Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 67 of 276
Found at i:20677425 original size:24 final size:25
Alignment explanation
Indices: 20677398--20677445 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
20677388 CTTATTTCAT
20677398 TAAATAAAAAT-TTTAAAAATATAA
1 TAAATAAAAATATTTAAAAATATAA
* *
20677422 TAAATCAAATTCATTTAAAAATAT
1 TAAATAAAAAT-ATTTAAAAATAT
20677446 TAAAACAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
26 11 0.55
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (25 bp):
TAAATAAAAATATTTAAAAATATAA
Found at i:20678167 original size:11 final size:11
Alignment explanation
Indices: 20678145--20678194 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
20678135 TAAAACACCA
20678145 CAAAAGTAGCAC
1 CAAAA-TAGCAC
*
20678157 TAAAATAGCAC
1 CAAAATAGCAC
*
20678168 CAAAATAGCAT
1 CAAAATAGCAC
* *
20678179 CAAAACAGCTC
1 CAAAATAGCAC
20678190 CAAAA
1 CAAAA
20678195 CAGCTCCGAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 28 0.88
12 4 0.12
ACGTcount: A:0.54, C:0.24, G:0.10, T:0.12
Consensus pattern (11 bp):
CAAAATAGCAC
Found at i:20678176 original size:22 final size:23
Alignment explanation
Indices: 20678136--20678194 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
20678126 AAAGAACAAT
*
20678136 AAAACACCA-CAAAAGTAGCA-C
1 AAAACAGCACCAAAAGTAGCATC
*
20678157 TAAAATAGCACCAAAA-TAGCATC
1 -AAAACAGCACCAAAAGTAGCATC
*
20678180 AAAACAGCTCCAAAA
1 AAAACAGCACCAAAA
20678195 CAGCTCCGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 25 0.81
23 6 0.19
ACGTcount: A:0.56, C:0.25, G:0.08, T:0.10
Consensus pattern (23 bp):
AAAACAGCACCAAAAGTAGCATC
Found at i:20678195 original size:11 final size:11
Alignment explanation
Indices: 20678179--20678209 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
20678169 AAAATAGCAT
20678179 CAAAACAGCTC
1 CAAAACAGCTC
20678190 CAAAACAGCTC
1 CAAAACAGCTC
*
20678201 CGAAACAGC
1 CAAAACAGC
20678210 ACAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.45, C:0.35, G:0.13, T:0.06
Consensus pattern (11 bp):
CAAAACAGCTC
Found at i:20678436 original size:9 final size:9
Alignment explanation
Indices: 20678422--20678472 Score: 57
Period size: 9 Copynumber: 5.7 Consensus size: 9
20678412 ATTGAAGAAA
20678422 CATCATCCT
1 CATCATCCT
20678431 CATCATCCT
1 CATCATCCT
*
20678440 CATCGTCCT
1 CATCATCCT
* *
20678449 CATCGTCTT
1 CATCATCCT
* *
20678458 CATCGTCAT
1 CATCATCCT
20678467 CATCAT
1 CATCAT
20678473 TCTTGCAACT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.20, C:0.39, G:0.06, T:0.35
Consensus pattern (9 bp):
CATCATCCT
Found at i:20678448 original size:18 final size:18
Alignment explanation
Indices: 20678422--20678472 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
20678412 ATTGAAGAAA
*
20678422 CATCATCCTCATCATCCT
1 CATCGTCCTCATCATCCT
* *
20678440 CATCGTCCTCATCGTCTT
1 CATCGTCCTCATCATCCT
*
20678458 CATCGTCATCATCAT
1 CATCGTCCTCATCAT
20678473 TCTTGCAACT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.20, C:0.39, G:0.06, T:0.35
Consensus pattern (18 bp):
CATCGTCCTCATCATCCT
Found at i:20681961 original size:20 final size:20
Alignment explanation
Indices: 20681936--20681985 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
20681926 AAAAACCTGC
*
20681936 AAGAAGAAGATGCAGCAGTG
1 AAGAAGAAGATGCAGCAGTA
20681956 AAGAAGAAGATGCAGCAGTA
1 AAGAAGAAGATGCAGCAGTA
20681976 AAGAAGAAGA
1 AAGAAGAAGA
20681986 AGAAGAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.52, C:0.08, G:0.32, T:0.08
Consensus pattern (20 bp):
AAGAAGAAGATGCAGCAGTA
Found at i:20682352 original size:14 final size:14
Alignment explanation
Indices: 20682335--20682361 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20682325 GAAAAATATA
20682335 AGTAAAGTTAAAAG
1 AGTAAAGTTAAAAG
20682349 AGTAAAGTTAAAA
1 AGTAAAGTTAAAA
20682362 ATAAAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.19, T:0.22
Consensus pattern (14 bp):
AGTAAAGTTAAAAG
Found at i:20684540 original size:46 final size:43
Alignment explanation
Indices: 20684413--20684545 Score: 155
Period size: 46 Copynumber: 3.0 Consensus size: 43
20684403 CATGACAAAA
*
20684413 TGTGAAATGTAGGTATGGTATTTCAG---AAACTATACTGAGT
1 TGTGAAATGTAGGTATGGTATTTCAGAAAAAACCATACTGAGT
* * *
20684453 TATGAAATATAGGTATGGTATTTCAGAGAAGAAACCGATACTAAGT
1 TGTGAAATGTAGGTATGGTATTTCAGA-AA-AAACC-ATACTGAGT
20684499 TGTGAAATGTAGGTATGGTATTTCAGTAAAAAAAACCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTTCAG---AAAAAACCATACTGAGT
20684545 T
1 T
20684546 ATAGCATTGT
Statistics
Matches: 77, Mismatches: 7, Indels: 12
0.80 0.07 0.12
Matches are distributed among these distances:
40 24 0.31
45 4 0.05
46 41 0.53
47 5 0.06
48 2 0.03
49 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.32
Consensus pattern (43 bp):
TGTGAAATGTAGGTATGGTATTTCAGAAAAAACCATACTGAGT
Found at i:20703349 original size:26 final size:26
Alignment explanation
Indices: 20703320--20703372 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
20703310 TCAAACATGC
20703320 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
20703346 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
20703372 A
1 A
20703373 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:20711736 original size:20 final size:19
Alignment explanation
Indices: 20711699--20711737 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
20711689 TTATTTTGAT
*
20711699 TATTTTAATTTATTATCGA
1 TATTTTAATTTATGATCGA
20711718 TATTTTAATTTTATGATCGA
1 TATTTTAA-TTTATGATCGA
20711738 ATCAATTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.31, C:0.05, G:0.08, T:0.56
Consensus pattern (19 bp):
TATTTTAATTTATGATCGA
Found at i:20713852 original size:28 final size:28
Alignment explanation
Indices: 20713755--20713855 Score: 157
Period size: 28 Copynumber: 3.6 Consensus size: 28
20713745 TAGTAAGTCC
* *
20713755 GCACACTTAGTGTTATATAATCAAACTC
1 GCACACTTAGTGCTATATAATCAAACTT
*
20713783 GCACACTTAGTGCTTACATAATCAAACTT
1 GCACACTTAGTGC-TATATAATCAAACTT
*
20713812 GAACACTTAGTGCTATATAATCAAACTT
1 GCACACTTAGTGCTATATAATCAAACTT
20713840 GCACACTTAGTGCTAT
1 GCACACTTAGTGCTAT
20713856 GCAATTTAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
28 41 0.62
29 25 0.38
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.32
Consensus pattern (28 bp):
GCACACTTAGTGCTATATAATCAAACTT
Found at i:20713879 original size:57 final size:57
Alignment explanation
Indices: 20713753--20713881 Score: 161
Period size: 57 Copynumber: 2.3 Consensus size: 57
20713743 TATAGTAAGT
*
20713753 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCTTACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTTACATAATCAAAC
** * * * * *
20713810 TTGAACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCA-ATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
*
20713867 CCGCACATTTAGTGC
1 CCGCACACTTAGTGC
20713882 CAATCTCATG
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
57 56 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.30
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTTACATAATCAAAC
Found at i:20718327 original size:23 final size:23
Alignment explanation
Indices: 20718293--20718346 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
20718283 GCAGTGATTC
*
20718293 TTTTAA-GATAAGCTTGTTATGA
1 TTTTAACGATAAGCTTGTCATGA
20718315 TTTTAACGATAAGCTTGTCATGA
1 TTTTAACGATAAGCTTGTCATGA
20718338 TTTTAACGA
1 TTTTAACGA
20718347 AATTAGAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 6 0.20
23 24 0.80
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (23 bp):
TTTTAACGATAAGCTTGTCATGA
Found at i:20726702 original size:133 final size:132
Alignment explanation
Indices: 20726407--20726681 Score: 345
Period size: 133 Copynumber: 2.1 Consensus size: 132
20726397 ACAACTTCAG
* * * * * *
20726407 GGAGATAAAATCTTCAATTTTTAGTCTACTTCCTTGCTACCTCAGGAAGATAAAATTCATTCTTC
1 GGAGATAAGA-CTTCAATTATAAGTCTGCTTCCTTGCTACCTCAGGAAAATAAAACTCATTCTTC
* * * *
20726472 AAACTTCTCTCTTACTACGTCCGAGAGATAAGGCTTGGTAAGTAAAATCTGTTCCATTGCCGATA
65 AAACTGCTCTCTTACTACCTCAGAGAGATAAGGCTTGGTAAGTAAAATCTGCTCCATTGCCGATA
20726537 CAT
130 CAT
* * * *
20726540 GGAGATAAGATCTTCAATTCTCAGTCTGCTTCCTTGCTACTTCAGGAAAATAAGACTCATTCTTC
1 GGAGATAAGA-CTTCAATTATAAGTCTGCTTCCTTGCTACCTCAGGAAAATAAAACTCATTCTTC
* * * * *
20726605 AACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGT-GGTGAAATCTGCTCCCTTGCCGATA
65 AAACTGCTCTCTTACTACCTCAGAGAGATAAGGCTTGGTAAGTAAAATCTGCTCCATTGCCGATA
*
20726669 CGT
130 CAT
20726672 GGAGATAAGA
1 GGAGATAAGA
20726682 TTCCATCTAT
Statistics
Matches: 124, Mismatches: 18, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
132 33 0.27
133 91 0.73
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (132 bp):
GGAGATAAGACTTCAATTATAAGTCTGCTTCCTTGCTACCTCAGGAAAATAAAACTCATTCTTCA
AACTGCTCTCTTACTACCTCAGAGAGATAAGGCTTGGTAAGTAAAATCTGCTCCATTGCCGATAC
AT
Found at i:20726715 original size:133 final size:132
Alignment explanation
Indices: 20726407--20726771 Score: 328
Period size: 133 Copynumber: 2.7 Consensus size: 132
20726397 ACAACTTCAG
* * * * ** * * *
20726407 GGAGATAAAATCTTCAATTTTTAGTCTACTTCCTTGCTACCTCAGGAAGATAAAATTCATTCTTC
1 GGAGATAAGA-CTTCAATTATAAGTCTGCTTCCCCGCAACTTCAGGAAGATAAAACTCATTCTTC
* * * * *
20726472 AAACTTCTCTCTTACTACGTCCGAGAGATAAGGCTTGGTAAGTAAAATCTGTTCCATTGCCGATA
65 AAACTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGTAAGTAAAATCTGCTCCATTGCCGATA
20726537 CAT
130 CAT
* * ** * * *
20726540 GGAGATAAGATCTTCAATTCTCAGTCTGCTTCCTTGCTACTTCAGGAAAATAAGACTCATTCTTC
1 GGAGATAAGA-CTTCAATTATAAGTCTGCTTCCCCGCAACTTCAGGAAGATAAAACTCATTCTTC
* * * *
20726605 AACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGT-GGTGAAATCTGCTCCCTTGCCGATA
65 AAACTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGTAAGTAAAATCTGCTCCATTGCCGATA
*
20726669 CGT
130 CAT
* *
20726672 GGAGATAAGA-TTCCATCTATGAAGATCTGC-TCCGCCGCAACTTCAGGGAGATAAAATCTTCAA
1 GGAGATAAGACTTCAAT-TAT-AAG-TCTGCTTCC-CCGCAACTTCAGGAAGATAAAA-C-TC-A
*
20726735 TTC-TCAATCTGCT-TCCTTGCTACCTCAG-GAAGATAAG
59 TTCTTCAAACTGCTCT-CTTGCTACCTCAGAG-AGATAAG
20726772 ACTCATTCTT
Statistics
Matches: 195, Mismatches: 28, Indels: 16
0.82 0.12 0.07
Matches are distributed among these distances:
130 5 0.03
131 2 0.01
132 38 0.19
133 112 0.57
134 3 0.02
135 31 0.16
136 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (132 bp):
GGAGATAAGACTTCAATTATAAGTCTGCTTCCCCGCAACTTCAGGAAGATAAAACTCATTCTTCA
AACTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGTAAGTAAAATCTGCTCCATTGCCGATAC
AT
Found at i:20726733 original size:178 final size:179
Alignment explanation
Indices: 20726540--20726942 Score: 605
Period size: 178 Copynumber: 2.3 Consensus size: 179
20726530 GCCGATACAT
* *
20726540 GGAGATAAGATCTTCAATTCTCAGTCTGCTTCCTTGCTACTTCAGGAAAATAAGACTCATTCTTC
1 GGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAAATAAGACTCATTCTTC
* ** * * * *
20726605 AACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGTG-GTGAAATCTGCTCCCTTGCCGATA
66 AACCTGCTCTCTTGCTACCTCAGAGAAATAAGG-TCAGTGACTAAAATCTGCTCCATCGCCGATA
* *
20726669 CGTGGAGATAAGATT-CCATCTATGAAGATCTGCTCCGCCGCAA-CTTCAG
130 CATGGAGATAAGATTACCATCTACGAAGATCTGCTCCGCCGCAATC-TCAG
* *
20726718 GGAGATAAAATCTTCAATTCTCAATCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTC
1 GGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAAATAAGACTCATTCTTC
20726783 AACCTGCTCTCTTGCTACCTCAGAGAAATAAGGTCAGTGACTAAAATCTGCTCCATCGCCGATAC
66 AACCTGCTCTCTTGCTACCTCAGAGAAATAAGGTCAGTGACTAAAATCTGCTCCATCGCCGATAC
* *
20726848 ATGGAGATAAGATTCACCATCTGCGAAGATCTGCTCCGCTGCAATCTCAG
131 ATGGAGATAAGATT-ACCATCTACGAAGATCTGCTCCGCCGCAATCTCAG
* *
20726898 GGAGATAAAATCTTCAATTCTTAGTCCGCTTCCTTGCTACCTCAG
1 GGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAG
20726943 AGAGATGAGG
Statistics
Matches: 203, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
177 4 0.02
178 127 0.63
180 71 0.35
181 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (179 bp):
GGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAAATAAGACTCATTCTTC
AACCTGCTCTCTTGCTACCTCAGAGAAATAAGGTCAGTGACTAAAATCTGCTCCATCGCCGATAC
ATGGAGATAAGATTACCATCTACGAAGATCTGCTCCGCCGCAATCTCAG
Found at i:20726763 original size:45 final size:43
Alignment explanation
Indices: 20726714--20726813 Score: 107
Period size: 43 Copynumber: 2.3 Consensus size: 43
20726704 CGCCGCAACT
* *
20726714 TCAGGGAGATAAAATCTTCAATTC-TCAATCTGCT-TCCTTGCTACC
1 TCAGGAAGATAAAA-C-TC-ATTCTTCAACCTGCTCT-CTTGCTACC
*
20726759 TCAGGAAGATAAGACTCATTCTTCAACCTGCTCTCTTGCTACC
1 TCAGGAAGATAAAACTCATTCTTCAACCTGCTCTCTTGCTACC
20726802 TCAGAGAA-ATAA
1 TCAG-GAAGATAA
20726814 GGTCAGTGAC
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
42 4 0.08
43 28 0.57
44 5 0.10
45 12 0.24
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (43 bp):
TCAGGAAGATAAAACTCATTCTTCAACCTGCTCTCTTGCTACC
Found at i:20726798 original size:43 final size:42
Alignment explanation
Indices: 20726734--20726814 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 42
20726724 AAAATCTTCA
*
20726734 ATTCTCAATCTGCTTCCTTGCTACCTCAG-GAAGATAAGACTC
1 ATTCTCAACCTGCTTCCTTGCTACCTCAGAGAA-ATAAGACTC
20726776 ATTCTTCAACCTGC-TCTCTTGCTACCTCAGAGAAATAAG
1 ATTC-TCAACCTGCTTC-CTTGCTACCTCAGAGAAATAAG
20726815 GTCAGTGACT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
42 6 0.17
43 26 0.74
44 3 0.09
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (42 bp):
ATTCTCAACCTGCTTCCTTGCTACCTCAGAGAAATAAGACTC
Found at i:20726968 original size:137 final size:137
Alignment explanation
Indices: 20726793--20727055 Score: 368
Period size: 137 Copynumber: 1.9 Consensus size: 137
20726783 AACCTGCTCT
*
20726793 CTTGCTACCTCAGAGAAATAAGGTCAGTGACTAAAATCTGCTCCATCGCCGATACATGGAGATAA
1 CTTGCTACCTCAGAGAAATAAGGTCAGTGACTAAAATCTACTCCATCGCCGATACATGGAGATAA
*
20726858 GATTCACCATCTGCGAAGATCTGCTCCGCTGCAA-TCTCAGGGAGATAAAATCTTCAATTCTTAG
66 GATTCACCATCTACGAAGATCTGCTCCGCTGCAACT-TCAGGGAGATAAAATCTTCAATTCTTAG
20726922 TCCGCTTC
130 TCCGCTTC
* * ** * * *
20726930 CTTGCTACCTCAGAGAGATGAGGCTTGGT-AGTAAAATCTACTCCATTGCTGATACATGGAGATA
1 CTTGCTACCTCAGAGAAATAAGG-TCAGTGACTAAAATCTACTCCATCGCCGATACATGGAGATA
* * * * *
20726994 AGATTCATCATCTATGGAGATCTGCTCCGCTGCAACTTCAGGGAGATAAGATCTTCCATTCT
65 AGATTCACCATCTACGAAGATCTGCTCCGCTGCAACTTCAGGGAGATAAAATCTTCAATTCT
20727056 CTACCAATAT
Statistics
Matches: 110, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
137 106 0.96
138 4 0.04
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (137 bp):
CTTGCTACCTCAGAGAAATAAGGTCAGTGACTAAAATCTACTCCATCGCCGATACATGGAGATAA
GATTCACCATCTACGAAGATCTGCTCCGCTGCAACTTCAGGGAGATAAAATCTTCAATTCTTAGT
CCGCTTC
Found at i:20728098 original size:3 final size:3
Alignment explanation
Indices: 20728090--20728136 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
20728080 TGGCCTCTCT
20728090 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
20728137 GTTGTTGTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:20748438 original size:30 final size:30
Alignment explanation
Indices: 20748397--20748456 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
20748387 GTAGTGGTCG
20748397 GCATCCCTACGTGCTCCTCGCCCCCCTACT
1 GCATCCCTACGTGCTCCTCGCCCCCCTACT
*
20748427 GCATTCCTACGTGCTCCTCGCCCCCCTACT
1 GCATCCCTACGTGCTCCTCGCCCCCCTACT
20748457 TAAGAATCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.10, C:0.52, G:0.13, T:0.25
Consensus pattern (30 bp):
GCATCCCTACGTGCTCCTCGCCCCCCTACT
Found at i:20762929 original size:17 final size:17
Alignment explanation
Indices: 20762907--20762944 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
20762897 ATGGGAAGAT
20762907 AAAGAAAGAGAGACAAG
1 AAAGAAAGAGAGACAAG
* *
20762924 AAAGAAAGAGATACAGG
1 AAAGAAAGAGAGACAAG
20762941 AAAG
1 AAAG
20762945 CTAAGGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.63, C:0.05, G:0.29, T:0.03
Consensus pattern (17 bp):
AAAGAAAGAGAGACAAG
Found at i:20778025 original size:38 final size:38
Alignment explanation
Indices: 20777983--20778061 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
20777973 CTCGTTTTCT
20777983 AGTGCAGGTATTGCCCGTATCAGTATTCCCATTGATTG
1 AGTGCAGGTATTGCCCGTATCAGTATTCCCATTGATTG
20778021 AGTGCAGGTATTGCCCGTATCAGTATTCCCATTGATTG
1 AGTGCAGGTATTGCCCGTATCAGTATTCCCATTGATTG
20778059 AGT
1 AGT
20778062 AGTTTCTAGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (38 bp):
AGTGCAGGTATTGCCCGTATCAGTATTCCCATTGATTG
Found at i:20783048 original size:21 final size:20
Alignment explanation
Indices: 20783016--20783081 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 20
20783006 GATAGCTTTT
*
20783016 AAATTATTTTTAAATTTTAA
1 AAATTTTTTTTAAATTTTAA
20783036 AAATATTTTTTTAATAATTTTAA
1 AAAT-TTTTTTT-A-AATTTTAA
** *
20783059 TGATTTTTTTAAAATTTTAA
1 AAATTTTTTTTAAATTTTAA
20783079 AAA
1 AAA
20783082 ATTAAATACA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 13 0.35
21 7 0.19
22 7 0.19
23 10 0.27
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
AAATTTTTTTTAAATTTTAA
Found at i:20830236 original size:19 final size:19
Alignment explanation
Indices: 20830200--20830236 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
20830190 ATGCTATAGA
*
20830200 CATGCTATAGAGTAGTCAG
1 CATGCTATAGAGCAGTCAG
*
20830219 CATGCTATAGAGCGGTCA
1 CATGCTATAGAGCAGTCA
20830237 AAATCCCCAA
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:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (19 bp):
CATGCTATAGAGCAGTCAG
Found at i:20880863 original size:47 final size:47
Alignment explanation
Indices: 20880800--20880904 Score: 192
Period size: 47 Copynumber: 2.2 Consensus size: 47
20880790 TCCTTCGGGA
* *
20880800 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
20880847 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
20880894 CTTATCACATA
1 CTTATCACATA
20880905 ATTAATACTA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:20886646 original size:46 final size:47
Alignment explanation
Indices: 20886416--20886729 Score: 272
Period size: 46 Copynumber: 6.6 Consensus size: 47
20886406 GTATAATGCT
* * * *
20886416 GATGTCATGTCCCAGACATGGTCTTACACTGGCT-CATCAATC-AAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTACATC--TCGAGGCC
* * ** * *
20886463 GATGCCATGTCCCAGATATGGCCTTACACTGACTATCAAAATTGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTA-C-ATCTCGAGGCC
* * *
20886512 GACGCCATGTCCCAGACATGGTCTTACACT-AGCTCGCACATATCCG-TGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGA-CT---ACATCT-CGAGGCC
* *
20886562 GATGCCATGTCCCAGACTTGGTCTTACACTGAC-ACATCTCGTA-GTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTACATCTCG-AGGCC
*
20886608 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGAC-TACATCTCGAGGCC
* *
20886654 GATG-CATGTCCCAAACAT-GTCTTACACTAGAACT-CATCTCGATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACT-G-ACTACATCTCGAGGCC
20886700 GATGCCATGTCCCAGACATGGTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
20886730 AGCTCACCAT
Statistics
Matches: 220, Mismatches: 28, Indels: 37
0.77 0.10 0.13
Matches are distributed among these distances:
44 12 0.05
45 16 0.07
46 63 0.29
47 45 0.20
48 13 0.06
49 32 0.15
50 35 0.16
51 3 0.01
52 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTACATCTCGAGGCC
Found at i:20890015 original size:134 final size:134
Alignment explanation
Indices: 20889775--20890041 Score: 498
Period size: 134 Copynumber: 2.0 Consensus size: 134
20889765 GTAACTCCTC
* *
20889775 AAGCTTGACTCCGGCGACGGTTTCGGGCGTGGGGGCGTTACATTTAGTGGTATCAGAGCATGTTT
1 AAGCTTGACTCCGGCGACGGTTTCGGGCGTGGGGGCATTACATTTAGTGGTATCAGAGCACGTTT
* *
20889840 AGTCAGTTCTTTGACTAACCTAGCATGTGTAAAAGTTTAGCTATACATGCCACTGATCTGTGATA
66 AGTCAGTTATTTGACTAACCTAGCATGTGCAAAAGTTTAGCTATACATGCCACTGATCTGTGATA
20889905 GTGA
131 GTGA
20889909 AAGCTTGACTCCGGCGACGGTTTCGGGCGTGGGGGCATTACATTTAGTGGTATCAGAGCACGTTT
1 AAGCTTGACTCCGGCGACGGTTTCGGGCGTGGGGGCATTACATTTAGTGGTATCAGAGCACGTTT
20889974 AGTCAGTTATTTGACTAACCTAGCATGTGCAAAAGTTTAGCTATACATGCCACTGATCTGTGATA
66 AGTCAGTTATTTGACTAACCTAGCATGTGCAAAAGTTTAGCTATACATGCCACTGATCTGTGATA
20890039 GTG
131 GTG
20890042 TGATGTCTTC
Statistics
Matches: 129, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
134 129 1.00
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (134 bp):
AAGCTTGACTCCGGCGACGGTTTCGGGCGTGGGGGCATTACATTTAGTGGTATCAGAGCACGTTT
AGTCAGTTATTTGACTAACCTAGCATGTGCAAAAGTTTAGCTATACATGCCACTGATCTGTGATA
GTGA
Found at i:20891623 original size:15 final size:15
Alignment explanation
Indices: 20891603--20891658 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
20891593 GTATCTTGGG
20891603 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
20891618 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
20891633 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
20891648 TTTCTTTATTC
1 TTTCTTTATTC
20891659 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:20894106 original size:46 final size:46
Alignment explanation
Indices: 20894052--20894224 Score: 176
Period size: 46 Copynumber: 3.7 Consensus size: 46
20894042 TGGTTGAGCA
20894052 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
20894098 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
20894143 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGTATACGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
20894191 -CCTGAACTCGTTGAGTTAAGTCCGACTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
20894225 AGGGCGGGTT
Statistics
Matches: 104, Mismatches: 13, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 57 0.55
47 28 0.27
48 3 0.03
50 2 0.02
51 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:20896565 original size:46 final size:44
Alignment explanation
Indices: 20896469--20896582 Score: 131
Period size: 46 Copynumber: 2.5 Consensus size: 44
20896459 GTACTGATGC
* * * *
20896469 CATGTCTCAGACATGGTCTTACACTGGCACATCTCGCAGTCTATG
1 CATGTCCCAGACAT-GTCTTACACCGGCACATCTCGCAGGCAATG
20896514 CATGTCCCAGACATGTCTTACACCGGCTTACATCTCG-AGGCAAATG
1 CATGTCCCAGACATGTCTTACACCGGC--ACATCTCGCAGGC-AATG
* *
20896560 TATGTCCCAAACATGTCTTACAC
1 CATGTCCCAGACATGTCTTACAC
20896583 TAGCTCTCGT
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
44 12 0.20
45 16 0.27
46 32 0.53
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACCGGCACATCTCGCAGGCAATG
Found at i:20896741 original size:36 final size:36
Alignment explanation
Indices: 20896694--20897517 Score: 1648
Period size: 36 Copynumber: 22.9 Consensus size: 36
20896684 GTTCAAAAGT
20896694 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
1 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
20896730 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
1 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
20896766 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
1 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
20896802 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
1 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
20896838 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
1 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
20896874 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
1 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
20896910 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
1 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
20896946 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
1 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
20896982 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
1 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
20897018 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
1 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
20897054 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
1 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
20897090 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
1 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
20897126 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
1 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
20897162 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
1 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
20897198 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
1 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
20897234 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
1 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
20897270 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
1 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
20897306 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
1 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
20897342 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
1 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
20897378 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
1 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
20897414 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
1 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
20897450 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
1 GAATTCTACTATCTCAATTATCATTATGCATTAAGG
20897486 GAATTCTACTATCTCAATTATCATTATGCATT
1 GAATTCTACTATCTCAATTATCATTATGCATT
20897518 CTCATTTCCA
Statistics
Matches: 788, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 788 1.00
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (36 bp):
GAATTCTACTATCTCAATTATCATTATGCATTAAGG
Found at i:20903352 original size:19 final size:19
Alignment explanation
Indices: 20903316--20903354 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
20903306 TTTTCATCAT
* *
20903316 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
20903335 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
20903354 A
1 A
20903355 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:20903866 original size:28 final size:28
Alignment explanation
Indices: 20903818--20903898 Score: 128
Period size: 28 Copynumber: 2.9 Consensus size: 28
20903808 GTGACAGAGT
*
20903818 CACCAGATACAGATATTTTGTGGC-GGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGG-GC
20903847 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGGGC
20903875 CACCAGAACAGATAATTTGTGGCA
1 CACCAGAACAGATAATTTGTGGCA
20903899 TAGCAACCAG
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
28 41 0.82
29 9 0.18
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGGGC
Found at i:20903907 original size:28 final size:27
Alignment explanation
Indices: 20903818--20903908 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
20903808 GTGACAGAGT
* *
20903818 CACCAGATACAGATATTTTGTGGCGGTGC
1 CACCAGA-ACAGATAATTTGTGGC-ATGC
*
20903847 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
20903875 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
*
20903903 AACCAG
1 CACCAG
20903909 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
28 48 0.87
29 7 0.13
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:20904061 original size:28 final size:28
Alignment explanation
Indices: 20904014--20904078 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
20904004 AAATTAACCC
*
20904014 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
20904042 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
20904070 TAGGGGTAT
1 TAGGGGTAT
20904079 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:20906565 original size:46 final size:48
Alignment explanation
Indices: 20906431--20906744 Score: 230
Period size: 46 Copynumber: 6.6 Consensus size: 48
20906421 GTATAATGCT
* *
20906431 GATGCCATGTCCCAGACATGGTCTTACACTAGC-TCTCACATATCTGTA-CC
1 GATGCCATGTCCCAGACATGGTCTTACACT-GCAT-T-ACATCTC-GAAGCC
* * ** * *
20906481 GATGCCATGTTCTAGACATGGTCTTACACT--AACACATCTCGTAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGCATTACATCTCGAAGCC
**
20906527 GATG-CATGTCCCAGACAT-GTCTTACACTGGTTTACATCTCG-AGCCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGCATTACATCTCGAAG-CC
*
20906573 GATG-CATGTCCCAAACAT-GTCTTACACTAGCATT-CATCTC-AATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACT-GCATTACATCTCGAA-GCC
*
20906619 GATGCCATGTCCCAGACATGGTCTTACACTGGC--T-CATCCATC-AAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACT-GCATTACAT-C-TCGAAGCC
* * * *
20906666 GATGCCATGTCCCAAACATGGTCTTACACTGACTATCGAAAT-T-GAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTG-C-AT-TACATCTCGAAGCC
* *
20906715 GACGCCATTTCCCAGACATGGTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
20906745 AGCTCACCAC
Statistics
Matches: 219, Mismatches: 26, Indels: 39
0.77 0.09 0.14
Matches are distributed among these distances:
44 10 0.05
45 17 0.08
46 65 0.30
47 50 0.23
48 16 0.07
49 31 0.14
50 28 0.13
52 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGCATTACATCTCGAAGCC
Found at i:20906647 original size:94 final size:93
Alignment explanation
Indices: 20906425--20906744 Score: 280
Period size: 94 Copynumber: 3.4 Consensus size: 93
20906415 CATAGGGTAT
* * * *
20906425 AATGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTA-CCGATGCCAT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACT-GGT-TTACATCTC-G-AGCCGATGCCAT
* * *
20906489 GTTCTAGACATGGTCTTACACTAACACATCTC
62 GTCCCAAACATGGTCTTACACTAACACATCTC
* *
20906521 -GTAGTCGATG-CATGTCCCAGACAT-GTCTTACACTGGTTTACATCTCGAGCCCGATG-CATGT
1 AAT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGTTTACATCTCGAG-CCGATGCCATGT
*
20906582 CCCAAACAT-GTCTTACACTAGCATTCATCTC
64 CCCAAACATGGTCTTACACTAACA--CATCTC
* * *
20906613 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGG-CT-CATCCATCAAGTCGATGCCATGT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGTTTACAT-C-TCGAGCCGATGCCATGT
* * **
20906676 CCCAAACATGGTCTTACACTGAC-TATCGA
64 CCCAAACATGGTCTTACACTAACACATCTC
* *
20906705 AATTGAGGCCGACGCCATTTCCCAGACATGGTCTTACACT
1 AA-T---GCCGATGCCATGTCCCAGACATGGTCTTACACT
20906745 AGCTCACCAC
Statistics
Matches: 186, Mismatches: 22, Indels: 32
0.77 0.09 0.13
Matches are distributed among these distances:
90 14 0.08
91 12 0.06
92 33 0.18
93 25 0.13
94 40 0.22
95 26 0.14
96 36 0.19
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (93 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGTTTACATCTCGAGCCGATGCCATGTCC
CAAACATGGTCTTACACTAACACATCTC
Found at i:20913718 original size:13 final size:13
Alignment explanation
Indices: 20913670--20913764 Score: 62
Period size: 13 Copynumber: 7.6 Consensus size: 13
20913660 ACCCTTTTCT
20913670 TTATT-TTATTTTA
1 TTATTATTA-TTTA
*
20913683 TT-TCATTATTTCA
1 TTATTATTATTT-A
20913696 TTATTTATTA-TTA
1 TTA-TTATTATTTA
*
20913709 TTTATTATTATTTT
1 -TTATTATTATTTA
20913723 TTA-TATTATTTA
1 TTATTATTATTTA
*
20913735 -T-TT-TTATTTG
1 TTATTATTATTTA
20913745 TTA-TATTATTTA
1 TTATTATTATTTA
*
20913757 TTTTTATT
1 TTATTATT
20913765 TTACTGATCT
Statistics
Matches: 64, Mismatches: 7, Indels: 22
0.69 0.08 0.24
Matches are distributed among these distances:
10 6 0.09
11 4 0.06
12 20 0.31
13 22 0.34
14 7 0.11
15 5 0.08
ACGTcount: A:0.24, C:0.02, G:0.01, T:0.73
Consensus pattern (13 bp):
TTATTATTATTTA
Found at i:20913729 original size:22 final size:22
Alignment explanation
Indices: 20913673--20913766 Score: 107
Period size: 22 Copynumber: 4.1 Consensus size: 22
20913663 CTTTTCTTTA
*
20913673 TTTTATTTTATTTCATTATTTCATT
1 TTTTATATTATTT-ATTA-TT-ATT
*
20913698 ATTTATTATTATTTATTATTATT
1 TTTTA-TATTATTTATTATTATT
*
20913721 TTTTATATTATTTATTTTTATT
1 TTTTATATTATTTATTATTATT
* *
20913743 TGTTATATTATTTATTTTTATT
1 TTTTATATTATTTATTATTATT
20913765 TT
1 TT
20913767 ACTGATCTAT
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
22 38 0.61
23 7 0.11
24 2 0.03
25 8 0.13
26 7 0.11
ACGTcount: A:0.23, C:0.02, G:0.01, T:0.73
Consensus pattern (22 bp):
TTTTATATTATTTATTATTATT
Found at i:20913765 original size:32 final size:32
Alignment explanation
Indices: 20913669--20913757 Score: 96
Period size: 31 Copynumber: 2.9 Consensus size: 32
20913659 TACCCTTTTC
* *
20913669 TTTATT-TTATTTTATT-TCATTATTT-CATTA
1 TTTATTATTA-TTTATTATTATTATTTATATTA
*
20913699 TTTATTATTATTTATTATTATTTTTTATATTA
1 TTTATTATTATTTATTATTATTATTTATATTA
* *
20913731 TTTATTTTTATTTGTTA-TATTATTTAT
1 TTTATTATTATTTATTATTATTATTTAT
20913758 TTTTATTTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
30 12 0.24
31 19 0.38
32 19 0.38
ACGTcount: A:0.25, C:0.02, G:0.01, T:0.72
Consensus pattern (32 bp):
TTTATTATTATTTATTATTATTATTTATATTA
Found at i:20920097 original size:16 final size:15
Alignment explanation
Indices: 20920076--20920106 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
20920066 CTTATCTCTT
20920076 ATTATATTATATATTA
1 ATTATATTATA-ATTA
20920092 ATTATATTATAATTA
1 ATTATATTATAATTA
20920107 CGCATCATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTATAATTA
Found at i:20920313 original size:22 final size:22
Alignment explanation
Indices: 20920288--20920329 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
20920278 TATATTCACA
20920288 TATTATCAAAATATACATCATC
1 TATTATCAAAATATACATCATC
*
20920310 TATTATGAAAATATACATCA
1 TATTATCAAAATATACATCA
20920330 ACTTCGACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.14, G:0.02, T:0.36
Consensus pattern (22 bp):
TATTATCAAAATATACATCATC
Found at i:20928199 original size:8 final size:8
Alignment explanation
Indices: 20928186--20928212 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
20928176 GGGACTAAAG
20928186 TGTCAAAA
1 TGTCAAAA
20928194 TGTCAAAA
1 TGTCAAAA
20928202 TGTCAAAA
1 TGTCAAAA
20928210 TGT
1 TGT
20928213 GAGGGTTAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (8 bp):
TGTCAAAA
Found at i:20933143 original size:79 final size:78
Alignment explanation
Indices: 20933041--20933263 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 78
20933031 GCTCCTCGTT
* *
20933041 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
20933106 ATTTAGTAACTCACA
64 AATTAGTAACTCACA
*
20933121 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
* *
20933184 AATTAGTATCTCGCA
64 AATTAGTAACTCACA
* * * * *
20933199 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
20933262 GA
63 GA
20933264 CATCATTCAA
Statistics
Matches: 124, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
78 46 0.37
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCACA
Found at i:20933162 original size:39 final size:40
Alignment explanation
Indices: 20933041--20933263 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
20933031 GCTCCTCGTT
* *
20933041 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * * *
20933081 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
20933121 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
20933160 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
20933199 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
20933240 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20933264 CATCATTCAA
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 2 0.01
39 88 0.54
40 63 0.38
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:20941067 original size:39 final size:39
Alignment explanation
Indices: 20940950--20941159 Score: 298
Period size: 39 Copynumber: 5.3 Consensus size: 39
20940940 GCTCCTCGTT
* *
20940950 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
20940990 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
*
20941030 CAAATGCCTCCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* *
20941069 CAAATGCCTTCGGGCTTAGCGCGGAATTAGTATCTCACA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
20941108 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
20941147 CAAATGCCTTCGG
1 CAAATGCCTTCGG
20941160 ATCTTAGTCC
Statistics
Matches: 156, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 109 0.70
40 45 0.29
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:20941195 original size:117 final size:119
Alignment explanation
Indices: 20940950--20941211 Score: 306
Period size: 118 Copynumber: 2.2 Consensus size: 119
20940940 GCTCCTCGTT
* * *
20940950 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCACACAAATGCCTTCGGGACTTAACCC
* * *
20941013 GGATTTAGTAACTCGCACAAATGCCTCCGGGCTTAGCCCGGAATTAGTATCTCGCA
64 GGAATTAGTAACTCGCACAAATGCCTCCGGGCTTAGCCCAGAATTAGTATCTAGCA
* *
20941069 CAAATGCCTTCGGG-CTTAGCGCGGAATTAGTATCTCACACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCACACAAATGCCTTCGGGACTTAACCCGG
* * * *
20941132 AATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCAGATATT-GTCA-CTTAGCA
66 AATTAGTAACTCGCACAAATGCCTCCGG-GCTTAGCCCAGA-ATTAGT-ATC-TAGCA
20941188 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20941212 CATCATTCAA
Statistics
Matches: 123, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
117 45 0.37
118 54 0.44
119 24 0.20
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (119 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCACACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCACAAATGCCTCCGGGCTTAGCCCAGAATTAGTATCTAGCA
Found at i:20957415 original size:42 final size:42
Alignment explanation
Indices: 20957354--20957520 Score: 244
Period size: 42 Copynumber: 4.0 Consensus size: 42
20957344 GAAAATATTT
*
20957354 GAGATAGCTTCAGCTATGCATTGGCACTTAGTGTGCGAGATC
1 GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATC
*
20957396 GGGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATC
1 GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATC
* * * * *
20957438 AAGATAGCTTCGGCAATGCATTGGCATTTAGTGTGCGTGATT
1 GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATC
* * *
20957480 GAGTTAGCTTCGGCTACGTATTGGCACTTAGTGTGCGAGAT
1 GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGAT
20957521 TCCCGAGTAA
Statistics
Matches: 110, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 110 1.00
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.31
Consensus pattern (42 bp):
GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGATC
Found at i:20957622 original size:32 final size:32
Alignment explanation
Indices: 20957586--20957649 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
20957576 TGAGTATGAG
*
20957586 ATTGGTACAAGATGGTACATGTATGTACGAAA
1 ATTGGTACAAGATGGTACAAGTATGTACGAAA
*
20957618 ATTGGTACGAGATGGTACAAGTATGTACGAAA
1 ATTGGTACAAGATGGTACAAGTATGTACGAAA
20957650 CTTCAATTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.38, C:0.09, G:0.27, T:0.27
Consensus pattern (32 bp):
ATTGGTACAAGATGGTACAAGTATGTACGAAA
Found at i:20959709 original size:37 final size:37
Alignment explanation
Indices: 20959659--20959781 Score: 151
Period size: 37 Copynumber: 3.4 Consensus size: 37
20959649 CATGTGAGTA
* *
20959659 CGTGTAAGACCATAACTGGGCTATGGCATCGTAATAG
1 CGTGTAAGACCATAGCTGGGCTATGGCATCGTGATAG
* * * *
20959696 CGTGTAAGACCATAGTTAGGTTATGGCATCTTGAT-G
1 CGTGTAAGACCATAGCTGGGCTATGGCATCGTGATAG
* *
20959732 ACATGTAAGACCATAGCTGGGCTATGGCATTGTGATA-
1 -CGTGTAAGACCATAGCTGGGCTATGGCATCGTGATAG
20959769 CGTGTAAGACCAT
1 CGTGTAAGACCAT
20959782 GTCTAGGACA
Statistics
Matches: 71, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
36 13 0.18
37 58 0.82
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (37 bp):
CGTGTAAGACCATAGCTGGGCTATGGCATCGTGATAG
Found at i:20959871 original size:42 final size:42
Alignment explanation
Indices: 20959769--20959966 Score: 170
Period size: 42 Copynumber: 4.7 Consensus size: 42
20959759 CATTGTGATA
* * * * *
20959769 CGTGTAAGACCATGTCTAGGACATGGAATCAATATGAGA-TC
1 CGTGTAAGACCATGTCTGGGATATGGCATCGATATGAGATTT
* * * *
20959810 CTGTGTAAGACTATATCTGGGATATGGCTTCGGTATGAGATTT
1 C-GTGTAAGACCATGTCTGGGATATGGCATCGATATGAGATTT
* ***
20959853 CGTGTAAGACCGTGTCTGGGATGCAGCATCGATATGTA-ATTT
1 CGTGTAAGACCATGTCTGGGATATGGCATCGATATG-AGATTT
* * * * *
20959895 CGTATAAGACCATGCCTGGGACATGGCATCGATGTGAGACTT
1 CGTGTAAGACCATGTCTGGGATATGGCATCGATATGAGATTT
20959937 CGTGTAAGACCATAGT-T-GGACTATGGCATC
1 CGTGTAAGACCAT-GTCTGGGA-TATGGCATC
20959967 AAGTAAATGA
Statistics
Matches: 122, Mismatches: 29, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
41 5 0.04
42 113 0.93
43 4 0.03
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGATATGGCATCGATATGAGATTT
Found at i:20964167 original size:120 final size:120
Alignment explanation
Indices: 20964021--20964241 Score: 442
Period size: 120 Copynumber: 1.8 Consensus size: 120
20964011 AAACTTTGGT
20964021 ATTTCTACAACTTAGCCAGGTAAGTTCGTATGTTAATAAGCATTATTATAATTGAGTTTTAATGC
1 ATTTCTACAACTTAGCCAGGTAAGTTCGTATGTTAATAAGCATTATTATAATTGAGTTTTAATGC
20964086 TTTATATTGAATGGTTCATGAGTATAATTGTACGGAAATATTTGAGATAGCTTCG
66 TTTATATTGAATGGTTCATGAGTATAATTGTACGGAAATATTTGAGATAGCTTCG
20964141 ATTTCTACAACTTAGCCAGGTAAGTTCGTATGTTAATAAGCATTATTATAATTGAGTTTTAATGC
1 ATTTCTACAACTTAGCCAGGTAAGTTCGTATGTTAATAAGCATTATTATAATTGAGTTTTAATGC
20964206 TTTATATTGAATGGTTCATGAGTATAATTGTACGGA
66 TTTATATTGAATGGTTCATGAGTATAATTGTACGGA
20964242 CGAGATCGGG
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 101 1.00
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (120 bp):
ATTTCTACAACTTAGCCAGGTAAGTTCGTATGTTAATAAGCATTATTATAATTGAGTTTTAATGC
TTTATATTGAATGGTTCATGAGTATAATTGTACGGAAATATTTGAGATAGCTTCG
Found at i:20964301 original size:42 final size:42
Alignment explanation
Indices: 20964242--20964373 Score: 192
Period size: 42 Copynumber: 3.1 Consensus size: 42
20964232 ATTGTACGGA
*
20964242 CGAGATCGGGATAGCTTCGGCTATGCATTGGCACTTAGTGTG
1 CGAGATCGAGATAGCTTCGGCTATGCATTGGCACTTAGTGTG
*
20964284 CGAGATCAAGATAGCTTCGGCTATGCATTGGCACTTAGTGTG
1 CGAGATCGAGATAGCTTCGGCTATGCATTGGCACTTAGTGTG
* * * * * *
20964326 TGTGATCGAGTTAGCTTCGGCTACGTATTGGTACTTAGTGTG
1 CGAGATCGAGATAGCTTCGGCTATGCATTGGCACTTAGTGTG
20964368 CGAGAT
1 CGAGAT
20964374 TCCCGAGTAA
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 79 1.00
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.31
Consensus pattern (42 bp):
CGAGATCGAGATAGCTTCGGCTATGCATTGGCACTTAGTGTG
Found at i:20964505 original size:32 final size:32
Alignment explanation
Indices: 20964439--20964505 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
20964429 TGAGTATGAG
* * *
20964439 ATTGGTACAATATGGTACAGGTATGTATGAAA
1 ATTGGTACAAGATGGTACAAGTATGTACGAAA
* *
20964471 ATTGGTACGAGATGGTACAAGTATGTACGGAA
1 ATTGGTACAAGATGGTACAAGTATGTACGAAA
20964503 ATT
1 ATT
20964506 CAATTGAGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (32 bp):
ATTGGTACAAGATGGTACAAGTATGTACGAAA
Found at i:20967250 original size:12 final size:12
Alignment explanation
Indices: 20967233--20967257 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20967223 CCATACACGC
20967233 CCGTGTGCTAGG
1 CCGTGTGCTAGG
20967245 CCGTGTGCTAGG
1 CCGTGTGCTAGG
20967257 C
1 C
20967258 TATGTCAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.28, G:0.40, T:0.24
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:20969060 original size:21 final size:20
Alignment explanation
Indices: 20969036--20969076 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
20969026 ACTTGTATAA
20969036 CTATCATCAAA-CATTCAAAAT
1 CTATCAT-AAATCA-TCAAAAT
20969057 CTATCATAAATCATCAAAAT
1 CTATCATAAATCATCAAAAT
20969077 ACATGCTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (20 bp):
CTATCATAAATCATCAAAAT
Found at i:20972027 original size:21 final size:21
Alignment explanation
Indices: 20972001--20972058 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 21
20971991 TTTCCAATAC
20972001 CAAATCATAGTCGAATCATT-T
1 CAAATCAT-GTCGAATCATTGT
*
20972022 CAAATCACTGTCTAATCATTGT
1 CAAATCA-TGTCGAATCATTGT
20972044 -AGAATCATGGTCGAA
1 CA-AATCAT-GTCGAA
20972059 CAAGTTCATA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (21 bp):
CAAATCATGTCGAATCATTGT
Found at i:20972848 original size:17 final size:18
Alignment explanation
Indices: 20972814--20972848 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
20972804 CATAATGCGG
20972814 GCCCATGTGGCTCCACAT
1 GCCCATGTGGCTCCACAT
*
20972832 GCCCGTGTGGC-CCACAT
1 GCCCATGTGGCTCCACAT
20972849 AGCCTAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.14, C:0.40, G:0.26, T:0.20
Consensus pattern (18 bp):
GCCCATGTGGCTCCACAT
Found at i:20978221 original size:40 final size:40
Alignment explanation
Indices: 20978124--20978307 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
20978114 TTGAATGCTG
* * * *
20978124 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
20978163 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * * *
20978204 TTCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
20978244 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
20978284 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
20978308 GTATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:20978264 original size:80 final size:81
Alignment explanation
Indices: 20978124--20978304 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
20978114 TTGAATGCTG
* *
20978124 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
20978188 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
* **
20978204 TTCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
20978265 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
20978284 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
20978305 ATTGTATGAG
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
79 4 0.05
80 75 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:20978328 original size:39 final size:38
Alignment explanation
Indices: 20978125--20978344 Score: 165
Period size: 40 Copynumber: 5.6 Consensus size: 38
20978115 TGAATGCTGT
* * * * *
20978125 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTA-AA
** * *
20978165 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAATT
1 CCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * * *
20978205 TCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAA-A
*
20978245 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACT-AAA
**
20978284 TCCGGGTTAAGTCCCGAAGGCATTGTATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTA-AA
* *
20978324 CCGGGCTATGTCCCGAAGGCA
1 CCGGGTTAAGTCCCGAAGGCA
20978345 CTTGAACGAG
Statistics
Matches: 149, Mismatches: 21, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
39 33 0.22
40 108 0.72
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:20983613 original size:29 final size:27
Alignment explanation
Indices: 20983595--20983664 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
20983585 ATATTAAGTC
20983595 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
20983622 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
20983650 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
20983665 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:20983658 original size:28 final size:28
Alignment explanation
Indices: 20983595--20983689 Score: 129
Period size: 28 Copynumber: 3.4 Consensus size: 28
20983585 ATATTAAGTC
*
20983595 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
20983622 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
20983650 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
20983679 CGCACACTTAG
1 CGCACACTTAG
20983690 CGCCAATCTC
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.36
28 23 0.38
29 16 0.26
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:20986464 original size:9 final size:9
Alignment explanation
Indices: 20986444--20986474 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
20986434 AAAATATCAT
20986444 ATTAATTTTA
1 ATTAA-TTTA
20986454 ATTAATTTA
1 ATTAATTTA
20986463 ATTAATTTA
1 ATTAATTTA
20986472 ATT
1 ATT
20986475 TTACTTGATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.76
10 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTAATTTA
Found at i:20988313 original size:46 final size:46
Alignment explanation
Indices: 20988241--20988359 Score: 157
Period size: 46 Copynumber: 2.6 Consensus size: 46
20988231 TTTGGGCATT
* * * *
20988241 CGAACTCATTAAGTTGAGTTCGAGTTCACTTATGGATGCGAACATC
1 CGAACTCGTTGAGTGGAGTCCGAGTTCACTTATGGATGCGAACATC
* *
20988287 CGAACTCGTTGAGTGGAGTCTGAGTTCACTTATGGATGCGAACGTC
1 CGAACTCGTTGAGTGGAGTCCGAGTTCACTTATGGATGCGAACATC
* * *
20988333 TGAATTCGTTGAGTTGAGTCCGAGTTC
1 CGAACTCGTTGAGTGGAGTCCGAGTTC
20988360 GTGAAATGTA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 63 1.00
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (46 bp):
CGAACTCGTTGAGTGGAGTCCGAGTTCACTTATGGATGCGAACATC
Found at i:20992474 original size:40 final size:40
Alignment explanation
Indices: 20992444--20992627 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 40
20992434 GCTACTCATT
*
20992444 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
* *
20992484 CAAATGCCTTTGGGACTTAACCCGGATT-TAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCACA
* * **
20992524 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCACA
* * * * * *
20992563 CCAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAACTCA-CA
20992604 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
20992628 ACATCATTCG
Statistics
Matches: 120, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 77 0.64
41 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
Found at i:20992588 original size:79 final size:81
Alignment explanation
Indices: 20992421--20992628 Score: 198
Period size: 79 Copynumber: 2.6 Consensus size: 81
20992411 CCTTCAGAAT
* * *
20992421 TTAA-CCGGATATAGCT-ACTCATTCA-AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTAACCCGGATATAG-TAACTCA-GCACAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCA
*
20992482 CACAAATGCCTTTGGGAC
64 CACAAATGCCTTTCGGAC
* **
20992500 TTAACCCGGATTTAGTAACTCA-CACCAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTTGC
1 TTAACCCGGATATAGTAACTCAGCA-CAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCAC
*
20992562 ACCAATGCC-TTCGGATC
65 ACAAATGCCTTTCGGA-C
** * * * *
20992579 TTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 TTAACCCGGATATAGTAACTCAGCACAATGCCTTCGGGACTTAGCCCGGA
20992629 CATCATTCGA
Statistics
Matches: 107, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
78 7 0.07
79 60 0.56
80 40 0.37
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (81 bp):
TTAACCCGGATATAGTAACTCAGCACAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACA
CAAATGCCTTTCGGAC
Found at i:20996846 original size:46 final size:46
Alignment explanation
Indices: 20996642--20996853 Score: 164
Period size: 46 Copynumber: 4.6 Consensus size: 46
20996632 TCCAAACTGA
* * * ** *
20996642 TTGAGTTGTGCCTGAGTT-GACTTATGGATGCGAGCATCCGAACTTG
1 TTGAGTTGAGTCTGAGTTCG-CTTATGGATGCGAACGCCCGAACTCG
* * * * * *
20996688 TTAAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTTG
1 TTGAGTTGAGTCTGAGTTCGCTTATGGATGCGAACGCCCGAACTCG
* * * * *
20996734 TTGAGTTGAGTCTGAGTTCG-TGA--AATG-TAACTAGGCTTACGAACTCA
1 TTGAGTTGAGTCTGAGTTCGCTTATGGATGCGAAC---GC--CCGAACTCG
* *
20996781 TTGAGTTGAGTCTGAGTTCGCTTATGGATGTGAACGCCCGAGCTCG
1 TTGAGTTGAGTCTGAGTTCGCTTATGGATGCGAACGCCCGAACTCG
20996827 TTGAGTTGAGTCTGAGTTCGCTTATGG
1 TTGAGTTGAGTCTGAGTTCGCTTATGG
20996854 GCGGGTTACA
Statistics
Matches: 132, Mismatches: 24, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
42 3 0.02
43 3 0.02
45 3 0.02
46 87 0.66
47 26 0.20
48 4 0.03
50 3 0.02
51 3 0.02
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.33
Consensus pattern (46 bp):
TTGAGTTGAGTCTGAGTTCGCTTATGGATGCGAACGCCCGAACTCG
Found at i:21000070 original size:45 final size:45
Alignment explanation
Indices: 20999996--21000083 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
20999986 AAATATGTGT
* *
20999996 CACATACATCATGAACTCATACCATAACTCAATGAGTTCAGATGC
1 CACATACATCATGAACTCATACCACAACTCAATGAGTTAAGATGC
*
21000041 CACATATATCATGAACTCA-ATCCACAACTCAATGAGTTAAGAT
1 CACATACATCATGAACTCATA-CCACAACTCAATGAGTTAAGAT
21000084 CACATAGTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
44 1 0.03
45 38 0.97
ACGTcount: A:0.40, C:0.25, G:0.10, T:0.25
Consensus pattern (45 bp):
CACATACATCATGAACTCATACCACAACTCAATGAGTTAAGATGC
Found at i:21008746 original size:20 final size:20
Alignment explanation
Indices: 21008703--21008750 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
21008693 GCTATTTTGT
21008703 TATGGGCCAACTGTATTGAA
1 TATGGGCCAACTGTATTGAA
*
21008723 -ATGGGCCCAACTGTGTT-AA
1 TATGGG-CCAACTGTATTGAA
21008742 TAT-GGCCAA
1 TATGGGCCAA
21008751 GGCCCAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 4 0.16
19 9 0.36
20 12 0.48
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (20 bp):
TATGGGCCAACTGTATTGAA
Found at i:21008817 original size:60 final size:59
Alignment explanation
Indices: 21008741--21008877 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 59
21008731 AACTGTGTTA
* * * *
21008741 ATATGGCCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATACTCT-GA-TATGTAAT-GGGCTACGGCACAGATTAATACTG
* *
21008801 ATATGGGCTAGGCCCAATATACTCTGATACTGTAATGGGCTATGGCACAGATTAATATTG
1 ATATGGGCTAGGCCCAATATACTCTGATA-TGTAATGGGCTACGGCACAGATTAATACTG
21008861 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
21008878 GTTAACACTG
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
59 1 0.01
60 50 0.75
61 16 0.24
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGATATGTAATGGGCTACGGCACAGATTAATACTG
Found at i:21008889 original size:27 final size:28
Alignment explanation
Indices: 21008835--21008889 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
21008825 TGATACTGTA
* * *
21008835 ATGGGCTATGGCACAGATTAATATTGAT
1 ATGGGCTAAGGCACAGATTAACACTGAT
*
21008863 ATGGGCTAAGGCCCAG-TTAACACTGAT
1 ATGGGCTAAGGCACAGATTAACACTGAT
21008890 TTCTGAATAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.27
Consensus pattern (28 bp):
ATGGGCTAAGGCACAGATTAACACTGAT
Found at i:21014283 original size:45 final size:45
Alignment explanation
Indices: 21014219--21014341 Score: 183
Period size: 45 Copynumber: 2.7 Consensus size: 45
21014209 CGCATACATC
* *
21014219 ATGAACTTAAACCATAACTCAATGAGTTCAGATGCCATATATATA
1 ATGAACTCAAACCACAACTCAATGAGTTCAGATGCCATATATATA
*
21014264 ATGAACTCAAACCACAACTCAATGAGTTCAGATGCCATATATATC
1 ATGAACTCAAACCACAACTCAATGAGTTCAGATGCCATATATATA
* * **
21014309 TTGAAATCGGACCACAACTCAATGAGTTCAGAT
1 ATGAACTCAAACCACAACTCAATGAGTTCAGAT
21014342 CACATAGTTC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 71 1.00
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (45 bp):
ATGAACTCAAACCACAACTCAATGAGTTCAGATGCCATATATATA
Found at i:21022336 original size:37 final size:37
Alignment explanation
Indices: 21022286--21022360 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
21022276 TTCCAATCGA
21022286 TTTCTTTGCTAAGTATCGAATATTAGCCCACACTCTT
1 TTTCTTTGCTAAGTATCGAATATTAGCCCACACTCTT
* * *
21022323 TTTCTTTTCTAAGTATCGAATATTATCCCTCACTCTT
1 TTTCTTTGCTAAGTATCGAATATTAGCCCACACTCTT
21022360 T
1 T
21022361 CTAATCAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.23, C:0.24, G:0.08, T:0.45
Consensus pattern (37 bp):
TTTCTTTGCTAAGTATCGAATATTAGCCCACACTCTT
Found at i:21030321 original size:31 final size:31
Alignment explanation
Indices: 21030272--21030350 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
21030262 TTTAACAGTT
21030272 ACTGGGCCAAAGCCTTTTCATAAATCATATC
1 ACTGGGCCAAAGCCTTTTCATAAATCATATC
* * * *
21030303 ATTGGGCCAGAGCGTTTTCATAAATCATTTC
1 ACTGGGCCAAAGCCTTTTCATAAATCATATC
**
21030334 ACTGGGCTGAAGCCTTT
1 ACTGGGCCAAAGCCTTT
21030351 ACTGTAAACG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (31 bp):
ACTGGGCCAAAGCCTTTTCATAAATCATATC
Found at i:21030421 original size:42 final size:42
Alignment explanation
Indices: 21030374--21030465 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
21030364 TGGCCTATAG
* ** *
21030374 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
21030416 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
21030458 GCCCATTT
1 GCCCATTT
21030466 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:21031539 original size:27 final size:27
Alignment explanation
Indices: 21031460--21031547 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 27
21031450 TATTCGTCAT
* *
21031460 TTTACCATACAGGGG-TATTACGGTCAC
1 TTTACCTTACAGGGGCT-TTACGGTCTC
*
21031487 TTTACCCTACAGGGGCTTTACGGTCTC
1 TTTACCTTACAGGGGCTTTACGGTCTC
*
21031514 TTTACCTTACAGGGGCTTTACGGTCTT
1 TTTACCTTACAGGGGCTTTACGGTCTC
21031541 TTTACCT
1 TTTACCT
21031548 AATATGGGTA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
27 55 0.98
28 1 0.02
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (27 bp):
TTTACCTTACAGGGGCTTTACGGTCTC
Found at i:21031630 original size:27 final size:27
Alignment explanation
Indices: 21031587--21031815 Score: 190
Period size: 27 Copynumber: 8.4 Consensus size: 27
21031577 CAATGGTGTC
* * *
21031587 TTGGTAAATCTACAAACCAACGGTATT
1 TTGGTAATTTTACAAACCAAGGGTATT
** ** *
21031614 TCAGTAATTTTGTAAACCAATGGTATT
1 TTGGTAATTTTACAAACCAAGGGTATT
*** * *
21031641 TCCATAAGTTTTAGAAAGTCAAGGGTATT
1 TTGGTAA-TTTTACAAA-CCAAGGGTATT
* ** * *
21031670 TCT-GTAACTTTGTAAATCAGGGGTATT
1 T-TGGTAATTTTACAAACCAAGGGTATT
*** *
21031697 TTGGTAATTTTACAAATTGATGGTATT
1 TTGGTAATTTTACAAACCAAGGGTATT
*
21031724 TTGGTAATTTCACAAACCAAGGGTATT
1 TTGGTAATTTTACAAACCAAGGGTATT
* *
21031751 TTGGTAATTTTACAAACTAGGGGTATT
1 TTGGTAATTTTACAAACCAAGGGTATT
21031778 TTGGTAATTTTACAAACCAAGGGTATT
1 TTGGTAATTTTACAAACCAAGGGTATT
*
21031805 TTAGTAATTTT
1 TTGGTAATTTT
21031816 GTAAATTGAG
Statistics
Matches: 161, Mismatches: 37, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
26 1 0.01
27 134 0.83
28 13 0.08
29 13 0.08
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.39
Consensus pattern (27 bp):
TTGGTAATTTTACAAACCAAGGGTATT
Found at i:21031836 original size:27 final size:27
Alignment explanation
Indices: 21031806--21031991 Score: 212
Period size: 27 Copynumber: 6.9 Consensus size: 27
21031796 AAGGGTATTT
* *
21031806 TAGTAATTTTGTAAATTGAGAGTAAAA
1 TAGTAATTTTGTAAATCGAGGGTAAAA
* *
21031833 TAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTTTGTAAATCGAGGGTAAAA
* *
21031860 CAGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTTTGTAAATCGAGGGTAAAA
*
21031887 -CGATAATTTTGTAAATCGAGGGTAAAA
1 TAG-TAATTTTGTAAATCGAGGGTAAAA
** *
21031914 CGGTAATTTTATAAATCGAGGGTAAAA
1 TAGTAATTTTGTAAATCGAGGGTAAAA
* * *
21031941 TGGTAATTATGTAAATCGAAGGTAAAA
1 TAGTAATTTTGTAAATCGAGGGTAAAA
* * *
21031968 TGGTAATTATGTAAATCGGGGGTA
1 TAGTAATTTTGTAAATCGAGGGTA
21031992 CTTTGGTAAT
Statistics
Matches: 141, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 139 0.99
28 1 0.01
ACGTcount: A:0.41, C:0.06, G:0.23, T:0.31
Consensus pattern (27 bp):
TAGTAATTTTGTAAATCGAGGGTAAAA
Found at i:21031839 original size:54 final size:54
Alignment explanation
Indices: 21031727--21031840 Score: 122
Period size: 54 Copynumber: 2.1 Consensus size: 54
21031717 TGGTATTTTG
* * *** *
21031727 GTAATTTCACAAACCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTCACAAACCAAGGGTATTTTAGTAATTTTACAAACTAGGAGTAAAATA
* ** *
21031781 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAA-TTGAGAGTAAAATA
1 GTAATTTCACAAACCAAGGGTATTTTAGTAATTTTACAAACTAG-GAGTAAAATA
21031835 GTAATT
1 GTAATT
21031841 CTGTAAATCA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
53 2 0.04
54 47 0.96
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (54 bp):
GTAATTTCACAAACCAAGGGTATTTTAGTAATTTTACAAACTAGGAGTAAAATA
Found at i:21031999 original size:54 final size:53
Alignment explanation
Indices: 21031808--21032018 Score: 210
Period size: 54 Copynumber: 3.9 Consensus size: 53
21031798 GGGTATTTTA
* * * * *
21031808 GTAATTTTGTAAATTGAGAGTAAAATAGTAATTCTGTAAATC-AAGGGTAAAACA
1 GTAATTATGTAAATCGAGGGTAAAATGGTAATT-TGTAAATCGAA-GGTAAAACG
* * * *
21031862 GTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTATGTAAATCGAGGGTAAAATGGTAA-TTTGTAAATCGAAGGTAAAACG
* * *
21031916 GTAATTTTATAAATCGAGGGTAAAATGGTAATTATGTAAATCGAAGGTAAAATG
1 GTAATTATGTAAATCGAGGGTAAAATGGTAATT-TGTAAATCGAAGGTAAAACG
* ***
21031970 GTAATTATGTAAATCGGGGGTACTTTGGTAATTT-TACAAGTCGAAGGTA
1 GTAATTATGTAAATCGAGGGTAAAATGGTAATTTGTA-AA-TCGAAGGTA
21032019 TTTCAATAAT
Statistics
Matches: 132, Mismatches: 20, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
52 2 0.02
53 5 0.04
54 122 0.92
55 3 0.02
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (53 bp):
GTAATTATGTAAATCGAGGGTAAAATGGTAATTTGTAAATCGAAGGTAAAACG
Found at i:21032018 original size:27 final size:27
Alignment explanation
Indices: 21031997--21032086 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
21031987 GGGTACTTTG
*
21031997 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* *
21032024 ATAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
21032051 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
21032078 GTAATTTTA
1 GTAATTTTA
21032087 GTAAACTAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.04
27 51 0.96
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:21032100 original size:27 final size:27
Alignment explanation
Indices: 21031997--21032101 Score: 81
Period size: 27 Copynumber: 3.9 Consensus size: 27
21031987 GGGTACTTTG
* *
21031997 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* * *
21032024 ATAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
21032051 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
21032078 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
21032102 CTAAACAGGG
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
26 2 0.03
27 53 0.84
28 8 0.13
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:21034361 original size:31 final size:30
Alignment explanation
Indices: 21034285--21034363 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 30
21034275 TTTAAAGGTT
21034285 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGG-CGAAGCCTTTTCATAAATCATATC
* * * *
21034316 ACTAGGCCAGAGCCTTTTCATATATCATTTC
1 ACTGGGCGA-AGCCTTTTCATAAATCATATC
21034347 ACTGGGCTGAAGCCTTT
1 ACTGGGC-GAAGCCTTT
21034364 ACTGTAAACG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
30 2 0.05
31 37 0.93
32 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (30 bp):
ACTGGGCGAAGCCTTTTCATAAATCATATC
Found at i:21034434 original size:42 final size:42
Alignment explanation
Indices: 21034387--21034478 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
21034377 TGGCCTATAG
* * ** *
21034387 GCCCATTTCAATATCCCATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
21034429 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
21034471 GCCCATTT
1 GCCCATTT
21034479 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:21034668 original size:26 final size:26
Alignment explanation
Indices: 21034623--21034719 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
21034613 CCTCTTTAAT
21034623 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
***
21034648 AACTGGGGCATAAGCCCTTTTTAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
21034674 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
21034700 AACT-GGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
21034720 GCACTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
25 26 0.40
26 39 0.60
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:21034708 original size:51 final size:50
Alignment explanation
Indices: 21034617--21034719 Score: 181
Period size: 51 Copynumber: 2.0 Consensus size: 50
21034607 GCCTAGCCTC
21034617 TTTAATAACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTT
1 TTTAATAACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTT
21034667 TTTAATAAACTGGGGCATAAGCCCTTTTCGGTAAACT-GGGCATAAGCCCTT
1 TTTAAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTT
21034718 TT
1 TT
21034720 GCACTTCCTC
Statistics
Matches: 51, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
50 6 0.12
51 26 0.51
52 19 0.37
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.30
Consensus pattern (50 bp):
TTTAATAACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTT
Found at i:21035579 original size:27 final size:27
Alignment explanation
Indices: 21035540--21035609 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
21035530 ATATAGGGTA
* * *
21035540 TTACAGTCACTTTACCCTACAGGGGCT
1 TTACGGTCTCTTTACCCTACAGAGGCT
21035567 TTACGGTCTCTTTACCCTACAGAGGCT
1 TTACGGTCTCTTTACCCTACAGAGGCT
*
21035594 TTACGGTCTTTTTACC
1 TTACGGTCTCTTTACC
21035610 TAATAGGGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.36
Consensus pattern (27 bp):
TTACGGTCTCTTTACCCTACAGAGGCT
Found at i:21035693 original size:27 final size:27
Alignment explanation
Indices: 21035663--21035945 Score: 138
Period size: 27 Copynumber: 10.4 Consensus size: 27
21035653 GTAAATCTAC
*
21035663 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
21035690 AAACCAATGGTATTTCCA-TAATTTTTAG
1 AAACCAAGGGTATTT-CAGTAA-TTTTAT
* * * *
21035718 AAAGTCAAGGGTATTTCTGTAACTTTGT
1 AAA-CCAAGGGTATTTCAGTAATTTTAT
* * ** *
21035746 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
*** * * *
21035773 AAATTGAGGGTATTTCGGTAATTTCAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * ** *
21035800 AAACCAATGATATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * ** *
21035827 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
21035854 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * *** *
21035881 AAATCGAGGGTAAAACAGTAATTCT-T
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *** *
21035907 AAATCAAGGGTAAAACAGTAATTCTAT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
21035934 AAATCGAGGGTA
1 AAACCAAGGGTA
21035946 AAACGGTAAT
Statistics
Matches: 206, Mismatches: 45, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
26 25 0.12
27 152 0.74
28 16 0.08
29 13 0.06
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.36
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:21035814 original size:54 final size:54
Alignment explanation
Indices: 21035756--21035892 Score: 177
Period size: 54 Copynumber: 2.5 Consensus size: 54
21035746 AAATCAGGGG
*
21035756 TATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAATGA
1 TATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGA
* * * *
21035810 TATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACCAAGGG
1 TATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTCACAAACCAAGGA
* ** *
21035864 TATTTTAGTAATTTTGTAAATCGAGGGTA
1 TATTTTGGTAATTTTACAAATTGAGGGTA
21035893 AAACAGTAAT
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
53 1 0.01
54 69 0.97
55 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (54 bp):
TATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGA
Found at i:21035987 original size:54 final size:54
Alignment explanation
Indices: 21035880--21036072 Score: 273
Period size: 54 Copynumber: 3.6 Consensus size: 54
21035870 AGTAATTTTG
* * *
21035880 TAAATCGAGGGTAAAACAGTAATTCT-TAAATCAAGGGTAAAAC-AGTAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTAAAACGA-TAATTCTA
*
21035933 TAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTAAAACGATAATTCTA
* * * *
21035987 TAAATCGAGGGTAAAATGGTAATTATGTAAATCGGGGGTAAAACGATAATTATG
1 TAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTAAAACGATAATTCTA
* *
21036041 TAAATCGGGGGTAAAACGATAATTATGTAAAT
1 TAAATCGAGGGTAAAACGGTAATTATGTAAAT
21036073 TGGGGGTACT
Statistics
Matches: 128, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
53 25 0.20
54 102 0.80
55 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.22, T:0.27
Consensus pattern (54 bp):
TAAATCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTAAAACGATAATTCTA
Found at i:21036026 original size:81 final size:80
Alignment explanation
Indices: 21035871--21036064 Score: 273
Period size: 81 Copynumber: 2.4 Consensus size: 80
21035861 GGGTATTTTA
* *
21035871 GTAATTTTGTAAATCGAGGGTAAAAC-AGTAATTCTTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTATGTAAATCGAGGGTAAAACGA-TAATTCTTAAATCAAGGGTAAAACAGTAATTATATA
21035935 AATCGAGGGTAAAACG
65 AATCGAGGGTAAAACG
* * ** *
21035951 GTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATGGTAATTATGTA
1 GTAATTATGTAAATCGAGGGTAAAACGATAATTCT-TAAATCAAGGGTAAAACAGTAATTATATA
*
21036016 AATCGGGGGTAAAACG
65 AATCGAGGGTAAAACG
* *
21036032 ATAATTATGTAAATCGGGGGTAAAACGATAATT
1 GTAATTATGTAAATCGAGGGTAAAACGATAATT
21036065 ATGTAAATTG
Statistics
Matches: 102, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
80 32 0.31
81 70 0.69
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (80 bp):
GTAATTATGTAAATCGAGGGTAAAACGATAATTCTTAAATCAAGGGTAAAACAGTAATTATATAA
ATCGAGGGTAAAACG
Found at i:21036080 original size:27 final size:27
Alignment explanation
Indices: 21035872--21036072 Score: 246
Period size: 27 Copynumber: 7.5 Consensus size: 27
21035862 GGTATTTTAG
*
21035872 TAATTTTGTAAATCGAGGGTAAAAC-A
1 TAATTATGTAAATCGAGGGTAAAACGA
* *
21035898 GTAATTCT-TAAATCAAGGGTAAAAC-A
1 -TAATTATGTAAATCGAGGGTAAAACGA
* * *
21035924 GTAATTCTATAAATCGAGGGTAAAACGG
1 -TAATTATGTAAATCGAGGGTAAAACGA
*
21035952 TAATTCTGTAAATCGAGGGTAAAACGA
1 TAATTATGTAAATCGAGGGTAAAACGA
* * * *
21035979 TAATTCTATAAATCGAGGGTAAAATGG
1 TAATTATGTAAATCGAGGGTAAAACGA
*
21036006 TAATTATGTAAATCGGGGGTAAAACGA
1 TAATTATGTAAATCGAGGGTAAAACGA
*
21036033 TAATTATGTAAATCGGGGGTAAAACGA
1 TAATTATGTAAATCGAGGGTAAAACGA
21036060 TAATTATGTAAAT
1 TAATTATGTAAAT
21036073 TGGGGGTACT
Statistics
Matches: 158, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
26 25 0.16
27 133 0.84
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.28
Consensus pattern (27 bp):
TAATTATGTAAATCGAGGGTAAAACGA
Found at i:21036107 original size:27 final size:27
Alignment explanation
Indices: 21036086--21036175 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
21036076 GGGTACTTTG
*
21036086 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
21036113 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
21036140 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
21036167 GTAATTTTA
1 GTAATTTTA
21036176 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:21036189 original size:27 final size:27
Alignment explanation
Indices: 21036086--21036191 Score: 92
Period size: 27 Copynumber: 3.9 Consensus size: 27
21036076 GGGTACTTTG
* *
21036086 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
21036113 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
21036140 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
21036167 GTAATTTTAGTAAACTAA-AGTATTT
1 GTAATTTTA-CAAACTAAGAGTATTT
21036192 TAAACAGGGA
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 56 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:21042382 original size:13 final size:14
Alignment explanation
Indices: 21042348--21042384 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
21042338 CAATGAATAT
21042348 ACCATTATAATTAA
1 ACCATTATAATTAA
*
21042362 ACCATTATGATTAA
1 ACCATTATAATTAA
21042376 A-CATTATAA
1 ACCATTATAA
21042385 ATATTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.35
Consensus pattern (14 bp):
ACCATTATAATTAA
Found at i:21043476 original size:12 final size:12
Alignment explanation
Indices: 21043459--21043484 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21043449 AAAATAGGGC
21043459 TTTAGCGGCGTT
1 TTTAGCGGCGTT
21043471 TTTAGCGGCGTT
1 TTTAGCGGCGTT
21043483 TT
1 TT
21043485 ATGAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:21043517 original size:40 final size:40
Alignment explanation
Indices: 21043473--21043826 Score: 239
Period size: 40 Copynumber: 8.8 Consensus size: 40
21043463 GCGGCGTTTT
* *
21043473 TAGCGGCGTTTTATGAAAAAATGCCAC-AAAAATTATA-CAA
1 TAGCGGCGTTTT-TGAAAAAACGCCACTAAAAA-TAGAGCAA
** *
21043513 TAGCGGCGTTTTTGGCAAAGCGCCACTAAAAATAGAGCAA
1 TAGCGGCGTTTTTGAAAAAACGCCACTAAAAATAGAGCAA
** * * * *
21043553 TAGCGGCGTTTTTGGCAAAGCACCGCTATAAATAGAGCAA
1 TAGCGGCGTTTTTGAAAAAACGCCACTAAAAATAGAGCAA
** *
21043593 TAGCGGCGTTTTTGGCAAAACGCCGCTAAAAATAGAGCAA
1 TAGCGGCGTTTTTGAAAAAACGCCACTAAAAATAGAGCAA
** * *
21043633 TAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAAATAGAGCAA
1 TAGCGGCGTTTTTGAAAAAACGCCACT-AAAAATAGAGCAA
** * ** * *
21043674 TAGCGATGTTTGTGTCAAAACGCCGCTAAGAAACAGAGCAA
1 TAGCGGCGTTTTTGAAAAAACGCCACTAA-AAATAGAGCAA
** ** *
21043715 TAGCGGCGTTTTTGTCAAAGTGCCGCTAAAAA-ACTGAGCAA
1 TAGCGGCGTTTTTGAAAAAACGCCACTAAAAATA--GAGCAA
* * ** ** * * *
21043756 TAACAGCGTTTTTGGCAAAGTGCCGCTAAAAACAGAGAAA
1 TAGCGGCGTTTTTGAAAAAACGCCACTAAAAATAGAGCAA
* * *
21043796 TAGTGGCGTTTTTTG-TAAAACGCCTCTAAAA
1 TAGCGGCG-TTTTTGAAAAAACGCCACTAAAA
21043827 GTCATATAAC
Statistics
Matches: 272, Mismatches: 34, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
39 14 0.05
40 147 0.54
41 110 0.40
42 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.23
Consensus pattern (40 bp):
TAGCGGCGTTTTTGAAAAAACGCCACTAAAAATAGAGCAA
Found at i:21043677 original size:41 final size:40
Alignment explanation
Indices: 21043510--21043826 Score: 393
Period size: 40 Copynumber: 7.8 Consensus size: 40
21043500 AAAAATTATA
*
21043510 CAATAGCGGCGTTTTTGGCAAAGCGCCACTAAAAATAGAG
1 CAATAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAATAGAG
* *
21043550 CAATAGCGGCGTTTTTGGCAAAGCACCGCTATAAATAGAG
1 CAATAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAATAGAG
*
21043590 CAATAGCGGCGTTTTTGGCAAAACGCCGCTAAAAATAGAG
1 CAATAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAATAGAG
21043630 CAATAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAAATAGAG
1 CAATAGCGGCGTTTTTGGCAAAGCGCCGCT-AAAAATAGAG
** * * * *
21043671 CAATAGCGATGTTTGTGTCAAAACGCCGCTAAGAAACAGAG
1 CAATAGCGGCGTTTTTGGCAAAGCGCCGCTAA-AAATAGAG
* *
21043712 CAATAGCGGCGTTTTTGTCAAAGTGCCGCTAAAAA-ACTGAG
1 CAATAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAATA--GAG
* * * *
21043753 CAATAACAGCGTTTTTGGCAAAGTGCCGCTAAAAACAGAG
1 CAATAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAATAGAG
* * * * * *
21043793 AAATAGTGGCGTTTTTTGTAAAACGCCTCTAAAA
1 CAATAGCGGCGTTTTTGGCAAAGCGCCGCTAAAA
21043827 GTCATATAAC
Statistics
Matches: 242, Mismatches: 30, Indels: 10
0.86 0.11 0.04
Matches are distributed among these distances:
39 1 0.00
40 136 0.56
41 104 0.43
42 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (40 bp):
CAATAGCGGCGTTTTTGGCAAAGCGCCGCTAAAAATAGAG
Found at i:21043825 original size:81 final size:80
Alignment explanation
Indices: 21043510--21043826 Score: 386
Period size: 81 Copynumber: 3.9 Consensus size: 80
21043500 AAAAATTATA
* * * *
21043510 CAATAGCGGCGTTTTTGGCAAAGCGCCACTAAAAATAGAGCAATAGCGGCGTTTTTGGCAAAGCA
1 CAATAGC-GCGTTTTTGGCAAAACGCCGCTAAAAACAGAGCAATAGCGGCGTTTTTGGCAAAGCG
*
21043575 CCGCT-ATAAATAGAG
65 CCGCTAAAAAATAGAG
*
21043590 CAATAGCGGCGTTTTTGGCAAAACGCCGCTAAAAATAGAGCAATAGCGGCGTTTTTGGCAAAGCG
1 CAATAGC-GCGTTTTTGGCAAAACGCCGCTAAAAACAGAGCAATAGCGGCGTTTTTGGCAAAGCG
21043655 CCGCTAAAAAATAGAG
65 CCGCTAAAAAATAGAG
* * * * *
21043671 CAATAGCGATGTTTGTGTCAAAACGCCGCTAAGAAACAGAGCAATAGCGGCGTTTTTGTCAAAGT
1 CAATAGCG-CGTTTTTGGCAAAACGCCGCTAA-AAACAGAGCAATAGCGGCGTTTTTGGCAAAGC
21043736 GCCGCTAAAAAACT-GAG
64 GCCGCTAAAAAA-TAGAG
* ** * * * * *
21043753 CAATAACAGCGTTTTTGGCAAAGTGCCGCTAAAAACAGAGAAATAGTGGCGTTTTTTGTAAAACG
1 CAATAGC-GCGTTTTTGGCAAAACGCCGCTAAAAACAGAGCAATAGCGGCGTTTTTGGCAAAGCG
*
21043818 CCTCTAAAA
65 CCGCTAAAA
21043827 GTCATATAAC
Statistics
Matches: 208, Mismatches: 24, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
80 68 0.33
81 70 0.34
82 68 0.33
83 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (80 bp):
CAATAGCGCGTTTTTGGCAAAACGCCGCTAAAAACAGAGCAATAGCGGCGTTTTTGGCAAAGCGC
CGCTAAAAAATAGAG
Found at i:21043901 original size:48 final size:47
Alignment explanation
Indices: 21043826--21043956 Score: 183
Period size: 48 Copynumber: 2.8 Consensus size: 47
21043816 CGCCTCTAAA
* *
21043826 AGTCATATAACCCCTAAAACCTTAAACCCCAAAAAATCATAGACACT
1 AGTCATATAACCCCTAAAACCTTAAACCCCAAAAAACCATAAACACT
* * *
21043873 AGTCTATATAACCCCTAAAACCCTAAACCCAAAAAAACCCTAAACACT
1 AGTC-ATATAACCCCTAAAACCTTAAACCCCAAAAAACCATAAACACT
* *
21043921 AATC-TATAACCCCCAAAACCTTAAACCCCAAAAAAC
1 AGTCATATAACCCCTAAAACCTTAAACCCCAAAAAAC
21043957 ATCATATGGA
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
46 29 0.39
47 4 0.05
48 41 0.55
ACGTcount: A:0.48, C:0.33, G:0.02, T:0.17
Consensus pattern (47 bp):
AGTCATATAACCCCTAAAACCTTAAACCCCAAAAAACCATAAACACT
Found at i:21044557 original size:19 final size:20
Alignment explanation
Indices: 21044528--21044565 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
21044518 TAAAAAATAT
21044528 ATTGATAAATAAATAAAAAC
1 ATTGATAAATAAATAAAAAC
21044548 ATTGAT-AATAAATAAAAA
1 ATTGATAAATAAATAAAAA
21044566 TGAAATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (20 bp):
ATTGATAAATAAATAAAAAC
Found at i:21045509 original size:7 final size:7
Alignment explanation
Indices: 21045500--21045562 Score: 72
Period size: 8 Copynumber: 8.4 Consensus size: 7
21045490 AAAAATTTTG
*
21045500 AAAATTG
1 AAAATTA
*
21045507 AAAATTG
1 AAAATTA
21045514 AAAATTAA
1 AAAATT-A
21045522 AAAATTAA
1 AAAATT-A
21045530 AAAATTA
1 AAAATTA
21045537 AAAATTA
1 AAAATTA
21045544 AAAACTTA
1 AAAA-TTA
21045552 AAAACTTA
1 AAAA-TTA
21045560 AAA
1 AAA
21045563 TTTTAATATT
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
7 25 0.47
8 28 0.53
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.25
Consensus pattern (7 bp):
AAAATTA
Found at i:21045527 original size:8 final size:8
Alignment explanation
Indices: 21045514--21045562 Score: 73
Period size: 8 Copynumber: 6.2 Consensus size: 8
21045504 TTGAAAATTG
21045514 AAAATTAA
1 AAAATTAA
21045522 AAAATTAA
1 AAAATTAA
21045530 AAAATT-A
1 AAAATTAA
21045537 AAAATTAA
1 AAAATTAA
*
21045545 AAACTTAA
1 AAAATTAA
*
21045553 AAACTTAA
1 AAAATTAA
21045561 AA
1 AA
21045563 TTTTAATATT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
7 7 0.18
8 32 0.82
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (8 bp):
AAAATTAA
Found at i:21045533 original size:23 final size:22
Alignment explanation
Indices: 21045507--21045564 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 22
21045497 TTGAAAATTG
21045507 AAAATTGAAAATTAAAAAATTAA
1 AAAATT-AAAATTAAAAAATTAA
*
21045530 AAAATTAAAAATTAAAAACTTAA
1 AAAATT-AAAATTAAAAAATTAA
*
21045553 AAACTTAAAATT
1 AAAATTAAAATT
21045565 TTAATATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 6 0.19
23 26 0.81
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (22 bp):
AAAATTAAAATTAAAAAATTAA
Found at i:21045736 original size:41 final size:40
Alignment explanation
Indices: 21045689--21045829 Score: 115
Period size: 41 Copynumber: 3.5 Consensus size: 40
21045679 AAAAATATGT
*
21045689 TAAAAATGACAAAAAAAATTGAGCAATAGTGACGTTTTTAG
1 TAAAAATG-CACAAAAAATTGAGCAATAGTGACGTTTTTAG
* * * * * *
21045730 TGAAAATGCTGCAAAAAGTTAAGCTATAGTGGCGTTTTTAG
1 TAAAAATGC-ACAAAAAATTGAGCAATAGTGACGTTTTTAG
* * * *
21045771 TAAAAACGCCACAAAAAATTGAG-ATACAATGGCGTTTTT-G
1 TAAAAATG-CACAAAAAATTGAGCA-ATAGTGACGTTTTTAG
*
21045811 TAAAAATGCTGCAAAAAAT
1 TAAAAATGC-ACAAAAAAT
21045830 CCCCAATTTT
Statistics
Matches: 79, Mismatches: 17, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
39 1 0.01
40 17 0.22
41 60 0.76
42 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.18, T:0.27
Consensus pattern (40 bp):
TAAAAATGCACAAAAAATTGAGCAATAGTGACGTTTTTAG
Found at i:21045826 original size:40 final size:41
Alignment explanation
Indices: 21045721--21045829 Score: 130
Period size: 41 Copynumber: 2.7 Consensus size: 41
21045711 GCAATAGTGA
* * * * *
21045721 CGTTTTTAGTGAAAATGCTGCAAAAAGTTAAGCTATAGTGG
1 CGTTTTTAGTAAAAATGCTGCAAAAAATTAAGATACAATGG
* ** *
21045762 CGTTTTTAGTAAAAACGCCACAAAAAATTGAGATACAATGG
1 CGTTTTTAGTAAAAATGCTGCAAAAAATTAAGATACAATGG
21045803 CGTTTTT-GTAAAAATGCTGCAAAAAAT
1 CGTTTTTAGTAAAAATGCTGCAAAAAAT
21045830 CCCCAATTTT
Statistics
Matches: 56, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
40 17 0.30
41 39 0.70
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.29
Consensus pattern (41 bp):
CGTTTTTAGTAAAAATGCTGCAAAAAATTAAGATACAATGG
Found at i:21050844 original size:66 final size:67
Alignment explanation
Indices: 21050745--21050871 Score: 238
Period size: 68 Copynumber: 1.9 Consensus size: 67
21050735 CAATTCCGAC
21050745 AAATGCAAATATAGCAACCTGTAAAC-AAAAAAAAAGCTTGGTTAATTTTGAAATAACACAATCC
1 AAATGCAAATATAGCAACCTGTAAACAAAAAAAAAAGCTTGGTTAATTTTGAAATAACACAATCC
21050809 TT
66 TT
21050811 AAATGCAAATATAGCAACCTGTAAACAAAAAAAAAAAGCTTGGTTAATTTTGAAATAACAC
1 AAATGCAAATATAGCAACCTGTAAAC-AAAAAAAAAAGCTTGGTTAATTTTGAAATAACAC
21050872 GATCTTTCTA
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
66 26 0.44
68 33 0.56
ACGTcount: A:0.50, C:0.14, G:0.11, T:0.24
Consensus pattern (67 bp):
AAATGCAAATATAGCAACCTGTAAACAAAAAAAAAAGCTTGGTTAATTTTGAAATAACACAATCC
TT
Found at i:21055785 original size:39 final size:39
Alignment explanation
Indices: 21055729--21055984 Score: 379
Period size: 39 Copynumber: 6.6 Consensus size: 39
21055719 TTCGTGATCT
** * *
21055729 GAAGCCCGAAGTTTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTGACTGAAGCACAGAAGTGCTAAACG
* * *
21055768 GAAGCCTGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTGACTGAAGCACAGAAGTGCTAAACG
* * *
21055807 GAAGCCCAAAGGTTGACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTGACTGAAGCACAGAAGTGCTAAACG
*
21055846 GAAGCCCGAAGGTTGACTGAAGCACAGAAGTGC-AAACG
1 GAAGCCCGAAGGCTGACTGAAGCACAGAAGTGCTAAACG
*
21055884 GAAGCCCGAAGGCTGATTGAAGCACAGAAGTGCTAAACG
1 GAAGCCCGAAGGCTGACTGAAGCACAGAAGTGCTAAACG
*
21055923 GAAGCCTGAAGGCTGACTGAAGCACAGAAGTGCTAAACG
1 GAAGCCCGAAGGCTGACTGAAGCACAGAAGTGCTAAACG
*
21055962 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTGACTGAAGC
21055985 TCACCAGAGC
Statistics
Matches: 200, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
38 36 0.18
39 164 0.82
ACGTcount: A:0.37, C:0.22, G:0.28, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTGACTGAAGCACAGAAGTGCTAAACG
Found at i:21055940 original size:116 final size:117
Alignment explanation
Indices: 21055729--21055984 Score: 397
Period size: 116 Copynumber: 2.2 Consensus size: 117
21055719 TTCGTGATCT
* * *
21055729 GAAGCCCGAAGTTTAACTGAAGCACATAAGTGCTAAACGGAAGCCTGAAGGCTAACTGAAGCACA
1 GAAGCCCGAAGGTTAACTGAAGCACAGAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAGCACA
*
21055794 CAAGTGCTAAACGGAAGCCCAAAGGTTGACTGAAGCACACAAGTGCTAAACG
66 CAAGTGCTAAACGGAAGCCCAAAGGCTGACTGAAGCACACAAGTGCTAAACG
* * *
21055846 GAAGCCCGAAGGTTGACTGAAGCACAGAAGTGC-AAACGGAAGCCCGAAGGCTGATTGAAGCACA
1 GAAGCCCGAAGGTTAACTGAAGCACAGAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAGCACA
* ** *
21055910 GAAGTGCTAAACGGAAGCCTGAAGGCTGACTGAAGCACAGAAGTGCTAAACG
66 CAAGTGCTAAACGGAAGCCCAAAGGCTGACTGAAGCACACAAGTGCTAAACG
*
21055962 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGTTAACTGAAGC
21055985 TCACCAGAGC
Statistics
Matches: 126, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
116 96 0.76
117 30 0.24
ACGTcount: A:0.37, C:0.22, G:0.28, T:0.13
Consensus pattern (117 bp):
GAAGCCCGAAGGTTAACTGAAGCACAGAAGTGCTAAACGGAAGCCCGAAGGCTAACTGAAGCACA
CAAGTGCTAAACGGAAGCCCAAAGGCTGACTGAAGCACACAAGTGCTAAACG
Found at i:21058158 original size:21 final size:20
Alignment explanation
Indices: 21058134--21058182 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
21058124 ATATATACAT
21058134 ATATATATTAAAGACATATAC
1 ATATATATTAAA-ACATATAC
**
21058155 ATATATAACAAAACATATAC
1 ATATATATTAAAACATATAC
21058175 -TA-ATATTA
1 ATATATATTA
21058183 GTAACAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 4 0.17
19 2 0.08
20 8 0.33
21 10 0.42
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (20 bp):
ATATATATTAAAACATATAC
Found at i:21058245 original size:22 final size:22
Alignment explanation
Indices: 21058220--21058264 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
21058210 GATATAATGA
*
21058220 TAATAGGTATATAACATGGTAT
1 TAATAGGTATATAACATAGTAT
* * *
21058242 TAATATGTGTATAATATAGTAT
1 TAATAGGTATATAACATAGTAT
21058264 T
1 T
21058265 TAAATGTGTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.42
Consensus pattern (22 bp):
TAATAGGTATATAACATAGTAT
Found at i:21058378 original size:21 final size:20
Alignment explanation
Indices: 21058352--21058391 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
21058342 TAATTAAAAC
*
21058352 TAAAAAAATTCTAAATAATAG
1 TAAAAAAATGCT-AATAATAG
*
21058373 TAAAAATATGCTAATAATA
1 TAAAAAAATGCTAATAATA
21058392 ATAATAACGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (20 bp):
TAAAAAAATGCTAATAATAG
Found at i:21060087 original size:20 final size:20
Alignment explanation
Indices: 21060053--21060102 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
21060043 TTTTATTTTT
21060053 TATATTTTA-ATATTTAAAA
1 TATATTTTATATATTTAAAA
* *
21060072 TATATTTTATATATTTGAAT
1 TATATTTTATATATTTAAAA
*
21060092 TAAATTTTATA
1 TATATTTTATA
21060103 AATAATTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TATATTTTATATATTTAAAA
Found at i:21061017 original size:30 final size:30
Alignment explanation
Indices: 21060981--21061044 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
21060971 TCATCCCCGA
* *
21060981 AATTC-AATCATTTT-ATTGTAATAATATTTT
1 AATTCAAATAATTTTCATT-TAATAA-ATTAT
21061011 AATTCAAATAATTTTCATTTAATAAATTAT
1 AATTCAAATAATTTTCATTTAATAAATTAT
21061041 AATT
1 AATT
21061045 AATAGGTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 13 0.43
31 14 0.47
32 3 0.10
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (30 bp):
AATTCAAATAATTTTCATTTAATAAATTAT
Found at i:21068984 original size:25 final size:24
Alignment explanation
Indices: 21068952--21069025 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 24
21068942 ATTTCAATAT
21068952 TTGTTGTAGGCTTCGTGTTTATTGA
1 TTGTTGTAGGCTTC-TGTTTATTGA
* * *
21068977 TTGTTGTA-GATTCTTTTTCAATTTA
1 TTGTTGTAGGCTTCTGTTT--ATTGA
21069002 -TGTTGTAGGCTTCATGTTTATTGA
1 TTGTTGTAGGCTTC-TGTTTATTGA
21069026 GTTCTTATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
23 4 0.10
24 15 0.38
25 16 0.41
26 4 0.10
ACGTcount: A:0.16, C:0.08, G:0.22, T:0.54
Consensus pattern (24 bp):
TTGTTGTAGGCTTCTGTTTATTGA
Found at i:21069298 original size:160 final size:160
Alignment explanation
Indices: 21069033--21069359 Score: 546
Period size: 160 Copynumber: 2.0 Consensus size: 160
21069023 TGAGTTCTTA
*
21069033 TATTGTTGATTATTGTAGATTCTCTTGTTTGTTTTTTTAGAAAGGTTATCTCGATTGTTATGAAT
1 TATTGTTGATTATTGTAGATTCTCTAGTTTGTTTTTTTAGAAAGGTTATCTCGATTGTTATGAAT
* * * *
21069098 CATTGTTTAATTAATTAATGAAAGTATATAAAGAGATAGGTAGAAAAAGAAGACCTTGTACAATG
66 CATTGTTTAATTAATAAATAAAAATATATAAAGAGATAGGTAGAAAAAAAAGACCTTGTACAATG
* *
21069163 GCCACCATCGCCCTCTCTTCATCTGTGTTG
131 ACCACCATCGCCCTCTCTTCATCTGAGTTG
*
21069193 TATTGTTGATTATTGTAGATTCTCTAGTTTGTTTTTTTAGAAAGGTTATCTTGATTGTTATGAAT
1 TATTGTTGATTATTGTAGATTCTCTAGTTTGTTTTTTTAGAAAGGTTATCTCGATTGTTATGAAT
*
21069258 CATTGTTTAATTAATAAATAAAAATATATAAAGGGATAGGTAGAAAAAAAAGACCTTGTACAATG
66 CATTGTTTAATTAATAAATAAAAATATATAAAGAGATAGGTAGAAAAAAAAGACCTTGTACAATG
* * *
21069323 ACCATCATCGCCCTCTTTTCTTCTGAGTTG
131 ACCACCATCGCCCTCTCTTCATCTGAGTTG
21069353 TATTGTT
1 TATTGTT
21069360 TGTAAGTTTC
Statistics
Matches: 155, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
160 155 1.00
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (160 bp):
TATTGTTGATTATTGTAGATTCTCTAGTTTGTTTTTTTAGAAAGGTTATCTCGATTGTTATGAAT
CATTGTTTAATTAATAAATAAAAATATATAAAGAGATAGGTAGAAAAAAAAGACCTTGTACAATG
ACCACCATCGCCCTCTCTTCATCTGAGTTG
Found at i:21083580 original size:87 final size:86
Alignment explanation
Indices: 21083458--21083888 Score: 429
Period size: 87 Copynumber: 4.9 Consensus size: 86
21083448 TTATTTTTGC
* * *
21083458 TTTCGAAAATCAACTCATATTGCGAGAGGTAAGTTGAACCTTGGCTCGCATGCCGAGGTATTTTC
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTGG---GCACGCCGAGGTATTTTC
* *
21083523 AAATTCTGTTTCTCAATTT-TA-T
63 AAATTCTATTTTTCAATTTATATT
* * * * *
21083545 TTTCAAAAATCAACTCATATTGCTAGAAGTGAGTTGAACCTCAGGGCACGCTGAGGTATCTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCT-TGGGCACGCCGAGGTATTTTCAA
* * *
21083610 ATTTTGTTTTTTAATTTATATTTT
65 ATTCTATTTTTCAATTTATA--TT
* * *
21083634 TTTAAAAAGATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTT
1 TTTCAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAACCTTGGG-CAC--GCCGAGGTATTTT
*
21083699 CAAATTCTATTTTT-AATTCT-TACT
62 CAAATTCTATTTTTCAATT-TATATT
* * * *
21083723 TTTCTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGGCACGCTGAGGTAATTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTT-GGGCACGCCGAGGTATTTTCAA
* * *
21083788 TTTCTATTTTTCAATTTCTACT
65 ATTCTATTTTTCAATTTATATT
* * * * * *
21083810 TTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCT-TGGGCACGCCGAGGTATTTTCAA
* *
21083875 TTTCTATGTTTCAA
65 ATTCTATTTTTCAA
21083889 AAATCAACTC
Statistics
Matches: 298, Mismatches: 32, Indels: 28
0.83 0.09 0.08
Matches are distributed among these distances:
85 31 0.10
86 27 0.09
87 118 0.40
88 38 0.13
89 21 0.07
90 33 0.11
91 6 0.02
92 24 0.08
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (86 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTGGGCACGCCGAGGTATTTTCAAA
TTCTATTTTTCAATTTATATT
Done.