Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 271 of 320
Found at i:87612664 original size:5 final size:5
Alignment explanation
Indices: 87612654--87612680 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
87612644 ATGGATCAAA
87612654 CCGAC CCGAC CCGAC CCGAC CCGAC CC
1 CCGAC CCGAC CCGAC CCGAC CCGAC CC
87612681 AATACAGCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.63, G:0.19, T:0.00
Consensus pattern (5 bp):
CCGAC
Found at i:87613834 original size:21 final size:20
Alignment explanation
Indices: 87613810--87613857 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
87613800 ATGAAGCAAC
87613810 AGAAGAAGAAGCT-ACAAATGA
1 AGAAGAA-AAGCTGACAAA-GA
*
87613831 AGAAGGAAAAGGTGACAAAGA
1 AGAA-GAAAAGCTGACAAAGA
87613852 AGAAGA
1 AGAAGA
87613858 CATAAGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 2 0.08
21 14 0.58
22 8 0.33
ACGTcount: A:0.58, C:0.06, G:0.29, T:0.06
Consensus pattern (20 bp):
AGAAGAAAAGCTGACAAAGA
Found at i:87614913 original size:11 final size:10
Alignment explanation
Indices: 87614892--87614945 Score: 62
Period size: 11 Copynumber: 5.6 Consensus size: 10
87614882 CTTCTCCCTC
87614892 TCTTCT-TTT
1 TCTTCTCTTT
87614901 TCTTCTCTGTT
1 TCTTCTCT-TT
87614912 TCTTCTCTTAT
1 TCTTCTCTT-T
87614923 TCTTCT-TTT
1 TCTTCTCTTT
87614932 TC-TCT-TTT
1 TCTTCTCTTT
87614940 TCTTCT
1 TCTTCT
87614946 ACTGCCCAGG
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.20
9 12 0.29
10 4 0.10
11 17 0.41
ACGTcount: A:0.02, C:0.26, G:0.02, T:0.70
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:87614937 original size:22 final size:21
Alignment explanation
Indices: 87614890--87614945 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 21
87614880 TTCTTCTCCC
87614890 TCTCTTCTTTTTCTTCTCTGT
1 TCTCTTCTTTTTCTTCTCTGT
87614911 T-TCTTCTCTTATTCTTCT-T-T
1 TCTCTTCT-TT-TTCTTCTCTGT
87614931 T-TC-TCTTTTTCTTCT
1 TCTCTTCTTTTTCTTCT
87614946 ACTGCCCAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
17 7 0.21
18 2 0.06
19 3 0.09
20 10 0.30
21 4 0.12
22 7 0.21
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.70
Consensus pattern (21 bp):
TCTCTTCTTTTTCTTCTCTGT
Found at i:87617593 original size:12 final size:12
Alignment explanation
Indices: 87617576--87617600 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87617566 TTGTGTGTTC
87617576 TTTATTTTATTT
1 TTTATTTTATTT
87617588 TTTATTTTATTT
1 TTTATTTTATTT
87617600 T
1 T
87617601 ATTTTTCACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:87622042 original size:12 final size:12
Alignment explanation
Indices: 87622025--87622052 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
87622015 AATTTGTGTG
87622025 TTTTTTATTTTA
1 TTTTTTATTTTA
87622037 TTTTTTATTTTA
1 TTTTTTATTTTA
87622049 TTTT
1 TTTT
87622053 ATTTTTCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTTTATTTTA
Found at i:87624791 original size:20 final size:20
Alignment explanation
Indices: 87624762--87624799 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
87624752 CTATGAAAAT
87624762 AAATTATTATAA-AATTTAA
1 AAATTATTATAATAATTTAA
87624781 AAATATATTATAATAATTT
1 AAAT-TATTATAATAATTT
87624800 CATCTTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 8 0.47
21 5 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATTATTATAATAATTTAA
Found at i:87628092 original size:27 final size:27
Alignment explanation
Indices: 87628044--87628202 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
87628034 GCGATGCTGC
* *
87628044 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
87628071 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* *
87628097 TAGATATATGTGGTAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
87628124 CAGATAATCGTGGCATAGCCAACAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
87628151 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
87628178 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
87628203 GACGCTTCCT
Statistics
Matches: 111, Mismatches: 13, Indels: 16
0.79 0.09 0.11
Matches are distributed among these distances:
26 9 0.08
27 97 0.87
28 5 0.05
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:87628137 original size:54 final size:54
Alignment explanation
Indices: 87628062--87628202 Score: 221
Period size: 54 Copynumber: 2.6 Consensus size: 54
87628052 GTGACGAAGT
* * *
87628062 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAATAGATATATGTGGTAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
87628116 CACCAGATCAGATAATCGTGGCATAGCCAACAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
87628170 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
87628203 GACGCTTCCT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 5 0.06
54 74 0.94
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:87629835 original size:26 final size:26
Alignment explanation
Indices: 87629804--87629911 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
87629794 TGAAATGCCC
*
87629804 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
87629830 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
87629856 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
87629882 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87629908 ATCA
1 ATCA
87629912 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:87636147 original size:27 final size:27
Alignment explanation
Indices: 87636099--87636257 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
87636089 GCGAGGCTGC
* *
87636099 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
87636126 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
87636152 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
87636179 CAGATAATCGTTGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
87636206 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
87636233 CAGATAATTGTAGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
87636258 GACGCTTCCT
Statistics
Matches: 114, Mismatches: 10, Indels: 16
0.81 0.07 0.11
Matches are distributed among these distances:
26 10 0.09
27 99 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:87636199 original size:54 final size:54
Alignment explanation
Indices: 87636117--87636257 Score: 230
Period size: 54 Copynumber: 2.6 Consensus size: 54
87636107 GTGACGAAGT
* *
87636117 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTAGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
87636171 CACCAGATCAGATAATCGTTGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTAGCATAGCCACCAGAACAGATATATGTGGCAGAGC
87636225 CACCAGATCAGATAATTGTAGCATAGCCACCAG
1 CACCAGATCAGATAATTGTAGCATAGCCACCAG
87636258 GACGCTTCCT
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 5 0.06
54 76 0.94
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTAGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:87637910 original size:26 final size:26
Alignment explanation
Indices: 87637879--87637986 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
87637869 TGAAATGCCC
*
87637879 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
87637905 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
87637931 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
87637957 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87637983 ATCA
1 ATCA
87637987 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:87642691 original size:22 final size:23
Alignment explanation
Indices: 87642663--87642710 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
87642653 AAATTATTAA
*
87642663 ATATTAAAATAA-T-ATAATATAT
1 ATATTAAAAAAAGTAATAATA-AT
87642685 ATATTAAAAAAAGTAATAATAAT
1 ATATTAAAAAAAGTAATAATAAT
87642708 ATA
1 ATA
87642711 GACAGGACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 11 0.48
23 6 0.26
24 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (23 bp):
ATATTAAAAAAAGTAATAATAAT
Found at i:87659311 original size:17 final size:17
Alignment explanation
Indices: 87659291--87659380 Score: 53
Period size: 17 Copynumber: 5.4 Consensus size: 17
87659281 AATATTACTC
87659291 TAATATAAATATTAAAA
1 TAATATAAATATTAAAA
* * * **
87659308 TAATATTAAGATCACTA
1 TAATATAAATATTAAAA
**
87659325 T-ATA-AAATATTTTAA
1 TAATATAAATATTAAAA
*
87659340 TAA-ATAAAAATTATAAA
1 TAATATAAATATTA-AAA
87659357 -AATATTAAATATTTAAAA
1 TAATA-TAAATA-TTAAAA
87659375 TAATAT
1 TAATAT
87659381 GATAAAAAAT
Statistics
Matches: 51, Mismatches: 15, Indels: 13
0.65 0.19 0.16
Matches are distributed among these distances:
15 7 0.14
16 12 0.24
17 16 0.31
18 9 0.18
19 7 0.14
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (17 bp):
TAATATAAATATTAAAA
Found at i:87659388 original size:30 final size:30
Alignment explanation
Indices: 87659352--87659411 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
87659342 AATAAAAATT
* *
87659352 ATAAAAATATTAAATATT-TAAAATAATATG
1 ATAAAAA-ATTAAAAATTAAAAAATAATATG
87659382 ATAAAAAATTAAAAATTAAAAAATAATATG
1 ATAAAAAATTAAAAATTAAAAAATAATATG
87659412 GGCGGACCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (30 bp):
ATAAAAAATTAAAAATTAAAAAATAATATG
Found at i:87659879 original size:28 final size:28
Alignment explanation
Indices: 87659825--87659879 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
87659815 AAATTAAATT
* *
87659825 AAAAAATTATAAAAAAACTAATGATATA
1 AAAAAATAATAAAAAAACTAATAATATA
*
87659853 AAAAAATAATATAAAAA-TAATCAATAT
1 AAAAAATAATAAAAAAACTAAT-AATAT
87659880 GGAACACTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (28 bp):
AAAAAATAATAAAAAAACTAATAATATA
Found at i:87660401 original size:29 final size:29
Alignment explanation
Indices: 87660354--87660411 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
87660344 TTATATATTA
*
87660354 AACAAGAAAGGGATCGAAGTGTTCATACC
1 AACAAGAAAGAGATCGAAGTGTTCATACC
*
87660383 AACAAGAAAGAGATTGAAGTGTTCATACC
1 AACAAGAAAGAGATCGAAGTGTTCATACC
87660412 TGATATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (29 bp):
AACAAGAAAGAGATCGAAGTGTTCATACC
Found at i:87663077 original size:28 final size:30
Alignment explanation
Indices: 87663027--87663087 Score: 108
Period size: 29 Copynumber: 2.1 Consensus size: 30
87663017 AACTTATTTA
87663027 TTGTTAATTTTGTTATTATTTTA-AGGCAT
1 TTGTTAATTTTGTTATTATTTTAGAGGCAT
87663056 TTGTTAATTTT-TTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAGAGGCAT
87663085 TTG
1 TTG
87663088 CTTATTAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 11 0.35
29 20 0.65
ACGTcount: A:0.23, C:0.03, G:0.15, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAGGCAT
Found at i:87668603 original size:23 final size:25
Alignment explanation
Indices: 87668557--87668605 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
87668547 ATTAAATAAA
*
87668557 AAATTTAAAATATAATAAATCAAAT
1 AAATTTAAAATATAATAAAACAAAT
*
87668582 AAATTTAAAA-A-CATAAAACAAAT
1 AAATTTAAAATATAATAAAACAAAT
87668605 A
1 A
87668606 TTAAAAGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 11 0.50
24 1 0.05
25 10 0.45
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (25 bp):
AAATTTAAAATATAATAAAACAAAT
Found at i:87668963 original size:15 final size:17
Alignment explanation
Indices: 87668932--87668966 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
87668922 AGGAAGGTAA
87668932 TAAATGTACATAAAAAT
1 TAAATGTACATAAAAAT
87668949 TAAATGTA-A-AAAAAT
1 TAAATGTACATAAAAAT
87668964 TAA
1 TAA
87668967 TAAATCTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.50
16 1 0.06
17 8 0.44
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.29
Consensus pattern (17 bp):
TAAATGTACATAAAAAT
Found at i:87684297 original size:26 final size:26
Alignment explanation
Indices: 87684266--87684373 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
87684256 TGAAATGCCC
*
87684266 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
87684292 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
87684318 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
87684344 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87684370 ATCA
1 ATCA
87684374 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:87689061 original size:22 final size:22
Alignment explanation
Indices: 87689033--87689079 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
87689023 AAATTATTAA
87689033 ATATTAAAATAA-T-ATAATATAT
1 ATATTAAAA-AAGTAATAATA-AT
87689055 ATATTAAAAAAGTAATAATAAT
1 ATATTAAAAAAGTAATAATAAT
87689077 ATA
1 ATA
87689080 GACAGGACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 2 0.09
22 15 0.65
23 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
ATATTAAAAAAGTAATAATAAT
Found at i:87706724 original size:29 final size:29
Alignment explanation
Indices: 87706677--87706734 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
87706667 TTATATATTA
*
87706677 AACAAGAAAGGGATCGAAGTGTTCATACC
1 AACAAGAAAGAGATCGAAGTGTTCATACC
*
87706706 AACAAGAAAGAGATTGAAGTGTTCATACC
1 AACAAGAAAGAGATCGAAGTGTTCATACC
87706735 TGATATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (29 bp):
AACAAGAAAGAGATCGAAGTGTTCATACC
Found at i:87709428 original size:29 final size:30
Alignment explanation
Indices: 87709377--87709438 Score: 108
Period size: 29 Copynumber: 2.1 Consensus size: 30
87709367 ACTTATTTTA
87709377 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
87709407 TTGTTAATTTT-TTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
87709436 TTG
1 TTG
87709439 CTTATTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 20 0.65
30 11 0.35
ACGTcount: A:0.24, C:0.03, G:0.15, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:87711126 original size:2 final size:2
Alignment explanation
Indices: 87711119--87711144 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
87711109 TTACCTCCTT
87711119 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
87711145 AAAGTTGAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:87715183 original size:28 final size:27
Alignment explanation
Indices: 87715115--87715183 Score: 66
Period size: 28 Copynumber: 2.5 Consensus size: 27
87715105 CAATACACAA
* ***
87715115 ATTAAAAATATAATAAAAAGTGGTTAT
1 ATTAAAAATAAAATAAAAAGTAAATAT
* *
87715142 ATTAAAATTAAAAATAAAATGTAAATAT
1 ATTAAAAAT-AAAATAAAAAGTAAATAT
87715170 GATTAAAAATAAAA
1 -ATTAAAAATAAAA
87715184 AATATATATT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
27 8 0.24
28 17 0.52
29 8 0.24
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.30
Consensus pattern (27 bp):
ATTAAAAATAAAATAAAAAGTAAATAT
Found at i:87715192 original size:23 final size:23
Alignment explanation
Indices: 87715148--87715192 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
87715138 TTATATTAAA
**
87715148 ATTAAAAATAAAATGTAAATATG
1 ATTAAAAATAAAAAATAAATATG
*
87715171 ATTAAAAATAAAAAATATATAT
1 ATTAAAAATAAAAAATAAATAT
87715193 TTAGTATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.31
Consensus pattern (23 bp):
ATTAAAAATAAAAAATAAATATG
Found at i:87715417 original size:18 final size:18
Alignment explanation
Indices: 87715394--87715435 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
87715384 AGGAAGGTAA
* *
87715394 TAAAATGTACATAAAAAT
1 TAAAATGTAAAAAAAAAT
87715412 TAAAATGTAAAAAAAAAT
1 TAAAATGTAAAAAAAAAT
87715430 TAAAAT
1 TAAAAT
87715436 AAATCTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (18 bp):
TAAAATGTAAAAAAAAAT
Found at i:87715883 original size:12 final size:13
Alignment explanation
Indices: 87715858--87715887 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
87715848 TAATAATTTT
87715858 ATATTTTATATTA
1 ATATTTTATATTA
87715871 ATATTTT-TATTA
1 ATATTTTATATTA
87715883 ATATT
1 ATATT
87715888 AAATAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
ATATTTTATATTA
Found at i:87716071 original size:25 final size:24
Alignment explanation
Indices: 87716038--87716086 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
87716028 TGGAGGATTT
87716038 TTATATTATTTAATATTAATATAA
1 TTATATTATTTAATATTAATATAA
*
87716062 TTATAATTATTTAATATTTATATAA
1 TTAT-ATTATTTAATATTAATATAA
87716087 ATATTAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TTATATTATTTAATATTAATATAA
Found at i:87716128 original size:29 final size:29
Alignment explanation
Indices: 87716087--87716162 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 29
87716077 ATTTATATAA
* *
87716087 ATATTAATATAAAATTTACATTTATTATTAT
1 ATATTTAT-TAAAATTT-CATGTATTATTAT
* *
87716118 ATATTT-TTAAAATATTTATGTATTTTTAT
1 ATATTTATTAAAAT-TTCATGTATTATTAT
*
87716147 ATATTTATTTAAATTT
1 ATATTTATTAAAATTT
87716163 TTAGGAATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
29 24 0.63
30 9 0.24
31 5 0.13
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (29 bp):
ATATTTATTAAAATTTCATGTATTATTAT
Found at i:87716141 original size:19 final size:18
Alignment explanation
Indices: 87716114--87716154 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
87716104 ACATTTATTA
87716114 TTATATATTTTTAAAATAT
1 TTATATATTTTT-AAATAT
* *
87716133 TTATGTATTTTTATATAT
1 TTATATATTTTTAAATAT
87716151 TTAT
1 TTAT
87716155 TTAAATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
TTATATATTTTTAAATAT
Found at i:87720455 original size:85 final size:85
Alignment explanation
Indices: 87720312--87720485 Score: 348
Period size: 85 Copynumber: 2.0 Consensus size: 85
87720302 CTTGAAAGGA
87720312 AGAATAACAAATGACCTTACAAGTGTTTGTACAAGAAAATGAGTACAACATTTAATGCAATTTGC
1 AGAATAACAAATGACCTTACAAGTGTTTGTACAAGAAAATGAGTACAACATTTAATGCAATTTGC
87720377 AAGGTCAAGTCTCGAGTTTT
66 AAGGTCAAGTCTCGAGTTTT
87720397 AGAATAACAAATGACCTTACAAGTGTTTGTACAAGAAAATGAGTACAACATTTAATGCAATTTGC
1 AGAATAACAAATGACCTTACAAGTGTTTGTACAAGAAAATGAGTACAACATTTAATGCAATTTGC
87720462 AAGGTCAAGTCTCGAGTTTT
66 AAGGTCAAGTCTCGAGTTTT
87720482 AGAA
1 AGAA
87720486 GGGTAGTTTC
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 89 1.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.29
Consensus pattern (85 bp):
AGAATAACAAATGACCTTACAAGTGTTTGTACAAGAAAATGAGTACAACATTTAATGCAATTTGC
AAGGTCAAGTCTCGAGTTTT
Found at i:87723779 original size:4 final size:4
Alignment explanation
Indices: 87723759--87723791 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
87723749 GGAATTCTGG
87723759 GTTT GTTT CGTTT -TTT GTTT GTTT GTTT GTTT G
1 GTTT GTTT -GTTT GTTT GTTT GTTT GTTT GTTT G
87723792 GGGCTGTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 3 0.11
4 20 0.74
5 4 0.15
ACGTcount: A:0.00, C:0.03, G:0.24, T:0.73
Consensus pattern (4 bp):
GTTT
Found at i:87735420 original size:40 final size:40
Alignment explanation
Indices: 87735376--87735457 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
87735366 TGGGTTGGAT
87735376 ATGAAGGACAAGTTATGTGCAAGAAACGAATGGTACTTAC
1 ATGAAGGACAAGTTATGTGCAAGAAACGAATGGTACTTAC
87735416 ATGAAGGACAAGTTATGTGCAAGAAACGAATGGTACTTAC
1 ATGAAGGACAAGTTATGTGCAAGAAACGAATGGTACTTAC
87735456 AT
1 AT
87735458 AGGGAAGGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.23
Consensus pattern (40 bp):
ATGAAGGACAAGTTATGTGCAAGAAACGAATGGTACTTAC
Found at i:87743378 original size:30 final size:30
Alignment explanation
Indices: 87743317--87743378 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 30
87743307 CTTAACAAGC
87743317 AATGCCTCTAAAATAATAAAAAATTTTAACA
1 AATGCCTCTAAAATAATAAAAAA-TTTAACA
*
87743348 AATGCCTTTAAAATAATAAGAAAA-TTAACA
1 AATGCCTCTAAAATAATAA-AAAATTTAACA
87743378 A
1 A
87743379 TAAAATAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 7 0.24
31 18 0.62
32 4 0.14
ACGTcount: A:0.56, C:0.11, G:0.05, T:0.27
Consensus pattern (30 bp):
AATGCCTCTAAAATAATAAAAAATTTAACA
Found at i:87753282 original size:40 final size:40
Alignment explanation
Indices: 87753235--87753421 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
87753225 TTGATGACAA
87753235 TTCGGCTATGTATGACACTTAGTGTGCAATTCGAGATAGC
1 TTCGGCTATGTATGACACTTAGTGTGCAATTCGAGATAGC
* * *
87753275 TTTGGCTATGTATGGCACTTAGTGTGCGATTCGAGATAGC
1 TTCGGCTATGTATGACACTTAGTGTGCAATTCGAGATAGC
* * * * ** * *
87753315 TTTGGCTATGTATGCCACTTAATGTACGTTTTGAGATGGC
1 TTCGGCTATGTATGACACTTAGTGTGCAATTCGAGATAGC
* * * *
87753355 TTCGGCTATGTATGGCACTTAATGTGCGAGATT-AAAATAGC
1 TTCGGCTATGTATGACACTTAGTGTGC-A-ATTCGAGATAGC
*
87753396 TTCGGCTATGTATTAGCACTTAGTGT
1 TTCGGCTATGTATGA-CACTTAGTGT
87753422 ACGAGAATTC
Statistics
Matches: 124, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
40 95 0.77
41 18 0.15
42 11 0.09
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.36
Consensus pattern (40 bp):
TTCGGCTATGTATGACACTTAGTGTGCAATTCGAGATAGC
Found at i:87754715 original size:46 final size:46
Alignment explanation
Indices: 87754610--87754922 Score: 491
Period size: 46 Copynumber: 6.8 Consensus size: 46
87754600 CGATGTCATA
** *** *
87754610 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACA-TTTCATATCACGTTGCCATG
* * * *
87754657 ATATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
**
87754703 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
87754749 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
*
87754795 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
*
87754841 GTATCTTTCAACCATGGTCTTACACATTCCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
87754887 GTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCA
87754923 GAGAGCACAC
Statistics
Matches: 251, Mismatches: 15, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
46 227 0.90
47 24 0.10
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATG
Found at i:87758955 original size:5 final size:5
Alignment explanation
Indices: 87758872--87758949 Score: 83
Period size: 5 Copynumber: 16.0 Consensus size: 5
87758862 AGTTAAAATA
* * *
87758872 TATAT TATTAT AATAT TATAT CT-TAA T-TAT TA-AG TATA- TATAT TATAT
1 TATAT TA-TAT TATAT TATAT -TATAT TATAT TATAT TATAT TATAT TATAT
87758920 TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT
87758950 ATTATACTAA
Statistics
Matches: 63, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
4 11 0.17
5 47 0.75
6 5 0.08
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:87760927 original size:20 final size:20
Alignment explanation
Indices: 87760889--87760929 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
87760879 TAAATTCTAA
* **
87760889 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
87760909 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
87760929 A
1 A
87760930 GAATAAAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.29
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:87766285 original size:16 final size:16
Alignment explanation
Indices: 87766264--87766300 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
87766254 CATGCATTCA
* *
87766264 TGCATCTGCATTATAT
1 TGCATCTACATTACAT
87766280 TGCATCTACATTACAT
1 TGCATCTACATTACAT
87766296 TGCAT
1 TGCAT
87766301 TATGTGTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.41
Consensus pattern (16 bp):
TGCATCTACATTACAT
Found at i:87770550 original size:22 final size:22
Alignment explanation
Indices: 87770522--87770567 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
87770512 ATTGACTGAG
87770522 ATAGATGGCAAGGACCTGCCCA
1 ATAGATGGCAAGGACCTGCCCA
87770544 ATAGATGGCAAGGACCTGCCCA
1 ATAGATGGCAAGGACCTGCCCA
87770566 AT
1 AT
87770568 CCAGAATTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.26, G:0.26, T:0.15
Consensus pattern (22 bp):
ATAGATGGCAAGGACCTGCCCA
Found at i:87771902 original size:181 final size:181
Alignment explanation
Indices: 87771633--87772603 Score: 1015
Period size: 181 Copynumber: 5.3 Consensus size: 181
87771623 ATAATGACGA
* * * *
87771633 ATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTGA-AGTCACAAACCTTATCTCCCTGAAGTTG
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCATAG---CAAACATTATCTCCCTGAAGTTG
* * * * * *
87771697 TAGTAGAGAAGGTTAAAGTTATAAGTCTTATCTCCCTGGAA-TTGTAGTGAAGCAGACTGAAAAT
62 CAATGGAGCAGGTTGAAGTTATAAGTCTTATCTCCCT-GAAGTTGCAGTGAAGCAGACTGAAAAT
* * * * * *
87771761 AGCGAATCTTATTTCCCTAAAGTTGCAATGAAACGGATTGAACCTAGAAATCACAG
126 AGCGAATCTTATTTCCCTGAAGTTGCAGTGAAACAGATTGAAGCTATAAATTACAG
* * * *
87771817 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATCATAGCATACATTATCTCCCTGAAATTGCAGT
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACATTATCTCCCTGAAGTTGCAAT
* * * * * * *
87771882 GGAGCAGGTTGAAGTTATAAGTCTCATCTCCCTAAAATTGCAGTGGAGTAGATTTGAAAATAGCA
66 GGAGCAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGA-CTGAAAATAGCG
* * * * *
87771947 AATCTTATTTCCCTGAAGTTGTAG-CAGAACAGATTGAAGGTATAAATTATAA
130 AATCTTATTTCCCTGAAGTTGCAGTGA-AACAGATTGAAGCTATAAATTACAG
* * * * ** *
87771999 ATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCATAGCGAATATTATTTCTTTGAAGTTGGAAT
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACATTATCTCCCTGAAGTTGCAAT
* * *
87772064 GGAGCAGGCTGAAGTTATAAGTCTTATCTCTCTGAAGTTGCAGT-AGAGCAGACTGAAAATAGAG
66 GGAGCAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGTTGCAGTGA-AGCAGACTGAAAATAGCG
* * * * * * *
87772128 AATCTTATTTCCCTGAAGTTGTAGTGGAATAGATTAAAGGTATATATTATAG
130 AATCTTATTTCCCTGAAGTTGCAGTGAAACAGATTGAAGCTATAAATTACAG
* * * *
87772180 ATCTTATCTCTCTAAAGTTGCAGTA-AGCAGATCATAGTAGATC-TTATCTCCCTGAAGTTACAA
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCA-AACATTATCTCCCTGAAGTTGCAA
* * * * * *
87772243 TAGAGTAGGTTGAAGTTATAAGTCTTATCTCCCTAAAGTTGCAATGGAGCAGACTGAAGATAGCG
65 TGGAGCAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTGAAAATAGCG
* *
87772308 AAT-TATATTTCCCTGAAGTCGCAGT-AGAACAGATTGAAGTTATAAATTACAG
130 AATCT-TATTTCCCTGAAGTTGCAGTGA-AACAGATTGAAGCTATAAATTACAG
* * * * *
87772360 ATTTTATCTCTCTAAAGTTGTAGTAGAGCAGATCATAGGAAACCTTATCTCCCTGAAGTTGCAAT
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACATTATCTCCCTGAAGTTGCAAT
* * * * * * *
87772425 GGAGCAAGTTAAAGTTATAAGTCTTATCTACTTGAAGTTGCAATGTAA-CAGACTGAAGATATCG
66 GGAGCAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGTTGCAGTG-AAGCAGACTGAAAATAGCG
* * * * *
87772489 AATCATATTTCCCTTAAGTTGCAGTGGAATAGATTGAAGCTATAAATTACAA
130 AATCTTATTTCCCTGAAGTTGCAGTGAAACAGATTGAAGCTATAAATTACAG
* * * ** *
87772541 ATCTTATCTCTCTGAAATTACAGTAGAGTAGATTGTAGCAAACCTTATCTCCCTGAAGTTGCA
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACATTATCTCCCTGAAGTTGCA
87772604 GAAGAGCAGA
Statistics
Matches: 658, Mismatches: 114, Indels: 33
0.82 0.14 0.04
Matches are distributed among these distances:
179 1 0.00
180 150 0.23
181 326 0.50
182 148 0.22
183 2 0.00
184 31 0.05
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.31
Consensus pattern (181 bp):
ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACATTATCTCCCTGAAGTTGCAAT
GGAGCAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTGAAAATAGCGA
ATCTTATTTCCCTGAAGTTGCAGTGAAACAGATTGAAGCTATAAATTACAG
Found at i:87772120 original size:44 final size:44
Alignment explanation
Indices: 87771993--87772301 Score: 132
Period size: 44 Copynumber: 7.0 Consensus size: 44
87771983 AAGGTATAAA
* * *
87771993 TTATAAATCTTATCTCTCTGAAGTTACAGTAGAGCAGA-TCATAG
1 TTATAAGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGA-AG
** * * * * * * *
87772037 --CGAA-TATTATTTCTTTGAAGTTGGAATGGAGCAGGCTGAAG
1 TTATAAGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAG
*
87772078 TTATAAGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAA
1 TTATAAGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAG
* * * * * * * ** * *
87772122 ATAGAGAATCTTATTTCCCTGAAGTTGTAGTGGAATAGATTAAAGG
1 TTATA-AGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAA-G
* *
87772168 TATATATTATAGATCTTATCTCTCTAAAGTTGCAGTA-AGCAGA-TCATAG
1 --T-TA-TA-AG-TCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGA-AG
* * * * * **
87772217 -TA-GA-TCTTATCTCCCTGAAGTTACAATAGAGTAGGTTGAAG
1 TTATAAGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAG
* * * *
87772258 TTATAAGTCTTATCTCCCTAAAGTTGCAATGGAGCAGACTGAAG
1 TTATAAGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAG
87772302 ATAGCGAATT
Statistics
Matches: 188, Mismatches: 60, Indels: 34
0.67 0.21 0.12
Matches are distributed among these distances:
40 20 0.11
41 31 0.16
42 9 0.05
43 3 0.02
44 63 0.34
45 31 0.16
49 5 0.03
50 7 0.04
51 19 0.10
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.33
Consensus pattern (44 bp):
TTATAAGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAG
Found at i:87772428 original size:361 final size:363
Alignment explanation
Indices: 87771632--87772600 Score: 1118
Period size: 361 Copynumber: 2.7 Consensus size: 363
87771622 TATAATGACG
* * * *
87771632 AATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTGA-AGTCACAAACCTTATCTCCCTGAAGTT
1 AATCTTATCTCTCTAAAGTTACAGTAGAGCAGA-TCATAG-C-GAAACCTTATCTCCCTGAAGTT
* * * * * *
87771696 GTAGTAGAGAAGGTTAAAGTTATAAGTCTTATCTCCCTGGAA-TTGTAGT-GAAGCAGACTGAAA
63 GCAATGGAGCAGGTTAAAGTTATAAGTCTTATCTCTCT-GAAGTTGCAGTAG-AGCAGACTGAAA
* * ** * * *
87771759 ATAGCGAATCTTATTTCCCTAAAGTTGCAATGAAACGGATTGAACCTAGAAATCACAGATCTTAT
126 ATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAATAGATTGAAGCTATAAATTACAGATCTTAT
* * * * * * *
87771824 CTCTCTGAAGTTGCAGTAGAGCAAATCATAGCATACATTATCTCCCTGAAATTGCAGTGGAGCAG
191 CTCTCTAAAGTTGCAGTAGAGCAGATCATAGCAAAC-TTATCTCCCTGAAGTTACAATAGAGCAG
* * *
87771889 GTTGAAGTTATAAGTCTCATCTCCCTAAAATTGCAGTGGAGTAGATTTGAAAATAGCAAATCTTA
255 GTTGAAGTTATAAGTCTCATCTCCCTAAAATTGCAATGGAGCAGATCTGAAAATAGCAAATCTTA
* * *
87771954 TTTCCCTGAAGTTGTAGCAGAACAGATTGAAGGTATAAATTATA
320 TTTCCCTGAAGTCGCAGCAGAACAGATTGAAGGTATAAATTACA
* * ** *
87771998 AATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCATAGCGAATA--TTATTTCTTTGAAGTTGG
1 AATCTTATCTCTCTAAAGTTACAGTAGAGCAGATCATAGCGAA-ACCTTATCTCCCTGAAGTTGC
* *
87772061 AATGGAGCAGGCTGAAGTTATAAGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAAATAG
65 AATGGAGCAGGTTAAAGTTATAAGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAAATAG
* * * * * * *
87772126 AGAATCTTATTTCCCTGAAGTTGTAGTGGAATAGATTAAAGGTATATATTATAGATCTTATCTCT
130 CGAATCTTATTTCCCTAAAGTTGCAGTGGAATAGATTGAAGCTATAAATTACAGATCTTATCTCT
* * *
87772191 CTAAAGTTGCAGTA-AGCAGATCATAGTAGATCTTATCTCCCTGAAGTTACAATAGAGTAGGTTG
195 CTAAAGTTGCAGTAGAGCAGATCATAGCA-AACTTATCTCCCTGAAGTTACAATAGAGCAGGTTG
* * * *
87772255 AAGTTATAAGTCTTATCTCCCTAAAGTTGCAATGGAGCAGA-CTGAAGATAGCGAAT-TATATTT
259 AAGTTATAAGTCTCATCTCCCTAAAATTGCAATGGAGCAGATCTGAAAATAGCAAATCT-TATTT
* *
87772318 CCCTGAAGTCGCAGTAGAACAGATTGAAGTTATAAATTACA
323 CCCTGAAGTCGCAGCAGAACAGATTGAAGGTATAAATTACA
* * **
87772359 GATTTTATCTCTCTAAAGTTGTAGTAGAGCAGATCATAG-GAAACCTTATCTCCCTGAAGTTGCA
1 AATCTTATCTCTCTAAAGTTACAGTAGAGCAGATCATAGCGAAACCTTATCTCCCTGAAGTTGCA
* *
87772423 ATGGAGCAAGTTAAAGTTATAAGTCTTATCTACT-TGAAGTTGCAATGTA-A-CAGACTGAAGAT
66 ATGGAGCAGGTTAAAGTTATAAGTCTTATCT-CTCTGAAGTTGC-A-GTAGAGCAGACTGAAAAT
* * * *
87772485 ATCGAATCATATTTCCCTTAAGTTGCAGTGGAATAGATTGAAGCTATAAATTACAAATCTTATCT
128 AGCGAATCTTATTTCCCTAAAGTTGCAGTGGAATAGATTGAAGCTATAAATTACAGATCTTATCT
* * **
87772550 CTCTGAAA-TTACAGTAGAGTAGATTGTAGCAAACCTTATCTCCCTGAAGTT
193 CTCT-AAAGTTGCAGTAGAGCAGATCATAGCAAA-CTTATCTCCCTGAAGTT
87772601 GCAGAAGAGC
Statistics
Matches: 508, Mismatches: 81, Indels: 32
0.82 0.13 0.05
Matches are distributed among these distances:
359 1 0.00
360 4 0.01
361 217 0.43
362 113 0.22
363 134 0.26
364 3 0.01
365 4 0.01
366 32 0.06
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.31
Consensus pattern (363 bp):
AATCTTATCTCTCTAAAGTTACAGTAGAGCAGATCATAGCGAAACCTTATCTCCCTGAAGTTGCA
ATGGAGCAGGTTAAAGTTATAAGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAAATAGC
GAATCTTATTTCCCTAAAGTTGCAGTGGAATAGATTGAAGCTATAAATTACAGATCTTATCTCTC
TAAAGTTGCAGTAGAGCAGATCATAGCAAACTTATCTCCCTGAAGTTACAATAGAGCAGGTTGAA
GTTATAAGTCTCATCTCCCTAAAATTGCAATGGAGCAGATCTGAAAATAGCAAATCTTATTTCCC
TGAAGTCGCAGCAGAACAGATTGAAGGTATAAATTACA
Found at i:87772624 original size:41 final size:41
Alignment explanation
Indices: 87772537--87772642 Score: 131
Period size: 41 Copynumber: 2.6 Consensus size: 41
87772527 GCTATAAATT
* * * * * * **
87772537 ACAAATCTTATCTCTCTGAAATTACAGTAGAGTAGATTGTA
1 ACAAACCTTATCTCCCTGAAGTTGCAGAAGAGCAGATCATA
*
87772578 GCAAACCTTATCTCCCTGAAGTTGCAGAAGAGCAGATCATA
1 ACAAACCTTATCTCCCTGAAGTTGCAGAAGAGCAGATCATA
87772619 ACAAACCTTATCTCCCTGAAGTTG
1 ACAAACCTTATCTCCCTGAAGTTG
87772643 AAATGGAGCA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (41 bp):
ACAAACCTTATCTCCCTGAAGTTGCAGAAGAGCAGATCATA
Found at i:87772683 original size:44 final size:44
Alignment explanation
Indices: 87772625--87772784 Score: 176
Period size: 44 Copynumber: 3.6 Consensus size: 44
87772615 CATAACAAAC
* * *
87772625 CTTATCTCCCTGAAGTTGAAATGGAGCAGGTTGAAGTTAGAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGT
* * * * ** **
87772669 CTTATCTCCATGAAGTTGCCGTGGAGCAGATTAAAGCCACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGT
* * *
87772713 CTTATCTCCTTGAAATTGCAGTGGAGCAAGTTGAAGTTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGT
* *
87772757 CTTATCTCCCTGAAGTGGCATTGGAGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA
87772785 TATTAAAGTG
Statistics
Matches: 91, Mismatches: 25, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
44 91 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGT
Found at i:87772687 original size:85 final size:86
Alignment explanation
Indices: 87772584--87772772 Score: 245
Period size: 88 Copynumber: 2.2 Consensus size: 86
87772574 TGTAGCAAAC
* *
87772584 CTTATCTCCCTGAAGTTGCAGAAGAGCAGATCATA-ACAAACCTTATCTCCCTGAAGTTGAAATG
1 CTTATCTCCCTGAAGTTGCAGAAGAGCAGATCAAACACAAACCTTATCTCCCTGAAATTGAAATG
* *
87772648 GAGCAGGTTGAAGTTAGAAGT
66 GAGCAAGTTGAAGTTACAAGT
* * ** * * * *
87772669 CTTATCTCCATGAAGTTGCCGTGGAGCAGATTAAAGCCACAAACCTTATCTCCTTGAAATTGCAG
1 CTTATCTCCCTGAAGTTGCAGAAGAGCAGATCAAA--CACAAACCTTATCTCCCTGAAATTGAAA
87772734 TGGAGCAAGTTGAAGTTACAAGT
64 TGGAGCAAGTTGAAGTTACAAGT
87772757 CTTATCTCCCTGAAGT
1 CTTATCTCCCTGAAGT
87772773 GGCATTGGAG
Statistics
Matches: 88, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
85 29 0.33
88 59 0.67
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (86 bp):
CTTATCTCCCTGAAGTTGCAGAAGAGCAGATCAAACACAAACCTTATCTCCCTGAAATTGAAATG
GAGCAAGTTGAAGTTACAAGT
Found at i:87772746 original size:88 final size:88
Alignment explanation
Indices: 87772619--87772792 Score: 249
Period size: 88 Copynumber: 2.0 Consensus size: 88
87772609 GCAGATCATA
* * *
87772619 ACAAACCTTATCTCCCTGAAGTTGAAATGGAGCAGGTTGAAGTTAGAAGTCTTATCTCCATGAAG
1 ACAAACCTTATCTCCCTGAAATTGAAATGGAGCAAGTTGAAGTTACAAGTCTTATCTCCATGAAG
* *
87772684 TTGCCGTGGAGCAGATTAAAGCC
66 TGGCAGTGGAGCAGATTAAAGCC
* * * *
87772707 ACAAACCTTATCTCCTTGAAATTGCAGTGGAGCAAGTTGAAGTTACAAGTCTTATCTCCCTGAAG
1 ACAAACCTTATCTCCCTGAAATTGAAATGGAGCAAGTTGAAGTTACAAGTCTTATCTCCATGAAG
* *
87772772 TGGCATTGGAGCATATTAAAG
66 TGGCAGTGGAGCAGATTAAAG
87772793 TGAACTAATC
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 75 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (88 bp):
ACAAACCTTATCTCCCTGAAATTGAAATGGAGCAAGTTGAAGTTACAAGTCTTATCTCCATGAAG
TGGCAGTGGAGCAGATTAAAGCC
Found at i:87774215 original size:3 final size:3
Alignment explanation
Indices: 87774207--87774417 Score: 139
Period size: 3 Copynumber: 71.3 Consensus size: 3
87774197 ATTTTTGCTA
* * * * *
87774207 TAT TAT TAT TAT TAT T-T T-T TAT TTT TAT TTT TAT TAC CAT TAT GAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
87774253 CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAC TAT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * ** * **
87774300 TAT TAT TAC TAC TAT TAT TAT TGC TAT TAT TTT TAT TAT TAT TGC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
87774348 TAT AAT TA- TAT T-T TCT TTT TGT GT-T TATT TACT TAT TAAT TAA T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA-T TA-T TAT T-AT TAT TAT
* *
87774393 TAT TAT TAC TAT TAT TAT TTT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
87774418 TTTTTTGTAT
Statistics
Matches: 161, Mismatches: 38, Indels: 18
0.74 0.18 0.08
Matches are distributed among these distances:
2 12 0.07
3 139 0.86
4 10 0.06
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:87774405 original size:57 final size:56
Alignment explanation
Indices: 87774335--87774441 Score: 153
Period size: 56 Copynumber: 1.9 Consensus size: 56
87774325 ATTATTTTTA
* *
87774335 TTATTATTGCTATTATAATTATATT-TTCTTTTTGTGTTTATTTACTTATTAATTAAT
1 TTATTATTACTATTATAATT-T-TTATTCTTTTTGTATTTATTTACTTATTAATTAAT
* *
87774392 TTATTATTACTATTATTATTTTTATTTTTTTTGTATTTATTTACTTATTA
1 TTATTATTACTATTATAATTTTTATTCTTTTTGTATTTATTTACTTATTA
87774442 TTATTCTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
55 2 0.04
56 25 0.56
57 18 0.40
ACGTcount: A:0.25, C:0.05, G:0.04, T:0.66
Consensus pattern (56 bp):
TTATTATTACTATTATAATTTTTATTCTTTTTGTATTTATTTACTTATTAATTAAT
Found at i:87774443 original size:15 final size:14
Alignment explanation
Indices: 87774209--87774443 Score: 58
Period size: 15 Copynumber: 16.8 Consensus size: 14
87774199 TTTTGCTATA
87774209 TTATTATTA-TTAT
1 TTATTATTATTTAT
*
87774222 TTTTTATT-TTTAT
1 TTATTATTATTTAT
*
87774235 TT-TTATTACCATTAT
1 TTATTATTA--TTTAT
*
87774250 GATCATTATTA-TTA-
1 --TTATTATTATTTAT
87774264 TTATTATTA-TTA-
1 TTATTATTATTTAT
87774276 TTATTATTATTTTACT
1 TTATTATTA-TTTA-T
*
87774292 ATTATCATTA-TTAT
1 -TTATTATTATTTAT
*
87774306 TACTACTATTA-TTAT
1 T--TATTATTATTTAT
87774321 TGCTATTATT-TTTA-
1 T--TATTATTATTTAT
*
87774335 TTATTATTGCTATTA-
1 TTATTATT-AT-TTAT
*
87774350 TAATTA-TATTT-T
1 TTATTATTATTTAT
*
87774362 CTT-TT-TGTGTTTAT
1 -TTATTAT-TATTTAT
*
87774376 TTACTTATTAATTAAT
1 TTA-TTATT-ATTTAT
*
87774392 TTATTATTA-CTA-
1 TTATTATTATTTAT
87774404 TTATTATT-TTTAT
1 TTATTATTATTTAT
* *
87774417 TTTTTTTGTATTTAT
1 TTATTAT-TATTTAT
87774432 TTACTTATTATT
1 TTA-TTATTATT
87774444 ATTCTTTAAA
Statistics
Matches: 168, Mismatches: 22, Indels: 62
0.67 0.09 0.25
Matches are distributed among these distances:
12 46 0.27
13 28 0.17
14 10 0.06
15 58 0.35
16 11 0.07
17 9 0.05
18 6 0.04
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.65
Consensus pattern (14 bp):
TTATTATTATTTAT
Found at i:87790649 original size:48 final size:48
Alignment explanation
Indices: 87790567--87790659 Score: 127
Period size: 48 Copynumber: 1.9 Consensus size: 48
87790557 TTTCTTGGCT
* * *
87790567 TAAAAACGCCTAAGTCAGCCTAACTTCTACCAATAACGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
87790615 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAA
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAA
87790660 TAGAATTCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
47 4 0.10
48 36 0.90
ACGTcount: A:0.41, C:0.27, G:0.13, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:87793604 original size:25 final size:24
Alignment explanation
Indices: 87793570--87793645 Score: 102
Period size: 25 Copynumber: 3.2 Consensus size: 24
87793560 CATAAACGCA
*
87793570 GCTCTTTATGAGCGTCCTGATATAG
1 GCTCTTTATGAGCTTCCTGATAT-G
87793595 GCTCTTTATGAGCTTCCTGATATG
1 GCTCTTTATGAGCTTCCTGATATG
*
87793619 GCT-TGCT-TGAGCTTCCTGATATG
1 GCTCT-TTATGAGCTTCCTGATATG
87793642 GCTC
1 GCTC
87793646 GCTTGAACTT
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
23 20 0.43
24 5 0.11
25 22 0.47
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (24 bp):
GCTCTTTATGAGCTTCCTGATATG
Found at i:87793633 original size:23 final size:23
Alignment explanation
Indices: 87793578--87793658 Score: 99
Period size: 23 Copynumber: 3.4 Consensus size: 23
87793568 CAGCTCTTTA
* **
87793578 TGAGCGTCCTGATATAGGCTCTTT
1 TGAGCTTCCTGATAT-GGCTCGCT
*
87793602 ATGAGCTTCCTGATATGGCTTGCT
1 -TGAGCTTCCTGATATGGCTCGCT
87793626 TGAGCTTCCTGATATGGCTCGCT
1 TGAGCTTCCTGATATGGCTCGCT
*
87793649 TGAACTTCCT
1 TGAGCTTCCT
87793659 ATTATATGGC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
23 31 0.62
24 5 0.10
25 14 0.28
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.37
Consensus pattern (23 bp):
TGAGCTTCCTGATATGGCTCGCT
Found at i:87794641 original size:81 final size:82
Alignment explanation
Indices: 87794495--87794694 Score: 240
Period size: 81 Copynumber: 2.5 Consensus size: 82
87794485 AAAGATTATA
* * * * * * * * **
87794495 CAAACGCCGCAAAAAATTGAACAATAGCAGCGTTCTTAGTCCAAACTCCACTAAAAACTGAGCAA
1 CAAACGCCACTAAAAACTGAACAATAGCCGTGTTTTTGGCCCAAACGACACTAAAAACTGAGCAA
*
87794560 TAGTGGTG-TTTTGGCC
66 TAGTGGCGTTTTTGGCC
* * * *
87794576 CGAGCGGCACTAAAAACTGAACAATAGCCGTTTTTTTGGCCCAAACGACACTAAAAACTGAGCAA
1 CAAACGCCACTAAAAACTGAACAATAGCCGTGTTTTTGGCCCAAACGACACTAAAAACTGAGCAA
87794641 TAGTGGCGTTTTTGGCC
66 TAGTGGCGTTTTTGGCC
* *
87794658 CAAACGCCACTAAAAACTGATCAATAGCGGTGTTTTT
1 CAAACGCCACTAAAAACTGAACAATAGCCGTGTTTTT
87794695 ATCTAAAACG
Statistics
Matches: 97, Mismatches: 21, Indels: 1
0.82 0.18 0.01
Matches are distributed among these distances:
81 58 0.60
82 39 0.40
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (82 bp):
CAAACGCCACTAAAAACTGAACAATAGCCGTGTTTTTGGCCCAAACGACACTAAAAACTGAGCAA
TAGTGGCGTTTTTGGCC
Found at i:87794704 original size:41 final size:41
Alignment explanation
Indices: 87794495--87794713 Score: 206
Period size: 41 Copynumber: 5.4 Consensus size: 41
87794485 AAAGATTATA
* * * * * * * *
87794495 CAAACGCCGCAAAAAATTGAACAATAGCAGCGTTCTTAGTC
1 CAAACGCCACTAAAAACTGAACAATAGCGGTGTTTTTGGCC
* * *
87794536 CAAACTCCACTAAAAACTGAGCAATAGTGGTG-TTTTGGCC
1 CAAACGCCACTAAAAACTGAACAATAGCGGTGTTTTTGGCC
* * * * *
87794576 CGAGCGGCACTAAAAACTGAACAATAGCCGTTTTTTTGGCC
1 CAAACGCCACTAAAAACTGAACAATAGCGGTGTTTTTGGCC
* * * *
87794617 CAAACGACACTAAAAACTGAGCAATAGTGGCGTTTTTGGCC
1 CAAACGCCACTAAAAACTGAACAATAGCGGTGTTTTTGGCC
* ** *
87794658 CAAACGCCACTAAAAACTGATCAATAGCGGTGTTTTTATCT
1 CAAACGCCACTAAAAACTGAACAATAGCGGTGTTTTTGGCC
*
87794699 AAAACGCCACTAAAA
1 CAAACGCCACTAAAA
87794714 TGATTTAAAA
Statistics
Matches: 142, Mismatches: 35, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
40 29 0.20
41 113 0.80
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (41 bp):
CAAACGCCACTAAAAACTGAACAATAGCGGTGTTTTTGGCC
Found at i:87795086 original size:14 final size:14
Alignment explanation
Indices: 87795062--87795125 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
87795052 ATTTATAGGG
87795062 TAGGG-TTTGAGTT
1 TAGGGTTTTGAGTT
87795075 TAGGGTTTTGAGATT
1 TAGGGTTTTGAG-TT
* *
87795090 TAAGGTTCAT-AGTT
1 TAGGGTT-TTGAGTT
*
87795104 TCGGGTTTGTG-GTT
1 TAGGGTTT-TGAGTT
87795118 TAGGGTTT
1 TAGGGTTT
87795126 ATGGTTCATG
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
13 5 0.12
14 24 0.60
15 10 0.25
16 1 0.03
ACGTcount: A:0.16, C:0.03, G:0.34, T:0.47
Consensus pattern (14 bp):
TAGGGTTTTGAGTT
Found at i:87795132 original size:35 final size:35
Alignment explanation
Indices: 87795088--87795161 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
87795078 GGTTTTGAGA
* *
87795088 TTTAAGGTTCATAGTTTCGGG-TTTGTGGTTTAGGG
1 TTTAAGGTTCATAGCTT-GGGTTTTGAGGTTTAGGG
* * *
87795123 TTTATGGTTCATGGCTTGGGTTTTGAGGTTTTGGG
1 TTTAAGGTTCATAGCTTGGGTTTTGAGGTTTAGGG
87795158 TTTA
1 TTTA
87795162 GGATTTTCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
34 3 0.09
35 30 0.91
ACGTcount: A:0.12, C:0.05, G:0.34, T:0.49
Consensus pattern (35 bp):
TTTAAGGTTCATAGCTTGGGTTTTGAGGTTTAGGG
Found at i:87796088 original size:37 final size:37
Alignment explanation
Indices: 87796030--87796175 Score: 175
Period size: 37 Copynumber: 3.9 Consensus size: 37
87796020 ATTCCCCCAA
* *
87796030 AACCCTATCTCCTCCACCACCTTCGCCCCGTGCATCGC
1 AACCC-ATCTCCTCCATCACCTTCGCCCCATGCATCGC
* * * *
87796068 AACCCATCTCCTTCGTCACCTTCGCCTCATGCATTGC
1 AACCCATCTCCTCCATCACCTTCGCCCCATGCATCGC
** * * *
87796105 AACTAATCCCCTCCATTACCTTCGCCCCGTGCATCGC
1 AACCCATCTCCTCCATCACCTTCGCCCCATGCATCGC
*
87796142 AACCCATCTCCTCCATCGCCTTCGCCCCATGCAT
1 AACCCATCTCCTCCATCACCTTCGCCCCATGCAT
87796176 TTGCTGCATA
Statistics
Matches: 87, Mismatches: 21, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
37 82 0.94
38 5 0.06
ACGTcount: A:0.17, C:0.48, G:0.10, T:0.25
Consensus pattern (37 bp):
AACCCATCTCCTCCATCACCTTCGCCCCATGCATCGC
Found at i:87798129 original size:8 final size:9
Alignment explanation
Indices: 87798034--87798194 Score: 116
Period size: 9 Copynumber: 17.6 Consensus size: 9
87798024 GTTGATTCAA
*
87798034 ATAACTCAC
1 ATAACTTAC
87798043 ATAACTTAC
1 ATAACTTAC
87798052 ATAACTTA-
1 ATAACTTAC
*
87798060 ATAACTTAT
1 ATAACTTAC
87798069 AT-A--TATC
1 ATAACTTA-C
*
87798076 ATATCTTGGATAC
1 ATAAC-T---TAC
87798089 ATAACTTAC
1 ATAACTTAC
* *
87798098 ATACCTCAC
1 ATAACTTAC
87798107 ATAACTTAC
1 ATAACTTAC
87798116 ATAACTTA-
1 ATAACTTAC
*
87798124 ATAACTTAT
1 ATAACTTAC
*
87798133 ATATATCGTATC
1 ATA-A-CTTA-C
87798145 ATAACTTAC
1 ATAACTTAC
*
87798154 ATACCTTAC
1 ATAACTTAC
*
87798163 ATACCTTAC
1 ATAACTTAC
**
87798172 ATAACACAC
1 ATAACTTAC
87798181 ATAACTTAC
1 ATAACTTAC
87798190 ATAAC
1 ATAAC
87798195 AACTTACCCG
Statistics
Matches: 122, Mismatches: 17, Indels: 26
0.74 0.10 0.16
Matches are distributed among these distances:
6 2 0.02
7 2 0.02
8 17 0.14
9 82 0.67
10 4 0.03
11 4 0.03
12 4 0.03
13 5 0.04
14 2 0.02
ACGTcount: A:0.42, C:0.22, G:0.02, T:0.34
Consensus pattern (9 bp):
ATAACTTAC
Found at i:87798139 original size:64 final size:64
Alignment explanation
Indices: 87798038--87798194 Score: 217
Period size: 64 Copynumber: 2.4 Consensus size: 64
87798028 ATTCAAATAA
* *
87798038 CTCACATAACTTACATAACTTAATAACTTATATATATCATATCTTGGA-TACATAACTTACATAC
1 CTCACATAACTTACATAACTTAATAACTTATATATATCATATCAT-AACTACATAACTTACATAC
* *
87798102 CTCACATAACTTACATAACTTAATAACTTATATATATCGTATCATAACTTACATACCTTACATAC
1 CTCACATAACTTACATAACTTAATAACTTATATATATCATATCATAAC-TACATAACTTACATAC
* **
87798167 CTTACATAACACACATAACTTACATAAC
1 CTCACATAACTTACATAACTTA-ATAAC
87798195 AACTTACCCG
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
63 1 0.01
64 43 0.52
65 34 0.41
66 5 0.06
ACGTcount: A:0.41, C:0.23, G:0.02, T:0.34
Consensus pattern (64 bp):
CTCACATAACTTACATAACTTAATAACTTATATATATCATATCATAACTACATAACTTACATAC
Found at i:87798150 original size:56 final size:61
Alignment explanation
Indices: 87798038--87798176 Score: 189
Period size: 56 Copynumber: 2.3 Consensus size: 61
87798028 ATTCAAATAA
87798038 CTCACATAACTTACATAACTTAATAACTTATATATATCATATCTTGGATACATAACTTACATAC
1 CTCACATAACTTACATAACTTAATAAC-T-TATATATCATATC-TGGATACATAACTTACATAC
*
87798102 CTCACATAACTTACATAACTTAATAAC-T-TATAT-ATATC-GTAT-CATAACTTACATAC
1 CTCACATAACTTACATAACTTAATAACTTATATATCATATCTGGATACATAACTTACATAC
* *
87798158 CTTACATACCTTACATAAC
1 CTCACATAACTTACATAAC
87798177 ACACATAACT
Statistics
Matches: 72, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
56 31 0.43
57 3 0.04
59 5 0.07
60 5 0.07
61 1 0.01
64 27 0.38
ACGTcount: A:0.40, C:0.22, G:0.02, T:0.35
Consensus pattern (61 bp):
CTCACATAACTTACATAACTTAATAACTTATATATCATATCTGGATACATAACTTACATAC
Found at i:87801105 original size:13 final size:13
Alignment explanation
Indices: 87801087--87801115 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
87801077 TTTAGTTTAA
87801087 TTAGTTAATTAGT
1 TTAGTTAATTAGT
87801100 TTAGTTAATTAGT
1 TTAGTTAATTAGT
87801113 TTA
1 TTA
87801116 ATAAATAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:87804640 original size:13 final size:14
Alignment explanation
Indices: 87804624--87804652 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
87804614 TTTTAAATAT
87804624 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
87804637 TTATAATGGTTTAA
1 TTATAATGGTTTAA
87804651 TT
1 TT
87804653 CATCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:87805591 original size:43 final size:43
Alignment explanation
Indices: 87805530--87805733 Score: 225
Period size: 43 Copynumber: 4.7 Consensus size: 43
87805520 ACAAACGCTT
* * *
87805530 TCCCATAAACGTCGCTAAAAGCCATGACCTTTAGTGGCGTTTC
1 TCCCACAAACGCCGCTAAAAGCCATGACCTTTAGCGGCGTTTC
* **
87805573 TCCCACAAACACCGCTAAAAGCCATGACCTTTAGCGGCACTTC
1 TCCCACAAACGCCGCTAAAAGCCATGACCTTTAGCGGCGTTTC
* *
87805616 TCCTACAAACGGCGCTAAAAGCCATGACCTTTAGCGGCGCTTT-
1 TCCCACAAACGCCGCTAAAAGCCATGACCTTTAGCGGCG-TTTC
** *
87805659 TCCCACAAACGCCGCTAAAAAACATGACTTTTAGCAGTGC-TTT-
1 TCCCACAAACGCCGCTAAAAGCCATGACCTTTAGC-G-GCGTTTC
* * * *
87805702 TCCCACAAATGCCACTAAAAGCTATGATCTTT
1 TCCCACAAACGCCGCTAAAAGCCATGACCTTT
87805734 TGTGATGTTT
Statistics
Matches: 135, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
43 130 0.96
44 3 0.02
45 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (43 bp):
TCCCACAAACGCCGCTAAAAGCCATGACCTTTAGCGGCGTTTC
Found at i:87810520 original size:16 final size:16
Alignment explanation
Indices: 87810499--87810529 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
87810489 GATATTTTAA
87810499 TATATTATATTAATAT
1 TATATTATATTAATAT
*
87810515 TATATTATGTTAATA
1 TATATTATATTAATA
87810530 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:87810626 original size:12 final size:12
Alignment explanation
Indices: 87810609--87810638 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
87810599 GAAGCAGGGG
87810609 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
87810621 AGAAAAAGGGAA
1 AGAAAAAGAGAA
87810633 AGAAAA
1 AGAAAA
87810639 TAAAAGAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:87811961 original size:31 final size:30
Alignment explanation
Indices: 87811908--87811975 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 30
87811898 GTATGAACTA
87811908 AATTATGAATTAAGTTAGTATG-AGAAAAAT
1 AATTATGAATTAAGTTA-TATGAAGAAAAAT
*
87811938 GAATTATGAATTTAAGATT-TATGAAGTAAAAT
1 -AATTATGAA-TTAAG-TTATATGAAGAAAAAT
87811970 AATTAT
1 AATTAT
87811976 ATATAAATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
31 19 0.58
32 12 0.36
33 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.37
Consensus pattern (30 bp):
AATTATGAATTAAGTTATATGAAGAAAAAT
Found at i:87816852 original size:39 final size:40
Alignment explanation
Indices: 87816809--87816919 Score: 127
Period size: 40 Copynumber: 2.8 Consensus size: 40
87816799 ATGAAAAATG
87816809 CCGCTAAAGAACGAGCATTAGCGGCGC-TTTTCAAAAACA
1 CCGCTAAAGAACGAGCATTAGCGGCGCTTTTTCAAAAACA
* * * *
87816848 CCGCTAAAGATCGAGTATTAGCGGCGCTTTTTTAAAAACG
1 CCGCTAAAGAACGAGCATTAGCGGCGCTTTTTCAAAAACA
* * * *
87816888 CCGCTATATGTAC-ACCTTTAGCGGCGCTTTTT
1 CCGCTA-AAGAACGAGCATTAGCGGCGCTTTTT
87816920 AGAAAATGCC
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
39 25 0.42
40 32 0.53
41 3 0.05
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (40 bp):
CCGCTAAAGAACGAGCATTAGCGGCGCTTTTTCAAAAACA
Found at i:87816909 original size:40 final size:40
Alignment explanation
Indices: 87816865--87816971 Score: 130
Period size: 40 Copynumber: 2.7 Consensus size: 40
87816855 AGATCGAGTA
87816865 TTAGCGGCGCTTTTTTAAAAACGCCGCTATATG-TACACCT
1 TTAGCGGCGCTTTTTTAAAAACGCCGCTA-ATGCTACACCT
* * *
87816905 TTAGCGGCGC-TTTTTAGAAAATGCCGCTAATGCTTCATCT
1 TTAGCGGCGCTTTTTTA-AAAACGCCGCTAATGCTACACCT
*
87816945 TTAGCGGCG-TTTTTCAAAAAACGCCGC
1 TTAGCGGCGCTTTTT-TAAAAACGCCGC
87816972 AAAAGAATTT
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
39 9 0.16
40 48 0.83
41 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (40 bp):
TTAGCGGCGCTTTTTTAAAAACGCCGCTAATGCTACACCT
Found at i:87817253 original size:22 final size:22
Alignment explanation
Indices: 87817228--87817273 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
87817218 GAGTTACTAT
* *
87817228 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAAGGG
* *
87817250 TTTAGGGATTATGGTTTAAGGG
1 TTTAAGGATTATGGATTAAGGG
87817272 TT
1 TT
87817274 GGGGTTTAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.46
Consensus pattern (22 bp):
TTTAAGGATTATGGATTAAGGG
Found at i:87817265 original size:29 final size:29
Alignment explanation
Indices: 87817228--87817374 Score: 117
Period size: 29 Copynumber: 5.1 Consensus size: 29
87817218 GAGTTACTAT
* *
87817228 TTTAAGGTTTATGGATTATGGGTTTAGGG
1 TTTATGGTTTAAGGATTATGGGTTTAGGG
* * * *
87817257 ATTATGGTTTAAGGGTT-GGGGTTTAAGG
1 TTTATGGTTTAAGGATTATGGGTTTAGGG
* * *
87817285 TTTA-GGTGTTAGGGGTTCAT-GGTTCAGGG
1 TTTATGGT-TTAAGGATT-ATGGGTTTAGGG
*
87817314 TTTAT-GTTTTAGGATTTAT-GGTTTAGGG
1 TTTATGGTTTAAGGA-TTATGGGTTTAGGG
*
87817342 TTTATGGTTTAAAGATTA-GGAGTTTAGGG
1 TTTATGGTTTAAGGATTATGG-GTTTAGGG
87817371 TTTA
1 TTTA
87817375 GATTAATTAG
Statistics
Matches: 93, Mismatches: 17, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
27 3 0.03
28 43 0.46
29 47 0.51
ACGTcount: A:0.20, C:0.01, G:0.34, T:0.44
Consensus pattern (29 bp):
TTTATGGTTTAAGGATTATGGGTTTAGGG
Found at i:87817267 original size:14 final size:14
Alignment explanation
Indices: 87817233--87817352 Score: 84
Period size: 14 Copynumber: 8.4 Consensus size: 14
87817223 ACTATTTTAA
*
87817233 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
87817247 GGGTTTAGGGATTAT
1 -GGTTTAGGGATTAT
**
87817262 GGTTTAAGGG-TTGG
1 GGTTT-AGGGATTAT
* *
87817276 GGTTTAAGGTTTA-
1 GGTTTAGGGATTAT
*
87817289 GGTGTTAGGGGTTCAT
1 GGT-TTAGGGATT-AT
* *
87817305 GGTTCAGGGTTTAT
1 GGTTTAGGGATTAT
*
87817319 GTTTTA-GGATTTAT
1 GGTTTAGGGA-TTAT
*
87817333 GGTTTAGGGTTTAT
1 GGTTTAGGGATTAT
87817347 GGTTTA
1 GGTTTA
87817353 AAGATTAGGA
Statistics
Matches: 84, Mismatches: 14, Indels: 15
0.74 0.12 0.13
Matches are distributed among these distances:
13 8 0.10
14 46 0.55
15 27 0.32
16 3 0.04
ACGTcount: A:0.17, C:0.02, G:0.36, T:0.45
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:87817375 original size:7 final size:7
Alignment explanation
Indices: 87817228--87817375 Score: 75
Period size: 7 Copynumber: 20.7 Consensus size: 7
87817218 GAGTTACTAT
*
87817228 TTTAAGG
1 TTTAGGG
*
87817235 TTTATGG
1 TTTAGGG
*
87817242 ATTATGGG
1 TTTA-GGG
87817250 TTTAGGG
1 TTTAGGG
* *
87817257 ATTATGG
1 TTTAGGG
87817264 TTTAAGGG
1 TTT-AGGG
*
87817272 -TTGGGG
1 TTTAGGG
*
87817278 TTTAAGG
1 TTTAGGG
87817285 TTTA-GG
1 TTTAGGG
87817291 TGTTAGGGG
1 T-TTA-GGG
* *
87817300 TTCATGG
1 TTTAGGG
*
87817307 TTCAGGG
1 TTTAGGG
* *
87817314 TTTATGT
1 TTTAGGG
*
87817321 TTTAGGA
1 TTTAGGG
*
87817328 TTTATGG
1 TTTAGGG
87817335 TTTAGGG
1 TTTAGGG
*
87817342 TTTATGG
1 TTTAGGG
**
87817349 TTTAAAG
1 TTTAGGG
*
87817356 ATTAGGAG
1 TTTAGG-G
87817364 TTTAGGG
1 TTTAGGG
87817371 TTTAG
1 TTTAG
87817376 ATTAATTAGT
Statistics
Matches: 105, Mismatches: 29, Indels: 14
0.71 0.20 0.09
Matches are distributed among these distances:
6 6 0.06
7 80 0.76
8 16 0.15
9 3 0.03
ACGTcount: A:0.20, C:0.01, G:0.34, T:0.44
Consensus pattern (7 bp):
TTTAGGG
Found at i:87817491 original size:14 final size:13
Alignment explanation
Indices: 87817469--87817511 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
87817459 TTAATTATCA
*
87817469 TTATAGTTTAGGG
1 TTATGGTTTAGGG
87817482 CTTATGGTTTAGGG
1 -TTATGGTTTAGGG
87817496 TATATGGTTTAGGG
1 T-TATGGTTTAGGG
87817510 TT
1 TT
87817512 TAAAGTGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 2 0.07
14 25 0.93
ACGTcount: A:0.19, C:0.02, G:0.33, T:0.47
Consensus pattern (13 bp):
TTATGGTTTAGGG
Found at i:87817557 original size:15 final size:15
Alignment explanation
Indices: 87817537--87817584 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
87817527 ACTATTTTAA
87817537 GGTTTATGGATTATG
1 GGTTTATGGATTATG
87817552 GGTTTA-GTGATTAT-
1 GGTTTATG-GATTATG
* *
87817566 GGTTTATGGTTTAAG
1 GGTTTATGGATTATG
87817581 GGTT
1 GGTT
87817585 GGTTTTTAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:87817557 original size:22 final size:21
Alignment explanation
Indices: 87817532--87817581 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
87817522 GAGTTACTAT
*
87817532 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAT-GG
*
87817554 TTT-AGTGATTATGGTTTATGG
1 TTTAAG-GATTATGGATTATGG
87817575 TTTAAGG
1 TTTAAGG
87817582 GTTGGTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (21 bp):
TTTAAGGATTATGGATTATGG
Found at i:87818330 original size:18 final size:17
Alignment explanation
Indices: 87818304--87818366 Score: 69
Period size: 19 Copynumber: 3.8 Consensus size: 17
87818294 TTTATATGAT
87818304 AATTTAAAAATTATTAA
1 AATTTAAAAATTATTAA
**
87818321 AATCTTAAAAAAAAATTAA
1 AAT-TT-AAAAATTATTAA
87818340 AATTTAAAAATTA--AA
1 AATTTAAAAATTATTAA
87818355 AA-TTAAAAATTA
1 AATTTAAAAATTA
87818367 AAAAACTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
14 10 0.25
15 4 0.10
17 9 0.22
18 4 0.10
19 13 0.32
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
AATTTAAAAATTATTAA
Found at i:87818346 original size:7 final size:7
Alignment explanation
Indices: 87818331--87818370 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
87818321 AATCTTAAAA
87818331 AAAAATT
1 AAAAATT
*
87818338 AAAATTT
1 AAAAATT
87818345 AAAAATT
1 AAAAATT
87818352 AAAAATT
1 AAAAATT
87818359 AAAAATT
1 AAAAATT
87818366 AAAAA
1 AAAAA
87818371 ACTTAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAAAATT
Found at i:87818357 original size:21 final size:19
Alignment explanation
Indices: 87818316--87818371 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 19
87818306 TTTAAAAATT
87818316 ATTAAAATCTT-AAAAAAAA
1 ATTAAAAT-TTAAAAAAAAA
87818335 ATTAAAATTTAAAAATTAAAA
1 ATTAAAATTTAAAAA--AAAA
*
87818356 ATTAAAAATTAAAAAA
1 ATTAAAATTTAAAAAA
87818372 CTTAAATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 2 0.06
19 13 0.39
21 18 0.55
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
ATTAAAATTTAAAAAAAAA
Found at i:87818378 original size:21 final size:20
Alignment explanation
Indices: 87818332--87818377 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 20
87818322 ATCTTAAAAA
*
87818332 AAAATTAAAATTTAAAAATT
1 AAAATTAAAATTAAAAAATT
87818352 AAAAATTAAAAATTAAAAAACTT
1 -AAAATT-AAAATTAAAAAA-TT
87818375 AAA
1 AAA
87818378 TATTTAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
22 14 0.64
23 2 0.09
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAATTAAAATTAAAAAATT
Found at i:87821382 original size:20 final size:22
Alignment explanation
Indices: 87821357--87821397 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
87821347 AAGAATATTT
87821357 TTCCTT-C-CTAATTTTCTTAG
1 TTCCTTACTCTAATTTTCTTAG
*
87821377 TTCCTTACTCTAGTTTTCTTA
1 TTCCTTACTCTAATTTTCTTA
87821398 TTACAAGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 1 0.06
22 11 0.61
ACGTcount: A:0.15, C:0.24, G:0.05, T:0.56
Consensus pattern (22 bp):
TTCCTTACTCTAATTTTCTTAG
Found at i:87823396 original size:86 final size:84
Alignment explanation
Indices: 87823299--87823456 Score: 217
Period size: 86 Copynumber: 1.9 Consensus size: 84
87823289 CGTTCGTAAC
* * * * *
87823299 AAAAGTGCCGCTAAAGGTCATGGTCTTTAGCGGCCTTTGCGAGAAAAGTGCTGCTAAAGGTCATG
1 AAAAGCGCCGCTAAAGGTCATAGTCTTTAGCGG-CTTT-CGAGAAAAGCGCCGCTAAAAGTCATG
87823364 GTCTTTAGTGGTACTTGTGGG
64 GTCTTTAGTGGTACTTGTGGG
* ***
87823385 AAAAGCGCCGCTAAAGGTCATAGTCTTTAGTGGCTTTTTTGAAAAGCGCCGCTAAAAGTCATGGT
1 AAAAGCGCCGCTAAAGGTCATAGTCTTTAGCGGCTTTCGAGAAAAGCGCCGCTAAAAGTCATGGT
87823450 CTTTAGT
66 CTTTAGT
87823457 AGCGTTTGCT
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
84 29 0.46
85 4 0.06
86 30 0.48
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (84 bp):
AAAAGCGCCGCTAAAGGTCATAGTCTTTAGCGGCTTTCGAGAAAAGCGCCGCTAAAAGTCATGGT
CTTTAGTGGTACTTGTGGG
Found at i:87823446 original size:41 final size:42
Alignment explanation
Indices: 87823299--87823456 Score: 183
Period size: 43 Copynumber: 3.7 Consensus size: 42
87823289 CGTTCGTAAC
* * * *
87823299 AAAAGTGCCGCTAAAGGTCATGGTCTTTAGCGGCCTTTGCGAG
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGTGGACTTT-TGAG
* * * *
87823342 AAAAGTGCTGCTAAAGGTCATGGTCTTTAGTGGTACTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGTGG-ACTTTTGAG
* **
87823385 AAAAGCGCCGCTAAAGGTCATAGTCTTTAGTGG-CTTTTTTG
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGTGGACTTTTGAG
*
87823426 AAAAGCGCCGCTAAAAGTCATGGTCTTTAGT
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGT
87823457 AGCGTTTGCT
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
41 34 0.34
43 63 0.63
44 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (42 bp):
AAAAGCGCCGCTAAAGGTCATGGTCTTTAGTGGACTTTTGAG
Found at i:87825542 original size:21 final size:21
Alignment explanation
Indices: 87825516--87825555 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
87825506 CCAACGTGGT
*
87825516 AAGTTAATTGGTTACATCAAC
1 AAGTTAATTGGTCACATCAAC
87825537 AAGTTAATTGGTCACATCA
1 AAGTTAATTGGTCACATCA
87825556 CCTATTTCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (21 bp):
AAGTTAATTGGTCACATCAAC
Found at i:87829473 original size:21 final size:21
Alignment explanation
Indices: 87829435--87829475 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
87829425 AGACAAGCAA
* *
87829435 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
*
87829456 TACTCCAAAACAGTTGGAGT
1 TACTCCAAAACAGGTGGAGT
87829476 TTGAGCAGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:87832201 original size:96 final size:95
Alignment explanation
Indices: 87832094--87832281 Score: 297
Period size: 96 Copynumber: 2.0 Consensus size: 95
87832084 CTATATCTAT
* * * *
87832094 ATATATGTAATGAGTAACTAAGCTTTACTCTTATAGTATTCAATATGTTATCCAGATTGTT-GCA
1 ATATATATAATGAGTAACTAAGCTTTACTCTTATAATATTCAATATATTATCCAGATTATTAG-A
*
87832158 ACAAAATGGGGGCATCGCCTAACATTTCGGTC
65 ACAAAATGGGGACATCGCCTAAC-TTTCGGTC
87832190 ATATATATAATGAGTAACTAAGCTTTACTCTTATAATATTCAATATATTATCCAGATTATTAGAA
1 ATATATATAATGAGTAACTAAGCTTTACTCTTATAATATTCAATATATTATCCAGATTATTAGAA
*
87832255 CAAAATGGGGACATCGCCTTACTTTCG
66 CAAAATGGGGACATCGCCTAACTTTCG
87832282 ATTATCGCTT
Statistics
Matches: 85, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
95 5 0.06
96 79 0.93
97 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (95 bp):
ATATATATAATGAGTAACTAAGCTTTACTCTTATAATATTCAATATATTATCCAGATTATTAGAA
CAAAATGGGGACATCGCCTAACTTTCGGTC
Found at i:87837796 original size:2 final size:2
Alignment explanation
Indices: 87837753--87837777 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
87837743 ATGACATTTA
87837753 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
87837778 GAAATTGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:87841911 original size:30 final size:30
Alignment explanation
Indices: 87841876--87841932 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
87841866 TAAGCACTTC
87841876 CACACGGG-TAATCCACACGCCCGTGTGAGG
1 CACACGGGTTAA-CCACACGCCCGTGTGAGG
* *
87841906 CACACGGGTTGACCACACGCCTGTGTG
1 CACACGGGTTAACCACACGCCCGTGTG
87841933 TAATGGCCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.21, C:0.33, G:0.30, T:0.16
Consensus pattern (30 bp):
CACACGGGTTAACCACACGCCCGTGTGAGG
Found at i:87847312 original size:43 final size:43
Alignment explanation
Indices: 87847260--87847368 Score: 146
Period size: 43 Copynumber: 2.5 Consensus size: 43
87847250 CGGAATTTCA
** *
87847260 CCTGCTAGGCTTGAAGCCCGATATCATTTCACCGGCATTATAG
1 CCTGCTAGGCCCGAAGCCCGATATCATCTCACCGGCATTATAG
* *** *
87847303 CCTGCTAGGCCCGAAACTTTATATTATCTCACCGGCATTATAG
1 CCTGCTAGGCCCGAAGCCCGATATCATCTCACCGGCATTATAG
87847346 CCTGCTAGGCCCGAAGCCCGATA
1 CCTGCTAGGCCCGAAGCCCGATA
87847369 ATATTATTCA
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (43 bp):
CCTGCTAGGCCCGAAGCCCGATATCATCTCACCGGCATTATAG
Found at i:87851814 original size:17 final size:17
Alignment explanation
Indices: 87851794--87851826 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
87851784 TTTACTATTA
*
87851794 TTTTTATTTTTATTTAT
1 TTTTTATTATTATTTAT
87851811 TTTTTATTATTATTTA
1 TTTTTATTATTATTTA
87851827 AATTTTATCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTATTATTATTTAT
Found at i:87851832 original size:17 final size:17
Alignment explanation
Indices: 87851795--87851834 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
87851785 TTACTATTAT
* **
87851795 TTTTATTTTTATTTATT
1 TTTTATTATTATTTAAA
87851812 TTTTATTATTATTTAAA
1 TTTTATTATTATTTAAA
87851829 TTTTAT
1 TTTTAT
87851835 CGTCTTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTATTATTATTTAAA
Found at i:87861434 original size:172 final size:169
Alignment explanation
Indices: 87860903--87861479 Score: 548
Period size: 172 Copynumber: 3.4 Consensus size: 169
87860893 CCTTAAGTCA
* * *
87860903 TAGTATAATGGTGAGTATTCCCGCCTGTCA-GCGGGTGACCCGGGTTTGATCACCGGCATCGG-T
1 TAGTATAATGGTGAGTATTCCCGCCTGTCACGAGGGTGACCCGGGTTCGATC-CCGGCAACGGCT
* * * * *
87860966 GAATATTATATTTCCTAATATTTTCAAATAAAATTTTTGGAGTTCTAGACAAACTACAGATATTG
65 -AGTGTTAT-TTTCCTAAAATTTTCAAATAAAGTTTTTGGAG-T-TAGACAAACT-CAGATATTA
* * * * *
87861031 CATGGGAAAAATATT--AGAACT-ACTAAAAATCAACAAGTC---G
125 CATGAGAGAAATATTAAAGAACTAATTGAAAATCAA-TAGTCGTTG
* * * * *
87861071 TAGTATAGTGGTGAGTGTTCCCGCCTGTCACGAGGGTGACCGGGGTTCGATCCCGGCTACAGCGT
1 TAGTATAATGGTGAGTATTCCCGCCTGTCACGAGGGTGACCCGGGTTCGATCCCGGCAACGGC-T
* * *
87861136 -GTGCTATTTTCTTAAAATTTTCAAATAAAGTTTTTGGAGTTCTTGACAAACTCTAGATATTACA
65 AGTGTTATTTTCCTAAAATTTTCAAATAAAGTTTTTGGAG-T-TAGACAAACTC-AGATATTACA
* * * * **
87861200 TGAGAGAAATA-TAAAAAAC-ACTGCCGAAAGTCTGTTAGTCGTTG
127 TGAGAGAAATATTAAAGAACTAAT--TGAAAATC-AATAGTCGTTG
* * * * *
87861244 TAGAATAGTGGTGAGTATTCCCGCCTGTCACGCGGGTGACCCGGATTCGATCCTCCGCAACGGCT
1 TAGTATAATGGTGAGTATTCCCGCCTGTCACGAGGGTGACCCGGGTTCGATCC-CGGCAACGGCT
* * * *
87861309 AGTGTTATTTTCCTAAAATATTTCAAGTAAAGTTTTCGGAG-TGGACAAACTCGAGATTTTACAT
65 AGTGTTATTTTCCTAAAAT-TTTCAAATAAAGTTTTTGGAGTTAGACAAACTC-AGATATTACAT
*
87861373 GAGAGAAATATTAAAGAACTAATTGAAATTCAATAGGTCGTTG
128 GAGAGAAATATTAAAGAACTAATTGAAAATCAATA-GTCGTTG
* *
87861416 TAGTATAATGGCGAGTATTCCCGCCTGTCACGAGGGTGACCCGGGTTCGAACCCAGGCAACGGC
1 TAGTATAATGGTGAGTATTCCCGCCTGTCACGAGGGTGACCCGGGTTCGATCCC-GGCAACGGC
87861480 GTTTAGATTT
Statistics
Matches: 334, Mismatches: 55, Indels: 36
0.79 0.13 0.08
Matches are distributed among these distances:
166 2 0.01
167 59 0.18
168 43 0.13
169 18 0.05
170 10 0.03
171 3 0.01
172 98 0.29
173 57 0.17
174 25 0.07
175 19 0.06
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (169 bp):
TAGTATAATGGTGAGTATTCCCGCCTGTCACGAGGGTGACCCGGGTTCGATCCCGGCAACGGCTA
GTGTTATTTTCCTAAAATTTTCAAATAAAGTTTTTGGAGTTAGACAAACTCAGATATTACATGAG
AGAAATATTAAAGAACTAATTGAAAATCAATAGTCGTTG
Found at i:87869228 original size:100 final size:100
Alignment explanation
Indices: 87869055--87869257 Score: 361
Period size: 100 Copynumber: 2.0 Consensus size: 100
87869045 CGGACAGTTG
87869055 CTGCTCTATCTACACAACCAAGAAAACTTAGTAAAGAAGTAAGAAAAGTAGCAAATAAGGTAGCT
1 CTGCTCTATCTACACAACCAAGAAAACTTAGTAAAGAAGTAAGAAAAGTAGCAAATAAGGTAGCT
87869120 ACTCTTCCATGATTCTCTCTTGTTTAAACGTGTAA
66 ACTCTTCCATGATTCTCTCTTGTTTAAACGTGTAA
* * * *
87869155 CTGCTCTATCTACACAACCAAGGAAACTTAGTAAAGATGTAAGAAAAGTAGCAATTAAGTTAGCT
1 CTGCTCTATCTACACAACCAAGAAAACTTAGTAAAGAAGTAAGAAAAGTAGCAAATAAGGTAGCT
*
87869220 ACTCTTCCATGATTCTCTCTTGTTTAAACGTTTAA
66 ACTCTTCCATGATTCTCTCTTGTTTAAACGTGTAA
87869255 CTG
1 CTG
87869258 TTGTTGATCG
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 98 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (100 bp):
CTGCTCTATCTACACAACCAAGAAAACTTAGTAAAGAAGTAAGAAAAGTAGCAAATAAGGTAGCT
ACTCTTCCATGATTCTCTCTTGTTTAAACGTGTAA
Found at i:87871085 original size:20 final size:20
Alignment explanation
Indices: 87871057--87871096 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
87871047 TTAGTGCTGT
87871057 ACAGAGGCACCGAAATGCAA
1 ACAGAGGCACCGAAATGCAA
* *
87871077 ACAGTGGCACCGAAGTGCAA
1 ACAGAGGCACCGAAATGCAA
87871097 TCTCGTACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.25, G:0.28, T:0.07
Consensus pattern (20 bp):
ACAGAGGCACCGAAATGCAA
Found at i:87874412 original size:30 final size:30
Alignment explanation
Indices: 87874376--87874436 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
87874366 ATGGATAAAA
87874376 AAGCATGTGGAGTCAACCTGAAAAGTCTTT
1 AAGCATGTGGAGTCAACCTGAAAAGTCTTT
87874406 AAGCATGTGGAGTCAACCTGAAAAGTCTTT
1 AAGCATGTGGAGTCAACCTGAAAAGTCTTT
87874436 A
1 A
87874437 CTTATTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.26
Consensus pattern (30 bp):
AAGCATGTGGAGTCAACCTGAAAAGTCTTT
Found at i:87878414 original size:11 final size:11
Alignment explanation
Indices: 87878393--87878421 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
87878383 TCTTTTTAAG
87878393 AAAAT-AAAAT
1 AAAATAAAAAT
87878403 AAAATAAAAAT
1 AAAATAAAAAT
87878414 AAAATAAA
1 AAAATAAA
87878422 GAACACACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:87883057 original size:20 final size:20
Alignment explanation
Indices: 87883032--87883085 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
87883022 ATATATATAC
87883032 TAAATAAAATAATAAAATAA
1 TAAATAAAATAATAAAATAA
*** * *
87883052 TAAATATCTTATTAAAATAT
1 TAAATAAAATAATAAAATAA
87883072 TAAAT-AAATAATAA
1 TAAATAAAATAATAA
87883086 TTATCTAATT
Statistics
Matches: 25, Mismatches: 9, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAATAAAATAATAAAATAA
Found at i:87883084 original size:31 final size:31
Alignment explanation
Indices: 87883046--87883109 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
87883036 TAAAATAATA
*
87883046 AAATAATAAATATCTTATTAAA-ATATTAAAT
1 AAATAATAAATATCTAATTAAATA-ATTAAAT
*
87883077 AAATAATAATTATCTAATTAAATAATTAAAT
1 AAATAATAAATATCTAATTAAATAATTAAAT
87883108 AA
1 AA
87883110 TTATAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 29 0.97
32 1 0.03
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (31 bp):
AAATAATAAATATCTAATTAAATAATTAAAT
Found at i:87883102 original size:8 final size:8
Alignment explanation
Indices: 87883066--87883112 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
87883056 TATCTTATTA
87883066 AAAT-ATT
1 AAATAATT
*
87883073 AAATAAAT
1 AAATAATT
87883081 -AATAATT
1 AAATAATT
**
87883088 ATCTAATT
1 AAATAATT
87883096 AAATAATT
1 AAATAATT
87883104 AAATAATT
1 AAATAATT
87883112 A
1 A
87883113 TAAAATATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
7 10 0.31
8 22 0.69
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (8 bp):
AAATAATT
Found at i:87883106 original size:27 final size:28
Alignment explanation
Indices: 87883026--87883110 Score: 84
Period size: 31 Copynumber: 2.9 Consensus size: 28
87883016 ATACACATAT
* *
87883026 ATATACTAAATAAAATAATAAAATAATAA
1 ATAT-CTAATTAAAATAATTAAATAATAA
*
87883055 ATATCTTATTAAAAT-ATTAAATAAATAATA
1 ATATCTAATTAAAATAATTAAAT-AAT-A-A
87883085 ATTATCTAATT-AAATAATTAAATAAT
1 A-TATCTAATTAAAATAATTAAATAAT
87883111 TATAAAATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
27 6 0.13
28 12 0.26
29 5 0.11
30 9 0.19
31 15 0.32
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (28 bp):
ATATCTAATTAAAATAATTAAATAATAA
Found at i:87885881 original size:46 final size:45
Alignment explanation
Indices: 87885829--87886078 Score: 286
Period size: 46 Copynumber: 5.4 Consensus size: 45
87885819 TGCTATAGTG
* * * *
87885829 TCTTTCAACTATGGTCTTACTTATTTTC-TGTCAAGGTGCCATGGAA
1 TCTTTCAACCATGGTCTTA-TTA-TTTCATGTCATGTTGCCATGGTA
* **
87885875 TCTTTCAACCAAGGTCTTATTCATTTTCCCGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATT-A-TTTCATGTCATGTTGCCATGGTA
*
87885922 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATT-ATTTCATGTCATGTTGCCATGGTA
* ** * *
87885968 TCTTTCAACCATGGTTTTACACATTTCATATCATGTTGCCATGTTA
1 TCTTTCAACCATGGTCTTA-TTATTTCATGTCATGTTGCCATGGTA
* *
87886014 TCTTTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTAT-TATTTCATGTCATGTTGCCATGGTA
*
87886060 TCTTTCAAACATGGTCTTA
1 TCTTTCAACCATGGTCTTA
87886079 CACATTTGAA
Statistics
Matches: 180, Mismatches: 20, Indels: 8
0.87 0.10 0.04
Matches are distributed among these distances:
45 2 0.01
46 142 0.79
47 36 0.20
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (45 bp):
TCTTTCAACCATGGTCTTATTATTTCATGTCATGTTGCCATGGTA
Found at i:87886019 original size:25 final size:25
Alignment explanation
Indices: 87885991--87886066 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
87885981 GTTTTACACA
87885991 TTTCATATCATGTTGCCATGTTATC
1 TTTCATATCATGTTGCCATGTTATC
* *
87886016 TTTCA-ACCATG--G---TCTTATAC
1 TTTCATATCATGTTGCCATGTTAT-C
*
87886036 ATTTCATATCATGTTGCCATGGTATC
1 -TTTCATATCATGTTGCCATGTTATC
87886062 TTTCA
1 TTTCA
87886067 AACATGGTCT
Statistics
Matches: 38, Mismatches: 5, Indels: 16
0.64 0.08 0.27
Matches are distributed among these distances:
19 5 0.13
20 1 0.03
21 5 0.13
22 6 0.16
24 6 0.16
25 10 0.26
26 1 0.03
27 4 0.11
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.45
Consensus pattern (25 bp):
TTTCATATCATGTTGCCATGTTATC
Found at i:87886033 original size:92 final size:92
Alignment explanation
Indices: 87885829--87886085 Score: 329
Period size: 92 Copynumber: 2.8 Consensus size: 92
87885819 TGCTATAGTG
* * * *
87885829 TCTTTCAACTATGGTCTTACTT-ATTTTC-TGTCAAGGTGCCATGGAATCTTTCAACCAAGGTCT
1 TCTTTCAACCATGGTCTTA-TTCA-TTTCATGTCAAGTTGCCATGGTATCTTTCAACCATGGTCT
** * *
87885892 TATTCATTTTCCCGTCATGTTGCCATGGTA
64 TACACA-TTTCACATCATGTTGCCATGGTA
* *
87885922 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTTTTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCAAGTTGCCATGGTATCTTTCAACCATGGTCTTA
* *
87885987 CACATTTCATATCATGTTGCCATGTTA
66 CACATTTCACATCATGTTGCCATGGTA
* * * *
87886014 TCTTTCAACCATGGTCTTATACATTTCATATCATGTTGCCATGGTATCTTTCAAACATGGTCTTA
1 TCTTTCAACCATGGTCTTATTCATTTCATGTCAAGTTGCCATGGTATCTTTCAACCATGGTCTTA
87886079 CACATTT
66 CACATTT
87886086 GAATCGCGAT
Statistics
Matches: 145, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
92 92 0.63
93 53 0.37
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.42
Consensus pattern (92 bp):
TCTTTCAACCATGGTCTTATTCATTTCATGTCAAGTTGCCATGGTATCTTTCAACCATGGTCTTA
CACATTTCACATCATGTTGCCATGGTA
Found at i:87886084 original size:46 final size:46
Alignment explanation
Indices: 87885865--87886085 Score: 307
Period size: 46 Copynumber: 4.8 Consensus size: 46
87885855 TCTGTCAAGG
* * * ***
87885865 TGCCATGGAATCTTTCAACCAAGGTCTTATTCATTTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATACA-TTTCATATCATGT
* * *
87885912 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGT
* *
87885958 TGCCATGGTATCTTTCAACCATGGTTTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGT
*
87886004 TGCCATGTTATCTTTCAACCATGGTCTTATACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGT
* *
87886050 TGCCATGGTATCTTTCAAACATGGTCTTACACATTT
1 TGCCATGGTATCTTTCAACCATGGTCTTATACATTT
87886086 GAATCGCGAT
Statistics
Matches: 158, Mismatches: 16, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
46 127 0.80
47 31 0.20
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGT
Found at i:87886170 original size:45 final size:45
Alignment explanation
Indices: 87886070--87886170 Score: 139
Period size: 45 Copynumber: 2.2 Consensus size: 45
87886060 TCTTTCAAAC
* * * *
87886070 ATGGTCTTACACATTTGAATCGCGATGCCATAGCGTCTTTCAGCT
1 ATGGTCTTACTCATCTGAATCGCGATGCCATAACATCTTTCAGCT
* * *
87886115 ATGGTCTTACTCGTCTGAATCGTGATGCTATAACATCTTTCAGCT
1 ATGGTCTTACTCATCTGAATCGCGATGCCATAACATCTTTCAGCT
87886160 ATGGTCTTACT
1 ATGGTCTTACT
87886171 TATTTTCTGG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.37
Consensus pattern (45 bp):
ATGGTCTTACTCATCTGAATCGCGATGCCATAACATCTTTCAGCT
Found at i:87886322 original size:33 final size:33
Alignment explanation
Indices: 87886186--87886341 Score: 102
Period size: 33 Copynumber: 4.7 Consensus size: 33
87886176 TCTGGTATGA
* * ** *
87886186 TGCCATAGTCCAACTATGGTCTTACATGTGTAT
1 TGCCATAGCCCAGCTATGGTCTTACACATATAT
* * * * **
87886219 TGCCATGGCCTAGCCATGGTCTTACAC-TCGTGG
1 TGCCATAGCCCAGCTATGGTCTTACACAT-ATAT
* * * *
87886252 TGCCATATCCCAGATATGGTTTTATCATCA-A-AA
1 TGCCATAGCCCAGCTATGGTCTTA-CA-CATATAT
*
87886285 TGCCATAGCCTAGCTATGGTCTTACACATATAT
1 TGCCATAGCCCAGCTATGGTCTTACACATATAT
* *
87886318 TGCCATGGCCCAGCCATGGTCTTA
1 TGCCATAGCCCAGCTATGGTCTTA
87886342 TCCGTCAATT
Statistics
Matches: 92, Mismatches: 25, Indels: 12
0.71 0.19 0.09
Matches are distributed among these distances:
31 2 0.02
32 4 0.04
33 83 0.90
34 2 0.02
35 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (33 bp):
TGCCATAGCCCAGCTATGGTCTTACACATATAT
Found at i:87889602 original size:20 final size:20
Alignment explanation
Indices: 87889579--87889632 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
87889569 AAATATGTAC
87889579 TAAATAAAATAATAAAATAA
1 TAAATAAAATAATAAAATAA
*** * *
87889599 TAAATATCTTATTAAAATAT
1 TAAATAAAATAATAAAATAA
87889619 TAAAT-AAATAATAA
1 TAAATAAAATAATAA
87889633 TTATCTAATT
Statistics
Matches: 25, Mismatches: 9, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAATAAAATAATAAAATAA
Found at i:87890752 original size:45 final size:45
Alignment explanation
Indices: 87890702--87890792 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
87890692 ATAACAAGGG
87890702 AACATTTGGAAATCTTTAAAACTCCACTTTCAGTTGTATATTTGT
1 AACATTTGGAAATCTTTAAAACTCCACTTTCAGTTGTATATTTGT
87890747 AACATTTGGAAATCTTTAAAACTCCACTTTCAGTTGTATATTTGT
1 AACATTTGGAAATCTTTAAAACTCCACTTTCAGTTGTATATTTGT
87890792 A
1 A
87890793 CCCTTTTAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (45 bp):
AACATTTGGAAATCTTTAAAACTCCACTTTCAGTTGTATATTTGT
Found at i:87895881 original size:44 final size:42
Alignment explanation
Indices: 87895796--87895883 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 42
87895786 TTTAAAATAA
* *
87895796 AATAAAAGTTGTGATAATTACATTTAAAAATAATTATAATTT
1 AATAAAAGTTGTGATAATTACAGTTAAAAATAATTAGAATTT
*
87895838 AATAGAAA-TTGTGATAATTACACAGTTAAAAATATTTAGAATTT
1 AATA-AAAGTTGTGATAATT--ACAGTTAAAAATAATTAGAATTT
87895882 AA
1 AA
87895884 ATTATAATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
42 15 0.38
43 3 0.08
44 22 0.55
ACGTcount: A:0.50, C:0.03, G:0.09, T:0.38
Consensus pattern (42 bp):
AATAAAAGTTGTGATAATTACAGTTAAAAATAATTAGAATTT
Found at i:87896083 original size:79 final size:80
Alignment explanation
Indices: 87896000--87896154 Score: 294
Period size: 79 Copynumber: 1.9 Consensus size: 80
87895990 TCATATATGT
87896000 AAAATAGAGTTATTACTTTAATACAATTCTAAGCATCTTAATTATCACTTAATTAATATTAGAGT
1 AAAATAGAGTTATTACTTTAATACAATTCTAAGCATCTTAATTATCACTTAATTAATATTAGAGT
*
87896065 TAGT-TAATTAGTGC
66 TACTGTAATTAGTGC
87896079 AAAATAGAGTTATTACTTTAATACAATTCTAAGCATCTTAATTATCACTTAATTAATATTAGAGT
1 AAAATAGAGTTATTACTTTAATACAATTCTAAGCATCTTAATTATCACTTAATTAATATTAGAGT
87896144 TACTGTAATTA
66 TACTGTAATTA
87896155 AAAATATAAT
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
79 68 0.92
80 6 0.08
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.41
Consensus pattern (80 bp):
AAAATAGAGTTATTACTTTAATACAATTCTAAGCATCTTAATTATCACTTAATTAATATTAGAGT
TACTGTAATTAGTGC
Found at i:87903405 original size:11 final size:11
Alignment explanation
Indices: 87903385--87903418 Score: 54
Period size: 10 Copynumber: 3.3 Consensus size: 11
87903375 TTATTAAAAC
87903385 TAAA-AATTTT
1 TAAATAATTTT
87903395 TAAATAA-TTT
1 TAAATAATTTT
87903405 TAAATAATTTT
1 TAAATAATTTT
87903416 TAA
1 TAA
87903419 TTTTAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 14 0.64
11 8 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TAAATAATTTT
Found at i:87916183 original size:15 final size:15
Alignment explanation
Indices: 87916163--87916198 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
87916153 CATCTCCATT
87916163 CTCATCCTCCTCCTC
1 CTCATCCTCCTCCTC
87916178 CTCATCCTCCTCCTC
1 CTCATCCTCCTCCTC
87916193 CTCATC
1 CTCATC
87916199 ATCATCAACG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.08, C:0.58, G:0.00, T:0.33
Consensus pattern (15 bp):
CTCATCCTCCTCCTC
Found at i:87918272 original size:11 final size:11
Alignment explanation
Indices: 87918253--87918300 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
87918243 AATATATTAA
*
87918253 TTATTAAAAAT
1 TTATAAAAAAT
87918264 TTATAAAAAA-
1 TTATAAAAAAT
87918274 -TA-AAAAAAT
1 TTATAAAAAAT
*
87918283 TCATAAAAAAT
1 TTATAAAAAAT
87918294 TTA-AAAA
1 TTATAAAA
87918301 CATGTTAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
8 6 0.19
9 2 0.06
10 5 0.16
11 18 0.58
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (11 bp):
TTATAAAAAAT
Found at i:87918299 original size:19 final size:19
Alignment explanation
Indices: 87918256--87918300 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
87918246 ATATTAATTA
*
87918256 TTAAAAATTTATAAAAAAT
1 TTAAAAATTCATAAAAAAT
**
87918275 AAAAAAATTCATAAAAAAT
1 TTAAAAATTCATAAAAAAT
87918294 TTAAAAA
1 TTAAAAA
87918301 CATGTTAACA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
TTAAAAATTCATAAAAAAT
Found at i:87922646 original size:27 final size:27
Alignment explanation
Indices: 87922594--87922648 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
87922584 TTATTTTAAT
* **
87922594 AGTGGAGGGTGTCAAATAGGTGGCACC
1 AGTGGAGGGTGTCAAATAAGCAGCACC
87922621 AGTGGAGGGTGTCAAATAAGCAGCACC
1 AGTGGAGGGTGTCAAATAAGCAGCACC
87922648 A
1 A
87922649 ATTGTGCCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.31, C:0.16, G:0.36, T:0.16
Consensus pattern (27 bp):
AGTGGAGGGTGTCAAATAAGCAGCACC
Found at i:87922670 original size:27 final size:27
Alignment explanation
Indices: 87922640--87922693 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
87922630 TGTCAAATAA
*
87922640 GCAGCACCAATTGTGCCTATCTGATAG
1 GCAGCACCAATGGTGCCTATCTGATAG
* * *
87922667 GCAGCACTAGTGGTGCTTATCTGATAG
1 GCAGCACCAATGGTGCCTATCTGATAG
87922694 CGGCACACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (27 bp):
GCAGCACCAATGGTGCCTATCTGATAG
Found at i:87923205 original size:27 final size:27
Alignment explanation
Indices: 87923174--87923225 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
87923164 AATAGGCACA
* *
87923174 ACTGGTGCTACTTATCTGACACCCTTC
1 ACTGGTGCCACCTATCTGACACCCTTC
*
87923201 ACTGGTGCCGCCTATCTGACACCCT
1 ACTGGTGCCACCTATCTGACACCCT
87923226 CTATTACTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.17, C:0.37, G:0.17, T:0.29
Consensus pattern (27 bp):
ACTGGTGCCACCTATCTGACACCCTTC
Done.