGTAAGGCTTACCC
Found at i:5764174 original size:18 final size:18
Alignment explanation
Indices: 5764153--5764192 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
5764143 GGGTCGAGTT
*
5764153 GGGTCGGGTCAACGGGTC
1 GGGTCGGGTAAACGGGTC
*
5764171 GGGTGGGGTAAACGGGTC
1 GGGTCGGGTAAACGGGTC
5764189 GGGT
1 GGGT
5764193 TGTAACCGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.12, C:0.15, G:0.55, T:0.17
Consensus pattern (18 bp):
GGGTCGGGTAAACGGGTC
Found at i:5764179 original size:23 final size:23
Alignment explanation
Indices: 5764135--5764179 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
5764125 GCCGGTCAAT
* *
5764135 GGGTTAACGGGTCGAGTTGGGTC
1 GGGTCAACGGGTCGAGTGGGGTC
*
5764158 GGGTCAACGGGTCGGGTGGGGT
1 GGGTCAACGGGTCGAGTGGGGT
5764180 AAACGGGTCG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.11, C:0.13, G:0.53, T:0.22
Consensus pattern (23 bp):
GGGTCAACGGGTCGAGTGGGGTC
Found at i:5766208 original size:43 final size:43
Alignment explanation
Indices: 5766143--5766433 Score: 404
Period size: 43 Copynumber: 6.8 Consensus size: 43
5766133 GGTCTTATAT
* * * *
5766143 TTGCACATAGCAAAAGAGCCTGGGGAAACTGTAAGGCTTACCC
1 TTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACCC
* * * *
5766186 TTGCACACAACAAAGGAACCT-GGGAAAGTGTAAGGCTTACTC
1 TTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACCC
* * ** *
5766228 TTACACATAGCAAAGGAAATTGGGGGAACTGTAAGGCTTATCC
1 TTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACCC
* * *
5766271 TTGCACACAACAAAGGGACTTGGGGGAACTGTAAGGCTTACCC
1 TTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACCC
* *
5766314 TTGCACACAGCAAAGGGACATGGGGGAACTGTAAGGCTTACCC
1 TTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACCC
5766357 TTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACCC
1 TTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACCC
*
5766400 TTGCACACAGCAAAGGGACCTGGGGGAACTGTAA
1 TTGCACACAGCAAAGGAACCTGGGGGAACTGTAA
5766434 CGGTAATTAA
Statistics
Matches: 221, Mismatches: 26, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
42 35 0.16
43 186 0.84
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.18
Consensus pattern (43 bp):
TTGCACACAGCAAAGGAACCTGGGGGAACTGTAAGGCTTACCC
Found at i:5769274 original size:13 final size:13
Alignment explanation
Indices: 5769258--5769319 Score: 61
Period size: 13 Copynumber: 4.4 Consensus size: 13
5769248 TCAACGGGAT
5769258 GGGTCGGGTCAAC
1 GGGTCGGGTCAAC
*
5769271 GGGTCGAGTCAACGAGTC
1 GGGTCGGGTC-A--A--C
*
5769289 GGGTCGGGTTAAC
1 GGGTCGGGTCAAC
5769302 GGGTCGGGTCAAC
1 GGGTCGGGTCAAC
5769315 GGGTC
1 GGGTC
5769320 TGGTTGTAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
13 27 0.68
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 9 0.22
ACGTcount: A:0.16, C:0.21, G:0.45, T:0.18
Consensus pattern (13 bp):
GGGTCGGGTCAAC
Found at i:5769282 original size:31 final size:31
Alignment explanation
Indices: 5769241--5769319 Score: 115
Period size: 31 Copynumber: 2.5 Consensus size: 31
5769231 GGTCGGGAGA
5769241 GGTCGGGTCAACGGGAT-GGGTCGGGTCAACG
1 GGTCGGGTCAACGGG-TCGGGTCGGGTCAACG
* * *
5769272 GGTCGAGTCAACGAGTCGGGTCGGGTTAACG
1 GGTCGGGTCAACGGGTCGGGTCGGGTCAACG
5769303 GGTCGGGTCAACGGGTC
1 GGTCGGGTCAACGGGTC
5769320 TGGTTGTAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
30 1 0.02
31 41 0.98
ACGTcount: A:0.16, C:0.20, G:0.46, T:0.18
Consensus pattern (31 bp):
GGTCGGGTCAACGGGTCGGGTCGGGTCAACG
Found at i:5769291 original size:18 final size:18
Alignment explanation
Indices: 5769270--5769311 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
5769260 GTCGGGTCAA
5769270 CGGGTCGAGTCAACGAGT
1 CGGGTCGAGTCAACGAGT
* * *
5769288 CGGGTCGGGTTAACGGGT
1 CGGGTCGAGTCAACGAGT
5769306 CGGGTC
1 CGGGTC
5769312 AACGGGTCTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.14, C:0.21, G:0.45, T:0.19
Consensus pattern (18 bp):
CGGGTCGAGTCAACGAGT
Found at i:5771372 original size:14 final size:14
Alignment explanation
Indices: 5771353--5771382 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5771343 TTGATCCTTT
5771353 AAGTTTTATTAAGA
1 AAGTTTTATTAAGA
*
5771367 AAGTTTTATTGAGA
1 AAGTTTTATTAAGA
5771381 AA
1 AA
5771383 CTCAATGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (14 bp):
AAGTTTTATTAAGA
Found at i:5772030 original size:33 final size:33
Alignment explanation
Indices: 5771993--5772060 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
5771983 TGGGTTAAAA
*
5771993 TTCGGTTCATGTTAAAATTCTGTTCGGGTTTCT
1 TTCGGTTCATGTTAAAATTCTGTTCGAGTTTCT
* *
5772026 TTCGGTTCGTGTTAAAATTTTGTTCGAGTTTCT
1 TTCGGTTCATGTTAAAATTCTGTTCGAGTTTCT
5772059 TT
1 TT
5772061 AGATTCGAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.15, C:0.13, G:0.21, T:0.51
Consensus pattern (33 bp):
TTCGGTTCATGTTAAAATTCTGTTCGAGTTTCT
Found at i:5786529 original size:40 final size:40
Alignment explanation
Indices: 5786480--5786573 Score: 161
Period size: 40 Copynumber: 2.4 Consensus size: 40
5786470 GGGTACGTAC
* *
5786480 TACCAATATTGTTCTTACAGTATCGATACTATATGAACAA
1 TACCGATATTGTTCTTACAATATCGATACTATATGAACAA
5786520 TACCGATATTGTTCTTACAATATCGATACTATATGAACAA
1 TACCGATATTGTTCTTACAATATCGATACTATATGAACAA
*
5786560 TATCGATATTGTTC
1 TACCGATATTGTTC
5786574 ATGTCGTACC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (40 bp):
TACCGATATTGTTCTTACAATATCGATACTATATGAACAA
Found at i:5786559 original size:20 final size:20
Alignment explanation
Indices: 5786500--5786567 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
5786490 GTTCTTACAG
5786500 TATCGATACTATATGAACAA
1 TATCGATACTATATGAACAA
* * * **
5786520 TACCGATATTGT-TCTTACAA
1 TATCGATACTATAT-GAACAA
5786540 TATCGATACTATATGAACAA
1 TATCGATACTATATGAACAA
5786560 TATCGATA
1 TATCGATA
5786568 TTGTTCATGT
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
19 1 0.03
20 34 0.94
21 1 0.03
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (20 bp):
TATCGATACTATATGAACAA
Found at i:5791226 original size:23 final size:23
Alignment explanation
Indices: 5791178--5791226 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
5791168 TGGTGGTTGG
* *
5791178 TTTAATGGATGTTTAGACTTTTT
1 TTTAATGGATCTTTAGACTTTAT
*
5791201 TTTAATGGTATCTTTA-AGTTTAT
1 TTTAATGG-ATCTTTAGACTTTAT
5791224 TTT
1 TTT
5791227 GGTTCTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.22, C:0.04, G:0.14, T:0.59
Consensus pattern (23 bp):
TTTAATGGATCTTTAGACTTTAT
Found at i:5795780 original size:744 final size:737
Alignment explanation
Indices: 5794360--5795832 Score: 2856
Period size: 744 Copynumber: 2.0 Consensus size: 737
5794350 GAGTCGAGGA
5794360 TGTTATAGGACGGGTGGACAAGTTTGTGTTTCCAATCTACTTCTTAATTATGGACTGCGAAGTTG
1 TGTTATAGGACGGGTGGACAAGTTTGTGTTTCCAATCTACTTCTTAATTATGGACTGCGAAGTTG
5794425 ATGCCAAGGCACCAATTATTCTGGGAAGACCTTTCCTAGCCACTGGACGTATATTGATCGACTGT
66 ATGCCAAGGCACCAATTATTCTGGGAAGACCTTTCCTAGCCACTGGACGTATATTGATCGACTGT
5794490 GAAAAAGGTGAACTCACCATGAGAGTGGTTGATCAGTGTGTGACTGTTAATGTGTTTCGAACGCT
131 GAAAAAGGTGAACTCACCATGAGAGTGGTTGATCAGTGTGTGACTGTTAATGTGTTTCGAACGCT
5794555 CAAATATGTTGATGACACTAAAGAATGCCAAGGCATTTCTGAATTGAACTCAGTGATTGAAGAAG
196 CAAATATGTTGATGACACTAAAGAATGCCAAGGCATTTCTGAATTGAACTCAGTGATTGAAGAAG
5794620 AAATTGAACATCTTTGCCAGAACAATTTCATTCAGCTAGCAAAAAATTATTGGGTGATGAAAGCT
261 AAATTGAACATCTTTGCCAGAACAATTTCATTCAGCTAGCAAAAAATTATTGGGTGATGAAAGCT
5794685 TAGTGGAGTCCAACAACTTTTCAATTTCGGAGGAGCAGTCTAGCTTACTACAAGCTCGATCAGGT
326 TAGTGGAGTCCAACAACTTTTCAATTTCGGAGGAGCAGTCTAGCTTACTACAAGCTCGATCAGGT
5794750 ATGAATTTTGAACCTCTGAATTTTGATGAATTTATTCCTTCTAAGCCTTCATTATTGCATGCACC
391 ATGAATTTTGAACCTCTGAATTTTGATGAATTTATTCCTTCTAAGCCTTCATTATTGCATGCACC
5794815 TACTTTAGAACTTAAAACTTTTCTAGGGCATCTTAAATATGTTTACTTAGGTAGCGATGAGACTT
456 TACTTTAGAACTTAAAACTTTTCTAGGGCATCTTAAATATGTTTACTTAGGTAGCGATGAGACTT
5794880 TACTGGTGATTATTTATACTAACCTTACGGTTAATCAAGAGCAAAGTTTGTTAAGTATTTTGATG
521 TACTGGTGATTATTTATACTAACCTTACGGTTAATCAAGAGCAAAGTTTGTTAAGTATTTTGATG
5794945 CAGCATAAGAAAGTAATTGGTTGAACTATGGCCGACTTGAAGGGAATTAGTACCACGATCTGTAT
586 CAGCATAAGAAAGTAATTGGTTGAACTATGGCCGACTTGAAGGGAATTAGTACCACGATCTGTAT
5795010 GCATAAGATTTTGCTTGAACATTGCCACGGCAATTCAATCGAACCACAACGAAGACTCAACCCTG
651 GCATAAGATTTTGCTTGAACATTGCCACGGCAATTCAATCGAACCACAACGAAGACTCAACCCTG
5795075 TTATGAAGAAAGTGATTTACCC
716 TTATGAAGAAAGTGATTTACCC
5795097 TGTTATAGGACGGGTGGACAAGTTTGTGTTTCCAATCTACTTCTTAATTATGGACTGCGAAGTTG
1 TGTTATAGGACGGGTGGACAAGTTTGTGTTTCCAATCTACTTCTTAATTATGGACTGCGAAGTTG
5795162 ATGCCAAGGCACCAATTATTCTGGGAAGACCTTTCCTAGCCACTGGACGTATATTGATCGACTGT
66 ATGCCAAGGCACCAATTATTCTGGGAAGACCTTTCCTAGCCACTGGACGTATATTGATCGACTGT
5795227 GAAAAAGGTGAACTCACCATGAGAGTGGTTGATCAGTGTGTGACTGTTAATGTGTTTCGAACGCT
131 GAAAAAGGTGAACTCACCATGAGAGTGGTTGATCAGTGTGTGACTGTTAATGTGTTTCGAACGCT
5795292 CAAATATGTTGATGACACTAAAGAATGCCAAGGCATTTCTGAATTGAACTCAGTGATTGAAGAAG
196 CAAATATGTTGATGACACTAAAGAATGCCAAGGCATTTCTGAATTGAACTCAGTGATTGAAGAAG
5795357 AAATTGAACATCTTTGCCAGAACAATTTCATTCAGCTAGCAAAAAATGATTATTGGGTGGATGAT
261 AAATTGAACATCTTTGCCAGAACAATTTCATTCAGCTAGC-AAAAA--ATTATT--G-GG-TGAT
*
5795422 GAAAGCTTAGTGGAGTCCAACAACTTTTCAATTTTGGAGGAGCAGTCTAGCTTACTACAAGCTCG
319 GAAAGCTTAGTGGAGTCCAACAACTTTTCAATTTCGGAGGAGCAGTCTAGCTTACTACAAGCTCG
5795487 ATCAGGTATGAATTTTGAACCTCTGAATTTTGATGAATTTATTCCTTCTAAGCCTTCATTATTGC
384 ATCAGGTATGAATTTTGAACCTCTGAATTTTGATGAATTTATTCCTTCTAAGCCTTCATTATTGC
5795552 ATGCACCTACTTTAGAACTTAAAACTTTTCTAGGGCATCTTAAATATGTTTACTTAGGTAGCGAT
449 ATGCACCTACTTTAGAACTTAAAACTTTTCTAGGGCATCTTAAATATGTTTACTTAGGTAGCGAT
5795617 GAGACTTTACTGGTGATTATTTATACTAACCTTACGGTTAATCAAGAGCAAAGTTTGTTAAGTAT
514 GAGACTTTACTGGTGATTATTTATACTAACCTTACGGTTAATCAAGAGCAAAGTTTGTTAAGTAT
5795682 TTTGATGCAGCATAAGAAAGTAATTGGTTGAACTATGGCCGACTTGAAGGGAATTAGTACCACGA
579 TTTGATGCAGCATAAGAAAGTAATTGGTTGAACTATGGCCGACTTGAAGGGAATTAGTACCACGA
* *
5795747 TCTGTATGCATAAGATTTTGCTTGAATATTGCCACGTCAATTCAATCGAACCACAACGAAGACTC
644 TCTGTATGCATAAGATTTTGCTTGAACATTGCCACGGCAATTCAATCGAACCACAACGAAGACTC
5795812 AACCCTGTTATGAAGAAAGTG
709 AACCCTGTTATGAAGAAAGTG
5795833 GTTATGAAAG
Statistics
Matches: 726, Mismatches: 3, Indels: 7
0.99 0.00 0.01
Matches are distributed among these distances:
737 300 0.41
738 5 0.01
740 6 0.01
742 1 0.00
743 2 0.00
744 412 0.57
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.32
Consensus pattern (737 bp):
TGTTATAGGACGGGTGGACAAGTTTGTGTTTCCAATCTACTTCTTAATTATGGACTGCGAAGTTG
ATGCCAAGGCACCAATTATTCTGGGAAGACCTTTCCTAGCCACTGGACGTATATTGATCGACTGT
GAAAAAGGTGAACTCACCATGAGAGTGGTTGATCAGTGTGTGACTGTTAATGTGTTTCGAACGCT
CAAATATGTTGATGACACTAAAGAATGCCAAGGCATTTCTGAATTGAACTCAGTGATTGAAGAAG
AAATTGAACATCTTTGCCAGAACAATTTCATTCAGCTAGCAAAAAATTATTGGGTGATGAAAGCT
TAGTGGAGTCCAACAACTTTTCAATTTCGGAGGAGCAGTCTAGCTTACTACAAGCTCGATCAGGT
ATGAATTTTGAACCTCTGAATTTTGATGAATTTATTCCTTCTAAGCCTTCATTATTGCATGCACC
TACTTTAGAACTTAAAACTTTTCTAGGGCATCTTAAATATGTTTACTTAGGTAGCGATGAGACTT
TACTGGTGATTATTTATACTAACCTTACGGTTAATCAAGAGCAAAGTTTGTTAAGTATTTTGATG
CAGCATAAGAAAGTAATTGGTTGAACTATGGCCGACTTGAAGGGAATTAGTACCACGATCTGTAT
GCATAAGATTTTGCTTGAACATTGCCACGGCAATTCAATCGAACCACAACGAAGACTCAACCCTG
TTATGAAGAAAGTGATTTACCC
Found at i:5796175 original size:27 final size:27
Alignment explanation
Indices: 5796130--5796183 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
5796120 TTCAGGGTAT
*
5796130 AATCAAATTGTCATCGCACCAGAGGAC
1 AATCAAATTGTCATAGCACCAGAGGAC
*
5796157 AATCAAATT-TCCATAGCACCAGGGGAC
1 AATCAAATTGT-CATAGCACCAGAGGAC
5796184 CAAGAAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.19
Consensus pattern (27 bp):
AATCAAATTGTCATAGCACCAGAGGAC
Found at i:5802270 original size:23 final size:23
Alignment explanation
Indices: 5802240--5802288 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
5802230 TGGTGGTTGG
*
5802240 TTTAATGG-ATGTTTAGACTTTAT
1 TTTAATGGTATATTTA-ACTTTAT
*
5802263 TTTAATGGTATATTTAAGTTTAT
1 TTTAATGGTATATTTAACTTTAT
5802286 TTT
1 TTT
5802289 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.57
Consensus pattern (23 bp):
TTTAATGGTATATTTAACTTTAT
Found at i:5802796 original size:11 final size:11
Alignment explanation
Indices: 5802780--5802815 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
5802770 TTCTTTTCAT
*
5802780 TTTATTTACTG
1 TTTATTTACTA
5802791 TTTATTTACTA
1 TTTATTTACTA
*
5802802 TTTATTTACCA
1 TTTATTTACTA
5802813 TTT
1 TTT
5802816 TCCATTGCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.22, C:0.11, G:0.03, T:0.64
Consensus pattern (11 bp):
TTTATTTACTA
Found at i:5804817 original size:2 final size:2
Alignment explanation
Indices: 5804800--5804853 Score: 90
Period size: 2 Copynumber: 27.0 Consensus size: 2
5804790 ATGCACATAC
* *
5804800 AT AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5804842 AT AT AT AT AT AT
1 AT AT AT AT AT AT
5804854 TAATGTTATA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:5814992 original size:16 final size:17
Alignment explanation
Indices: 5814956--5814994 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
5814946 TCCTTAACTC
*
5814956 ATTTATACTCTCATTAAT
1 ATTT-TACTCTCATAAAT
5814974 ATTTTACTCTCA-AAAT
1 ATTTTACTCTCATAAAT
5814990 ATTTT
1 ATTTT
5814995 CTTTAAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 8 0.40
18 4 0.20
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTTACTCTCATAAAT
Found at i:5817718 original size:22 final size:22
Alignment explanation
Indices: 5817690--5817740 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
5817680 ACAACTACAC
*
5817690 ACCATGTCGCAAAGCTAATGAT
1 ACCATGTCGCAAAGCTAATAAT
5817712 ACCATGTCGCAAAGCTAATAAT
1 ACCATGTCGCAAAGCTAATAAT
5817734 ACCATGT
1 ACCATGT
5817741 TGAAATACTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.24
Consensus pattern (22 bp):
ACCATGTCGCAAAGCTAATAAT
Found at i:5822704 original size:22 final size:22
Alignment explanation
Indices: 5822676--5822718 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
5822666 TTGAGCGTTC
5822676 ATTATCAAATAGTTTAGAGTTA
1 ATTATCAAATAGTTTAGAGTTA
5822698 ATTATCAAATAGTTTAGAGTT
1 ATTATCAAATAGTTTAGAGTT
5822719 TTTAGAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.42
Consensus pattern (22 bp):
ATTATCAAATAGTTTAGAGTTA
Found at i:5825239 original size:30 final size:30
Alignment explanation
Indices: 5824944--5825222 Score: 506
Period size: 30 Copynumber: 9.3 Consensus size: 30
5824934 GAAGGACCTA
* * *
5824944 TCCAGAGGTCACAAAGA-CCCCGGTAACTA
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
5824973 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
5825003 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
5825033 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
5825063 TCCAGAGGTCATAAAGATCCTCGGTAACTA
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
5825093 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
5825123 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
5825153 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
5825183 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
5825213 TCCATAGGTC
1 TCCAGAGGTC
5825223 CCGAAGAACC
Statistics
Matches: 243, Mismatches: 6, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
29 16 0.07
30 227 0.93
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:5825246 original size:31 final size:31
Alignment explanation
Indices: 5825208--5825272 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
5825198 GATCCTCGGT
*
5825208 AACTGTCCATAGGTCCCG-AAGAACCTAGGTA
1 AACTGTCCATAGGTCCCGAAAG-ACATAGGTA
* *
5825239 AACTGTCCATATGTCTCGAAAGACATAGGTA
1 AACTGTCCATAGGTCCCGAAAGACATAGGTA
5825270 AAC
1 AAC
5825273 CCTCGACTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 27 0.90
32 3 0.10
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (31 bp):
AACTGTCCATAGGTCCCGAAAGACATAGGTA
Found at i:5825775 original size:2 final size:2
Alignment explanation
Indices: 5825768--5825802 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5825758 ATACAATTCC
5825768 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5825803 CTAACTCATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5826389 original size:21 final size:21
Alignment explanation
Indices: 5826359--5826403 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
5826349 ATTCTGTCGT
* *
5826359 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
5826380 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
5826401 TTG
1 TTG
5826404 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:5829395 original size:30 final size:30
Alignment explanation
Indices: 5829100--5829378 Score: 497
Period size: 30 Copynumber: 9.3 Consensus size: 30
5829090 GAAGGACCTA
* * *
5829100 TCCAGAGGTCACAAAGA-CCCCGGTAACTA
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
5829129 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
5829159 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
5829189 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
5829219 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
5829249 TCCAGAGGTCATAAAGATCCTCAGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
5829279 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
5829309 TCCAGAGGTCATAAAGATCCTCGGTAACTT
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
5829339 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
5829369 TCCATAGGTC
1 TCCAGAGGTC
5829379 CCGAAGAACC
Statistics
Matches: 241, Mismatches: 8, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
29 16 0.07
30 225 0.93
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.23
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:5829402 original size:31 final size:31
Alignment explanation
Indices: 5829364--5829428 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
5829354 GATCCTCGGT
*
5829364 AACTGTCCATAGGTCCCG-AAGAACCTAGGTA
1 AACTGTCCATAGGTCCCGAAAG-ACATAGGTA
* *
5829395 AACTGTCCATATGTCTCGAAAGACATAGGTA
1 AACTGTCCATAGGTCCCGAAAGACATAGGTA
5829426 AAC
1 AAC
5829429 CCTCGACTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 27 0.90
32 3 0.10
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (31 bp):
AACTGTCCATAGGTCCCGAAAGACATAGGTA
Found at i:5830527 original size:21 final size:21
Alignment explanation
Indices: 5830497--5830541 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
5830487 ATTCTGTCGT
* *
5830497 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
5830518 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
5830539 TTG
1 TTG
5830542 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:5831969 original size:24 final size:24
Alignment explanation
Indices: 5831942--5832040 Score: 118
Period size: 24 Copynumber: 4.2 Consensus size: 24
5831932 ATTTGTGTAC
5831942 ATTCTATGCG-GCACTTTATGTGCA
1 ATTCTAT-CGTGCACTTTATGTGCA
*
5831966 ATTCTA-CGTGGTACTTTATGTGCA
1 ATTCTATCGT-GCACTTTATGTGCA
*
5831990 TTTCTA-CGTGCACTTTATGTGC-
1 ATTCTATCGTGCACTTTATGTGCA
*
5832012 ATT-TCTCGTGCACTTTATGTGCA
1 ATTCTATCGTGCACTTTATGTGCA
5832035 ATTCTA
1 ATTCTA
5832041 CGTAACACTA
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
21 1 0.02
22 20 0.31
23 15 0.23
24 28 0.44
ACGTcount: A:0.19, C:0.20, G:0.18, T:0.42
Consensus pattern (24 bp):
ATTCTATCGTGCACTTTATGTGCA
Found at i:5832008 original size:23 final size:24
Alignment explanation
Indices: 5831952--5832060 Score: 136
Period size: 24 Copynumber: 4.7 Consensus size: 24
5831942 ATTCTATGCG
* *
5831952 GCACTTTATGTGCAATTCTACGTG
1 GCACTTTATGTGCATTTCTACGTA
*
5831976 GTACTTTATGTGCATTTCTACGT-
1 GCACTTTATGTGCATTTCTACGTA
5831999 GCACTTTATGTGCATTTCT-CGT-
1 GCACTTTATGTGCATTTCTACGTA
*
5832021 GCACTTTATGTGCAATTCTACGTA
1 GCACTTTATGTGCATTTCTACGTA
*
5832045 ACACTATT-TGTGCATT
1 GCACT-TTATGTGCATT
5832061 CAGGAAATTC
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
22 21 0.28
23 21 0.28
24 32 0.42
25 2 0.03
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.42
Consensus pattern (24 bp):
GCACTTTATGTGCATTTCTACGTA
Found at i:5832058 original size:24 final size:23
Alignment explanation
Indices: 5831952--5832043 Score: 141
Period size: 22 Copynumber: 4.0 Consensus size: 23
5831942 ATTCTATGCG
5831952 GCACTTTATGTGCAATTCTACGT
1 GCACTTTATGTGCAATTCTACGT
* *
5831975 GGTACTTTATGTGCATTTCTACGT
1 -GCACTTTATGTGCAATTCTACGT
*
5831999 GCACTTTATGTGCATTTCT-CGT
1 GCACTTTATGTGCAATTCTACGT
5832021 GCACTTTATGTGCAATTCTACGT
1 GCACTTTATGTGCAATTCTACGT
5832044 AACACTATTT
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
22 21 0.33
23 21 0.33
24 21 0.33
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.42
Consensus pattern (23 bp):
GCACTTTATGTGCAATTCTACGT
Found at i:5836810 original size:9 final size:11
Alignment explanation
Indices: 5836788--5836813 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
5836778 AACATAAATT
5836788 TATAAATAATA
1 TATAAATAATA
5836799 TATAAATAATA
1 TATAAATAATA
5836810 TATA
1 TATA
5836814 TTAAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TATAAATAATA
Found at i:5837755 original size:26 final size:26
Alignment explanation
Indices: 5837698--5837757 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
5837688 GAATATTTTA
*
5837698 TATAAA-TTATAGAAAATATAATACT
1 TATAAATTTATAGAAAATATAATAAT
*
5837723 TAAAAATTTATAGAAAACTATAA-AAT
1 TATAAATTTATAGAAAA-TATAATAAT
*
5837749 TTTAAATTT
1 TATAAATTT
5837758 TAAAATATTC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 5 0.17
26 19 0.66
27 5 0.17
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (26 bp):
TATAAATTTATAGAAAATATAATAAT
Found at i:5838976 original size:55 final size:55
Alignment explanation
Indices: 5838894--5838998 Score: 147
Period size: 55 Copynumber: 1.9 Consensus size: 55
5838884 CCCAAATCCT
* * * * * *
5838894 TATATCCCTTCCCATTCAAATGTCCCTAACAGAGGCATTTATGCACTAAAGTTTA
1 TATATCCCCTCCAATTCAAATGCCCCTAAAAGAGGAATATATGCACTAAAGTTTA
*
5838949 TATATCCCCTCCAATTCAAATGCCCCTAAAAGAGGAATATATGCCCTAAA
1 TATATCCCCTCCAATTCAAATGCCCCTAAAAGAGGAATATATGCACTAAA
5838999 CTAAACATGA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.34, C:0.27, G:0.10, T:0.29
Consensus pattern (55 bp):
TATATCCCCTCCAATTCAAATGCCCCTAAAAGAGGAATATATGCACTAAAGTTTA
Found at i:5840654 original size:20 final size:19
Alignment explanation
Indices: 5840629--5840682 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
5840619 GCGAAATAAA
5840629 AATCGCAACGCGATCTCCAG
1 AATCGCAACGCGATC-CCAG
*
5840649 AATCGCAAAC-CAGTTCCCAG
1 AATCGC-AACGC-GATCCCAG
*
5840669 AATCGCAATGCGAT
1 AATCGCAACGCGAT
5840683 AGTACAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 4 0.14
20 18 0.64
21 6 0.21
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (19 bp):
AATCGCAACGCGATCCCAG
Found at i:5840723 original size:21 final size:21
Alignment explanation
Indices: 5840629--5840723 Score: 56
Period size: 21 Copynumber: 4.6 Consensus size: 21
5840619 GCGAAATAAA
*
5840629 AATCGCAACGCGA-TCTCCAG
1 AATCGCAACGCGATTTTCCAG
* *
5840649 AATCGCAAAC-C-AGTTCCCAG
1 AATCGC-AACGCGATTTTCCAG
* ** *
5840669 AATCGCAATGCGATAGTACA-
1 AATCGCAACGCGATTTTCCAG
*
5840689 AATTCG-AATTGCGATTTTCCAG
1 AA-TCGCAA-CGCGATTTTCCAG
5840711 AATCGCAACGCGA
1 AATCGCAACGCGA
5840724 ATATGAAAAC
Statistics
Matches: 55, Mismatches: 12, Indels: 15
0.67 0.15 0.18
Matches are distributed among these distances:
19 3 0.05
20 23 0.42
21 25 0.45
22 4 0.07
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (21 bp):
AATCGCAACGCGATTTTCCAG
Found at i:5840739 original size:20 final size:20
Alignment explanation
Indices: 5840714--5840763 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
5840704 TTTCCAGAAT
5840714 CGCAACGCGAATATGA-AAAC
1 CGCAACGCGAATAT-ATAAAC
*
5840734 CGCAACGCGAATATATAAAT
1 CGCAACGCGAATATATAAAC
5840754 CGCAACGCGA
1 CGCAACGCGA
5840764 TTCTGACTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.42, C:0.26, G:0.20, T:0.12
Consensus pattern (20 bp):
CGCAACGCGAATATATAAAC
Found at i:5840821 original size:41 final size:41
Alignment explanation
Indices: 5840772--5840961 Score: 276
Period size: 40 Copynumber: 4.7 Consensus size: 41
5840762 GATTCTGACT
* *
5840772 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
5840813 ATCACAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* * *
5840854 ATCGTAACGAGAATACAT-AAATCGCAACGCGTATCTGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
5840894 ATCGCAACGAGAATACGT-AAATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
5840934 ATCGCAATGACAATACGTAAAATCGCAA
1 ATCGCAACGAGAATACGTAAAATCGCAA
5840962 TGCGAAATGA
Statistics
Matches: 133, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 73 0.55
41 60 0.45
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.19
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:5840942 original size:20 final size:20
Alignment explanation
Indices: 5840772--5840940 Score: 178
Period size: 20 Copynumber: 8.3 Consensus size: 20
5840762 GATTCTGACT
*
5840772 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGCGTATCCGT-AA
5840793 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
5840813 ATCACAACGAC-AATACGTAAA
1 ATCGCAACG-CGTATCCGT-AA
5840834 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * * * *
5840854 ATCGTAACGAGAATACATAA
1 ATCGCAACGCGTATCCGTAA
*
5840874 ATCGCAACGCGTATCTGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
5840894 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
*
5840914 ATCGCAATGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
5840934 ATCGCAA
1 ATCGCAA
5840941 TGACAATACG
Statistics
Matches: 119, Mismatches: 26, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
20 86 0.72
21 33 0.28
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGTATCCGTAA
Found at i:5840952 original size:20 final size:20
Alignment explanation
Indices: 5840772--5840961 Score: 120
Period size: 20 Copynumber: 9.3 Consensus size: 20
5840762 GATTCTGACT
** *
5840772 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGACAATACGT-AA
* *
5840793 ATCGCAACG-CGTATCCGTAA
1 ATCGCAACGAC-AATACGTAA
*
5840813 ATCACAACGACAATACGTAAA
1 ATCGCAACGACAATACGT-AA
* *
5840834 ATCGCAACG-CGTATCCGTAA
1 ATCGCAACGAC-AATACGTAA
* * *
5840854 ATCGTAACGAGAATACATAA
1 ATCGCAACGACAATACGTAA
*
5840874 ATCGCAACG-C-GTATCTGTAA
1 ATCGCAACGACAATA-C-GTAA
*
5840894 ATCGCAACGAGAATACGTAA
1 ATCGCAACGACAATACGTAA
* * *
5840914 ATCGCAATG-CGTATCCGTAA
1 ATCGCAACGAC-AATACGTAA
*
5840934 ATCGCAATGACAATACGTAAA
1 ATCGCAACGACAATACGT-AA
5840955 ATCGCAA
1 ATCGCAA
5840962 TGCGAAATGA
Statistics
Matches: 133, Mismatches: 24, Indels: 24
0.73 0.13 0.13
Matches are distributed among these distances:
18 2 0.02
19 1 0.01
20 85 0.64
21 43 0.32
22 2 0.02
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.19
Consensus pattern (20 bp):
ATCGCAACGACAATACGTAA
Found at i:5840976 original size:40 final size:39
Alignment explanation
Indices: 5840772--5840983 Score: 228
Period size: 40 Copynumber: 5.3 Consensus size: 39
5840762 GATTCTGACT
** *
5840772 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGACAATACGT-AAATCGCAACGCGTAT-CGTAA
*
5840813 ATCACAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGACAATACGT-AAATCGCAACGCGTAT-CGTAA
* * *
5840854 ATCGTAACGAGAATACATAAATCGCAACGCGTATCTGTAA
1 ATCGCAACGACAATACGTAAATCGCAACGCGTATC-GTAA
* *
5840894 ATCGCAACGAGAATACGTAAATCGCAATGCGTATCCGTAA
1 ATCGCAACGACAATACGTAAATCGCAACGCGTAT-CGTAA
* * * *
5840934 ATCGCAATGACAATACGTAAAATCGCAATGCGAAAT-GAAA
1 ATCGCAACGACAATACGT-AAATCGCAACGCG-TATCGTAA
5840974 ATCGCAACGA
1 ATCGCAACGA
5840984 GTGAATAGCA
Statistics
Matches: 151, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 83 0.55
41 65 0.43
42 2 0.01
ACGTcount: A:0.40, C:0.23, G:0.18, T:0.19
Consensus pattern (39 bp):
ATCGCAACGACAATACGTAAATCGCAACGCGTATCGTAA
Found at i:5840976 original size:80 final size:81
Alignment explanation
Indices: 5840711--5840984 Score: 238
Period size: 81 Copynumber: 3.4 Consensus size: 81
5840701 GATTTTCCAG
* * *
5840711 AATCGCAACGCG-AATATGAAAACCGCAACGCGAATA--TATAAATCGCAACGCG-ATTC-TGAC
1 AATCGCAACGCGTAA-ATGAAAATCGCAACGAGAATACGTA-AAATCGCAACGCGTATCCGT-A-
* ** * *
5840771 TATCGCAACGAGTATCCGTAA
62 AATCGCAACGACAATACAT-A
*** * * *
5840792 AATCGCAACGCGTATCCGTAAATCACAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATC
1 AATCGCAACGCGTAAATGAAAATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAATC
* *
5840857 GTAACGAGAATACATA
66 GCAACGACAATACATA
** * *
5840873 AATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGT-AAATCGCAATGCGTATCCGTAAATC
1 AATCGCAACGCGTAAATGAAAATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAATC
* *
5840937 GCAATGACAATACGTAA
66 GCAACGACAATACAT-A
*
5840954 AATCGCAATGCG-AAATGAAAATCGCAACGAG
1 AATCGCAACGCGTAAATGAAAATCGCAACGAG
5840985 TGAATAGCAA
Statistics
Matches: 161, Mismatches: 26, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
80 51 0.32
81 75 0.47
82 28 0.17
83 6 0.04
84 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.18, T:0.19
Consensus pattern (81 bp):
AATCGCAACGCGTAAATGAAAATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAAATC
GCAACGACAATACATA
Found at i:5841016 original size:20 final size:20
Alignment explanation
Indices: 5840892--5841034 Score: 95
Period size: 20 Copynumber: 7.5 Consensus size: 20
5840882 GCGTATCTGT
* * * *
5840892 AAATCGCAACGAGAATACGT
1 AAATCGCAATGCGAAAACGA
* ** *
5840912 AAATCGCAATGCGTATCCGT
1 AAATCGCAATGCGAAAACGA
*
5840932 AAATCGCAATGAC-AATACGTA
1 AAATCGCAATG-CGAAAACG-A
*
5840953 AAATCGCAATGCG-AAATGA
1 AAATCGCAATGCGAAAACGA
*
5840972 AAATCGCAA--CG---A-GT
1 AAATCGCAATGCGAAAACGA
* *
5840986 GAATAGCAATGCGAAAACGA
1 AAATCGCAATGCGAAAACGA
5841006 AAATCGCAATGCGAAAACGA
1 AAATCGCAATGCGAAAACGA
5841026 AAATCGCAA
1 AAATCGCAA
5841035 CGAGAACATG
Statistics
Matches: 99, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
14 8 0.08
15 1 0.01
16 2 0.02
17 2 0.02
19 11 0.11
20 63 0.64
21 12 0.12
ACGTcount: A:0.45, C:0.20, G:0.20, T:0.15
Consensus pattern (20 bp):
AAATCGCAATGCGAAAACGA
Found at i:5843014 original size:42 final size:42
Alignment explanation
Indices: 5842907--5843018 Score: 129
Period size: 42 Copynumber: 2.7 Consensus size: 42
5842897 TCTAGAATGT
* * *
5842907 TGGGAGGGACCTCTTCAACGATGACAGTGGCCTCTTGAACGG
1 TGGGAGGGACCTCTTGAACGATGACAGGGGCCTCTTGAACGA
* ** *
5842949 TGGGAGGGAACTCTTGAGGGATGATAGGGGCCTCTTGAACGA
1 TGGGAGGGACCTCTTGAACGATGACAGGGGCCTCTTGAACGA
5842991 TAGGG-GAGG-CCTCTTGAACGATGACAGG
1 T-GGGAG-GGACCTCTTGAACGATGACAGG
5843019 TGAGTCGGGC
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 52 0.91
43 5 0.09
ACGTcount: A:0.23, C:0.19, G:0.38, T:0.21
Consensus pattern (42 bp):
TGGGAGGGACCTCTTGAACGATGACAGGGGCCTCTTGAACGA
Found at i:5843529 original size:20 final size:20
Alignment explanation
Indices: 5843506--5843564 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
5843496 AAATCCCAAC
5843506 GCGAAAATGACTATCGCAAT
1 GCGAAAATGACTATCGCAAT
5843526 GCGAAAATGACTATCGCAAT
1 GCGAAAATGACTATCGCAAT
**
5843546 GCGAATTTGACTATCGCAA
1 GCGAAAATGACTATCGCAA
5843565 CGAGAGAATC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.22
Consensus pattern (20 bp):
GCGAAAATGACTATCGCAAT
Found at i:5843634 original size:19 final size:19
Alignment explanation
Indices: 5843598--5843642 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
5843588 AAAATCGCAA
5843598 TGCGATTATAGTTTCGCGT
1 TGCGATTATAGTTTCGCGT
* *
5843617 TGCGATTTTGGTTTCGCGT
1 TGCGATTATAGTTTCGCGT
*
5843636 TACGATT
1 TGCGATT
5843643 CTCTCGTTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.13, C:0.16, G:0.27, T:0.44
Consensus pattern (19 bp):
TGCGATTATAGTTTCGCGT
Found at i:5843668 original size:19 final size:19
Alignment explanation
Indices: 5843644--5843715 Score: 67
Period size: 17 Copynumber: 3.8 Consensus size: 19
5843634 GTTACGATTC
5843644 TCTCGTTGCGATTTTCATT
1 TCTCGTTGCGATTTTCATT
*
5843663 TCTCGTTGTGA--TTCATT
1 TCTCGTTGCGATTTTCATT
* **
5843680 TCGCGTTGCGATAGTCATTTT
1 TCTCGTTGCGATTTTCA--TT
*
5843701 TCACGTTGCGATTTT
1 TCTCGTTGCGATTTT
5843716 AAGTTTCGTG
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
17 15 0.36
19 13 0.31
21 14 0.33
ACGTcount: A:0.12, C:0.19, G:0.19, T:0.49
Consensus pattern (19 bp):
TCTCGTTGCGATTTTCATT
Found at i:5843925 original size:94 final size:94
Alignment explanation
Indices: 5843779--5844158 Score: 611
Period size: 94 Copynumber: 4.1 Consensus size: 94
5843769 ATGGATTGCA
* * *
5843779 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAGTACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
5843843 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
5843872 TTACTTTCAACCAAAAGAAAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
5843937 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
5843966 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACATAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
5844031 TTAGCAGAATTGACAGCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
* * * * *
5844060 TTAC-TTCAACCAAAAGACAAAACAAAAGAAAAATATTAACTTCACAATGTTAAAGAATAAAAAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* *
5844124 TTTAGCAGTATTGGCAGCAACCGAATAAAT
65 TTTAGCAGAATTGGCAGCAACCGAACAAAT
5844154 TTACT
1 TTACT
5844159 AAGCAATCTA
Statistics
Matches: 269, Mismatches: 15, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
93 23 0.09
94 246 0.91
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.22
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:5845901 original size:19 final size:19
Alignment explanation
Indices: 5845830--5845956 Score: 120
Period size: 19 Copynumber: 6.8 Consensus size: 19
5845820 TCTTTTGGTT
*
5845830 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
**
5845849 GAGAATGACTATCGCAACGC
1 GA-AATGAAAATCGCAACGC
* **
5845869 GGAAATTACTATCGCAACGC
1 -GAAATGAAAATCGCAACGC
*
5845889 GAAATGAAAATCGCAACTC
1 GAAATGAAAATCGCAACGC
*
5845908 GAAATTAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
5845925 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
5845941 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
5845957 TGCAATTTTG
Statistics
Matches: 89, Mismatches: 12, Indels: 14
0.77 0.10 0.12
Matches are distributed among these distances:
14 9 0.10
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 42 0.47
20 30 0.34
21 2 0.02
ACGTcount: A:0.45, C:0.20, G:0.20, T:0.14
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:5846020 original size:20 final size:20
Alignment explanation
Indices: 5845968--5846045 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
5845958 GCAATTTTGG
*
5845968 TTTCGCGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTCAT
**
5845988 TTCTC-TCGTTGCGATAGTCAT
1 TT-TCGT-GTTGCGATTTTCAT
*
5846009 TTTCGTGTTGCGATTTTTAT
1 TTTCGTGTTGCGATTTTCAT
*
5846029 TTTCATGTTGCGATTTT
1 TTTCGTGTTGCGATTTT
5846046 AAGTTTAGAA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
20 31 0.65
21 17 0.35
ACGTcount: A:0.12, C:0.17, G:0.19, T:0.53
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTCAT
Found at i:5846639 original size:20 final size:20
Alignment explanation
Indices: 5846605--5846760 Score: 122
Period size: 20 Copynumber: 7.7 Consensus size: 20
5846595 TTAAAAATCG
5846605 CGTTGCGATTTTACGTATTGT
1 CGTTGCGA-TTTACGTATTGT
* *
5846626 CGTTGCGATTTACGGATACG-
1 CGTTGCGATTTACGTAT-TGT
* *
5846646 CATTGCGATTTACGTATTCT
1 CGTTGCGATTTACGTATTGT
** *
5846666 CGTTTTGATTTACAG-ATACG-
1 CGTTGCGATTTAC-GTAT-TGT
* *
5846686 CATTGCGATTTACGTATTCT
1 CGTTGCGATTTACGTATTGT
* *
5846706 TGTTGCGATTTACGGATATG-
1 CGTTGCGATTTACGTAT-TGT
5846726 CGTTGCGATTTTACGTATTGT
1 CGTTGCGA-TTTACGTATTGT
*
5846747 CATTGCGATTTACG
1 CGTTGCGATTTACG
5846761 GATACGAGTT
Statistics
Matches: 103, Mismatches: 23, Indels: 19
0.71 0.16 0.13
Matches are distributed among these distances:
19 1 0.01
20 76 0.74
21 26 0.25
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATTTACGTATTGT
Found at i:5846772 original size:20 final size:20
Alignment explanation
Indices: 5846627--5846799 Score: 102
Period size: 20 Copynumber: 8.6 Consensus size: 20
5846617 ACGTATTGTC
5846627 GTTGCGATTTACGGATACGCA
1 GTTGCGATTTACGGATACG-A
* * **
5846648 -TTGCGATTTACGTATTCTC
1 GTTGCGATTTACGGATACGA
** *
5846667 GTTTTGATTTACAGATACGCA
1 GTTGCGATTTACGGATACG-A
* * **
5846688 -TTGCGATTTACGTATTCTT
1 GTTGCGATTTACGGATACGA
* *
5846707 GTTGCGATTTACGGATATGC
1 GTTGCGATTTACGGATACGA
* *
5846727 GTTGCGATTTTACGTAT-TGTCA
1 GTTGCGA-TTTACGGATACG--A
5846749 -TTGCGATTTACGGATACGA
1 GTTGCGATTTACGGATACGA
* **
5846768 GTTGCGATTTTATGGATACTC
1 GTTGCGA-TTTACGGATACGA
5846789 GTTGCGATTTA
1 GTTGCGATTTA
5846800 TATGTTCGCG
Statistics
Matches: 113, Mismatches: 30, Indels: 19
0.70 0.19 0.12
Matches are distributed among these distances:
19 1 0.01
20 80 0.71
21 32 0.28
ACGTcount: A:0.21, C:0.16, G:0.23, T:0.40
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGA
Found at i:5846784 original size:21 final size:21
Alignment explanation
Indices: 5846749--5846803 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
5846739 CGTATTGTCA
*
5846749 TTGCGA-TTTACGGATACGAG
1 TTGCGATTTTATGGATACGAG
**
5846769 TTGCGATTTTATGGATACTCG
1 TTGCGATTTTATGGATACGAG
5846790 TTGCGATTTATATG
1 TTGCGATTT-TATG
5846804 TTCGCGTTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 6 0.20
21 20 0.67
22 4 0.13
ACGTcount: A:0.22, C:0.13, G:0.25, T:0.40
Consensus pattern (21 bp):
TTGCGATTTTATGGATACGAG
Found at i:5846794 original size:41 final size:42
Alignment explanation
Indices: 5846606--5846799 Score: 247
Period size: 40 Copynumber: 4.8 Consensus size: 42
5846596 TAAAAATCGC
*
5846606 GTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCA
1 GTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATACGCA
** *
5846648 -TTGCGA-TTTACGTATTCTCGTTTTGATTTACAGATACGCA
1 GTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATACGCA
* *
5846688 -TTGCGA-TTTACGTATTCTTGTTGCGATTTACGGATATGC-
1 GTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATACGCA
* *
5846727 GTTGCGATTTTACGTATTGTCATTGCGATTTACGGATACG-A
1 GTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATACGCA
* * *
5846768 GTTGCGATTTTATGGATACTCGTTGCGATTTA
1 GTTGCGATTTTACGTATTCTCGTTGCGATTTA
5846800 TATGTTCGCG
Statistics
Matches: 131, Mismatches: 18, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
40 70 0.53
41 61 0.47
ACGTcount: A:0.20, C:0.15, G:0.23, T:0.41
Consensus pattern (42 bp):
GTTGCGATTTTACGTATTCTCGTTGCGATTTACGGATACGCA
Found at i:5846811 original size:20 final size:20
Alignment explanation
Indices: 5846788--5846837 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
5846778 TATGGATACT
*
5846788 CGTTGCGATTTAT-ATGTTCG
1 CGTTGCGATTT-TCATATTCG
*
5846808 CGTTGTGATTTTCATATTCG
1 CGTTGCGATTTTCATATTCG
5846828 CGTTGCGATT
1 CGTTGCGATT
5846838 CTTGAAAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.14, C:0.16, G:0.24, T:0.46
Consensus pattern (20 bp):
CGTTGCGATTTTCATATTCG
Done.