Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 123 of 255
Found at i:39270778 original size:98 final size:97
Alignment explanation
Indices: 39270589--39270772 Score: 318
Period size: 98 Copynumber: 1.9 Consensus size: 97
39270579 GCACATCGCC
*
39270589 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA-ATACATATTTCACATT
39270654 GACCATTCGGCTTTACCACATATGCATATCTCA
65 GACCATTCGGCTTTACCACATATGCATATCTCA
*
39270687 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-ATACATATTTCACATT-
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
39270750 AGCCATTCGGCTTTACCACATAT
66 A-CCATTCGGCTTTACCACATAT
39270773 ATGCATGTTC
Statistics
Matches: 83, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
95 1 0.01
96 36 0.43
98 46 0.55
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (97 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTG
ACCATTCGGCTTTACCACATATGCATATCTCA
Found at i:39270822 original size:47 final size:47
Alignment explanation
Indices: 39270744--39270889 Score: 184
Period size: 47 Copynumber: 3.1 Consensus size: 47
39270734 ATACATATTT
* * * * *
39270744 CACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCAC
1 CACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCAC
*
39270791 CACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCAT
1 CACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCAC
* * * ** *
39270838 CACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCAT
1 CACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCAC
39270885 CACAT
1 CACAT
39270890 AAAACCCTAA
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 88 1.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
CACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCAC
Found at i:39274996 original size:40 final size:40
Alignment explanation
Indices: 39274918--39275268 Score: 564
Period size: 40 Copynumber: 8.8 Consensus size: 40
39274908 CCAGCATGAT
* * * * * *
39274918 TGCTCTTCAGGACCTAG-CCCGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
*
39274957 TGCTCTTCGGAACTTA-TCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGT-CCGGATACATCACTAGCACGAA
39274997 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
39275037 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
*
39275077 TGCTCTTTGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
*
39275117 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
39275157 TGCTCTTCGGGACTTAG-CTCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGTC-CGGATACATCACTAGCACGAA
39275197 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
* *
39275237 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGTCCGGATACATCACT
39275269 CTCAATTCTC
Statistics
Matches: 294, Mismatches: 13, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
39 14 0.05
40 278 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
Found at i:39276597 original size:37 final size:37
Alignment explanation
Indices: 39276538--39276609 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
39276528 AGCTCAAACG
*
39276538 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
*
39276575 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGA
39276610 ATATATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
Found at i:39276813 original size:50 final size:49
Alignment explanation
Indices: 39276755--39276939 Score: 295
Period size: 48 Copynumber: 3.8 Consensus size: 49
39276745 GCACATCGCC
* *
39276755 TACATATTTCACACTAGCCATTCGGCTTTACCACATAAACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-TA
* *
39276805 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCT-TA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCTA
39276853 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-A
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCTA
39276901 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
39276940 TGCATGTTCA
Statistics
Matches: 126, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
48 84 0.67
49 2 0.02
50 40 0.32
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (49 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCTA
Found at i:39276944 original size:98 final size:97
Alignment explanation
Indices: 39276755--39276938 Score: 309
Period size: 98 Copynumber: 1.9 Consensus size: 97
39276745 GCACATCGCC
*
39276755 TACATATTTCACACTAGCCATTCGGCTTTACCACATAAACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATAAACATATCTCA-ATACATATTTCACATT
39276820 GACCATTCGGCTTTACCACATATGCATATCTTA
65 GACCATTCGGCTTTACCACATATGCATATCTTA
* *
39276853 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-ATACATATTTCACATT-
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATAAACATATCTCAATACATATTTCACATTG
39276916 AGCCATTCGGCTTTACCACATAT
66 A-CCATTCGGCTTTACCACATAT
39276939 ATGCATGTTC
Statistics
Matches: 82, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
95 1 0.01
96 36 0.44
98 45 0.55
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (97 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATAAACATATCTCAATACATATTTCACATTG
ACCATTCGGCTTTACCACATATGCATATCTTA
Found at i:39276988 original size:47 final size:47
Alignment explanation
Indices: 39276909--39277102 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
39276899 CATACATATT
* * * *
39276909 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
39276956 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
39277003 TCACATTTGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
39277050 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
39277097 TCACAT
1 TCACAT
39277103 AAAATCCTAA
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:39277029 original size:22 final size:22
Alignment explanation
Indices: 39277002--39277073 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
39276992 GCTCACATTC
39277002 ATCACATTTGCCATTCGGCCTT
1 ATCACATTTGCCATTCGGCCTT
* *
39277024 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-TGCCA--TTCGGCCTT
*
39277048 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTTGCCATTCGGCCTT
39277071 ATC
1 ATC
39277074 TCATATATAC
Statistics
Matches: 38, Mismatches: 5, Indels: 14
0.67 0.09 0.25
Matches are distributed among these distances:
22 13 0.34
23 7 0.18
24 8 0.21
25 10 0.26
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (22 bp):
ATCACATTTGCCATTCGGCCTT
Found at i:39277030 original size:94 final size:94
Alignment explanation
Indices: 39276862--39277102 Score: 290
Period size: 94 Copynumber: 2.6 Consensus size: 94
39276852 ATACATATTT
* * * *
39276862 CACATTAGCCATTCGGCTTTA-C-CACATATACATATCTCATACATAT-TTCACATTAGCCATTC
1 CACATTGGCCATTCGGCCTTATCACACATATACACA-CTC--ACAT-TCATCACATTAGCCATTC
* *
39276924 GGCTTTACCACATATATGCATGTTCATATTCAC
62 GGCCTTACCACATATATGCATGTTCACATTCAC
* ** *
39276957 CACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTTGCCATTCGGCC
1 CACATTGGCCATTCGGCCTTATCACACATATACACACTCACATTCATCACATTAGCCATTCGGCC
* *
39277022 TTATCACATATATGCATGTTCACATTCAT
66 TTACCACATATATGCATGTTCACATTCAC
* * *
39277051 CACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 CACATTGGCCATTCGGCCTTATCACACATATACACACTCACATTCATCACAT
39277103 AAAATCCTAA
Statistics
Matches: 127, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
93 1 0.01
94 93 0.73
95 19 0.15
96 4 0.03
97 10 0.08
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.34
Consensus pattern (94 bp):
CACATTGGCCATTCGGCCTTATCACACATATACACACTCACATTCATCACATTAGCCATTCGGCC
TTACCACATATATGCATGTTCACATTCAC
Found at i:39282409 original size:27 final size:27
Alignment explanation
Indices: 39282379--39282497 Score: 150
Period size: 27 Copynumber: 4.4 Consensus size: 27
39282369 AAAGAGATTC
*
39282379 CTTTCAAAGTTTGCCACAAAGGCTATT
1 CTTTCAGAGTTTGCCACAAAGGCTATT
* * *
39282406 CTTTCAGAGTTTTCCACAAGGGTTATT
1 CTTTCAGAGTTTGCCACAAAGGCTATT
* * *
39282433 CTTTTAGAGTTCGCCACAGAGGCTA-T
1 CTTTCAGAGTTTGCCACAAAGGCTATT
*
39282459 CATTTCAGAGTTTGCCACAAAGGCTATC
1 C-TTTCAGAGTTTGCCACAAAGGCTATT
39282487 CTTTCAGAGTT
1 CTTTCAGAGTT
39282498 CACTACGAAG
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
26 2 0.03
27 73 0.96
28 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.34
Consensus pattern (27 bp):
CTTTCAGAGTTTGCCACAAAGGCTATT
Found at i:39282423 original size:54 final size:53
Alignment explanation
Indices: 39282337--39282512 Score: 151
Period size: 54 Copynumber: 3.3 Consensus size: 53
39282327 AATAGAGTAT
* * ** * *
39282337 GCCACTAAGGCGATGCATTTC-GAGTTCACCACAAAGAGATTCCTTTCAAAGTTT
1 GCCACAAAGGCTAT-CATTTCAGAGTTTGCCACAAAG-GATTCCTTTCAGAGTTC
* * *
39282391 GCCACAAAGGCTATTC-TTTCAGAGTTTTCCACAAGGGTTATT-CTTTTAGAGTTC
1 GCCACAAAGGCTA-TCATTTCAGAGTTTGCCACAAAGG--ATTCCTTTCAGAGTTC
* *
39282445 GCCACAGAGGCTATCATTTCAGAGTTTGCCACAAAGGCTATCCTTTCAGAGTTC
1 GCCACAAAGGCTATCATTTCAGAGTTTGCCACAAAGGAT-TCCTTTCAGAGTTC
* * *
39282499 ACTACGAAGGCTAT
1 GCCACAAAGGCTAT
39282513 TTTTTAGCAG
Statistics
Matches: 98, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
52 1 0.01
53 8 0.08
54 85 0.87
55 4 0.04
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (53 bp):
GCCACAAAGGCTATCATTTCAGAGTTTGCCACAAAGGATTCCTTTCAGAGTTC
Found at i:39282508 original size:27 final size:27
Alignment explanation
Indices: 39282338--39282512 Score: 115
Period size: 27 Copynumber: 6.5 Consensus size: 27
39282328 ATAGAGTATG
* *
39282338 CCACTAAGGCGATGCATTTC-GAGTTCA
1 CCACAAAGGCTAT-CATTTCAGAGTTCA
* * * **
39282365 CCACAAAGAGAT-TCCTTTCAAAGTTTG
1 CCACAAAG-GCTATCATTTCAGAGTTCA
**
39282392 CCACAAAGGCTATTC-TTTCAGAGTTTT
1 CCACAAAGGCTA-TCATTTCAGAGTTCA
* * * *
39282419 CCACAAGGGTTATTC-TTTTAGAGTTCG
1 CCACAAAGGCTA-TCATTTCAGAGTTCA
* **
39282446 CCACAGAGGCTATCATTTCAGAGTTTG
1 CCACAAAGGCTATCATTTCAGAGTTCA
*
39282473 CCACAAAGGCTATCCTTTCAGAGTTCA
1 CCACAAAGGCTATCATTTCAGAGTTCA
* *
39282500 CTACGAAGGCTAT
1 CCACAAAGGCTAT
39282513 TTTTTAGCAG
Statistics
Matches: 117, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
26 9 0.08
27 105 0.90
28 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
CCACAAAGGCTATCATTTCAGAGTTCA
Found at i:39300866 original size:31 final size:31
Alignment explanation
Indices: 39300825--39300902 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
39300815 TTTTGGAGAG
* * *
39300825 TCACATGCCCGTTTGGGTAGGCCGTGTGGTC
1 TCACACGCCCGTGTGGGTAGGCCGTGTGGCC
39300856 TCACACGCCCGTGTGGGTAGGCCGTGTGGCC
1 TCACACGCCCGTGTGGGTAGGCCGTGTGGCC
* *
39300887 TTACACTCCCGTGTGG
1 TCACACGCCCGTGTGG
39300903 CTCTGGACAC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.10, C:0.29, G:0.35, T:0.26
Consensus pattern (31 bp):
TCACACGCCCGTGTGGGTAGGCCGTGTGGCC
Found at i:39300917 original size:20 final size:18
Alignment explanation
Indices: 39300877--39300920 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
39300867 TGTGGGTAGG
* *
39300877 CCGTGTGGCCTTACACTC
1 CCGTGTGGCCTGACACAC
39300895 CCGTGTGGCTCTGGACACAC
1 CCGTGTGGC-CT-GACACAC
39300915 CCGTGT
1 CCGTGT
39300921 CCTCAAACTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 9 0.41
19 2 0.09
20 11 0.50
ACGTcount: A:0.11, C:0.36, G:0.27, T:0.25
Consensus pattern (18 bp):
CCGTGTGGCCTGACACAC
Found at i:39312267 original size:4 final size:4
Alignment explanation
Indices: 39312260--39312314 Score: 110
Period size: 4 Copynumber: 13.8 Consensus size: 4
39312250 TACTAATATA
39312260 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
39312308 TATG TAT
1 TATG TAT
39312315 TATTATTATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:39326448 original size:119 final size:119
Alignment explanation
Indices: 39326238--39326540 Score: 427
Period size: 119 Copynumber: 2.6 Consensus size: 119
39326228 TTGAATGCTG
* * * * *
39326238 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGTA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGCTAAG-TCCCGAAGGCA
* *
39326299 TTTGTGTGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
63 TTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
*
39326356 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
* *
39326421 GTGCGAGTTACTAAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
39326475 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
39326539 TG
65 TG
39326541 AACGAGAAGC
Statistics
Matches: 167, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
118 21 0.13
119 136 0.81
120 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39326554 original size:40 final size:40
Alignment explanation
Indices: 39326238--39326540 Score: 404
Period size: 40 Copynumber: 7.7 Consensus size: 40
39326228 TTGAATGCTG
* * *
39326238 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
** * * * *
39326277 TCCGGACTAAGAT-CCGAAGGTATTTGTGTGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
39326317 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
39326356 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
39326396 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
39326436 TCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
39326475 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
39326516 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
39326541 AACGAGAAGC
Statistics
Matches: 240, Mismatches: 16, Indels: 15
0.89 0.06 0.06
Matches are distributed among these distances:
39 89 0.37
40 142 0.59
41 9 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39326573 original size:79 final size:80
Alignment explanation
Indices: 39326238--39326540 Score: 404
Period size: 79 Copynumber: 3.8 Consensus size: 80
39326228 TTGAATGCTG
* * * ** *
39326238 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGTA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGCA
* * *
39326299 TTTGTGTGAGATACTAAT
63 TTTGTGCGAGTTACTAAA
*
39326317 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
39326381 GTGCGAGTTACTAAA
66 GTGCGAGTTACTAAA
39326396 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-CCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
39326460 GTGCGAGTTACTAAA
66 GTGCGAGTTACTAAA
* * *
39326475 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATT
39326539 TG
65 TG
39326541 AACGAGAAGC
Statistics
Matches: 205, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
78 10 0.05
79 132 0.64
80 63 0.31
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:39334562 original size:40 final size:40
Alignment explanation
Indices: 39334473--39334775 Score: 413
Period size: 40 Copynumber: 7.7 Consensus size: 40
39334463 TTGAATGCTG
* * *
39334473 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
** * *
39334512 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
39334552 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
39334591 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
39334631 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
39334671 TCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
39334710 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
39334751 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
39334776 AACGAGGAGC
Statistics
Matches: 242, Mismatches: 14, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
39 91 0.38
40 141 0.58
41 10 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39334683 original size:119 final size:119
Alignment explanation
Indices: 39334473--39334775 Score: 436
Period size: 119 Copynumber: 2.6 Consensus size: 119
39334463 TTGAATGCTG
* * * *
39334473 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGCTAAG-TCCCGAAGGCA
*
39334534 TTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
63 TTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
39334591 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCAAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
* *
39334656 GTGCGAGTTACTAAATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
39334710 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
39334774 TG
65 TG
39334776 AACGAGGAGC
Statistics
Matches: 167, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
118 21 0.13
119 136 0.81
120 10 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39334808 original size:79 final size:80
Alignment explanation
Indices: 39334473--39334775 Score: 413
Period size: 79 Copynumber: 3.8 Consensus size: 80
39334463 TTGAATGCTG
* * * **
39334473 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGCA
* *
39334534 TTTGTGCGAGATACTAAT
63 TTTGTGCGAGTTACTAAA
*
39334552 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
39334616 GTGCGAGTTACTAAA
66 GTGCGAGTTACTAAA
*
39334631 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-CCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
39334695 GTGCGAGTTACTAAA
66 GTGCGAGTTACTAAA
* * *
39334710 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATT
39334774 TG
65 TG
39334776 AACGAGGAGC
Statistics
Matches: 205, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
78 10 0.05
79 133 0.65
80 62 0.30
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:39341975 original size:37 final size:39
Alignment explanation
Indices: 39341916--39342018 Score: 94
Period size: 37 Copynumber: 2.8 Consensus size: 39
39341906 CAAAAATAGT
* *
39341916 ATTATTTTAATAGTTTAATATTAAATTAA-ATTTAA-T-
1 ATTATCTTAATAGTTTAATATTAAATTAATATTAAAGTG
* *
39341952 ACTTATCTTAATAGTATT-TTATTAATTTAATATTAAAGTG
1 A-TTATCTTAATAGT-TTAATATTAAATTAATATTAAAGTG
*
39341992 ATTATCTTAATA--TTAA-ATTTAATTAAT
1 ATTATCTTAATAGTTTAATATTAAATTAAT
39342019 GTTTATATTG
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
36 12 0.22
37 22 0.41
38 7 0.13
39 12 0.22
40 1 0.02
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (39 bp):
ATTATCTTAATAGTTTAATATTAAATTAATATTAAAGTG
Found at i:39342673 original size:31 final size:32
Alignment explanation
Indices: 39342597--39342673 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 32
39342587 ATAACGTTTC
* * *
39342597 ATAATTA-GATGACCAAAAAATAAATTTACTA
1 ATAATTAGGATGACTAAAAAAGAAATTGACTA
*
39342628 ATAGTT-GGATGACTAAAAAAGAAATTGACTA
1 ATAATTAGGATGACTAAAAAAGAAATTGACTA
39342659 ATAATTAGGA-GACTA
1 ATAATTAGGATGACTA
39342674 CTAGTGTGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
31 36 0.92
32 3 0.08
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.27
Consensus pattern (32 bp):
ATAATTAGGATGACTAAAAAAGAAATTGACTA
Found at i:39342709 original size:13 final size:14
Alignment explanation
Indices: 39342691--39342722 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
39342681 GATGTATCCT
39342691 ATATTTTAT-ATTA
1 ATATTTTATAATTA
39342704 ATATTTTATAATTA
1 ATATTTTATAATTA
39342718 A-ATTT
1 ATATTT
39342723 AAATTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATATTTTATAATTA
Found at i:39342964 original size:28 final size:28
Alignment explanation
Indices: 39342924--39342980 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
39342914 CGAGTATGGC
39342924 TTGCCCGTGCTTTGTATCGGGTTACTTA
1 TTGCCCGTGCTTTGTATCGGGTTACTTA
*
39342952 TTGCCCGTGCTTTGTATTGGGTTACTTA
1 TTGCCCGTGCTTTGTATCGGGTTACTTA
39342980 T
1 T
39342981 CATTTTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.11, C:0.19, G:0.25, T:0.46
Consensus pattern (28 bp):
TTGCCCGTGCTTTGTATCGGGTTACTTA
Found at i:39345181 original size:53 final size:53
Alignment explanation
Indices: 39345124--39345299 Score: 131
Period size: 53 Copynumber: 3.1 Consensus size: 53
39345114 TAATAATAAT
*
39345124 AAAATTACACTTTAATTTTCTCAAAATTGATAAAAAATTAATTCAATTCTTTA
1 AAAATTACACTTTAATTTTATCAAAATTGATAAAAAATTAATTCAATTCTTTA
* * * * ** ** *
39345177 AAAATTATAAATATATAAACTATTAAAATAGCAAAATTTATAAAATTTTAAATT-AA-TAATAA
1 AAAATTA-CACT-T-T-AA-T-TT----TATCAAAATTGATAAAAAATT-AATTCAATTCTTTA
*
39345239 TAAAATTACACTTTAATTTTTTCAAAATTGATAAAAAATTAATTCAATTCTTTA
1 -AAAATTACACTTTAATTTTATCAAAATTGATAAAAAATTAATTCAATTCTTTA
39345293 AAAATTA
1 AAAATTA
39345300 TAAATATATA
Statistics
Matches: 89, Mismatches: 20, Indels: 28
0.65 0.15 0.20
Matches are distributed among these distances:
52 4 0.04
53 32 0.36
54 5 0.06
55 1 0.01
56 1 0.01
57 4 0.04
58 2 0.02
59 4 0.04
60 1 0.01
61 1 0.01
62 5 0.06
63 25 0.28
64 4 0.04
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (53 bp):
AAAATTACACTTTAATTTTATCAAAATTGATAAAAAATTAATTCAATTCTTTA
Found at i:39345220 original size:63 final size:63
Alignment explanation
Indices: 39345145--39345330 Score: 187
Period size: 55 Copynumber: 3.1 Consensus size: 63
39345135 TTAATTTTCT
39345145 CAAAATTGATAAAAAATTAATTCAATTCTTTAAAAATTATAAATATATAAACTATTAAAATAG
1 CAAAATTGATAAAAAATTAATTCAATTCTTTAAAAATTATAAATATATAAACTATTAAAATAG
* * * * * ** **
39345208 CAAAATT--TATAAAATT--TT-AA---ATTAATAATAATAAA-AT-TACACT-TTAATTTTTT
1 CAAAATTGATAAAAAATTAATTCAATTCTTTAAAAATTATAAATATATAAACTATTAA-AATAG
*
39345261 CAAAATTGATAAAAAATTAATTCAATTCTTTAAAAATTATAAATATATAGACTATTAAAATAG
1 CAAAATTGATAAAAAATTAATTCAATTCTTTAAAAATTATAAATATATAAACTATTAAAATAG
*
39345324 AAAAATT
1 CAAAATT
39345331 ATATTTTTAT
Statistics
Matches: 92, Mismatches: 19, Indels: 24
0.68 0.14 0.18
Matches are distributed among these distances:
52 4 0.04
53 13 0.14
54 2 0.02
55 20 0.22
57 2 0.02
58 4 0.04
59 2 0.02
61 20 0.22
62 2 0.02
63 19 0.21
64 4 0.04
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.38
Consensus pattern (63 bp):
CAAAATTGATAAAAAATTAATTCAATTCTTTAAAAATTATAAATATATAAACTATTAAAATAG
Found at i:39345224 original size:116 final size:116
Alignment explanation
Indices: 39345095--39345330 Score: 445
Period size: 116 Copynumber: 2.0 Consensus size: 116
39345085 ATTCCTTTAT
39345095 AATTTATAAAATTTTAAATTAATAATAATAAAATTACACTTTAATTTTCTCAAAATTGATAAAAA
1 AATTTATAAAATTTTAAATTAATAATAATAAAATTACACTTTAATTTTCTCAAAATTGATAAAAA
*
39345160 ATTAATTCAATTCTTTAAAAATTATAAATATATAAACTATTAAAATAGCAA
66 ATTAATTCAATTCTTTAAAAATTATAAATATATAAACTATTAAAATAGAAA
*
39345211 AATTTATAAAATTTTAAATTAATAATAATAAAATTACACTTTAATTTTTTCAAAATTGATAAAAA
1 AATTTATAAAATTTTAAATTAATAATAATAAAATTACACTTTAATTTTCTCAAAATTGATAAAAA
*
39345276 ATTAATTCAATTCTTTAAAAATTATAAATATATAGACTATTAAAATAGAAA
66 ATTAATTCAATTCTTTAAAAATTATAAATATATAAACTATTAAAATAGAAA
39345327 AATT
1 AATT
39345331 ATATTTTTAT
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
116 117 1.00
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (116 bp):
AATTTATAAAATTTTAAATTAATAATAATAAAATTACACTTTAATTTTCTCAAAATTGATAAAAA
ATTAATTCAATTCTTTAAAAATTATAAATATATAAACTATTAAAATAGAAA
Found at i:39345297 original size:31 final size:32
Alignment explanation
Indices: 39345235--39345303 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 32
39345225 TAAATTAATA
* * *
39345235 ATAATAAAATTACACTTTAATTTTTTCAAAATT
1 ATAA-AAAATTACACTTCAATTCTTTAAAAATT
39345268 GATAAAAAATTA-A-TTCAATTCTTTAAAAATT
1 -ATAAAAAATTACACTTCAATTCTTTAAAAATT
39345299 ATAAA
1 ATAAA
39345304 TATATAGACT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 5 0.16
31 15 0.47
32 1 0.03
33 7 0.22
34 4 0.12
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.41
Consensus pattern (32 bp):
ATAAAAAATTACACTTCAATTCTTTAAAAATT
Found at i:39350967 original size:43 final size:43
Alignment explanation
Indices: 39350910--39351153 Score: 389
Period size: 43 Copynumber: 5.7 Consensus size: 43
39350900 GGGAAAAAAT
*
39350910 GCCGCTAAAGGTCAAGGCATTTAGCGGCGTTTGTGGGAAAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGC
* *
39350953 GTCGCTAAAGGTCAAGGCTTTTAGCGACGTTTGTGGGAAAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGC
*
39350996 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGT
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGC
* ** *
39351039 GCCGCTAAAGGTCAAGGTTTTTAGCGGCGTTCATGGTAAAAGC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGC
* *
39351082 GTCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAAC
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGC
*
39351125 GCCGCTAAAGGTTAAGGCTTTTAGCGGCG
1 GCCGCTAAAGGTCAAGGCTTTTAGCGGCG
39351154 CTTTTTTTTA
Statistics
Matches: 182, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 182 1.00
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.25
Consensus pattern (43 bp):
GCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGC
Found at i:39355084 original size:40 final size:39
Alignment explanation
Indices: 39355001--39355186 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 39
39354991 TTGAATGATG
* * * *
39355001 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
39355041 TCCGGACCAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
39355081 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
* *
39355121 TCCGGGTTAAGTCCTGAAGGCATTTGTGCGAGTTAATATAA
1 TCCGGGCTAAGTCC-GAAGGCATTTGTGCGAGTTACTA-AA
*
39355162 -CCGGGCTATGTTCCGAAGGCATTTG
1 TCCGGGCTAAG-TCCGAAGGCATTTG
39355187 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 3 0.02
40 112 0.88
41 13 0.10
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39355140 original size:80 final size:82
Alignment explanation
Indices: 39355001--39355186 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 82
39354991 TTGAATGATG
*
39355001 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACCAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACCAAGATCCGAAGGCATT
*
39355065 TGTGCGAGTTACTA-AA
66 TGTGCGAGTTAATATAA
* * * * ***
39355081 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCTGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACCAAGATCC-GAAGGCAT
39355144 TTGTGCGAGTTAATATAA
65 TTGTGCGAGTTAATATAA
* *
39355162 -CCGGGCTATGTTCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39355187 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.03
80 79 0.87
81 9 0.10
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACCAAGATCCGAAGGCATT
TGTGCGAGTTAATATAA
Found at i:39355193 original size:40 final size:40
Alignment explanation
Indices: 39355053--39355219 Score: 207
Period size: 40 Copynumber: 4.2 Consensus size: 40
39355043 CGGACCAAGA
39355053 TCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGT
1 TCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGT
*
39355093 CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-
1 TCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGT
* * *
39355132 TCCTGAAGGCATTTGTGCGAGTTAATATAA-CCGGGCTATGT
1 TCC-GAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGT
** * *
39355173 TCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAAT
1 TCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGT
39355212 TCCGAAGG
1 TCCGAAGG
39355220 TACGTGATTT
Statistics
Matches: 110, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 18 0.16
40 87 0.79
41 5 0.05
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGT
Found at i:39360451 original size:75 final size:75
Alignment explanation
Indices: 39360360--39360509 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
39360350 AAGTGATGTA
39360360 GATTATGTAAGTTATGAAATATGAACTTTAAACTATATGCTTTTAAAGAAATTATTAGATTACAC
1 GATTATGTAAGTTATGAAATATGAACTTTAAACTATATGCTTTTAAAGAAATTATTAGATTACAC
39360425 TACATGTATT
66 TACATGTATT
*
39360435 GATTATGTAATTTATGAAATATGAACTTTAAACTATATGCTTTTAAAGAAATTATTAGATTACAC
1 GATTATGTAAGTTATGAAATATGAACTTTAAACTATATGCTTTTAAAGAAATTATTAGATTACAC
39360500 TACATGTATT
66 TACATGTATT
39360510 AGTTAAGTTA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.41
Consensus pattern (75 bp):
GATTATGTAAGTTATGAAATATGAACTTTAAACTATATGCTTTTAAAGAAATTATTAGATTACAC
TACATGTATT
Found at i:39360527 original size:9 final size:9
Alignment explanation
Indices: 39360513--39360634 Score: 109
Period size: 9 Copynumber: 12.9 Consensus size: 9
39360503 ATGTATTAGT
39360513 TAAGTTATG
1 TAAGTTATG
39360522 TAAGTTGTTATG
1 TAA---GTTATG
*
39360534 TACGTTATG
1 TAAGTTATG
*
39360543 TGAGTTATG
1 TAAGTTATG
*
39360552 TAAATTATG
1 TAAGTTATG
39360561 TAAGTTATG
1 TAAGTTATG
*
39360570 TAAATTATG
1 TAAGTTATG
39360579 TAAGTTGTTATG
1 TAA---GTTATG
* *
39360591 TAAATTACG
1 TAAGTTATG
*
39360600 TAAGTTATA
1 TAAGTTATG
*
39360609 TGAGTTATG
1 TAAGTTATG
39360618 TAAGTTATG
1 TAAGTTATG
*
39360627 TAATTTAT
1 TAAGTTAT
39360635 TGAAGTAATG
Statistics
Matches: 90, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
9 74 0.82
12 16 0.18
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:39360589 original size:48 final size:48
Alignment explanation
Indices: 39360537--39360629 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
39360527 TGTTATGTAC
* * * *
39360537 GTTATGTGAGTTATGTAAATTATGTAAGTTATGTAAATTATGTAAGTT
1 GTTATGTAAATTACGTAAATTATATAAGTTATGTAAATTATGTAAGTT
* * *
39360585 GTTATGTAAATTACGTAAGTTATATGAGTTATGTAAGTTATGTAA
1 GTTATGTAAATTACGTAAATTATATAAGTTATGTAAATTATGTAA
39360630 TTTATTGAAG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.34, C:0.01, G:0.20, T:0.44
Consensus pattern (48 bp):
GTTATGTAAATTACGTAAATTATATAAGTTATGTAAATTATGTAAGTT
Found at i:39360589 original size:57 final size:57
Alignment explanation
Indices: 39360517--39360634 Score: 164
Period size: 57 Copynumber: 2.1 Consensus size: 57
39360507 ATTAGTTAAG
** * * *
39360517 TTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATGTAAA
1 TTATGTAAGTTGTTATGTAAATTACGTAAGTTATATAAATTATGTAAGTTATGTAAA
* * *
39360574 TTATGTAAGTTGTTATGTAAATTACGTAAGTTATATGAGTTATGTAAGTTATGTAAT
1 TTATGTAAGTTGTTATGTAAATTACGTAAGTTATATAAATTATGTAAGTTATGTAAA
39360631 TTAT
1 TTAT
39360635 TGAAGTAATG
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (57 bp):
TTATGTAAGTTGTTATGTAAATTACGTAAGTTATATAAATTATGTAAGTTATGTAAA
Found at i:39367046 original size:28 final size:28
Alignment explanation
Indices: 39366989--39367141 Score: 231
Period size: 28 Copynumber: 5.5 Consensus size: 28
39366979 TAAATTGTGC
* *
39366989 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
39367016 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
39367044 AGCACTAAGTGTGCGAGTTTGACTT-TGT
1 AGCACTAAGTGTGCGAGTTTGA-TTATGT
39367072 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* *
39367100 AGCACTAGGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
39367127 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39367142 GACTTAATAT
Statistics
Matches: 117, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
27 40 0.34
28 75 0.64
29 2 0.02
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:39367131 original size:83 final size:83
Alignment explanation
Indices: 39366989--39367141 Score: 245
Period size: 83 Copynumber: 1.8 Consensus size: 83
39366979 TAAATTGTGC
*
39366989 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGT
39367054 GTGCGAGTTTGACTTTGT
66 GTGCGAGTTTGACTTTGT
* * * *
39367072 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAGGTGTGCGAG-TTGATTATATAGCACTGAG
1 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAG
39367136 TGTGCG
65 TGTGCG
39367142 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
83 39 0.61
84 25 0.39
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.33
Consensus pattern (83 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGT
GTGCGAGTTTGACTTTGT
Found at i:39375201 original size:27 final size:28
Alignment explanation
Indices: 39375149--39375296 Score: 198
Period size: 27 Copynumber: 5.5 Consensus size: 28
39375139 TTAAATTGCA
* *
39375149 CACTAAGTGTGCGA-ATT-ACTATGTAG
1 CACTAAGTGTGCGAGTTTGATTATGTAG
39375175 CACTAAG-GTGCGAGTTTGATTATGTAG
1 CACTAAGTGTGCGAGTTTGATTATGTAG
*
39375202 CACTAAGTGTGCGAGTTTGACTATGTAG
1 CACTAAGTGTGCGAGTTTGATTATGTAG
39375230 CACTAAG-GTGCGAGTTTGATTATGTAG
1 CACTAAGTGTGCGAGTTTGATTATGTAG
* * *
39375257 CACTAGGTGTGCGAG-CTGATTATATAG
1 CACTAAGTGTGCGAGTTTGATTATGTAG
*
39375284 CACTGAGTGTGCG
1 CACTAAGTGTGCG
39375297 GACTTAATAT
Statistics
Matches: 109, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
25 6 0.06
26 9 0.08
27 61 0.56
28 33 0.30
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTGATTATGTAG
Found at i:39375234 original size:55 final size:54
Alignment explanation
Indices: 39375149--39375271 Score: 212
Period size: 55 Copynumber: 2.3 Consensus size: 54
39375139 TTAAATTGCA
39375149 CACTAAGTGTGCGA-ATTACTATGTAGCACTAAGGTGCGAGTTTGATTATGTAG
1 CACTAAGTGTGCGAGATTACTATGTAGCACTAAGGTGCGAGTTTGATTATGTAG
*
39375202 CACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGGTGCGAGTTTGATTATGTAG
1 CACTAAGTGTGCGAGATT-ACTATGTAGCACTAAGGTGCGAGTTTGATTATGTAG
*
39375257 CACTAGGTGTGCGAG
1 CACTAAGTGTGCGAG
39375272 CTGATTATAT
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
53 14 0.21
54 2 0.03
55 50 0.76
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (54 bp):
CACTAAGTGTGCGAGATTACTATGTAGCACTAAGGTGCGAGTTTGATTATGTAG
Found at i:39375296 original size:55 final size:55
Alignment explanation
Indices: 39375149--39375296 Score: 203
Period size: 55 Copynumber: 2.7 Consensus size: 55
39375139 TTAAATTGCA
* *
39375149 CACTAAGTGTGCGAAT-T-ACTATGTAGCACTAAGGTGCGAGTTTGATTATGTAG
1 CACTAAGTGTGCGAGTCTGACTATATAGCACTAAGGTGCGAGTTTGATTATGTAG
* *
39375202 CACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGGTGCGAGTTTGATTATGTAG
1 CACTAAGTGTGCGAGTCTGACTATATAGCACTAAGGTGCGAGTTTGATTATGTAG
* * *
39375257 CACTAGGTGTGCGAG-CTGATTATATAGCACTGAGTGTGCG
1 CACTAAGTGTGCGAGTCTGACTATATAGCACTAAG-GTGCG
39375297 GACTTAATAT
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
53 15 0.17
54 16 0.19
55 55 0.64
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
CACTAAGTGTGCGAGTCTGACTATATAGCACTAAGGTGCGAGTTTGATTATGTAG
Found at i:39387603 original size:28 final size:28
Alignment explanation
Indices: 39387546--39387725 Score: 276
Period size: 28 Copynumber: 6.5 Consensus size: 28
39387536 TAAATTGTGC
* *
39387546 AGCACTAAGTGTGTGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
39387573 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
39387601 AGCACTAAGTGTGCGAGTTTAACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
39387629 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
39387656 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
39387684 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
39387711 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39387726 GACTTAATAT
Statistics
Matches: 144, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
27 64 0.44
28 80 0.56
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:39387611 original size:55 final size:55
Alignment explanation
Indices: 39387546--39387725 Score: 281
Period size: 55 Copynumber: 3.3 Consensus size: 55
39387536 TAAATTGTGC
* *
39387546 AGCACTAAGTGTGTGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATGT
*
39387601 AGCACTAAGTGTGCGAGTTTAACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
* * *
39387656 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
*
39387711 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39387726 GACTTAATAT
Statistics
Matches: 116, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
55 90 0.78
56 26 0.22
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
Found at i:39387661 original size:83 final size:83
Alignment explanation
Indices: 39387521--39387725 Score: 297
Period size: 83 Copynumber: 2.5 Consensus size: 83
39387511 GAGATTGGCG
* *
39387521 CTAAGTGTGCGGGTTTAAAT-TGTGCAGCACTAAGTGTGTGAATTGACTATGTAGCACTAAGTGT
1 CTAAGTGTGCGAGTTTAAATATGT--AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGT
39387585 GCGAGTTTGACTATGTAGCA
64 GCGAGTTTGACTATGTAGCA
* *
39387605 CTAAGTGTGCGAGTTTAACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGC
1 CTAAGTGTGCGAGTTTAAATATGTAGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGC
*
39387670 GAGTTTGATTATGTAGCA
66 GAGTTTGACTATGTAGCA
* * * *
39387688 CTAAGTGTGCGAG-TTGATTATATAGCACTGAGTGTGCG
1 CTAAGTGTGCGAGTTTAAATATGTAGCACTAAGTGTGCG
39387726 GACTTAATAT
Statistics
Matches: 111, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
82 21 0.19
83 69 0.62
84 18 0.16
85 3 0.03
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (83 bp):
CTAAGTGTGCGAGTTTAAATATGTAGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGC
GAGTTTGACTATGTAGCA
Found at i:39392552 original size:48 final size:48
Alignment explanation
Indices: 39392485--39392714 Score: 222
Period size: 48 Copynumber: 4.9 Consensus size: 48
39392475 CACATAGTAA
* * *
39392485 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGAATCACATCTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGAATCACATATC
* * *
39392533 GATGCCAATGCCATGTCCCAAACATGGTCTTACAT-GATGTCTCATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGA-ATCACATATC
* * * * * *
39392581 ---G---ATGCCATGTCCCAAACATGGTTTTAAACGAAATCACATATA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGAATCACATATC
** * * * *
39392623 GATATCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATG
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGAATCACATATC
* *
39392671 GATGCCAATGCCATGTCCTAGACATGGTCTTACATGGTATCACA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGAATCACA
39392715 CATAACCCTA
Statistics
Matches: 145, Mismatches: 29, Indels: 16
0.76 0.15 0.08
Matches are distributed among these distances:
42 32 0.22
43 1 0.01
45 1 0.01
47 2 0.01
48 109 0.75
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGAATCACATATC
Found at i:39392621 original size:42 final size:42
Alignment explanation
Indices: 39392540--39392621 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
39392530 CTCGATGCCA
* * ** *
39392540 ATGCCATGTCCCAAACATGGTCTTACATGATGTCTCATATCG
1 ATGCCATGTCCCAAACATGGTCTTAAACGAAATCACATATCG
*
39392582 ATGCCATGTCCCAAACATGGTTTTAAACGAAATCACATAT
1 ATGCCATGTCCCAAACATGGTCTTAAACGAAATCACATAT
39392622 AGATATCAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGCCATGTCCCAAACATGGTCTTAAACGAAATCACATATCG
Found at i:39394215 original size:48 final size:48
Alignment explanation
Indices: 39394142--39394473 Score: 246
Period size: 48 Copynumber: 6.9 Consensus size: 48
39394132 GCCAGTTGGG
* *
39394142 TGATATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCA
* * * * *
39394190 TGATATGAGAGCTAGTGTAAAACCATGTTTGGAACATGGCATC-AGCGA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CCA
* * *
39394238 TGTTATGAAAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-AGCA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCA
* * * * **
39394285 TTGATATGTGCA-CTAGTGTAAGACCATGTATGGAACATGGCATCGGGCA
1 -TGATATGAG-AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCA
* * * * * *
39394334 T-ATTATGAAAGCCAATGTAAGACAATTTCTAGGACATGGCGTCGGA--A
1 TGA-TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACCA
* * * * * *
39394381 TTGAGATGAGATCTAGTGTAAGACCATGTTTGGGACATGGTATAGACC-
1 -TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCA
* * * * * *
39394429 TCGACATGTGAGCCAGTGTAATACCATGTTTGGAACATGGTATCG
1 T-GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
39394474 GTAATTCACC
Statistics
Matches: 220, Mismatches: 52, Indels: 24
0.74 0.18 0.08
Matches are distributed among these distances:
47 8 0.04
48 206 0.94
49 6 0.03
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (48 bp):
TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCA
Found at i:39394319 original size:96 final size:96
Alignment explanation
Indices: 39394152--39394420 Score: 346
Period size: 96 Copynumber: 2.8 Consensus size: 96
39394142 TGATATGTGT
* *
39394152 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCA-TGATATGAGAGCTAGTGTAAAACCAT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-AGCATTGATATGAGAGCTAGTGTAAGACCAT
*
39394216 GTTTGGAACATGGCATCAGCG-ATGTTATGAAA
65 GTTTGGAACATGGCATC-GCGCATATTATGAAA
*
39394248 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGATATGTGCA-CTAGTGTAAGACCAT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGATATGAG-AGCTAGTGTAAGACCAT
* *
39394312 GTATGGAACATGGCATCGGGCATATTATGAAA
65 GTTTGGAACATGGCATCGCGCATATTATGAAA
* * * * * * * * *
39394344 GCCAATGTAAGACAATTTCTAGGACATGGCGTCGGAATTGAGATGAGATCTAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGATATGAGAGCTAGTGTAAGACCATG
*
39394409 TTTGGGACATGG
66 TTTGGAACATGG
39394421 TATAGACCTC
Statistics
Matches: 152, Mismatches: 17, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
95 6 0.04
96 145 0.95
97 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (96 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGATATGAGAGCTAGTGTAAGACCATG
TTTGGAACATGGCATCGCGCATATTATGAAA
Found at i:39395426 original size:31 final size:31
Alignment explanation
Indices: 39395388--39395451 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
39395378 CCTTTTCATA
*
39395388 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
**
39395419 TTTCATATTTCATATTACTAGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
39395450 TT
1 TT
39395452 ACTGTAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCGAAGCCT
Found at i:39395698 original size:24 final size:24
Alignment explanation
Indices: 39395645--39395812 Score: 180
Period size: 25 Copynumber: 7.0 Consensus size: 24
39395635 GCTTTATCAT
*
39395645 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* * *
39395670 GTAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
* *
39395694 ATAACTGGGGCATAAGCCCCTTATC
1 ATAACTGGGGCATAAG-CCCTTTTA
* * *
39395719 GTAACTGGGGCATAAGCCCTTCATC
1 ATAACTGGGGCATAAGCCCTT-TTA
*
39395744 ATAACTAGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
39395767 ATAACTAGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
39395790 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
39395813 GCACTTCCTC
Statistics
Matches: 125, Mismatches: 14, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
23 42 0.34
24 31 0.25
25 52 0.42
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:39395723 original size:49 final size:48
Alignment explanation
Indices: 39395644--39395808 Score: 183
Period size: 49 Copynumber: 3.4 Consensus size: 48
39395634 TGCTTTATCA
* * *
39395644 TATAACTGGAGGCCT-AGCCTCTTTTAGTAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CCTTTAGTAACTGGGGCATAAGCCCTTTT
* *
39395693 TATAACTGGGGCATAAGCCCCTTATCGTAACTGGGGCATAAGCCCTTCAT
1 TATAACTGGGGCATAAGCCCCTT-TAGTAACTGGGGCATAAGCCCTT-TT
* * * *
39395743 CATAACTAGGGCATAAG-CCCTTTAATAACTAGGGCATAAGCCC-TTT
1 TATAACTGGGGCATAAGCCCCTTTAGTAACTGGGGCATAAGCCCTTTT
*
39395789 AATAACTGGGGCATAAGCCC
1 TATAACTGGGGCATAAGCCC
39395809 TTTTGCACTT
Statistics
Matches: 99, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
46 16 0.16
47 3 0.03
48 25 0.25
49 39 0.39
50 16 0.16
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.26
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCCTTTAGTAACTGGGGCATAAGCCCTTTT
Found at i:39395774 original size:23 final size:23
Alignment explanation
Indices: 39395666--39395811 Score: 175
Period size: 23 Copynumber: 6.1 Consensus size: 23
39395656 CCTAGCCTCT
* *
39395666 TTTAGTAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
39395689 TTTTTATAACTGGGGCATAAGCCCC
1 -TTTAATAACTGGGGCATAAG-CCC
**
39395714 TTATCGTAACTGGGGCATAAGCCC
1 TT-TAATAACTGGGGCATAAGCCC
* *
39395738 TTCATCATAACTAGGGCATAAGCCC
1 TT--TAATAACTGGGGCATAAGCCC
*
39395763 TTTAATAACTAGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
39395786 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
39395809 TTT
1 TTT
39395812 TGCACTTCCT
Statistics
Matches: 110, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
23 45 0.41
24 24 0.22
25 41 0.37
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:39395953 original size:25 final size:25
Alignment explanation
Indices: 39395925--39395972 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
39395915 ATATATAAAC
* * *
39395925 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
39395950 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
39395973 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:39397166 original size:27 final size:27
Alignment explanation
Indices: 39397131--39397187 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
39397121 GGGCATATTC
*
39397131 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCATACAGGGGCT-TTACG
*
39397158 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
39397185 GTC
1 GTC
39397188 TTTTACCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCTTTACG
Found at i:39397279 original size:27 final size:27
Alignment explanation
Indices: 39397252--39397584 Score: 167
Period size: 27 Copynumber: 12.3 Consensus size: 27
39397242 ATCTACTAAC
* *
39397252 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTATAAAT
* *
39397279 CAATGGTATTTCTA-TAATTTTTAGAAAGT
1 CAAGGGTATTTC-AGTAA-TTTTATAAA-T
* * *
39397308 CAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTATAAAT
* ** *
39397335 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTATAAAT
* * * *
39397362 TATGGGTATTTC-GATAATTTCACAAA-
1 CAAGGGTATTTCAG-TAATTTTATAAAT
* ** *
39397388 CCAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTCAGTAATTTTATAAAT
* ** *
39397415 CTAGGGGTATTTTGGTAATTTTACAAAT
1 C-AAGGGTATTTCAGTAATTTTATAAAT
** * * *
39397443 TGAGGGTATTTCTGTAATTTTACAAAC
1 CAAGGGTATTTCAGTAATTTTATAAAT
* * *
39397470 CAAGGGTATTTTAGCAATTTTATAGA-
1 CAAGGGTATTTCAGTAATTTTATAAAT
* *
39397496 CTAGGGTAGTTT-AGTAATTTTGTAAAT
1 CAAGGGTA-TTTCAGTAATTTTATAAAT
* *** * *
39397523 CGAGGGTAAAACAGTAATTCTGTAAAT
1 CAAGGGTATTTCAGTAATTTTATAAAT
** *
39397550 CAAGGGTAAAAT-AGTAATTCTATAAAT
1 CAAGGGT-ATTTCAGTAATTTTATAAAT
39397577 CAAGGGTA
1 CAAGGGTA
39397585 AACGGTACTT
Statistics
Matches: 242, Mismatches: 51, Indels: 27
0.76 0.16 0.08
Matches are distributed among these distances:
26 21 0.09
27 188 0.78
28 19 0.08
29 14 0.06
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTATAAAT
Found at i:39397432 original size:81 final size:81
Alignment explanation
Indices: 39397336--39397530 Score: 245
Period size: 81 Copynumber: 2.4 Consensus size: 81
39397326 TTTGTAAATC
39397336 AGGGGTATTTTGGTAATTTTACAAATT-ATGGGTATTTC-GATAATTTCACAAACC-AGTGGTAT
1 AGGGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCTG-TAATTTCACAAACCAAG-GGTAT
* *
39397398 TTTGGTAATTTTACAAACT
63 TTTAGCAATTTTACAAACT
*
39397417 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTCACAAACCAAGGGTATTTT
* *
39397482 AGCAATTTTATAGACT
66 AGCAATTTTACAAACT
* * ** *
39397498 A-GGGTAGTTTAGTAATTTTGTAAATCGAGGGTA
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTA
39397531 AAACAGTAAT
Statistics
Matches: 101, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
80 27 0.27
81 70 0.69
82 4 0.04
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTCACAAACCAAGGGTATTTT
AGCAATTTTACAAACT
Found at i:39397620 original size:53 final size:54
Alignment explanation
Indices: 39397508--39397630 Score: 149
Period size: 53 Copynumber: 2.3 Consensus size: 54
39397498 AGGGTAGTTT
* * *
39397508 AGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTATGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAAC
* * * * * *
39397562 AGTAATTCTATAAATCAAGGGT-AAACGGTACTTCTGTAAATCGAGTGTAAAAC
1 AGTAATTATGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAAC
*
39397615 GGTAATTATGTAAATC
1 AGTAATTATGTAAATC
39397631 GGGGTACTTT
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
53 39 0.67
54 19 0.33
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.30
Consensus pattern (54 bp):
AGTAATTATGTAAATCAAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAAC
Found at i:39397631 original size:27 final size:27
Alignment explanation
Indices: 39397508--39397636 Score: 154
Period size: 27 Copynumber: 4.9 Consensus size: 27
39397498 AGGGTAGTTT
*
39397508 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
39397535 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
39397562 AGTAATTCTATAAATCAAGGGT-AAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
39397588 GGTACTTCTGTAAATCGAGTGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
39397615 GGTAATTATGTAAATCG-GGGTA
1 AGTAATTCTGTAAATCGAGGGTA
39397637 CTTTGGTAAT
Statistics
Matches: 88, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
26 24 0.27
27 64 0.73
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:39406428 original size:21 final size:21
Alignment explanation
Indices: 39406404--39406445 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
39406394 TCATCAGATC
*
39406404 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
39406425 TACAGGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
39406446 AGGTGGGGGA
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:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:39409996 original size:37 final size:37
Alignment explanation
Indices: 39409937--39410045 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
39409927 AGCTCAGACG
* *
39409937 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
39409974 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
39410011 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
39410046 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:39410308 original size:98 final size:96
Alignment explanation
Indices: 39410192--39410375 Score: 298
Period size: 98 Copynumber: 1.9 Consensus size: 96
39410182 GCACATCGCC
* * *
39410192 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACAATAGCCATTCAGCTTTACCACATATACATATCTC--ATACATATTTCACATT
39410257 -GACCATTCGGCTTTACCACATATGCATATCTCA
64 AG-CCATTCGGCTTTACCACATATGCATATCTCA
*
39410290 TACATATTTCACAATAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTCGCATTAG
1 TACATATTTCACAATAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTCACATTAG
39410355 CCATTCGGCTTTACCACATAT
66 CCATTCGGCTTTACCACATAT
39410376 ATACATGTTC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
96 35 0.43
97 1 0.01
98 45 0.56
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (96 bp):
TACATATTTCACAATAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATGCATATCTCA
Found at i:39410318 original size:48 final size:48
Alignment explanation
Indices: 39410192--39410376 Score: 273
Period size: 48 Copynumber: 3.8 Consensus size: 48
39410182 GCACATCGCC
*
39410192 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACAATAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
39410242 TATATATTTCAC-ATTGACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACAATAG-CCATTCGGCTTTACCACATATACATATCTCA
*
39410290 TACATATTTCACAATAGCCATTCAGCTTTACCACATATACATATCTCA
1 TACATATTTCACAATAGCCATTCGGCTTTACCACATATACATATCTCA
* *
39410338 TACATATTTCGCATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACAATAGCCATTCGGCTTTACCACATATA
39410377 TACATGTTCA
Statistics
Matches: 122, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
48 77 0.63
49 5 0.04
50 40 0.33
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.35
Consensus pattern (48 bp):
TACATATTTCACAATAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:39410439 original size:47 final size:47
Alignment explanation
Indices: 39410349--39410539 Score: 265
Period size: 47 Copynumber: 4.1 Consensus size: 47
39410339 ACATATTTCG
* * * * * *
39410349 CATTAGCCATTCGGCTTTACCACATATATACATGTTCATATTCACCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
39410396 CATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
39410443 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * ** *
39410490 CATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
39410537 CAT
1 CAT
39410540 AAAATCCTAA
Statistics
Matches: 129, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 129 1.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:39410466 original size:22 final size:22
Alignment explanation
Indices: 39410439--39410510 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
39410429 GCTCACATTC
39410439 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
39410461 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
39410485 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
39410508 ATC
1 ATC
39410511 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:39419704 original size:96 final size:94
Alignment explanation
Indices: 39419526--39419802 Score: 299
Period size: 96 Copynumber: 2.9 Consensus size: 94
39419516 CGTGATATGT
* ** * *
39419526 GTGCCAGTGTAAGACCATGTCTGGGTCATGGCATTTGCCATGAT-ATGAGAGCCACTGTAAGACC
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CATCATGAGAGCCAGTGTAAGACC
* *
39419590 ATGTTTGGAACATGGCATCGACGATGTTGTGAC
65 ATGTTTGGAACATGGCATC-A-G-TATTGAGAC
* *
39419623 -TGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACATCATGAGAGCTAGTGTAAGACCA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATCATGAGAGCCAGTGTAAGACCA
* * *
39419687 TGTCTGGGACATAGCATCAGTATTGAGAC
66 TGTTTGGAACATGGCATCAGTATTGAGAC
* * ** * **
39419716 GAGAGCTAGTGTAAGAATATGTCTGGGACATGGCATCGGCCTTCA-CATGTTAGCCAGTGTAAGA
1 --GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCC-ACATCATGAGAGCCAGTGTAAGA
39419780 CCATGTTTGGAACATGGCATCAG
63 CCATGTTTGGAACATGGCATCAG
39419803 CAATTCACCA
Statistics
Matches: 151, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
93 7 0.05
94 1 0.01
95 3 0.02
96 138 0.91
97 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (94 bp):
GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATCATGAGAGCCAGTGTAAGACCA
TGTTTGGAACATGGCATCAGTATTGAGAC
Found at i:39419800 original size:48 final size:48
Alignment explanation
Indices: 39419528--39419800 Score: 226
Period size: 48 Copynumber: 5.7 Consensus size: 48
39419518 TGATATGTGT
* ** * *
39419528 GCCAGTGTAAGACCATGTCTGGGTCATGGCATTTGCCATGATATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATCACATGAGA
* * * * * **** **
39419576 GCCACTGTAAGACCATGTTTGGAACATGGCATCGACGATGTTGTGACT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATCACATGAGA
*
39419624 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCA-CATCATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATCA-CATGAGA
* * * * * * *
39419672 GCTAGTGTAAGACCATGTCTGGGACATAGCATCAG-TATTGAGACGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-TCACATGAGA
* ** * **
39419720 GCTAGTGTAAGAATATGTCTGGGACATGGCATCGGCCTTCACATGTTA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATCACATGAGA
* *
39419768 GCCAGTGTAAGACCATGTTTGGAACATGGCATC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
39419801 AGCAATTCAC
Statistics
Matches: 173, Mismatches: 48, Indels: 8
0.76 0.21 0.03
Matches are distributed among these distances:
47 1 0.01
48 171 0.99
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATCACATGAGA
Found at i:39424657 original size:93 final size:93
Alignment explanation
Indices: 39424545--39424716 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
39424535 GCCCATAAGT
* *
39424545 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAGCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACAGCCATAAGTGAACTCAGACTCAACTCAA
39424610 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
39424638 GAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACAGCCATAAGTGAACTCAGACTCAACTCAA
*
39424703 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
39424717 CAAATATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACAGCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:39424712 original size:46 final size:46
Alignment explanation
Indices: 39424537--39424712 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
39424527 TGTAACCCGC
* * *
39424537 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
*
39424583 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCACAT
* *
39424633 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
*
39424676 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
39424713 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 8, Indels: 22
0.79 0.06 0.16
Matches are distributed among these distances:
42 3 0.03
43 7 0.06
44 1 0.01
46 64 0.58
47 27 0.24
49 1 0.01
50 5 0.05
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
Found at i:39427142 original size:15 final size:15
Alignment explanation
Indices: 39427104--39427171 Score: 88
Period size: 15 Copynumber: 4.7 Consensus size: 15
39427094 GAACAAAGAT
*
39427104 AATAAGGAAA-CC-G
1 AATAAAGAAATCCAG
39427117 AATAAAGAAATCCA-
1 AATAAAGAAATCCAG
*
39427131 AGATAGAGAAATCCAG
1 A-ATAAAGAAATCCAG
39427147 AATAAAGAAATCCAG
1 AATAAAGAAATCCAG
39427162 AATAAAGAAA
1 AATAAAGAAA
39427172 CCCAAGATAC
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
13 9 0.19
14 3 0.06
15 35 0.73
16 1 0.02
ACGTcount: A:0.60, C:0.12, G:0.16, T:0.12
Consensus pattern (15 bp):
AATAAAGAAATCCAG
Found at i:39428824 original size:40 final size:40
Alignment explanation
Indices: 39428779--39428982 Score: 286
Period size: 40 Copynumber: 5.1 Consensus size: 40
39428769 GCCATCAGGT
* *
39428779 CTTAGCCCGG-ATATGGTCACTAGCACAAATGCCTTCGGGA
1 CTTAGCCCGGAAT-TAGTAACTAGCACAAATGCCTTCGGGA
*
39428819 CTTAGCCCGG-ATATAGTAACTTGCACAAATGCCTTCGGGA
1 CTTAGCCCGGAAT-TAGTAACTAGCACAAATGCCTTCGGGA
*
39428859 CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA
1 CTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGA
* *
39428899 CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTTGGGA
1 CTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGA
* * * *
39428939 CTTAGCCCAGAATTAATCACTAGCACAAATGTCTTCGGGA
1 CTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGA
39428979 CTTA
1 CTTA
39428983 ACCCTGTTAG
Statistics
Matches: 152, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 150 0.99
41 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGA
Found at i:39437184 original size:40 final size:39
Alignment explanation
Indices: 39437134--39437342 Score: 292
Period size: 40 Copynumber: 5.3 Consensus size: 39
39437124 TGCAAGGCCA
* * * *
39437134 TCGGGTCTTAGCCCGGATATGGTCACTAGCACAAATGCCT
1 TCGGGACTTAGCCCGGA-ATAGTAACTCGCACAAATGCCT
39437174 TCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGA-ATAGTAACTCGCACAAATGCCT
*
39437214 TCGGGACTTAGCTCGGAATAGTAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGAATAGTAACTCGCACAAATGCCT
39437253 TCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGAA-TAGTAACTCGCACAAATGCCT
* * * *
39437293 TCGGGACTTAGCCCGGAATTAATCACTAGCACAAATGTCT
1 TCGGGACTTAGCCCGGAA-TAGTAACTCGCACAAATGCCT
*
39437333 TTGGGACTTA
1 TCGGGACTTA
39437343 ACCCCGTTAG
Statistics
Matches: 157, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
39 39 0.25
40 118 0.75
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (39 bp):
TCGGGACTTAGCCCGGAATAGTAACTCGCACAAATGCCT
Found at i:39437251 original size:79 final size:79
Alignment explanation
Indices: 39437134--39437342 Score: 312
Period size: 79 Copynumber: 2.6 Consensus size: 79
39437124 TGCAAGGCCA
* *
39437134 TCGGGTCTTAGCCCGGATATGGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG-ATATAGTA
1 TCGGGACTTAGCCCGGA-ATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
39437198 ACTCGCACAAATGCCT
64 ACTCGCACAAATGCCT
* * *
39437214 TCGGGACTTAGCTCGGAATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAAC
1 TCGGGACTTAGCCCGGAATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAAC
39437279 TCGCACAAATGCCT
66 TCGCACAAATGCCT
* * *
39437293 TCGGGACTTAGCCCGGAATTAATCACTAGCACAAATGTCTTTGGGACTTA
1 TCGGGACTTAGCCCGGAA-TAGTCACTAGCACAAATGCCTTCGGGACTTA
39437343 ACCCCGTTAG
Statistics
Matches: 116, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
79 73 0.63
80 43 0.37
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (79 bp):
TCGGGACTTAGCCCGGAATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAAC
TCGCACAAATGCCT
Found at i:39442105 original size:93 final size:93
Alignment explanation
Indices: 39441977--39442148 Score: 276
Period size: 93 Copynumber: 1.8 Consensus size: 93
39441967 GCCCATAAGT
* *
39441977 GAACTCGGACTCAACTCAAAGAGCTCGAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAAAGAGCTCGAGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
39442042 CGAGCTT-GGATGCCTAGTTACATCTCTC
66 CGAG-TTCGGATGCCTAGTTACATCTCTC
* *
39442070 GAACTCGGACTCAACTCAACGAGTTCG-GACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 GAACTCGGACTCAACTCAAAGAGCTCGAG-CATTCGCATCCATAAGTGAACTCAGACTCAACTCA
39442134 ACGAGTTCGGATGCC
65 ACGAGTTCGGATGCC
39442149 CAAATATCCT
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
92 3 0.04
93 70 0.96
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAAAGAGCTCGAGCATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCTC
Found at i:39442139 original size:46 final size:46
Alignment explanation
Indices: 39441969--39442144 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
39441959 TGTAACCCGC
* * *
39441969 CCATAAGTGAACTCGGACTCAACTCAAAGAGCTC-GAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCAT
*
39442015 CCATAAGTGAACTCGGACTCAACTCAACGAGCTT-GG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGC-A--T
* ***
39442061 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
39442108 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
39442145 TGCCCAAATA
Statistics
Matches: 106, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 65 0.61
47 32 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:39444425 original size:15 final size:13
Alignment explanation
Indices: 39444394--39444425 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
39444384 ACACACAGGC
39444394 GTGTGTCTTGGCA
1 GTGTGTCTTGGCA
*
39444407 GTGTGTCTTGGCC
1 GTGTGTCTTGGCA
39444420 GTGTGT
1 GTGTGT
39444426 AACACAGAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.03, C:0.16, G:0.41, T:0.41
Consensus pattern (13 bp):
GTGTGTCTTGGCA
Found at i:39447681 original size:14 final size:14
Alignment explanation
Indices: 39447662--39447688 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
39447652 ATTTATACAT
39447662 ATTTTTACCCCATG
1 ATTTTTACCCCATG
39447676 ATTTTTACCCCAT
1 ATTTTTACCCCAT
39447689 CGACAGAGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.30, G:0.04, T:0.44
Consensus pattern (14 bp):
ATTTTTACCCCATG
Found at i:39459111 original size:44 final size:42
Alignment explanation
Indices: 39458974--39459132 Score: 175
Period size: 44 Copynumber: 3.7 Consensus size: 42
39458964 AGCTCGTACA
*
39458974 ATGCCAACGTCCCAAACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAAACGTGGTCTTACACGTAAATC-AA-ATCG
39459017 ATGCC-ACTGTCCCAGATA-G-GGTCTTACACG-AAATCAAATACG
1 ATGCCAAC-GTCCCA-A-ACGTGGTCTTACACGTAAATCAAAT-CG
* * *
39459059 ATGCCAACGTCCTAGACGTGGTCTTACACGTAAATTATAAGTCG
1 ATGCCAACGTCCCAAACGTGGTCTTACACGTAAATCA-AA-TCG
39459103 ATGCCAACGTCCCAAACGTGGTCTTACACG
1 ATGCCAACGTCCCAAACGTGGTCTTACACG
39459133 AAAACACATA
Statistics
Matches: 99, Mismatches: 6, Indels: 21
0.79 0.05 0.17
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 27 0.27
43 32 0.32
44 34 0.34
45 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAAACGTGGTCTTACACGTAAATCAAATCG
Found at i:39462454 original size:96 final size:95
Alignment explanation
Indices: 39462314--39462688 Score: 461
Period size: 96 Copynumber: 3.9 Consensus size: 95
39462304 CCAATTAAAG
* * *
39462314 CACCAATGCCATGTCCCCA-ACATGGTCTTACATA-AATCCACATATCATCGCCAATGCCATGTC
1 CACCGATGCCATGT-CCCAGACATGGTCTTACACAGAA--CACATATCATCGCCGATGCCATGTC
* * * *
39462377 CCAAACATGGTCATACACTGGCACACATATTAT
63 CCAGACATGGTCTTACACAGGCACACATATCAT
* *
39462410 CACCGATGACATGTCCCAGACATGGTCTTACACAGGAACACATATCATCGTCGATGCCATGTCCC
1 CACCGATGCCATGTCCCAGACATGGTCTTACACA-GAACACATATCATCGCCGATGCCATGTCCC
*
39462475 AGACATGGTCTTACACAGGCACATATATCAT
65 AGACATGGTCTTACACAGGCACACATATCAT
* *
39462506 CACCGATGCCATGTCCCAGACATGGTCTTACACTAGCACATATATCATC-CCTGATGCCATGTCC
1 CACCGATGCCATGTCCCAGACATGGTCTTACAC-AGAACACATATCATCGCC-GATGCCATGTCC
* * *
39462570 TAGGCAT-GTCTTAAACAGGCACACATATCAT
64 CAGACATGGTCTTACACAGGCACACATATCAT
* * * * *
39462601 CATCGATCCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCTGATGCCATGTCCC
1 CACCGATGCCATGTCCCAGACATGGTCTTACACA-GAACACATATCATCGCCGATGCCATGTCCC
* *
39462666 CGACATGGTCTTACACAGTCACA
65 AGACATGGTCTTACACAGGCACA
39462689 TTTAGCACAG
Statistics
Matches: 245, Mismatches: 26, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
94 1 0.00
95 88 0.36
96 153 0.62
97 1 0.00
98 2 0.01
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.24
Consensus pattern (95 bp):
CACCGATGCCATGTCCCAGACATGGTCTTACACAGAACACATATCATCGCCGATGCCATGTCCCA
GACATGGTCTTACACAGGCACACATATCAT
Found at i:39462633 original size:143 final size:144
Alignment explanation
Indices: 39462355--39462689 Score: 487
Period size: 143 Copynumber: 2.3 Consensus size: 144
39462345 ATAAATCCAC
* * * * * *
39462355 ATATCATCGCCAATGCCATGTCCCAAACATGGTCATACACTGGCACACATATTATCACCGATGAC
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACATATATCATCACCGATGAC
* * *
39462420 ATGTCCCAGACATGGTCTTACACAGGAACACATATCATCGTCGATGCCATGTCCCAGACATGGTC
66 ATGTCCCAGACATGGTCTTAAACAGGAACACATATCATCATCGATCCCATGTCCCAGACATGGTC
39462485 TTACACAGGCACAT
131 TTACACAGGCACAT
* *
39462499 ATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACTAGCACATATATCATC-CCTGATGC
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACATATATCATCACC-GATGA
* * *
39462563 CATGTCCTAGGCAT-GTCTTAAACAGGCACACATATCATCATCGATCCCATGTCCCAGACATGGT
65 CATGTCCCAGACATGGTCTTAAACAGGAACACATATCATCATCGATCCCATGTCCCAGACATGGT
39462627 CTTACACAGGCACAT
130 CTTACACAGGCACAT
* *
39462642 ATATCATCGCTGATGCCATGTCCCCGACATGGTCTTACAC-AGTCACAT
1 ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CACAT
39462690 TTAGCACAGT
Statistics
Matches: 172, Mismatches: 17, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
142 2 0.01
143 105 0.61
144 65 0.38
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.24
Consensus pattern (144 bp):
ATATCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACATATATCATCACCGATGAC
ATGTCCCAGACATGGTCTTAAACAGGAACACATATCATCATCGATCCCATGTCCCAGACATGGTC
TTACACAGGCACAT
Found at i:39462689 original size:48 final size:48
Alignment explanation
Indices: 39462319--39462688 Score: 419
Period size: 48 Copynumber: 7.7 Consensus size: 48
39462309 TAAAGCACCA
* ** **
39462319 ATGCCATGTCCCCA-ACATGGTCTTACATAAATC-CACATATCATCGCCA
1 ATGCCATGT-CCCAGACATGGTCTTACA-CAGGCACACATATCATCGCTG
* * * * * *
39462367 ATGCCATGTCCCAAACATGGTCATACACTGGCACACATATTATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCTG
* *
39462415 ATGACATGTCCCAGACATGGTCTTACACAGGAACACATATCATCG-TCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCT-G
* * *
39462463 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCTG
* *
39462511 ATGCCATGTCCCAGACATGGTCTTACACTA-GCACATATATCATCCCTG
1 ATGCCATGTCCCAGACATGGTCTTACAC-AGGCACACATATCATCGCTG
* * * *
39462559 ATGCCATGTCCTAGGCAT-GTCTTAAACAGGCACACATATCATC-ATCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCT-G
* *
39462606 ATCCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCTG
* *
39462654 ATGCCATGTCCCCGACATGGTCTTACACAGTCACA
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACA
39462689 TTTAGCACAG
Statistics
Matches: 276, Mismatches: 37, Indels: 18
0.83 0.11 0.05
Matches are distributed among these distances:
46 2 0.01
47 42 0.15
48 230 0.83
49 2 0.01
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCGCTG
Found at i:39485738 original size:44 final size:42
Alignment explanation
Indices: 39485669--39485782 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 42
39485659 TGTGTTATCA
* * *
39485669 TGTAAGACCACGTATAGGACTTTGGCATCG-ACGTATGATTTACG
1 TGTAAGACCATGTCTAGGACATTGGCATCGTA--TATGATTT-CG
* *
39485713 TGTAAGACCATGTCTTGGACATTGGCATCGTATTTGATTTCG
1 TGTAAGACCATGTCTAGGACATTGGCATCGTATATGATTTCG
* * *
39485755 TGTAAGACCCTGTCTGGGACAGTGGCAT
1 TGTAAGACCATGTCTAGGACATTGGCAT
39485783 GATATTAGAT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 27 0.44
43 7 0.11
44 26 0.43
45 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTAGGACATTGGCATCGTATATGATTTCG
Found at i:39485769 original size:42 final size:42
Alignment explanation
Indices: 39485704--39485815 Score: 127
Period size: 42 Copynumber: 2.6 Consensus size: 42
39485694 CATCGACGTA
* *
39485704 TGATTTACGTGTAAGACCATGTCTTGGACATTGGCATCG-TATT
1 TGATTT-CGTGTAAGACCATGTCTGGGACAGTGGCAT-GATATT
*
39485747 TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATGATATT
1 TGATTTCGTGTAAGACCATGTCTGGGACAGTGGCATGATATT
* * * * *
39485789 AGATTACATGTAAGACCACGTCAGGGA
1 TGATTTCGTGTAAGACCATGTCTGGGA
39485816 TGTTGGCATT
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
41 1 0.02
42 52 0.88
43 6 0.10
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATGTCTGGGACAGTGGCATGATATT
Found at i:39486584 original size:33 final size:32
Alignment explanation
Indices: 39486530--39486595 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 32
39486520 GAATTATGGA
*
39486530 TATTATGGTTATAAATCATATGTTTTGGTATG
1 TATTATGGTTATAAATCATATGATTTGGTATG
*
39486562 TATT-TGGCTTATAGAATGATATGATTTGGTATG
1 TATTATGG-TTATA-AATCATATGATTTGGTATG
39486595 T
1 T
39486596 GTTTCAAGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
31 3 0.10
32 9 0.30
33 18 0.60
ACGTcount: A:0.27, C:0.03, G:0.21, T:0.48
Consensus pattern (32 bp):
TATTATGGTTATAAATCATATGATTTGGTATG
Found at i:39495326 original size:5 final size:5
Alignment explanation
Indices: 39495318--39495346 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
39495308 AAAATAAAAA
39495318 TTATT TTATT TTATT TTATT TTATT TTAT
1 TTATT TTATT TTATT TTATT TTATT TTAT
39495347 AGTTGGGATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:39498874 original size:51 final size:50
Alignment explanation
Indices: 39498797--39498938 Score: 154
Period size: 51 Copynumber: 3.0 Consensus size: 50
39498787 CTACCTCATA
* *
39498797 ACATGTATACATCCATAATGAACTCAGACCTTTCAACGAGCTCAGATGTT
1 ACATGAATACATCCATAATGAACTCAGACCTCTCAACGAGCTCAGATGTT
* *
39498847 ACATGAATCACATCCATTATGACCTCAGACCTCTCAACGAGCTCAGA---T
1 ACATGAAT-ACATCCATAATGAACTCAGACCTCTCAACGAGCTCAGATGTT
* * * *
39498895 AC-T--A-GCATCTATAATGAACTCAGACCTCTCAATGAGCTCGGATG
1 ACATGAATACATCCATAATGAACTCAGACCTCTCAACGAGCTCAGATG
39498939 CCACATAGAT
Statistics
Matches: 79, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
43 32 0.41
45 1 0.01
47 1 0.01
48 3 0.04
50 7 0.09
51 35 0.44
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (50 bp):
ACATGAATACATCCATAATGAACTCAGACCTCTCAACGAGCTCAGATGTT
Found at i:39501831 original size:15 final size:15
Alignment explanation
Indices: 39501812--39501856 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
39501802 AACCAGGATT
*
39501812 AAGAAGTCCAAGATA
1 AAGAAATCCAAGATA
*
39501827 GAGAAATCCAAGATA
1 AAGAAATCCAAGATA
*
39501842 AAGAAATCTAAGATA
1 AAGAAATCCAAGATA
39501857 CAATATCATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.56, C:0.11, G:0.18, T:0.16
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:39504315 original size:33 final size:33
Alignment explanation
Indices: 39504273--39504338 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
39504263 TTTATCAAGT
*
39504273 AGCTTCAATCAACATCAAGGATTCATGTTCAAA
1 AGCTTCAATCAACATCAAGGATTCAAGTTCAAA
*
39504306 AGCTTCAATCAACATCAAGTATTCAAGTTCAAA
1 AGCTTCAATCAACATCAAGGATTCAAGTTCAAA
39504339 CATTATCAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.27
Consensus pattern (33 bp):
AGCTTCAATCAACATCAAGGATTCAAGTTCAAA
Found at i:39505867 original size:43 final size:42
Alignment explanation
Indices: 39505803--39505890 Score: 140
Period size: 43 Copynumber: 2.1 Consensus size: 42
39505793 AACATGTATA
*
39505803 CATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATGCTCG
1 CATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGC-CG
* *
39505846 CATCCATAATGCACTCAGACCTCTCAATGAGCTCGGATGCCG
1 CATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGCCG
39505888 CAT
1 CAT
39505891 AGATCACAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 5 0.12
43 37 0.88
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (42 bp):
CATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGCCG
Found at i:39513638 original size:38 final size:38
Alignment explanation
Indices: 39513555--39513744 Score: 229
Period size: 38 Copynumber: 4.9 Consensus size: 38
39513545 GAATCTAGTC
* * * *
39513555 ACCAGCACAAAACCTGCGGGACTTTAAGCTCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAAT
* *
39513595 ACCAGCACTAGGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
*
39513633 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
*
39513671 ACCAGCACGAAGCCTGCAGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* * *
39513709 TCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGATA
1 ACCAGCACGA-AGCCTGCGGG-ATTTAA-CCCGGATA
39513745 CACATCAAAT
Statistics
Matches: 133, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
37 1 0.01
38 96 0.72
39 10 0.08
40 26 0.20
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
Found at i:39523377 original size:38 final size:38
Alignment explanation
Indices: 39523311--39523488 Score: 191
Period size: 38 Copynumber: 4.6 Consensus size: 38
39523301 CAACACAAAA
* * *
39523311 CCTGCGGGACTTTAAGCTCAGATATAATACCAGCACTAGG
1 CCTGCGGGA-TTTAA-CCCGGATATAATACCAGCACTAAG
39523351 CCTGCGGGATTTAACCCGGATATAATACCAGCA-TGAAG
1 CCTGCGGGATTTAACCCGGATATAATACCAGCACT-AAG
* * *
39523389 CCTGCGGGATTTAACCTGGATATATTACCAGCACGAAG
1 CCTGCGGGATTTAACCCGGATATAATACCAGCACTAAG
*
39523427 CCTGTC-GGATTTAACCCGGATATAATTCCAGCA-TATAG
1 CCTG-CGGGATTTAACCCGGATATAATACCAGCACTA-AG
* *
39523465 CCTACGGGTCTTTAAGCCCGGATA
1 CCTGCGGG-ATTTAA-CCCGGATA
39523489 CACATCAAAT
Statistics
Matches: 119, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
37 3 0.03
38 88 0.74
39 11 0.09
40 17 0.14
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (38 bp):
CCTGCGGGATTTAACCCGGATATAATACCAGCACTAAG
Found at i:39523418 original size:76 final size:78
Alignment explanation
Indices: 39523311--39523479 Score: 220
Period size: 76 Copynumber: 2.2 Consensus size: 78
39523301 CAACACAAAA
* * *
39523311 CCTGCGGGACTTTAAGCTCAGATATAATACCAGCACTAGGCCTG-CGGGATTTAACCCGGATATA
1 CCTGCGGGACTTTAACCTCAGATATAATACCAGCACGAAGCCTGTC-GGATTTAACCCGGATATA
39523375 ATACCAGCATGAAG
65 ATACCAGCATGAAG
* *
39523389 CCTGCGGGA-TTTAACCT-GGATATATTACCAGCACGAAGCCTGTCGGATTTAACCCGGATATAA
1 CCTGCGGGACTTTAACCTCAGATATAATACCAGCACGAAGCCTGTCGGATTTAACCCGGATATAA
*
39523452 TTCCAGCAT-ATAG
66 TACCAGCATGA-AG
* *
39523465 CCTACGGGTCTTTAA
1 CCTGCGGGACTTTAA
39523480 GCCCGGATAC
Statistics
Matches: 80, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
75 1 0.01
76 57 0.71
77 13 0.16
78 9 0.11
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (78 bp):
CCTGCGGGACTTTAACCTCAGATATAATACCAGCACGAAGCCTGTCGGATTTAACCCGGATATAA
TACCAGCATGAAG
Found at i:39531972 original size:49 final size:47
Alignment explanation
Indices: 39531912--39532270 Score: 513
Period size: 47 Copynumber: 7.6 Consensus size: 47
39531902 GCTAATTGTG
* *
39531912 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
39531959 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAAGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
39532006 ATGTTAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
39532055 ATGTGAAAGTGTATATATATGTGATAAGGACTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
39532104 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
39532151 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
39532198 ATGTGAAAGTGTATATATGGGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
39532245 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
39532271 TCCCGAAGGG
Statistics
Matches: 283, Mismatches: 25, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
46 2 0.01
47 188 0.66
48 2 0.01
49 91 0.32
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:39531982 original size:96 final size:94
Alignment explanation
Indices: 39531912--39532270 Score: 452
Period size: 96 Copynumber: 3.8 Consensus size: 94
39531902 GCTAATTGTG
39531912 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
39531977 GTGATAAGGCCG-AATGGCCAATGTGAAGA
66 GTGATAAGG-AGTAATGGCCAATGTGATGA
*
39532006 ATGTTAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATG-TGAA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
* *
39532071 ATATGTGATAAGGACTAATGGCCGATGTGATGA
62 ATATGTGATAAGGAGTAATGGCCAATGTGATGA
* * *
39532104 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* ** *
39532169 GTGATGAGGCCTAATGGCCGATGTGATGA
66 GTGATAAGGAGTAATGGCCAATGTGATGA
* * * * * * * * * *
39532198 ATGTGAAAGTGTATATATGGGA-CAGAGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAA
1 ATGTGAATGTATATATATGTGATAAG-GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
39532262 TGTGATAAG
65 TGTGATAAG
39532271 TCCCGAAGGG
Statistics
Matches: 238, Mismatches: 21, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
93 2 0.01
94 97 0.41
95 3 0.01
96 99 0.42
97 3 0.01
98 34 0.14
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (94 bp):
ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGAGTAATGGCCAATGTGATGA
Found at i:39534139 original size:27 final size:28
Alignment explanation
Indices: 39534105--39534282 Score: 179
Period size: 27 Copynumber: 6.5 Consensus size: 28
39534095 TAAATTGTAC
39534105 AGCACTAAGTGTGC-AATTTGACTATGT
1 AGCACTAAGTGTGCGAATTTGACTATGT
* * *
39534132 TGCACTAAGTGTGCGAA-ATGAATATG-
1 AGCACTAAGTGTGCGAATTTGACTATGT
* * *
39534158 ATGCACTAAGTGTGCGCA-TTGACCATGC
1 A-GCACTAAGTGTGCGAATTTGACTATGT
* *
39534186 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTTGACTATGT
* *
39534214 AGCACTAAGTGTGCG-ATTTGATTACGT
1 AGCACTAAGTGTGCGAATTTGACTATGT
* * *
39534241 AGCACTAAGTGTGCG-AGTTGATTATAT
1 AGCACTAAGTGTGCGAATTTGACTATGT
*
39534268 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39534283 GACTCAATAT
Statistics
Matches: 126, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAATTTGACTATGT
Found at i:39534219 original size:82 final size:81
Alignment explanation
Indices: 39534106--39534255 Score: 221
Period size: 82 Copynumber: 1.8 Consensus size: 81
39534096 AAATTGTACA
* *
39534106 GCACTAAGTGTGCAATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCAATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
39534170 TGCGCATTGACCATGCG
65 TGCGCATTGACCATGCG
* ** *
39534187 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGC-AATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
39534252 TGCG
65 TGCG
39534256 AGTTGATTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 13 0.21
82 47 0.77
83 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCAATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGCATTGACCATGCG
Found at i:39534273 original size:82 final size:82
Alignment explanation
Indices: 39534102--39534282 Score: 215
Period size: 82 Copynumber: 2.2 Consensus size: 82
39534092 GATTAAATTG
* *
39534102 TACAGCACTAAGTGTGC-AATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTA
1 TACAGCACTAAGTGTGCGAATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTA
39534166 AGTGTGCGCATTGACCA
66 AGTGTGCGCATTGACCA
* * * ** *
39534183 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGAATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
**
39534247 AAGTGTGCG-AGTTGATTA
65 AAGTGTGCGCA-TTGACCA
* *
39534265 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
39534283 GACTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
81 17 0.20
82 66 0.80
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (82 bp):
TACAGCACTAAGTGTGCGAATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTA
AGTGTGCGCATTGACCA
Found at i:39538426 original size:48 final size:49
Alignment explanation
Indices: 39538237--39538462 Score: 267
Period size: 48 Copynumber: 4.6 Consensus size: 49
39538227 TGTGATGAAC
* * * ** *
39538237 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGACCACGTGTGTAGTACT
1 AAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCACATGTGTAGTACT
* ** *
39538288 AAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
1 AAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGTGTAGTACT
*
39538338 AAGTGCAGGCTAGTACGTGTACC-GAATAATTGGTCACATGTGTAGTACT
1 AAGTGCAGGCTACTACGTGTACCAG-ATAATTGGTCACATGTGTAGTACT
* *
39538387 AAGTGCA-GCTACTACATGTACCAGATAATTGGTCGCATGTGTAGTACT
1 AAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
* *
39538435 AAGTGCAGGCTACTATGCGTACCAGATA
1 AAGTGCAGGCTACTACGTGTACCAGATA
39538463 GCTTGGCTAC
Statistics
Matches: 152, Mismatches: 20, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
48 43 0.28
49 43 0.28
50 43 0.28
51 23 0.15
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (49 bp):
AAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
Found at i:39541432 original size:15 final size:15
Alignment explanation
Indices: 39541412--39541475 Score: 64
Period size: 15 Copynumber: 4.4 Consensus size: 15
39541402 ATATCTTGGG
39541412 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
39541427 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
39541442 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
*
39541457 TTT-TTTATTC-GGT
1 TTTCTTTATTCTGGA
39541470 TTTCTT
1 TTTCTT
39541476 GTTATCTTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
13 5 0.12
14 8 0.19
15 29 0.69
ACGTcount: A:0.09, C:0.12, G:0.14, T:0.64
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:39541444 original size:30 final size:30
Alignment explanation
Indices: 39541408--39541475 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
39541398 TACTATATCT
39541408 TGGGTTTCTT-TAT-TCTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCT-TGGATTT-TTTATTC
39541438 TGGGTTT-TTCTATCTTGGATTTTTTATTC
1 TGGGTTTCTTCTATCTTGGATTTTTTATTC
*
39541467 -GGTTTTCTT
1 TGGGTTTCTT
39541476 GTTATCTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
28 5 0.15
29 11 0.32
30 17 0.50
31 1 0.03
ACGTcount: A:0.09, C:0.12, G:0.18, T:0.62
Consensus pattern (30 bp):
TGGGTTTCTTCTATCTTGGATTTTTTATTC
Found at i:39541500 original size:21 final size:22
Alignment explanation
Indices: 39541460--39541500 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
39541450 TCTTGGATTT
**
39541460 TTTATTCGGTTTTCTTGTTATC
1 TTTATTCGGTAATCTTGTTATC
39541482 TTTATTCGGTAAT-TTGTTA
1 TTTATTCGGTAATCTTGTTA
39541501 GTTATGAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.15, C:0.10, G:0.15, T:0.61
Consensus pattern (22 bp):
TTTATTCGGTAATCTTGTTATC
Found at i:39543950 original size:28 final size:28
Alignment explanation
Indices: 39543918--39544001 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
39543908 AACTTCGACC
39543918 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
39543946 ACGTGTATCAG-A-TGA-T-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
*
39543968 ACGTGTGCAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
39543996 ACGTGT
1 ACGTGT
39544002 ACCGGATAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 16
0.64 0.11 0.25
Matches are distributed among these distances:
21 2 0.05
22 7 0.17
23 3 0.07
24 2 0.05
25 6 0.15
26 2 0.05
27 3 0.07
28 14 0.34
29 2 0.05
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:39543983 original size:50 final size:49
Alignment explanation
Indices: 39543880--39544094 Score: 288
Period size: 49 Copynumber: 4.3 Consensus size: 49
39543870 ATATGATGAA
* * **
39543880 TAAGTGCAGGCTACTATGCGTACCCGG-TAACTTCGACCACGTGTGTAGTAC
1 TAAGTGCAGGCTACTACGTGTA-CCGGATAA-TT-GGTCACGTGTGTAGTAC
* * * *
39543931 TAAGTGCAGGCTACTACGTGTATCAGATGATTAGGTCACGTGTGCAGTAC
1 TAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACGTGTGTAGTAC
*
39543981 TAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCATGTGTGTAGTAC
1 TAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACGTGTGTAGTAC
* *
39544030 TAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTAC
1 TAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACGTGTGTAGTAC
39544079 TAAGTGCAGGCTACTA
1 TAAGTGCAGGCTACTA
39544095 TGCGTACCAG
Statistics
Matches: 146, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
49 77 0.53
50 47 0.32
51 22 0.15
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (49 bp):
TAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACGTGTGTAGTAC
Found at i:39546582 original size:30 final size:30
Alignment explanation
Indices: 39546546--39546618 Score: 137
Period size: 30 Copynumber: 2.4 Consensus size: 30
39546536 CGGGTTACGA
39546546 ATACGGGCGTGTGTAGTACACGGCCTGACC
1 ATACGGGCGTGTGTAGTACACGGCCTGACC
39546576 ATACGGGCGTGTGTAGTACACGGCCTGACC
1 ATACGGGCGTGTGTAGTACACGGCCTGACC
*
39546606 ACACGGGCGTGTG
1 ATACGGGCGTGTG
39546619 AGCCCTGTAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.19, C:0.26, G:0.36, T:0.19
Consensus pattern (30 bp):
ATACGGGCGTGTGTAGTACACGGCCTGACC
Found at i:39548098 original size:49 final size:49
Alignment explanation
Indices: 39548021--39548207 Score: 257
Period size: 49 Copynumber: 3.8 Consensus size: 49
39548011 TAGCCGAAGC
* *
39548021 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATACGACCAAT
* * * * *
39548070 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACATAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATACGAC-CAAT
* * *
39548120 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATACGACCAAT
* *
39548169 TATTTGGTACACGTAGTAGCCTACACTTAGTACTACACA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
39548208 CGTGACCTCA
Statistics
Matches: 118, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
49 77 0.65
50 41 0.35
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATACGACCAAT
Found at i:39548196 original size:99 final size:99
Alignment explanation
Indices: 39548034--39548213 Score: 315
Period size: 99 Copynumber: 1.8 Consensus size: 99
39548024 CTGGTACGCA
*
39548034 TAGTAGCCTGCACTTAGTACTACACATACGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACATACGACCAATTATCCGGTACACGTAGTAGCCTACACTTA
39548099 GTACTACACACATGACATAACCATCTGATACACG
66 GTACTACACACATGACATAACCATCTGATACACG
* **
39548133 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTTGGTACACGTAGTAGCCTACACTTA
1 TAGTAGCCTGCACTTAGTACTACACATACGACCAATTATCCGGTACACGTAGTAGCCTACACTTA
*
39548198 GTACTACACACGTGAC
66 GTACTACACACATGAC
39548214 CTCACAATAG
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
99 76 1.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACATACGACCAATTATCCGGTACACGTAGTAGCCTACACTTA
GTACTACACACATGACATAACCATCTGATACACG
Found at i:39554699 original size:10 final size:12
Alignment explanation
Indices: 39554675--39554703 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
39554665 AACTGATAGG
39554675 AAAAATATTCAA
1 AAAAATATTCAA
39554687 AAAAAT-TTCAA
1 AAAAATATTCAA
39554698 AAAAAT
1 AAAAAT
39554704 CGATTTACAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAATATTCAA
Found at i:39554722 original size:23 final size:24
Alignment explanation
Indices: 39554696--39554758 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 24
39554686 AAAAAATTTC
* *
39554696 AAAAAAA-TCGATTTACAGGGACA
1 AAAAAAAGTCGAATTACAAGGACA
* *
39554719 AAAAAAAGTTGAATTACAATGACA
1 AAAAAAAGTCGAATTACAAGGACA
* *
39554743 AAAAAAGGTTGAATTA
1 AAAAAAAGTCGAATTA
39554759 TAGGGGAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 7 0.21
24 27 0.79
ACGTcount: A:0.56, C:0.08, G:0.16, T:0.21
Consensus pattern (24 bp):
AAAAAAAGTCGAATTACAAGGACA
Found at i:39554859 original size:24 final size:25
Alignment explanation
Indices: 39554825--39554877 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
39554815 TTATGGGGAC
*
39554825 AAAAAGTTCAATTTACAAAGACAAA
1 AAAAAGTTCAAATTACAAAGACAAA
* *
39554850 AAAAAG-TCAAATTACAAGGAGAAA
1 AAAAAGTTCAAATTACAAAGACAAA
39554874 AAAA
1 AAAA
39554878 TTTTGACTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.64, C:0.09, G:0.11, T:0.15
Consensus pattern (25 bp):
AAAAAGTTCAAATTACAAAGACAAA
Found at i:39559071 original size:35 final size:35
Alignment explanation
Indices: 39559032--39559104 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
39559022 TATTTGAACA
39559032 AATAAGTA-CGAACCCAATTAAATAATGA-AAAAATT
1 AATAAGTATC-AACCCAATTAAATAAT-ACAAAAATT
**
39559067 AATAAGTATCAACTTAATTAAATAATACAAAAATT
1 AATAAGTATCAACCCAATTAAATAATACAAAAATT
39559102 AAT
1 AAT
39559105 TTTATTTTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 1 0.03
35 32 0.94
36 1 0.03
ACGTcount: A:0.58, C:0.10, G:0.05, T:0.27
Consensus pattern (35 bp):
AATAAGTATCAACCCAATTAAATAATACAAAAATT
Found at i:39559152 original size:19 final size:20
Alignment explanation
Indices: 39559104--39559154 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
39559094 CAAAAATTAA
39559104 TTTTATTTTAGAAAATAAAT
1 TTTTATTTTAGAAAATAAAT
* *
39559124 TGTATTATTTT-TAAAATATAT
1 T-T-TTATTTTAGAAAATAAAT
39559145 TTTTATTTTA
1 TTTTATTTTA
39559155 TATCTTGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 7 0.27
20 2 0.08
21 10 0.38
22 7 0.27
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (20 bp):
TTTTATTTTAGAAAATAAAT
Found at i:39563269 original size:16 final size:16
Alignment explanation
Indices: 39563248--39563280 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
39563238 AATAGTATGT
39563248 GACGTCGCAACATCGA
1 GACGTCGCAACATCGA
39563264 GACGTCGCAACATCGA
1 GACGTCGCAACATCGA
39563280 G
1 G
39563281 TGGCCTAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.30, G:0.27, T:0.12
Consensus pattern (16 bp):
GACGTCGCAACATCGA
Found at i:39575718 original size:40 final size:40
Alignment explanation
Indices: 39575641--39575858 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
39575631 AAACCAAGTA
* *
39575641 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
39575680 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
39575720 CCTTCGGAACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
39575760 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
39575800 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
39575840 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
39575859 TTATCATCCG
Statistics
Matches: 166, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 15 0.09
40 151 0.91
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:39580479 original size:30 final size:30
Alignment explanation
Indices: 39580435--39580523 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
39580425 CAAAGATAAC
39580435 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
39580464 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * * *
39580494 AATAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
39580524 TGATACTATG
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 9 0.18
30 38 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.16, T:0.11
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:39580483 original size:15 final size:15
Alignment explanation
Indices: 39580435--39580514 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
39580425 CAAAGATAAC
*
39580435 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
39580449 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
39580464 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
39580479 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* * *
39580494 AATAGATCCAGGATA
1 AAGAAATCCAGAATA
39580509 AAGAAA
1 AAGAAA
39580515 CCCAAGATAT
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 9 0.17
15 43 0.81
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.16, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:39580523 original size:15 final size:15
Alignment explanation
Indices: 39580446--39580523 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
39580436 AGAAAACCGA
39580446 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
39580461 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
39580475 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* * *
39580490 AATAAATAGATCCAGG
1 -ATAAAGAAATCCAAG
*
39580506 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
39580521 ATA
1 ATA
39580524 TGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 4 0.08
15 43 0.86
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.15, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:39593787 original size:3 final size:3
Alignment explanation
Indices: 39593779--39593804 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
39593769 TATGTAAGTA
39593779 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
39593805 TTCTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:39598465 original size:48 final size:48
Alignment explanation
Indices: 39598413--39598894 Score: 739
Period size: 48 Copynumber: 10.0 Consensus size: 48
39598403 ATATATACAC
* *
39598413 ATCTCATACATATTTCACATTAGCCATACGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
* *
39598461 ATCTCATACATATTTCACATTAGCCATTCGGATTTACCGCATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
**
39598509 ATCTCATACATATTTCATGTTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
** *
39598557 ATCTCATACATATTTCATGTTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
* * *
39598605 ATCTCAAACATATTTCACATTAGCCATTCGGATTTACCGCATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
** **
39598653 ATCTCATACATATTTCATGTTAGCCATTCGAATTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
* ** *
39598701 ATCTTATACATATTTCATGTTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
*
39598749 ATCTCATACATATTTCACATTAGTCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
* *
39598797 ATCTCATACATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
* *
39598845 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
39598893 AT
1 AT
39598895 ATTTATCTTG
Statistics
Matches: 398, Mismatches: 36, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 398 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.37
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
Found at i:39606337 original size:56 final size:56
Alignment explanation
Indices: 39606277--39606391 Score: 151
Period size: 56 Copynumber: 2.1 Consensus size: 56
39606267 TAAAACTGCA
* * * * * *
39606277 TTTTATACGTTGGCATTGATATGTGACT-TCGATATTTGTGTGCGAGTAAGACCACG
1 TTTTATACATGGGCATCGATATGCGACTCT-GATATATGTGTGCAAGTAAGACCACG
*
39606333 TTTTATACATGGGCATCGATATGCGACTCTGATATATGTGTGCAAGTAAGACCCCG
1 TTTTATACATGGGCATCGATATGCGACTCTGATATATGTGTGCAAGTAAGACCACG
39606389 TTT
1 TTT
39606392 GGGAAAGTGG
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
56 50 0.98
57 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (56 bp):
TTTTATACATGGGCATCGATATGCGACTCTGATATATGTGTGCAAGTAAGACCACG
Found at i:39606404 original size:56 final size:55
Alignment explanation
Indices: 39606287--39606411 Score: 135
Period size: 56 Copynumber: 2.2 Consensus size: 55
39606277 TTTTATACGT
* * * * * * *
39606287 TGGCATTGATATGTGACTTCGATATTTGTGTGCGAGTAAGACCACGTTTTATACA
1 TGGCATCGATATGCGACTTCGATATATGTGTGCAAGTAAGACCACGTTTGAGAAA
* *
39606342 TGGGCATCGATATGCGAC-TCTGATATATGTGTGCAAGTAAGACCCCGTTTGGGAAA
1 T-GGCATCGATATGCGACTTC-GATATATGTGTGCAAGTAAGACCACGTTTGAGAAA
39606398 GTGGCATCGATATG
1 -TGGCATCGATATG
39606412 TGATTACATG
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
55 3 0.05
56 54 0.93
57 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (55 bp):
TGGCATCGATATGCGACTTCGATATATGTGTGCAAGTAAGACCACGTTTGAGAAA
Done.