Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 123 of 213
Found at i:35476672 original size:50 final size:50
Alignment explanation
Indices: 35476531--35476724 Score: 149
Period size: 50 Copynumber: 3.9 Consensus size: 50
35476521 ATAGTACCAT
* * * ** * * *
35476531 GCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATGTTTCCTGT-G-C
1 GCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGAC
* * **
35476579 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTCATATCGAC
1 -GCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGAC
* ** * * **
35476630 GCCCATGCCATGTCCCAGATATGGTCTTACGGGGGACCTCTCATCTTGGT
1 GCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGAC
* * * * *
35476680 GCCAACGCCATGTCCCAAACATGGTCTTACCTGGGATCTCTCATA
1 GCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATA
35476725 ACCTTAATAA
Statistics
Matches: 116, Mismatches: 27, Indels: 3
0.79 0.18 0.02
Matches are distributed among these distances:
49 38 0.33
50 77 0.66
51 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (50 bp):
GCCAATGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGAC
Found at i:35478890 original size:13 final size:13
Alignment explanation
Indices: 35478872--35478896 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35478862 TTACTAAAAT
35478872 ATAATATCCTATA
1 ATAATATCCTATA
35478885 ATAATATCCTAT
1 ATAATATCCTAT
35478897 TAGGAATCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAATATCCTATA
Found at i:35478904 original size:46 final size:45
Alignment explanation
Indices: 35478851--35478981 Score: 160
Period size: 46 Copynumber: 2.9 Consensus size: 45
35478841 AGTAGTTACA
*
35478851 TAGGAATCAAATTACTAAAATATAATATCCTATAATAATATCCTAT
1 TAGGAATCAAATTACTAAAA-ATAATATCCTATAATAATATCCCAT
*
35478897 TAGGAATCAAATTGCTAAGAAATAATAT-CT-T-ATAATATCCCAT
1 TAGGAATCAAATTACTAA-AAATAATATCCTATAATAATATCCCAT
** * *
35478940 TAAAAATTAAATTATTAAAAAATAATATCCTATAATAATATC
1 TAGGAATCAAATTACT-AAAAATAATATCCTATAATAATATC
35478982 TTAACACATG
Statistics
Matches: 73, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
43 31 0.42
44 5 0.07
45 3 0.04
46 32 0.44
47 2 0.03
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (45 bp):
TAGGAATCAAATTACTAAAAATAATATCCTATAATAATATCCCAT
Found at i:35483369 original size:116 final size:116
Alignment explanation
Indices: 35483235--35483469 Score: 461
Period size: 116 Copynumber: 2.0 Consensus size: 116
35483225 TGTCCATTAA
*
35483235 AAGTAAAATTTTATATCATTTATGTGTATGTTTATAAATATATTTTTTAGAAAAATATTGTAAAT
1 AAGTAAAATTTTATATCATTTATGTGTATGTTTATAAATATATATTTTAGAAAAATATTGTAAAT
35483300 ATACATCTTTCTCTATTCTTCTATATCTTGTTGTTTTTAAAATTGCTAAGT
66 ATACATCTTTCTCTATTCTTCTATATCTTGTTGTTTTTAAAATTGCTAAGT
35483351 AAGTAAAATTTTATATCATTTATGTGTATGTTTATAAATATATATTTTAGAAAAATATTGTAAAT
1 AAGTAAAATTTTATATCATTTATGTGTATGTTTATAAATATATATTTTAGAAAAATATTGTAAAT
35483416 ATACATCTTTCTCTATTCTTCTATATCTTGTTGTTTTTAAAATTGCTAAGT
66 ATACATCTTTCTCTATTCTTCTATATCTTGTTGTTTTTAAAATTGCTAAGT
35483467 AAG
1 AAG
35483470 ATGGCAATAA
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 118 1.00
ACGTcount: A:0.34, C:0.08, G:0.09, T:0.49
Consensus pattern (116 bp):
AAGTAAAATTTTATATCATTTATGTGTATGTTTATAAATATATATTTTAGAAAAATATTGTAAAT
ATACATCTTTCTCTATTCTTCTATATCTTGTTGTTTTTAAAATTGCTAAGT
Found at i:35484341 original size:9 final size:9
Alignment explanation
Indices: 35484327--35484354 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
35484317 GATTTTGGAT
35484327 TAAATTAAG
1 TAAATTAAG
35484336 TAAATTAAG
1 TAAATTAAG
35484345 TAAATTAAG
1 TAAATTAAG
35484354 T
1 T
35484355 TTAATTAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.36
Consensus pattern (9 bp):
TAAATTAAG
Found at i:35489171 original size:38 final size:38
Alignment explanation
Indices: 35489120--35489209 Score: 155
Period size: 38 Copynumber: 2.4 Consensus size: 38
35489110 TAATTGTTGT
*
35489120 ACATTTATGGTATGCTCATACACTTCGCTAAAATTTGC
1 ACATTTATGGTATGCTCATACACTTCGCTAAAATTTAC
*
35489158 ACATTTATGGTATGCTCATACACTTTGCTAAAATTTAC
1 ACATTTATGGTATGCTCATACACTTCGCTAAAATTTAC
35489196 ACATTTAT-GTATGC
1 ACATTTATGGTATGC
35489210 AAATAAAATA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
37 6 0.12
38 44 0.88
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (38 bp):
ACATTTATGGTATGCTCATACACTTCGCTAAAATTTAC
Found at i:35492470 original size:42 final size:42
Alignment explanation
Indices: 35492411--35492637 Score: 176
Period size: 42 Copynumber: 5.4 Consensus size: 42
35492401 TTCCCCGAGG
* * *
35492411 GGTTACTAAGTGCTGATTCCCCGAATTATTGACTCTAAAGGT
1 GGTTACTAAGTGCTGATTCCCCGTATTATTGAATATAAAGGT
* *
35492453 GGTTACTAAGTGCTGATTCCACCGTATCT-TTGATTGTGAAAGG-
1 GGTTACTAAGTGCTGATTCC-CCGTAT-TATTGAATAT-AAAGGT
* * * *
35492496 GGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGT
1 GGTTACTAAGTGCTGATTCCCCGTATTATTGAATATAAAGGT
* * * *
35492538 GGTTGCTAAGTGCTGATTCTACCGTATCT-TTGATTGTGAAAGG-
1 GGTTACTAAGTGCTGATTC-CCCGTAT-TATTGAATAT-AAAGGT
* * * * * * *
35492581 GGTTGCTATGTGTTGATTCCCCGTATCACTAAAT-TTAAGGT
1 GGTTACTAAGTGCTGATTCCCCGTATTATTGAATATAAAGGT
*
35492622 GGTTGCTAAGTGCTGA
1 GGTTACTAAGTGCTGA
35492638 ATCCACCGAG
Statistics
Matches: 150, Mismatches: 25, Indels: 21
0.77 0.13 0.11
Matches are distributed among these distances:
40 4 0.03
41 20 0.13
42 58 0.39
43 57 0.38
44 11 0.07
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (42 bp):
GGTTACTAAGTGCTGATTCCCCGTATTATTGAATATAAAGGT
Found at i:35492514 original size:43 final size:41
Alignment explanation
Indices: 35492408--35492637 Score: 214
Period size: 43 Copynumber: 5.5 Consensus size: 41
35492398 AAATTCCCCG
* * * *
35492408 AGGGGTTACTAAGTGCTGATTCCCCGAAT-TATTGACTCTAA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCT-TTGATTGTAA
*
35492449 AGGTGGTTACTAAGTGCTGATTCCACCGTATCTTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGTATCTTTGATTGT-AA
* ** * *
35492493 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCTTTGATTGTAA
*
35492534 AGGTGGTTGCTAAGTGCTGATTCTACCGTATCTTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTC-CCCGTATCTTTGATTGT-AA
* * * **
35492578 AGGGGTTGCTATGTGTTGATTCCCCGTATCACTAAATT-T-A
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATC-TTTGATTGTAA
35492618 AGGTGGTTGCTAAGTGCTGA
1 AGG-GGTTGCTAAGTGCTGA
35492638 ATCCACCGAG
Statistics
Matches: 157, Mismatches: 23, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
40 4 0.03
41 22 0.14
42 58 0.37
43 62 0.39
44 11 0.07
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.35
Consensus pattern (41 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGTATCTTTGATTGTAA
Found at i:35492551 original size:85 final size:84
Alignment explanation
Indices: 35492408--35492645 Score: 350
Period size: 85 Copynumber: 2.8 Consensus size: 84
35492398 AAATTCCCCG
* * * * * * *
35492408 AGGGGTTACTAAGTGCTGATTCCCCGAATTATTGACTCTAAAGGTGGTTACTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAAT-TAAAGGTGGTTGCTAAGTGCTGATTCC
35492473 ACCGTATCTTTGATTGTGAA
65 ACCGTATCTTTGATTGTGAA
*
35492493 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCT
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAAT-TAAAGGTGGTTGCTAAGTGCTGATTCC
35492558 ACCGTATCTTTGATTGTGAA
65 ACCGTATCTTTGATTGTGAA
* * * *
35492578 AGGGGTTGCTATGTGTTGATTCCCCGTATCACTAAATTTAAGGTGGTTGCTAAGTGCTGAATCCA
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATTAAAGGTGGTTGCTAAGTGCTGATTCCA
35492643 CCG
66 CCG
35492646 AGTAACGGAT
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
84 28 0.20
85 111 0.80
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (84 bp):
AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATTAAAGGTGGTTGCTAAGTGCTGATTCCA
CCGTATCTTTGATTGTGAA
Found at i:35507052 original size:49 final size:49
Alignment explanation
Indices: 35506998--35507092 Score: 172
Period size: 49 Copynumber: 1.9 Consensus size: 49
35506988 ATATGACTAC
35506998 TGGTAAGTTAAATTCTATGTTATATGAACTTACTAAGTTTAAATGCCAA
1 TGGTAAGTTAAATTCTATGTTATATGAACTTACTAAGTTTAAATGCCAA
* *
35507047 TGGTAAGTTAAATTCTATTTTATATGAACTTCCTAAGTTTAAATGC
1 TGGTAAGTTAAATTCTATGTTATATGAACTTACTAAGTTTAAATGC
35507093 TTACTCTGTG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.41
Consensus pattern (49 bp):
TGGTAAGTTAAATTCTATGTTATATGAACTTACTAAGTTTAAATGCCAA
Found at i:35510078 original size:40 final size:40
Alignment explanation
Indices: 35510030--35510214 Score: 189
Period size: 40 Copynumber: 4.7 Consensus size: 40
35510020 GCTACTCGTT
*
35510030 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAGTCGCA
1 CAAATGCCTTCGGGACATAGCCCGGATT-TAGTAACTCGCA
* *
35510070 CAATTGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCGCA
* * * *
35510110 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCGCA
* * * * * *
35510149 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAGCCCGGATTTAGTAAC-TCGCA
*
35510190 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAGCCCGGA
35510215 CATCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 76 0.62
41 13 0.11
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCGCA
Found at i:35510174 original size:79 final size:81
Alignment explanation
Indices: 35510030--35510212 Score: 196
Period size: 79 Copynumber: 2.3 Consensus size: 81
35510020 GCTACTCGTT
* ** * *
35510030 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAGTCGCACAATTGCCTTCGGGACATAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACATAACCCGG
* *
35510095 ATTTAGTAAC-TCGCA
66 ATATAGTAACTTAGCA
* * **
35510110 CAAATGCCTTCGGG-CTTAGCCCAGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCC-GAATATAGTAACTCGCACAAATGCCTTCGGGA-CATAACCC
* *
35510172 GGATATGGTCACTTAGCA
64 GGATATAGTAACTTAGCA
35510190 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
35510213 GACATCATTC
Statistics
Matches: 86, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
78 3 0.03
79 51 0.59
80 32 0.37
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACATAACCCGG
ATATAGTAACTTAGCA
Found at i:35518059 original size:79 final size:81
Alignment explanation
Indices: 35517942--35518124 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
35517932 GCTACTCGTT
* ** *
35517942 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
35518006 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
35518022 CAAATGCCTTCGGG-CTTAGCCCGAA-ATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGAATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
35518085 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
35518102 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
35518125 GACATCATTC
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 4 0.05
79 53 0.60
80 31 0.35
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:35518126 original size:40 final size:40
Alignment explanation
Indices: 35517923--35518126 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
35517913 CAGAATTTAA
** *
35517923 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
35517963 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
35518003 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
35518042 CC-GAAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
35518082 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
35518122 CCGGA
1 CCGGA
35518127 CATCATTCAA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 4 0.03
39 30 0.22
40 89 0.65
41 14 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:35525965 original size:79 final size:81
Alignment explanation
Indices: 35525848--35526030 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
35525838 GCTACTCGTT
* ** *
35525848 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
35525912 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
35525928 CAAATGCCTTCGGG-CTTAGCCCGAA-ATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGAATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
35525991 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
35526008 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
35526031 GACATCATTC
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 4 0.05
79 53 0.60
80 31 0.35
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:35526032 original size:40 final size:40
Alignment explanation
Indices: 35525829--35526032 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
35525819 CAGAATTTAA
** *
35525829 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
35525869 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
35525909 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
35525948 CC-GAAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
35525988 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
35526028 CCGGA
1 CCGGA
35526033 CATCATTCAA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 4 0.03
39 30 0.22
40 89 0.65
41 14 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:35536551 original size:22 final size:22
Alignment explanation
Indices: 35536526--35536568 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
35536516 TTATGATGAT
35536526 TGATATGT-TGAGATTGATATTC
1 TGATATGTATGAGATT-ATATTC
*
35536548 TGATATGTATGCGATTATATT
1 TGATATGTATGAGATTATATT
35536569 TGTGATGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.28, C:0.05, G:0.21, T:0.47
Consensus pattern (22 bp):
TGATATGTATGAGATTATATTC
Found at i:35537620 original size:18 final size:16
Alignment explanation
Indices: 35537597--35537630 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
35537587 ATCGCTGCCT
35537597 TTTCTTTGATTCTTATTC
1 TTTCTTT-ATT-TTATTC
35537615 TTTCTTTATTTTATTC
1 TTTCTTTATTTTATTC
35537631 AGGAGATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 3 0.19
18 7 0.44
ACGTcount: A:0.12, C:0.15, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTCTTTATTTTATTC
Found at i:35545213 original size:79 final size:81
Alignment explanation
Indices: 35545077--35545261 Score: 245
Period size: 79 Copynumber: 2.3 Consensus size: 81
35545067 TTGAATGATG
*
35545077 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
35545141 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * **
35545156 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
35545218 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
35545236 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35545262 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.63
80 33 0.35
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:35545275 original size:40 final size:40
Alignment explanation
Indices: 35545078--35545261 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
35545068 TGAATGATGT
* * * *
35545078 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
35545118 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
35545158 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35545196 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35545237 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
35545262 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:35545283 original size:79 final size:79
Alignment explanation
Indices: 35545078--35545294 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 79
35545068 TGAATGATGT
** * * * **
35545078 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-AAGTTACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
35545141 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** *
35545158 CCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACAAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
*
35545223 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * * *
35545237 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACAAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
35545295 TACGTGATTT
Statistics
Matches: 117, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 73 0.62
80 41 0.35
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACAAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:35553128 original size:39 final size:40
Alignment explanation
Indices: 35553026--35553210 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
35553016 TTGAATGATG
* * *
35553026 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
35553065 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
35553106 TCCGGGCTAAG-CTCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
35553145 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
35553184 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
35553211 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:35553162 original size:79 final size:81
Alignment explanation
Indices: 35553026--35553210 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
35553016 TTGAATGATG
*
35553026 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
35553090 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
35553105 TTCCGGGCTAAG-CTCGAAGGCATTTGTGC-AAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
35553167 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
35553185 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35553211 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.64
80 32 0.35
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:35553232 original size:79 final size:79
Alignment explanation
Indices: 35553027--35553243 Score: 192
Period size: 79 Copynumber: 2.7 Consensus size: 79
35553017 TGAATGATGT
** * * * **
35553027 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-AAGTTACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
35553090 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
* ** *
35553107 CCGGGCTAAGCTCGAAGGCATTTGTGCAAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACAAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
*
35553172 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * * *
35553186 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACAAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
35553244 TACGTGATTT
Statistics
Matches: 115, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
78 3 0.03
79 72 0.63
80 40 0.35
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACAAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:35575652 original size:62 final size:63
Alignment explanation
Indices: 35575546--35575670 Score: 189
Period size: 62 Copynumber: 2.0 Consensus size: 63
35575536 ATATCTCTGC
* *
35575546 TGAGCATATATGAGACACATGTGGAGATTCAAAATCATTGATTACCGAGC-TGCCTAAGACGT
1 TGAGCATATATGAGACACATGTGGAGATTCAAAATAATTAATTACCGAGCTTGCCTAAGACGT
* ** *
35575608 TGAGTATATATGAGATGCATGTGGAGATTCAAAATAATTAATTACCGAGCTTTCCTAAGACGT
1 TGAGCATATATGAGACACATGTGGAGATTCAAAATAATTAATTACCGAGCTTGCCTAAGACGT
35575671 CAAATCCTAG
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
62 45 0.80
63 11 0.20
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (63 bp):
TGAGCATATATGAGACACATGTGGAGATTCAAAATAATTAATTACCGAGCTTGCCTAAGACGT
Found at i:35584666 original size:25 final size:25
Alignment explanation
Indices: 35584638--35584785 Score: 135
Period size: 25 Copynumber: 5.9 Consensus size: 25
35584628 ATAAGCCATG
* *
35584638 AATCAGTATGTTCTCACGAGCTGCA
1 AATCAGTAAGCTCTCACGAGCTGCA
*
35584663 AATCGGTAAGCTCAT-ACGAGCTG-A
1 AATCAGTAAGCTC-TCACGAGCTGCA
* *
35584687 GAATCAGTAAGCTCTCATGAGCTACA
1 -AATCAGTAAGCTCTCACGAGCTGCA
* *
35584713 AATCGGTAAGCTCAT-ACGAGTTG-A
1 AATCAGTAAGCTC-TCACGAGCTGCA
* *
35584737 GAATCGGTAAGCTCTCACAAGCTGCA
1 -AATCAGTAAGCTCTCACGAGCTGCA
35584763 AATCAGTAAGCTCAT-ACGAGCTG
1 AATCAGTAAGCTC-TCACGAGCTG
35584786 TGGTGTGTTA
Statistics
Matches: 100, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
24 4 0.04
25 91 0.91
26 5 0.05
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.23
Consensus pattern (25 bp):
AATCAGTAAGCTCTCACGAGCTGCA
Found at i:35584703 original size:50 final size:50
Alignment explanation
Indices: 35584637--35584785 Score: 226
Period size: 50 Copynumber: 3.0 Consensus size: 50
35584627 TATAAGCCAT
* *
35584637 GAATCAGTATGTTCTCACGAGCTGCAAATCGGTAAGCTCATACGAGCTGA
1 GAATCAGTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCATACGAGCTGA
* * *
35584687 GAATCAGTAAGCTCTCATGAGCTACAAATCGGTAAGCTCATACGAGTTGA
1 GAATCAGTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCATACGAGCTGA
* * *
35584737 GAATCGGTAAGCTCTCACAAGCTGCAAATCAGTAAGCTCATACGAGCTG
1 GAATCAGTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCATACGAGCTG
35584786 TGGTGTGTTA
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 88 1.00
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (50 bp):
GAATCAGTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCATACGAGCTGA
Found at i:35590329 original size:43 final size:43
Alignment explanation
Indices: 35590197--35590334 Score: 140
Period size: 43 Copynumber: 3.3 Consensus size: 43
35590187 TATCTTAGAT
* * * * *
35590197 ATGGTCTTACATGTTATCACATATCGATGCCCCTGTCCCAGAT
1 ATGGTCTTACACGTAATCTCATATCGATGCCACTGTCCCAGAC
* * * * *
35590240 AGGGTCTTACACG-AA--TCATATACGGTGCGACTATCGCAGAC
1 ATGGTCTTACACGTAATCTCATAT-CGATGCCACTGTCCCAGAC
35590281 ATGGTCTTACACGTAATCTCATATCGATGCCAAC-GTCCCAGAC
1 ATGGTCTTACACGTAATCTCATATCGATGCC-ACTGTCCCAGAC
35590324 ATGGTCTTACA
1 ATGGTCTTACA
35590335 TGAAATCACA
Statistics
Matches: 75, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
40 5 0.07
41 25 0.33
42 3 0.04
43 34 0.45
44 8 0.11
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCTCATATCGATGCCACTGTCCCAGAC
Found at i:35593827 original size:20 final size:20
Alignment explanation
Indices: 35593802--35593947 Score: 73
Period size: 20 Copynumber: 7.3 Consensus size: 20
35593792 TAAATACTTT
35593802 CAGGGGTATCGAAGTACAAA
1 CAGGGGTATCGAAGTACAAA
* * *
35593822 CAGGGGCA-C-ATACGTGCAAT
1 CAGGGGTATCGA-A-GTACAAA
* * *
35593842 CAGGGGTATTGAAATACTAA
1 CAGGGGTATCGAAGTACAAA
** * * *
35593862 CAGGGGTATATATGTGCAAT
1 CAGGGGTATCGAAGTACAAA
* *
35593882 CAGGGGTACCAAAGTACAAA
1 CAGGGGTATCGAAGTACAAA
* * * *
35593902 CAGGGGCA-CGTATGTTCAAT
1 CAGGGGTATCG-AAGTACAAA
* *
35593922 TAGGGGTACCGAAGTACAAA
1 CAGGGGTATCGAAGTACAAA
35593942 CAGGGG
1 CAGGGG
35593948 CGCGTATGTG
Statistics
Matches: 87, Mismatches: 33, Indels: 12
0.66 0.25 0.09
Matches are distributed among these distances:
18 1 0.01
19 3 0.03
20 79 0.91
21 3 0.03
22 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.30, T:0.18
Consensus pattern (20 bp):
CAGGGGTATCGAAGTACAAA
Found at i:35593845 original size:40 final size:40
Alignment explanation
Indices: 35593801--35593961 Score: 196
Period size: 40 Copynumber: 4.0 Consensus size: 40
35593791 CTAAATACTT
* *
35593801 TCAGGGGTATCGAAGTACAAACAGGGGCACATACGTGCAA
1 TCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAA
** * * * *
35593841 TCAGGGGTATTGAAATACTAACAGGGGTATATATGTGCAA
1 TCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAA
* * *
35593881 TCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTTCAA
1 TCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAA
* * *
35593921 TTAGGGGTACCGAAGTACAAACAGGGGCGCGTATGTGCAA
1 TCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAA
35593961 T
1 T
35593962 AATTCAACTA
Statistics
Matches: 102, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 102 1.00
ACGTcount: A:0.34, C:0.17, G:0.30, T:0.20
Consensus pattern (40 bp):
TCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAA
Found at i:35594822 original size:45 final size:45
Alignment explanation
Indices: 35594758--35594945 Score: 313
Period size: 45 Copynumber: 4.2 Consensus size: 45
35594748 CATGAAATTA
*
35594758 AGGAAGCATTTGACCAACATCATGCATAATTCATGGGAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
*
35594803 AGGAAGCATTTGACCAACATCATGCATAATTCATGGGAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
*
35594848 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTA
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
* * * *
35594893 AGGAAGCATTTGGCCAACATCATGCATAATTTATGGAACAAATTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
35594938 AGGAAGCA
1 AGGAAGCA
35594946 CCATGGCCGA
Statistics
Matches: 136, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 136 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (45 bp):
AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
Found at i:35595750 original size:17 final size:16
Alignment explanation
Indices: 35595728--35595770 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
35595718 ATTCAGTATT
35595728 AAAAAAAAGAGAAATTA
1 AAAAAAAAGAG-AATTA
**
35595745 AAAAAAATTCAGAATTA
1 AAAAAAA-AGAGAATTA
35595762 AAAAAAAAG
1 AAAAAAAAG
35595771 TGATTGAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
17 19 0.90
18 2 0.10
ACGTcount: A:0.74, C:0.02, G:0.09, T:0.14
Consensus pattern (16 bp):
AAAAAAAAGAGAATTA
Found at i:35601187 original size:45 final size:45
Alignment explanation
Indices: 35601123--35601354 Score: 385
Period size: 45 Copynumber: 5.2 Consensus size: 45
35601113 CATGAAATTA
*
35601123 AGGAAGCATTTGACCAACATCATGCATAATTCATGGGAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
35601168 AGGAAGCATTTGACCAACATCAT-CATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
*
35601212 AGGAAGCATTTGGCCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
* *
35601257 AGGAAGCATTTGACCAACATCATACATAATTCATGGAAGAATTTA
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
* * * *
35601302 AGGAAGCATTTGGCCAACATCATGCATAATTTATGGAACAAATTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
35601347 AGGAAGCA
1 AGGAAGCA
35601355 CCATGGCCGA
Statistics
Matches: 175, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
44 42 0.24
45 133 0.76
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (45 bp):
AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
Found at i:35616249 original size:13 final size:13
Alignment explanation
Indices: 35616231--35616255 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35616221 TAATGGTATA
35616231 TTGAATCCATGAC
1 TTGAATCCATGAC
35616244 TTGAATCCATGA
1 TTGAATCCATGA
35616256 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:35617740 original size:47 final size:47
Alignment explanation
Indices: 35617687--35618028 Score: 495
Period size: 47 Copynumber: 7.2 Consensus size: 47
35617677 AATTCTAAAT
35617687 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
35617734 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
35617783 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
35617830 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* * *
35617879 TGTGATAAGGCTTAATGGCCAATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
35617926 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * *
35617973 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
35618020 TGTGATAAG
1 TGTGATAAG
35618029 TCCCGAAGGG
Statistics
Matches: 265, Mismatches: 26, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
47 177 0.67
49 88 0.33
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:35617851 original size:96 final size:96
Alignment explanation
Indices: 35617687--35618028 Score: 517
Period size: 96 Copynumber: 3.6 Consensus size: 96
35617677 AATTCTAAAT
* *
35617687 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGG
35617752 CCGATGTGATGAATGTGAAAGTGTATATATA
66 CCGATGTGATGAATGTGAAAGTGTATATATA
* * * *
35617783 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGCGATAAGGCCTAATAG
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGG
35617848 CCGATGTGATGAATGTGAAAGTGTATATATA
66 CCGATGTGATGAATGTGAAAGTGTATATATA
* * *
35617879 TGTGATAAGGCTTAATGGCCAATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGG
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGG
35617944 CCGATGTGATGAATGTGAAAGTG--TATATA
66 CCGATGTGATGAATGTGAAAGTGTATATATA
* * * * * * **
35617973 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATGTGTGATAAG
35618029 TCCCGAAGGG
Statistics
Matches: 227, Mismatches: 19, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
94 52 0.23
96 175 0.77
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATATATA
Found at i:35617931 original size:143 final size:143
Alignment explanation
Indices: 35617690--35618028 Score: 506
Period size: 143 Copynumber: 2.4 Consensus size: 143
35617680 TCTAAATTGT
35617690 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCC
* *
35617754 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGA
66 AATGTGATGAATGTGAAAGTG-ATATATACGTGATAAGGCTTAATGGCCGATGTGATGAATGTGA
*
35617819 AAGTGTATATGTGC
130 AAGTGTATATATGC
* *
35617833 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGC
*
35617898 CAATGTGATGAATGTGAAAGTG-TATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGA
65 CAATGTGATGAATGTGAAAGTGATATATACGTGATAAGGCTTAATGGCCGATGTGATGAATGTGA
*
35617962 AAGTGTATATATGT
130 AAGTGTATATATGC
* * * * * *
35617976 GACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATA-A-ATGTGATAAG
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAG
35618029 TCCCGAAGGG
Statistics
Matches: 179, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
141 10 0.06
142 1 0.01
143 123 0.69
145 45 0.25
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (143 bp):
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCC
AATGTGATGAATGTGAAAGTGATATATACGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATGC
Found at i:35618202 original size:37 final size:37
Alignment explanation
Indices: 35618146--35618224 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
35618136 TCGAGCTCTA
* * * *
35618146 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
*
35618183 AAGACCCAATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
35618220 AAGAC
1 AAGAC
35618225 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:35620156 original size:43 final size:43
Alignment explanation
Indices: 35620089--35620262 Score: 303
Period size: 43 Copynumber: 4.0 Consensus size: 43
35620079 TTGGTTTTCA
35620089 GCAATAAGTGTTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
1 GCAATAAGTGTTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
* *
35620132 GTAATCAGTGTTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
1 GCAATAAGTGTTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
35620175 GCAATAAGTGTTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
1 GCAATAAGTGTTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
* * *
35620218 GCAATAAGTATTCACGGTTGTGAGATTGGCACGAAGTGTGCGG
1 GCAATAAGTGTTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
35620261 GC
1 GC
35620263 TTGAAATGCA
Statistics
Matches: 124, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 124 1.00
ACGTcount: A:0.23, C:0.16, G:0.35, T:0.26
Consensus pattern (43 bp):
GCAATAAGTGTTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
Found at i:35620277 original size:29 final size:29
Alignment explanation
Indices: 35620244--35620317 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
35620234 GTTGTGAGAT
* * *
35620244 TGGCACGAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
35620273 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
35620302 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
35620318 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.16, G:0.34, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:35620401 original size:40 final size:40
Alignment explanation
Indices: 35620340--35620749 Score: 732
Period size: 40 Copynumber: 10.3 Consensus size: 40
35620330 AAGCACTATG
35620340 TGTGCGAATTG-TATATCCGGGTTAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATT
35620379 TGTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATT
35620419 TGTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATT
*
35620459 TGTGCGAATTGATATATCCGGGTTAAGACCCGAAGACATT
1 TGTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATT
35620499 TGTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATT
* *
35620539 TGTGCGAATTGATATATCCGGGCTAAGACCTGAAGGCATT
1 TGTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATT
*
35620579 TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATT
* *
35620619 TGTGCGAATTGATATATCCGGGCTAAGACCTGAAGGCATT
1 TGTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATT
* *
35620659 TGTGCGAATTGATATATCCGGGATAAGACCCGAAGTCATT
1 TGTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATT
*
35620699 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATT
35620739 TGTGCGAATTG
1 TGTGCGAATTG
35620750 CATTTGTACG
Statistics
Matches: 357, Mismatches: 13, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
39 11 0.03
40 346 0.97
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (40 bp):
TGTGCGAATTGATATATCCGGGTTAAGACCCGAAGGCATT
Found at i:35620754 original size:15 final size:15
Alignment explanation
Indices: 35620734--35620764 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
35620724 AGACCCGAAG
*
35620734 GCATTTGTGCGAATT
1 GCATTTGTACGAATT
35620749 GCATTTGTACGAATT
1 GCATTTGTACGAATT
35620764 G
1 G
35620765 ATATATCCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.39
Consensus pattern (15 bp):
GCATTTGTACGAATT
Found at i:35620779 original size:55 final size:55
Alignment explanation
Indices: 35620695--35620798 Score: 190
Period size: 55 Copynumber: 1.9 Consensus size: 55
35620685 GACCCGAAGT
* *
35620695 CATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTG
1 CATTTGTACGAATTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAATTG
35620750 CATTTGTACGAATTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGC
1 CATTTGTACGAATTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGC
35620799 AAGTTGATAC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (55 bp):
CATTTGTACGAATTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAATTG
Found at i:35620817 original size:40 final size:40
Alignment explanation
Indices: 35620762--35620898 Score: 161
Period size: 40 Copynumber: 3.5 Consensus size: 40
35620752 TTTGTACGAA
35620762 TTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAG
* *
35620802 TTGATACATCCGGGCTAAGACCCG-AGGC-ATTCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG
* * * * **
35620841 TTGCTATACCCGGGTTAAGACCCGAAGGCAATTGAGCTTG
1 TTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAG
* *
35620881 TGGTTATATCCGGGCTAA
1 TTGATATATCCGGGCTAA
35620899 ATTCCGAAGA
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
38 3 0.04
39 30 0.37
40 45 0.56
41 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAG
Found at i:35620817 original size:95 final size:94
Alignment explanation
Indices: 35620654--35620844 Score: 294
Period size: 95 Copynumber: 2.0 Consensus size: 94
35620644 AGACCTGAAG
* * * *
35620654 GCATTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGTCATTTGTGCGAATTGATATATCCG
1 GCATTTGTACGAATTGATATATCCGGGATAAGACCCGAAGGCAATTGTGCGAATTGATACATCCG
*
35620719 GGCTAAGACCCGAAGGCATTTGTGCGAATT
66 GGCTAAGACCCG-AGGCATTCGTGCGAATT
*
35620749 GCATTTGTACGAATTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGATACATCC
1 GCATTTGTACGAATTGATATATCCGGGATAAGACCCGAAGGCAATTGTGCGAA-TTGATACATCC
*
35620813 GGGCTAAGACCCGAGGCATTCGTGCGAGTT
65 GGGCTAAGACCCGAGGCATTCGTGCGAATT
35620843 GC
1 GC
35620845 TATACCCGGG
Statistics
Matches: 88, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
94 19 0.22
95 69 0.78
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (94 bp):
GCATTTGTACGAATTGATATATCCGGGATAAGACCCGAAGGCAATTGTGCGAATTGATACATCCG
GGCTAAGACCCGAGGCATTCGTGCGAATT
Found at i:35620986 original size:40 final size:40
Alignment explanation
Indices: 35620883--35621003 Score: 143
Period size: 40 Copynumber: 3.0 Consensus size: 40
35620873 TGAGCTTGTG
* *
35620883 GTTATATCCGGGCTAAATTCCGAAGAGCATTCGTGCTAGT
1 GTTATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGT
*** * *
35620923 GAGGTATCTGGACTAAGTTCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGT
* * * *
35620963 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GTTATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGT
35621003 G
1 G
35621004 ACATGTATTC
Statistics
Matches: 65, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (40 bp):
GTTATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGT
Found at i:35623462 original size:13 final size:13
Alignment explanation
Indices: 35623444--35623468 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35623434 TAATGGTATA
35623444 TTGAATCCATGAC
1 TTGAATCCATGAC
35623457 TTGAATCCATGA
1 TTGAATCCATGA
35623469 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:35624953 original size:47 final size:47
Alignment explanation
Indices: 35624900--35625241 Score: 495
Period size: 47 Copynumber: 7.2 Consensus size: 47
35624890 AATTCTAAAT
35624900 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
35624947 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
35624996 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
35625043 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* * *
35625092 TGTGATAAGGCTTAATGGCCAATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
35625139 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * *
35625186 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
35625233 TGTGATAAG
1 TGTGATAAG
35625242 TCCCGAAGGG
Statistics
Matches: 265, Mismatches: 26, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
47 177 0.67
49 88 0.33
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:35625064 original size:96 final size:96
Alignment explanation
Indices: 35624900--35625241 Score: 517
Period size: 96 Copynumber: 3.6 Consensus size: 96
35624890 AATTCTAAAT
* *
35624900 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGG
35624965 CCGATGTGATGAATGTGAAAGTGTATATATA
66 CCGATGTGATGAATGTGAAAGTGTATATATA
* * * *
35624996 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGCGATAAGGCCTAATAG
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGG
35625061 CCGATGTGATGAATGTGAAAGTGTATATATA
66 CCGATGTGATGAATGTGAAAGTGTATATATA
* * *
35625092 TGTGATAAGGCTTAATGGCCAATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGG
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGG
35625157 CCGATGTGATGAATGTGAAAGTG--TATATA
66 CCGATGTGATGAATGTGAAAGTGTATATATA
* * * * * * **
35625186 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATGTGTGATAAG
35625242 TCCCGAAGGG
Statistics
Matches: 227, Mismatches: 19, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
94 52 0.23
96 175 0.77
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATATATA
Found at i:35625144 original size:143 final size:143
Alignment explanation
Indices: 35624903--35625241 Score: 506
Period size: 143 Copynumber: 2.4 Consensus size: 143
35624893 TCTAAATTGT
35624903 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCC
* *
35624967 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGA
66 AATGTGATGAATGTGAAAGTG-ATATATACGTGATAAGGCTTAATGGCCGATGTGATGAATGTGA
*
35625032 AAGTGTATATGTGC
130 AAGTGTATATATGC
* *
35625046 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGC
*
35625111 CAATGTGATGAATGTGAAAGTG-TATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGA
65 CAATGTGATGAATGTGAAAGTGATATATACGTGATAAGGCTTAATGGCCGATGTGATGAATGTGA
*
35625175 AAGTGTATATATGT
130 AAGTGTATATATGC
* * * * * *
35625189 GACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATA-A-ATGTGATAAG
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAG
35625242 TCCCGAAGGG
Statistics
Matches: 179, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
141 10 0.06
142 1 0.01
143 123 0.69
145 45 0.25
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (143 bp):
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCC
AATGTGATGAATGTGAAAGTGATATATACGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAA
AGTGTATATATGC
Found at i:35625415 original size:37 final size:37
Alignment explanation
Indices: 35625359--35625437 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
35625349 TCGAGCTCTA
* * *
35625359 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
35625396 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
35625433 AAGAC
1 AAGAC
35625438 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:35630797 original size:24 final size:25
Alignment explanation
Indices: 35630731--35630816 Score: 95
Period size: 25 Copynumber: 3.5 Consensus size: 25
35630721 ATGCTCTTAT
* * * *
35630731 GAGCTATGAATCAGTAAGCTTATAT
1 GAGCTAAGAATCGGTAAGCTCATAC
*
35630756 GAGCTGAGAATCGGTAAGCTC-TCAC
1 GAGCTAAGAATCGGTAAGCTCAT-AC
*
35630781 GAGCTAA-AATCGTTAAGCTCATAC
1 GAGCTAAGAATCGGTAAGCTCATAC
35630805 GAGCTAAGAATC
1 GAGCTAAGAATC
35630817 AATAATCCCT
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
24 22 0.43
25 29 0.57
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (25 bp):
GAGCTAAGAATCGGTAAGCTCATAC
Found at i:35636997 original size:28 final size:28
Alignment explanation
Indices: 35636966--35637023 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
35636956 CAGTATTAGT
* * *
35636966 ATAGTGTGGGCCTTAGCCCATTACAGTA
1 ATAGTGTGGGCCCTAGCCCAATAAAGTA
35636994 ATAGTGTGGGCCCTAGCCCAATAAAGTA
1 ATAGTGTGGGCCCTAGCCCAATAAAGTA
35637022 AT
1 AT
35637024 CAGTACAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (28 bp):
ATAGTGTGGGCCCTAGCCCAATAAAGTA
Found at i:35637188 original size:26 final size:26
Alignment explanation
Indices: 35637138--35637208 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
35637128 ATATCGCAAT
* * *
35637138 AAAGCTGCCAGCAATAATAACGCAGC
1 AAAGCTGCCAGTAACAGTAACGCAGC
*
35637164 AAAGCTGCCAGTAACAGTAATGCAGC
1 AAAGCTGCCAGTAACAGTAACGCAGC
*
35637190 AAAGCTGCTAGTAACAGTA
1 AAAGCTGCCAGTAACAGTA
35637209 TATGTGGCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.41, C:0.23, G:0.21, T:0.15
Consensus pattern (26 bp):
AAAGCTGCCAGTAACAGTAACGCAGC
Found at i:35637227 original size:27 final size:27
Alignment explanation
Indices: 35637159--35637236 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 27
35637149 CAATAATAAC
** *
35637159 GCAGCAAAGCTGCCAGTAACAGTA-AT
1 GCAGCAAAGCCACTAGTAACAGTATAT
**
35637185 GCAGCAAAGCTGCTAGTAACAGTATAT
1 GCAGCAAAGCCACTAGTAACAGTATAT
**
35637212 GTGGCAAAGCCACTAGT-ACAGTATA
1 GCAGCAAAGCCACTAGTAACAGTATA
35637237 CTACACTTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 31 0.67
27 15 0.33
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (27 bp):
GCAGCAAAGCCACTAGTAACAGTATAT
Found at i:35637463 original size:54 final size:54
Alignment explanation
Indices: 35637390--35637609 Score: 286
Period size: 54 Copynumber: 4.1 Consensus size: 54
35637380 TACAACATTT
* *
35637390 ATTTTACCCTAT-AAGGGTATTTTGATCATTTTACCCTTTGGGGGTATTTTGGTC
1 ATTTTACCCT-TCGAGGGTATTTTGATCATTTTACCCTTTGAGGGTATTTTGGTC
*
35637444 ATTTTACCCATT-G-GCGGTATTTTAATCATTTTACCCTTTGAGGGTATTTTGGTC
1 ATTTTACCC-TTCGAG-GGTATTTTGATCATTTTACCCTTTGAGGGTATTTTGGTC
* * *
35637498 ATTTTACCCTTCGAGGGTATTTTGATCATTTTACCTTTTGAGGGTATTTCGATC
1 ATTTTACCCTTCGAGGGTATTTTGATCATTTTACCCTTTGAGGGTATTTTGGTC
* * **
35637552 ATTTTACTCTTCGAGGGTATTTTGGTCATTTGT-CCCTTCAAGGGTATTTTGGTC
1 ATTTTACCCTTCGAGGGTATTTTGATCATTT-TACCCTTTGAGGGTATTTTGGTC
35637606 ATTT
1 ATTT
35637610 GTGGCCCATT
Statistics
Matches: 147, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
53 3 0.02
54 141 0.96
55 3 0.02
ACGTcount: A:0.18, C:0.16, G:0.20, T:0.47
Consensus pattern (54 bp):
ATTTTACCCTTCGAGGGTATTTTGATCATTTTACCCTTTGAGGGTATTTTGGTC
Found at i:35637527 original size:81 final size:81
Alignment explanation
Indices: 35637390--35637609 Score: 291
Period size: 81 Copynumber: 2.7 Consensus size: 81
35637380 TACAACATTT
* * * * *
35637390 ATTTTACCCTATAAGGGTATTTTGATCATTTTACCCTTTGGGGGTATTTTGGTCATTTTACCCAT
1 ATTTTACCCTTTGAGGGTATTTTGGTCATTTTACCCTTCGAGGGTATTTTGGTCATTTTACCCAT
*
35637455 TG-GCGGTATTTTAATC
66 TGAG-GGTATTTCAATC
* **
35637471 ATTTTACCCTTTGAGGGTATTTTGGTCATTTTACCCTTCGAGGGTATTTTGATCATTTTACCTTT
1 ATTTTACCCTTTGAGGGTATTTTGGTCATTTTACCCTTCGAGGGTATTTTGGTCATTTTACCCAT
*
35637536 TGAGGGTATTTCGATC
66 TGAGGGTATTTCAATC
* * *
35637552 ATTTTACTCTTCGAGGGTATTTTGGTCATTTGT-CCCTTCAAGGGTATTTTGGTCATTT
1 ATTTTACCCTTTGAGGGTATTTTGGTCATTT-TACCCTTCGAGGGTATTTTGGTCATTT
35637610 GTGGCCCATT
Statistics
Matches: 123, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
81 121 0.98
82 2 0.02
ACGTcount: A:0.18, C:0.16, G:0.20, T:0.47
Consensus pattern (81 bp):
ATTTTACCCTTTGAGGGTATTTTGGTCATTTTACCCTTCGAGGGTATTTTGGTCATTTTACCCAT
TGAGGGTATTTCAATC
Found at i:35637611 original size:27 final size:27
Alignment explanation
Indices: 35637390--35637609 Score: 250
Period size: 27 Copynumber: 8.1 Consensus size: 27
35637380 TACAACATTT
*
35637390 ATTTTACCCTAT-AAGGGTATTTTGATC
1 ATTTTACCCT-TCGAGGGTATTTTGATC
* * *
35637417 ATTTTACCCTTTGGGGGTATTTTGGTC
1 ATTTTACCCTTCGAGGGTATTTTGATC
*
35637444 ATTTTACCCATT-G-GCGGTATTTTAATC
1 ATTTTACCC-TTCGAG-GGTATTTTGATC
* *
35637471 ATTTTACCCTTTGAGGGTATTTTGGTC
1 ATTTTACCCTTCGAGGGTATTTTGATC
35637498 ATTTTACCCTTCGAGGGTATTTTGATC
1 ATTTTACCCTTCGAGGGTATTTTGATC
* * *
35637525 ATTTTACCTTTTGAGGGTATTTCGATC
1 ATTTTACCCTTCGAGGGTATTTTGATC
* *
35637552 ATTTTACTCTTCGAGGGTATTTTGGTC
1 ATTTTACCCTTCGAGGGTATTTTGATC
* *
35637579 ATTTGT-CCCTTCAAGGGTATTTTGGTC
1 ATTT-TACCCTTCGAGGGTATTTTGATC
35637606 ATTT
1 ATTT
35637610 GTGGCCCATT
Statistics
Matches: 168, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
26 4 0.02
27 160 0.95
28 4 0.02
ACGTcount: A:0.18, C:0.16, G:0.20, T:0.47
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTTGATC
Found at i:35651312 original size:14 final size:15
Alignment explanation
Indices: 35651280--35651312 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
35651270 ATAGGATACC
*
35651280 TTAATACCCATCAAT
1 TTAACACCCATCAAT
35651295 TTAACACCCATC-AT
1 TTAACACCCATCAAT
35651309 TTAA
1 TTAA
35651313 GTACTTAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.33
Consensus pattern (15 bp):
TTAACACCCATCAAT
Found at i:35654230 original size:21 final size:21
Alignment explanation
Indices: 35654191--35654232 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
35654181 AACCCTATAC
* *
35654191 AAGAGTTTTATGATGGATTAT
1 AAGAGTTTGATGATAGATTAT
*
35654212 AAGAGTTTGATGTTAGATTAT
1 AAGAGTTTGATGATAGATTAT
35654233 TATGTTTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (21 bp):
AAGAGTTTGATGATAGATTAT
Found at i:35665189 original size:26 final size:26
Alignment explanation
Indices: 35665151--35665201 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
35665141 GGATTGAGTT
*
35665151 TGGTGAGCGACGTGTTCTGGGTCCTA
1 TGGTGAGCCACGTGTTCTGGGTCCTA
35665177 TGGTGAGCCACGTGTTCTGGGTCCT
1 TGGTGAGCCACGTGTTCTGGGTCCT
35665202 GAGTTGGTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.10, C:0.22, G:0.37, T:0.31
Consensus pattern (26 bp):
TGGTGAGCCACGTGTTCTGGGTCCTA
Found at i:35667839 original size:23 final size:24
Alignment explanation
Indices: 35667813--35667857 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
35667803 ATATCCCCAC
*
35667813 ATGGAGTGTA-AGGTTGGATGGAG
1 ATGGAGTGTAGAGGCTGGATGGAG
*
35667836 ATGGTGTGTAGAGGCTGGATGG
1 ATGGAGTGTAGAGGCTGGATGG
35667858 GTAGGATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.22, C:0.02, G:0.49, T:0.27
Consensus pattern (24 bp):
ATGGAGTGTAGAGGCTGGATGGAG
Found at i:35669022 original size:20 final size:20
Alignment explanation
Indices: 35668963--35669022 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
35668953 TAAAAACATC
*
35668963 GGCACTAAAGTGCAATTAGG
1 GGCACTGAAGTGCAATTAGG
* * *
35668983 GGTACTGAAGTACAAATAGG
1 GGCACTGAAGTGCAATTAGG
*
35669003 GGCAC-GTATGTGCAATTAGG
1 GGCACTG-AAGTGCAATTAGG
35669023 AGTACCAAAG
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.22
Consensus pattern (20 bp):
GGCACTGAAGTGCAATTAGG
Found at i:35669034 original size:40 final size:40
Alignment explanation
Indices: 35668972--35669148 Score: 213
Period size: 40 Copynumber: 4.6 Consensus size: 40
35668962 CGGCACTAAA
* * * *
35668972 GTGCAATTAGGGGTACTGAAGTACAAATAGGGGCACGTAT
1 GTGCAATCAGGGGTACCGAAGTACGAACAGGGGCACGTAT
* * * *
35669012 GTGCAATTAGGAGTACCAAAGTATGAACA---G---GTAT
1 GTGCAATCAGGGGTACCGAAGTACGAACAGGGGCACGTAT
* *
35669046 GTGCAATCAGGGGTACCGAAGTACGAACAGAGGCACATAT
1 GTGCAATCAGGGGTACCGAAGTACGAACAGGGGCACGTAT
*
35669086 GTGCAATCAGGGGTACCAAAGTACGAACAGGGGCACGTAT
1 GTGCAATCAGGGGTACCGAAGTACGAACAGGGGCACGTAT
35669126 GTGCAATCAGGGGTACCGAAGTA
1 GTGCAATCAGGGGTACCGAAGTA
35669149 TAATAATTTT
Statistics
Matches: 116, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
34 29 0.25
37 2 0.02
40 85 0.73
ACGTcount: A:0.34, C:0.16, G:0.31, T:0.19
Consensus pattern (40 bp):
GTGCAATCAGGGGTACCGAAGTACGAACAGGGGCACGTAT
Found at i:35669102 original size:74 final size:76
Alignment explanation
Indices: 35668972--35669148 Score: 223
Period size: 74 Copynumber: 2.3 Consensus size: 76
35668962 CGGCACTAAA
* * * * * * *
35668972 GTGCAATTAGGGGTACTGAAGTACAAATAGGGGCACGTATGTGCAATTAGGAGTACCAAAGTATG
1 GTGCAATCAGGGGTACCGAAGTACAAACAGAGGCACATATGTGCAATCAGGAGTACCAAAGTACG
35669037 AACA-G-GTAT
66 AACAGGCGTAT
* *
35669046 GTGCAATCAGGGGTACCGAAGTACGAACAGAGGCACATATGTGCAATCAGGGGTACCAAAGTACG
1 GTGCAATCAGGGGTACCGAAGTACAAACAGAGGCACATATGTGCAATCAGGAGTACCAAAGTACG
35669111 AACAGGGGCACGTAT
66 AACA--GG--CGTAT
35669126 GTGCAATCAGGGGTACCGAAGTA
1 GTGCAATCAGGGGTACCGAAGTA
35669149 TAATAATTTT
Statistics
Matches: 88, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
74 60 0.68
77 1 0.01
80 27 0.31
ACGTcount: A:0.34, C:0.16, G:0.31, T:0.19
Consensus pattern (76 bp):
GTGCAATCAGGGGTACCGAAGTACAAACAGAGGCACATATGTGCAATCAGGAGTACCAAAGTACG
AACAGGCGTAT
Found at i:35669136 original size:20 final size:20
Alignment explanation
Indices: 35669042--35669138 Score: 56
Period size: 20 Copynumber: 4.8 Consensus size: 20
35669032 GTATGAACAG
*
35669042 GTATGTGCAATCAGGGGTACC
1 GTATGTGCAATCAGGGGCA-C
* * *
35669063 G-AAGTACGAA-CAGAGGCAC
1 GTATGTGC-AATCAGGGGCAC
* *
35669082 ATATGTGCAATCAGGGGTAC
1 GTATGTGCAATCAGGGGCAC
** * *
35669102 CAAAGTACGAA-CAGGGGCAC
1 GTATGTGC-AATCAGGGGCAC
35669122 GTATGTGCAATCAGGGG
1 GTATGTGCAATCAGGGG
35669139 TACCGAAGTA
Statistics
Matches: 53, Mismatches: 18, Indels: 11
0.65 0.22 0.13
Matches are distributed among these distances:
19 5 0.09
20 43 0.81
21 5 0.09
ACGTcount: A:0.32, C:0.19, G:0.33, T:0.16
Consensus pattern (20 bp):
GTATGTGCAATCAGGGGCAC
Found at i:35676186 original size:40 final size:40
Alignment explanation
Indices: 35676142--35676409 Score: 473
Period size: 40 Copynumber: 6.7 Consensus size: 40
35676132 GCAAACACAT
* *
35676142 TTGCCTTCGGGTCTTAGCCCGAACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
35676182 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
35676222 TTGCCTTCGGGTTTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
35676262 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
35676302 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
35676342 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
35676382 TTGCCTTCGGGTCATAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
35676410 TCCAATGCTC
Statistics
Matches: 219, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 219 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:35690693 original size:45 final size:45
Alignment explanation
Indices: 35690627--35690796 Score: 179
Period size: 45 Copynumber: 3.8 Consensus size: 45
35690617 TGGTTGAGCA
35690627 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
35690673 TCCGAACTCG-TGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAG
*
35690718 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
35690764 TCCGAGCTC-ATGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
35690797 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 12, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 54 0.52
46 40 0.39
47 4 0.04
48 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:35690779 original size:91 final size:91
Alignment explanation
Indices: 35690624--35690791 Score: 291
Period size: 91 Copynumber: 1.8 Consensus size: 91
35690614 GGATGGTTGA
* * *
35690624 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCATGAGTT
35690689 GAGTCCGAGTTCGTGAATGTAACTAG
66 GAGTCCGAGTTCGTGAATGTAACTAG
*
35690715 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAGCTCATGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCATGAGTT
*
35690780 GAGTCTGAGTTC
66 GAGTCCGAGTTC
35690792 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 72 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.29
Consensus pattern (91 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCATGAGTT
GAGTCCGAGTTCGTGAATGTAACTAG
Found at i:35693465 original size:42 final size:42
Alignment explanation
Indices: 35693397--35693573 Score: 187
Period size: 42 Copynumber: 4.2 Consensus size: 42
35693387 ACTTAGTTCA
* * *
35693397 CCCATTGGCC-ATACCATACAAAAGCAGACTTTATACAATTT
1 CCCATTGGCCAATACTATATAATAGCAGACTTTATACAATTT
*
35693438 GCCCGTTGGCCAATACTATA-AATAGCAGACTTTATACAATTT
1 -CCCATTGGCCAATACTATATAATAGCAGACTTTATACAATTT
** * * *
35693480 CCCATTGGTGAATACTATATAATAGAAAACTTTATATAATTT
1 CCCATTGGCCAATACTATATAATAGCAGACTTTATACAATTT
* * * * * *
35693522 CTCATTGGCGAATACTATATAATAGTAGACTTCATGCAATTCG
1 CCCATTGGCCAATACTATATAATAGCAGACTTTATACAATT-T
35693565 CCCATTGGC
1 CCCATTGGC
35693574 GAAATTCCAA
Statistics
Matches: 114, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
41 16 0.14
42 83 0.73
43 15 0.13
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (42 bp):
CCCATTGGCCAATACTATATAATAGCAGACTTTATACAATTT
Found at i:35697592 original size:24 final size:23
Alignment explanation
Indices: 35697513--35697595 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 23
35697503 GTATTCAAGA
35697513 TGGAAAACTAAGGTATCCTAAAG
1 TGGAAAACTAAGGTATCCTAAAG
* * * *
35697536 TGGAAAAAATGAGTTAGAGTCCTTCAAG
1 TGG-AAAACTAAGGT--A-TCC-TAAAG
35697564 ATGGAACAACTAAGGTATCCTAAAG
1 -TGGAA-AACTAAGGTATCCTAAAG
35697589 TGGAAAA
1 TGGAAAA
35697596 AACTATCTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
23 5 0.11
24 13 0.29
25 4 0.09
26 4 0.09
27 4 0.09
28 6 0.13
29 9 0.20
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.22
Consensus pattern (23 bp):
TGGAAAACTAAGGTATCCTAAAG
Found at i:35697600 original size:25 final size:25
Alignment explanation
Indices: 35697516--35697600 Score: 75
Period size: 25 Copynumber: 3.3 Consensus size: 25
35697506 TTCAAGATGG
35697516 AAAACTAAGGTATCCTAAAGTGGAA
1 AAAACTAAGGTATCCTAAAGTGGAA
* * *
35697541 AAAA-TGAGTTAGAGTCCTTCAAGATGG-A
1 AAAACTAAGGT--A-TCC-TAAAG-TGGAA
*
35697569 ACAACTAAGGTATCCTAAAGTGGAA
1 AAAACTAAGGTATCCTAAAGTGGAA
35697594 AAAACTA
1 AAAACTA
35697601 TCTTTGCTCT
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
24 7 0.16
25 15 0.33
26 4 0.09
27 4 0.09
28 8 0.18
29 7 0.16
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.21
Consensus pattern (25 bp):
AAAACTAAGGTATCCTAAAGTGGAA
Found at i:35701666 original size:34 final size:32
Alignment explanation
Indices: 35701619--35701685 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 32
35701609 TTTATCCTTA
*
35701619 ATTTTTTTTTATTTGCATTAATG-CGTTACATG
1 ATTTTTTTTTATTTGAATT-ATGTCGTTACATG
35701651 ATTTTTTTATCTATTTGAATTATGTCGTTACATG
1 ATTTTTTT-T-TATTTGAATTATGTCGTTACATG
35701685 A
1 A
35701686 GTTAATTCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 8 0.26
33 4 0.13
34 19 0.61
ACGTcount: A:0.24, C:0.09, G:0.12, T:0.55
Consensus pattern (32 bp):
ATTTTTTTTTATTTGAATTATGTCGTTACATG
Found at i:35704027 original size:21 final size:21
Alignment explanation
Indices: 35703992--35704052 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 21
35703982 ACATCTACTT
*
35703992 AGGGAAATTATAATCCAA-AAC
1 AGGG-AATTACAATCCAACAAC
35704013 AAGGGAATTACAAT-CAACAAC
1 -AGGGAATTACAATCCAACAAC
*
35704034 AGTGGAACTACAAT-CAACA
1 AG-GGAATTACAATCCAACA
35704053 CACTCAGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 5 0.14
21 26 0.74
22 4 0.11
ACGTcount: A:0.51, C:0.18, G:0.15, T:0.16
Consensus pattern (21 bp):
AGGGAATTACAATCCAACAAC
Found at i:35719571 original size:45 final size:44
Alignment explanation
Indices: 35719388--35719585 Score: 166
Period size: 45 Copynumber: 4.4 Consensus size: 44
35719378 TTAAAAAAAA
* * ** * * *
35719388 GTGGATGCTATGTGCTGATTCCACCTAATATTAATGAAAATAAAG
1 GTGGTTGCTATGTGCTGATTTCACC-GGTACTATTGAATATAAAG
* * * *
35719433 GTGGTTGCTATGTGCTGATTTCACTGGATACCAATTG-TTATATAG
1 GTGGTTGCTATGTGCTGATTTCACCGG-TA-CTATTGAATATAAAG
** * * *
35719478 GTCATTGCTATGTGGTGATTTCACCCGGTACCATTGAGTATAAAG
1 GTGGTTGCTATGTGCTGATTTCA-CCGGTACTATTGAATATAAAG
* *
35719523 GTGGTTGCTATGTGCTGATTTCACCGAGTACTATTGACTATAAGG
1 GTGGTTGCTATGTGCTGATTTCACCG-GTACTATTGAATATAAAG
*
35719568 GTGG-TGCTGTGTGCTGAT
1 GTGGTTGCTATGTGCTGAT
35719586 CCACCATGCA
Statistics
Matches: 123, Mismatches: 25, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
44 21 0.17
45 96 0.78
46 6 0.05
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (44 bp):
GTGGTTGCTATGTGCTGATTTCACCGGTACTATTGAATATAAAG
Found at i:35723362 original size:28 final size:29
Alignment explanation
Indices: 35723321--35723378 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
35723311 ATGAGGTTTC
*
35723321 CTTTATCAAAGGTT-GCCACCAAGGCTTT
1 CTTTATCAAAGGTTCGCCACAAAGGCTTT
*
35723349 CTTTA-CAAAGGGTTCGCCATAAAGGCTTT
1 CTTTATCAAA-GGTTCGCCACAAAGGCTTT
35723378 C
1 C
35723379 CTTTGTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 4 0.15
28 9 0.35
29 13 0.50
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (29 bp):
CTTTATCAAAGGTTCGCCACAAAGGCTTT
Found at i:35724351 original size:6 final size:6
Alignment explanation
Indices: 35724340--35724377 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
35724330 CTAAGCTTTC
*
35724340 ATACAT ATACAT ATACAT ATACAT ATACAT ATATAT AT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT AT
35724378 CCTAACAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (6 bp):
ATACAT
Found at i:35728724 original size:50 final size:50
Alignment explanation
Indices: 35728594--35728747 Score: 254
Period size: 50 Copynumber: 3.0 Consensus size: 50
35728584 ATAGGGGATA
* *
35728594 AAAGCTAAACGAGCAAATAAGAGGGAATCTACTTTTACAAAGTGAAAGAC
1 AAAGCTAAACGAGCAGATAAGAGGGAATCTGCTTTTACAAAGTGAAAGAC
35728644 ATCAAGCTAAACGAGCAGATAAGAGGGAATCTGCTTTTACAAAGTGAAAGAC
1 A--AAGCTAAACGAGCAGATAAGAGGGAATCTGCTTTTACAAAGTGAAAGAC
* *
35728696 AAAGCTAAACGAGCAGATAAGAGAGAATCTGCTTTTACAAAATGAAAGAC
1 AAAGCTAAACGAGCAGATAAGAGGGAATCTGCTTTTACAAAGTGAAAGAC
35728746 AA
1 AA
35728748 TTATTCATAT
Statistics
Matches: 98, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
50 50 0.51
52 48 0.49
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.18
Consensus pattern (50 bp):
AAAGCTAAACGAGCAGATAAGAGGGAATCTGCTTTTACAAAGTGAAAGAC
Found at i:35738618 original size:32 final size:32
Alignment explanation
Indices: 35738582--35738645 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
35738572 ATGTGTGAGC
35738582 TATAAAGCCCAATCCATAACAAGGATAATCAA
1 TATAAAGCCCAATCCATAACAAGGATAATCAA
35738614 TATAAAGCCCAATCCATAACAAGGATAATCAA
1 TATAAAGCCCAATCCATAACAAGGATAATCAA
35738646 ACTTTATCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.50, C:0.22, G:0.09, T:0.19
Consensus pattern (32 bp):
TATAAAGCCCAATCCATAACAAGGATAATCAA
Found at i:35738643 original size:16 final size:16
Alignment explanation
Indices: 35738592--35738643 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
35738582 TATAAAGCCC
35738592 AATCCATAACAAGGAT
1 AATCCATAACAAGGAT
* ***
35738608 AATCAATATA-AAGCCC
1 AATCCATA-ACAAGGAT
35738624 AATCCATAACAAGGAT
1 AATCCATAACAAGGAT
35738640 AATC
1 AATC
35738644 AAACTTTATC
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
15 1 0.04
16 24 0.92
17 1 0.04
ACGTcount: A:0.50, C:0.21, G:0.10, T:0.19
Consensus pattern (16 bp):
AATCCATAACAAGGAT
Found at i:35739254 original size:23 final size:23
Alignment explanation
Indices: 35739210--35739255 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
35739200 ATCTAGACCA
*
35739210 CACTGAAGTGCTAGGAACAGGAG
1 CACTGAAGTGCTAAGAACAGGAG
* * *
35739233 CACTGATGTGCTAATAATAGGAG
1 CACTGAAGTGCTAAGAACAGGAG
35739256 TATCAAAGTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.20
Consensus pattern (23 bp):
CACTGAAGTGCTAAGAACAGGAG
Found at i:35748991 original size:24 final size:24
Alignment explanation
Indices: 35748964--35749019 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
35748954 GACAAAATAG
*
35748964 TCATTTAAATCAC-AGACAAATCAA
1 TCATTTAAATCACGA-AAAAATCAA
**
35748988 TCATTTTCATCACGAAAAAATCAA
1 TCATTTAAATCACGAAAAAATCAA
35749012 TCATTTAA
1 TCATTTAA
35749020 CCTCGAGGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.46, C:0.20, G:0.04, T:0.30
Consensus pattern (24 bp):
TCATTTAAATCACGAAAAAATCAA
Found at i:35749050 original size:27 final size:26
Alignment explanation
Indices: 35749020--35749237 Score: 159
Period size: 27 Copynumber: 8.1 Consensus size: 26
35749010 AATCATTTAA
*
35749020 CCTCGAGGGTAAAATTTACTGAAATAC
1 CCTCGAGGGTAAAA-TTACCGAAATAC
*
35749047 CCTCGATGGGTAAAATTATCGAAATAC
1 CCTCGA-GGGTAAAATTACCGAAATAC
* *
35749074 CCTCGAAGGTTAAAATGACCGAAATACC
1 CCTCG-AGGGTAAAATTACCGAAATA-C
** *
35749102 CCTAAAGGGTAAAATTACCAAAATATC
1 CCTCGAGGGTAAAATTACCGAAATA-C
* ** * *
35749129 CTTAAAGGGTAAAATGACCAAAATAC
1 CCTCGAGGGTAAAATTACCGAAATAC
* **
35749155 CC-CTGAAGCGTAAAACGACCGAAATAC
1 CCTC-G-AGGGTAAAATTACCGAAATAC
**
35749182 CCTCGAAGGGTAAAATTATTGAAATAC
1 CCTCG-AGGGTAAAATTACCGAAATAC
** * *
35749209 CCTTAAAGGCTAAAATTATCGAAATAC
1 CC-TCGAGGGTAAAATTACCGAAATAC
35749236 CC
1 CC
35749238 AATCCAACCA
Statistics
Matches: 156, Mismatches: 28, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
26 2 0.01
27 139 0.89
28 15 0.10
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.22
Consensus pattern (26 bp):
CCTCGAGGGTAAAATTACCGAAATAC
Found at i:35749098 original size:54 final size:54
Alignment explanation
Indices: 35749020--35749237 Score: 215
Period size: 54 Copynumber: 4.0 Consensus size: 54
35749010 AATCATTTAA
* * * * *
35749020 CCTCG-AGGGTAAAATTTACTGAAATA-CCCTCGATGGGTAAAATTATCGAAATAC
1 CCTCGAAGGGTAAAA-TGACCGAAATACCCCT-AAAGGGTAAAATTACCGAAATAC
* * *
35749074 CCTCGAAGGTTAAAATGACCGAAATACCCCTAAAGGGTAAAATTACCAAAATAT
1 CCTCGAAGGGTAAAATGACCGAAATACCCCTAAAGGGTAAAATTACCGAAATAC
** * * * **
35749128 CCTTAAAGGGTAAAATGACCAAAATACCCCTGAAGCGTAAAACGACCGAAATAC
1 CCTCGAAGGGTAAAATGACCGAAATACCCCTAAAGGGTAAAATTACCGAAATAC
* ** * * *
35749182 CCTCGAAGGGTAAAATTATTGAAATACCCTTAAAGGCTAAAATTATCGAAATAC
1 CCTCGAAGGGTAAAATGACCGAAATACCCCTAAAGGGTAAAATTACCGAAATAC
35749236 CC
1 CC
35749238 AATCCAACCA
Statistics
Matches: 131, Mismatches: 31, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
54 119 0.91
55 12 0.09
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.22
Consensus pattern (54 bp):
CCTCGAAGGGTAAAATGACCGAAATACCCCTAAAGGGTAAAATTACCGAAATAC
Found at i:35749142 original size:81 final size:81
Alignment explanation
Indices: 35749025--35749237 Score: 234
Period size: 81 Copynumber: 2.6 Consensus size: 81
35749015 TTTAACCTCG
** ** *
35749025 AGGGTAAAATTTACTGAAATACCCTCGATGGGTAAAATTATCGAAATA-CCCTCGAAG-GTTAAA
1 AGGGTAAAA-TTACCAAAATACCCTTAAAGGGTAAAATTATCGAAATACCCCT-GAAGCG-TAAA
*
35749088 ATGACCGAAATACCC-CTAA
63 ACGACCGAAATACCCTC-AA
* * * *
35749107 AGGGTAAAATTACCAAAATATCCTTAAAGGGTAAAATGACCAAAATACCCCTGAAGCGTAAAACG
1 AGGGTAAAATTACCAAAATACCCTTAAAGGGTAAAATTATCGAAATACCCCTGAAGCGTAAAACG
*
35749172 ACCGAAATACCCTCGA
66 ACCGAAATACCCTCAA
*** *
35749188 AGGGTAAAATTATTGAAATACCCTTAAAGGCTAAAATTATCGAAATACCC
1 AGGGTAAAATTACCAAAATACCCTTAAAGGGTAAAATTATCGAAATACCC
35749238 AATCCAACCA
Statistics
Matches: 109, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
81 94 0.86
82 15 0.14
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.22
Consensus pattern (81 bp):
AGGGTAAAATTACCAAAATACCCTTAAAGGGTAAAATTATCGAAATACCCCTGAAGCGTAAAACG
ACCGAAATACCCTCAA
Found at i:35766951 original size:20 final size:20
Alignment explanation
Indices: 35766926--35766968 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
35766916 AAAAGAAAAG
35766926 AAAGAAGAGAGATTGAGAGA
1 AAAGAAGAGAGATTGAGAGA
** *
35766946 AAAGAATCGAGATTGTGAGA
1 AAAGAAGAGAGATTGAGAGA
35766966 AAA
1 AAA
35766969 ACAAGATCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.02, G:0.30, T:0.14
Consensus pattern (20 bp):
AAAGAAGAGAGATTGAGAGA
Found at i:35773135 original size:21 final size:23
Alignment explanation
Indices: 35773090--35773136 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
35773080 TCACCTGCAA
* *
35773090 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
35773113 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
35773134 TAA
1 TAA
35773137 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:35780687 original size:11 final size:12
Alignment explanation
Indices: 35780657--35780688 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
35780647 TTTCACTCTT
35780657 CTCTTTTTCAAA
1 CTCTTTTTCAAA
35780669 CTCTTTTTCAAA
1 CTCTTTTTCAAA
*
35780681 TTCTTTTT
1 CTCTTTTT
35780689 TCGCTTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.22, G:0.00, T:0.59
Consensus pattern (12 bp):
CTCTTTTTCAAA
Found at i:35780703 original size:6 final size:6
Alignment explanation
Indices: 35780692--35780797 Score: 56
Period size: 6 Copynumber: 17.7 Consensus size: 6
35780682 TCTTTTTTCG
* * * **
35780692 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT C-TTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** *
35780742 GAT-TT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT CGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
35780789 -GTTTT CTTT
1 CTTTTT CTTT
35780798 CAATTTCTTT
Statistics
Matches: 71, Mismatches: 24, Indels: 10
0.68 0.23 0.10
Matches are distributed among these distances:
5 12 0.17
6 47 0.66
7 9 0.13
8 3 0.04
ACGTcount: A:0.07, C:0.18, G:0.04, T:0.72
Consensus pattern (6 bp):
CTTTTT
Found at i:35780710 original size:13 final size:12
Alignment explanation
Indices: 35780694--35780811 Score: 61
Period size: 12 Copynumber: 10.0 Consensus size: 12
35780684 TTTTTTCGCT
35780694 TTTTCTTTTTCAA
1 TTTTCTTTTTC-A
35780707 TTTTCTTTTCTTCA
1 TTTTC-TTT-TTCA
35780721 TTTTC-TTTTC-
1 TTTTCTTTTTCA
** *
35780731 TCTCACTTTTTGA
1 T-TTTCTTTTTCA
35780744 -TTTCTTTTTC-
1 TTTTCTTTTTCA
** *
35780754 TTTTGCAATTTCT
1 TTTT-CTTTTTCA
*
35780767 TTTTCTTTTTCG
1 TTTTCTTTTTCA
*
35780779 TTTTCTTTTT-G
1 TTTTCTTTTTCA
35780790 TTTTC--TTTCA
1 TTTTCTTTTTCA
*
35780800 ATTTCTTTTTCA
1 TTTTCTTTTTCA
35780812 ATCTCTTTCT
Statistics
Matches: 81, Mismatches: 13, Indels: 23
0.69 0.11 0.20
Matches are distributed among these distances:
9 3 0.04
10 5 0.06
11 21 0.26
12 31 0.38
13 9 0.11
14 9 0.11
15 3 0.04
ACGTcount: A:0.08, C:0.18, G:0.03, T:0.70
Consensus pattern (12 bp):
TTTTCTTTTTCA
Found at i:35780723 original size:14 final size:15
Alignment explanation
Indices: 35780694--35780731 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
35780684 TTTTTTCGCT
35780694 TTTTC-TTT-TTCAA
1 TTTTCTTTTCTTCAA
35780707 TTTTCTTTTCTTC-A
1 TTTTCTTTTCTTCAA
35780721 TTTTCTTTTCT
1 TTTTCTTTTCT
35780732 CTCACTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.22
14 15 0.65
15 3 0.13
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTCTTTTCTTCAA
Found at i:35780783 original size:18 final size:18
Alignment explanation
Indices: 35780692--35780793 Score: 82
Period size: 18 Copynumber: 5.6 Consensus size: 18
35780682 TCTTTTTTCG
35780692 CTTTTTCTTTTTCAATTTT
1 CTTTTTCTTTTTC-ATTTT
*
35780711 CTTTTCTTCATTTTC-TTTT
1 C-TTT-TTCTTTTTCATTTT
* ** *
35780730 CTCTCACTTTTTGA-TTT
1 CTTTTTCTTTTTCATTTT
* *
35780747 CTTTTTCTTTTGCAATTT
1 CTTTTTCTTTTTCATTTT
*
35780765 CTTTTTCTTTTTCGTTTT
1 CTTTTTCTTTTTCATTTT
*
35780783 CTTTTTGTTTT
1 CTTTTTCTTTT
35780794 CTTTCAATTT
Statistics
Matches: 64, Mismatches: 15, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
17 17 0.27
18 30 0.47
19 6 0.09
20 3 0.05
21 8 0.12
ACGTcount: A:0.07, C:0.18, G:0.04, T:0.72
Consensus pattern (18 bp):
CTTTTTCTTTTTCATTTT
Found at i:35781894 original size:11 final size:11
Alignment explanation
Indices: 35781880--35781905 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
35781870 TTTTTTTCGA
35781880 TTTTTTTGAAT
1 TTTTTTTGAAT
35781891 TTTTTTTGAAT
1 TTTTTTTGAAT
35781902 TTTT
1 TTTT
35781906 CTCTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (11 bp):
TTTTTTTGAAT
Found at i:35781996 original size:11 final size:11
Alignment explanation
Indices: 35781980--35782008 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
35781970 CCAACTCAAA
35781980 TTTTTTTTGA-
1 TTTTTTTTGAC
35781990 TTTTTTTTGAC
1 TTTTTTTTGAC
35782001 TTTTTTTT
1 TTTTTTTT
35782009 TACATTACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.07, C:0.03, G:0.07, T:0.83
Consensus pattern (11 bp):
TTTTTTTTGAC
Found at i:35798782 original size:64 final size:65
Alignment explanation
Indices: 35798698--35798863 Score: 160
Period size: 64 Copynumber: 2.6 Consensus size: 65
35798688 GAAAACTTTT
* * **
35798698 ACTTTGCA-AAGGTTCAGTGGATGAGAATAGGGTTTTAGCATTGCATATCATTAAGAAAATTATG
1 ACTTTGTAGAAGGTTCGGTGGATGAGAATAGGGTTTTAGCATTAAATATCATTAAGAAAATTATG
* * * * ** * *
35798762 -GTTT-TACGAAGGTTCGGTGGATGAAAATGGGGTTTCAATATTAAATATTATTAAGTAAATTAT
1 ACTTTGTA-GAAGGTTCGGTGGATGAGAATAGGGTTTTAGCATTAAATATCATTAAGAAAATTAT
35798825 G
65 G
* * *
35798826 ACTTTGTAG-AGGTTCGGTGGATGGGAACAAGGTTTTAG
1 ACTTTGTAGAAGGTTCGGTGGATGAGAATAGGGTTTTAG
35798864 TATAAGAAGA
Statistics
Matches: 78, Mismatches: 20, Indels: 8
0.74 0.19 0.08
Matches are distributed among these distances:
62 1 0.01
63 3 0.04
64 68 0.87
65 4 0.05
66 2 0.03
ACGTcount: A:0.32, C:0.07, G:0.27, T:0.34
Consensus pattern (65 bp):
ACTTTGTAGAAGGTTCGGTGGATGAGAATAGGGTTTTAGCATTAAATATCATTAAGAAAATTATG
Found at i:35801106 original size:69 final size:69
Alignment explanation
Indices: 35800950--35801107 Score: 174
Period size: 69 Copynumber: 2.3 Consensus size: 69
35800940 AATGGTATTA
* * * * *
35800950 TATATATTACATGCATCAAATTATTATCCAAATATGAATGTGAATTATTGTCCAAAATGACATTA
1 TATATATTACATGCTTCAAATTACTATCCAAATATAAAGGTGAATTATTGTCCAAAATGACAATA
35801015 ATTG
66 ATTG
** * * * * * **
35801019 TATCCATTTCATGTTTCAAGA-TACTATCCGAATATAAAGGTGAATTTTTGTCCAAATTGGTAAT
1 TATATATTACATGCTTCAA-ATTACTATCCAAATATAAAGGTGAATTATTGTCCAAAATGACAAT
35801083 AATTG
65 AATTG
35801088 TATATATTACATGCTTCAAA
1 TATATATTACATGCTTCAAA
35801108 ATTTCTGTCT
Statistics
Matches: 70, Mismatches: 18, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
68 1 0.01
69 68 0.97
70 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (69 bp):
TATATATTACATGCTTCAAATTACTATCCAAATATAAAGGTGAATTATTGTCCAAAATGACAATA
ATTG
Found at i:35802482 original size:124 final size:122
Alignment explanation
Indices: 35802284--35802610 Score: 381
Period size: 124 Copynumber: 2.6 Consensus size: 122
35802274 TCCGAAGCAT
* * * * * * *
35802284 AAACAATGAGTTACACGGCTTGGACACACGTCCATGTCCCTGCCCGTGTGATCTTGTACCAAAAA
1 AAACAGTGAGTTACACGGCTAGG-CACACGCCCGTGTCCCTG-TCGTGTGGTCTTGTACCACAAA
* *
35802349 AAGTGAGTTACATGACCTGGGCACATG-GTCGTGTCCCT-GCCTGTGTGATCTTGTACCAC
64 AAGTGAGTTACATGACCTGGGCACACGCCT-GTGTCCCTGGCC-GTGTGATCTTGTACCAC
* *
35802408 AAACCGTGAGTTACACGGTCTAGGCACACGCCCGTGTCCCTGTTCGTGTGGTCTTGTATCACAAA
1 AAACAGTGAGTTACACGG-CTAGGCACACGCCCGTGTCCCTG-TCGTGTGGTCTTGTACCACAAA
* * *
35802473 AAGTGAGTTACACGACTTGGGCACACGCCTGTGTCCCTGGCCGTGTGGTCTTGTACCAC
64 AAGTGAGTTACATGACCTGGGCACACGCCTGTGTCCCTGGCCGTGTGATCTTGTACCAC
* * * * *
35802532 AAATAGTGAGTTACACGGCCTGGGCACAAGCTCGTGTCCCTAGTCGTGTGGTATTGTACCACAAA
1 AAACAGTGAGTTACACGG-CTAGGCACACGCCCGTGTCCCT-GTCGTGTGGTCTTGTACCACAAA
35802597 CAA-TGAGTTACATG
64 -AAGTGAGTTACATG
35802611 GCCTAGGTAC
Statistics
Matches: 174, Mismatches: 24, Indels: 10
0.84 0.12 0.05
Matches are distributed among these distances:
124 163 0.94
125 11 0.06
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (122 bp):
AAACAGTGAGTTACACGGCTAGGCACACGCCCGTGTCCCTGTCGTGTGGTCTTGTACCACAAAAA
GTGAGTTACATGACCTGGGCACACGCCTGTGTCCCTGGCCGTGTGATCTTGTACCAC
Found at i:35802614 original size:62 final size:61
Alignment explanation
Indices: 35802284--35802614 Score: 328
Period size: 62 Copynumber: 5.3 Consensus size: 61
35802274 TCCGAAGCAT
* * * *
35802284 AAACAATGAGTTACACGGCTTGGACACACG-TCCATGTCCCTGCCCGTGTGATCTTGTACCA-
1 AAACAATGAGTTACACGGCCTGGGCACACGCT-CGTGTCCCTG-CCGTGTGGTCTTGTACCAC
* * * * * *
35802345 AAAAAAGTGAGTTACATGACCTGGGCACATGGTCGTGTCCCTGCCTGTGTGATCTTGTACCAC
1 AAACAA-TGAGTTACACGGCCTGGGCACACGCTCGTGTCCCTGCC-GTGTGGTCTTGTACCAC
** * * * * *
35802408 AAACCGTGAGTTACACGGTCTAGGCACACGCCCGTGTCCCTGTTCGTGTGGTCTTGTATCAC
1 AAACAATGAGTTACACGGCCTGGGCACACGCTCGTGTCCCTG-CCGTGTGGTCTTGTACCAC
* *
35802470 AAA-AAGTGAGTTACACGACTTGGGCACACGC-CTGTGTCCCTGGCCGTGTGGTCTTGTACCAC
1 AAACAA-TGAGTTACACGGCCTGGGCACACGCTC-GTGTCCCT-GCCGTGTGGTCTTGTACCAC
* * * * *
35802532 AAATAGTGAGTTACACGGCCTGGGCACAAGCTCGTGTCCCTAGTCGTGTGGTATTGTACCAC
1 AAACAATGAGTTACACGGCCTGGGCACACGCTCGTGTCCCT-GCCGTGTGGTCTTGTACCAC
*
35802594 AAACAATGAGTTACATGGCCT
1 AAACAATGAGTTACACGGCCT
35802615 AGGTACAGAC
Statistics
Matches: 222, Mismatches: 38, Indels: 19
0.80 0.14 0.07
Matches are distributed among these distances:
61 8 0.04
62 206 0.93
63 8 0.04
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (61 bp):
AAACAATGAGTTACACGGCCTGGGCACACGCTCGTGTCCCTGCCGTGTGGTCTTGTACCAC
Found at i:35803342 original size:21 final size:21
Alignment explanation
Indices: 35803318--35803357 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
35803308 AATGAAAATT
35803318 GAAAAGAAGAAAAAGAAGATA
1 GAAAAGAAGAAAAAGAAGATA
* * *
35803339 GAAATGATGAAGAAGAAGA
1 GAAAAGAAGAAAAAGAAGA
35803358 AAAATAAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.28, T:0.07
Consensus pattern (21 bp):
GAAAAGAAGAAAAAGAAGATA
Found at i:35803381 original size:30 final size:30
Alignment explanation
Indices: 35803321--35803382 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
35803311 GAAAATTGAA
* * *
35803321 AAGAAGAAAAAGAAGATAGAAATGATGAAG
1 AAGAAGAAAAAGAAGAAAGAAAGGAAGAAG
*
35803351 AAGAAGAAAAATAA-AAAGATAAGGAAGAAG
1 AAGAAGAAAAAGAAGAAAGA-AAGGAAGAAG
35803381 AA
1 AA
35803383 ACTATCGTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (30 bp):
AAGAAGAAAAAGAAGAAAGAAAGGAAGAAG
Found at i:35823091 original size:40 final size:39
Alignment explanation
Indices: 35823027--35823238 Score: 255
Period size: 40 Copynumber: 5.3 Consensus size: 39
35823017 TCTTCGGAAT
* * *
35823027 TTAG-CCGGATATAACCACAAGCACAAATGCCTCCGGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
*
35823066 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* *
35823106 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * *
35823146 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * *
35823186 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
35823226 TTAGCCCGGATAT
1 TTAGCCCGGATAT
35823239 CATTCAAATG
Statistics
Matches: 147, Mismatches: 21, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
39 10 0.07
40 130 0.88
41 7 0.05
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:35823154 original size:80 final size:80
Alignment explanation
Indices: 35823027--35823238 Score: 336
Period size: 80 Copynumber: 2.7 Consensus size: 80
35823017 TCTTCGGAAT
* * * * * *
35823027 TTAG-CCGGATATAACCACAAGCACAAATGCCTCCGGGTCTTAGCCCGGATATATCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
35823091 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* *
35823106 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
35823171 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
*
35823186 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
35823239 CATTCAAATG
Statistics
Matches: 121, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 4 0.03
80 117 0.97
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:35826375 original size:27 final size:26
Alignment explanation
Indices: 35826336--35826556 Score: 140
Period size: 27 Copynumber: 8.3 Consensus size: 26
35826326 ATTTGTAGGC
* *
35826336 AAATGATCGAAATACCCTCAGAGGGTA
1 AAATGACCAAAATACCC-CAGAGGGTA
35826363 AAATGACCAAAATACCCCTAGAGGGTA
1 AAATGACCAAAATACCCC-AGAGGGTA
* ** *
35826390 AAATGGCTGAAATACCCCTAAAGGGTA
1 AAATGACCAAAATACCCC-AGAGGGTA
* ***
35826417 AAATAATTGAAATACCCTC-GAAGGGTA
1 AAATGACCAAAATACCC-CAG-AGGGTA
* * * * *
35826444 AAATGATCGAAATACCCCTGAAAGATA
1 AAATGACCAAAATACCCCAG-AGGGTA
* * **
35826471 AAATGACTAAAATACCCCTGAAAAGTA
1 AAATGACCAAAATACCCCAG-AGGGTA
* *
35826498 AAATGA-CAGAAATACCACAAAGGGTA
1 AAATGACCA-AAATACCCCAGAGGGTA
* * *
35826524 AAATGACTAAAATACCCTATAGGGTA
1 AAATGACCAAAATACCCCAGAGGGTA
35826550 AAATGAC
1 AAATGAC
35826557 TGTTATACTC
Statistics
Matches: 159, Mismatches: 29, Indels: 13
0.79 0.14 0.06
Matches are distributed among these distances:
26 34 0.21
27 124 0.78
28 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.18
Consensus pattern (26 bp):
AAATGACCAAAATACCCCAGAGGGTA
Found at i:35826403 original size:54 final size:53
Alignment explanation
Indices: 35826344--35826554 Score: 198
Period size: 54 Copynumber: 3.9 Consensus size: 53
35826334 GCAAATGATC
* *
35826344 GAAATACCCTCAGAGGGTAAAATGACCAAAATACCCCTAG-AGGGTAAAATGGCT
1 GAAATACCC-CAAAGGGTAAAATGACTAAAATA-CCCTAGAAGGGTAAAATGGCT
* * * * *
35826398 GAAATACCCCTAAAGGGTAAAATAATTGAAATACCCTCGAAGGGTAAAAT-GAT
1 GAAATACCCC-AAAGGGTAAAATGACTAAAATACCCTAGAAGGGTAAAATGGCT
* ** * *
35826451 CGAAATACCCCTGAAA-GATAAAATGACTAAAATACCCCT-GAAAAGTAAAATGACA
1 -GAAATACCCC--AAAGGGTAAAATGACTAAAATA-CCCTAGAAGGGTAAAATGGCT
* *
35826506 GAAATACCACAAAGGGTAAAATGACTAAAATACCCTA-TAGGGTAAAATG
1 GAAATACCCCAAAGGGTAAAATGACTAAAATACCCTAGAAGGGTAAAATG
35826555 ACTGTTATAC
Statistics
Matches: 127, Mismatches: 22, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
52 16 0.13
53 25 0.20
54 79 0.62
55 7 0.06
ACGTcount: A:0.46, C:0.18, G:0.18, T:0.18
Consensus pattern (53 bp):
GAAATACCCCAAAGGGTAAAATGACTAAAATACCCTAGAAGGGTAAAATGGCT
Found at i:35826484 original size:81 final size:80
Alignment explanation
Indices: 35826344--35826557 Score: 220
Period size: 81 Copynumber: 2.7 Consensus size: 80
35826334 GCAAATGATC
* * * *
35826344 GAAATACCCTCAGAGGGTAAAATGACCAAAATACCCCTAGAGGGTAAAATGGCTGAAATACCCCT
1 GAAATACCCTCA-AGGGTAAAATGACCAAAATACCCCTAGAAGATAAAATGACTAAAATACCCCT
* **
35826409 -AAAGGGTAAAATAATT
65 GAAA-AGTAAAATAACA
* *
35826425 GAAATACCCTCGAAGGGTAAAATGATCGAAATACCCCT-GAAAGATAAAATGACTAAAATACCCC
1 GAAATACCCTC-AAGGGTAAAATGACCAAAATACCCCTAG-AAGATAAAATGACTAAAATACCCC
*
35826489 TGAAAAGTAAAATGACA
64 TGAAAAGTAAAATAACA
* * * * *
35826506 GAAATACCAC-AAAGGGTAAAATGACTAAAATA-CCCTATAGGGTAAAATGACT
1 GAAATACC-CTCAAGGGTAAAATGACCAAAATACCCCTAGAAGATAAAATGACT
35826558 GTTATACTCC
Statistics
Matches: 111, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
79 16 0.14
80 19 0.17
81 71 0.64
82 5 0.05
ACGTcount: A:0.46, C:0.18, G:0.18, T:0.18
Consensus pattern (80 bp):
GAAATACCCTCAAGGGTAAAATGACCAAAATACCCCTAGAAGATAAAATGACTAAAATACCCCTG
AAAAGTAAAATAACA
Found at i:35826996 original size:28 final size:28
Alignment explanation
Indices: 35826882--35827019 Score: 163
Period size: 28 Copynumber: 5.0 Consensus size: 28
35826872 ACAGTACTGG
*
35826882 TTACTGTATTGGGCTAAGG-ACACACTA
1 TTACTGTATTGGGCTAAGGCCCACACTA
* *
35826909 TTACTGTACTGGGCTACGGCCCACACTA
1 TTACTGTATTGGGCTAAGGCCCACACTA
* *
35826937 TTATTGTACTGGGCTAAGGCCCACACTA
1 TTACTGTATTGGGCTAAGGCCCACACTA
* * *
35826965 TTACTGTATTGGGCTAAGGCCCATATTG
1 TTACTGTATTGGGCTAAGGCCCACACTA
* *
35826993 TTACTACT-TTGGGCTAAGGTCCACACT
1 TTACT-GTATTGGGCTAAGGCCCACACT
35827020 GTACTGTTAC
Statistics
Matches: 95, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
27 17 0.18
28 77 0.81
29 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (28 bp):
TTACTGTATTGGGCTAAGGCCCACACTA
Found at i:35833982 original size:27 final size:27
Alignment explanation
Indices: 35833943--35834161 Score: 233
Period size: 27 Copynumber: 8.1 Consensus size: 27
35833933 ATTTGTGGGC
* * **
35833943 AAATGATCGAAATACCCTCGGAGGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
* *
35833970 AAATGACCAAAATACCCTTAGAGGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
** *
35833997 AAATGACTGAAATACCCCCAAAGGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
* *
35834024 AAATGACCGAAATACCCTCAAAAGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
* *
35834051 AAATGATCAAAATACCCTCAAAGGATA
1 AAATGACCAAAATACCCTCAAAGGGTA
* * *
35834078 AAATGACTAAAATACCCCCAAAAGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
** *
35834105 AAATGACTGAAATA-CCACAAAGGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
* * *
35834131 AAATGACTAAAATACCCTTATAGGGTA
1 AAATGACCAAAATACCCTCAAAGGGTA
35834158 AAAT
1 AAAT
35834162 AACTGTTATA
Statistics
Matches: 163, Mismatches: 28, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 23 0.14
27 140 0.86
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.18
Consensus pattern (27 bp):
AAATGACCAAAATACCCTCAAAGGGTA
Found at i:35834080 original size:81 final size:80
Alignment explanation
Indices: 35833943--35834175 Score: 297
Period size: 81 Copynumber: 2.9 Consensus size: 80
35833933 ATTTGTGGGC
* ** *
35833943 AAATGATCGAAATACCCTCGGAGGGTAAAATGACCAAAATACCCTTAGAGGGTAAAATGACTGAA
1 AAATGACCGAAATACCCTCAAAGGGTAAAATGA-CAAAATACCCTTAAAGGGTAAAATGACTGAA
*
35834008 ATACCCCCAAAGGGTA
65 ATACCCCCAAAAGGTA
* * * *
35834024 AAATGACCGAAATACCCTCAAAAGGTAAAATGATCAAAATACCCTCAAAGGATAAAATGACTAAA
1 AAATGACCGAAATACCCTCAAAGGGTAAAATGA-CAAAATACCCTTAAAGGGTAAAATGACTGAA
35834089 ATACCCCCAAAAGGTA
65 ATACCCCCAAAAGGTA
* * * * **
35834105 AAATGACTGAAATA-CCACAAAGGGTAAAATGACTAAAATACCCTTATAGGGTAAAATAACTGTT
1 AAATGACCGAAATACCCTCAAAGGGTAAAATGAC-AAAATACCCTTAAAGGGTAAAATGACTGAA
35834169 ATACCCC
65 ATACCCC
35834176 TAGGAGATCA
Statistics
Matches: 131, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
79 1 0.01
80 46 0.35
81 84 0.64
ACGTcount: A:0.46, C:0.20, G:0.16, T:0.18
Consensus pattern (80 bp):
AAATGACCGAAATACCCTCAAAGGGTAAAATGACAAAATACCCTTAAAGGGTAAAATGACTGAAA
TACCCCCAAAAGGTA
Found at i:35834527 original size:28 final size:28
Alignment explanation
Indices: 35834486--35834609 Score: 151
Period size: 28 Copynumber: 4.4 Consensus size: 28
35834476 CACTGTACTA
* *
35834486 ATTACTGTATTGGGCTAAGGCCTACACC
1 ATTACTGTATTGGGCTAAGGCCCACACT
*
35834514 ATTACTGTACTGGGCTAAGGCCCACACT
1 ATTACTGTATTGGGCTAAGGCCCACACT
* *
35834542 ATTACTATATTGGGCTAAGGCCCACATT
1 ATTACTGTATTGGGCTAAGGCCCACACT
* * * *
35834570 GTTACTATTTTGGGCTAAGGCCTACACT
1 ATTACTGTATTGGGCTAAGGCCCACACT
35834598 A-TACTGTTATTG
1 ATTACTG-TATTG
35834610 TATACGGCTC
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
27 4 0.05
28 78 0.95
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (28 bp):
ATTACTGTATTGGGCTAAGGCCCACACT
Found at i:35841443 original size:24 final size:26
Alignment explanation
Indices: 35841402--35841453 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
35841392 TTTGTAAATG
*
35841402 GAGTTATAAGTATAATG-TTG-GTTT
1 GAGTTATAAATATAATGTTTGTGTTT
35841426 GAGTATATAAATAT-ATGTTTGTGTTT
1 GAGT-TATAAATATAATGTTTGTGTTT
35841452 GA
1 GA
35841454 AGCCATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 7 0.29
25 11 0.46
26 6 0.25
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (26 bp):
GAGTTATAAATATAATGTTTGTGTTT
Found at i:35843304 original size:14 final size:14
Alignment explanation
Indices: 35843287--35843314 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
35843277 AAAGAGAAGG
35843287 AAAAAAAAATTGCA
1 AAAAAAAAATTGCA
35843301 AAAAAAAAATTGCA
1 AAAAAAAAATTGCA
35843315 TACGGTCTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.07, G:0.07, T:0.14
Consensus pattern (14 bp):
AAAAAAAAATTGCA
Found at i:35845602 original size:24 final size:25
Alignment explanation
Indices: 35845575--35845628 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 25
35845565 ATGAGTGATA
*
35845575 AAAAAAGAGA-GAGTGATTCAAAA-G
1 AAAAAAGAAACGAGTGA-TCAAAATG
*
35845599 -AAAAAGAAACGAGTGATGAAAATG
1 AAAAAAGAAACGAGTGATCAAAATG
35845623 AAAAAA
1 AAAAAA
35845629 AGAATTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 13 0.52
24 7 0.28
25 5 0.20
ACGTcount: A:0.63, C:0.04, G:0.22, T:0.11
Consensus pattern (25 bp):
AAAAAAGAAACGAGTGATCAAAATG
Found at i:35851975 original size:22 final size:23
Alignment explanation
Indices: 35851963--35852005 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
35851953 ACTTAATAAG
*
35851963 CTTAA-TTAATAAAATGTAAACA
1 CTTAATTTAATAAACTGTAAACA
35851985 CTTAATTTAATAAACTGTAAA
1 CTTAATTTAATAAACTGTAAA
35852006 TAAACATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.51, C:0.09, G:0.05, T:0.35
Consensus pattern (23 bp):
CTTAATTTAATAAACTGTAAACA
Found at i:35852650 original size:51 final size:51
Alignment explanation
Indices: 35852591--35852695 Score: 165
Period size: 51 Copynumber: 2.1 Consensus size: 51
35852581 TTCTGACTTA
*
35852591 AAACATGCATTGATGTTGTCCCAATTAAGACACACTTAATAAACATAAATC
1 AAACATGCATTGATGCTGTCCCAATTAAGACACACTTAATAAACATAAATC
* * * *
35852642 AAACATGCATTGATGCTGTTCGAATTAGGACACACTTAATAAACATGAATC
1 AAACATGCATTGATGCTGTCCCAATTAAGACACACTTAATAAACATAAATC
35852693 AAA
1 AAA
35852696 GTAAATAGTA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (51 bp):
AAACATGCATTGATGCTGTCCCAATTAAGACACACTTAATAAACATAAATC
Found at i:35855884 original size:35 final size:35
Alignment explanation
Indices: 35855832--35855907 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
35855822 CTGGAATAAG
*
35855832 TATTT-AGTTGCTCGAATAAATTACTCATCTTAGT
1 TATTTAAGTTGCTCGAATAAATTACTCATATTAGT
* * *
35855866 TATTTAAGTTGTTGGAATAAATTGCTCATATTAGT
1 TATTTAAGTTGCTCGAATAAATTACTCATATTAGT
*
35855901 TAATTAA
1 TATTTAA
35855908 ATTCATCTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
34 5 0.14
35 31 0.86
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (35 bp):
TATTTAAGTTGCTCGAATAAATTACTCATATTAGT
Found at i:35863576 original size:19 final size:19
Alignment explanation
Indices: 35863554--35863591 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
35863544 AACTAGCCAA
35863554 GGACAACTCAAGAGTCATT
1 GGACAACTCAAGAGTCATT
35863573 GGACAACTCAAGAGTCATT
1 GGACAACTCAAGAGTCATT
35863592 TTCTAAGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (19 bp):
GGACAACTCAAGAGTCATT
Found at i:35864306 original size:12 final size:12
Alignment explanation
Indices: 35864280--35864337 Score: 89
Period size: 12 Copynumber: 4.8 Consensus size: 12
35864270 TAGTTTCTCG
*
35864280 AAAAAAACTCGAA
1 AAAAAAATTC-AA
*
35864293 AAAGAAATTCAA
1 AAAAAAATTCAA
35864305 AAAAAAATTCAA
1 AAAAAAATTCAA
35864317 AAAAAAATTCAA
1 AAAAAAATTCAA
35864329 AAAAAAATT
1 AAAAAAATT
35864338 GGTTTCCGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
12 34 0.81
13 8 0.19
ACGTcount: A:0.72, C:0.09, G:0.03, T:0.16
Consensus pattern (12 bp):
AAAAAAATTCAA
Found at i:35868554 original size:13 final size:13
Alignment explanation
Indices: 35868538--35868579 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
35868528 AAAAAACTCG
35868538 AAAAAAATTC--A
1 AAAAAAATTCAAA
35868549 AAAAAAATTCAAA
1 AAAAAAATTCAAA
35868562 AAAAAAATTCAAA
1 AAAAAAATTCAAA
35868575 AAAAA
1 AAAAA
35868580 TTGGTTTCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.34
13 19 0.66
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAAAATTCAAA
Found at i:35868566 original size:11 final size:11
Alignment explanation
Indices: 35868526--35868581 Score: 76
Period size: 11 Copynumber: 4.9 Consensus size: 11
35868516 TAGTTTCTCG
*
35868526 AAAAAAAACTC
1 AAAAAAAATTC
*
35868537 GAAAAAAATTC
1 AAAAAAAATTC
35868548 AAAAAAAATTC
1 AAAAAAAATTC
35868559 AAAAAAAAAATTC
1 --AAAAAAAATTC
35868572 AAAAAAAATT
1 AAAAAAAATT
35868582 GGTTTCCATT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
11 29 0.73
13 11 0.28
ACGTcount: A:0.73, C:0.09, G:0.02, T:0.16
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:35874153 original size:20 final size:19
Alignment explanation
Indices: 35874119--35874164 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
35874109 GGGTTAAGAT
35874119 TGAGCTGAATGAGCTCGAA
1 TGAGCTGAATGAGCTCGAA
* *
35874138 TGAGCTGACTTGAGCTCGAG
1 TGAGCTGA-ATGAGCTCGAA
35874158 TGAGCTG
1 TGAGCTG
35874165 GAAACGGCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.24, C:0.17, G:0.35, T:0.24
Consensus pattern (19 bp):
TGAGCTGAATGAGCTCGAA
Done.