Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 67 of 203
Found at i:21407748 original size:9 final size:9
Alignment explanation
Indices: 21407734--21407765 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
21407724 CAACGCTTTT
21407734 TTGCATTCA
1 TTGCATTCA
21407743 TTGCATTCA
1 TTGCATTCA
21407752 TTGCATTCA
1 TTGCATTCA
21407761 -TGCAT
1 TTGCAT
21407766 CGGCATTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.22
9 18 0.78
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (9 bp):
TTGCATTCA
Found at i:21413497 original size:4 final size:4
Alignment explanation
Indices: 21413488--21413515 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
21413478 ACAAGAGACC
21413488 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
21413516 TACATCATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:21418177 original size:17 final size:18
Alignment explanation
Indices: 21418132--21418177 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
21418122 ATTACTCATC
21418132 TATTTATA-TTTCTTATG
1 TATTTATATTTTCTTATG
21418149 TATTTATATTTTCATTAT-
1 TATTTATATTTTC-TTATG
21418167 TA-TTATATTTT
1 TATTTATATTTT
21418178 AGATATTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 17 0.63
18 6 0.22
19 4 0.15
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (18 bp):
TATTTATATTTTCTTATG
Found at i:21418221 original size:26 final size:26
Alignment explanation
Indices: 21418165--21418222 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
21418155 TATTTTCATT
21418165 ATTA-TTATATTTTAGATATTATATC
1 ATTATTTATATTTTAGATATTATATC
*
21418190 -TATATTTATA-TTTAGGTATTAATATC
1 AT-TATTTATATTTTAGATATT-ATATC
21418216 ATTATTT
1 ATTATTT
21418223 TACTATTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
24 1 0.04
25 11 0.39
26 15 0.54
27 1 0.04
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.57
Consensus pattern (26 bp):
ATTATTTATATTTTAGATATTATATC
Found at i:21418717 original size:23 final size:23
Alignment explanation
Indices: 21418684--21418768 Score: 70
Period size: 23 Copynumber: 3.6 Consensus size: 23
21418674 TGTGTTCATG
21418684 TTTATCTTGTTATGATTATCGATT
1 TTTAT-TTGTTATGATTATCGATT
21418708 TTTATTTGTTATGCACTT-T---TT
1 TTTATTTGTTATG-A-TTATCGATT
*
21418729 TCTCATTCCATGTTATGATTATCGATT
1 T-TTATT---TGTTATGATTATCGATT
21418756 TTTATTTGTTATG
1 TTTATTTGTTATG
21418769 CACTTTTTTC
Statistics
Matches: 49, Mismatches: 2, Indels: 21
0.68 0.03 0.29
Matches are distributed among these distances:
21 3 0.06
22 4 0.08
23 17 0.35
24 9 0.18
25 9 0.18
26 4 0.08
27 3 0.06
ACGTcount: A:0.19, C:0.11, G:0.12, T:0.59
Consensus pattern (23 bp):
TTTATTTGTTATGATTATCGATT
Found at i:21418746 original size:48 final size:48
Alignment explanation
Indices: 21418691--21418787 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
21418681 ATGTTTATCT
21418691 TGTTATGATTATCGATTTTTATTTGTTATGCACTTTTTTCTCATTCCA
1 TGTTATGATTATCGATTTTTATTTGTTATGCACTTTTTTCTCATTCCA
*
21418739 TGTTATGATTATCGATTTTTATTTGTTATGCACTTTTTTCTCGTTCCA
1 TGTTATGATTATCGATTTTTATTTGTTATGCACTTTTTTCTCATTCCA
21418787 T
1 T
21418788 CACGAATTTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.18, C:0.14, G:0.11, T:0.57
Consensus pattern (48 bp):
TGTTATGATTATCGATTTTTATTTGTTATGCACTTTTTTCTCATTCCA
Found at i:21419985 original size:26 final size:26
Alignment explanation
Indices: 21419954--21420011 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
21419944 TAATTAGTAT
21419954 ATAAAAATAATATACATGATCATAAC
1 ATAAAAATAATATACATGATCATAAC
21419980 ATAAAAATAATATACATGATCATAAC
1 ATAAAAATAATATACATGATCATAAC
*
21420006 ACAAAA
1 ATAAAA
21420012 TAAAATGATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.60, C:0.12, G:0.03, T:0.24
Consensus pattern (26 bp):
ATAAAAATAATATACATGATCATAAC
Found at i:21421194 original size:18 final size:19
Alignment explanation
Indices: 21421173--21421212 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
21421163 ATAATACCAT
* *
21421173 TAATATTAAC-ATTACAAA
1 TAATATAAACAATAACAAA
21421191 TAATATAAACAATAACAAA
1 TAATATAAACAATAACAAA
21421210 TAA
1 TAA
21421213 AAATGTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (19 bp):
TAATATAAACAATAACAAA
Found at i:21431581 original size:30 final size:31
Alignment explanation
Indices: 21431542--21431602 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
21431532 CACATGAATT
* *
21431542 ACATGGAAAT-GTTGTTACATGGTATATGGAA
1 ACATGGAAATGGATGATACAT-GTATATGGAA
21431573 ACAT-GAAATGGATGATACATGTATATGGAA
1 ACATGGAAATGGATGATACATGTATATGGAA
21431603 CTTGATCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 15 0.56
31 12 0.44
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (31 bp):
ACATGGAAATGGATGATACATGTATATGGAA
Found at i:21435420 original size:56 final size:56
Alignment explanation
Indices: 21435334--21435446 Score: 217
Period size: 56 Copynumber: 2.0 Consensus size: 56
21435324 TACCTAAGAA
*
21435334 AGAACTAGAATTAAGATTATCATCTATATTAATAGAACTGTAAAATAATCTTTACG
1 AGAACTAGAATTAAGATTATCATCTATATTAATAGAAATGTAAAATAATCTTTACG
21435390 AGAACTAGAATTAAGATTATCATCTATATTAATAGAAATGTAAAATAATCTTTACG
1 AGAACTAGAATTAAGATTATCATCTATATTAATAGAAATGTAAAATAATCTTTACG
21435446 A
1 A
21435447 ACAAAATGTG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.34
Consensus pattern (56 bp):
AGAACTAGAATTAAGATTATCATCTATATTAATAGAAATGTAAAATAATCTTTACG
Found at i:21435494 original size:28 final size:28
Alignment explanation
Indices: 21435463--21435519 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
21435453 TGTGAGAATG
21435463 TTAAAATGGAATGTAAAATCACCCTCTA
1 TTAAAATGGAATGTAAAATCACCCTCTA
21435491 TTAAAATGGAATGTAAAATCACCCTCTA
1 TTAAAATGGAATGTAAAATCACCCTCTA
21435519 T
1 T
21435520 GATTTCAACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.30
Consensus pattern (28 bp):
TTAAAATGGAATGTAAAATCACCCTCTA
Found at i:21437948 original size:28 final size:28
Alignment explanation
Indices: 21437851--21437941 Score: 146
Period size: 28 Copynumber: 3.2 Consensus size: 28
21437841 TGTTTTTCAT
*
21437851 ATTTTATAGTTTTGCCACTGTTTTTTAG
1 ATTTTATAGTTTTGCCACTATTTTTTAG
*
21437879 ATTTTATAGTTTTGCCACTATTTTTCAG
1 ATTTTATAGTTTTGCCACTATTTTTTAG
* *
21437907 ATTTTACAGTTTTGCCTCTATTTTTTAG
1 ATTTTATAGTTTTGCCACTATTTTTTAG
21437935 ATTTTAT
1 ATTTTAT
21437942 GATTTTGACC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.20, C:0.12, G:0.11, T:0.57
Consensus pattern (28 bp):
ATTTTATAGTTTTGCCACTATTTTTTAG
Found at i:21439637 original size:24 final size:25
Alignment explanation
Indices: 21439610--21439873 Score: 142
Period size: 26 Copynumber: 10.0 Consensus size: 25
21439600 AAATTCGAAG
21439610 TAAATAATATA-AAACAATTTAAAA
1 TAAATAATATATAAACAATTTAAAA
* * *
21439634 TAAATAATATGTAAAACAAATTACAA
1 TAAATAATATAT-AAACAATTTAAAA
* *
21439660 TAAATAATATACAAAGCAATTTCAAA
1 TAAATAATATATAAA-CAATTTAAAA
* * *
21439686 TAAATAATATATAAGATACTTTTAAA
1 TAAATAATATATAA-ACAATTTAAAA
* * * * *
21439712 CAACATATGAAATATGAAAGAGTTTAAGA
1 TAA-ATA--ATATAT-AAACAATTTAAAA
* * *
21439741 TATATAATATGTAAAAAGAAATTTAAAA
1 TAAATAATA--TATAAA-CAATTTAAAA
* * *
21439769 TGAATAATATACAAAGCAGTTTAAAAA
1 TAAATAATATATAAA-CAATTT-AAAA
*
21439796 TAAA-AGATATATAAAAAAGTAATTCAAAA
1 TAAATA-ATATATAAACAA-T--TT-AAAA
21439825 TAAATAATATATAATAC--TTTAAAA
1 TAAATAATATATAA-ACAATTTAAAA
*
21439849 TAAATAATATATATA-AATTTAAAA
1 TAAATAATATATAAACAATTTAAAA
21439873 T
1 T
21439874 GGATAATAGT
Statistics
Matches: 183, Mismatches: 37, Indels: 40
0.70 0.14 0.15
Matches are distributed among these distances:
23 1 0.01
24 35 0.19
25 5 0.03
26 64 0.35
27 24 0.13
28 19 0.10
29 31 0.17
30 4 0.02
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.30
Consensus pattern (25 bp):
TAAATAATATATAAACAATTTAAAA
Found at i:21439881 original size:24 final size:26
Alignment explanation
Indices: 21439821--21439873 Score: 78
Period size: 24 Copynumber: 2.2 Consensus size: 26
21439811 AAAGTAATTC
21439821 AAAATAAAT-A-ATATATAATACTTT
1 AAAATAAATAATATATATAATACTTT
21439845 AAAATAAATAATATATATAA-A-TTT
1 AAAATAAATAATATATATAATACTTT
21439869 AAAAT
1 AAAAT
21439874 GGATAATAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 17 0.63
25 2 0.07
26 8 0.30
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (26 bp):
AAAATAAATAATATATATAATACTTT
Found at i:21441190 original size:11 final size:12
Alignment explanation
Indices: 21441164--21441196 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
21441154 TTGATTTTTT
21441164 TTGGGCTTTGTAA
1 TTGGG-TTTGTAA
21441177 TTGGGTTT-TAA
1 TTGGGTTTGTAA
21441188 TTGGGTTTG
1 TTGGGTTTG
21441197 GGTAGTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.58
12 3 0.16
13 5 0.26
ACGTcount: A:0.12, C:0.03, G:0.33, T:0.52
Consensus pattern (12 bp):
TTGGGTTTGTAA
Found at i:21445340 original size:43 final size:45
Alignment explanation
Indices: 21445270--21445364 Score: 140
Period size: 43 Copynumber: 2.2 Consensus size: 45
21445260 TGCTTAGGGG
** *
21445270 AGATAAGATCTTCAATCTTTAGTCTGCTTTCTTGCTACCTCAGAA
1 AGATAAGATCTTCAATCTTTAACCTGCTCTCTTGCTACCTCAGAA
*
21445315 AGATAAGA-C-TCAATCTTTAACCTGCTCTCTTGCTACCTCAGAG
1 AGATAAGATCTTCAATCTTTAACCTGCTCTCTTGCTACCTCAGAA
21445358 AGATAAG
1 AGATAAG
21445365 GCTTCAGGCT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 37 0.80
44 1 0.02
45 8 0.17
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (45 bp):
AGATAAGATCTTCAATCTTTAACCTGCTCTCTTGCTACCTCAGAA
Found at i:21445346 original size:177 final size:177
Alignment explanation
Indices: 21445012--21445411 Score: 477
Period size: 177 Copynumber: 2.3 Consensus size: 177
21445002 GGAAATAGGA
* * * * *
21445012 CTAGTGACTTAAATCTGTTCCATTGCCAATACATGGAGATAAGATTTGCTATTCTCAATCTGCTC
1 CTAGTGGCTTAAATCTGCTCCATTGCCAGTACATGGAGATAAGATTCGCCATTCTCAATCTGCTC
* *
21445077 CGCAACTGCTTTAAGGAAATAGATCTTCAATCTTCAGTCTACTTCCTTGGTACCTCATGAAGATA
66 CACAACTGCTTTAAGGAAATAGATCTTCAATCTTCAGTCTACTTCCTTGCTACCTCATGAAGATA
* *
21445142 AGACTAAAATCGCCAACCTGGTCTCTTGCTACTTCAGAGAGATAAGG
131 AGACTAAAATCGCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGG
* * * *
21445189 CTAGTGGCTAAAATCCGCTCCATTGCCAGTACATGGAGATAGGATTCGCCA-TCTTCGATCTGCT
1 CTAGTGGCTTAAATCTGCTCCATTGCCAGTACATGGAGATAAGATTCGCCATTC-TCAATCTGCT
* * * * * * *
21445253 CCACTATTGC-TTAGGGGAGATAAGATCTTCAATCTTTAGTCTGCTTTCTTGCTACCTCA-GAAA
65 CCACAACTGCTTTA-AGGAAAT-AGATCTTCAATCTTCAGTCTACTTCCTTGCTACCTCATG-AA
* ***
21445316 GATAAGACT-CAATCTTTAACCTGCTCTCTTGCTACCTCAGAGAGATAAGG
127 GATAAGACTAAAATCGCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGG
***
21445366 CTTCAGGCTTAAATCTGCTCCATTGCC-GATACATGGAGATAAGATT
1 CTAGTGGCTTAAATCTGCTCCATTGCCAG-TACATGGAGATAAGATT
21445412 TGCCTCCAAT
Statistics
Matches: 188, Mismatches: 30, Indels: 10
0.82 0.13 0.04
Matches are distributed among these distances:
176 6 0.03
177 138 0.73
178 44 0.23
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (177 bp):
CTAGTGGCTTAAATCTGCTCCATTGCCAGTACATGGAGATAAGATTCGCCATTCTCAATCTGCTC
CACAACTGCTTTAAGGAAATAGATCTTCAATCTTCAGTCTACTTCCTTGCTACCTCATGAAGATA
AGACTAAAATCGCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGG
Found at i:21445469 original size:44 final size:43
Alignment explanation
Indices: 21445270--21445471 Score: 120
Period size: 43 Copynumber: 4.5 Consensus size: 43
21445260 TGCTTAGGGG
* * * *
21445270 AGATAAGATCTTCAATCTTTAGTCTGCTTTCTTGCTACCTCAGAA
1 AGATAAGA-CTTCAATCTTCAATCTGC-TCCTTGCTACCTCAGGA
* *
21445315 AGATAAGAC-TCAATCTTTAACCTGCTCTCTTGCTACCTCA-GA
1 AGATAAGACTTCAATCTTCAATCTGCTC-CTTGCTACCTCAGGA
* ** * * * *
21445357 GAGATAAGGCTTCAGGCTTAAATCTGCTCCATTGCCGATACATGGAGATA
1 -AGATAAGACTTCAATCTTCAATCTGCTCC-TTG-C--TACCT-CAG-GA
** * * * *
21445407 AGATTTGCCTCCAATCTTCAGTCTGCTTCCTTGCTACCTTAGGA
1 AGATAAGACTTCAATCTTCAATCTGC-TCCTTGCTACCTCAGGA
21445451 AGATAAGACTTCAATCTTCAA
1 AGATAAGACTTCAATCTTCAA
21445472 CCTATTCTCT
Statistics
Matches: 118, Mismatches: 28, Indels: 23
0.70 0.17 0.14
Matches are distributed among these distances:
42 2 0.02
43 35 0.30
44 35 0.30
45 11 0.09
46 4 0.03
47 4 0.03
48 2 0.02
49 21 0.18
50 4 0.03
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (43 bp):
AGATAAGACTTCAATCTTCAATCTGCTCCTTGCTACCTCAGGA
Found at i:21445501 original size:137 final size:137
Alignment explanation
Indices: 21445282--21445687 Score: 478
Period size: 137 Copynumber: 3.0 Consensus size: 137
21445272 ATAAGATCTT
* * * * *
21445282 CAATCTTTAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGAC-TCAATCTTTAACCTGCTCTCTT
1 CAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTCAATCTTCAACCTACTCTCTT
*
21445346 GCTACCTCAGAGAGATAAGGCTTCAGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGAT
66 GCTACCTCAGAGAGATAAGGCTTCAGGCTTAAATCTGCTCCATTGCCGATACATGAAGATAAGAT
21445411 TTGCCTC
131 TTGCCTC
* *
21445418 CAATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTTCAATCTTCAACCTATTCTCTT
1 CAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTCAATCTTCAACCTACTCTCTT
* ** *
21445483 GTTACCTCAGAGAGATAAGGCTTGGGGCTTAAATCTGCTCCATTGTCGATACATGAAGATAAGAT
66 GCTACCTCAGAGAGATAAGGCTTCAGGCTTAAATCTGCTCCATTGCCGATACATGAAGATAAGAT
21445548 TTGCCTC
131 TTGCCTC
* * * ** * * *
21445555 CAATCTTCAGTCTGC-TCCACTGCAACCTCAGGGAGATAAGACTTGTAT-ATCGAGCCTAC-CCC
1 CAATCTTCAGTCTGCTTCC-TTGCTACCTCAGGAAGATAAGACTTCAATCTTC-AACCTACTCTC
* * * * *** * * * *
21445617 ACTGCAACTTCAGGGAGATAAGGCTGGTGACCTAAATCTGCTCCATTGCCGGTACATGGAGATAA
64 -TTGCTACCTCAGAGAGATAAGGCTTCAGGCTTAAATCTGCTCCATTGCCGATACATGAAGATAA
21445682 GATTTG
128 GATTTG
21445688 TCGTCTTTGG
Statistics
Matches: 232, Mismatches: 34, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
136 45 0.19
137 187 0.81
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (137 bp):
CAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTCAATCTTCAACCTACTCTCTT
GCTACCTCAGAGAGATAAGGCTTCAGGCTTAAATCTGCTCCATTGCCGATACATGAAGATAAGAT
TTGCCTC
Found at i:21445893 original size:132 final size:133
Alignment explanation
Indices: 21445722--21445993 Score: 379
Period size: 132 Copynumber: 2.1 Consensus size: 133
21445712 GCTTAGGGAA
* * * * **
21445722 ATAAGACCTGCAATCTTTAGTCTGCTTCCTTGCTGCCTCAGGAAGTTAAGACTATC-ATCTTCAA
1 ATAAGATCTGCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTA-CAATCGCCAA
* *
21445786 CCTGCTCTCTTGCTACCTCAGAGAGATAAGG-TCAATGGCTAAAATCTGCTCCATT-ACGGTACA
65 CCTGCTCCCTTGCTACCTCAGAGAGATAAGGCT-AATGGCTAAAATCTGCTCCATTGACGATACA
21445849 TGGAG
129 TGGAG
*
21445854 ATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCGCCAAC
1 ATAAGATCTGCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCGCCAAC
* ** * *
21445919 CTGCTCCCTTGCTACTTCAGAGAGATAAGGCTGGTGGCTAAAATTTGCTCCATTGCCGATACATG
66 CTGCTCCCTTGCTACCTCAGAGAGATAAGGCTAATGGCTAAAATCTGCTCCATTGACGATACATG
21445984 GAG
131 GAG
21445987 ATAAGAT
1 ATAAGAT
21445994 TCGCCATCTT
Statistics
Matches: 123, Mismatches: 14, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
131 1 0.01
132 103 0.84
133 19 0.15
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (133 bp):
ATAAGATCTGCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCGCCAAC
CTGCTCCCTTGCTACCTCAGAGAGATAAGGCTAATGGCTAAAATCTGCTCCATTGACGATACATG
GAG
Found at i:21445912 original size:44 final size:44
Alignment explanation
Indices: 21445718--21445947 Score: 122
Period size: 44 Copynumber: 5.2 Consensus size: 44
21445708 TACTGCTTAG
* * * *
21445718 GGAA-ATAAGACCTGCAATCTTTAGTCTGCTTCCTTGCTGCCTCA
1 GGAAGATAAGA-CTACAATCTTCAATCTGCTTCCTTGCTACCTCA
* *
21445762 GGAAGTTAAGACTATC-ATCTTCAACCTGC-TCTCTTGCTACCTCA
1 GGAAGATAAGACTA-CAATCTTCAATCTGCTTC-CTTGCTACCTCA
* ** * *
21445806 -GAGAGATAAG-GT-CAATGGCTAAAATCTGC-TCCAT--TACGGTACA
1 GGA-AGATAAGACTACAAT--CTTCAATCTGCTTCCTTGCTAC-CT-CA
* *
21445849 TGG-AGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCA
1 -GGAAGATAAGA-CTACAATCTTCAATCTGCTTCCTTGCTACCTCA
** * * *
21445894 GGAAGATAAGACTACAATCGCCAACCTGCTCCCTTGCTACTTCA
1 GGAAGATAAGACTACAATCTTCAATCTGCTTCCTTGCTACCTCA
21445938 -GAGAGATAAG
1 GGA-AGATAAG
21445948 GCTGGTGGCT
Statistics
Matches: 141, Mismatches: 26, Indels: 38
0.69 0.13 0.19
Matches are distributed among these distances:
41 4 0.03
42 3 0.02
43 18 0.13
44 86 0.61
45 22 0.16
46 5 0.04
47 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (44 bp):
GGAAGATAAGACTACAATCTTCAATCTGCTTCCTTGCTACCTCA
Found at i:21445988 original size:309 final size:311
Alignment explanation
Indices: 21445418--21446084 Score: 798
Period size: 309 Copynumber: 2.1 Consensus size: 311
21445408 GATTTGCCTC
*
21445418 CAATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTTCAATCTTCAACCTATTCTCTT
1 CAATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTTCAATCTTCAACCTACTCTCTT
* * * *
21445483 GTTACCTCAGAGAGATAAGGCTTGGGGCTTAAATCTGCTCCATTGTCGATACATGAAGATAAGAT
66 GCTACCTCAGAGAGATAAGGCAT-GGGCTAAAATCTGCTCCATTGACGATACATGAAGATAAGA-
* ** *
21445548 TTGCCTCCAATCTTCAGTCTGCTCCACTGCAACCTCAGGGAGATAAGACTTGTATATCGAGCCTA
129 TT-CCTCCAATCTTCAGTCTGCTCCACTGCAACCTCAGGAAGATAAGACTTACATATCGAACCTA
* *
21445613 CCCCACTGCAACTTCAGGGAGATAAGGCTGGTGACCTAAATCTGCTCCATTGCCGGTACATGGAG
193 CCCCACTGCAACTTCAGAGAGATAAGGCTGGTGACCTAAATCTGCTCCATTGCCGATACATGGAG
* * * * * * **
21445678 ATAAGATTTGTCGTCTTTGGTTTATTCC-ACTACTGCTTAGGGAAATAAGACCTG
258 ATAAGATTCGCCATCTTCGATCT-GCCCTACTACTGCTTAGGGAAATAAGACCTG
* * * * *
21445732 CAATCTTTAGTCTGCTTCCTTGCTGCCTCAGGAAGTTAAGACTATC-ATCTTCAACCTGCTCTCT
1 CAATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACT-TCAATCTTCAACCTACTCTCT
* *
21445796 TGCTACCTCAGAGAGATAAGGTCAAT-GGCTAAAATCTGCTCCATT-ACGGTACATGGAGATAAG
65 TGCTACCTCAGAGAGATAAGG-C-ATGGGCTAAAATCTGCTCCATTGACGATACATGAAGATAAG
* * *
21445859 A-T-CTTCAATCTTCAGTCTGCTTCC-TTGCTACCTCAGGAAGATAAGAC-TACA-ATCGCCAAC
128 ATTCCTCCAATCTTCAGTCTGC-TCCACTGCAACCTCAGGAAGATAAGACTTACATATCG--AAC
* * * * *
21445919 CTGCTCCC-TTGCTACTTCAGAGAGATAAGGCTGGTG-GCTAAAATTTGCTCCATTGCCGATACA
190 CTAC-CCCACTGCAACTTCAGAGAGATAAGGCTGGTGACCT-AAATCTGCTCCATTGCCGATACA
* * *
21445982 TGGAGATAAGATTCGCCATCTTCGATCTGCCCTACTACTGCTTAGGGAGATAAGATCTT
253 TGGAGATAAGATTCGCCATCTTCGATCTGCCCTACTACTGCTTAGGGAAATAAGACCTG
* *
21446041 CAACCTTCAATCTGCTTCCTTGCTACCTTAGGAAGATAAGACTT
1 CAATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTT
21446085 GTATATTGAG
Statistics
Matches: 301, Mismatches: 43, Indels: 24
0.82 0.12 0.07
Matches are distributed among these distances:
307 4 0.01
308 7 0.02
309 170 0.56
310 6 0.02
311 1 0.00
313 16 0.05
314 93 0.31
315 3 0.01
316 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (311 bp):
CAATCTTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAGACTTCAATCTTCAACCTACTCTCTT
GCTACCTCAGAGAGATAAGGCATGGGCTAAAATCTGCTCCATTGACGATACATGAAGATAAGATT
CCTCCAATCTTCAGTCTGCTCCACTGCAACCTCAGGAAGATAAGACTTACATATCGAACCTACCC
CACTGCAACTTCAGAGAGATAAGGCTGGTGACCTAAATCTGCTCCATTGCCGATACATGGAGATA
AGATTCGCCATCTTCGATCTGCCCTACTACTGCTTAGGGAAATAAGACCTG
Found at i:21446367 original size:64 final size:64
Alignment explanation
Indices: 21446266--21446601 Score: 582
Period size: 64 Copynumber: 5.2 Consensus size: 64
21446256 GGATGCTATG
* * * *
21446266 ATCAAATACTCCTAACTAGATGTGATACTGATGTCAAATAATTAGGATGCTATGATCGAAATGA
1 ATCAAATGCTCCTAACAAGATGTGATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGA
21446330 ATCAAATGCTCCTAACAAGATGTGATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGA
1 ATCAAATGCTCCTAACAAGATGTGATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGA
* *
21446394 ATCAAATGCTCCTAACAAGATGTGATGCTTATGTCAAATAATTAGGATGTTATGATCAAAATGA
1 ATCAAATGCTCCTAACAAGATGTGATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGA
* ** *
21446458 ATCAAATACTCCTAATTAGATGTGATGCTGATGTCAAATAATTAGGATGCTATGATCGAAATGA
1 ATCAAATGCTCCTAACAAGATGTGATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGA
21446522 ATCAAATGCTCCTAACAAGATGTGATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGA
1 ATCAAATGCTCCTAACAAGATGTGATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGA
21446586 ATCAAATGCTCCTAAC
1 ATCAAATGCTCCTAAC
21446602 GTGTTATGAA
Statistics
Matches: 256, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 256 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (64 bp):
ATCAAATGCTCCTAACAAGATGTGATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGA
Found at i:21446645 original size:15 final size:16
Alignment explanation
Indices: 21446627--21446656 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
21446617 TAAAAATGAA
21446627 AATGATCT-TTTTTTG
1 AATGATCTCTTTTTTG
21446642 AATGATCTCTTTTTT
1 AATGATCTCTTTTTT
21446657 TTTTTAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.10, G:0.10, T:0.60
Consensus pattern (16 bp):
AATGATCTCTTTTTTG
Found at i:21448951 original size:20 final size:20
Alignment explanation
Indices: 21448926--21448964 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
21448916 GCACCAACTA
21448926 TTTTTTTTGTTTGATTCTTG
1 TTTTTTTTGTTTGATTCTTG
21448946 TTTTTTTTGTTTGATTCTT
1 TTTTTTTTGTTTGATTCTT
21448965 TGATTGTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.05, C:0.05, G:0.13, T:0.77
Consensus pattern (20 bp):
TTTTTTTTGTTTGATTCTTG
Found at i:21449738 original size:43 final size:42
Alignment explanation
Indices: 21449644--21449745 Score: 125
Period size: 43 Copynumber: 2.4 Consensus size: 42
21449634 CTTATCTCTA
* *
21449644 AAAACGCCGCTAAAAGTCAGGGTTTTTAGCGGCATTTCTTGG
1 AAAACGCCGCTAAAAGTCAGGGCTTTTAGCGGCATTTCTTGC
* * *
21449686 AAAAGCGCCGCTAAAAGTCAGGGCTTTTAGTGGCGTTT-TTATC
1 AAAA-CGCCGCTAAAAGTCAGGGCTTTTAGCGGCATTTCTT-GC
21449729 ACAAACGCCGCTAAAAG
1 A-AAACGCCGCTAAAAG
21449746 CCCTAACTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
42 6 0.12
43 43 0.83
44 3 0.06
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (42 bp):
AAAACGCCGCTAAAAGTCAGGGCTTTTAGCGGCATTTCTTGC
Found at i:21450572 original size:13 final size:14
Alignment explanation
Indices: 21450546--21450574 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
21450536 ACTTAACATG
21450546 AATTAAACCATTAT
1 AATTAAACCATTAT
21450560 AATTAAA-CATTAT
1 AATTAAACCATTAT
21450573 AA
1 AA
21450575 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:21452867 original size:26 final size:26
Alignment explanation
Indices: 21452838--21452919 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
21452828 TGGTACAAAT
21452838 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
21452864 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21452890 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21452916 TGAT
1 TGAT
21452920 GGGCATTTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:21459942 original size:46 final size:45
Alignment explanation
Indices: 21459836--21459994 Score: 203
Period size: 46 Copynumber: 3.7 Consensus size: 45
21459826 CATATGACCT
*
21459836 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
21459879 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
21459925 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
21459962 CTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTA
21459995 ACCACATATC
Statistics
Matches: 104, Mismatches: 6, Indels: 15
0.83 0.05 0.12
Matches are distributed among these distances:
37 29 0.28
39 2 0.02
40 2 0.02
42 1 0.01
43 9 0.09
44 6 0.06
45 21 0.20
46 34 0.33
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:21459963 original size:37 final size:37
Alignment explanation
Indices: 21459921--21460097 Score: 291
Period size: 37 Copynumber: 4.8 Consensus size: 37
21459911 AGCTGAAGCT
* **
21459921 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
* *
21459958 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
21459995 ACCACATATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
21460032 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
21460069 GCCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTTTCTTGATCAGA
21460098 AGTACTCAAA
Statistics
Matches: 132, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 132 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:21467600 original size:45 final size:46
Alignment explanation
Indices: 21467533--21467656 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
21467523 CATATGACCT
*
21467533 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
21467576 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
21467622 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
21467657 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:21467639 original size:46 final size:45
Alignment explanation
Indices: 21467533--21467730 Score: 207
Period size: 37 Copynumber: 4.8 Consensus size: 45
21467523 CATATGACCT
*
21467533 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
21467576 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
21467622 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
21467659 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
21467696 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
21467731 CACTTATCAC
Statistics
Matches: 140, Mismatches: 7, Indels: 18
0.85 0.04 0.11
Matches are distributed among these distances:
37 64 0.46
39 2 0.01
40 3 0.02
42 1 0.01
43 9 0.06
44 6 0.04
45 21 0.15
46 34 0.24
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:21467660 original size:37 final size:37
Alignment explanation
Indices: 21467619--21467757 Score: 233
Period size: 37 Copynumber: 3.8 Consensus size: 37
21467609 GCTGAAGCTA
* *
21467619 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
21467656 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAA
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
21467693 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
21467730 CCACTTATCACTTTGTTTCTTGATCAGA
1 CCACTTATCACTTTGTCTCTTGATCAGA
21467758 AGTACTCAAA
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.39
Consensus pattern (37 bp):
CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
Found at i:21469247 original size:70 final size:70
Alignment explanation
Indices: 21469160--21469299 Score: 262
Period size: 70 Copynumber: 2.0 Consensus size: 70
21469150 ATTTCGTCCC
*
21469160 CGAAATTTCGTACCTGGAAATAAATTCGGATACTGAAATCTCATCAATTCCTCCGTTTCCCAGGT
1 CGAAATTTCGTACCTGGAAATAAATTCGGATACTGAAATCTCATCAATTCCTCCATTTCCCAGGT
21469225 TGCCT
66 TGCCT
*
21469230 CGAAATTTCGTACCTGGAAATAAATTCGGATACTGAAATTTCATCAATTCCTCCATTTCCCAGGT
1 CGAAATTTCGTACCTGGAAATAAATTCGGATACTGAAATCTCATCAATTCCTCCATTTCCCAGGT
21469295 TGCCT
66 TGCCT
21469300 TCTCAGATCC
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (70 bp):
CGAAATTTCGTACCTGGAAATAAATTCGGATACTGAAATCTCATCAATTCCTCCATTTCCCAGGT
TGCCT
Found at i:21478212 original size:25 final size:25
Alignment explanation
Indices: 21478170--21478249 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
21478160 AAGCTCCTCT
* ** *
21478170 GAGCTGAATAACAAGAAGCTCATGT
1 GAGCTAAATAACGGGAAGCTCATGA
* * * *
21478195 GAGCTAAGTAACGGGAAGCTTAAGC
1 GAGCTAAATAACGGGAAGCTCATGA
*
21478220 GAGCTAAATAATGGGAAGCTCATGA
1 GAGCTAAATAACGGGAAGCTCATGA
21478245 GAGCT
1 GAGCT
21478250 GTATATCAGA
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.38, C:0.15, G:0.29, T:0.19
Consensus pattern (25 bp):
GAGCTAAATAACGGGAAGCTCATGA
Found at i:21479093 original size:113 final size:111
Alignment explanation
Indices: 21478959--21479183 Score: 389
Period size: 113 Copynumber: 2.0 Consensus size: 111
21478949 TTGGTAAACT
*
21478959 AATCCCCGAGCTAGCTTGATTAAGCTATTACGATCTCGGAAACATAAAAATCATAAAAAAAATGG
1 AATCCCCGAGCTAGCTAGATTAAGCTATTACGATCTCGGAAACATAAAAATCAT---AAAAATGG
21479024 GACAAGAATA-TGACCTAAATGAGTAAAATAAGTTTGCTAAAACTCAAA
63 GACAAGAATACTGACCTAAATGAGTAAAATAAGTTTGCTAAAACTCAAA
*
21479072 AATCCCCGAGCTAGCTAGATTAAGCTATTACGATCTCGGAAACATAGAAATCATAAAAATGGGAC
1 AATCCCCGAGCTAGCTAGATTAAGCTATTACGATCTCGGAAACATAAAAATCATAAAAATGGGAC
*
21479137 AAGAATACTTACCTAAATGAGTAAAATAAGTTTGCTAAAACTCAAA
66 AAGAATACTGACCTAAATGAGTAAAATAAGTTTGCTAAAACTCAAA
21479183 A
1 A
21479184 TTCCATGGCT
Statistics
Matches: 108, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
110 18 0.17
111 38 0.35
113 52 0.48
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.23
Consensus pattern (111 bp):
AATCCCCGAGCTAGCTAGATTAAGCTATTACGATCTCGGAAACATAAAAATCATAAAAATGGGAC
AAGAATACTGACCTAAATGAGTAAAATAAGTTTGCTAAAACTCAAA
Found at i:21485749 original size:106 final size:108
Alignment explanation
Indices: 21485429--21486024 Score: 744
Period size: 106 Copynumber: 5.5 Consensus size: 108
21485419 CGAAAAAAAA
*
21485429 TTTTATATCTGATTCTGACACGAAAAAAAAAGAAAAAAAACATTTTTACTGTGTACTGGGTGCCA
1 TTTTATATCTGATTCTGACACG--AAAAAAAGAAAAAAAA-A-TTTTACTGTGTACTGGGTGCCG
*
21485494 GCCATTGACAGGCCAGCACCCGAAATTTTTTTTTTTATTTTTCTCGTAT
62 GCCATTGACAGGCCAGCACCC-AAA-ATTTTTTTTTATTTTTCTCGTAT
* *
21485543 TTTTATATCTGATTTTGACAC--------G-AAAAAAAA-TTTACTGTGTACTGGGTGCTGGCCA
1 TTTTATATCTGATTCTGACACGAAAAAAAGAAAAAAAAATTTTACTGTGTACTGGGTGCCGGCCA
21485598 TTGACAGGCCAGCACCCAAAATTTTTTTTTATTTTTCTCGTAT
66 TTGACAGGCCAGCACCCAAAATTTTTTTTTATTTTTCTCGTAT
* **
21485641 TTTTATATTTGATTCTGACACGAAAAAAAGAAAAAAAAA-TTTACTGTGTACTGGGTGTTGGCCA
1 TTTTATATCTGATTCTGACACGAAAAAAAGAAAAAAAAATTTTACTGTGTACTGGGTGCCGGCCA
21485705 TTGACAGGCCAGCACCC-AAATTTTTTTTTATTTTTCTCGTAT
66 TTGACAGGCCAGCACCCAAAATTTTTTTTTATTTTTCTCGTAT
*
21485747 TTTTATATCTGATTCTGACACG----AAA-AAAAAAAAATTTTACTGTGTACTGGGTGCCAGCCA
1 TTTTATATCTGATTCTGACACGAAAAAAAGAAAAAAAAATTTTACTGTGTACTGGGTGCCGGCCA
* * *
21485807 TTGACAGGCCAGCACTCAAAAAATTATTTTTTTCTTTTTTTCGTAT
66 TTGACAGGCCAGCAC-C-CAAAATT-TTTTTTTATTTTTCTCGTAT
* *
21485853 ATTTATATCTGATTCTGACACAAAAAAAAAAGAAAAAAAAATTTTACTGTGTACTGGGTGCCGGC
1 TTTTATATCTGATTCTGACAC--GAAAAAAAGAAAAAAAAATTTTACTGTGTACTGGGTGCCGGC
** * *
21485918 CATTGACAGGGAAGCACCCAAAAAATTATTTTTTTTATTTTTTTAGTAT
64 CATTGACAGGCCAGCACCC--AAAA-T-TTTTTTTTATTTTTCTCGTAT
* *
21485967 ATTTATATCTGATTCTGACAC-AAAAAAA-AAGAAAAAAATTTTACTGTTTACTGGGTGC
1 TTTTATATCTGATTCTGACACGAAAAAAAGAA-AAAAAAATTTTACTGTGTACTGGGTGC
21486025 TATGGCCAGC
Statistics
Matches: 433, Mismatches: 23, Indels: 55
0.85 0.05 0.11
Matches are distributed among these distances:
98 41 0.09
99 3 0.01
100 40 0.09
101 9 0.02
102 41 0.09
103 8 0.02
104 1 0.00
105 5 0.01
106 85 0.20
107 49 0.11
110 2 0.00
111 33 0.08
112 4 0.01
113 51 0.12
114 60 0.14
115 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.37
Consensus pattern (108 bp):
TTTTATATCTGATTCTGACACGAAAAAAAGAAAAAAAAATTTTACTGTGTACTGGGTGCCGGCCA
TTGACAGGCCAGCACCCAAAATTTTTTTTTATTTTTCTCGTAT
Found at i:21486607 original size:114 final size:114
Alignment explanation
Indices: 21486407--21486742 Score: 473
Period size: 114 Copynumber: 3.0 Consensus size: 114
21486397 CTGGTGTGCT
* * * *
21486407 CATATT-TCAACTATGAACCAAATGTTTCTTTTATATGTAAAAATATTGTTGCTTTGCTGCTCTA
1 CATATTCT-AACTATAAACCAAATATTTCTTTTACATGTAAAAATATTGCTGCTTTGCTGCTCTA
* * * * **
21486471 ATTTGTTTCTATTAACACGTAAAATGTGGAATCATCATTCAACTTTCTTG
65 ACTTGTTTTTATTAACATGTAAAATGTGGAATCATCATTCAACTTGCCCG
*
21486521 CATATTCTAATTATAAACCAAATATTTCTTTTACATGTAAAAATATTGCTGCTTTGCTGCTCTAA
1 CATATTCTAACTATAAACCAAATATTTCTTTTACATGTAAAAATATTGCTGCTTTGCTGCTCTAA
*
21486586 CTTGTTTTTAGTAACATGTAAAATGTGGAATCATCATTCAACTTGCCCG
66 CTTGTTTTTATTAACATGTAAAATGTGGAATCATCATTCAACTTGCCCG
* *
21486635 CATATTCTAACTATGAACCAAATATTTC--TTACATGTAAAATTATTGCTGCTTTGCTGGC-CTA
1 CATATTCTAACTATAAACCAAATATTTCTTTTACATGTAAAAATATTGCTGCTTTGCT-GCTCTA
* * *
21486697 ACTTGTTTTTATTAACATGTAAAATGTCGAATTATCATTGAACTTG
65 ACTTGTTTTTATTAACATGTAAAATGTGGAATCATCATTCAACTTG
21486743 GTTCCCCTGT
Statistics
Matches: 201, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
112 72 0.36
113 2 0.01
114 126 0.63
115 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (114 bp):
CATATTCTAACTATAAACCAAATATTTCTTTTACATGTAAAAATATTGCTGCTTTGCTGCTCTAA
CTTGTTTTTATTAACATGTAAAATGTGGAATCATCATTCAACTTGCCCG
Found at i:21489651 original size:3 final size:3
Alignment explanation
Indices: 21489640--21489707 Score: 59
Period size: 3 Copynumber: 22.0 Consensus size: 3
21489630 TAATAATTTC
* * *
21489640 AAT ATT AAT AAT AAT AAT AAAT AAT AAT GAT AAAC AAGT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT -AAT AA-T AAT AAT AAT
21489687 AAT -AT AAT AAT AAT AAAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT
21489708 TAAATAGTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
2 4 0.08
3 40 0.75
4 9 0.17
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:21489664 original size:13 final size:13
Alignment explanation
Indices: 21489646--21489707 Score: 70
Period size: 13 Copynumber: 4.5 Consensus size: 13
21489636 TTTCAATATT
21489646 AATAATAATAATA
1 AATAATAATAATA
*
21489659 AATAATAATGATA
1 AATAATAATAATA
*
21489672 AACAAGTAATAATATA
1 AATAA-TAAT-A-ATA
21489688 ATATAATAATAATA
1 A-ATAATAATAATA
21489702 AATAAT
1 AATAAT
21489708 TAAATAGTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
13 21 0.51
14 8 0.20
15 1 0.02
16 8 0.20
17 3 0.07
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.31
Consensus pattern (13 bp):
AATAATAATAATA
Found at i:21491236 original size:44 final size:44
Alignment explanation
Indices: 21491171--21491579 Score: 552
Period size: 44 Copynumber: 9.2 Consensus size: 44
21491161 AACTTCAGGG
21491171 AGACAAGA-CTTG-TATCTTCGATCTACTTCACGCCAATACATGA
1 AGACAAGATC-TGCTATCTTCGATCTACTTCACGCCAATACATGA
* * * * **
21491214 AGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGTGA
1 AGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATACATGA
*
21491259 AGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGA
1 AGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGA
* * * * **
21491303 AGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGTGA
1 AGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATACATGA
*
21491348 AGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGA
1 AGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGA
* * * * **
21491392 AGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGTGA
1 AGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATACATGA
*
21491437 AGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGA
1 AGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGA
* *
21491481 AGACAAGATCTGCTTTCTTCGATCTACTTCACGCTAATACATGA
1 AGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGA
*
21491525 AGACAAGATCTGCTATCTTCGATCTACTTCACGCCGATACATGA
1 AGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGA
21491569 AGACAAGATCT
1 AGACAAGATCT
21491580 ACTTCGCCAC
Statistics
Matches: 314, Mismatches: 47, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
43 10 0.03
44 193 0.61
45 111 0.35
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (44 bp):
AGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGA
Found at i:21491334 original size:89 final size:89
Alignment explanation
Indices: 21491171--21491579 Score: 707
Period size: 89 Copynumber: 4.6 Consensus size: 89
21491161 AACTTCAGGG
*
21491171 AGACAAGA-CTTG-TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTC
1 AGACAAGATC-TGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTC
21491234 GATCTACTTCGCCACCAGTATGTGA
65 GATCTACTTCGCCACCAGTATGTGA
21491259 AGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCG
1 AGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCG
21491324 ATCTACTTCGCCACCAGTATGTGA
66 ATCTACTTCGCCACCAGTATGTGA
21491348 AGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCG
1 AGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCG
21491413 ATCTACTTCGCCACCAGTATGTGA
66 ATCTACTTCGCCACCAGTATGTGA
21491437 AGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCG
1 AGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCG
* * * * **
21491502 ATCTACTTC-ACGCTAATACATGA
66 ATCTACTTCGCCACCAGTATGTGA
* *
21491525 AGACAAGATCTGCTATCTTCGATCTACTTCACGCCGATACATGAAGACAAGATCT
1 AGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCT
21491580 ACTTCGCCAC
Statistics
Matches: 310, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
88 71 0.23
89 239 0.77
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (89 bp):
AGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCG
ATCTACTTCGCCACCAGTATGTGA
Found at i:21491505 original size:133 final size:132
Alignment explanation
Indices: 21491185--21492017 Score: 933
Period size: 133 Copynumber: 6.4 Consensus size: 132
21491175 AAGACTTGTA
** * *
21491185 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACC
1 TCTTCGATCTACTTCACGCCAATATGTGAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACGCC
* ** * *
21491250 AGTATGTGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTG
65 AATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCGATACATGAAGACAAGATCTG
21491315 CTT
130 CTT
* * * * *
21491318 TCTTCGATCTACTTCGCCACCAGTATGTGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTC-ACGCCAATATGTGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCC
* * * **
21491383 AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGC-CACCAGTATGTGAAGACAAGATC
65 AATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACGC-CGA-TACATGAAGACAAGATC
*
21491447 TGCTA
128 TGCTT
* ** *
21491452 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCTA
1 TCTTCGATCTACTTCACGCCAATATGTGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCA
21491517 ATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCGATACATGAAGACAAGA--T-C
66 ATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCGATACATGAAGACAAGATCTGC
21491579 -T
131 TT
* * * * * *
21491580 ACTTCG-----C--CA--CCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCT
1 TCTTCGATCTACTTCACGCCAATATGTGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCA
* * *
21491636 ATATATGAAGACAAGATCTGCTTTTTTCGATCTACTTCACGCCGATACATGAAGACAAGATCTGC
66 ATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCGATACATGAAGACAAGATCTGC
21491701 TT
131 TT
* * * * * * *
21491703 TCTTCGATCTACTTCGCTACCAGTATGGGAAGACAAGATCTACTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTCAC-GCCAATATGTGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCC
* * *
21491768 AATACATGAAGATAAGATCTGCTATATTCGATCTACTTCACGCCGATACATGAAGACAAGATCTA
65 AATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCGATACATGAAGACAAGATCTG
21491833 CTT
130 CTT
* * * *
21491836 TCTTCGATCTACTTCGCCACCAGTATG-GAAAGACAAGATCTACTTTCTTCGATCTACTTCACGC
1 TCTTCGATCTACTTC-ACGCCAATATGTG-AAGACAAGATCTGCTTTCTTCGATCTACTTCACGC
* * * * * ***
21491900 CAGTACATGAAAACAAGATCTGCTTTCTTCGATCTACTTCGC-CACCAGTATGGGAAGACAAGAT
64 CAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACGC-CGA-TACATGAAGACAAGAT
*
21491964 CTACTT
127 CTGCTT
* * * *
21491970 TCTTCGATCTACTTCACGCTAATACGTGAAGACAATATCTACTTTCTT
1 TCTTCGATCTACTTCACGCCAATATGTGAAGACAAGATCTGCTTTCTT
21492018 TCAACCTGCC
Statistics
Matches: 602, Mismatches: 75, Indels: 46
0.83 0.10 0.06
Matches are distributed among these distances:
119 96 0.16
121 3 0.00
122 1 0.00
123 7 0.01
128 5 0.01
129 1 0.00
130 2 0.00
132 16 0.03
133 364 0.60
134 107 0.18
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (132 bp):
TCTTCGATCTACTTCACGCCAATATGTGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCA
ATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCGATACATGAAGACAAGATCTGC
TT
Found at i:21491651 original size:44 final size:43
Alignment explanation
Indices: 21491598--21492017 Score: 423
Period size: 44 Copynumber: 9.5 Consensus size: 43
21491588 ACCAGTATGG
* * *
21491598 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCTATATAT
1 GAAGACAAGATCTACTTTCTTCGATCTACTTCACGCC-ATATAT
* * *
21491642 GAAGACAAGATCTGCTTTTTTCGATCTACTTCACGCCGATACAT
1 GAAGACAAGATCTACTTTCTTCGATCTACTTCACGCC-ATATAT
* * * **
21491686 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCTACCAGTATGG
1 GAAGACAAGATCTACTTTCTTCGATCTACTTCAC-GCCA-TATAT
* * *
21491731 GAAGACAAGATCTACTATCTTTGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTACTTTCTTCGATCTACTTCACGCC-ATATAT
* * * * *
21491775 GAAGATAAGATCTGCTATATTCGATCTACTTCACGCCGATACAT
1 GAAGACAAGATCTACTTTCTTCGATCTACTTCACGCC-ATATAT
*
21491819 GAAGACAAGATCTACTTTCTTCGATCTACTT--CGCCACCAGTAT
1 GAAGACAAGATCTACTTTCTTCGATCTACTTCACGCCA-TA-TAT
*
21491862 GGAAAGACAAGATCTACTTTCTTCGATCTACTTCACGCCAGTACAT
1 -G-AAGACAAGATCTACTTTCTTCGATCTACTTCACGCCA-TATAT
* * * * **
21491908 GAAAACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTACTTTCTTCGATCTACTTC-ACGCCA-TATAT
*
21491953 GAAGACAAGATCTACTTTCTTCGATCTACTTCACGCTA-ATACGT
1 GAAGACAAGATCTACTTTCTTCGATCTACTTCACGCCATATA--T
*
21491997 GAAGACAATATCTACTTTCTT
1 GAAGACAAGATCTACTTTCTT
21492018 TCAACCTGCC
Statistics
Matches: 316, Mismatches: 48, Indels: 24
0.81 0.12 0.06
Matches are distributed among these distances:
41 1 0.00
42 7 0.02
43 2 0.01
44 195 0.62
45 103 0.33
46 2 0.01
47 6 0.02
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (43 bp):
GAAGACAAGATCTACTTTCTTCGATCTACTTCACGCCATATAT
Found at i:21491686 original size:163 final size:162
Alignment explanation
Indices: 21491412--21491920 Score: 601
Period size: 163 Copynumber: 3.0 Consensus size: 162
21491402 TGCTTTCTTC
21491412 GATCTACTTCGCCACCAGTATGTGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATAC
1 GATCTACTTCGCCACCAGTATGTGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATAC
* *
21491477 ATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTATC
66 ATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGC-CATACATGAAGACAAGATCTGCTTTC
21491542 TTCGATCTACTTCACGCC-GATACATGAAGACAA
130 TTCGATCTACTTCACGCCAG-TACATGAAGACAA
* * *
21491575 GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCTATAT
1 GATCTACTTCGCCACCAGTATGTGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATAC
*
21491640 ATGAAGACAAGATCTGCTTTTTTCGATCTACTTCACGCCGATACATGAAGACAAGATCTGCTTTC
66 ATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCC-ATACATGAAGACAAGATCTGCTTTC
* * ***
21491705 TTCGATCTACTTCGCTACCAGTATGGGAAGACAA
130 TTCGATCTACTTCAC-GCCAGTACATGAAGACAA
* ** * * *
21491739 GATCTACTATCTTTGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTATATTCGATCTAC
1 GATCTACT-TC---G-----C--CA--CCAGTATGTGAAGACAAGATCTGCTATCTTTGATCTAC
* * * *
21491804 TTCACGCCGATACATGAAGACAAGATCTACTTTCTTCGATCTACTT--CGCCACCAGTATGGAAA
53 TTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCA-TA-CAT-G-AA
* *
21491867 GACAAGATCTACTTTCTTCGATCTACTTCACGCCAGTACATGAAAACAA
114 GACAAGATCTGCTTTCTTCGATCTACTTCACGCCAGTACATGAAGACAA
21491916 GATCT
1 GATCT
21491921 GCTTTCTTCG
Statistics
Matches: 295, Mismatches: 31, Indels: 26
0.84 0.09 0.07
Matches are distributed among these distances:
163 137 0.46
164 20 0.07
165 3 0.01
168 1 0.00
173 1 0.00
174 1 0.00
175 7 0.02
176 2 0.01
177 92 0.31
178 31 0.11
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (162 bp):
GATCTACTTCGCCACCAGTATGTGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATAC
ATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCATACATGAAGACAAGATCTGCTTTCT
TCGATCTACTTCACGCCAGTACATGAAGACAA
Found at i:21491757 original size:89 final size:88
Alignment explanation
Indices: 21491598--21492017 Score: 449
Period size: 89 Copynumber: 4.7 Consensus size: 88
21491588 ACCAGTATGG
* * * * *
21491598 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCTA-TATATGAAGACAAGATCTGCTTTTT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCC-AGTACATGAAGACAAGATCTACTTTCT
21491662 TCGATCTACTTCACGCCGA-TACAT
65 TCGATCTACTTCACGCC-ACTACAT
* * *** *
21491686 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCTACCAGTATGGGAAGACAAGATCTACTATCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCAC-GCCAGTACATGAAGACAAGATCTACTTTCT
* *
21491751 TTGATCTACTTCACGCCAATACAT
65 TCGATCTACTTCACGCCACTACAT
* * *
21491775 GAAGATAAGATCTGCTATATTCGATCTACTTCACGCC-GATACATGAAGACAAGATCTACTTTCT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAG-TACATGAAGACAAGATCTACTTTCT
* *
21491839 TCGATCTACTT--CGCCACCAGTAT
65 TCGATCTACTTCACGCCACTA-CAT
* * *
21491862 GGAAAGACAAGATCTACTTTCTTCGATCTACTTCACGCCAGTACATGAAAACAAGATCTGCTTTC
1 -G-AAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTC
* *
21491927 TTCGATCTACTT--CGCCACCAGTAT
64 TTCGATCTACTTCACGCCACTA-CAT
* * * * *
21491951 GGGAAGACAAGATCTACTTTCTTCGATCTACTTCACGCTAATACGTGAAGACAATATCTACTTTC
1 --GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTC
21492016 TT
64 TT
21492018 TCAACCTGCC
Statistics
Matches: 288, Mismatches: 35, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
86 6 0.02
87 3 0.01
88 67 0.23
89 209 0.73
90 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (88 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTCTT
CGATCTACTTCACGCCACTACAT
Found at i:21491850 original size:296 final size:297
Alignment explanation
Indices: 21491301--21492017 Score: 915
Period size: 296 Copynumber: 2.4 Consensus size: 297
21491291 GCCAATACAT
* * *
21491301 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGTGAAGACAAGATCTGCTATCT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACCACCAGTATATGAAGACAAGATCTGCTATCT
21491366 TTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
66 TTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
* * *
21491431 ATGTGAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
131 ATGGGAAGACAAGATCTACTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTA
* * *
21491496 TCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCG
196 TATTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTATCTTCGATCTACTTCACGCCG
21491561 ATACATGAAGACAAGATCTACTTCGCCACCAGTATGG
261 ATACATGAAGACAAGATCTACTTCGCCACCAGTATGG
* * *
21491598 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGC-CTA-TATATGAAGACAAGATCTGCT-TT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCAC-CACCAGTATATGAAGACAAGATCTGCTATC
* *
21491660 TTTCGATCTACTTCACGCCGATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCTACCA
65 TTT-GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCA
*
21491725 GTATGGGAAGACAAGATCTACTATCTTTGATCTACTTCACGCCAATACATGAAGATAAGATCTGC
129 GTATGGGAAGACAAGATCTACTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
* *
21491790 TATATTCGATCTACTTCACGCCGATACATGAAGACAAGATCTACTTTCTTCGATCTACTT--CGC
194 TATATTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTATCTTCGATCTACTTCACGC
* * ***
21491853 C-ACCAGTATGGAAAGACAAGATCTACTTTCTTCGATCTACTTCACGCCAGTACAT
259 CGA-TA-CAT-G-AAGACAAGATCTA----CTTCG-----C--CA--CCAGTATGG
* * * ** * *
21491908 GAAAACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTTTCT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCACCACCAGTATATGAAGACAAGATCTGCTATCT
* * * * *
21491973 TCGATCTACTTCACGCTAATACGTGAAGACAATATCTACTTTCTT
66 TTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
21492018 TCAACCTGCC
Statistics
Matches: 361, Mismatches: 37, Indels: 30
0.84 0.09 0.07
Matches are distributed among these distances:
293 1 0.00
294 5 0.01
295 6 0.02
296 196 0.54
297 46 0.13
298 1 0.00
301 5 0.01
306 1 0.00
308 2 0.01
309 1 0.00
310 38 0.11
311 56 0.16
312 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.30
Consensus pattern (297 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCACCACCAGTATATGAAGACAAGATCTGCTATCT
TTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGT
ATGGGAAGACAAGATCTACTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTA
TATTCGATCTACTTCACGCCAATACATGAAGACAAGATCTACTATCTTCGATCTACTTCACGCCG
ATACATGAAGACAAGATCTACTTCGCCACCAGTATGG
Found at i:21493211 original size:42 final size:42
Alignment explanation
Indices: 21493164--21493263 Score: 155
Period size: 42 Copynumber: 2.4 Consensus size: 42
21493154 TGCCTCATGT
* *
21493164 TGATCAGTATTTGAGCTACTCCAATAATCTCATGCCACATTC
1 TGATCAATATTTGAGCAACTCCAATAATCTCATGCCACATTC
* *
21493206 TGATCAATATTTGAGCAACTCCGATAATCTCATGCCCCATTC
1 TGATCAATATTTGAGCAACTCCAATAATCTCATGCCACATTC
*
21493248 TAATCAATATTTGAGC
1 TGATCAATATTTGAGC
21493264 CGTCCTTTTC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (42 bp):
TGATCAATATTTGAGCAACTCCAATAATCTCATGCCACATTC
Found at i:21493376 original size:20 final size:21
Alignment explanation
Indices: 21493346--21493387 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
21493336 TCCATTTTAC
*
21493346 TTTTCCATTTTTTAGTTTTCA
1 TTTTCCATTTTTCAGTTTTCA
*
21493367 TTTT-CATTTTTCATTTTTCA
1 TTTTCCATTTTTCAGTTTTCA
21493387 T
1 T
21493388 CTCGTCATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.14, C:0.14, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTTCCATTTTTCAGTTTTCA
Found at i:21493377 original size:7 final size:7
Alignment explanation
Indices: 21493346--21493387 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
21493336 TCCATTTTAC
*
21493346 TTTTCCA
1 TTTTTCA
*
21493353 TTTTTTA
1 TTTTTCA
*
21493360 GTTTTCA
1 TTTTTCA
21493367 -TTTTCA
1 TTTTTCA
21493373 TTTTTCA
1 TTTTTCA
21493380 TTTTTCA
1 TTTTTCA
21493387 T
1 T
21493388 CTCGTCATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.14, C:0.14, G:0.02, T:0.69
Consensus pattern (7 bp):
TTTTTCA
Found at i:21498350 original size:3 final size:3
Alignment explanation
Indices: 21498344--21498406 Score: 58
Period size: 3 Copynumber: 20.3 Consensus size: 3
21498334 ATTTCAGTAT
* *
21498344 TAA TAA TAA TAA TAAA TAA TAA TGA TAAA CAA GTAA TAA T-A TAA T-A
1 TAA TAA TAA TAA T-AA TAA TAA TAA T-AA TAA -TAA TAA TAA TAA TAA
21498390 TAA TAA TAA TTAA TAA T
1 TAA TAA TAA -TAA TAA T
21498407 TAAATAGTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
2 4 0.08
3 37 0.74
4 9 0.18
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:21498363 original size:13 final size:13
Alignment explanation
Indices: 21498345--21498406 Score: 72
Period size: 13 Copynumber: 4.7 Consensus size: 13
21498335 TTTCAGTATT
21498345 AATAATAATAATA
1 AATAATAATAATA
*
21498358 AATAATAATGATA
1 AATAATAATAATA
*
21498371 AACAAGTAATAATA
1 AATAA-TAATAATA
21498385 TAAT-ATAATAATA
1 -AATAATAATAATA
*
21498398 ATTAATAAT
1 AATAATAAT
21498407 TAAATAGTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
12 2 0.05
13 29 0.71
14 8 0.20
15 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (13 bp):
AATAATAATAATA
Found at i:21498412 original size:23 final size:23
Alignment explanation
Indices: 21498377--21498420 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
21498367 GATAAACAAG
21498377 TAATAATATAATA-TAATAATAAT
1 TAATAATATAATAGTAA-AATAAT
21498400 TAATAAT-TAAATAGTAAAATA
1 TAATAATAT-AATAGTAAAATA
21498421 GTTCAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 1 0.05
23 15 0.79
24 3 0.16
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (23 bp):
TAATAATATAATAGTAAAATAAT
Found at i:21502340 original size:6 final size:6
Alignment explanation
Indices: 21502331--21502358 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
21502321 GAGAAAGAGA
21502331 ATGGTT ATGGTT ATGGTT ATGGTT ATGG
1 ATGGTT ATGGTT ATGGTT ATGGTT ATGG
21502359 GTTGGGTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.46
Consensus pattern (6 bp):
ATGGTT
Found at i:21502535 original size:23 final size:21
Alignment explanation
Indices: 21502507--21502571 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 21
21502497 AATTATGGAT
21502507 TTAATTTTTATATTTTAATTAAA
1 TTAATTTTTA-ATTTTAATT-AA
*
21502530 TTAATTTAGTTAATTTTAGTTAA
1 TTAATTT--TTAATTTTAATTAA
*
21502553 TTTATTTTCTAAATTTTAA
1 TTAATTTT-T-AATTTTAA
21502572 AATTTTAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
21 1 0.03
22 1 0.03
23 22 0.63
24 8 0.23
25 3 0.09
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (21 bp):
TTAATTTTTAATTTTAATTAA
Found at i:21503928 original size:13 final size:14
Alignment explanation
Indices: 21503910--21503951 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
21503900 TTTCAATTTT
21503910 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
21503923 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
21503938 ATTTTAAATAATAT
1 ATTTT-AATAATAT
21503952 TCTTCATATC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:21503936 original size:16 final size:16
Alignment explanation
Indices: 21503914--21503950 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
21503904 AATTTTATTT
21503914 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
21503931 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
21503946 TAATA
1 TAATA
21503951 TTCTTCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:21504707 original size:13 final size:14
Alignment explanation
Indices: 21504689--21504717 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21504679 TATAAAAAAT
21504689 AATTTA-AAATATA
1 AATTTATAAATATA
21504702 AATTTATAAATATA
1 AATTTATAAATATA
21504716 AA
1 AA
21504718 ATAAACTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AATTTATAAATATA
Found at i:21504946 original size:22 final size:20
Alignment explanation
Indices: 21504925--21504963 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
21504915 CTTAAATTCA
*
21504925 ATACTTAAATTTCTTGATTTC
1 ATACTTAAAATT-TTGATTTC
*
21504946 ATTCTTAAAATTTTGATT
1 ATACTTAAAATTTTGATT
21504964 GACAAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.31, C:0.10, G:0.05, T:0.54
Consensus pattern (20 bp):
ATACTTAAAATTTTGATTTC
Found at i:21525961 original size:24 final size:24
Alignment explanation
Indices: 21525929--21525976 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
21525919 TCGTATCAGG
21525929 TAATGAAGTTAATCACCTATGCAC
1 TAATGAAGTTAATCACCTATGCAC
21525953 TAATGAAGTTAATCACCTATGCAC
1 TAATGAAGTTAATCACCTATGCAC
21525977 CCAATATTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (24 bp):
TAATGAAGTTAATCACCTATGCAC
Found at i:21528795 original size:9 final size:9
Alignment explanation
Indices: 21528778--21528835 Score: 80
Period size: 9 Copynumber: 6.4 Consensus size: 9
21528768 GTAGTGATTC
*
21528778 AATTTGGTT
1 AATTCGGTT
21528787 AATTCGGTT
1 AATTCGGTT
*
21528796 AATTCGGGT
1 AATTCGGTT
*
21528805 AATTCGATT
1 AATTCGGTT
*
21528814 AATTCGGGT
1 AATTCGGTT
21528823 AATTCGGTT
1 AATTCGGTT
21528832 AATT
1 AATT
21528836 TTTAACCAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:21528807 original size:18 final size:18
Alignment explanation
Indices: 21528786--21528835 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
21528776 TCAATTTGGT
21528786 TAATTCGGTTAATTCGGG
1 TAATTCGGTTAATTCGGG
*
21528804 TAATTCGATTAATTCGGG
1 TAATTCGGTTAATTCGGG
21528822 TAATTCGGTTAATT
1 TAATTCGGTTAATT
21528836 TTTAACCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.42
Consensus pattern (18 bp):
TAATTCGGTTAATTCGGG
Found at i:21533781 original size:29 final size:29
Alignment explanation
Indices: 21533738--21533806 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
21533728 TGAAAAAAAT
21533738 CAATTGAGCCACTACACCAAATCTGCACC
1 CAATTGAGCCACTACACCAAATCTGCACC
* *
21533767 CAATTGAGCTC-CTACACTAAATTTGCACC
1 CAATTGAGC-CACTACACCAAATCTGCACC
*
21533796 TAATTGAGCCA
1 CAATTGAGCCA
21533807 ATATCATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.03
29 33 0.94
30 1 0.03
ACGTcount: A:0.33, C:0.32, G:0.12, T:0.23
Consensus pattern (29 bp):
CAATTGAGCCACTACACCAAATCTGCACC
Found at i:21534024 original size:25 final size:25
Alignment explanation
Indices: 21533945--21534024 Score: 58
Period size: 25 Copynumber: 3.2 Consensus size: 25
21533935 CTTATAAAAA
* * *
21533945 ATAAA-AAATATATTATAATAATAAT
1 ATAAATAAAAATATTAAAAT-ATTAT
* *
21533970 ATCAATAAAAAT-TTCAAAA-ATGTTT
1 ATAAATAAAAATATT-AAAATAT-TAT
*
21533995 TTAAATAAAAATATTAAAATATTAT
1 ATAAATAAAAATATTAAAATATTAT
21534020 ATAAA
1 ATAAA
21534025 CTTATAAAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
24 2 0.05
25 27 0.66
26 12 0.29
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (25 bp):
ATAAATAAAAATATTAAAATATTAT
Found at i:21534432 original size:8 final size:8
Alignment explanation
Indices: 21534416--21534474 Score: 55
Period size: 8 Copynumber: 7.0 Consensus size: 8
21534406 CGAGTTCTAA
*
21534416 TAAATTAT
1 TAAAATAT
21534424 TAAAATAT
1 TAAAATAT
* *
21534432 TATAATTTT
1 TA-AAATAT
*
21534441 TAAAAACTAA
1 T-AAAA-TAT
21534451 TAAAATAT
1 TAAAATAT
21534459 TAAAATAT
1 TAAAATAT
21534467 TAAAATAT
1 TAAAATAT
21534475 ATAGAATTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
8 27 0.66
9 11 0.27
10 3 0.07
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (8 bp):
TAAAATAT
Found at i:21534665 original size:23 final size:21
Alignment explanation
Indices: 21534621--21534665 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
21534611 GAACAGGTTT
* *
21534621 TTAGCGGCGTTTTTTAGGCAC
1 TTAGCGGCGTTTTTAAGCCAC
21534642 TTAGCGGCGCTTTTTAACGCCAC
1 TTAGCGGCG-TTTTTAA-GCCAC
21534665 T
1 T
21534666 AAAGGCATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
22 6 0.30
23 5 0.25
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (21 bp):
TTAGCGGCGTTTTTAAGCCAC
Found at i:21534852 original size:42 final size:42
Alignment explanation
Indices: 21534746--21535076 Score: 421
Period size: 42 Copynumber: 7.8 Consensus size: 42
21534736 GCGCTTACAA
* *
21534746 AAAAAACGCCGCTAAAAGTCATGTTCTTTAGCGGCGCTTAGGA
1 AAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTT-GGT
* * *
21534789 AAAAAACGCCGCT-AATGATCATGTTCTTTAGCGGCGCTTGGG
1 AAAAAACGCCGCTAAAAG-TAATGTTCTTTAGCGGCGCTTGGT
* * * *
21534831 AAAAAACGCCGCTAAAAATCATGTTCTTTAGTGGCGCTTAGGA
1 AAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTT-GGT
*
21534874 AAAAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTGGT
1 AAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTGGT
* *
21534916 AAAAAACGTCGCTAAAAGTAATGTTCTATAGCGGCGCTTGGT
1 AAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTGGT
* *
21534958 AAAAAACGTCGCTAAAAGTAATGTTCTATAGCGGCGCTTGGT
1 AAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTGGT
* **
21535000 AGAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTCAT
1 AAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTGGT
* * * * *
21535042 CTACAAACACCGCTAAAAGTAGTGTTCTTTCGCGG
1 -AAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGG
21535077 NTTAAATTTT
Statistics
Matches: 261, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
42 160 0.61
43 101 0.39
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTGGT
Found at i:21534984 original size:84 final size:85
Alignment explanation
Indices: 21534746--21535038 Score: 446
Period size: 85 Copynumber: 3.5 Consensus size: 85
21534736 GCGCTTACAA
* * *
21534746 AAAAAACGCCGCTAAAAGTCATGTTCTTTAGCGGCGCTTAGGAAAAAAACGCCGCT-AATGATCA
1 AAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAG-TAA
* *
21534810 TGTTCTTTAGCGGCGCTTGGG
65 TGTTCTATAGCGGCGCTTGGT
* * *
21534831 AAAAAACGCCGCTAAAAATCATGTTCTTTAGTGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAAT
1 AAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAAT
21534896 GTTCTATAGCGGCGCTTGGT
66 GTTCTATAGCGGCGCTTGGT
* * * *
21534916 AAAAAACGTCGCTAAAAGTAATGTTCTATAGCGGCGCTT-GGTAAAAAACGTCGCTAAAAGTAAT
1 AAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAAT
21534980 GTTCTATAGCGGCGCTTGGT
66 GTTCTATAGCGGCGCTTGGT
*
21535000 AGAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTT
1 AAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTT
21535039 CATCTACAAA
Statistics
Matches: 191, Mismatches: 16, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
84 79 0.41
85 109 0.57
86 3 0.02
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (85 bp):
AAAAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAAT
GTTCTATAGCGGCGCTTGGT
Found at i:21536905 original size:31 final size:32
Alignment explanation
Indices: 21536858--21536919 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
21536848 CCAAACCAAA
21536858 TATAATAAACACTAAACCATAAACT-TAAAAT
1 TATAATAAACACTAAACCATAAACTATAAAAT
* * *
21536889 TATAGTAAACATTAAACCTTAAACTATAAAA
1 TATAATAAACACTAAACCATAAACTATAAAA
21536920 CCCTTAAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 22 0.81
32 5 0.19
ACGTcount: A:0.56, C:0.15, G:0.02, T:0.27
Consensus pattern (32 bp):
TATAATAAACACTAAACCATAAACTATAAAAT
Found at i:21537440 original size:41 final size:41
Alignment explanation
Indices: 21537371--21537522 Score: 151
Period size: 41 Copynumber: 3.7 Consensus size: 41
21537361 TTGACAACGA
* * * * * * **
21537371 TAGCGGCGATTATATAGAAATGCCGCTAAAGCCCATATTAT
1 TAGCGGCGCTTACATAAAAACGCTGCTAAAGCCCAGAACAT
* *
21537412 TAGCGGCGCTTTCATAAAAACGCTGCTAAAGGCCAGAACAT
1 TAGCGGCGCTTACATAAAAACGCTGCTAAAGCCCAGAACAT
* * * *
21537453 TAGCGGCGCTTACAGAAAAACGCCGCTAAATCACAGAACAT
1 TAGCGGCGCTTACATAAAAACGCTGCTAAAGCCCAGAACAT
* * *
21537494 TAGCGGCGCTTCCTTATAAACGCTGCTAA
1 TAGCGGCGCTTACATAAAAACGCTGCTAA
21537523 TGTAGCACAC
Statistics
Matches: 90, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 90 1.00
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (41 bp):
TAGCGGCGCTTACATAAAAACGCTGCTAAAGCCCAGAACAT
Found at i:21538339 original size:41 final size:41
Alignment explanation
Indices: 21538282--21538431 Score: 221
Period size: 41 Copynumber: 3.7 Consensus size: 41
21538272 TTTAACATAT
*
21538282 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* *
21538323 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* *
21538364 TCACCGGCACTTAACCTGCTAGG-TTCATAACCTGGTTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTT-ATAACCTGATTCAGA
* *
21538405 TCACCGGCACTTAGCCTACTAGACTTA
1 TCACCGGCACTTAGCCTGCTAGGCTTA
21538432 AAGTCTGAAT
Statistics
Matches: 98, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
40 2 0.02
41 94 0.96
42 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:21538450 original size:82 final size:83
Alignment explanation
Indices: 21538280--21538456 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 83
21538270 AATTTAACAT
* * *
21538280 ATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACGTAGCCTGCTAG
1 ATTCACCGGCACTTAACCTGCTAGGCTTATAACCTGATTCAGATCACCGGCACGTAGCCTACTAG
**
21538345 GTTTATAACCTGATTCAG
66 ACTTATAACCTGATTCAG
* *
21538363 A-TCACCGGCACTTAACCTGCTAGG-TTCATAACCTGGTTCAGATCACCGGCACTTAGCCTACTA
1 ATTCACCGGCACTTAACCTGCTAGGCTT-ATAACCTGATTCAGATCACCGGCACGTAGCCTACTA
*
21538426 GACTTA-AAGTCTGAATT-A-
65 GACTTATAA-CCTG-ATTCAG
21538444 ATTCACCGGCACT
1 ATTCACCGGCACT
21538457 ACATATGCTA
Statistics
Matches: 82, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
81 5 0.06
82 73 0.89
83 4 0.05
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (83 bp):
ATTCACCGGCACTTAACCTGCTAGGCTTATAACCTGATTCAGATCACCGGCACGTAGCCTACTAG
ACTTATAACCTGATTCAG
Found at i:21549378 original size:14 final size:15
Alignment explanation
Indices: 21549354--21549382 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
21549344 TTTTTCTGTG
21549354 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
21549369 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
21549383 AGTTTCGTAA
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:21549621 original size:28 final size:28
Alignment explanation
Indices: 21549574--21549630 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
21549564 TATAGTTTTT
*
21549574 ATAATAATTATAAAGTTTATAATAATAA
1 ATAATAATTATAAAGATTATAATAATAA
21549602 ATAATATATTATAAA-ATTATAATAATAA
1 ATAATA-ATTATAAAGATTATAATAATAA
21549630 A
1 A
21549631 AACAAACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 19 0.70
29 8 0.30
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (28 bp):
ATAATAATTATAAAGATTATAATAATAA
Found at i:21549625 original size:18 final size:19
Alignment explanation
Indices: 21549571--21549625 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 19
21549561 TTATATAGTT
21549571 TTTATAATAATTATAA-AG
1 TTTATAATAATTATAATAG
*
21549589 TTTATAATAATAAATAATA-
1 TTTATAATAAT-TATAATAG
21549608 TATTATAA-AATTATAATA
1 T-TTATAATAATTATAATA
21549626 ATAAAAACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 17 0.53
19 8 0.25
20 7 0.22
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
TTTATAATAATTATAATAG
Found at i:21551391 original size:41 final size:41
Alignment explanation
Indices: 21551328--21551406 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
21551318 TCGGATTTAT
* *
21551328 TGCCAGTGAAATACTTCAGACTTTATGTCTAGCAGGCTTGA
1 TGCCAGTGAAATAATTCAGACTTTAAGTCTAGCAGGCTTGA
* * *
21551369 TGCCGGTGAAATAATTCGGACTTTAAGTTTAGCAGGCT
1 TGCCAGTGAAATAATTCAGACTTTAAGTCTAGCAGGCT
21551407 AAGTGCCGGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.32
Consensus pattern (41 bp):
TGCCAGTGAAATAATTCAGACTTTAAGTCTAGCAGGCTTGA
Found at i:21551414 original size:41 final size:41
Alignment explanation
Indices: 21551328--21551418 Score: 112
Period size: 41 Copynumber: 2.2 Consensus size: 41
21551318 TCGGATTTAT
* * * *
21551328 TGCCAGTGAAATACTTCAGACTTTATGTCTAGCAGGCTTGA
1 TGCCGGTGAAATAATTCAGACTTTAAGTCTAGCAGGCTAGA
* *
21551369 TGCCGGTGAAATAATTCGGACTTTAAGTTTAGCAGGCTA-A
1 TGCCGGTGAAATAATTCAGACTTTAAGTCTAGCAGGCTAGA
21551409 GTGCCGGTGA
1 -TGCCGGTGA
21551419 TCTAAATCAG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 1 0.02
41 42 0.98
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (41 bp):
TGCCGGTGAAATAATTCAGACTTTAAGTCTAGCAGGCTAGA
Found at i:21551443 original size:41 final size:41
Alignment explanation
Indices: 21551398--21551541 Score: 234
Period size: 41 Copynumber: 3.5 Consensus size: 41
21551388 ACTTTAAGTT
*
21551398 TAGCAGGCTAAGTGCCGGTGATCTAAATCAGGTTATAAACC
1 TAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAACC
*
21551439 TAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTGTAAACC
1 TAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAACC
* * *
21551480 TAGCAGGCTAAGTGCCGGTGATCTGGATCAGGCTATAAGCC
1 TAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAACC
*
21551521 TAGCAGGCTAAGTGCTGGTGA
1 TAGCAGGCTAAGTGCCGGTGA
21551542 ATATGTTAAA
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 96 1.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (41 bp):
TAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAACC
Found at i:21554831 original size:42 final size:42
Alignment explanation
Indices: 21554679--21554835 Score: 154
Period size: 42 Copynumber: 3.7 Consensus size: 42
21554669 CGTGTTTTAC
* * * * *
21554679 TTTCTATTTAGCTCTTACGAGCTTCTATTTAACTCATATGAGT
1 TTTCTATTTAGCTCTTACGAGCTTCTGTTCAACCCTTATG-GA
* *** * * *
21554722 TTTC-GTTTAGCTCTTTTAAGCTTTTGTTTAACCCTTATGGG
1 TTTCTATTTAGCTCTTACGAGCTTCTGTTCAACCCTTATGGA
* *
21554763 TTTCCATTAAGCTCTTACGAGCTTCTGTTCAACCCTTATGGA
1 TTTCTATTTAGCTCTTACGAGCTTCTGTTCAACCCTTATGGA
* *
21554805 TTTCTATTTAGCTCTCATGAGCTTCTGTTCA
1 TTTCTATTTAGCTCTTACGAGCTTCTGTTCA
21554836 GCTTTTGAGC
Statistics
Matches: 92, Mismatches: 21, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
41 5 0.05
42 83 0.90
43 4 0.04
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.46
Consensus pattern (42 bp):
TTTCTATTTAGCTCTTACGAGCTTCTGTTCAACCCTTATGGA
Found at i:21560444 original size:19 final size:19
Alignment explanation
Indices: 21560408--21560443 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
21560398 AAATAGCTAT
*
21560408 ATCATGATTTATGTTTTTA
1 ATCATGAATTATGTTTTTA
21560427 ATCATGAATTAT-TTTTT
1 ATCATGAATTATGTTTTT
21560444 TTTAAATGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (19 bp):
ATCATGAATTATGTTTTTA
Found at i:21563073 original size:44 final size:42
Alignment explanation
Indices: 21563023--21563118 Score: 133
Period size: 40 Copynumber: 2.3 Consensus size: 42
21563013 ATATTATATA
*
21563023 TATGTTATTGTTATTAGTTTCAAAGTATACAATTTTTTTTATTG
1 TATGTTATT-TT-TTAGCTTCAAAGTATACAATTTTTTTTATTG
* *
21563067 TATGTTA--TTTTAGCTTCAAAGTATATAATTTTTTTTATTT
1 TATGTTATTTTTTAGCTTCAAAGTATACAATTTTTTTTATTG
21563107 TATGTTATTTTT
1 TATGTTATTTTT
21563119 AAACGTACAC
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
40 35 0.74
41 2 0.04
42 3 0.06
44 7 0.15
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.60
Consensus pattern (42 bp):
TATGTTATTTTTTAGCTTCAAAGTATACAATTTTTTTTATTG
Found at i:21563089 original size:40 final size:40
Alignment explanation
Indices: 21563036--21563117 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
21563026 GTTATTGTTA
*
21563036 TTAGTTTCAAAGTATACAATTTTTTTTATTGTATGTTATT
1 TTAGCTTCAAAGTATACAATTTTTTTTATTGTATGTTATT
* *
21563076 TTAGCTTCAAAGTATATAATTTTTTTTATTTTATGTTATT
1 TTAGCTTCAAAGTATACAATTTTTTTTATTGTATGTTATT
21563116 TT
1 TT
21563118 TAAACGTACA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.27, C:0.05, G:0.09, T:0.60
Consensus pattern (40 bp):
TTAGCTTCAAAGTATACAATTTTTTTTATTGTATGTTATT
Found at i:21565821 original size:19 final size:19
Alignment explanation
Indices: 21565797--21565833 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
21565787 CACTACCAGT
* *
21565797 TTTCTATCTCCTCAAATTG
1 TTTCTATCACATCAAATTG
21565816 TTTCTATCACATCAAATT
1 TTTCTATCACATCAAATT
21565834 TCAAACAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.24, G:0.03, T:0.46
Consensus pattern (19 bp):
TTTCTATCACATCAAATTG
Found at i:21581694 original size:34 final size:34
Alignment explanation
Indices: 21581656--21581723 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
21581646 GAGAGATTGC
*
21581656 AAGTCAAGACCATGGCATTTGATATTTCCAACTT
1 AAGTCAAGACCATGACATTTGATATTTCCAACTT
*
21581690 AAGTCAAGGCCATGACATTTGATATTTCCAACTT
1 AAGTCAAGACCATGACATTTGATATTTCCAACTT
21581724 TGTCAATTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (34 bp):
AAGTCAAGACCATGACATTTGATATTTCCAACTT
Found at i:21582050 original size:27 final size:27
Alignment explanation
Indices: 21582000--21582051 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
21581990 TAACGAAATA
*
21582000 TTTTTAAAAGGTTGATGGTTAAATTCG
1 TTTTTAAAAGGTTGATGGTCAAATTCG
*
21582027 TTTTTTAAAGGTTGA-GGTACAAATT
1 TTTTTAAAAGGTTGATGGT-CAAATT
21582052 TAATTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.31, C:0.04, G:0.21, T:0.44
Consensus pattern (27 bp):
TTTTTAAAAGGTTGATGGTCAAATTCG
Found at i:21583626 original size:22 final size:22
Alignment explanation
Indices: 21583600--21583644 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
21583590 ATATGTCATT
*
21583600 AACATATAAAACCGAATATAGA
1 AACATATAAAACCAAATATAGA
21583622 AACATATAAAACCAAATATAGA
1 AACATATAAAACCAAATATAGA
21583644 A
1 A
21583645 CCTTACTCGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.62, C:0.13, G:0.07, T:0.18
Consensus pattern (22 bp):
AACATATAAAACCAAATATAGA
Found at i:21585647 original size:27 final size:27
Alignment explanation
Indices: 21585597--21585648 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
21585587 AATTGAAATA
*
21585597 TTTTTAAAAGGTTGATGGTTAAATTCG
1 TTTTTAAAAGGTTGATGGTCAAATTCG
*
21585624 TTTTTTAAAGGTTGA-GGTACAAATT
1 TTTTTAAAAGGTTGATGGT-CAAATT
21585649 TAATTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.31, C:0.04, G:0.21, T:0.44
Consensus pattern (27 bp):
TTTTTAAAAGGTTGATGGTCAAATTCG
Found at i:21587223 original size:22 final size:22
Alignment explanation
Indices: 21587197--21587241 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
21587187 ATATGTCATT
*
21587197 AACATATAAAACCGAATATAGA
1 AACATATAAAACCAAATATAGA
21587219 AACATATAAAACCAAATATAGA
1 AACATATAAAACCAAATATAGA
21587241 A
1 A
21587242 CCTTACTCGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.62, C:0.13, G:0.07, T:0.18
Consensus pattern (22 bp):
AACATATAAAACCAAATATAGA
Found at i:21592910 original size:19 final size:19
Alignment explanation
Indices: 21592886--21592922 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
21592876 TCCAAACATC
*
21592886 AGAAAAGTAAATCATTTTT
1 AGAAAAGTAAAACATTTTT
21592905 AGAAAAGTAAAACATTTT
1 AGAAAAGTAAAACATTTT
21592923 CAAGAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.05, G:0.11, T:0.32
Consensus pattern (19 bp):
AGAAAAGTAAAACATTTTT
Found at i:21593554 original size:22 final size:22
Alignment explanation
Indices: 21593528--21593569 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
21593518 CATAAAATTA
21593528 AAAAAGAA-AAACGAATCAATCT
1 AAAAAGAATAAA-GAATCAATCT
*
21593550 AAAAATAATAAAGAATCAAT
1 AAAAAGAATAAAGAATCAAT
21593570 TTATTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.67, C:0.10, G:0.07, T:0.17
Consensus pattern (22 bp):
AAAAAGAATAAAGAATCAATCT
Found at i:21596169 original size:43 final size:43
Alignment explanation
Indices: 21596122--21596232 Score: 195
Period size: 43 Copynumber: 2.6 Consensus size: 43
21596112 CATTAATACA
*
21596122 CGCTTTTCCCATAAACGCCGCTAAAGACCAAGAACTTTAGCGG
1 CGCTTTTCCCACAAACGCCGCTAAAGACCAAGAACTTTAGCGG
*
21596165 CGCTTTTCCCACAAACGCCGCTGAAGACCAAGAACTTTAGCGG
1 CGCTTTTCCCACAAACGCCGCTAAAGACCAAGAACTTTAGCGG
*
21596208 CGCTTTTCCCACCAACGCCGCTAAA
1 CGCTTTTCCCACAAACGCCGCTAAA
21596233 AACATGACTT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.20
Consensus pattern (43 bp):
CGCTTTTCCCACAAACGCCGCTAAAGACCAAGAACTTTAGCGG
Found at i:21603933 original size:43 final size:43
Alignment explanation
Indices: 21603886--21604019 Score: 164
Period size: 43 Copynumber: 3.1 Consensus size: 43
21603876 ACCTATAGTA
* * *
21603886 GCGTTTGTGGTAGAAGCGCCGCTAAAGGTCCTGATCTTTAGCG
1 GCGTTTGTGGTAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCG
* * *
21603929 GCGTTTGTCGTAAAAGTGCCGTTAAAGGTCATGGTCTTTAGCG
1 GCGTTTGTGGTAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCG
* * *
21603972 GCGTTAGTGAG-AAAAGCACCGCTAAAGGTCATGGTTTTTAGC-
1 GCGTTTGTG-GTAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCG
21604014 GCGTTT
1 GCGTTT
21604020 ATTTTTGAAA
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
42 5 0.06
43 71 0.92
44 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.30
Consensus pattern (43 bp):
GCGTTTGTGGTAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCG
Found at i:21605262 original size:16 final size:16
Alignment explanation
Indices: 21605241--21605272 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
21605231 AAACAAAGGG
21605241 TTTGAGATGCCTAAAC
1 TTTGAGATGCCTAAAC
21605257 TTTGAGATGCCTAAAC
1 TTTGAGATGCCTAAAC
21605273 AAAGGGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (16 bp):
TTTGAGATGCCTAAAC
Found at i:21606051 original size:33 final size:33
Alignment explanation
Indices: 21605979--21606051 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
21605969 TAATCTAAAT
* * *
21605979 CCTAAACCCTAACTCGACCCTGAATCCCTAATC
1 CCTAAACCCTAACCCGACCCCGAATCCCTAACC
** * *
21606012 TTTAAACCCTAACCCGACCCCGAATTCTTAACC
1 CCTAAACCCTAACCCGACCCCGAATCCCTAACC
21606045 CCTAAAC
1 CCTAAAC
21606052 ATTATTTAAT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.32, C:0.41, G:0.05, T:0.22
Consensus pattern (33 bp):
CCTAAACCCTAACCCGACCCCGAATCCCTAACC
Found at i:21606214 original size:14 final size:15
Alignment explanation
Indices: 21606197--21606228 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
21606187 CTTAAATCAG
21606197 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
21606211 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
21606226 AAT
1 AAT
21606229 TTATAAACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:21607390 original size:41 final size:41
Alignment explanation
Indices: 21607335--21607563 Score: 284
Period size: 41 Copynumber: 5.6 Consensus size: 41
21607325 TAGCGGCTCT
*
21607335 TTTTC-AAAACGCCGCTAAAGGCCTGAGCATTAGCGGTGCC
1 TTTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGTGCC
* *
21607375 TTTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCA
1 TTTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGTGCC
* * *
21607416 TTTCCAAAAATGCCGCTAAAGGCCCGAGCATTAGCGGCGCC
1 TTTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGTGCC
* * *
21607457 TTTTCAAAAACGCCGCTAAAGGCCTGAGCATTGGC-AT-CTC
1 TTTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGTGC-C
** * * *
21607497 TTTTTCAAAAATACCGCTAAAGGCCCGAGCATTAGAGGTACT
1 -TTTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGTGCC
*
21607539 TTTTCAAAAACGCCGCTAAATGCCC
1 TTTTCAAAAACGCCGCTAAAGGCCC
21607564 CAAAAACTCA
Statistics
Matches: 162, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 6 0.04
41 153 0.94
42 1 0.01
43 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (41 bp):
TTTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGTGCC
Found at i:21607459 original size:82 final size:82
Alignment explanation
Indices: 21607323--21607563 Score: 340
Period size: 82 Copynumber: 3.0 Consensus size: 82
21607313 TTTTATTATT
* *
21607323 ATTAGCGGCTCTTTTTC-AAAACGCCGCTAAAGGCCTGAGCATTAGCGGTGCCTTTTCAAAAACG
1 ATTAGCGGCTCTTTTTCAAAAATGCCGCTAAAGGCCCGAGCATTAGCGGTGCCTTTTCAAAAACG
21607387 CCGCTAAAGGCCCGAGC
66 CCGCTAAAGGCCCGAGC
* * * *
21607404 ATTAGCGGCGCATTTCCAAAAATGCCGCTAAAGGCCCGAGCATTAGCGGCGCCTTTTCAAAAACG
1 ATTAGCGGCTCTTTTTCAAAAATGCCGCTAAAGGCCCGAGCATTAGCGGTGCCTTTTCAAAAACG
*
21607469 CCGCTAAAGGCCTGAGC
66 CCGCTAAAGGCCCGAGC
* ** * * * *
21607486 ATTGGCATCTCTTTTTCAAAAATACCGCTAAAGGCCCGAGCATTAGAGGTACTTTTTCAAAAACG
1 ATTAGCGGCTCTTTTTCAAAAATGCCGCTAAAGGCCCGAGCATTAGCGGTGCCTTTTCAAAAACG
*
21607551 CCGCTAAATGCCC
66 CCGCTAAAGGCCC
21607564 CAAAAACTCA
Statistics
Matches: 139, Mismatches: 20, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
81 14 0.10
82 125 0.90
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (82 bp):
ATTAGCGGCTCTTTTTCAAAAATGCCGCTAAAGGCCCGAGCATTAGCGGTGCCTTTTCAAAAACG
CCGCTAAAGGCCCGAGC
Found at i:21607519 original size:123 final size:122
Alignment explanation
Indices: 21607323--21607563 Score: 324
Period size: 123 Copynumber: 2.0 Consensus size: 122
21607313 TTTTATTATT
* * * *
21607323 ATTAGCGGCTCTTTTTCAAAACGCCGCTAAAGGCCTGAGCATTAGCGGTGCCTTTTCAAAAACGC
1 ATTAGCGGCGCCTTTTCAAAACGCCGCTAAAGGCCTGAGCATTAGCGATGCCTTTTCAAAAACAC
* * *
21607388 CGCTAAAGGCCCGAGCATTAGCGGCGCATTTCCAAAAATGCCGCTAAAGGCCCGAGC
66 CGCTAAAGGCCCGAGCATTAGAGGCACATTTCCAAAAACGCCGCTAAAGGCCCGAGC
*
21607445 ATTAGCGGCGCCTTTTCAAAAACGCCGCTAAAGGCCTGAGCATTGGC-AT-CTCTTTTTCAAAAA
1 ATTAGCGGCGCCTTTTC-AAAACGCCGCTAAAGGCCTGAGCATTAGCGATGC-C-TTTTCAAAAA
* * * * *
21607508 TACCGCTAAAGGCCCGAGCATTAGAGGTACTTTTTCAAAAACGCCGCTAAATGCCC
63 CACCGCTAAAGGCCCGAGCATTAGAGGCACATTTCCAAAAACGCCGCTAAAGGCCC
21607564 CAAAAACTCA
Statistics
Matches: 103, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
121 1 0.01
122 17 0.17
123 85 0.83
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (122 bp):
ATTAGCGGCGCCTTTTCAAAACGCCGCTAAAGGCCTGAGCATTAGCGATGCCTTTTCAAAAACAC
CGCTAAAGGCCCGAGCATTAGAGGCACATTTCCAAAAACGCCGCTAAAGGCCCGAGC
Found at i:21607669 original size:39 final size:39
Alignment explanation
Indices: 21607611--21607692 Score: 121
Period size: 39 Copynumber: 2.1 Consensus size: 39
21607601 TTTGCAGCGC
21607611 TTTTCAAAAAACGCCGCTAATGC-TCATTTTTAGCGGCG
1 TTTTCAAAAAACGCCGCTAATGCTTCATTTTTAGCGGCG
* * *
21607649 TTTTCCAAAAAGCGCCGCTAATGCTTGATTTTTAGTGGCG
1 TTTT-CAAAAAACGCCGCTAATGCTTCATTTTTAGCGGCG
21607689 TTTT
1 TTTT
21607693 TTGTCCAAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
38 4 0.10
39 18 0.46
40 17 0.44
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.37
Consensus pattern (39 bp):
TTTTCAAAAAACGCCGCTAATGCTTCATTTTTAGCGGCG
Found at i:21612788 original size:69 final size:69
Alignment explanation
Indices: 21612705--21612841 Score: 238
Period size: 69 Copynumber: 2.0 Consensus size: 69
21612695 CTCACAAATC
* *
21612705 AAAATTACAATCAATCCTATTTTTCAGAAATTAAATTAAGAGTTAGGAAATTCCTCGATTTTTCT
1 AAAATTAAAATCAATCCTATTTTTCAGAAATTAAATTAAGAGTTAGGAAATTCCTCAATTTTTCT
21612770 AATT
66 AATT
* *
21612774 AAAATTAAAATCAATCCTATTTTTTAGAAATTAAATTAAGAGTTAGGGAATTCCTCAATTTTTCT
1 AAAATTAAAATCAATCCTATTTTTCAGAAATTAAATTAAGAGTTAGGAAATTCCTCAATTTTTCT
21612839 AAT
66 AAT
21612842 CAAAGGAAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (69 bp):
AAAATTAAAATCAATCCTATTTTTCAGAAATTAAATTAAGAGTTAGGAAATTCCTCAATTTTTCT
AATT
Found at i:21620131 original size:13 final size:13
Alignment explanation
Indices: 21620084--21620132 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
21620074 TTTTTCATTA
*
21620084 CTTTTGAAAAGTG
1 CTTTTAAAAAGTG
* *
21620097 TTTTTGAAAAGTG
1 CTTTTAAAAAGTG
* *
21620110 CTGTGAAAAAGTG
1 CTTTTAAAAAGTG
21620123 CTTTTAAAAA
1 CTTTTAAAAA
21620133 TTTTGATTTA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.37
Consensus pattern (13 bp):
CTTTTAAAAAGTG
Found at i:21621144 original size:14 final size:14
Alignment explanation
Indices: 21621111--21621144 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
21621101 TATCATTTCG
*
21621111 CTATTATATTGTTA
1 CTATTTTATTGTTA
21621125 CTATTTTATTGTTA
1 CTATTTTATTGTTA
*
21621139 TTATTT
1 CTATTT
21621145 AAATATTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.65
Consensus pattern (14 bp):
CTATTTTATTGTTA
Found at i:21627209 original size:371 final size:371
Alignment explanation
Indices: 21626511--21627228 Score: 1091
Period size: 371 Copynumber: 1.9 Consensus size: 371
21626501 TGTAATTTAT
* *
21626511 AATAAATGAGGCCACTATATGAGCCTTTAAGGAGAAAACTTTAAACTCGAGGTGGATTACAAAGT
1 AATAAAGGAGGCCACTATAGGAGCCTTTAAGGAGAAAACTTTAAACTCGAGGTGGATTACAAAGT
* * *
21626576 TGCAATTTCTACCATGACCAAATATGTTGGTGAGTGTTAAAGTAGTAACAAAGATATAAATGGAG
66 CGCAATTTCTACCATGACCAAATATGTTGGTGAGTGTCAAAGCAGTAACAAAGATATAAATGGAG
* * * *
21626641 GATCAAGGTAGCATTGATGAAAAAGAAACAAAATTAGGAAATTTGAAAATATGAAGGTCCTTATA
131 GATCAAGGTAGCACTGATGAAAAAGAAACAAAATTAGGAAATTTAAAAATATGAAAGTCCTCATA
* * *
21626706 CTTGCACAACTAACTCAAGATTATCACAAAATAGATTCCAAGCTTATTTGCAAATTAATAATCCC
196 CTTGCACAACTAACGCAAGATCATCACAAAATAGATTCCAAGCTTATTTGCAAATGAATAATCCC
* * * *
21626771 GTCGATCAAAGAGAATATAAAAATTTTAGTATCATTACTAATAGTTGATATGTAGTCTCGATTCA
261 GTCGATCAAAGAAAATATAAAAATTTCAGTATCATTACTAATAGTTGATATGTAGCCTAGATTCA
*
21626836 AATGCTCCATCACATATTGAAAGGCATAGAAAACGAAGCTGAAGGC
326 AATACTCCATCACATATTGAAAGGCATAGAAAACGAAGCTGAAGGC
* *
21626882 AATAAAGGAGGCCACTATAGGAG-TTTTCAAGGAGAAAACTTTAAACTATG-GGTGGATTACAAA
1 AATAAAGGAGGCCACTATAGGAGCCTTT-AAGGAGAAAACTTTAAACT-CGAGGTGGATTACAAA
* * *
21626945 GTCGTAATTTCTACCATGACCAAATATGTTGGTGAGTGTCAAAGCGGTAACGAAGATATAAATGG
64 GTCGCAATTTCTACCATGACCAAATATGTTGGTGAGTGTCAAAGCAGTAACAAAGATATAAATGG
* * *
21627010 AGGGTCAAGGTAGGACTGATGAAAAAGAAACAAAATTGGGAAATTTAAAAATATGAAAGTCCTCA
129 AGGATCAAGGTAGCACTGATGAAAAAGAAACAAAATTAGGAAATTTAAAAATATGAAAGTCCTCA
21627075 TACTTGCACAACTAACGCAAGATCATCACAAAATAGATTCCAAGCTTATTTGCAAATGAATAATC
194 TACTTGCACAACTAACGCAAGATCATCACAAAATAGATTCCAAGCTTATTTGCAAATGAATAATC
* * * * * * *
21627140 CCGTTGGTTAGAGAAAATCTGACAATTTCAGTATCATTACTAATAGTTGATATGTAGCCCTAG-T
259 CCGTCGATCAAAGAAAATATAAAAATTTCAGTATCATTACTAATAGTTGATATGTAG-CCTAGAT
*
21627204 TCAAATATTCCATCACATATTGAAA
323 TCAAATACTCCATCACATATTGAAA
21627229 TTCATGGAAA
Statistics
Matches: 311, Mismatches: 33, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
370 3 0.01
371 304 0.98
372 4 0.01
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.27
Consensus pattern (371 bp):
AATAAAGGAGGCCACTATAGGAGCCTTTAAGGAGAAAACTTTAAACTCGAGGTGGATTACAAAGT
CGCAATTTCTACCATGACCAAATATGTTGGTGAGTGTCAAAGCAGTAACAAAGATATAAATGGAG
GATCAAGGTAGCACTGATGAAAAAGAAACAAAATTAGGAAATTTAAAAATATGAAAGTCCTCATA
CTTGCACAACTAACGCAAGATCATCACAAAATAGATTCCAAGCTTATTTGCAAATGAATAATCCC
GTCGATCAAAGAAAATATAAAAATTTCAGTATCATTACTAATAGTTGATATGTAGCCTAGATTCA
AATACTCCATCACATATTGAAAGGCATAGAAAACGAAGCTGAAGGC
Found at i:21629597 original size:63 final size:64
Alignment explanation
Indices: 21629484--21629608 Score: 171
Period size: 63 Copynumber: 2.0 Consensus size: 64
21629474 GTTTTCACTA
* * *
21629484 ACCTCATTATTTTTACACAAACACCACACTGTGCACCACCATACCTTGCATCAACACCTTCTGC
1 ACCTCATTATTTTTACACAAACACCACACTATGAACCACCATACCCTGCATCAACACCTTCTGC
* * ** *
21629548 ACCT-ATTATTTTTACACAAGCACCACACTATGAACTACTGTGCCCTGCATCAACACCTTCT
1 ACCTCATTATTTTTACACAAACACCACACTATGAACCACCATACCCTGCATCAACACCTTCT
21629609 ACAGGTATTT
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
63 49 0.92
64 4 0.08
ACGTcount: A:0.30, C:0.35, G:0.07, T:0.28
Consensus pattern (64 bp):
ACCTCATTATTTTTACACAAACACCACACTATGAACCACCATACCCTGCATCAACACCTTCTGC
Found at i:21635792 original size:18 final size:18
Alignment explanation
Indices: 21635769--21635805 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
21635759 TCTTTAAGAT
21635769 TACCATTAGTTTGAATAA
1 TACCATTAGTTTGAATAA
21635787 TACCATTAGTTTGAATAA
1 TACCATTAGTTTGAATAA
21635805 T
1 T
21635806 TGTATACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (18 bp):
TACCATTAGTTTGAATAA
Found at i:21636402 original size:30 final size:30
Alignment explanation
Indices: 21636366--21636424 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
21636356 TATTTTATTG
21636366 TTAATTTTGTTATTATTTTAAAGACATTTA
1 TTAATTTTGTTATTATTTTAAAGACATTTA
* *
21636396 TTAATTTTGTTATTATTTTAGAGGCATTT
1 TTAATTTTGTTATTATTTTAAAGACATTT
21636425 GCTTATTAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.29, C:0.03, G:0.10, T:0.58
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGACATTTA
Found at i:21637383 original size:20 final size:21
Alignment explanation
Indices: 21637339--21637377 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
21637329 GATGGAATAT
21637339 ATATATGATGGAATGAAATGC
1 ATATATGATGGAATGAAATGC
21637360 ATATA-GATGGAAT-AAATG
1 ATATATGATGGAATGAAATG
21637378 TGATATGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 8 0.44
21 5 0.28
ACGTcount: A:0.46, C:0.03, G:0.23, T:0.28
Consensus pattern (21 bp):
ATATATGATGGAATGAAATGC
Found at i:21643337 original size:21 final size:20
Alignment explanation
Indices: 21643295--21643348 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
21643285 TTTAATTTGC
*
21643295 TTATTAATTAGTATAAGATAT
1 TTATT-ATTATTATAAGATAT
* *
21643316 TTATTATTTATTATTAGTTAT
1 TTATTA-TTATTATAAGATAT
*
21643337 TAATTATTATTA
1 TTATTATTATTA
21643349 AATTAAAAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (20 bp):
TTATTATTATTATAAGATAT
Found at i:21643709 original size:11 final size:11
Alignment explanation
Indices: 21643693--21643718 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
21643683 TAGAAGAGAC
21643693 GAAACAGGGGA
1 GAAACAGGGGA
21643704 GAAACAGGGGA
1 GAAACAGGGGA
21643715 GAAA
1 GAAA
21643719 GAAGAAAAAG
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:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:21644402 original size:3 final size:3
Alignment explanation
Indices: 21644375--21644424 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
21644365 GTGAGGTAAG
* * * *
21644375 TAT TAA TAT TAG TAT TAA T-T TAT TAT TAG TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
21644422 TAT
1 TAT
21644425 GAGTGGGAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
2 1 0.03
3 37 0.97
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:21644421 original size:12 final size:12
Alignment explanation
Indices: 21644375--21644424 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
21644365 GTGAGGTAAG
*
21644375 TATTAATATTAG
1 TATTAATATTAT
21644387 TATTAAT-TTAT
1 TATTAATATTAT
*
21644398 TATTAGTATTAT
1 TATTAATATTAT
*
21644410 TATTATTATTAT
1 TATTAATATTAT
21644422 TAT
1 TAT
21644425 GAGTGGGAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
11 9 0.26
12 25 0.74
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (12 bp):
TATTAATATTAT
Found at i:21648460 original size:25 final size:25
Alignment explanation
Indices: 21648432--21648633 Score: 119
Period size: 24 Copynumber: 8.1 Consensus size: 25
21648422 ATAAACAGGT
21648432 AGCTCAAGAGAGCCATTAATCGGGA
1 AGCTCAAGAGAGCCATTAATCGGGA
* * *
21648457 AGCTCATGTGAGCCATGTAA-CAGGA
1 AGCTCAAGAGAGCCAT-TAATCGGGA
*** **
21648482 AGCTCATTCGAGCTGTATAA-CGGGA
1 AGCTCAAGAGAGCCAT-TAATCGGGA
*
21648507 AGCTCATA-AGAGCCA-TAATCGAGA
1 AGCTCA-AGAGAGCCATTAATCGGGA
* * * *
21648531 AGTTCAAGTGAGCCAAT-GTCGGGA
1 AGCTCAAGAGAGCCATTAATCGGGA
* *
21648555 AGCTCTAGAGAGCCAAT-ATCGGGA
1 AGCTCAAGAGAGCCATTAATCGGGA
* * *
21648579 AGCTCTAGAGAGCCAATTATTTGGGA
1 AGCTCAAGAGAGCC-ATTAATCGGGA
* * *
21648605 AGCTCATGAAAGAGCCTTTAATCGAGA
1 AGCTCA--AGAGAGCCATTAATCGGGA
21648632 AG
1 AG
21648634 ATCCGAAAAG
Statistics
Matches: 137, Mismatches: 31, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
23 4 0.03
24 54 0.39
25 50 0.36
26 13 0.09
27 9 0.07
28 7 0.05
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.20
Consensus pattern (25 bp):
AGCTCAAGAGAGCCATTAATCGGGA
Found at i:21657249 original size:21 final size:24
Alignment explanation
Indices: 21657225--21657279 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 24
21657215 AAAATATATA
21657225 TAAAATAATACAT-TAT-GAAA-T
1 TAAAATAATACATATATAGAAACT
21657246 T-AAATAATA-ATATATAGGAAACT
1 TAAAATAATACATATATA-GAAACT
21657269 TAAAATAATAC
1 TAAAATAATAC
21657280 TACATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 2 0.07
20 11 0.39
21 1 0.04
22 4 0.14
23 2 0.07
24 8 0.29
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.31
Consensus pattern (24 bp):
TAAAATAATACATATATAGAAACT
Found at i:21658424 original size:16 final size:17
Alignment explanation
Indices: 21658405--21658436 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
21658395 GGTCAGATTA
21658405 GGTTTGGGTT-TAATTG
1 GGTTTGGGTTATAATTG
21658421 GGTTTGGGTTATAATT
1 GGTTTGGGTTATAATT
21658437 TTGGGCTAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.50
Consensus pattern (17 bp):
GGTTTGGGTTATAATTG
Found at i:21658996 original size:100 final size:100
Alignment explanation
Indices: 21658765--21659249 Score: 629
Period size: 100 Copynumber: 4.8 Consensus size: 100
21658755 GTAAATCTGC
** * * * * **
21658765 TTAACTGTGATGTTGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTCTACTGCA-CTAAC
1 TTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATC-GCC
* * * *
21658829 TGAGAGAGTGAGATTTG-TCGTTGT-GACTTTAATCCTT
65 TG-GGGAGTAAGATTCGCT-GTTGTAG-CTTTAATCTTT
* * *
21658866 TTAACTGCAATGTCGGGAAAGCAAGATTCACCAATGTGGCTTTAATCTGCTT-CACTACATCGCC
1 TTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTG-TTCCACTGCATCGCC
* * * *
21658930 AGGGAAGTAAGATTCGCTATTGTAGCTTCAATCTTT
65 TGGGGAGTAAGATTCGCTGTTGTAGCTTTAATCTTT
* *
21658966 TTAACCGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCTT
1 TTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCT
*
21659031 GGGGAGTAAGATTCGCTGTAGTAGCTTTAATCTTT
66 GGGGAGTAAGATTCGCTGTTGTAGCTTTAATCTTT
*
21659066 TTAACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGTTCCACTGCA-CTGCC
1 TTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATC-GCC
21659130 TGGGGAGTAAGATTCGCTGTTGTAGCTTTAATCTTT
65 TGGGGAGTAAGATTCGCTGTTGTAGCTTTAATCTTT
* * *
21659166 TTAACTGCAATGTTGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTATTCCACTGCATCGCTT
1 TTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCT
* *
21659231 GTGGAGTAAGATTTGCTGT
66 GGGGAGTAAGATTCGCTGT
21659250 AATTCTTCGG
Statistics
Matches: 338, Mismatches: 39, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
99 3 0.01
100 280 0.83
101 53 0.16
102 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (100 bp):
TTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCT
GGGGAGTAAGATTCGCTGTTGTAGCTTTAATCTTT
Found at i:21659242 original size:50 final size:50
Alignment explanation
Indices: 21658888--21659243 Score: 246
Period size: 50 Copynumber: 7.1 Consensus size: 50
21658878 TCGGGAAAGC
** * ** *
21658888 AAGATTCACCAATGTGGCTTTAATCTGCTT-CACTACATCGCCAGGGAAGT
1 AAGATTCACTGATGTGGCTTTAATCTG-TTCCACTGCATCGCTTGGGGAGT
* * * * ** * * *
21658938 AAGATTCGCT-ATTGTAGCTTCAATCTTTTTAACCGCAAT-G-TCGGGGAAGC
1 AAGATTCACTGA-TGTGGCTTTAATCTGTTCCACTGC-ATCGCTTGGGG-AGT
*
21658988 AAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCTTGGGGAGT
1 AAGATTCACTGATGTGGCTTTAATCTGTTCCACTGCATCGCTTGGGGAGT
* * * ** * *
21659038 AAGATTCGCTG-TAGTAGCTTTAATCTTTTTAACTGCAAT-G-TCGGGGAAGC
1 AAGATTCACTGAT-GTGGCTTTAATCTGTTCCACTGC-ATCGCTTGGGG-AGT
*
21659088 AAGATTCACTGATGTGGCTTTAATCTGTTCCACTGCA-CTGCCTGGGGAGT
1 AAGATTCACTGATGTGGCTTTAATCTGTTCCACTGCATC-GCTTGGGGAGT
* * * * ** *
21659138 AAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAAT-G-TTGGGGAAGC
1 AAGATTCACTGATGTGGCTTTAATCTGTTCCACTGC-ATCGCTTGGGG-AGT
* * *
21659188 AAGATTCACCGATGTGGCTTTAATCTATTCCACTGCATCGCTTGTGGAGT
1 AAGATTCACTGATGTGGCTTTAATCTGTTCCACTGCATCGCTTGGGGAGT
21659238 AAGATT
1 AAGATT
21659244 TGCTGTAATT
Statistics
Matches: 232, Mismatches: 55, Indels: 38
0.71 0.17 0.12
Matches are distributed among these distances:
49 22 0.09
50 189 0.81
51 21 0.09
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (50 bp):
AAGATTCACTGATGTGGCTTTAATCTGTTCCACTGCATCGCTTGGGGAGT
Found at i:21659344 original size:200 final size:199
Alignment explanation
Indices: 21658868--21659312 Score: 463
Period size: 200 Copynumber: 2.2 Consensus size: 199
21658858 TAATCCTTTT
* * *** * * * *
21658868 AACTGCAATGTCGGGAAAGCAAGATTCACCAATGTGGCTTTAATCTGCTTCACTACA-TCGCC-A
1 AACTGCAATGTCGGGGAAGCAAGA-TCACTAATGTCAATCTAATCTGATCCACTGCACT-GCCTA
*
21658931 GGGAAGTAAGATTCGCTATTGTAGCTTCAATCTTTTTAACCGCAATGTCGGGGAAGCAAGATTCA
64 GAG-AGTAAGATTCGCTATTGTAGCTTCAATCTTTTTAACCGCAATGTCGGGGAAGCAAGATTCA
* * *
21658996 CCGATGTGGCTTTAATCTGTTCCACTGCATCGCTTGGGGAGTAAGATTCGCTGTAGTAGCTTTAA
128 CCGATGTGGCTTTAATCTATTCCACTGCATCGCTTGGGGAGTAAGATTCGCTGTAATAGCTTCAA
* *
21659061 TCTTTTT
193 TCTATTC
* *** * * *
21659068 AACTGCAATGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCTGTTCCACTGCACTGCCTGG
1 AACTGCAATGTCGGGGAAGCAAGA-TCACTAATGTCAATCTAATCTGATCCACTGCACTGCCTAG
* * * * *
21659133 GGAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTTGGGGAAGCAAGATTCACC
65 AGAGTAAGATTCGCTATTGTAGCTTCAATCTTTTTAACCGCAATGTCGGGGAAGCAAGATTCACC
* * * **
21659198 GATGTGGCTTTAATCTATTCCACTGCATCGCTTGTGGAGTAAGATTTGCTGTAAT-TCTTCGGTC
130 GATGTGGCTTTAATCTATTCCACTGCATCGCTTGGGGAGTAAGATTCGCTGTAATAGCTTCAATC
21659262 TATTC
195 TATTC
* * * * *
21659267 CACTGTAATTTCGGGG-AGATAAGA-C-CTAATG-CAATCTAATGTGATC
1 AACTGCAATGTCGGGGAAG-CAAGATCACTAATGTCAATCTAATCTGATC
21659313 TACTCTACTG
Statistics
Matches: 210, Mismatches: 32, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
195 9 0.04
196 5 0.02
197 1 0.00
198 2 0.01
199 25 0.12
200 164 0.78
201 4 0.02
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (199 bp):
AACTGCAATGTCGGGGAAGCAAGATCACTAATGTCAATCTAATCTGATCCACTGCACTGCCTAGA
GAGTAAGATTCGCTATTGTAGCTTCAATCTTTTTAACCGCAATGTCGGGGAAGCAAGATTCACCG
ATGTGGCTTTAATCTATTCCACTGCATCGCTTGGGGAGTAAGATTCGCTGTAATAGCTTCAATCT
ATTC
Found at i:21660781 original size:13 final size:14
Alignment explanation
Indices: 21660756--21660788 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
21660746 TTAGCCTCTC
21660756 CATTTTCCATTTTT
1 CATTTTCCATTTTT
21660770 CATTTT-CATTTTT
1 CATTTTCCATTTTT
21660783 CATTTT
1 CATTTT
21660789 TTTTCAGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.67
Consensus pattern (14 bp):
CATTTTCCATTTTT
Found at i:21660789 original size:8 final size:7
Alignment explanation
Indices: 21660756--21660789 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
21660746 TTAGCCTCTC
*
21660756 CATTTTC
1 CATTTTT
21660763 CATTTTT
1 CATTTTT
21660770 CA-TTTT
1 CATTTTT
21660776 CATTTTT
1 CATTTTT
21660783 CATTTTT
1 CATTTTT
21660790 TTTCAGAGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.68
Consensus pattern (7 bp):
CATTTTT
Found at i:21661714 original size:6 final size:6
Alignment explanation
Indices: 21661711--21661769 Score: 57
Period size: 6 Copynumber: 9.8 Consensus size: 6
21661701 GATTTTTTTC
* * * *
21661711 TTTTCT TTTTAT TTTTAT TTTTAT TTTGAT TTTGAT TTTGAT TTTT-T
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
*
21661758 TTGTTTT TTTTA
1 TT-TTAT TTTTA
21661770 ATCTGAACCC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
5 3 0.06
6 41 0.87
7 3 0.06
ACGTcount: A:0.12, C:0.02, G:0.07, T:0.80
Consensus pattern (6 bp):
TTTTAT
Done.