Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 276 of 770
Found at i:83411824 original size:45 final size:45
Alignment explanation
Indices: 83411682--83411848 Score: 165
Period size: 45 Copynumber: 3.7 Consensus size: 45
83411672 GATAGAATCG
* * * * *
83411682 TGATGCCATAACGTCTTTTAGCTATAGTCTTACTCAATAGA-ATCA
1 TGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGATACAGGT-A
* * * * *
83411727 TGATGACATAACGTCTTTCAGCTATAGTCTTACTCGATAGAGTTT
1 TGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGATACAGGTA
* * *
83411772 TGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGTTTCTGGTA
1 TGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGATACAGGTA
* ** *
83411817 TGGTGCCATAGTGTCTTTCAACTATGGTCTTA
1 TGATGCCATAACGTCTTTCAGCTATGGTCTTA
83411849 ATTATTTCCT
Statistics
Matches: 104, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
45 103 0.99
46 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (45 bp):
TGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGATACAGGTA
Found at i:83416188 original size:40 final size:40
Alignment explanation
Indices: 83416135--83416288 Score: 175
Period size: 40 Copynumber: 3.9 Consensus size: 40
83416125 TTATAGTGAT
* * * * ***
83416135 TCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGTAAC
1 TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
*
83416175 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
1 TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
*
83416215 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAA-ATAC
1 TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACA-AC
* * * *
83416255 TAGCATAATTGCCTTCGGGACTTAGCCCGGATAT
1 TCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
83416289 CATTCCAATG
Statistics
Matches: 98, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 1 0.01
40 97 0.99
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
Found at i:83416219 original size:80 final size:80
Alignment explanation
Indices: 83416135--83416288 Score: 211
Period size: 80 Copynumber: 1.9 Consensus size: 80
83416125 TTATAGTGAT
* *** * *
83416135 TCGCACGATTGCCTTCGGGTCTTAACCCGGAT-TTGGTAACTTGCACAAATGCCTTCGGGTCTTA
1 TCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAAT-ACTAGCACAAATGCCTTCGGGACTTA
83416199 GCCCGGATATAACAAC
65 GCCCGGATATAACAAC
* * *
83416215 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAATACTAGCATAATTGCCTTCGGGACTTAG
1 TCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAATACTAGCACAAATGCCTTCGGGACTTAG
83416280 CCCGGATAT
66 CCCGGATAT
83416289 CATTCCAATG
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
80 62 0.97
81 2 0.03
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
TCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAATACTAGCACAAATGCCTTCGGGACTTAG
CCCGGATATAACAAC
Found at i:83417058 original size:32 final size:32
Alignment explanation
Indices: 83417022--83417086 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
83417012 GCTTATATCC
83417022 AAATATACACACATATCCAAAGCTTAAATCTT
1 AAATATACACACATATCCAAAGCTTAAATCTT
83417054 AAATATACACACATATCCAAAGCTTAAATCTT
1 AAATATACACACATATCCAAAGCTTAAATCTT
83417086 A
1 A
83417087 CTTACCATGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.48, C:0.22, G:0.03, T:0.28
Consensus pattern (32 bp):
AAATATACACACATATCCAAAGCTTAAATCTT
Found at i:83418225 original size:29 final size:29
Alignment explanation
Indices: 83418183--83418241 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
83418173 GAATTAGATG
83418183 AATGGCGAAAAAAGGTTGAGGAGAACCTA
1 AATGGCGAAAAAAGGTTGAGGAGAACCTA
*
83418212 AATGGCGAACAAAGGTTGAGGAGAACCTA
1 AATGGCGAAAAAAGGTTGAGGAGAACCTA
83418241 A
1 A
83418242 GAATAGTCGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.44, C:0.12, G:0.31, T:0.14
Consensus pattern (29 bp):
AATGGCGAAAAAAGGTTGAGGAGAACCTA
Found at i:83427310 original size:77 final size:80
Alignment explanation
Indices: 83427166--83427311 Score: 201
Period size: 77 Copynumber: 1.9 Consensus size: 80
83427156 TCGAATGATG
* * *
83427166 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
83427231 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
83427246 TCCGGGCTAA-T-CCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
83427307 CGTGC
65 CGTGC
83427312 AAGTCGCTAT
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
76 1 0.02
77 32 0.54
78 15 0.25
79 1 0.02
80 10 0.17
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:83427328 original size:40 final size:40
Alignment explanation
Indices: 83427167--83427367 Score: 139
Period size: 40 Copynumber: 5.1 Consensus size: 40
83427157 CGAATGATGT
*
83427167 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTCG-CTATAA
* * * * ***
83427207 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTCGCTATAA
**
83427246 TCCGGGCTAA-T-CCGAAGGC-TTTGTGCAAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
* *
83427283 CCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
** * * * *
83427324 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
83427364 CCGG
1 CCGG
83427368 TTAAATTCCG
Statistics
Matches: 128, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
37 23 0.18
38 10 0.08
39 9 0.07
40 77 0.60
41 9 0.07
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
Found at i:83427328 original size:77 final size:80
Alignment explanation
Indices: 83427166--83427348 Score: 196
Period size: 77 Copynumber: 2.3 Consensus size: 80
83427156 TCGAATGATG
* * *
83427166 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
* *
83427231 GTGCGAGTTAATAAA
66 GTGCAAGTCAATAAA
* **
83427246 TCCGGGCTAA-T-CCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
**
83427307 CGTGCAAGTCGCTATAA
65 CGTGCAAGTCAATA-AA
**
83427324 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGC-TTTG
83427349 AGCGAGTCGT
Statistics
Matches: 86, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
76 1 0.01
77 44 0.51
78 18 0.21
79 9 0.10
80 14 0.16
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCAAGTCAATAAA
Found at i:83435413 original size:40 final size:40
Alignment explanation
Indices: 83435251--83435452 Score: 148
Period size: 40 Copynumber: 5.1 Consensus size: 40
83435241 CGAATGATGT
*
83435251 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTCG-CTATAA
* * * * ***
83435291 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTCGCTATAA
**
83435330 TCCGGGCTAA-TCCCGAAGGC-TTTGTGCAAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
* *
83435368 CCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
** * * * *
83435409 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
83435449 CCGG
1 CCGG
83435453 TTAAATTCCG
Statistics
Matches: 129, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
38 24 0.19
39 19 0.15
40 77 0.60
41 9 0.07
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
Found at i:83435415 original size:78 final size:79
Alignment explanation
Indices: 83435250--83435401 Score: 200
Period size: 78 Copynumber: 1.9 Consensus size: 79
83435240 TCGAATGATG
* * *
83435250 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAA-TCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
* *
83435315 GTGCGAGTTAATAAA
65 GTGCAAGTCAATAAA
* **
83435330 TCCGGGCTAATCCCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTC
1 TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTC
83435393 GTGCAAGTC
65 GTGCAAGTC
83435402 GCTATAACCG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.02
78 35 0.56
79 17 0.27
80 10 0.16
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
TGCAAGTCAATAAA
Found at i:83438601 original size:45 final size:44
Alignment explanation
Indices: 83438512--83438601 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 44
83438502 GAATTATGTA
* *
83438512 ATCTGAACTTATTGAGTTGTGTCTGAATTCATGATATATGTGAC
1 ATCTGAACTTATTGAGTTGGGTCTGAATTCATGATATATATGAC
* * *
83438556 ATCTGAACTTATTGAGTTGGGGTCTGAGTTCGTGATATGTATGAC
1 ATCTGAACTTATTGAGTT-GGGTCTGAATTCATGATATATATGAC
83438601 A
1 A
83438602 CATGTTTTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.39
Consensus pattern (44 bp):
ATCTGAACTTATTGAGTTGGGTCTGAATTCATGATATATATGAC
Found at i:83440793 original size:11 final size:11
Alignment explanation
Indices: 83440777--83440801 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
83440767 GAAAATGATG
83440777 AAGAAAAAAAA
1 AAGAAAAAAAA
83440788 AAGAAAAAAAA
1 AAGAAAAAAAA
83440799 AAG
1 AAG
83440802 TTCTCATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:83442114 original size:40 final size:40
Alignment explanation
Indices: 83442059--83442298 Score: 346
Period size: 40 Copynumber: 6.0 Consensus size: 40
83442049 ACGATAACCA
* *
83442059 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCG
*
83442099 GGCTAAGTCCCGAAGGCA-GTGTTGCGAGTTACTA-ATTCCG
1 GGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTATA-TCCG
83442139 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
83442179 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
**
83442219 GGCTAAGT-CCGAAGGCATTTGTGCGAACTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* *
83442258 GGCTAAGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCG
83442298 G
1 G
83442299 TTAAATCCCA
Statistics
Matches: 186, Mismatches: 9, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
39 41 0.22
40 142 0.76
41 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:83450358 original size:40 final size:40
Alignment explanation
Indices: 83450121--83450377 Score: 335
Period size: 40 Copynumber: 6.5 Consensus size: 40
83450111 CGGACGATAA
* *
83450121 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
83450161 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
**
83450200 CCGGGCTAAGTCCCGAAGGCATTTGTGATAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
83450240 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * **
83450280 CCGGGCTAAGTCCCAAAGGCATTTGTGTGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
83450320 CCGGGCTAAGTTCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
83450360 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
83450378 TACTTGGTTT
Statistics
Matches: 195, Mismatches: 19, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 52 0.27
40 142 0.73
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:83451835 original size:17 final size:17
Alignment explanation
Indices: 83451813--83451851 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
83451803 CTAGTGTTTT
*
83451813 ATTTTACTTATTTAT-TA
1 ATTTTAATT-TTTATGTA
83451830 ATTTTAATTTTTATGTA
1 ATTTTAATTTTTATGTA
83451847 ATTTT
1 ATTTT
83451852 TTAAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (17 bp):
ATTTTAATTTTTATGTA
Found at i:83454933 original size:21 final size:20
Alignment explanation
Indices: 83454906--83454960 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
83454896 GATAAAGTAT
83454906 AAAATAATAAATATGATATTA
1 AAAATAATAAATAT-ATATTA
* *
83454927 TAAATAAT-AGTATATATTA
1 AAAATAATAAATATATATTA
83454946 AAAAT-ATAACATATA
1 AAAATAATAA-ATATA
83454961 ATAAAATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
18 2 0.07
19 11 0.39
20 8 0.29
21 7 0.25
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (20 bp):
AAAATAATAAATATATATTA
Found at i:83465805 original size:43 final size:42
Alignment explanation
Indices: 83465757--83465855 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 42
83465747 TCCCAAACGT
*
83465757 GGTCTTACATGTAATCAAACATCGATGCCACTGT-TCCAGACAG
1 GGTCTTACATGTAATCAAACA-CGATGCCAATGTCT-CAGACAG
* * * * * *
83465800 GGTCTTACACGAAATCAGATACGATGCTAATGTCTCAGACAT
1 GGTCTTACATGTAATCAAACACGATGCCAATGTCTCAGACAG
83465842 GGTCTTACATGTAA
1 GGTCTTACATGTAA
83465856 AACAGAAGTC
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
42 28 0.61
43 18 0.39
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.27
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAACACGATGCCAATGTCTCAGACAG
Found at i:83470253 original size:13 final size:13
Alignment explanation
Indices: 83470235--83470308 Score: 62
Period size: 13 Copynumber: 5.6 Consensus size: 13
83470225 CATATCTATA
83470235 TTCATATAAATAT
1 TTCATATAAATAT
* *
83470248 TTCATATAAAAAC
1 TTCATATAAATAT
83470261 TTCATATAACAT-T
1 TTCATATAA-ATAT
*
83470274 TTCATA-AATCTAT
1 TTCATATAA-ATAT
* *
83470287 TTCCATATAAAAAA
1 TT-CATATAAATAT
83470301 TTCATATA
1 TTCATATA
83470309 TCTATTTCCA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
12 3 0.06
13 35 0.73
14 8 0.17
15 2 0.04
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.41
Consensus pattern (13 bp):
TTCATATAAATAT
Found at i:83475590 original size:13 final size:13
Alignment explanation
Indices: 83475572--83475599 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
83475562 TCCATTAGAA
83475572 CAAATTTTGACAT
1 CAAATTTTGACAT
83475585 CAAATTTTGACAT
1 CAAATTTTGACAT
83475598 CA
1 CA
83475600 GATCCTCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.36
Consensus pattern (13 bp):
CAAATTTTGACAT
Found at i:83478866 original size:28 final size:28
Alignment explanation
Indices: 83478797--83478897 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
83478787 GACAAGATTG
* * * *
83478797 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
83478827 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
83478855 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
83478884 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
83478898 GATCCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:83485786 original size:19 final size:18
Alignment explanation
Indices: 83485762--83485797 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
83485752 ATGAACCTGT
83485762 TGAATTTTAGTTAATTTTA
1 TGAATTTTAGTT-ATTTTA
*
83485781 TGAATTTTGGTTATTTT
1 TGAATTTTAGTTATTTT
83485798 CGAAAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.25, C:0.00, G:0.14, T:0.61
Consensus pattern (18 bp):
TGAATTTTAGTTATTTTA
Found at i:83487826 original size:22 final size:21
Alignment explanation
Indices: 83487796--83487861 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
83487786 TACAAATTAA
83487796 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
83487818 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
83487839 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
83487858 ATCT
1 ATCT
83487862 AAGATTGCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:83487848 original size:19 final size:19
Alignment explanation
Indices: 83487813--83487873 Score: 104
Period size: 19 Copynumber: 3.1 Consensus size: 19
83487803 AGATTACAAG
83487813 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
83487834 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
83487853 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
83487872 AT
1 AT
83487874 ACTTAAAGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 31 0.77
20 1 0.03
21 8 0.20
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:83491261 original size:59 final size:58
Alignment explanation
Indices: 83491188--83491319 Score: 158
Period size: 59 Copynumber: 2.3 Consensus size: 58
83491178 ATTTAAGCCC
* * * * *
83491188 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATTTTTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATA-TATTTCCAGCAT
* * **
83491247 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
83491305 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
83491320 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
58 26 0.41
59 36 0.57
60 1 0.02
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (58 bp):
GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
Found at i:83491277 original size:29 final size:29
Alignment explanation
Indices: 83491237--83491319 Score: 166
Period size: 29 Copynumber: 2.9 Consensus size: 29
83491227 TGCCGTATTT
83491237 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
83491266 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
83491295 TTTCCAGCATGCACACTTAGTGCCA
1 TTTCCAGCATGCACACTTAGTGCCA
83491320 ATCTCGTCAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (29 bp):
TTTCCAGCATGCACACTTAGTGCCATATA
Found at i:83492514 original size:19 final size:17
Alignment explanation
Indices: 83492480--83492534 Score: 58
Period size: 19 Copynumber: 3.1 Consensus size: 17
83492470 GAATGAACAC
*
83492480 TTTTTTT-TTCTTTTCT
1 TTTTTTTCTTCATTTCT
83492496 TTGTTTTTCTTCATATTCT
1 TT-TTTTTCTTCAT-TTCT
*
83492515 CTTTTTTTTTTCATTTCT
1 -TTTTTTTCTTCATTTCT
83492533 TT
1 TT
83492535 ATTCTTCCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
16 2 0.06
17 7 0.21
18 8 0.24
19 14 0.42
20 2 0.06
ACGTcount: A:0.05, C:0.15, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTTTTTCTTCATTTCT
Found at i:83499171 original size:29 final size:29
Alignment explanation
Indices: 83499139--83499219 Score: 108
Period size: 29 Copynumber: 2.8 Consensus size: 29
83499129 CTTCGAGCTC
* *
83499139 GCACACCCAGTGCCGTATTTTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
83499168 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
83499197 GCACACTTAGTGCCATATATTTC
1 GCACACCCAGTGCCATATATTTC
83499220 TGCACACTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.31
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:83499223 original size:24 final size:26
Alignment explanation
Indices: 83499165--83499235 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 26
83499155 ATTTTTCCAG
83499165 CATGCACACTTAGTGCCATATATTTCC
1 CATGCACACTTAGTGCCATATATTT-C
83499192 AGCATGCACACTTAGTGCCATATATTT-
1 --CATGCACACTTAGTGCCATATATTTC
83499219 C-TGCACACTTAGTGCCA
1 CATGCACACTTAGTGCCA
83499236 ATCTCGTCAC
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
24 16 0.38
25 1 0.02
29 25 0.60
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (26 bp):
CATGCACACTTAGTGCCATATATTTC
Found at i:83507489 original size:28 final size:28
Alignment explanation
Indices: 83507424--83507524 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
83507414 ATAGTGAATC
*
83507424 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
83507453 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
83507481 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
83507511 CGCACACTTAGTGC
1 CGCACACTTAGTGC
83507525 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:83513467 original size:46 final size:46
Alignment explanation
Indices: 83513364--83513584 Score: 177
Period size: 46 Copynumber: 4.8 Consensus size: 46
83513354 GTATATTTGT
*
83513364 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GAC--ACATCTTGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTTACATCTCG-AG
*
83513410 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAG
* * * *
83513456 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CGTTTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT-TACATCTCGAG
* * * * *
83513502 GCAGATTCCATGTCCCAAACATGGTCTTACACTAGC-TATCATAAT-GTG
1 GCCGA-TGCATGTCCCAGACAT-GTCTTACACTAGCTTA-CAT-CTCGAG
* * * *
83513550 GCCGATGCATCTCTCAGACATGTATTATACTAGCT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT
83513585 CACAGAAGTG
Statistics
Matches: 142, Mismatches: 22, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
44 11 0.08
45 16 0.11
46 68 0.48
47 27 0.19
48 19 0.13
49 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAG
Found at i:83520144 original size:40 final size:40
Alignment explanation
Indices: 83520066--83520289 Score: 301
Period size: 40 Copynumber: 5.5 Consensus size: 40
83520056 ACCCAAGTAT
* *
83520066 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
83520105 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
83520145 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
83520185 CTTCGGGACTTAGCCCGGGTAACTACTCTACTCA-CACAAATGC
1 CTTCGGGACTTAGCCCGGAT-A-TAGTC-ACT-AGCACAAATGC
* *
83520228 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
83520268 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
83520290 CATCCGAATA
Statistics
Matches: 164, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
39 11 0.07
40 111 0.68
41 5 0.03
42 5 0.03
43 31 0.19
44 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:83520249 original size:83 final size:80
Alignment explanation
Indices: 83520066--83520289 Score: 301
Period size: 83 Copynumber: 2.8 Consensus size: 80
83520056 ACCCAAGTAT
* * * *
83520066 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAC
**
83520129 TCACTAGCATGAATGC
65 TCACTAGCACAAATGC
*
83520145 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTAACTA
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGAT-A-TA
83520210 CTCTACTCA-CACAAATGC
64 CTC-ACT-AGCACAAATGC
* *
83520228 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
83520290 CATCCGAATA
Statistics
Matches: 129, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
79 12 0.09
80 41 0.32
81 3 0.02
82 5 0.04
83 67 0.52
84 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATACT
CACTAGCACAAATGC
Found at i:83525574 original size:29 final size:29
Alignment explanation
Indices: 83525502--83525566 Score: 130
Period size: 29 Copynumber: 2.2 Consensus size: 29
83525492 GTGACGAGAT
83525502 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
83525531 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
83525560 TGGCACT
1 TGGCACT
83525567 GGGTGTGCGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:83531480 original size:40 final size:40
Alignment explanation
Indices: 83531402--83531622 Score: 327
Period size: 40 Copynumber: 5.5 Consensus size: 40
83531392 ACCCAAGTAT
* *
83531402 CTTCGGGATTTAGCCC-GATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
* * **
83531441 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
*
83531481 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
* *
83531521 CTTCGGGACTTAGCCCAGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
* *
83531561 CTTTGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
*
83531601 CTTCAGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
83531623 CATCCGAATA
Statistics
Matches: 165, Mismatches: 16, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
39 14 0.08
40 151 0.92
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
Found at i:83536998 original size:16 final size:16
Alignment explanation
Indices: 83536979--83537009 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
83536969 CTTCTTCGCT
83536979 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
83536995 TACTTACTTACTTAA
1 TACTCACTTACTTAA
83537010 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:83537015 original size:20 final size:20
Alignment explanation
Indices: 83536977--83537015 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
83536967 AACTTCTTCG
* *
83536977 CTTACTCACTTACTTAAATA
1 CTTACTCACTTAATCAAATA
*
83536997 CTTACTTACTTAATCAAAT
1 CTTACTCACTTAATCAAAT
83537016 TTATTAATAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.23, G:0.00, T:0.41
Consensus pattern (20 bp):
CTTACTCACTTAATCAAATA
Found at i:83537329 original size:53 final size:53
Alignment explanation
Indices: 83537202--83537456 Score: 247
Period size: 55 Copynumber: 4.8 Consensus size: 53
83537192 ACACGGGTAC
* * * *
83537202 CTTACCATTGCCATGACTTGTCATGGTTTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTG-CATGGTCTTACATGGTATCCTTGCCTTATGAAA
* ** * *
83537251 CTTACCATTGCCATATCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-GA
1 CTTACCAATGCCATGCCTTG-CATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
83537304 CTCACCAATGCCATGCCTTAGCATGGTCTTACATGGGA-CCTTTGCCTTATAGAAA
1 CTTACCAATGCCATGCCTT-GCATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* *
83537359 CTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTG-CATGGTCTTACATGGTATCCTTGCCTTATGAAA
*
83537412 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTT-GCATGGTCTTACATGGTATCCTT
83537457 AAACCCTAAT
Statistics
Matches: 171, Mismatches: 21, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
49 35 0.20
50 1 0.01
52 2 0.01
53 46 0.27
54 12 0.07
55 72 0.42
56 3 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGCATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:83537393 original size:108 final size:110
Alignment explanation
Indices: 83537247--83537449 Score: 286
Period size: 108 Copynumber: 1.9 Consensus size: 110
83537237 GTATCCTTTT
* * * *
83537247 GAAACTTACCATTGCCATATCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-GA-CTCACC
1 GAAACTTACCAATGCCATACCTCGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACC
83537310 AA-TGCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTATA
65 AATTGCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTATA
* * * *
83537355 GAAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTTACCA
1 GAAACTTACCAATGCCATACCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCA
* *
83537420 ATTTCCATGCCTTGGCATGGTCTTACATGG
66 ATTGCCATGCCTTAGCATGGTCTTACATGG
83537450 TATCCTTAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.59
109 7 0.09
110 26 0.32
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (110 bp):
GAAACTTACCAATGCCATACCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCA
ATTGCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTATA
Found at i:83538365 original size:27 final size:27
Alignment explanation
Indices: 83538330--83538529 Score: 215
Period size: 27 Copynumber: 7.4 Consensus size: 27
83538320 GTGGATAAGT
* *
83538330 GGTAGAATTATCGAAATACCCCTGTAA
1 GGTAGAATTACCGAAATACCCCTGTAG
83538357 GGTAGAATTACCGAAATACCCCTGTAG
1 GGTAGAATTACCGAAATACCCCTGTAG
** * *
83538384 GGTAGAATTATTGAAATACCCTTGTAA
1 GGTAGAATTACCGAAATACCCCTGTAG
* * *
83538411 GGTACAATTACTGAAATA-CCCTGCAG
1 GGTAGAATTACCGAAATACCCCTGTAG
* * * *
83538437 GATAGAATCACCGAAATACCCTTATAG
1 GGTAGAATTACCGAAATACCCCTGTAG
* * *
83538464 GGTAGAAATACCGAAATACGCCTATAG
1 GGTAGAATTACCGAAATACCCCTGTAG
*
83538491 GGTAGAATTACC-AAGATACCCTTGTAG
1 GGTAGAATTACCGAA-ATACCCCTGTAG
*
83538518 GGTAAAATTACC
1 GGTAGAATTACC
83538530 ATTTTGCCCC
Statistics
Matches: 143, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
26 21 0.15
27 122 0.85
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (27 bp):
GGTAGAATTACCGAAATACCCCTGTAG
Found at i:83538510 original size:80 final size:80
Alignment explanation
Indices: 83538359--83538512 Score: 186
Period size: 80 Copynumber: 1.9 Consensus size: 80
83538349 CCCTGTAAGG
* * * ** * *
83538359 TAGAATTACCGAAATACCCCTGTAGGGTAGAATTATTGAAATACCCTTGTAAGGTACAATTACTG
1 TAGAATCACCGAAATACCCCTATAGGGTAGAAATACCGAAATACCCTTATAAGGTACAATTACTC
83538424 AAATACCCTGCAGGA
66 AAATACCCTGCAGGA
* * *
83538439 TAGAATCACCGAAATACCCTTATAGGGTAGAAATACCGAAATACGCC-TATAGGGTAGAATTAC-
1 TAGAATCACCGAAATACCCCTATAGGGTAGAAATACCGAAATAC-CCTTATAAGGTACAATTACT
83538502 CAAGATACCCT
65 CAA-ATACCCT
83538513 TGTAGGGTAA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
79 2 0.03
80 58 0.94
81 2 0.03
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (80 bp):
TAGAATCACCGAAATACCCCTATAGGGTAGAAATACCGAAATACCCTTATAAGGTACAATTACTC
AAATACCCTGCAGGA
Found at i:83538527 original size:107 final size:107
Alignment explanation
Indices: 83538332--83538528 Score: 270
Period size: 107 Copynumber: 1.8 Consensus size: 107
83538322 GGATAAGTGG
* * * * * **
83538332 TAGAATTATCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATTG
1 TAGAATCACCGAAATACCCCTATAAGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTATCC
*
83538397 AAATACCCTTGTAAGGTACAATTACTGAAATACCCTGCAGGA
66 AAATACCCTTGTAAGGTAAAATTACTGAAATACCCTGCAGGA
* * *
83538439 TAGAATCACCGAAATACCCTTATAGGGTAGAAATACCGAAATACGCCTATAGGGTAGAATTA-CC
1 TAGAATCACCGAAATACCCCTATAAGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTATCC
*
83538503 AAGATACCCTTGTAGGGTAAAATTAC
66 AA-ATACCCTTGTAAGGTAAAATTAC
83538529 CATTTTGCCC
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
106 2 0.03
107 75 0.97
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (107 bp):
TAGAATCACCGAAATACCCCTATAAGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTATCC
AAATACCCTTGTAAGGTAAAATTACTGAAATACCCTGCAGGA
Found at i:83544354 original size:26 final size:27
Alignment explanation
Indices: 83544313--83544506 Score: 195
Period size: 26 Copynumber: 7.4 Consensus size: 27
83544303 TGGATAAGTT
**
83544313 GTAGAATTACTAAAATACCCCTG-AAG
1 GTAGAATTACCGAAATACCCCTGTAAG
*
83544339 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAG
**
83544366 GTAGAATTATTGAAAT-CCCCTGT-AG
1 GTAGAATTACCGAAATACCCCTGTAAG
83544391 GTAGAATTACCGAAATACCCCTGT-AG
1 GTAGAATTACCGAAATACCCCTGTAAG
* *
83544417 GATA-AATTACCGAAATACCCTTGTAGG
1 G-TAGAATTACCGAAATACCCCTGTAAG
* * *
83544444 GTAGAAATACCAAAATA-CCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAAG
* * **
83544470 GTAGAATTA-CGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAAG
*
83544496 GTAAAATTACC
1 GTAGAATTACC
83544507 ATTTTGCCCT
Statistics
Matches: 142, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
25 20 0.14
26 90 0.63
27 32 0.23
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAAG
Found at i:83544393 original size:52 final size:53
Alignment explanation
Indices: 83544313--83544506 Score: 234
Period size: 52 Copynumber: 3.7 Consensus size: 53
83544303 TGGATAAGTT
* *
83544313 GTAGAATTACTAAAATACCCCTGAAGGTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGGTAGAATTACCGAAATACCCCTGTAGG
*
83544366 GTAGAATTATTGAAAT-CCCCTGTAGGTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGGTAGAATTACCGAAATACCCCTGTAGG
* * * * *
83544418 ATA-AATTACCGAAATACCCTTGTAGGGTAGAAATACCAAAATA-CCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTA-GGTAGAATTACCGAAATACCCCTGTAGG
* * * *
83544470 GTAGAATTAC-GAGATACCCTTGTGGGGTAAAATTACC
1 GTAGAATTACTGAAATACCCCTGT-AGGTAGAATTACC
83544507 ATTTTGCCCT
Statistics
Matches: 123, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
51 10 0.08
52 77 0.63
53 36 0.29
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (53 bp):
GTAGAATTACTGAAATACCCCTGTAGGTAGAATTACCGAAATACCCCTGTAGG
Found at i:83544442 original size:78 final size:78
Alignment explanation
Indices: 83544313--83544506 Score: 230
Period size: 78 Copynumber: 2.5 Consensus size: 78
83544303 TGGATAAGTT
** * * ***
83544313 GTAGAATTACTAAAATACCCCTGAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATTG
1 GTAGAATTACCGAAATACCCCTGTAGGTA-AATTACCGAAATACCCCTGTAGGGTAGAAATACCA
*
83544378 AAATCCCCTGTA-G
65 AAATACCCTGTAGG
*
83544391 GTAGAATTACCGAAATACCCCTGTAGGATAAATTACCGAAATACCCTTGTAGGGTAGAAATACCA
1 GTAGAATTACCGAAATACCCCTGTAGG-TAAATTACCGAAATACCCCTGTAGGGTAGAAATACCA
83544456 AAATACCCTGTAGG
65 AAATACCCTGTAGG
* * *
83544470 GTAGAATTA-CGAGATACCCTTGTGGGGTAAAATTACC
1 GTAGAATTACCGAAATACCCCTGT-AGGT-AAATTACC
83544507 ATTTTGCCCT
Statistics
Matches: 100, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
78 78 0.78
79 22 0.22
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (78 bp):
GTAGAATTACCGAAATACCCCTGTAGGTAAATTACCGAAATACCCCTGTAGGGTAGAAATACCAA
AATACCCTGTAGG
Found at i:83545242 original size:2 final size:2
Alignment explanation
Indices: 83545235--83545260 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
83545225 CTTCGCCACA
83545235 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
83545261 CTGTTCTGGT
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):
AT
Found at i:83551190 original size:11 final size:11
Alignment explanation
Indices: 83551155--83551216 Score: 52
Period size: 11 Copynumber: 5.6 Consensus size: 11
83551145 GTGGTGCAAG
*
83551155 GGTGGTGATAT
1 GGTGGTGGTAT
* **
83551166 AGTGGTCATAT
1 GGTGGTGGTAT
*
83551177 GGTGGTGGTGT
1 GGTGGTGGTAT
* *
83551188 GGTGGCGATAT
1 GGTGGTGGTAT
*
83551199 GGTGGTTGTAT
1 GGTGGTGGTAT
83551210 GGTGGTG
1 GGTGGTG
83551217 TTTCGATTTG
Statistics
Matches: 38, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
11 38 1.00
ACGTcount: A:0.13, C:0.03, G:0.48, T:0.35
Consensus pattern (11 bp):
GGTGGTGGTAT
Found at i:83551192 original size:22 final size:23
Alignment explanation
Indices: 83551155--83551215 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
83551145 GTGGTGCAAG
* *
83551155 GGTGGTGATATAGTGGTC-ATAT
1 GGTGGTGGTATGGTGGTCGATAT
*
83551177 GGTGGTGGTGTGGTGG-CGATAT
1 GGTGGTGGTATGGTGGTCGATAT
*
83551199 GGTGGTTGTATGGTGGT
1 GGTGGTGGTATGGTGGT
83551216 GTTTCGATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
21 1 0.03
22 31 0.97
ACGTcount: A:0.13, C:0.03, G:0.48, T:0.36
Consensus pattern (23 bp):
GGTGGTGGTATGGTGGTCGATAT
Found at i:83556676 original size:28 final size:27
Alignment explanation
Indices: 83556613--83556682 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
83556603 ATAGTGAGTC
83556613 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
83556640 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
83556668 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
83556683 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:83565365 original size:24 final size:24
Alignment explanation
Indices: 83565333--83565394 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 24
83565323 AAATTAAATC
83565333 GCTTTTCCACAACACTA-TTGAGTG
1 GCTTTTCCACAACA-TATTTGAGTG
83565357 GCTTTTCCACAACATATTTGAGTG
1 GCTTTTCCACAACATATTTGAGTG
*
83565381 G-TTTGACCACAACA
1 GCTTT-TCCACAACA
83565395 AGCAGCTTGT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
23 5 0.14
24 30 0.86
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.32
Consensus pattern (24 bp):
GCTTTTCCACAACATATTTGAGTG
Found at i:83574115 original size:45 final size:43
Alignment explanation
Indices: 83573964--83574170 Score: 143
Period size: 44 Copynumber: 4.7 Consensus size: 43
83573954 TCTACTGCAA
* * * *
83573964 CTGCTCCACTGCAACTTCAGGGAGATATGGTTTGCGTATTTTTAT
1 CTGCTCCACTGCAACTTCAGGGAGATA-AGATTGC-TATCTTCAT
* * * * *
83574009 CCTGTTCTACTGTAACTTCAGAGAGATAAAGATTG-TGA-CTTCAAC
1 -CTGCTCCACTGCAACTTCAGGGAGAT-AAGATTGCT-ATCTTC-AT
*
83574054 CTGCTCCAGTGCAACTTCAGGGAGATAAGATCTGCTATCTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGCTATCTTCA-T
* * * *
83574099 CTGCTCCACTGTAACTTCAGGGAGAGAAGACTTACTA-CTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGCTATCTTC-AT
* *
83574143 CCGC-CCTACTGCAACTTCAGAGAGATAA
1 CTGCTCC-ACTGCAACTTCAGGGAGATAA
83574171 TGTTTGTTAT
Statistics
Matches: 127, Mismatches: 24, Indels: 22
0.73 0.14 0.13
Matches are distributed among these distances:
43 7 0.06
44 53 0.42
45 39 0.31
46 27 0.21
47 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (43 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGATTGCTATCTTCAT
Found at i:83574156 original size:89 final size:90
Alignment explanation
Indices: 83573966--83574170 Score: 222
Period size: 89 Copynumber: 2.3 Consensus size: 90
83573956 TACTGCAACT
* * * * * * *
83573966 GCTCCACTGCAACTTCAGGGAGATATGGTTTGCGTATTTTTATCCTGTTCTACTGTAACTTCAGA
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTGCGTATCTTCATCCTGCTCCACTGTAACTTCAGA
* *
83574031 GAGATAAAGATTGTGACTTCAACCT
66 GAGATAAAGATTCTGACTTCAACCC
*
83574056 GCTCCAGTGCAACTTCAGGGAGATAAGATCTGC-TATCTTCAGT-CTGCTCCACTGTAACTTCAG
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTGCGTATCTTCA-TCCTGCTCCACTGTAACTTCAG
* *
83574119 GGAGA-GAAGACTTACT-ACTTCAACCC
65 AGAGATAAAGA-TT-CTGACTTCAACCC
*
83574145 GC-CCTACTGCAACTTCAGAGAGATAA
1 GCTCC-ACTGCAACTTCAGGGAGATAA
83574171 TGTTTGTTAT
Statistics
Matches: 97, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
88 6 0.06
89 60 0.62
90 31 0.32
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (90 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATCTGCGTATCTTCATCCTGCTCCACTGTAACTTCAGA
GAGATAAAGATTCTGACTTCAACCC
Found at i:83575973 original size:39 final size:40
Alignment explanation
Indices: 83575857--83576041 Score: 189
Period size: 40 Copynumber: 4.7 Consensus size: 40
83575847 GCTACTCGTT
* *
83575857 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
83575897 CAAATGCCTTCGGGACTTAACCCGGATTTAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
83575937 CCAATGCCTTTGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* ** * * *
83575976 CAAATGCCTTC-GAATCTTAGTTCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
83576017 CAAA-GCCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
83576042 CATCATTCGA
Statistics
Matches: 119, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
38 1 0.01
39 31 0.26
40 75 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:83576002 original size:79 final size:80
Alignment explanation
Indices: 83575824--83576041 Score: 196
Period size: 79 Copynumber: 2.8 Consensus size: 80
83575814 GAATCACGTA
* ** * *
83575824 CCTTCGGAATTTAA-CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATA
1 CCTTCGGAACTTAACCCGGATATAG-TGACTCGCACCAATGCCTTCGGGACATAGCCCGGATATA
*
83575887 GTAACTCGGACAAATG
65 GTAACTCGCACAAATG
* * * *
83575903 CCTTCGGGACTTAACCCGGATTTAGTGACTCGCACCAATGCCTTTGGG-CTTAGCCCGGA-ATTA
1 CCTTCGGAACTTAACCCGGATATAGTGACTCGCACCAATGCCTTCGGGACATAGCCCGGATA-TA
83575966 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
*** * * * * *
83575982 CCTTC-GAATCTTAGTTCGGATATAGTCACTTAGCA-CAAAGCCTTCAGGACTTAGCCCGGA
1 CCTTCGGAA-CTTAACCCGGATATAGTGAC-TCGCACCAATGCCTTCGGGACATAGCCCGGA
83576042 CATCATTCGA
Statistics
Matches: 113, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
78 3 0.03
79 69 0.61
80 41 0.36
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CCTTCGGAACTTAACCCGGATATAGTGACTCGCACCAATGCCTTCGGGACATAGCCCGGATATAG
TAACTCGCACAAATG
Found at i:83578956 original size:39 final size:39
Alignment explanation
Indices: 83578838--83579020 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
83578828 TCGTTCAAAC
* * ** * **
83578838 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
83578878 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
83578918 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
83578957 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
83578996 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
83579021 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:83586382 original size:39 final size:40
Alignment explanation
Indices: 83586267--83586410 Score: 175
Period size: 39 Copynumber: 3.6 Consensus size: 40
83586257 TCGTTCAAAC
* * ** * **
83586267 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
* * * *
83586307 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
83586347 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
83586386 GCCTTCGGG-CTTAGCCCGGATATCA
1 GCCTTCGGGACTTAGCCCGGATATCA
83586411 CTCGAACATT
Statistics
Matches: 89, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 51 0.57
40 38 0.43
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
Found at i:83588938 original size:29 final size:29
Alignment explanation
Indices: 83588905--83588962 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
83588895 AAAATATCCA
83588905 AAGAGATGGTCTCAACTTAAATCCTTCCT
1 AAGAGATGGTCTCAACTTAAATCCTTCCT
83588934 AAGAGATGGTCTCAACTTAAATCCTTCCT
1 AAGAGATGGTCTCAACTTAAATCCTTCCT
83588963 CCTCAGATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (29 bp):
AAGAGATGGTCTCAACTTAAATCCTTCCT
Found at i:83599767 original size:47 final size:45
Alignment explanation
Indices: 83599696--83599961 Score: 220
Period size: 47 Copynumber: 5.7 Consensus size: 45
83599686 TGATTTGTGC
83599696 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATA-TATGATA
*
83599742 GCCAGTGTAAGACCATGTCTGGGACATGGCATCAG-CATA-AAGATAA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCATATATGAT-A
* * *
83599788 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGACAGAGATA
1 --GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAT--ATA-TGATA
* * * * * *
83599837 GCCAGTGTAAGACGTGTCTAGGACACGCATCGGCTA-AGAGTTG-T-
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATATA--TGATA
* * *
83599881 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAG--C-CATATATGATA
*
83599929 GCCAGTGTAAGACCATGTCTGGGATATGGCATC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
83599962 GACAATATAT
Statistics
Matches: 180, Mismatches: 20, Indels: 36
0.76 0.08 0.15
Matches are distributed among these distances:
44 28 0.16
45 7 0.04
46 24 0.13
47 64 0.36
48 33 0.18
49 15 0.08
50 9 0.05
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.22
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATATATGATA
Found at i:83599861 original size:94 final size:91
Alignment explanation
Indices: 83599696--83599948 Score: 282
Period size: 94 Copynumber: 2.7 Consensus size: 91
83599686 TGATTTGTGC
*
83599696 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTAAGATAGCCAGTGTAAGACCATGTC
* *
83599761 TGGGACATGGCATCAGCATAA-AGATAAGT
66 TAGGACA-CGCATCAGC-TAAGAG-T-AGT
* *
83599790 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGAC-AGAGATAGCCAGTGTAAGA-CGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAT--ACTA-AGATAGCCAGTGTAAGACCAT
* *
83599852 GTCTAGGACACGCATCGGCTAAGAGTTGT
63 GTCTAGGACACGCATCAGCTAAGAGTAGT
* * * *
83599881 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGCGTA-TATGAGAGCCAGTGTAAGACCAT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAG--C-CATACTAAGATAGCCAGTGTAAGACCAT
83599945 GTCT
63 GTCT
83599949 GGGATATGGC
Statistics
Matches: 137, Mismatches: 12, Indels: 21
0.81 0.07 0.12
Matches are distributed among these distances:
91 33 0.24
92 19 0.14
93 19 0.14
94 47 0.34
95 19 0.14
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (91 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCATACTAAGATAGCCAGTGTAAGACCATGTC
TAGGACACGCATCAGCTAAGAGTAGT
Found at i:83605795 original size:31 final size:31
Alignment explanation
Indices: 83605757--83605820 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
83605747 CCTTTTCATA
83605757 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
83605788 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
83605819 TT
1 TT
83605821 ACTGTAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:83607636 original size:27 final size:28
Alignment explanation
Indices: 83607552--83607649 Score: 171
Period size: 28 Copynumber: 3.5 Consensus size: 28
83607542 AAATTTGTAC
83607552 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
83607580 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
* *
83607608 AGCACTAAGTGTGTGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
83607635 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
83607650 GACTCACTAT
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
27 23 0.34
28 44 0.66
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:83609132 original size:24 final size:24
Alignment explanation
Indices: 83609082--83609209 Score: 217
Period size: 24 Copynumber: 5.4 Consensus size: 24
83609072 GGTGTTACAT
83609082 AGCCTCTTTTAATAACTGGGGCA-A
1 AGCC-CTTTTAATAACTGGGGCATA
83609106 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
83609130 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
83609154 AG-CCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
83609177 AGCCCTTTTAATAAC-GGAGGCATA
1 AGCCCTTTTAATAACTGG-GGCATA
83609201 AGCCCTTTT
1 AGCCCTTTT
83609210 TACACTTCCT
Statistics
Matches: 101, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
23 43 0.43
24 58 0.57
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:83609160 original size:47 final size:48
Alignment explanation
Indices: 83609082--83609209 Score: 217
Period size: 47 Copynumber: 2.7 Consensus size: 48
83609072 GGTGTTACAT
83609082 AGCCTCTTTTAATAACTGGGGCA-AAGCCCTTTTAATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
83609130 AGCCCTTTTAATAACTGGGGCATAAG-CCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
83609177 AGCCCTTTTAATAAC-GGAGGCATAAGCCCTTTT
1 AGCCCTTTTAATAACTGG-GGCATAAGCCCTTTT
83609210 TACACTTCCT
Statistics
Matches: 77, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
46 2 0.03
47 62 0.81
48 13 0.17
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (48 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
Found at i:83609285 original size:20 final size:20
Alignment explanation
Indices: 83609260--83609306 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
83609250 TTATGAACAC
83609260 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
83609280 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
83609300 ACCATGT
1 ATCATGT
83609307 TTATCAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:83609825 original size:8 final size:8
Alignment explanation
Indices: 83609812--83609839 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
83609802 AAATGCCAGA
83609812 ATTTCGGC
1 ATTTCGGC
83609820 ATTTCGGC
1 ATTTCGGC
83609828 ATTTCGGC
1 ATTTCGGC
83609836 ATTT
1 ATTT
83609840 ATCGCTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (8 bp):
ATTTCGGC
Found at i:83617594 original size:22 final size:22
Alignment explanation
Indices: 83617566--83617626 Score: 86
Period size: 22 Copynumber: 2.8 Consensus size: 22
83617556 TGAATAGTAC
*
83617566 CACACGCCCGTGTGGCTTGTGT
1 CACACGCCCGTGTGGCTTGTAT
*
83617588 CACACGCCCGTGTGACTTGTAT
1 CACACGCCCGTGTGGCTTGTAT
* *
83617610 TAAACGCCCGTGTGGCT
1 CACACGCCCGTGTGGCT
83617627 GATGTGACTC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.15, C:0.31, G:0.28, T:0.26
Consensus pattern (22 bp):
CACACGCCCGTGTGGCTTGTAT
Found at i:83619273 original size:40 final size:40
Alignment explanation
Indices: 83619228--83619394 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
83619218 CGGAATATAA
83619228 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
83619268 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
83619308 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
83619348 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
83619387 CCGGATAT
1 CCGGATAT
83619395 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:83627276 original size:40 final size:40
Alignment explanation
Indices: 83627231--83627397 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
83627221 CGGAATATAA
83627231 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
83627271 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
83627311 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
83627351 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
83627390 CCGGATAT
1 CCGGATAT
83627398 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:83630742 original size:16 final size:16
Alignment explanation
Indices: 83630721--83630756 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
83630711 AAACCCTAAT
83630721 TTTCCC-TTTTCTTTTC
1 TTTCCCTTTTTC-TTTC
83630737 TTTCCCTTTTTCTTTC
1 TTTCCCTTTTTCTTTC
83630753 TTTC
1 TTTC
83630757 TTTCCCTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTCCCTTTTTCTTTC
Found at i:83631075 original size:19 final size:20
Alignment explanation
Indices: 83631041--83631078 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
83631031 AGTCCTTACA
83631041 CTAAATTAACCTTAATTAAG
1 CTAAATTAACCTTAATTAAG
*
83631061 CTAAATTTA-CTTAATTAA
1 CTAAATTAACCTTAATTAA
83631079 AATCTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (20 bp):
CTAAATTAACCTTAATTAAG
Found at i:83640088 original size:30 final size:30
Alignment explanation
Indices: 83640054--83640114 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
83640044 TCCTTAACTC
*
83640054 AAACTTTTGCAAAATTACAATTTTGCGCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * *
83640084 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
83640114 A
1 A
83640115 GCTCAGGAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:83641497 original size:46 final size:46
Alignment explanation
Indices: 83641444--83641619 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
83641434 TATTTGGGCA
83641444 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
83641490 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
83641537 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
83641583 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
83641620 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:83641599 original size:93 final size:93
Alignment explanation
Indices: 83641440--83641611 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
83641430 GGGATATTTG
* *
83641440 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
83641505 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
83641533 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
83641598 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
83641612 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:83644550 original size:15 final size:15
Alignment explanation
Indices: 83644530--83644598 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
83644520 GTATCTTGGG
83644530 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
83644545 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
83644560 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
83644575 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
83644590 TTTCTTTAT
1 TTTCTTTAT
83644599 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:83644599 original size:30 final size:30
Alignment explanation
Indices: 83644521--83644608 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
83644511 CATAGTATCG
* * * *
83644521 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
83644551 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
83644581 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
83644609 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:83647046 original size:46 final size:46
Alignment explanation
Indices: 83646993--83647168 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
83646983 TATTTGGGCA
83646993 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
83647039 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
83647086 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
83647132 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
83647169 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:83647148 original size:93 final size:93
Alignment explanation
Indices: 83646989--83647160 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
83646979 GGGATATTTG
* *
83646989 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
83647054 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
83647082 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
83647147 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
83647161 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:83649254 original size:28 final size:28
Alignment explanation
Indices: 83649214--83649270 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
83649204 TCATACACAT
*
83649214 AGTATCTTCTACCACATAGGTATCGTAC
1 AGTATCTTCTACCACATAGGTATCATAC
83649242 AGTATCTTCTACCACATAGGTATCATAC
1 AGTATCTTCTACCACATAGGTATCATAC
83649270 A
1 A
83649271 TACCTGAACT
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:0.32, C:0.25, G:0.12, T:0.32
Consensus pattern (28 bp):
AGTATCTTCTACCACATAGGTATCATAC
Found at i:83649512 original size:40 final size:39
Alignment explanation
Indices: 83649452--83649543 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 39
83649442 CTTGGTATTG
* **
83649452 CACACTTAGTGCCTCATATAGCCAAAGCTATTCCAATTTT
1 CACACTTAGTG-CTCATATAGCCAAAGCTATTCCAAATCA
*
83649492 CACACTTAGTGCT-ATTTATAGCCAAAGCTATTTCAAATCA
1 CACACTTAGTGCTCA--TATAGCCAAAGCTATTCCAAATCA
83649532 CACACTTAGTGC
1 CACACTTAGTGC
83649544 CGAACATAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
38 1 0.02
39 2 0.04
40 43 0.93
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (39 bp):
CACACTTAGTGCTCATATAGCCAAAGCTATTCCAAATCA
Found at i:83657941 original size:40 final size:40
Alignment explanation
Indices: 83657856--83657947 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 40
83657846 AATTATGTTC
* * *
83657856 GGCACTAAGTGTGCGATTTGAAATAGCTTTGGTTACAAATA
1 GGCACTAAGTGTACGAATTGAAATAGCTTTGGCTA-AAATA
* *
83657897 -GCACTAAGTGTACGAATTGGAATAGCTTTGGCT-ATATGA
1 GGCACTAAGTGTACGAATTGAAATAGCTTTGGCTAAAAT-A
83657936 GGCACTAAGTGT
1 GGCACTAAGTGT
83657948 GTAATACCGA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
38 3 0.07
39 1 0.02
40 40 0.91
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.30
Consensus pattern (40 bp):
GGCACTAAGTGTACGAATTGAAATAGCTTTGGCTAAAATA
Found at i:83659856 original size:29 final size:29
Alignment explanation
Indices: 83659823--83659953 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
83659813 GTGACGAGAT
83659823 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
83659852 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
83659881 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
83659910 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
83659939 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
83659954 GAAATCGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:83666591 original size:24 final size:24
Alignment explanation
Indices: 83666546--83666591 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
83666536 TGCATTATGG
**
83666546 AAGGAAAATAAAGAAATGAAAAAA
1 AAGGAAAATAAAGAAAAAAAAAAA
* *
83666570 AAGGAAAATGATGAAAAAAAAA
1 AAGGAAAATAAAGAAAAAAAAA
83666592 GAGTGTGGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (24 bp):
AAGGAAAATAAAGAAAAAAAAAAA
Found at i:83667912 original size:29 final size:29
Alignment explanation
Indices: 83667879--83668009 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
83667869 GTGACGAGAT
83667879 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
83667908 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
83667937 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
83667966 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
83667995 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
83668010 GAAATCGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:83671141 original size:48 final size:48
Alignment explanation
Indices: 83671070--83671386 Score: 329
Period size: 48 Copynumber: 6.6 Consensus size: 48
83671060 TGAATTACCA
* * *** *
83671070 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGT-CGGGGTCG
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCAT-TACATTGCCG
* *
83671118 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTGTC-TTA-A-TGCCG
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTC---TCATTACATTGCCG
* *
83671166 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCGTTACATTGTCG
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATTACATTGCCG
* * * *
83671214 ATGCCATGTTCCAAACATGGTCTTACATTGGTTCTCGTTACATTGCCA
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATTACATTGCCG
* * * * *
83671262 ATGCCATGTTCCAAACATAGTTTTACAGTGGCACTCGTTACATTGCCG
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATTACATTGCCG
* * * *
83671310 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-TATCGTGGCCG
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATTA-CATTGCCG
* *
83671358 ATGCCATGTCCCAGACATGGTCTTACACT
1 ATGCCATGTTCCAAACATGGTCTTACACT
83671387 AGCACACATA
Statistics
Matches: 232, Mismatches: 29, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
45 2 0.01
46 3 0.01
47 3 0.01
48 221 0.95
49 1 0.00
50 1 0.00
51 1 0.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.31
Consensus pattern (48 bp):
ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATTACATTGCCG
Found at i:83678376 original size:55 final size:56
Alignment explanation
Indices: 83678311--83678425 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
83678301 AGCATGGCTG
* *
83678311 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
83678367 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
83678422 CCAG
1 CCAG
83678426 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:83678388 original size:27 final size:27
Alignment explanation
Indices: 83678336--83678425 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
83678326 GTGACAGAGT
83678336 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
83678365 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
83678392 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
83678420 CACCAG
1 CACCAG
83678426 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:83683600 original size:27 final size:28
Alignment explanation
Indices: 83683544--83683613 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
83683534 AAACTTGTAC
83683544 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
83683572 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
83683599 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
83683614 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:83683624 original size:27 final size:27
Alignment explanation
Indices: 83683544--83683625 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
83683534 AAACTTGTAC
* *
83683544 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
83683572 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
83683599 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
83683626 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:83689437 original size:27 final size:28
Alignment explanation
Indices: 83689380--83689449 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
83689370 GTGACAGAGT
* *
83689380 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATATTATGTGGCAGGGC
*
83689409 CACCAGAACAGATA-TATGTGGTAGGGC
1 CACCAGAACAGATATTATGTGGCAGGGC
83689436 CACCAGAACAGATA
1 CACCAGAACAGATA
83689450 ATTTATGGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 24 0.63
28 7 0.18
29 7 0.18
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.20
Consensus pattern (28 bp):
CACCAGAACAGATATTATGTGGCAGGGC
Found at i:83689467 original size:28 final size:27
Alignment explanation
Indices: 83689380--83689469 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
83689370 GTGACAGAGT
* *
83689380 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGTA-TGC
* *
83689409 CACCAGAACAGAT-ATATGTGGTAGGGC
1 CACCAGAACAGATAATTTGTGGTA-TGC
*
83689436 CACCAGAACAGATAATTTATGGTATAGC
1 CACCAGAACAGATAATTTGTGGTAT-GC
83689464 CACCAG
1 CACCAG
83689470 GACACTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.22
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGTATGC
Found at i:83697878 original size:79 final size:81
Alignment explanation
Indices: 83697777--83697961 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
83697767 ACGACTCGCT
** * *
83697777 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
83697840 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
83697857 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
83697921 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
83697937 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
83697962 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:83697961 original size:40 final size:39
Alignment explanation
Indices: 83697770--83697961 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
83697760 GGATATAACG
* ** * *
83697770 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
83697810 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
83697850 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
83697889 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
83697929 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
83697962 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:83705993 original size:79 final size:80
Alignment explanation
Indices: 83705817--83705999 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 80
83705807 ACGACTCGCT
** *
83705817 CAAATGCCTTCGGGACAAAGCCCGG-TTATAGTACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTACTCGCACGAATGCCTTCGGGACCTAACCCGG
* *
83705881 GTTTAGTAACTTGCA
66 ATATAGTAACTTGCA
* **
83705896 CAAATGCCTTCGGG-CTTAGCCCGGATT-TATTAACTCGCACGAATGCCTTC-GGATCCTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGT-ACTCGCACGAATGCCTTCGGGA-CCTAACCC
*
83705958 GGATATAGTCACTTAGCA
64 GGATATAGTAACTT-GCA
83705976 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
83706000 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 23 0.26
79 63 0.70
80 4 0.04
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTACTCGCACGAATGCCTTCGGGACCTAACCCGG
ATATAGTAACTTGCA
Found at i:83705999 original size:39 final size:40
Alignment explanation
Indices: 83705810--83705999 Score: 183
Period size: 39 Copynumber: 4.8 Consensus size: 40
83705800 GGATATAACG
* * ** *
83705810 ACTCGCTCAAATGCCTTCGGGACAAAGCCCGGTTATAGT-
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
83705849 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
83705889 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
83705928 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCACGAATGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
83705968 ACTTAGCAC-AA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACGAATGCCTTCGGGACTTAGCCCGGA
83706000 CATCATTCGA
Statistics
Matches: 124, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
38 2 0.02
39 78 0.63
40 39 0.31
41 5 0.04
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:83713458 original size:43 final size:43
Alignment explanation
Indices: 83713293--83713504 Score: 144
Period size: 43 Copynumber: 4.9 Consensus size: 43
83713283 ATATCAAACA
* ** * *
83713293 ATGCCAACGTCCCAGACGTGGTCTTACATGCTATCTCATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGAAAACACATATCG
* * ** *
83713336 ATGCC-ACTGTCCCAGACAAGGTCTTACACG-ATTCAAATAT-G
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGAAAACACATATCG
* * * * * *
83713377 ATGCCGATGTCTCATACATGGTCTTAC-TCGTAACCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACAT-GAAAACACATATCG
* *
83713420 ATGCCAACATCTCAGACATGGTCTTACATGAAAACACATATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGAAAACAC--ATATCG
* * ** **
83713465 GTGCCAACGTCCTAGATGTGGTCTTACACAAAAACACATA
1 ATGCCAACGTCCCAGACATGGTCTTACATGAAAACACATA
83713505 GCATAATCCT
Statistics
Matches: 132, Mismatches: 29, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
41 23 0.17
42 16 0.12
43 57 0.43
44 1 0.01
45 35 0.27
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGAAAACACATATCG
Found at i:83714064 original size:15 final size:15
Alignment explanation
Indices: 83714041--83714071 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
83714031 TCAAAAATTC
83714041 CAATACAAAACATAT
1 CAATACAAAACATAT
*
83714056 CAATCCAAAACATAT
1 CAATACAAAACATAT
83714071 C
1 C
83714072 TTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:83715771 original size:46 final size:48
Alignment explanation
Indices: 83715644--83715773 Score: 139
Period size: 46 Copynumber: 2.8 Consensus size: 48
83715634 CCACATTACG
83715644 AGAGCTAGTGTAAGACCATGTTC-AGGACATGGCATCGGCAGTGAGACA
1 AGAGCTAGTGTAAGACCATGTTCGA-GACATGGCATCGGCAGTGAGACA
* * **
83715692 AGAGCTAATGTAAGA-CATG-TCTGGGACAT-GCATCGGCTA-TGAG-TT
1 AGAGCTAGTGTAAGACCATGTTC-GAGACATGGCATCGGC-AGTGAGACA
*
83715737 A-AGCTAGTGCAAGACCATGTTCGAGACATGGCATCGG
1 AGAGCTAGTGTAAGACCATGTTCGAGACATGGCATCGG
83715774 TATCCTATTC
Statistics
Matches: 69, Mismatches: 7, Indels: 14
0.77 0.08 0.16
Matches are distributed among these distances:
44 11 0.16
45 11 0.16
46 23 0.33
47 10 0.14
48 14 0.20
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (48 bp):
AGAGCTAGTGTAAGACCATGTTCGAGACATGGCATCGGCAGTGAGACA
Found at i:83716965 original size:21 final size:22
Alignment explanation
Indices: 83716926--83716966 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
83716916 TCTAATTGGT
83716926 CACACGGGCGTGTTGCCCCTCC
1 CACACGGGCGTGTTGCCCCTCC
*
83716948 CACACGGGTGTG-TGCCCCT
1 CACACGGGCGTGTTGCCCCT
83716967 GTGTCTAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.10, C:0.41, G:0.29, T:0.20
Consensus pattern (22 bp):
CACACGGGCGTGTTGCCCCTCC
Found at i:83723995 original size:13 final size:13
Alignment explanation
Indices: 83723977--83724001 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
83723967 GAGTTTTGAG
83723977 TTCTTCGATCTGC
1 TTCTTCGATCTGC
83723990 TTCTTCGATCTG
1 TTCTTCGATCTG
83724002 TTCATAGGGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.28, G:0.16, T:0.48
Consensus pattern (13 bp):
TTCTTCGATCTGC
Found at i:83725627 original size:40 final size:40
Alignment explanation
Indices: 83725500--83725629 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
83725490 ATGCTGGAAA
* *
83725500 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
83725540 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
83725580 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
83725620 TTATATCCGG
1 TTATATCCGG
83725630 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:83732836 original size:40 final size:40
Alignment explanation
Indices: 83732709--83732838 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
83732699 ATGCTGGAAA
* *
83732709 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
83732749 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
83732789 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
83732829 TTATATCCGG
1 TTATATCCGG
83732839 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:83740052 original size:40 final size:40
Alignment explanation
Indices: 83739925--83740054 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
83739915 ATGCTGGAAA
* *
83739925 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
83739965 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
83740005 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
83740045 TTATATCCGG
1 TTATATCCGG
83740055 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:83749892 original size:40 final size:40
Alignment explanation
Indices: 83749837--83750086 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
83749827 AACATTGGAA
83749837 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
83749877 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
83749917 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
83749957 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
83749997 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
83750036 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
83750077 CTATATCCGG
1 ATATATCCGG
83750087 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:83753066 original size:13 final size:15
Alignment explanation
Indices: 83753036--83753068 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
83753026 TTCCAGATTT
83753036 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
83753051 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
83753066 TCT
1 TCT
83753069 GGAAAGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.06, C:0.39, G:0.00, T:0.55
Consensus pattern (15 bp):
TCTTTTCTACCTCTC
Found at i:83755656 original size:29 final size:29
Alignment explanation
Indices: 83755624--83755701 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
83755614 ATACCCTCCG
** *
83755624 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
* *
83755653 AGCTTGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTCC
*
83755682 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
83755702 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCGTATATTTCC
Found at i:83760510 original size:30 final size:30
Alignment explanation
Indices: 83760474--83760604 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
83760464 GACAAGATTG
* * * * *
83760474 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
83760504 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
83760532 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
83760562 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
83760591 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
83760605 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:83760565 original size:58 final size:58
Alignment explanation
Indices: 83760474--83760604 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
83760464 GACAAGATTG
* * * * * *
83760474 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
83760532 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
83760591 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
83760605 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:83769929 original size:39 final size:39
Alignment explanation
Indices: 83769882--83770064 Score: 231
Period size: 39 Copynumber: 4.6 Consensus size: 39
83769872 AATGTTCGAG
83769882 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
83769921 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * * *
83769960 TGATATCTGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
83769999 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
83770039 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
83770065 GTTTGAACGA
Statistics
Matches: 124, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 86 0.69
40 38 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:83783875 original size:41 final size:41
Alignment explanation
Indices: 83783822--83783971 Score: 203
Period size: 41 Copynumber: 3.7 Consensus size: 41
83783812 CGCTGACTCA
* * *
83783822 AAAAGCCCTTCGAGACCAAACTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * * *
83783863 GAAGGCCCTTCGAAACTACGTTCGG-TTATGACACTGGCTT
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
83783903 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
83783944 AAAAGCCCTTCGAGACCAAGCTCGGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
83783972 TAAAACCCGA
Statistics
Matches: 91, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 31 0.34
41 60 0.66
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:83790245 original size:40 final size:40
Alignment explanation
Indices: 83790079--83790263 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 40
83790069 TTCGAATGAT
* * *
83790079 ATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAA
** * *
83790119 ATCCGGAATAAGAT-CCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
83790159 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGCGAGCTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA
* *
83790199 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTGTA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT-AA
*
83790240 A-CCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATT
83790264 TGAATGTGTA
Statistics
Matches: 120, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.01
40 111 0.93
41 8 0.07
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:83790257 original size:80 final size:80
Alignment explanation
Indices: 83790079--83790266 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
83790069 TTCGAATGAT
* *
83790079 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGAATAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGAATAAGATCCGAAGGCATA
83790144 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* * **
83790159 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-GAGCT-ACTAAATCCGGGTTAAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGAATAAGAT-CCGAAGG
* *
83790220 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
83790240 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
83790267 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGAATAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:83798221 original size:40 final size:40
Alignment explanation
Indices: 83798055--83798239 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 40
83798045 TTCGAATGAT
* * *
83798055 ATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAA
** * *
83798095 ATCCGGAATAAGAT-CCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
83798135 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGCGAGCTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA
* *
83798175 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTGTA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT-AA
*
83798216 A-CCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATT
83798240 TGAATGTGTA
Statistics
Matches: 120, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.01
40 111 0.93
41 8 0.07
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:83798233 original size:80 final size:80
Alignment explanation
Indices: 83798055--83798242 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
83798045 TTCGAATGAT
* *
83798055 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGAATAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGAATAAGATCCGAAGGCATA
83798120 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* * **
83798135 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-GAGCT-ACTAAATCCGGGTTAAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGAATAAGAT-CCGAAGG
* *
83798196 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
83798216 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
83798243 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGAATAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:83803080 original size:41 final size:41
Alignment explanation
Indices: 83803027--83803176 Score: 212
Period size: 41 Copynumber: 3.7 Consensus size: 41
83803017 CGCTGACTCA
* *
83803027 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * *
83803068 GAAGGCCCTTCGAAACTACGTTCGG-TTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
*
83803108 AAAAGCCCTTCGAGACCAAGCTCAGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
83803149 AAAAGCCCTTCGAGACCAAGCTCGGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
83803177 TAAAACCCGA
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
40 31 0.34
41 61 0.66
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:83804960 original size:29 final size:29
Alignment explanation
Indices: 83804893--83804986 Score: 127
Period size: 29 Copynumber: 3.3 Consensus size: 29
83804883 AAGTCTATAT
* *
83804893 ACATGCATATGGCCCAATAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
83804921 ACATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * **
83804950 ATATTCGTATGATCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
83804979 ACATTCAT
1 ACATTCAT
83804987 GTCATGCTTT
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 22 0.39
29 35 0.61
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:83810088 original size:19 final size:19
Alignment explanation
Indices: 83810066--83810102 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
83810056 CCCTTCGGTG
83810066 GCTGAACACCACCTCGGCT
1 GCTGAACACCACCTCGGCT
83810085 GCTGAACACCACCTCGGC
1 GCTGAACACCACCTCGGC
83810103 CCACGCCTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.43, G:0.22, T:0.14
Consensus pattern (19 bp):
GCTGAACACCACCTCGGCT
Found at i:83812771 original size:29 final size:29
Alignment explanation
Indices: 83812700--83812794 Score: 102
Period size: 29 Copynumber: 3.3 Consensus size: 29
83812690 AAGTCTACAT
* * *
83812700 ACATGCATATGGCCCACTAAGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
83812728 TCATTCATATAGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * *
83812757 ACATTCGTATGGCCCATTAGACCCAAATG
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
83812786 ATATTCATA
1 ACATTCATA
83812795 GTCATACTTT
Statistics
Matches: 54, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
28 19 0.35
29 35 0.65
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:83814577 original size:28 final size:28
Alignment explanation
Indices: 83814545--83814614 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
83814535 TATGGTACTC
*
83814545 AGTGTACGAAATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
83814573 AGTGTGCGAGATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
83814601 AGTGTGCAAAATAT
1 AGTGTGCGAAATAT
83814615 CGAATGATTC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGACACTT
Found at i:83816652 original size:57 final size:57
Alignment explanation
Indices: 83816588--83816940 Score: 571
Period size: 57 Copynumber: 6.2 Consensus size: 57
83816578 AACATAGGTG
* * *
83816588 CTGTGTGTGTGAGTTCCGTAACCGAGCACTGTGTGTGCGACATCAGTTGTTGAGGCA
1 CTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCA
* *
83816645 CTGTGTGTGCGAGTTCCGTAACTGAGCACTGTGTATGCGAGATCGGTTGTTGAGGCA
1 CTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCA
* * *
83816702 CTGTGTGTACGAGTTCCGTAATCGAGCATTGTGTGTGCGAGATCGGTTGTTGAGGCA
1 CTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCA
83816759 CTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCA
1 CTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCA
*
83816816 CTGTGTGTGCGAGTTTCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCA
1 CTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCA
* * * *
83816873 CTGTGTGTGTGAGTTCCGTAACCAAGCACTGTGTGTGCAAGATCGGTTGTTGGGGCA
1 CTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCA
83816930 CTAAGTGTGTG
1 CT--GTGTGTG
83816941 AAATGAGATC
Statistics
Matches: 275, Mismatches: 19, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
57 268 0.97
59 7 0.03
ACGTcount: A:0.17, C:0.18, G:0.35, T:0.30
Consensus pattern (57 bp):
CTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCA
Found at i:83821802 original size:28 final size:28
Alignment explanation
Indices: 83821761--83821830 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
83821751 TATGGTACTC
*
83821761 AGTGTACGAAATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
83821789 AGTGTGCGAGATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
83821817 AGTGTGCAAAATAT
1 AGTGTGCGAAATAT
83821831 CGAATGATTC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGACACTT
Found at i:83833618 original size:40 final size:40
Alignment explanation
Indices: 83833556--83833771 Score: 278
Period size: 40 Copynumber: 5.4 Consensus size: 40
83833546 AAACCAAGTA
* * * *
83833556 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAACG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
**
83833595 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
83833635 CCTTTGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
83833675 CCTTCGGGACTTAGCTCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
83833715 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
83833755 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
83833772 CGTTATCATC
Statistics
Matches: 158, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 14 0.09
40 144 0.91
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Done.