Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold150
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1854615
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.30
Warning! 196055 characters in sequence are not A, C, G, or T
File 4 of 6
Found at i:760067 original size:170 final size:165
Alignment explanation
Indices: 759758--760279 Score: 677
Period size: 167 Copynumber: 3.2 Consensus size: 165
759748 AAAGAATCAT
* *
759758 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCCATGTAAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGA-TTACTCTATATATACCTATGTAAAACT
** * * *
759823 TTAACACCCCCCA-TGTGGCCCCACCCTACCCCTAGGGATCATGATTTTCACAACTTGGAATCTA
65 TCGAC-CCCCCCATTGTGGCCCCACCCTACCCCCAGGGGTCATGATTTTCACAACTTAGAATCTA
*
759887 CACTACCTGAGGATACTTCCACACAAGTTTCAGCTTTC
129 CACTACCTGAGGATGCTTCCACACAAG-TTCAGCTTTC
* * **
759925 CTGGCTGATAAGTTTCTGAGAAGAACATTTTTAAAGATTAACTCTATATATACCTATAAAAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATT-ACTCTATATATACCTATGTAAAACT
759990 TCGACCCCCCCCCAATTGTGGCCCCACCCTACCCCCAGGGGTCATGATTTTCACAACTTAGAATC
65 TCGA--CCCCCCC-ATTGTGGCCCCACCCTACCCCCAGGGGTCATGATTTTCACAACTTAGAATC
760055 TACACTACCTGAGGATGCTT-C-CAC-A---CAGCTTTC
127 TACACTACCTGAGGATGCTTCCACACAAGTTCAGCTTTC
* * *
760088 CTGGCTGATTAGTTCCTGAGAAGAAGATTTCTAAAGATTTCTCTATAGATATATTCCTATGTAAA
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTACTCTAT--ATATA--CCTATGTAAA
* *
760153 ACTTCGA--CCCCCATTGTGGCCCCACCCTACCCTC-GGGGTCATGATTTTCACAACTTTGAATC
62 ACTTCGACCCCCCCATTGTGGCCCCACCCTACCCCCAGGGGTCATGATTTTCACAACTTAGAATC
* *
760215 TACATTACCTGAGGATGCTTCCACACAAGTGTCAGTTTTC
127 TACACTACCTGAGGATGCTTCCACACAAGT-TCAGCTTTC
* *
760255 CTGGTTGATTAGTTTTTGAGAAGAA
1 CTGGCTGATTAGTTTCTGAGAAGAA
760280 NNNNNNNNNN
Statistics
Matches: 313, Mismatches: 26, Indels: 32
0.84 0.07 0.09
Matches are distributed among these distances:
160 46 0.15
161 22 0.07
162 14 0.04
163 44 0.14
164 5 0.02
166 17 0.05
167 88 0.28
168 9 0.03
169 3 0.01
170 65 0.21
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (165 bp):
CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTACTCTATATATACCTATGTAAAACTT
CGACCCCCCCATTGTGGCCCCACCCTACCCCCAGGGGTCATGATTTTCACAACTTAGAATCTACA
CTACCTGAGGATGCTTCCACACAAGTTCAGCTTTC
Found at i:760226 original size:160 final size:159
Alignment explanation
Indices: 759758--760241 Score: 604
Period size: 170 Copynumber: 3.0 Consensus size: 159
759748 AAAGAATCAT
*
759758 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTC--TATATATTCCCATGTAAAA
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTT-CTCTATATATATTCCTATGTAAAA
* * *
759821 CTTTAAC-ACCCCCCA-TGTGGCCCCACCCTACCCCTAGGGATCATGATTTTCACAACTTGGAAT
65 C-TT--CGACCCCCCATTGTGGCCCCACCCTA-CCCTCGGGGTCATGATTTTCACAACTTAGAAT
*
759884 CTACACTACCTGAGGATACTTCCACACAAGTTTCAGCTTTC
126 CTACACTACCTGAGGATGCTT-C-CAC-A----CAGCTTTC
* * * **
759925 CTGGCTGATAAGTTTCTGAGAAGAACATTTTTAAAGATTAACTCTATATATA--CCTATAAAAAA
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATT-TCTCTATATATATTCCTATGTAAAA
*
759988 CTTCGACCCCCCCCCAATTGTGGCCCCACCCTACCCCCAGGGGTCATGATTTTCACAACTTAGAA
65 CTTCGA---CCCCCC-ATTGTGGCCCCACCCTACCCTC-GGGGTCATGATTTTCACAACTTAGAA
760053 TCTACACTACCTGAGGATGCTTCCACACAGCTTTC
125 TCTACACTACCTGAGGATGCTTCCACACAGCTTTC
* *
760088 CTGGCTGATTAGTTCCTGAGAAGAAGATTTCTAAAGATTTCTCTATAGATATATTCCTATGTAAA
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTCTCTAT--ATATATTCCTATGTAAA
*
760153 ACTTCGA-CCCCCATTGTGGCCCCACCCTACCCTCGGGGTCATGATTTTCACAACTTTGAATCTA
64 ACTTCGACCCCCCATTGTGGCCCCACCCTACCCTCGGGGTCATGATTTTCACAACTTAGAATCTA
*
760217 CATTACCTGAGGATGCTTCCACACA
129 CACTACCTGAGGATGCTTCCACACA
760242 AGTGTCAGTT
Statistics
Matches: 282, Mismatches: 21, Indels: 35
0.83 0.06 0.10
Matches are distributed among these distances:
160 53 0.19
161 21 0.07
162 11 0.04
163 43 0.15
164 6 0.02
165 1 0.00
166 17 0.06
167 50 0.18
168 9 0.03
169 11 0.04
170 60 0.21
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (159 bp):
CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTCTCTATATATATTCCTATGTAAAAC
TTCGACCCCCCATTGTGGCCCCACCCTACCCTCGGGGTCATGATTTTCACAACTTAGAATCTACA
CTACCTGAGGATGCTTCCACACAGCTTTC
Found at i:761127 original size:166 final size:166
Alignment explanation
Indices: 760619--761702 Score: 1482
Period size: 166 Copynumber: 6.5 Consensus size: 166
760609 AAAGAAACAT
* * *
760619 CTGGCTGATTAGTTTCT--G-AGAAGATTTTTAAAGATTTACCCTATATATTCCTTTGTTAAATT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTTAAACT
* * **
760681 TTGACCCCCCCATTGTGGCCCCACCCTA-CCCCTGGGGATCATGATTTTCACAACCATGAATCTA
66 TCGA-CCCCCCATTGTGGCCCCACCCTACCCCCAGGGG-TCATGATTTTCACAAATATGAATCTA
* *
760745 CACTACCTGAGGATGCTTTCACACACGTTTCAGCTTTC
129 CACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
* * * * *
760783 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTGTTTATTCCTATCTAAAACA
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTTAAACT
* * * * *
760848 TCGACCTCCCATTGTGGCCCAAACCTACCCCCA-GGGTTATGATTTTCACAAATTTGAATCTACA
66 TCGACCCCCCATTGTGGCCCCACCCTACCCCCAGGGGTCATGATTTTCACAAATATGAATCTACA
760912 CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
131 CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
* * * *
760948 CTGGCTAATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATTTAATCATATGTTAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTTAAACT
** * * * * *
761013 TCGACCCCCCATTGTGGCCCCATTCTACCCCCAGGGGTTATTATTTTCACAACTTTGAATCAACA
66 TCGACCCCCCATTGTGGCCCCACCCTACCCCCAGGGGTCATGATTTTCACAAATATGAATCTACA
* * *
761078 CTACCTGAGGATGCTTCCAAAGAAGTTTCAGCATTGC
131 CTACCTGAGGATGCTTCCACACAAGTTTCAGC-TTTC
*
761115 C-GGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTTTAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTTAAACT
* * * *
761179 TCGATCCCCCATTGTGGCCCCACCCTTCCCCCGGGGGTCATGATTTTCACAAATATGAATTTACA
66 TCGACCCCCCATTGTGGCCCCACCCTACCCCCAGGGGTCATGATTTTCACAAATATGAATCTACA
* * *
761244 CTACCTGAGGATGCATCCACAAAAGTGTCAGCTTTC
131 CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
* * *
761280 CTCGCTGATTAGTTTCTAAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATTTTAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTTAAACT
* * * *
761345 TCGATCCCCCATTGTGGCCCCACCCTACCCCCGGGGGCCATGATTTTCACAACTATGAATCTACA
66 TCGACCCCCCATTGTGGCCCCACCCTACCCCCAGGGGTCATGATTTTCACAAATATGAATCTACA
* *
761410 CTACCTGAGGATGCTTTCACACAAGTGTCAGCTTTC
131 CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
* * *
761446 CTGGCCGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTATTCTATATATTCCTATGTAAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTTAAACT
** * * * *
761511 TCGATCCTTCC-TTGTGGCCCAACCCTACCTCC-GGGGATCATGATTTTCACAAATTTGTATCTA
66 TCGA-CCCCCCATTGTGGCCCCACCCTACCCCCAGGGG-TCATGATTTTCACAAATATGAATCTA
* * *
761574 CATTACCTGATGATGCTTTCACACAAGTTTCAGCTTTC
129 CACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
* * *
761612 CTGGCTGATTAGTTTCTGAGGAGAAGATTTTTAAAGATTTACTCTATATATTCATTTGTTAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTTAAACT
761677 TCGACCCCCCATTGTGGCCCCACCCT
66 TCGACCCCCCATTGTGGCCCCACCCT
761703 CAGGTGAGCT
Statistics
Matches: 815, Mismatches: 95, Indels: 18
0.88 0.10 0.02
Matches are distributed among these distances:
164 17 0.02
165 157 0.19
166 591 0.73
167 50 0.06
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (166 bp):
CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCCTATGTTAAACT
TCGACCCCCCATTGTGGCCCCACCCTACCCCCAGGGGTCATGATTTTCACAAATATGAATCTACA
CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
Found at i:762942 original size:8 final size:8
Alignment explanation
Indices: 762931--762976 Score: 57
Period size: 8 Copynumber: 6.4 Consensus size: 8
762921 TAAAAAGTTT
762931 ACAGACGG
1 ACAGACGG
762939 ACAGACGG
1 ACAGACGG
762947 ACAGAC-G
1 ACAGACGG
762954 ---GACGG
1 ACAGACGG
762959 ACAGACGG
1 ACAGACGG
762967 AC-GACGG
1 ACAGACGG
762974 ACA
1 ACA
762977 AAATGTGATC
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
4 3 0.09
5 1 0.03
7 8 0.24
8 21 0.64
ACGTcount: A:0.37, C:0.26, G:0.37, T:0.00
Consensus pattern (8 bp):
ACAGACGG
Found at i:762959 original size:4 final size:4
Alignment explanation
Indices: 762934--762975 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
762924 AAAGTTTACA
* * *
762934 GACG GACA GACG GACA GACG GACG GACA GACG GAC- GACG GAC
1 GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG GAC
762976 AAAATGTGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
3 3 0.10
4 28 0.90
ACGTcount: A:0.33, C:0.26, G:0.40, T:0.00
Consensus pattern (4 bp):
GACG
Found at i:762959 original size:12 final size:12
Alignment explanation
Indices: 762942--762969 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
762932 CAGACGGACA
762942 GACGGACAGACG
1 GACGGACAGACG
762954 GACGGACAGACG
1 GACGGACAGACG
762966 GACG
1 GACG
762970 ACGGACAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.25, G:0.43, T:0.00
Consensus pattern (12 bp):
GACGGACAGACG
Found at i:767290 original size:4 final size:4
Alignment explanation
Indices: 767281--767328 Score: 60
Period size: 4 Copynumber: 12.0 Consensus size: 4
767271 AGTTGCGTCT
* * * *
767281 ACAG ACAG ACGG ACAG ACGG ACAG ACAG ACAG ACGG ACAG ACGG ACAG
1 ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG
767329 GGTGAAACCA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.42, C:0.25, G:0.33, T:0.00
Consensus pattern (4 bp):
ACAG
Found at i:767297 original size:8 final size:8
Alignment explanation
Indices: 767284--767328 Score: 81
Period size: 8 Copynumber: 5.6 Consensus size: 8
767274 TGCGTCTACA
767284 GACAGACG
1 GACAGACG
767292 GACAGACG
1 GACAGACG
*
767300 GACAGACA
1 GACAGACG
767308 GACAGACG
1 GACAGACG
767316 GACAGACG
1 GACAGACG
767324 GACAG
1 GACAG
767329 GGTGAAACCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.40, C:0.24, G:0.36, T:0.00
Consensus pattern (8 bp):
GACAGACG
Found at i:791492 original size:75 final size:75
Alignment explanation
Indices: 791370--791519 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
791360 GTGGGTGGGC
791370 GGGGTGGGGGGGGTGTAGTTAGCATGTTTGAAATGTTTGTTATATTATACCTATCATATGAATTT
1 GGGGTGGGGGGGGTGTAGTTAGCATGTTTGAAATGTTTGTTATATTATACCTATCATATGAATTT
791435 TGTATTACAT
66 TGTATTACAT
791445 GGGGTGGGGGGGGTGTAGTTAGCATGTTTGAAATGTTTGTTATATTATACCTATCATATGAATTT
1 GGGGTGGGGGGGGTGTAGTTAGCATGTTTGAAATGTTTGTTATATTATACCTATCATATGAATTT
791510 TGTATTACAT
66 TGTATTACAT
791520 TTAATGATTG
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.24, C:0.07, G:0.28, T:0.41
Consensus pattern (75 bp):
GGGGTGGGGGGGGTGTAGTTAGCATGTTTGAAATGTTTGTTATATTATACCTATCATATGAATTT
TGTATTACAT
Found at i:799152 original size:21 final size:21
Alignment explanation
Indices: 799113--799152 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
799103 TGTCTCCCGC
*
799113 CTACCGCTTTTATTTAAAAAT
1 CTACCGCTTTTATTCAAAAAT
*
799134 CTACCGCTTTTCTTCAAAA
1 CTACCGCTTTTATTCAAAA
799153 TACGTTCCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (21 bp):
CTACCGCTTTTATTCAAAAAT
Found at i:803374 original size:13 final size:13
Alignment explanation
Indices: 803356--803380 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
803346 TTGGACCACA
803356 CTTGATGCTGATG
1 CTTGATGCTGATG
803369 CTTGATGCTGAT
1 CTTGATGCTGAT
803381 CTATTACCTT
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:0.16, C:0.16, G:0.28, T:0.40
Consensus pattern (13 bp):
CTTGATGCTGATG
Found at i:806098 original size:2 final size:2
Alignment explanation
Indices: 806091--806165 Score: 141
Period size: 2 Copynumber: 37.5 Consensus size: 2
806081 GCCTAAACGC
*
806091 CT CT CT CT CT CT CT GT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
806133 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
806166 CAGTAAGGTG
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.00, C:0.49, G:0.01, T:0.49
Consensus pattern (2 bp):
CT
Found at i:808212 original size:169 final size:169
Alignment explanation
Indices: 807894--808478 Score: 837
Period size: 168 Copynumber: 3.5 Consensus size: 169
807884 AAAAAGATTT
* * * **
807894 TTCCTGCATAAAAAATGTATCCCCCAATTGTGGCCCCACCCTATTCACGGGGTTCATGATTTGAA
1 TTCCTGTATAAAAAATTTATCCCCCAATTGTGGCCCCACCCTATCCACGGGGACCATGATTTGAA
807959 CAAACTTGAATCTACACTATCTGTGGAATTGCTTCCACTCAAATTTGAGCTTTCTTGGCCACATA
66 CAAACTTGAATCTACACTATCTGTGGAATTGCTTCCACTCAAATTTGAGCTTTCTTGGCCACATA
*
808024 GTTTTTAACAGAATTTTTTTTCAAGATTTTCTCTATATA
131 GTTTTTAAAAGAATTTTTTTTCAAGATTTTCTCTATATA
*
808063 TTCCTGTATAAAAAATTTATCCCCCAATTGTGGCCCCACCCTATCCACGGGGACCATGATTTTAA
1 TTCCTGTATAAAAAATTTATCCCCCAATTGTGGCCCCACCCTATCCACGGGGACCATGATTTGAA
808128 C-AACTTGAATCTACACTATCTGTGGAATTGCTTCCACTCAAATTTGAGCTTTCTTGGCCACATA
66 CAAACTTGAATCTACACTATCTGTGGAATTGCTTCCACTCAAATTTGAGCTTTCTTGGCCACATA
808192 GTTTTTAAAAGAATTTTTTTTCAAGATTTTCTCTATATA
131 GTTTTTAAAAGAATTTTTTTTCAAGATTTTCTCTATATA
808231 TTCCTGTATAAAAAATTTATCCCCCAATTGTGGCCCCACCCTATCCACGGGGACCATGATTTGAA
1 TTCCTGTATAAAAAATTTATCCCCCAATTGTGGCCCCACCCTATCCACGGGGACCATGATTTGAA
* * * ** * **
808296 CAAACTTGAATCTACACTATCTGAGG-A-TGCTCCCATTTTAATTTTAGCTTT-TATGGCCTGAT
66 CAAACTTGAATCTACACTATCTGTGGAATTGCTTCCACTCAAATTTGAGCTTTCT-TGGCCACAT
* ** *
808358 AGTTTTTGAGAAGAA-GATTTTTAAAGATTTTCTCTATATA
130 AGTTTTT-AAAAGAATTTTTTTTCAAGATTTTCTCTATATA
* * * * ** * *
808398 TTCCTATGT-AAAACTTGATCCCCCTCTTGTAGCCCCTCCCTA-CCACCGGGGACCATGA--TGA
1 TTCCTGTATAAAAAATTTATCCCCCAATTGTGGCCCCACCCTATCCA-CGGGGACCATGATTTGA
808459 ACAAACTTGAATCTACACTA
65 ACAAACTTGAATCTACACTA
808479 CCTGAGGATG
Statistics
Matches: 384, Mismatches: 28, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
164 23 0.06
165 3 0.01
166 40 0.10
167 62 0.16
168 173 0.45
169 83 0.22
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (169 bp):
TTCCTGTATAAAAAATTTATCCCCCAATTGTGGCCCCACCCTATCCACGGGGACCATGATTTGAA
CAAACTTGAATCTACACTATCTGTGGAATTGCTTCCACTCAAATTTGAGCTTTCTTGGCCACATA
GTTTTTAAAAGAATTTTTTTTCAAGATTTTCTCTATATA
Found at i:809056 original size:18 final size:18
Alignment explanation
Indices: 809033--809069 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
809023 AATTCCAGAT
*
809033 AGTGAATCCACAGTACAC
1 AGTGAATCCACAATACAC
*
809051 AGTGAATTCACAATACAC
1 AGTGAATCCACAATACAC
809069 A
1 A
809070 ATCTCTCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.24, G:0.14, T:0.19
Consensus pattern (18 bp):
AGTGAATCCACAATACAC
Found at i:810240 original size:17 final size:16
Alignment explanation
Indices: 810218--810252 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
810208 AAGAGGATCA
810218 TAATAGTTACACATTAG
1 TAATAGTTACACA-TAG
*
810235 TAATAGTTTCACATAG
1 TAATAGTTACACATAG
810251 TA
1 TA
810253 CCCTAGGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.37
Consensus pattern (16 bp):
TAATAGTTACACATAG
Found at i:810474 original size:30 final size:30
Alignment explanation
Indices: 810439--810529 Score: 164
Period size: 30 Copynumber: 3.0 Consensus size: 30
810429 ATTTTGAACT
*
810439 GCCGGTCAATAGACTGCGATCTATTAGACC
1 GCCGGTCAATAGACTGCGATCTATTGGACC
*
810469 GCCGGTCAATAGACTTCGATCTATTGGACC
1 GCCGGTCAATAGACTGCGATCTATTGGACC
810499 GCCGGTCAATAGACTGCGATCTATTGGACC
1 GCCGGTCAATAGACTGCGATCTATTGGACC
810529 G
1 G
810530 GCAACGTATT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 58 1.00
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.24
Consensus pattern (30 bp):
GCCGGTCAATAGACTGCGATCTATTGGACC
Found at i:813410 original size:162 final size:162
Alignment explanation
Indices: 813125--813574 Score: 540
Period size: 162 Copynumber: 2.8 Consensus size: 162
813115 CGGGGGCTAT
* * *
813125 AACAAAGTCCTATTTAACAGGAAGTTGACGTCCGATTGGTA-ATAAAATATATACCACGATATGA
1 AACAAAGT-CTATTTAACAGGAAGTTGACGTCCGATTGGTACA-AAAATATATCCCACAATATGG
* *
813189 CATGCCTAAA-AAATAGTGTGTT-AAATGTCAAGCATCTGCGATAAATAGTTGCTGAGAAATCTT
64 CATGCCTAAACAAATAGTGTTTTAAAATTTCAAGCATCTGCGATAAATAGTTGC-GAGAAATCTT
* * *
813252 TGACGAAAA-TGGTTTAATAATTCTGGCTAGAAATA
128 TAACGAAAATTGGTTTAAAAATTCTGGCTA-AAACA
***
813287 AACAAAGTCATATTTAACAGGAAGTTGACGTTTTATTGGTACAAAAATATATCCCACAATATGGC
1 AACAAAGTC-TATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACAATATGGC
*
813352 ATGCCTAAACAAATAGTGTTTTAAAATTTCAAGCATCTGCTATAAATAGTTG-GAGAAATCTTTA
65 ATGCCTAAACAAATAGTGTTTTAAAATTTCAAGCATCTGCGATAAATAGTTGCGAGAAATCTTTA
* * *
813416 ATGAAAATTTGTTTAAAAATTTTGGCTAAAACA
130 ACGAAAATTGGTTTAAAAATTCTGGCTAAAACA
*
813449 AA-AAACCTGTC-ATTTAACAGGAAGTTGATGTCCGATTGGTACAAAAATATATCCCA-AGATAT
1 AACAAA---GTCTATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACA-ATAT
* * * * *
813511 GGCATGCCTAAATCAAAAAGT-TTGTTACAACTTCAAGCATATGCGATAAACAGTTGCTGAGAAA
62 GGCATGCCTAAA-CAAATAGTGTT-TTAAAATTTCAAGCATCTGCGATAAATAGTTGC-GAGAAA
813575 AATGCGACAG
Statistics
Matches: 250, Mismatches: 25, Indels: 23
0.84 0.08 0.08
Matches are distributed among these distances:
161 5 0.02
162 146 0.58
163 63 0.25
164 30 0.12
165 6 0.02
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.30
Consensus pattern (162 bp):
AACAAAGTCTATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACAATATGGCA
TGCCTAAACAAATAGTGTTTTAAAATTTCAAGCATCTGCGATAAATAGTTGCGAGAAATCTTTAA
CGAAAATTGGTTTAAAAATTCTGGCTAAAACA
Found at i:815932 original size:185 final size:180
Alignment explanation
Indices: 815589--816082 Score: 731
Period size: 186 Copynumber: 2.7 Consensus size: 180
815579 GATAAAAAAT
* * * *
815589 GTTCAAAAGCCGGTACTTTTTTCATAAATAATCAGAAATCAATATCCTAGCAATATGCACACCTC
1 GTTCAAAAGCTGGTATTTTTTTCATAAATTATCAGAAATCAAAATCCTAGCAATATGCACACCTC
** * *
815654 TGATATATGTACAATAAATCTGCAAAAGAACAACTTCCAATCTTGAAAACTGTAGGAGGAGTTTT
66 TGATATATGTACAATTGATCTGCAAAAGAACAACTTCCTATCTTGAAAACTGTAGGAGGAGTTAT
**
815719 CCGTACAATGTGGGTACCCTATATGCAATATTTTGCCAAAAAAATGACTATTTAAA
131 CCGTACAATAAGGGTACCCTATATGCAATATTTTGCC-AAAAAATGAC----T-AA
* *
815775 GTTCAAAAGCTGGTATTTTTTTCATAAATTATCGGCAATCAAAATCCTAGCAATATGCACACCTC
1 GTTCAAAAGCTGGTATTTTTTTCATAAATTATCAGAAATCAAAATCCTAGCAATATGCACACCTC
*
815840 TGATATATGTACAATTGATCT-CAAAAGAACAATTTCCTATCTTGAAAACTGTAGGAGGAGTTAT
66 TGATATATGTACAATTGATCTGCAAAAGAACAACTTCCTATCTTGAAAACTGTAGGAGGAGTTAT
* **
815904 CCGTACTATAAGGGTACCCTATATGCAATATTTTGCCAAAAGGTGACTAA
131 CCGTACAATAAGGGTACCCTATATGCAATATTTTGCCAAAAAATGACTAA
* *
815954 GTTCAAAAGCTGGTATTTTTTTTTAATAAATTGA-CAGAAATCAAAATCTTAGCAATATGCACAC
1 GTTCAAAAGCTGGTA--TTTTTTTCATAAATT-ATCAGAAATCAAAATCCTAGCAATATGCACAC
816018 CTCTGATATATGTACAATTGATCTGCAAAAGAACAACTTCCTATCTTGAAAACTGTAGGAGGAGT
63 CTCTGATATATGTACAATTGATCTGCAAAAGAACAACTTCCTATCTTGAAAACTGTAGGAGGAGT
816083 CAGTGATTTT
Statistics
Matches: 283, Mismatches: 21, Indels: 12
0.90 0.07 0.04
Matches are distributed among these distances:
179 17 0.06
180 1 0.00
181 65 0.23
182 40 0.14
184 8 0.03
185 74 0.26
186 78 0.28
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (180 bp):
GTTCAAAAGCTGGTATTTTTTTCATAAATTATCAGAAATCAAAATCCTAGCAATATGCACACCTC
TGATATATGTACAATTGATCTGCAAAAGAACAACTTCCTATCTTGAAAACTGTAGGAGGAGTTAT
CCGTACAATAAGGGTACCCTATATGCAATATTTTGCCAAAAAATGACTAA
Found at i:817534 original size:19 final size:20
Alignment explanation
Indices: 817483--817614 Score: 75
Period size: 20 Copynumber: 7.0 Consensus size: 20
817473 AACAGCAATG
*
817483 ATATTATACAATATCATATC
1 ATATGATACAATATCATATC
*
817503 ATATGATACAATAT-ATATT
1 ATATGATACAATATCATATC
** **
817522 ATATGATTTAATA-CA-AAA
1 ATATGATACAATATCATATC
*
817540 ATA-AAT-CAA-A--A-ATC
1 ATATGATACAATATCATATC
* * *
817554 ATATTGTTACACTATCATATA
1 ATA-TGATACAATATCATATC
**
817575 ATATTTTACAATATCATATC
1 ATATGATACAATATCATATC
*
817595 TTATGATACAATATCATATC
1 ATATGATACAATATCATATC
817615 TGATAAAATA
Statistics
Matches: 84, Mismatches: 20, Indels: 16
0.70 0.17 0.13
Matches are distributed among these distances:
14 5 0.06
15 1 0.01
16 3 0.04
17 4 0.05
18 5 0.06
19 16 0.19
20 45 0.54
21 5 0.06
ACGTcount: A:0.46, C:0.12, G:0.03, T:0.39
Consensus pattern (20 bp):
ATATGATACAATATCATATC
Found at i:831458 original size:14 final size:12
Alignment explanation
Indices: 831425--831452 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
831415 GTGTATTCAG
831425 AATACCTTATAT
1 AATACCTTATAT
831437 AATACCTTATAT
1 AATACCTTATAT
831449 AATA
1 AATA
831453 ATCCTTGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.39
Consensus pattern (12 bp):
AATACCTTATAT
Found at i:836484 original size:160 final size:159
Alignment explanation
Indices: 836294--836615 Score: 527
Period size: 160 Copynumber: 2.0 Consensus size: 159
836284 TATATCCCGA
* * *
836294 TATACATCCAAAAATGATACCTTATTTCTTATATTTACATTTGTTGCAAATTATGACAATAACAA
1 TATACATCCAAAAATGATACCTTATTTCTTATAGTTACAATTGCTGCAAATTATGACAATAACAA
* * *
836359 TGCTCCATACTTTCTCTTTTGTGATGACCTAGAAAGCCGCTTCCATTAAAATGACGTAACAAAAA
66 TGCTCCATACTTTCTCTTTTGTGATGACCTAGAAAACCGCTTCAATTAAAATGACGGAACAAAAA
* *
836424 ATAGTGCAATAATGTTGCAAGCATTTGAT
131 ATAGTACAACAATGTTGCAAGCATTTGAT
*
836453 TATNACATCCAAAAATGATACCTTATTTCTTATAGTTACAATTGCTGCAAATTCTGACAATAACA
1 TAT-ACATCCAAAAATGATACCTTATTTCTTATAGTTACAATTGCTGCAAATTATGACAATAACA
* *
836518 ATGCTCCATACTTTCTTTTTTGTGATGACCTAGAAAACCGCTTCAATTAAGATGACGGAACAAAA
65 ATGCTCCATACTTTCTCTTTTGTGATGACCTAGAAAACCGCTTCAATTAAAATGACGGAACAAAA
*
836583 AATAGTACAACAATGTTGCAAGTATTTGAT
130 AATAGTACAACAATGTTGCAAGCATTTGAT
836613 TAT
1 TAT
836616 CATGATAAAT
Statistics
Matches: 150, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
159 3 0.02
160 147 0.98
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.34
Consensus pattern (159 bp):
TATACATCCAAAAATGATACCTTATTTCTTATAGTTACAATTGCTGCAAATTATGACAATAACAA
TGCTCCATACTTTCTCTTTTGTGATGACCTAGAAAACCGCTTCAATTAAAATGACGGAACAAAAA
ATAGTACAACAATGTTGCAAGCATTTGAT
Found at i:837620 original size:13 final size:13
Alignment explanation
Indices: 837602--837626 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
837592 TATCATGCAC
837602 TGTATGTAAAACA
1 TGTATGTAAAACA
837615 TGTATGTAAAAC
1 TGTATGTAAAAC
837627 CTTCAATAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATGTAAAACA
Found at i:839841 original size:16 final size:16
Alignment explanation
Indices: 839820--839855 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
839810 AAGGAAAAAC
839820 TTCGAGGTTTCAAGAG
1 TTCGAGGTTTCAAGAG
*
839836 TTCGAGTTTTCAAGAG
1 TTCGAGGTTTCAAGAG
839852 TTCG
1 TTCG
839856 GAATTTTCCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.14, G:0.28, T:0.36
Consensus pattern (16 bp):
TTCGAGGTTTCAAGAG
Found at i:840606 original size:16 final size:16
Alignment explanation
Indices: 840568--840617 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
840558 GCAGTTTGAC
* *
840568 TTCGAGGAATCAAGGG
1 TTCGAGAAATCAAGAG
*
840584 TTTCGAGAGATCAAGAG
1 -TTCGAGAAATCAAGAG
840601 TTCGAGAAATCAAGAG
1 TTCGAGAAATCAAGAG
840617 T
1 T
840618 AAATTTGCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 16 0.55
17 13 0.45
ACGTcount: A:0.36, C:0.12, G:0.30, T:0.22
Consensus pattern (16 bp):
TTCGAGAAATCAAGAG
Found at i:840702 original size:15 final size:15
Alignment explanation
Indices: 840665--840714 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
840655 CTAGGCTCAC
*
840665 TTCGAGCGATCAAGAAC
1 TTCGAGCGATC--GAAG
840682 TTCGAGCGATCGAAG
1 TTCGAGCGATCGAAG
*
840697 TTCGAGCCATCGAGAG
1 TTCGAGCGATCGA-AG
840713 TT
1 TT
840715 ACCTGTATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 15 0.50
16 4 0.13
17 11 0.37
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (15 bp):
TTCGAGCGATCGAAG
Found at i:843279 original size:2 final size:2
Alignment explanation
Indices: 843272--843306 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
843262 ATAATTTTGA
*
843272 AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
843307 CTTACTTGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:850956 original size:2 final size:2
Alignment explanation
Indices: 850951--850985 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
850941 GACATGCATG
850951 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
850986 GACCTAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:856695 original size:2 final size:2
Alignment explanation
Indices: 856688--856727 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
856678 GAGGGGGAGG
856688 GA GA GA GA GA GA G- GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
856728 GCATGCATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
GA
Found at i:865294 original size:146 final size:146
Alignment explanation
Indices: 865028--865590 Score: 753
Period size: 146 Copynumber: 3.9 Consensus size: 146
865018 GTCTGTGCAA
*
865028 TCGTGTCCGGTCCATATCTTTC-TAATGAAGAAACATTGGAAGTTCTTACTTCACACAAAGATTG
1 TCGTGTCCGGTCCATATCTTTCTTAACG-AGAAACATTGGAAGTTCTTACTTCACACAAAGATTG
* * *
865092 CTTATGACCTAAGGGTGTGTCATGATCTTGACCCAAGGTCATTTGGGCAAGGTCAAGGTCACTGG
65 CTTATGAACTAAGGGTGTGTCATGACCTTGAACCAAGGTCATTTGGGCAAGGTCAAGGTCACTGG
*
865157 CAGAAAAAATGCAAAAT
130 CAGAAAAAGTGCAAAAT
* * *
865174 TTGTGTCCGGTCCATATCTTTTTTAACGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTAC
1 TCGTGTCCGGTCCATATCTTTCTTAACGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
* ** *
865239 TTATGAACTAAGGGTGTGTCATGACCTTGAACAAAGGTCATTCAGGCAGGGTCAAGGTCACTGGC
66 TTATGAACTAAGGGTGTGTCATGACCTTGAACCAAGGTCATTTGGGCAAGGTCAAGGTCACTGGC
865304 AGAAAAAGTGCAAAAT
131 AGAAAAAGTGCAAAAT
* *
865320 TCGTGCCCGGTCCATATCTTTCTTAACAAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
1 TCGTGTCCGGTCCATATCTTTCTTAACGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
* * * * *
865385 TTATGACCTAAGGATGTGTCATGACCTTGACCCATGGTCATTTGGGTAAGGTCAAGGTCACTGGC
66 TTATGAACTAAGGGTGTGTCATGACCTTGAACCAAGGTCATTTGGGCAAGGTCAAGGTCACTGGC
865450 AG--AAAGTGCAAAAT
131 AGAAAAAGTGCAAAAT
* * * * * * *
865464 TCATGTCCAGTCCATATCTTTCTT-ACAGACAAATATT-GAAGTTCTTAATTCACAAAAAAATAC
1 TCGTGTCCGGTCCATATCTTTCTTAAC-GAGAAACATTGGAAGTTCTTACTTCACACAAAGAT--
* * *
865527 TGCTTAT-AACCTTAGGGTGTGTCATGACCTTGAACCAAGGGTCAATTGAGG-AAGTTCAAGGTC
63 TGCTTATGAA-CTAAGGGTGTGTCATGACCTTGAACCAA-GGTCATTTG-GGCAAGGTCAAGGTC
865590 A
125 A
865591 TTGTTTCAAA
Statistics
Matches: 368, Mismatches: 42, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
143 23 0.06
144 41 0.11
145 31 0.08
146 267 0.73
147 6 0.02
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (146 bp):
TCGTGTCCGGTCCATATCTTTCTTAACGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
TTATGAACTAAGGGTGTGTCATGACCTTGAACCAAGGTCATTTGGGCAAGGTCAAGGTCACTGGC
AGAAAAAGTGCAAAAT
Found at i:892926 original size:31 final size:31
Alignment explanation
Indices: 892832--892926 Score: 154
Period size: 31 Copynumber: 3.1 Consensus size: 31
892822 ATGCGGCGGG
892832 TTGTTCCCAAAGTCAGGGTAAGTCTTCTGTC
1 TTGTTCCCAAAGTCAGGGTAAGTCTTCTGTC
** *
892863 TCATTCCCAAAGTCAGGGTAAGTCATCTGTC
1 TTGTTCCCAAAGTCAGGGTAAGTCTTCTGTC
*
892894 TTGTTCCCAAAGTCAGGGTAAGTCTTGTGTC
1 TTGTTCCCAAAGTCAGGGTAAGTCTTCTGTC
892925 TT
1 TT
892927 CACCGGTCAT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 57 1.00
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (31 bp):
TTGTTCCCAAAGTCAGGGTAAGTCTTCTGTC
Found at i:901497 original size:22 final size:22
Alignment explanation
Indices: 901458--901534 Score: 86
Period size: 22 Copynumber: 3.5 Consensus size: 22
901448 GGTGCTCTGT
* * *
901458 AGGTACTCTTTAGATATACTAA
1 AGGTACACTGTAGGTATACTAA
*
901480 AGGTACACTGTAGGTATACCATA
1 AGGTACACTGTAGGTATACTA-A
901503 A-GTACACTGT-GGATATACTAA
1 AGGTACACTGTAGG-TATACTAA
901524 AGGTACACTGT
1 AGGTACACTGT
901535 TAACACTGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
21 4 0.09
22 41 0.87
23 2 0.04
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (22 bp):
AGGTACACTGTAGGTATACTAA
Found at i:905367 original size:35 final size:35
Alignment explanation
Indices: 905325--905394 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
905315 TGTTTACAAA
905325 TTGATGAGATATTGATCTTTGTAATGACATAGATT
1 TTGATGAGATATTGATCTTTGTAATGACATAGATT
*
905360 TTGATGAGTTATTGATCTTTGTAATGACATAGATT
1 TTGATGAGATATTGATCTTTGTAATGACATAGATT
905395 GTGTTTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.30, C:0.06, G:0.20, T:0.44
Consensus pattern (35 bp):
TTGATGAGATATTGATCTTTGTAATGACATAGATT
Found at i:907618 original size:8 final size:8
Alignment explanation
Indices: 907605--907641 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
907595 TGGTTTCACC
907605 CTGTCCGT
1 CTGTCCGT
907613 CTGTCCGT
1 CTGTCCGT
*
907621 CTGTCTGT
1 CTGTCCGT
907629 CTGTCCGT
1 CTGTCCGT
907637 CTGTC
1 CTGTC
907642 TGTAGACGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.00, C:0.35, G:0.24, T:0.41
Consensus pattern (8 bp):
CTGTCCGT
Found at i:907628 original size:4 final size:4
Alignment explanation
Indices: 907605--907644 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
907595 TGGTTTCACC
* * *
907605 CTGT CCGT CTGT CCGT CTGT CTGT CTGT CCGT CTGT CTGT
1 CTGT CTGT CTGT CTGT CTGT CTGT CTGT CTGT CTGT CTGT
907645 AGACGCAACT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.25, T:0.42
Consensus pattern (4 bp):
CTGT
Found at i:911683 original size:10 final size:10
Alignment explanation
Indices: 911668--911712 Score: 63
Period size: 10 Copynumber: 4.5 Consensus size: 10
911658 GTGTTTGTGA
911668 AGCATTATAC
1 AGCATTATAC
911678 AGCATTATAC
1 AGCATTATAC
* *
911688 AGCATTGTGC
1 AGCATTATAC
*
911698 AGCATTGTAC
1 AGCATTATAC
911708 AGCAT
1 AGCAT
911713 GAACTGAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 32 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (10 bp):
AGCATTATAC
Found at i:924048 original size:2 final size:2
Alignment explanation
Indices: 924041--924108 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
924031 AATCAAAACA
924041 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
924083 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
924109 ATTGTCTTCA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:924551 original size:13 final size:13
Alignment explanation
Indices: 924533--924557 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
924523 GGCTGAAGCT
924533 AGCAGCCACTAAC
1 AGCAGCCACTAAC
924546 AGCAGCCACTAA
1 AGCAGCCACTAA
924558 GCCCGTAGAA
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:0.40, C:0.36, G:0.16, T:0.08
Consensus pattern (13 bp):
AGCAGCCACTAAC
Found at i:927143 original size:326 final size:326
Alignment explanation
Indices: 926533--927269 Score: 1244
Period size: 326 Copynumber: 2.3 Consensus size: 326
926523 NNNNNNNNNN
926533 TTTAAAGATAAGGAAGATAATAGACCACTTTTAACCCCTATATCATTCTGAAATGCTAAAATATG
1 TTTAAAGATAAGGAAGATAATAGACCACTTTTAACCCCTATATCATTCTGAAATGCTAAAATATG
926598 ACAAATTTCGGGTGAGCTAACTGGACCCTTGCAGGGGTCATAGGTGCCCTCTATTGCTTGTTATG
66 ACAAATTTCGGGTGAGCTAACTGGACCCTTGCAGGGGTCATAGGTGCCCTCTATTGCTTGTTATG
926663 AATACCTCCTGAGGCCCTCTACCTAATCCTAGTGTTACCAAGTTCTTGTGGTCAATCTCAAGTGA
131 AATACCTCCTGAGGCCCTCTACCTAATCCTAGTGTTACCAAGTTCTTGTGGTCAATCTCAAGTGA
*
926728 GATATAAAACCCTGAAATGAGCCAGAACCCCTGGGAGCCACTTGGTGGTACCACTACAGCCCAAA
196 GATATAAAACCCTGAAATGAGCCAGAACCCCTAGGAGCCACTTGGTGGTACCACTACAGCCCAAA
* * * * *
926793 TTTGAAACCGGAAAATAGTAGCCCCATATGCCCCCTACACTGCCCTGTTATTCGTTTGATGCACA
261 TTTGAAACCGGAAAATAATAGCCCCATAGGCCCCCTACACTGCCCTGGTATCCGTTTAATGCACA
*
926858 T
326 C
926859 TTTAAAGATAAGGAAGATAATAGACCACTTTTAACCCCTATATCATTCTGAAATGCTAAAATATG
1 TTTAAAGATAAGGAAGATAATAGACCACTTTTAACCCCTATATCATTCTGAAATGCTAAAATATG
926924 ACAAATTTCGGGTGAGCTAACTGGACCCTTGCAGGGGTCATAGGTGCCCTCTATTGCTTGTTATG
66 ACAAATTTCGGGTGAGCTAACTGGACCCTTGCAGGGGTCATAGGTGCCCTCTATTGCTTGTTATG
926989 AATACCTCCTGAGGCCCTCTACCTAATCCTAGTGTTACCAAGTTCTTGTGGTCAATCTCAAGTGA
131 AATACCTCCTGAGGCCCTCTACCTAATCCTAGTGTTACCAAGTTCTTGTGGTCAATCTCAAGTGA
*
927054 GATATAAAACCCTGAAATGAGCCAGAACCCCTAGGAGCCACTTGGTGGTACCCCTACAGCCCAAA
196 GATATAAAACCCTGAAATGAGCCAGAACCCCTAGGAGCCACTTGGTGGTACCACTACAGCCCAAA
* * *
927119 TTTGAGACCGGGAAATAATAGCCCCATAGGTCCCCTACACTGCCCTGGTATCCGTTTAATGCACA
261 TTTGAAACCGGAAAATAATAGCCCCATAGGCCCCCTACACTGCCCTGGTATCCGTTTAATGCACA
927184 C
326 C
* * * * * * * * * *
927185 TTCAAAGATAA-AAGAGATAAT-GGCCTGCCTTTCATCCCTACAGCATTGTGAAATGCTAAAATA
1 TTTAAAGATAAGGA-AGATAATAGACC-ACTTTTAACCCCTATATCATTCTGAAATGCTAAAATA
*
927248 TGACAAAGTTCGGGTGAGCTAA
64 TGACAAATTTCGGGTGAGCTAA
927270 ACCGACCCTT
Statistics
Matches: 387, Mismatches: 22, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
325 4 0.01
326 383 0.99
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (326 bp):
TTTAAAGATAAGGAAGATAATAGACCACTTTTAACCCCTATATCATTCTGAAATGCTAAAATATG
ACAAATTTCGGGTGAGCTAACTGGACCCTTGCAGGGGTCATAGGTGCCCTCTATTGCTTGTTATG
AATACCTCCTGAGGCCCTCTACCTAATCCTAGTGTTACCAAGTTCTTGTGGTCAATCTCAAGTGA
GATATAAAACCCTGAAATGAGCCAGAACCCCTAGGAGCCACTTGGTGGTACCACTACAGCCCAAA
TTTGAAACCGGAAAATAATAGCCCCATAGGCCCCCTACACTGCCCTGGTATCCGTTTAATGCACA
C
Found at i:927861 original size:13 final size:13
Alignment explanation
Indices: 927843--927867 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
927833 TTCTACGGTC
927843 TTAGTGGCTGCTG
1 TTAGTGGCTGCTG
927856 TTAGTGGCTGCT
1 TTAGTGGCTGCT
927868 AGCTTCAGCC
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:0.16, G:0.36, T:0.40
Consensus pattern (13 bp):
TTAGTGGCTGCTG
Found at i:931965 original size:14 final size:14
Alignment explanation
Indices: 931946--931990 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
931936 CCTAGATGAT
931946 AATGGACAGGTAAG
1 AATGGACAGGTAAG
931960 AATGGACAGGTAAG
1 AATGGACAGGTAAG
*
931974 ATAATAGACAGGTAAG
1 --AATGGACAGGTAAG
931990 A
1 A
931991 TTTTCTGACG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 15 0.54
16 13 0.46
ACGTcount: A:0.47, C:0.07, G:0.31, T:0.16
Consensus pattern (14 bp):
AATGGACAGGTAAG
Found at i:931985 original size:16 final size:16
Alignment explanation
Indices: 931943--931991 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
931933 TGACCTAGAT
931943 GATAATGGACAGGTAA
1 GATAATGGACAGGTAA
931959 G--AATGGACAGGTAA
1 GATAATGGACAGGTAA
*
931973 GATAATAGACAGGTAA
1 GATAATGGACAGGTAA
931989 GAT
1 GAT
931992 TTTCTGACGC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 14 0.47
16 16 0.53
ACGTcount: A:0.45, C:0.06, G:0.31, T:0.18
Consensus pattern (16 bp):
GATAATGGACAGGTAA
Found at i:932921 original size:12 final size:12
Alignment explanation
Indices: 932904--932939 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
932894 TGCAAGATTA
932904 TACTCCATATTG
1 TACTCCATATTG
932916 TACTCCATATTG
1 TACTCCATATTG
932928 TACTCCATATTG
1 TACTCCATATTG
932940 AATTTTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.08, T:0.42
Consensus pattern (12 bp):
TACTCCATATTG
Found at i:933114 original size:29 final size:29
Alignment explanation
Indices: 933068--933157 Score: 164
Period size: 29 Copynumber: 3.1 Consensus size: 29
933058 ATACACCGCA
933068 TTGTACTGTACGGAAGAGACCGTCACAAT
1 TTGTACTGTACGGAAGAGACCGTCACAAT
933097 TTGTACTGTAC-GACAGAGACCGTCACAAT
1 TTGTACTGTACGGA-AGAGACCGTCACAAT
933126 TTGTACTGTACGGAAGAGACCGTCACAAT
1 TTGTACTGTACGGAAGAGACCGTCACAAT
933155 TTG
1 TTG
933158 CATCTCCTTG
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
28 2 0.03
29 55 0.93
30 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (29 bp):
TTGTACTGTACGGAAGAGACCGTCACAAT
Found at i:933737 original size:21 final size:21
Alignment explanation
Indices: 933713--933827 Score: 160
Period size: 21 Copynumber: 5.5 Consensus size: 21
933703 ATCTGCCACC
*
933713 ACTTGTCAGATAGTTATGTCG
1 ACTTGTCAGATATTTATGTCG
933734 ACTTGTCAGATGA-TTATGTCG
1 ACTTGTCAGAT-ATTTATGTCG
*
933755 ACTTGTCAGATATTTATGTCA
1 ACTTGTCAGATATTTATGTCG
* *
933776 ACTTGTCAGATCTTTATGTCA
1 ACTTGTCAGATATTTATGTCG
* *
933797 ACTTGTCAGATCTTTATGTTG
1 ACTTGTCAGATATTTATGTCG
933818 ACTTGTCAGA
1 ACTTGTCAGA
933828 AAAAAACCAT
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
20 1 0.01
21 86 0.98
22 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (21 bp):
ACTTGTCAGATATTTATGTCG
Found at i:933937 original size:21 final size:21
Alignment explanation
Indices: 933912--933961 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
933902 TCATCATAAT
*
933912 ATCTGACAAGTCGACATAAAG
1 ATCTGACAAGTCAACATAAAG
* **
933933 ATCTGACAAGTTAACATAATT
1 ATCTGACAAGTCAACATAAAG
933954 ATCTGACA
1 ATCTGACA
933962 GAAAAAATAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (21 bp):
ATCTGACAAGTCAACATAAAG
Found at i:934045 original size:21 final size:21
Alignment explanation
Indices: 934009--934145 Score: 188
Period size: 21 Copynumber: 6.6 Consensus size: 21
933999 CATTCATATT
*
934009 ATTA-GTCGACTGGTCAAATA
1 ATTATGTCGACTTGTCAAATA
* * *
934029 ATGATGTTGACTTGTCAGAT-
1 ATTATGTCGACTTGTCAAATA
* * *
934049 GTTATGTTGTCTTGTCAAATA
1 ATTATGTCGACTTGTCAAATA
*
934070 ATTATGTCGACTTGTCAAATG
1 ATTATGTCGACTTGTCAAATA
934091 ATTATGTCGACTTGTCAAATA
1 ATTATGTCGACTTGTCAAATA
934112 ATTATGTCGACTTGTCAAATA
1 ATTATGTCGACTTGTCAAATA
934133 ATTATGTCGACTT
1 ATTATGTCGACTT
934146 AAAAGATGCT
Statistics
Matches: 102, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
20 19 0.19
21 83 0.81
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.39
Consensus pattern (21 bp):
ATTATGTCGACTTGTCAAATA
Found at i:934138 original size:63 final size:62
Alignment explanation
Indices: 934009--934191 Score: 201
Period size: 63 Copynumber: 2.9 Consensus size: 62
933999 CATTCATATT
* * * * * * *
934009 ATTA-GTCGACTGGTCAAATAATGATGTTGACTTGTCAGATGTTATGTTGTCTTGTCAAATA
1 ATTATGTCGACTTGTCAAATGATAATGTCGACTTGTCAGATATTATGTCGACTTGTCAAATA
* *
934070 ATTATGTCGACTTGTCAAATGATTATGTCGACTTGTCAAATAATTATGTCGACTTGTCAAATA
1 ATTATGTCGACTTGTCAAATGATAATGTCGACTTGTCAGAT-ATTATGTCGACTTGTCAAATA
** *
934133 ATTATGTCGACTT-AAAAGATGCTAATGTCGACTTGTCAGAT-TCCTATGTCGACTTGTCA
1 ATTATGTCGACTTGTCAA-ATGATAATGTCGACTTGTCAGATAT--TATGTCGACTTGTCA
934192 GAAAATATTA
Statistics
Matches: 104, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
61 5 0.05
62 33 0.32
63 66 0.63
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.38
Consensus pattern (62 bp):
ATTATGTCGACTTGTCAAATGATAATGTCGACTTGTCAGATATTATGTCGACTTGTCAAATA
Found at i:934161 original size:42 final size:42
Alignment explanation
Indices: 934024--934188 Score: 136
Period size: 42 Copynumber: 4.0 Consensus size: 42
934014 TCGACTGGTC
* * * * * * **
934024 AAATAATGATGTTGACTTGTCAGAT-GTTATGTTGTCTTGTC
1 AAATAATAATGTCGACTTGTCAAATAATTATGTCGACTTGAA
* * **
934065 AAATAATTATGTCGACTTGTCAAATGATTATGTCGACTTGTC
1 AAATAATAATGTCGACTTGTCAAATAATTATGTCGACTTGAA
*
934107 AAATAATTATGTCGACTTGTCAAATAATTATGTCGACTT-AA
1 AAATAATAATGTCGACTTGTCAAATAATTATGTCGACTTGAA
** * ***
934148 AAGATGCTAATGTCGACTTGTCAGATTCCTATGTCGACTTG
1 AA-ATAATAATGTCGACTTGTCAAATAATTATGTCGACTTG
934189 TCAGAAAATA
Statistics
Matches: 105, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
41 24 0.23
42 81 0.77
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (42 bp):
AAATAATAATGTCGACTTGTCAAATAATTATGTCGACTTGAA
Found at i:934296 original size:21 final size:21
Alignment explanation
Indices: 934270--934361 Score: 141
Period size: 21 Copynumber: 4.4 Consensus size: 21
934260 CGTGGATAAG
*
934270 TGACAAGTCCACATAATTATC
1 TGACAAGTCGACATAATTATC
*
934291 TGACAAGTCGACATAGTTATC
1 TGACAAGTCGACATAATTATC
*
934312 TGACAAGTCGACATCAA-GATC
1 TGACAAGTCGACAT-AATTATC
934333 TGACAAGTCGACATAATTATC
1 TGACAAGTCGACATAATTATC
934354 TGACAAGT
1 TGACAAGT
934362 GGTGGCAGAT
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
20 2 0.03
21 61 0.95
22 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (21 bp):
TGACAAGTCGACATAATTATC
Found at i:934444 original size:21 final size:21
Alignment explanation
Indices: 934420--934513 Score: 73
Period size: 21 Copynumber: 4.5 Consensus size: 21
934410 ATCTGCCACC
934420 ACTTGTCAGATAATTATGTTA
1 ACTTGTCAGATAATTATGTTA
* * * * **
934441 ACTTCTCATATGATAATGTCG
1 ACTTGTCAGATAATTATGTTA
*
934462 ACTTGTCAGATATTTAT-TTCA
1 ACTTGTCAGATAATTATGTT-A
** * *
934483 ACTTGTCAGATCTTTACGTTG
1 ACTTGTCAGATAATTATGTTA
934504 ACTTGTCAGA
1 ACTTGTCAGA
934514 AAATAACCAT
Statistics
Matches: 55, Mismatches: 16, Indels: 4
0.73 0.21 0.05
Matches are distributed among these distances:
20 1 0.02
21 52 0.95
22 2 0.04
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (21 bp):
ACTTGTCAGATAATTATGTTA
Found at i:934628 original size:21 final size:21
Alignment explanation
Indices: 934604--934688 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 21
934594 AATATCATAT
*
934604 AAGTCGACATAAATATCTGAC
1 AAGTCAACATAAATATCTGAC
* * *
934625 AAGTTAACATAATTATCTGTC
1 AAGTCAACATAAATATCTGAC
* ** *
934646 AAGTCGACATAAGGAGCTGAC
1 AAGTCAACATAAATATCTGAC
*
934667 AAGTTAACATAAATATCTGAC
1 AAGTCAACATAAATATCTGAC
934688 A
1 A
934689 GAAAAAATAA
Statistics
Matches: 49, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.26
Consensus pattern (21 bp):
AAGTCAACATAAATATCTGAC
Found at i:934651 original size:42 final size:42
Alignment explanation
Indices: 934604--934685 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
934594 AATATCATAT
* * *
934604 AAGTCGACATAAATATCTGACAAGTTAACATAATTATCTGTC
1 AAGTCGACATAAAGAGCTGACAAGTTAACATAAATATCTGTC
*
934646 AAGTCGACATAAGGAGCTGACAAGTTAACATAAATATCTG
1 AAGTCGACATAAAGAGCTGACAAGTTAACATAAATATCTG
934686 ACAGAAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (42 bp):
AAGTCGACATAAAGAGCTGACAAGTTAACATAAATATCTGTC
Found at i:934769 original size:21 final size:21
Alignment explanation
Indices: 934740--934878 Score: 145
Period size: 21 Copynumber: 6.7 Consensus size: 21
934730 CATATTGTAA
*
934740 GTCGACTTGTCAGATAATGAT
1 GTCGACTTGTCAGATAATTAT
* *
934761 GTTGACTTGTCAGAT-GTTAT
1 GTCGACTTGTCAGATAATTAT
* * *
934781 GTCGTCTTGTCAAAAAATTAT
1 GTCGACTTGTCAGATAATTAT
*
934802 GTCGACTTGTCAAATAATTAT
1 GTCGACTTGTCAGATAATTAT
* *** *
934823 ATCGACTTAAAAGATGATTAT
1 GTCGACTTGTCAGATAATTAT
**
934844 GTCGACTTGTCAGATCCTTAT
1 GTCGACTTGTCAGATAATTAT
934865 GTCGACTTGTCAGA
1 GTCGACTTGTCAGA
934879 AAATATTATT
Statistics
Matches: 95, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
20 14 0.15
21 81 0.85
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (21 bp):
GTCGACTTGTCAGATAATTAT
Found at i:934999 original size:21 final size:21
Alignment explanation
Indices: 934975--935046 Score: 103
Period size: 21 Copynumber: 3.4 Consensus size: 21
934965 ACTAAAAGAA
934975 CTGACAAGT-GAACATAATTAT
1 CTGACAAGTCG-ACATAATTAT
*
934996 CTGACAAGTCGACATTAA-GAT
1 CTGACAAGTCGACA-TAATTAT
935017 CTGACAAGTCGACATAATTAT
1 CTGACAAGTCGACATAATTAT
935038 CTGACAAGT
1 CTGACAAGT
935047 GGTGGCAGAT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
20 3 0.07
21 39 0.85
22 4 0.09
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (21 bp):
CTGACAAGTCGACATAATTAT
Found at i:935021 original size:42 final size:42
Alignment explanation
Indices: 934955--935046 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 42
934945 CATGAATAAG
934955 TGACAAGTCGACTAAAAGAACTGACAAGT-GAACATAATTATC
1 TGACAAGTCGACTAAAAGAACTGACAAGTCG-ACATAATTATC
* *
934997 TGACAAGTCGAC-ATTAAGATCTGACAAGTCGACATAATTATC
1 TGACAAGTCGACTA-AAAGAACTGACAAGTCGACATAATTATC
935039 TGACAAGT
1 TGACAAGT
935047 GGTGGCAGAT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
41 1 0.02
42 44 0.96
43 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.24
Consensus pattern (42 bp):
TGACAAGTCGACTAAAAGAACTGACAAGTCGACATAATTATC
Found at i:939000 original size:2 final size:2
Alignment explanation
Indices: 938993--939032 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
938983 TATAGTTATC
938993 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
939033 GACCAACGGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:955156 original size:32 final size:32
Alignment explanation
Indices: 955115--955176 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
955105 TTGTTGTAGA
955115 CATAAGACTTGTTTGATATATAAAGTGTAATG
1 CATAAGACTTGTTTGATATATAAAGTGTAATG
*
955147 CATAAGACTTGTTTGATATATGAAGTGTAA
1 CATAAGACTTGTTTGATATATAAAGTGTAA
955177 AATCATGCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.37
Consensus pattern (32 bp):
CATAAGACTTGTTTGATATATAAAGTGTAATG
Found at i:955607 original size:2 final size:2
Alignment explanation
Indices: 955600--955654 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
955590 AGCCTTCATT
955600 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
955642 TC TC TC TC TC TC T
1 TC TC TC TC TC TC T
955655 GTAGAAAGAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:957789 original size:7 final size:7
Alignment explanation
Indices: 957779--957803 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
957769 TCTTATTTCA
957779 TTTTATT
1 TTTTATT
957786 TTTTATT
1 TTTTATT
957793 TTTTATT
1 TTTTATT
957800 TTTT
1 TTTT
957804 TGGTTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:968208 original size:59 final size:59
Alignment explanation
Indices: 968119--968294 Score: 258
Period size: 59 Copynumber: 3.1 Consensus size: 59
968109 AGTAAAATAC
* *
968119 TTATTTTTAAGGTCTTCCGTTTCCAACGGAAGACCTTATAGTTTTCGTAC-GATTTCTTA
1 TTATTATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTTTCGTACTG-TTTCTTA
*
968178 TTATTATTAAGGTCTTCCGTTTCCAGCGGAAGACCTTATTGTTTTCGTACTGTTTC---
1 TTATTATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTTTCGTACTGTTTCTTA
*
968234 ---TTATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTTTCGTACTGTTTATTA
1 TTATTATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTTTCGTACTGTTTCTTA
968290 TTATT
1 TTATT
968295 TTTTTTTTCC
Statistics
Matches: 105, Mismatches: 5, Indels: 14
0.85 0.04 0.11
Matches are distributed among these distances:
53 51 0.49
59 53 0.50
60 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.45
Consensus pattern (59 bp):
TTATTATTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTTTCGTACTGTTTCTTA
Found at i:968261 original size:53 final size:53
Alignment explanation
Indices: 968125--968292 Score: 239
Period size: 53 Copynumber: 3.1 Consensus size: 53
968115 ATACTTATTT
*
968125 TTAAGGTCTTCCGTTTCCAACGGAAGACCTTATAGTTTTCGTAC-GATTTCTTATTATTA
1 TTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTTTCGTACTG-TTTC------TTA
*
968184 TTAAGGTCTTCCGTTTCCAGCGGAAGACCTTATTGTTTTCGTACTGTTTCTTA
1 TTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTTTCGTACTGTTTCTTA
*
968237 TTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTTTCGTACTGTTTATTA
1 TTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTTTCGTACTGTTTCTTA
968290 TTA
1 TTA
968293 TTTTTTTTTT
Statistics
Matches: 104, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
53 57 0.55
59 46 0.44
60 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.43
Consensus pattern (53 bp):
TTAAGGTCTTCCGTTTCCAACGGAAGACCTTATTGTTTTCGTACTGTTTCTTA
Found at i:972644 original size:29 final size:29
Alignment explanation
Indices: 972612--972674 Score: 126
Period size: 29 Copynumber: 2.2 Consensus size: 29
972602 AACAATGGCA
972612 CACATGTAGCACAGAACAGAACGATGGTC
1 CACATGTAGCACAGAACAGAACGATGGTC
972641 CACATGTAGCACAGAACAGAACGATGGTC
1 CACATGTAGCACAGAACAGAACGATGGTC
972670 CACAT
1 CACAT
972675 CAAACAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.14
Consensus pattern (29 bp):
CACATGTAGCACAGAACAGAACGATGGTC
Found at i:973680 original size:14 final size:14
Alignment explanation
Indices: 973661--973702 Score: 84
Period size: 14 Copynumber: 3.0 Consensus size: 14
973651 GTAAAAGTTG
973661 CAGTGTTTGATATC
1 CAGTGTTTGATATC
973675 CAGTGTTTGATATC
1 CAGTGTTTGATATC
973689 CAGTGTTTGATATC
1 CAGTGTTTGATATC
973703 TAGAAGGATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.43
Consensus pattern (14 bp):
CAGTGTTTGATATC
Found at i:979874 original size:16 final size:16
Alignment explanation
Indices: 979853--979918 Score: 105
Period size: 16 Copynumber: 4.1 Consensus size: 16
979843 ACCCTTGTGT
979853 GTCTGTCTGTCCGTCC
1 GTCTGTCTGTCCGTCC
* *
979869 GTCTGTCTGTCTGTCT
1 GTCTGTCTGTCCGTCC
*
979885 GTCTGTCTGTCTGTCC
1 GTCTGTCTGTCCGTCC
979901 GTCTGTCTGTCCGTCC
1 GTCTGTCTGTCCGTCC
979917 GT
1 GT
979919 AACAAAAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.00, C:0.32, G:0.26, T:0.42
Consensus pattern (16 bp):
GTCTGTCTGTCCGTCC
Found at i:979918 original size:4 final size:4
Alignment explanation
Indices: 979852--979911 Score: 93
Period size: 4 Copynumber: 15.0 Consensus size: 4
979842 TACCCTTGTG
* *
979852 TGTC TGTC TGTC CGTC CGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC
1 TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC TGTC
*
979900 CGTC TGTC TGTC
1 TGTC TGTC TGTC
979912 CGTCCGTAAC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 52 1.00
ACGTcount: A:0.00, C:0.30, G:0.25, T:0.45
Consensus pattern (4 bp):
TGTC
Found at i:980218 original size:167 final size:167
Alignment explanation
Indices: 979942--981071 Score: 1781
Period size: 167 Copynumber: 6.8 Consensus size: 167
979932 GTCGCATTTA
*
979942 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTGTTTGT-TAAGGCATGCCATA
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTATTTGTAT-AGGCATGCCATA
*
980006 TCGTGGGATATATTTTTGTACCAATCGGACACCAACTTCCTGTTAAATGACGACTTTGCTTATTT
65 TCGTGGGATATATTTTTGTACCAATCGGACGCCAACTTCCTGTTAAATGACGACTTTGCTTATTT
*
980071 TTTAAGGAAAATTTTCAAACAAATTTTCGTCAAAGAAT
130 TTTAAGCAAAATTTTCAAACAAATTTTCGTCAAAGAAT
* * *
980109 TCTCAGCAACTGTTTATAGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGGCATGCCATAT
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTATTTGTATAGGCATGCCATAT
* *
980174 GGTGGGATATATTTTTGTACCAATCGGACGCCAACTTCCTGTTAAATGATGACTTTGCTTATTTT
66 CGTGGGATATATTTTTGTACCAATCGGACGCCAACTTCCTGTTAAATGACGACTTTGCTTATTTT
*
980239 TTAACCAAAATTTTCAAACAAATTTTCGTCAAAGAAT
131 TTAAGCAAAATTTTCAAACAAATTTTCGTCAAAGAAT
* *
980276 TCTCAGCAACTGTTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGGCATGCCATAT
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTATTTGTATAGGCATGCCATAT
* * *
980341 GGTGGGATATATTTTTGTACCAATCAGACGTCAACTTCCTGTTAAATGACGACTTTGCTTATTTT
66 CGTGGGATATATTTTTGTACCAATCGGACGCCAACTTCCTGTTAAATGACGACTTTGCTTATTTT
* *
980406 TTAAGGAAAATTTTCAAACAAATTTTCGTCAAAGATT
131 TTAAGCAAAATTTTCAAACAAATTTTCGTCAAAGAAT
* * *
980443 TCTCAGCAAATATTTATTGCAGATGCTTGAAATTTTAACACACTATTTGTATAGGCATGCCATAT
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTATTTGTATAGGCATGCCATAT
* *
980508 CGTGGGATATATTTTTGTACCAATCGG-CGTCAACTTCCTGTTAAATGACGACTTTGTTTA-TTT
66 CGTGGGATATATTTTTGTACCAATCGGACGCCAACTTCCTGTTAAATGACGACTTTGCTTATTTT
* *
980571 TT-AGCCAAAATTTTCAAACAAATTTCCGTCAAAGATT
131 TTAAG-CAAAATTTTCAAACAAATTTTCGTCAAAGAAT
* * *
980608 TCTCAGCAACCATTTATCACAGATGCTTGAAATTTTAACACACTATTTGTATAGGCATGCCATAT
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTATTTGTATAGGCATGCCATAT
* * * * *
980673 TGTGGGATATATTTTTG-ACTCAATCGGACGTCAAACTTCCTGTGAAATGATGACTTTGTTTA-T
66 CGTGGGATATATTTTTGTAC-CAATCGGACG-CCAACTTCCTGTTAAATGACGACTTTGCTTATT
* *
980736 TTTT-AGCCAAAATTTTCAAACAAATTTCCGTCAAAGATT
129 TTTTAAG-CAAAATTTTCAAACAAATTTTCGTCAAAGAAT
* * *
980775 TCTCAGCAGCTATTTATCGCAGATGCTTGAAATTTCAACACAGTGTTTGT-TAAGGCATGCCATA
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTATTTGTAT-AGGCATGCCATA
*
980839 TCGTGGGATATATTTTTGTACCAATCGGATGCCAACTTCCTGTTAAATGACGACTTTGCTTATTT
65 TCGTGGGATATATTTTTGTACCAATCGGACGCCAACTTCCTGTTAAATGACGACTTTGCTTATTT
*
980904 TTTAACCAAAATTTTCAAACAAATTTTCGTCAAAGAAT
130 TTTAAGCAAAATTTTCAAACAAATTTTCGTCAAAGAAT
* *
980942 TCTCAGCAACTGTTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGGCATGCCATAT
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTATTTGTATAGGCATGCCATAT
*
981007 CGAGGGATATATTTTTGTACCAATCGGACGCCAACTTCCTGTTAAATGACGACTTTGCTTATTTT
66 CGTGGGATATATTTTTGTACCAATCGGACGCCAACTTCCTGTTAAATGACGACTTTGCTTATTTT
981072 GCATATTCAC
Statistics
Matches: 896, Mismatches: 57, Indels: 20
0.92 0.06 0.02
Matches are distributed among these distances:
164 4 0.00
165 119 0.13
166 62 0.07
167 706 0.79
168 5 0.01
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.37
Consensus pattern (167 bp):
TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTATTTGTATAGGCATGCCATAT
CGTGGGATATATTTTTGTACCAATCGGACGCCAACTTCCTGTTAAATGACGACTTTGCTTATTTT
TTAAGCAAAATTTTCAAACAAATTTTCGTCAAAGAAT
Found at i:980977 original size:499 final size:500
Alignment explanation
Indices: 979942--981071 Score: 1824
Period size: 499 Copynumber: 2.3 Consensus size: 500
979932 GTCGCATTTA
*
979942 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTGTTTGT-TAAGGCATGCCATA
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTATTTGTAT-AGGCATGCCATA
*
980006 TCGTGGGATATATTTTTGTACCAATCGGACACCAACTTCCTGTTAAATGACGACTTTGCTTATTT
65 TCGTGGGATATATTTTTGTACCAATCGGACGCCAACTTCCTGTTAAATGACGACTTTGCTTA-TT
* * **
980071 TTTAAGGAAAATTTTCAAACAAATTTTCGTCAAAGAATTCTCAGCAACTGTTTATAGCAGATGCT
129 TTTAAGCAAAATTTTCAAACAAATTTCCGTCAAAGAATTCTCAGCAACCATTTATAGCAGATGCT
* *
980136 TGAAATTTTTACACAGTATTTGTATAGGCATGCCATATGGTGGGATATATTTTTGTACCAATCGG
194 TGAAATTTTAACACACTATTTGTATAGGCATGCCATATGGTGGGATATATTTTTGTACCAATCGG
* * *
980201 ACGCCAACTTCCTGTTAAATGATGACTTTGCTTATTTTTTAACCAAAATTTTCAAACAAATTTTC
259 ACGCAAACTTCCTGTGAAATGATGACTTTGCTTATTTTTTAACCAAAATTTTCAAACAAATTTCC
* **
980266 GTCAAAGAATTCTCAGCAACTGTTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGG
324 GTCAAAGAATTCTCAGCAACTATTTATCGCAGATGCTTGAAATTTCAACACAGTATTTGTATAGG
* *
980331 CATGCCATATGGTGGGATATATTTTTGTACCAATCAGACGTCAACTTCCTGTTAAATGACGACTT
389 CATGCCATATCGTGGGATATATTTTTGTACCAATCAGACGCCAACTTCCTGTTAAATGACGACTT
** *
980396 TGCTTATTTTTTAAGGAAAATTTTCAAACAAATTTTCGTCAAAGATT
454 TGCTTATTTTTTAACCAAAATTTTCAAACAAATTTTCGTCAAAGAAT
* * *
980443 TCTCAGCAAATATTTATTGCAGATGCTTGAAATTTTAACACACTATTTGTATAGGCATGCCATAT
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTATTTGTATAGGCATGCCATAT
* *
980508 CGTGGGATATATTTTTGTACCAATCGG-CGTCAACTTCCTGTTAAATGACGACTTTGTTTATTTT
66 CGTGGGATATATTTTTGTACCAATCGGACGCCAACTTCCTGTTAAATGACGACTTTGCTTATTTT
*
980572 T-AGCCAAAATTTTCAAACAAATTTCCGTCAAAGATTTCTCAGCAACCATTTATCA-CAGATGCT
131 TAAG-CAAAATTTTCAAACAAATTTCCGTCAAAGAATTCTCAGCAACCATTTAT-AGCAGATGCT
*
980635 TGAAATTTTAACACACTATTTGTATAGGCATGCCATATTGTGGGATATATTTTTG-ACTCAATCG
194 TGAAATTTTAACACACTATTTGTATAGGCATGCCATATGGTGGGATATATTTTTGTAC-CAATCG
* *
980699 GACGTCAAACTTCCTGTGAAATGATGACTTTGTTTA-TTTTTAGCCAAAATTTTCAAACAAATTT
258 GACG-CAAACTTCCTGTGAAATGATGACTTTGCTTATTTTTTAACCAAAATTTTCAAACAAATTT
* * *
980763 CCGTCAAAGATTTCTCAGCAGCTATTTATCGCAGATGCTTGAAATTTCAACACAGTGTTTGT-TA
322 CCGTCAAAGAATTCTCAGCAACTATTTATCGCAGATGCTTGAAATTTCAACACAGTATTTGTAT-
* *
980827 AGGCATGCCATATCGTGGGATATATTTTTGTACCAATCGGATGCCAACTTCCTGTTAAATGACGA
386 AGGCATGCCATATCGTGGGATATATTTTTGTACCAATCAGACGCCAACTTCCTGTTAAATGACGA
980892 CTTTGCTTATTTTTTAACCAAAATTTTCAAACAAATTTTCGTCAAAGAAT
451 CTTTGCTTATTTTTTAACCAAAATTTTCAAACAAATTTTCGTCAAAGAAT
* *
980942 TCTCAGCAACTGTTTATCGCAGATGCTTGAAATTTTTACACAGTATTTGTATAGGCATGCCATAT
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTATTTGTATAGGCATGCCATAT
*
981007 CGAGGGATATATTTTTGTACCAATCGGACGCCAACTTCCTGTTAAATGACGACTTTGCTTATTTT
66 CGTGGGATATATTTTTGTACCAATCGGACGCCAACTTCCTGTTAAATGACGACTTTGCTTATTTT
981072 GCATATTCAC
Statistics
Matches: 581, Mismatches: 41, Indels: 15
0.91 0.06 0.02
Matches are distributed among these distances:
498 5 0.01
499 395 0.68
500 94 0.16
501 86 0.15
502 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.37
Consensus pattern (500 bp):
TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTAACACAGTATTTGTATAGGCATGCCATAT
CGTGGGATATATTTTTGTACCAATCGGACGCCAACTTCCTGTTAAATGACGACTTTGCTTATTTT
TAAGCAAAATTTTCAAACAAATTTCCGTCAAAGAATTCTCAGCAACCATTTATAGCAGATGCTTG
AAATTTTAACACACTATTTGTATAGGCATGCCATATGGTGGGATATATTTTTGTACCAATCGGAC
GCAAACTTCCTGTGAAATGATGACTTTGCTTATTTTTTAACCAAAATTTTCAAACAAATTTCCGT
CAAAGAATTCTCAGCAACTATTTATCGCAGATGCTTGAAATTTCAACACAGTATTTGTATAGGCA
TGCCATATCGTGGGATATATTTTTGTACCAATCAGACGCCAACTTCCTGTTAAATGACGACTTTG
CTTATTTTTTAACCAAAATTTTCAAACAAATTTTCGTCAAAGAAT
Found at i:982580 original size:18 final size:18
Alignment explanation
Indices: 982557--982594 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
982547 TAAATGCATT
*
982557 TGTTAAACATAATAACAA
1 TGTTAAACACAATAACAA
*
982575 TGTTAAACACATTAACAA
1 TGTTAAACACAATAACAA
982593 TG
1 TG
982595 GTTCAAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.29
Consensus pattern (18 bp):
TGTTAAACACAATAACAA
Found at i:985703 original size:3 final size:3
Alignment explanation
Indices: 985695--985738 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
985685 GAACGTCCGC
* * *
985695 CAT CAT CAT CAT CAT CAT CGT CAT CTT CAT CAA CA- CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
985739 TTTCCTATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.32, C:0.34, G:0.02, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:987034 original size:27 final size:27
Alignment explanation
Indices: 986985--987037 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
986975 TCACCTCAAT
*
986985 TATACCATAGCGGACAGTTCTTACAAG
1 TATACCATAGCGGACAGTGCTTACAAG
* **
987012 TATACTATAGCGGTTAGTGCTTACAA
1 TATACCATAGCGGACAGTGCTTACAA
987038 TATGTCTTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (27 bp):
TATACCATAGCGGACAGTGCTTACAAG
Found at i:991431 original size:35 final size:35
Alignment explanation
Indices: 991385--991457 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
991375 TTCAGATCTG
991385 GTAAGGAAGGGTCTGTCTGAACCCCAGTGGTACGT
1 GTAAGGAAGGGTCTGTCTGAACCCCAGTGGTACGT
991420 GTAAGGAAGGGTCTGTCTGAACCCCAGTGGTACGT
1 GTAAGGAAGGGTCTGTCTGAACCCCAGTGGTACGT
991455 GTA
1 GTA
991458 TTGTTCAGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.23
Consensus pattern (35 bp):
GTAAGGAAGGGTCTGTCTGAACCCCAGTGGTACGT
Found at i:991447 original size:86 final size:86
Alignment explanation
Indices: 991338--991508 Score: 333
Period size: 86 Copynumber: 2.0 Consensus size: 86
991328 GATCTGGTAT
991338 GGAAGGGTCCGTCTGAACCCCAGTGGTACGTGTATTGTTCAGATCTGGTAAGGAAGGGTCTGTCT
1 GGAAGGGTCCGTCTGAACCCCAGTGGTACGTGTATTGTTCAGATCTGGTAAGGAAGGGTCTGTCT
991403 GAACCCCAGTGGTACGTGTAA
66 GAACCCCAGTGGTACGTGTAA
*
991424 GGAAGGGTCTGTCTGAACCCCAGTGGTACGTGTATTGTTCAGATCTGGTAAGGAAGGGTCTGTCT
1 GGAAGGGTCCGTCTGAACCCCAGTGGTACGTGTATTGTTCAGATCTGGTAAGGAAGGGTCTGTCT
991489 GAACCCCAGTGGTACGTGTA
66 GAACCCCAGTGGTACGTGTA
991509 TTGTTCAAAT
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 84 1.00
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.26
Consensus pattern (86 bp):
GGAAGGGTCCGTCTGAACCCCAGTGGTACGTGTATTGTTCAGATCTGGTAAGGAAGGGTCTGTCT
GAACCCCAGTGGTACGTGTAA
Found at i:996734 original size:16 final size:16
Alignment explanation
Indices: 996705--996737 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
996695 GCTCTGACCT
996705 TGATTGAATTAATAAA
1 TGATTGAATTAATAAA
996721 TGATT-AATTAAATAAA
1 TGATTGAATT-AATAAA
996737 T
1 T
996738 CGTTTCTGCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (16 bp):
TGATTGAATTAATAAA
Found at i:998030 original size:7 final size:7
Alignment explanation
Indices: 998018--998084 Score: 89
Period size: 7 Copynumber: 9.6 Consensus size: 7
998008 GAGAAGGATC
998018 ATTCGAG
1 ATTCGAG
998025 ATTCGAG
1 ATTCGAG
*
998032 ATTCGAA
1 ATTCGAG
*
998039 ATACGAG
1 ATTCGAG
*
998046 ATTCGAA
1 ATTCGAG
*
998053 ATACGAG
1 ATTCGAG
998060 ATTCGAG
1 ATTCGAG
*
998067 ATTCGAA
1 ATTCGAG
998074 ATTCGAG
1 ATTCGAG
998081 ATTC
1 ATTC
998085 AATATCTAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 50 1.00
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (7 bp):
ATTCGAG
Found at i:1000489 original size:2 final size:2
Alignment explanation
Indices: 1000482--1000533 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
1000472 GCTAGGTGAT
1000482 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1000524 GA GA GA GA GA
1 GA GA GA GA GA
1000534 NNNNNNNNNN
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1001358 original size:7 final size:7
Alignment explanation
Indices: 1001343--1001409 Score: 89
Period size: 7 Copynumber: 9.6 Consensus size: 7
1001333 TTTAGATATT
1001343 GAATCTC
1 GAATCTC
*
1001350 GAATTTC
1 GAATCTC
1001357 GAATCTC
1 GAATCTC
1001364 GAATCTC
1 GAATCTC
* *
1001371 GTATTTC
1 GAATCTC
1001378 GAATCTC
1 GAATCTC
* *
1001385 GTATTTC
1 GAATCTC
1001392 GAATCTC
1 GAATCTC
1001399 GAATCTC
1 GAATCTC
1001406 GAAT
1 GAAT
1001410 GATCCTTCTC
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 50 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (7 bp):
GAATCTC
Found at i:1001368 original size:21 final size:21
Alignment explanation
Indices: 1001343--1001409 Score: 98
Period size: 21 Copynumber: 3.2 Consensus size: 21
1001333 TTTAGATATT
1001343 GAATCTCGAATTTCGAATCTC
1 GAATCTCGAATTTCGAATCTC
*
1001364 GAATCTCGTATTTCGAATCTC
1 GAATCTCGAATTTCGAATCTC
* * *
1001385 GTATTTCGAATCTCGAATCTC
1 GAATCTCGAATTTCGAATCTC
1001406 GAAT
1 GAAT
1001410 GATCCTTCTC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (21 bp):
GAATCTCGAATTTCGAATCTC
Found at i:1008934 original size:180 final size:180
Alignment explanation
Indices: 1008632--1009133 Score: 925
Period size: 180 Copynumber: 2.8 Consensus size: 180
1008622 NNNNNNNNNN
1008632 TAGGAAGTTGTTCTTTTGCAGATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTT
1 TAGGAAGTTGTTCTTTTGCAGATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTT
*
1008697 GATTTCCGATAATTTATCAAAAAAATACCAGGTTTTGAACTTAGTCATTTTTTGGCAAAATATTG
66 GATTTCCGATAATTTATCAAAAAAATACCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTG
*
1008762 CATATAGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTTTCAAGA
131 CATATAGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGA
1008812 TAGGAAGTTGTTCTTTTGCAGATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTT
1 TAGGAAGTTGTTCTTTTGCAGATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTT
*
1008877 GATTTCCGATAATTTAT-AAAAATAATACCAGCTTTTGAACTTAGTCTTTTTTTGGCAAAATATT
66 GATTTCCGATAATTTATCAAAAA-AATACCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATT
1008941 GCATATAGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGA
130 GCATATAGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGA
1008992 TAGGAAGTTGTTCTTTTGCAGATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTT
1 TAGGAAGTTGTTCTTTTGCAGATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTT
* * *
1009057 GATTTCCGATAATTTATGAAAAAAATACCAGCTTTTGAACATAGTCATTTTTTGGCAAAATGTTG
66 GATTTCCGATAATTTATCAAAAAAATACCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTG
*
1009122 CATACAGGGTAC
131 CATATAGGGTAC
1009134 TCCATTTCAC
Statistics
Matches: 313, Mismatches: 7, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
179 5 0.02
180 303 0.97
181 5 0.02
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (180 bp):
TAGGAAGTTGTTCTTTTGCAGATCAATTGTACATATATCAGAGGTGTGCATATTGCTAGGATTTT
GATTTCCGATAATTTATCAAAAAAATACCAGCTTTTGAACTTAGTCATTTTTTGGCAAAATATTG
CATATAGGGTACCCTCATTGTACGGATAACTCCTCCTACAGTTCTCAAGA
Found at i:1027635 original size:16 final size:16
Alignment explanation
Indices: 1027614--1027644 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1027604 GTAATAAACT
1027614 CTCTCTCTCTCTCAAA
1 CTCTCTCTCTCTCAAA
*
1027630 CTCTCTCTCTTTCAA
1 CTCTCTCTCTCTCAA
1027645 TTTGATAAGT
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:0.16, C:0.42, G:0.00, T:0.42
Consensus pattern (16 bp):
CTCTCTCTCTCTCAAA
Found at i:1044319 original size:19 final size:19
Alignment explanation
Indices: 1044295--1044335 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
1044285 TAAGCTAAAC
**
1044295 ATTATAAACGGGATAATGA
1 ATTATAAACCAGATAATGA
1044314 ATTATAAACCAGATAATGA
1 ATTATAAACCAGATAATGA
1044333 ATT
1 ATT
1044336 GGCAGATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.07, G:0.15, T:0.29
Consensus pattern (19 bp):
ATTATAAACCAGATAATGA
Found at i:1056280 original size:75 final size:75
Alignment explanation
Indices: 1055934--1056251 Score: 609
Period size: 75 Copynumber: 4.2 Consensus size: 75
1055924 GAGAGTAACG
* * *
1055934 TCCAGGTGTGTCTGGACACCATTAGGGAGGTGAGTTCATTGTTACAGGTGTCAGTACTAAGGTAT
1 TCCAGGTGTGTCTGGACACCATTAGGGAGGTGAGTTTATTATTACAGGTGTCAGCACTAAGGTAT
1055999 AAAGGTAATA
66 AAAGGTAATA
1056009 TCCAGGTGTGTCTGGACACCATTAGGGAGGTGAGTTTATTATTACAGGTGTCAGCACTAAGGTAT
1 TCCAGGTGTGTCTGGACACCATTAGGGAGGTGAGTTTATTATTACAGGTGTCAGCACTAAGGTAT
1056074 AAAGGTAATA
66 AAAGGTAATA
1056084 TCCAGGTGTGTCTGGACACCATTAGGGAGGTGAGTTTATTATTACAGGTGTCAGCACTAAGGTAT
1 TCCAGGTGTGTCTGGACACCATTAGGGAGGTGAGTTTATTATTACAGGTGTCAGCACTAAGGTAT
1056149 AAAGGTAATA
66 AAAGGTAATA
1056159 TCCAGGTGTGTCTGGACACCATTAGGGAGGTGAGTTTATTATTACAGGTGTCAGCACTAAGGTAT
1 TCCAGGTGTGTCTGGACACCATTAGGGAGGTGAGTTTATTATTACAGGTGTCAGCACTAAGGTAT
1056224 AAAGGTAATA
66 AAAGGTAATA
1056234 TCCAGGTGTGTCTGGACA
1 TCCAGGTGTGTCTGGACA
1056252 TCGTAAGGGA
Statistics
Matches: 240, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 240 1.00
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (75 bp):
TCCAGGTGTGTCTGGACACCATTAGGGAGGTGAGTTTATTATTACAGGTGTCAGCACTAAGGTAT
AAAGGTAATA
Found at i:1064545 original size:13 final size:13
Alignment explanation
Indices: 1064527--1064551 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1064517 AAAAATAGTG
1064527 TCTGTGCATACAT
1 TCTGTGCATACAT
1064540 TCTGTGCATACA
1 TCTGTGCATACA
1064552 AGTACAAATT
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:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (13 bp):
TCTGTGCATACAT
Found at i:1065960 original size:15 final size:16
Alignment explanation
Indices: 1065930--1065978 Score: 55
Period size: 17 Copynumber: 3.1 Consensus size: 16
1065920 ACTACAGCTT
* *
1065930 ACTCCACTTATATTGA
1 ACTCCGCTTATTTTGA
1065946 ACT-CGCTTATTTTGAA
1 ACTCCGCTTATTTTG-A
*
1065962 ATTCCGCTTATTTTGA
1 ACTCCGCTTATTTTGA
1065978 A
1 A
1065979 ATAGGAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 9 0.32
16 8 0.29
17 11 0.39
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (16 bp):
ACTCCGCTTATTTTGA
Found at i:1067014 original size:30 final size:30
Alignment explanation
Indices: 1066978--1067096 Score: 193
Period size: 30 Copynumber: 4.0 Consensus size: 30
1066968 CTTTCCCAGA
1066978 TTCCTTACCTGGCCAGCACCAGCCCTCGTT
1 TTCCTTACCTGGCCAGCACCAGCCCTCGTT
*
1067008 TTCCTTACCTGGCCAGCACCAGCCCCCGTT
1 TTCCTTACCTGGCCAGCACCAGCCCTCGTT
* * *
1067038 TTCCTTACCTGGCCAGCACCACCCCTCATA
1 TTCCTTACCTGGCCAGCACCAGCCCTCGTT
*
1067068 TTGCTTACCTGGCCAGCACCAGCCCTCGT
1 TTCCTTACCTGGCCAGCACCAGCCCTCGT
1067097 ATTCTTCCCC
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 81 1.00
ACGTcount: A:0.15, C:0.45, G:0.16, T:0.24
Consensus pattern (30 bp):
TTCCTTACCTGGCCAGCACCAGCCCTCGTT
Found at i:1069866 original size:15 final size:15
Alignment explanation
Indices: 1069846--1069877 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1069836 CATTGTCTGG
*
1069846 CTTCTTCTCTTCTTC
1 CTTCTTCTCTCCTTC
1069861 CTTCTTCTCTCCTTC
1 CTTCTTCTCTCCTTC
1069876 CT
1 CT
1069878 CCTCCTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (15 bp):
CTTCTTCTCTCCTTC
Found at i:1081654 original size:16 final size:16
Alignment explanation
Indices: 1081633--1082110 Score: 381
Period size: 16 Copynumber: 29.6 Consensus size: 16
1081623 GATTGGATGA
*
1081633 AGTGTGGTTTTGGTGG
1 AGTGTGGTTTAGGTGG
*
1081649 ACTGTGGTTTAGGTGG
1 AGTGTGGTTTAGGTGG
** *
1081665 AGTGCAGTTT-GGATGT
1 AGTGTGGTTTAGG-TGG
1081681 AGTGTGGTTTAGGTGG
1 AGTGTGGTTTAGGTGG
** *
1081697 AGTGCAGTTTGGGT-G
1 AGTGTGGTTTAGGTGG
* *
1081712 AGTGTGGATTGGGTGG
1 AGTGTGGTTTAGGTGG
* *
1081728 AGTGTTGATTAGGTGG
1 AGTGTGGTTTAGGTGG
*
1081744 AGTGTGGTTTGGGTGG
1 AGTGTGGTTTAGGTGG
* *
1081760 AGTGTGGATTAGGAGG
1 AGTGTGGTTTAGGTGG
*
1081776 AGTGTGGTTTGGGTGG
1 AGTGTGGTTTAGGTGG
* *
1081792 AGTGTTGATTAGGTGG
1 AGTGTGGTTTAGGTGG
*
1081808 AGTGTGGTTTAGGTGA
1 AGTGTGGTTTAGGTGG
* *
1081824 AGTGTTGATTAGGAGGAGGGTGG
1 AGTG-TGGTT-----TA-GGTGG
*
1081847 AGTGTGGATTAGGTGG
1 AGTGTGGTTTAGGTGG
* *
1081863 AGTGTGATTTGGGTGG
1 AGTGTGGTTTAGGTGG
* *
1081879 AGTGTGGATTAGGAGG
1 AGTGTGGTTTAGGTGG
*
1081895 AGTGTGGTTTGGGTGG
1 AGTGTGGTTTAGGTGG
* *
1081911 -GTGTTGATTAGGTGG
1 AGTGTGGTTTAGGTGG
** *
1081926 AGTGCAGTTT-GGATGT
1 AGTGTGGTTTAGG-TGG
1081942 AGTGTGGTTTAGGTGG
1 AGTGTGGTTTAGGTGG
** *
1081958 AGTGCAGTTTGGGT-G
1 AGTGTGGTTTAGGTGG
* *
1081973 AGTGTGGATTGGGTGG
1 AGTGTGGTTTAGGTGG
* *
1081989 AGTGTGGATTAGGAGG
1 AGTGTGGTTTAGGTGG
* *
1082005 AGTGTGGATTAGGAGG
1 AGTGTGGTTTAGGTGG
*
1082021 AGTGTGGTTTGGGTGG
1 AGTGTGGTTTAGGTGG
* *
1082037 AGTGTGGATTAGGAGG
1 AGTGTGGTTTAGGTGG
* *
1082053 AGTGTGGATTGGGTGG
1 AGTGTGGTTTAGGTGG
* *
1082069 AGTGTGGATTAGGAGG
1 AGTGTGGTTTAGGTGG
* * *
1082085 AGTGTTGATTGGGTGG
1 AGTGTGGTTTAGGTGG
1082101 AGTGTGGTTT
1 AGTGTGGTTT
1082111 GAATGGAGTG
Statistics
Matches: 367, Mismatches: 81, Indels: 28
0.77 0.17 0.06
Matches are distributed among these distances:
15 40 0.11
16 306 0.83
17 9 0.02
22 4 0.01
23 8 0.02
ACGTcount: A:0.16, C:0.01, G:0.49, T:0.34
Consensus pattern (16 bp):
AGTGTGGTTTAGGTGG
Found at i:1081687 original size:32 final size:32
Alignment explanation
Indices: 1081616--1082107 Score: 443
Period size: 32 Copynumber: 15.2 Consensus size: 32
1081606 AATTTTGATT
* *
1081616 GAGTGTGGATT-GGATGAAGTGTGGTTTTGGTG
1 GAGTGTGGATTAGG-TGGAGTGTGGTTTGGGTG
* * ** *
1081648 GACTGTGGTTTAGGTGGAGTGCAGTTTGGATG
1 GAGTGTGGATTAGGTGGAGTGTGGTTTGGGTG
* * **
1081680 TAGTGTGGTTTAGGTGGAGTGCAGTTTGGGT-
1 GAGTGTGGATTAGGTGGAGTGTGGTTTGGGTG
* * * *
1081711 GAGTGTGGATTGGGTGGAGTGTTGATTAGGTG
1 GAGTGTGGATTAGGTGGAGTGTGGTTTGGGTG
* * * * *
1081743 GAGTGTGGTTTGGGTGGAGTGTGGATTAGGAG
1 GAGTGTGGATTAGGTGGAGTGTGGTTTGGGTG
* * * * *
1081775 GAGTGTGGTTTGGGTGGAGTGTTGATTAGGTG
1 GAGTGTGGATTAGGTGGAGTGTGGTTTGGGTG
* * * *
1081807 GAGTGTGGTTTAGGTGAAGTGTTGATTAGGAGGAGGGTG
1 GAGTGTGGATTAGGTGGAGTG-TGGTT------TGGGTG
*
1081846 GAGTGTGGATTAGGTGGAGTGTGATTTGGGTG
1 GAGTGTGGATTAGGTGGAGTGTGGTTTGGGTG
*
1081878 GAGTGTGGATTAGGAGGAGTGTGGTTTGGGTG
1 GAGTGTGGATTAGGTGGAGTGTGGTTTGGGTG
* ** *
1081910 G-GTGTTGATTAGGTGGAGTGCAGTTTGGATG
1 GAGTGTGGATTAGGTGGAGTGTGGTTTGGGTG
* * **
1081941 TAGTGTGGTTTAGGTGGAGTGCAGTTTGGGT-
1 GAGTGTGGATTAGGTGGAGTGTGGTTTGGGTG
* * * *
1081972 GAGTGTGGATTGGGTGGAGTGTGGATTAGGAG
1 GAGTGTGGATTAGGTGGAGTGTGGTTTGGGTG
*
1082004 GAGTGTGGATTAGGAGGAGTGTGGTTTGGGTG
1 GAGTGTGGATTAGGTGGAGTGTGGTTTGGGTG
* *
1082036 GAGTGTGGATTAGGAGGAGTGTGGATTGGGTG
1 GAGTGTGGATTAGGTGGAGTGTGGTTTGGGTG
* * *
1082068 GAGTGTGGATTAGGAGGAGTGTTGATTGGGTG
1 GAGTGTGGATTAGGTGGAGTGTGGTTTGGGTG
1082100 GAGTGTGG
1 GAGTGTGG
1082108 TTTGAATGGA
Statistics
Matches: 391, Mismatches: 58, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
31 72 0.18
32 287 0.73
33 4 0.01
38 5 0.01
39 23 0.06
ACGTcount: A:0.16, C:0.01, G:0.50, T:0.33
Consensus pattern (32 bp):
GAGTGTGGATTAGGTGGAGTGTGGTTTGGGTG
Found at i:1081850 original size:23 final size:23
Alignment explanation
Indices: 1081819--1081869 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
1081809 GTGTGGTTTA
*
1081819 GGTGAAGTGTTGATTAGGAGGAG
1 GGTGAAGTGTGGATTAGGAGGAG
* *
1081842 GGTGGAGTGTGGATTAGGTGGAG
1 GGTGAAGTGTGGATTAGGAGGAG
*
1081865 TGTGA
1 GGTGA
1081870 TTTGGGTGGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.51, T:0.27
Consensus pattern (23 bp):
GGTGAAGTGTGGATTAGGAGGAG
Found at i:1081883 original size:55 final size:55
Alignment explanation
Indices: 1081786--1081901 Score: 178
Period size: 55 Copynumber: 2.1 Consensus size: 55
1081776 AGTGTGGTTT
* * *
1081786 GGGTGGAGTGTTGATTAGGTGGAGTGTGGTTTAGGTGAAGTGTTGATTAGGAGGA
1 GGGTGGAGTGTGGATTAGGTGGAGTGTGATTTAGGTGAAGTGTGGATTAGGAGGA
* *
1081841 GGGTGGAGTGTGGATTAGGTGGAGTGTGATTTGGGTGGAGTGTGGATTAGGAGGA
1 GGGTGGAGTGTGGATTAGGTGGAGTGTGATTTAGGTGAAGTGTGGATTAGGAGGA
*
1081896 GTGTGG
1 GGGTGG
1081902 TTTGGGTGGG
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.18, C:0.00, G:0.51, T:0.31
Consensus pattern (55 bp):
GGGTGGAGTGTGGATTAGGTGGAGTGTGATTTAGGTGAAGTGTGGATTAGGAGGA
Found at i:1082471 original size:4 final size:4
Alignment explanation
Indices: 1082462--1082542 Score: 162
Period size: 4 Copynumber: 20.2 Consensus size: 4
1082452 ATGTATAAGA
1082462 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT
1082510 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT A
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT A
1082543 ATGATTAGTT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 77 1.00
ACGTcount: A:0.51, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
AGAT
Found at i:1084948 original size:2 final size:2
Alignment explanation
Indices: 1084941--1084981 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
1084931 TCCCTATTAG
*
1084941 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TT TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1084982 GACGGATCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:1088139 original size:2 final size:2
Alignment explanation
Indices: 1088134--1088172 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1088124 TTGTGTGCGT
1088134 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1088173 TGCATGGTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1089020 original size:2 final size:2
Alignment explanation
Indices: 1089013--1089050 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1089003 TTTCTTATAN
1089013 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1089051 TGCATGGTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1094963 original size:2 final size:2
Alignment explanation
Indices: 1094956--1094982 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1094946 TTGATACATA
1094956 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1094983 GAAAGAACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1108163 original size:5 final size:5
Alignment explanation
Indices: 1108153--1108236 Score: 67
Period size: 5 Copynumber: 17.8 Consensus size: 5
1108143 CTGTAAACTG
1108153 TTTGT TTTG- TTTG- TTTGTT TTTGT TTTGT TTTG- TTT-T TTT-T TTTGT
1 TTTGT TTTGT TTTGT TTTG-T TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT
* *
1108199 TTT-T TTT-T TGTT-T TTTGTT TTTTT TTTGC TTTGT TTTG
1 TTTGT TTTGT T-TTGT TTTG-T TTTGT TTTGT TTTGT TTTG
1108237 AAAAAAGGGA
Statistics
Matches: 68, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
4 26 0.38
5 34 0.50
6 8 0.12
ACGTcount: A:0.00, C:0.01, G:0.15, T:0.83
Consensus pattern (5 bp):
TTTGT
Found at i:1108177 original size:23 final size:22
Alignment explanation
Indices: 1108151--1108235 Score: 97
Period size: 20 Copynumber: 3.9 Consensus size: 22
1108141 CACTGTAAAC
1108151 TGTTTGTTTTGTTTGTTTGTTTT
1 TGTTTGTTTTGTTTGTTT-TTTT
1108174 TGTTTTGTTTTGTTT-TTTTTTT
1 TG-TTTGTTTTGTTTGTTTTTTT
1108196 TGTTT-TTTT-TTTGTTTTTTGT
1 TGTTTGTTTTGTTTGTTTTTT-T
*
1108217 T-TTTTTTTTGCTTTGTTTT
1 TGTTTGTTTTG-TTTGTTTT
1108236 GAAAAAAGGG
Statistics
Matches: 56, Mismatches: 0, Indels: 12
0.82 0.00 0.18
Matches are distributed among these distances:
19 3 0.05
20 13 0.23
21 9 0.16
22 6 0.11
23 13 0.23
24 12 0.21
ACGTcount: A:0.00, C:0.01, G:0.15, T:0.84
Consensus pattern (22 bp):
TGTTTGTTTTGTTTGTTTTTTT
Found at i:1108190 original size:1 final size:1
Alignment explanation
Indices: 1108170--1108225 Score: 58
Period size: 1 Copynumber: 56.0 Consensus size: 1
1108160 TGTTTGTTTG
* * * * * *
1108170 TTTTTGTTTTGTTTTGTTTTTTTTTTTGTTTTTTTTTTGTTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1108226 GCTTTGTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (1 bp):
T
Found at i:1108197 original size:28 final size:28
Alignment explanation
Indices: 1108153--1108236 Score: 107
Period size: 28 Copynumber: 3.0 Consensus size: 28
1108143 CTGTAAACTG
*
1108153 TTTGTTTTGTTTGTTTGTTTTTGTTTTGT
1 TTTGTTTT-TTTTTTTGTTTTTGTTTTGT
*
1108182 TTTGTTTTTTTTTTTGTTTTTTTTTTGT
1 TTTGTTTTTTTTTTTGTTTTTGTTTTGT
* *
1108210 TTTTTGTTTTTTTTTTG-CTTTGTTTTG
1 TTTGT-TTTTTTTTTTGTTTTTGTTTTG
1108237 AAAAAAGGGA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
28 30 0.61
29 19 0.39
ACGTcount: A:0.00, C:0.01, G:0.15, T:0.83
Consensus pattern (28 bp):
TTTGTTTTTTTTTTTGTTTTTGTTTTGT
Found at i:1116345 original size:40 final size:40
Alignment explanation
Indices: 1116238--1116572 Score: 233
Period size: 40 Copynumber: 8.0 Consensus size: 40
1116228 AACACGGTGA
* * * *
1116238 AAAACAGTTGATAGAGATGGTTACCTTTACACTTGAGTTAT
1 AAAACATTTGATTG-GATAGTTACCTTAACACTTGAGTTAT
* ** *
1116279 AGAACATTTTGATTGGATAGCAACCTTTACACTTGAGTTAT
1 AAAACA-TTTGATTGGATAGTTACCTTAACACTTGAGTTAT
* *
1116320 AAAACATTTGATTGGAAAGTTACCTTAACACTTCAGTTA-
1 AAAACATTTGATTGGATAGTTACCTTAACACTTGAGTTAT
** * *
1116359 AAGAACATTTGATTGGATAGCAACATTTACACTTCGAGTTAT
1 AA-AACATTTGATTGGATAGTTACCTTAACACTT-GAGTTAT
* * * *
1116401 ATAGACCATTTTGATTGGATGGTTATCTTAACACTTGAGTTGT
1 A-A-AACA-TTTGATTGGATAGTTACCTTAACACTTGAGTTAT
* * * *
1116444 AGAACATTTTATTGGATAGGTACCTTAAAACTTGAGTTAT
1 AAAACATTTGATTGGATAGTTACCTTAACACTTGAGTTAT
* *
1116484 ACACATGTATAGAGCATTTTGATTGGATGGCTACCTTAACACTTGAGTTAT
1 ----A---A-A-A-CA-TTTGATTGGATAGTTACCTTAACACTTGAGTTAT
* * * *
1116535 AGAACGTATGATTGGAT-GTTTACCTTTACACTTGAGTT
1 AAAACATTTGATTGGATAG-TTACCTTAACACTTGAGTT
1116573 CTAGTCGGAT
Statistics
Matches: 232, Mismatches: 44, Indels: 37
0.74 0.14 0.12
Matches are distributed among these distances:
39 3 0.01
40 109 0.47
41 42 0.18
42 8 0.03
43 13 0.06
44 22 0.09
47 1 0.00
48 1 0.00
49 1 0.00
50 2 0.01
51 30 0.13
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.36
Consensus pattern (40 bp):
AAAACATTTGATTGGATAGTTACCTTAACACTTGAGTTAT
Found at i:1120283 original size:13 final size:12
Alignment explanation
Indices: 1120261--1120300 Score: 55
Period size: 11 Copynumber: 3.3 Consensus size: 12
1120251 TTCAATATTT
1120261 TTTTAATTTTTG
1 TTTTAATTTTTG
1120273 TTTTAATTTTTTG
1 TTTTAA-TTTTTG
*
1120286 TTTT-GTTTTTG
1 TTTTAATTTTTG
1120297 TTTT
1 TTTT
1120301 GCATGTCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 10 0.38
12 6 0.23
13 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.80
Consensus pattern (12 bp):
TTTTAATTTTTG
Found at i:1122292 original size:224 final size:227
Alignment explanation
Indices: 1121914--1122351 Score: 632
Period size: 224 Copynumber: 1.9 Consensus size: 227
1121904 CAATCGGAAG
*
1121914 TCAACTTCCTGTTAAATGACGACTTTGCTTATTTTTTAACCAAAAATTTCAAACAAATTTTCGTC
1 TCAACTTCCTGTTAAATGACGACTTTGCTTATTTTTTAACCAAAAATTTCAAACAAATTTCCGTC
* * *
1121979 AAAGATTTCTCAGCAACTATTTATCGCAGATGATTGAAATTTTTACACAATATTTGTATAGGCAT
66 AAAGATTTCTCAGCAACTATATATCGCAGATGATTAAAATTTTAACACAATATTTGTATAGGCAT
*
1122044 GCCATATTGTGGGATATATTTTTGTACCAATCAGACGTCAACTTCCTGTTAAATGACGAC-GT-T
131 GCCATATTGTGGGATATATTTTTGTACCAATCAGACGTCAACTTCCTGTTAAATAACGACTGTGT
1122107 TAGTTTTAGCCAAAATTTTTACCAATTGGACT
196 TAGTTTTAGCCAAAATTTTTACCAATTGGACT
* * ** * * *
1122139 TCAACTTCCTGTTTAATGA-GTACTTTGTTTA-TTTTTAGTCAAAATTTTCTAGCAAATTTCCGT
1 TCAACTTCCTGTTAAATGACG-ACTTTGCTTATTTTTTAACCAAAAATTTCAAACAAATTTCCGT
* * * * * *
1122202 CATAGATTTCTCAGCAACTATATATCGCAGATGCTTAAAATTTTAACACACTATTTTTTTGGGCA
65 CAAAGATTTCTCAGCAACTATATATCGCAGATGATTAAAATTTTAACACAATATTTGTATAGGCA
* * * *
1122267 TGCCATATTGTGGGATATATTTTTGTATCAATCGGACGTCAACTTCCTGTTAAATAATGACTTTG
130 TGCCATATTGTGGGATATATTTTTGTACCAATCAGACGTCAACTTCCTGTTAAATAACGACTGTG
*
1122332 TTATTTTTAGCCAAAATTTT
195 TTAGTTTTAGCCAAAATTTT
1122352 CAAACAAATT
Statistics
Matches: 187, Mismatches: 23, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
224 140 0.75
225 28 0.15
226 19 0.10
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (227 bp):
TCAACTTCCTGTTAAATGACGACTTTGCTTATTTTTTAACCAAAAATTTCAAACAAATTTCCGTC
AAAGATTTCTCAGCAACTATATATCGCAGATGATTAAAATTTTAACACAATATTTGTATAGGCAT
GCCATATTGTGGGATATATTTTTGTACCAATCAGACGTCAACTTCCTGTTAAATAACGACTGTGT
TAGTTTTAGCCAAAATTTTTACCAATTGGACT
Found at i:1122575 original size:389 final size:386
Alignment explanation
Indices: 1121819--1122526 Score: 985
Period size: 389 Copynumber: 1.8 Consensus size: 386
1121809 GTCGCATTTA
* * * * * *
1121819 TCTCAGCAACTATTTATTGCAGATGCTTGAAATTTTTACACAGTGTTTGTTAAGGCATGCCATAT
1 TCTCAGCAACTATATATCGCAGATGCTTAAAATTTTAACACACTATTTGTTAAGGCATGCCATAT
*
1121884 CGTGGGATATATTTTTGTACCAATCGGAAGTCAACTTCCTGTTAAATGACGACTTTGCTTATTTT
66 CGTGGGATATATTTTTGTACCAATCGGAAGTCAACTTCCTGTTAAATAACGACTTTGCTTATTTT
1121949 TTAACCAAAAATTTCAAACAAATTTTCGTCAAAGATTTCTCAGCAACTATTTATCGCAGATGATT
131 TTAACCAAAAATTTCAAACAAATTTTCGTCAAAGATTTCTCAGCAACTATTTATCGCAGATGATT
*
1122014 GAAATTTTTACACAATATTTGTATAGGCATGCCATATTGTGGGATATATTTTTGTACCAATCAGA
196 GAAATTTTTACACAATATTTGTATAGGCATGCCATATCGTGGGATATATTTTTGTACCAATCAGA
* * * *
1122079 CGTCAACTTCCTGTTAAATGACGACGTTTAGTTTTAGCCAAAATTTTTACCAATTGGACTTCAAC
261 CGTCAACTTCCTGTTAAATGACGACGTTTAGTTTTAGCCAAAATTTTAACAAATTGGACCTCAAA
* ***
1122144 TTCCTGTTTAATGAGTACTTTGTTTATTTTTAGTCAAAATTTTCTAGCAAATTTCCGTCATAGAT
326 TTCC---TTAATGAG-AC-TTATTTATTCGCAGTCAAAATTTTCTAGCAAATTTCCGTCATAGAT
1122209 T
386 T
* **
1122210 TCTCAGCAACTATATATCGCAGATGCTTAAAATTTTAACACACTATTTTTTTGGGCATGCCATAT
1 TCTCAGCAACTATATATCGCAGATGCTTAAAATTTTAACACACTATTTGTTAAGGCATGCCATAT
* * * *
1122275 TGTGGGATATATTTTTGTATCAATCGGACGTCAACTTCCTGTTAAATAATGACTTTG-TTA-TTT
66 CGTGGGATATATTTTTGTACCAATCGGAAGTCAACTTCCTGTTAAATAACGACTTTGCTTATTTT
* * * * * *
1122338 TTAGCCAAAATTTTCAAACAAATTTTTGTCAAATATTTCTCAGCAGCTATTTATCGCAGATGCTT
131 TTAACCAAAAATTTCAAACAAATTTTCGTCAAAGATTTCTCAGCAACTATTTATCGCAGATGATT
* * *
1122403 GAAATTTTTACACAGTGTTTGCTA-AGGCATGCCATATCGTGGGATATATTTTTGTACCAATCGG
196 GAAATTTTTACACAATATTTG-TATAGGCATGCCATATCGTGGGATATATTTTTGTACCAATCAG
1122467 ACGTCAACTTCCTGTTAAATGA-GTACTTTGTTTA-TTTTAGCCAAAATTTTCAAACAAATT
260 ACGTCAACTTCCTGTTAAATGACG-AC---GTTTAGTTTTAGCCAAAATTTT--AACAAATT
1122527 TTCCTCAAAG
Statistics
Matches: 284, Mismatches: 26, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
388 1 0.00
389 143 0.50
390 5 0.02
391 124 0.44
392 5 0.02
393 6 0.02
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.39
Consensus pattern (386 bp):
TCTCAGCAACTATATATCGCAGATGCTTAAAATTTTAACACACTATTTGTTAAGGCATGCCATAT
CGTGGGATATATTTTTGTACCAATCGGAAGTCAACTTCCTGTTAAATAACGACTTTGCTTATTTT
TTAACCAAAAATTTCAAACAAATTTTCGTCAAAGATTTCTCAGCAACTATTTATCGCAGATGATT
GAAATTTTTACACAATATTTGTATAGGCATGCCATATCGTGGGATATATTTTTGTACCAATCAGA
CGTCAACTTCCTGTTAAATGACGACGTTTAGTTTTAGCCAAAATTTTAACAAATTGGACCTCAAA
TTCCTTAATGAGACTTATTTATTCGCAGTCAAAATTTTCTAGCAAATTTCCGTCATAGATT
Found at i:1122652 original size:165 final size:166
Alignment explanation
Indices: 1122122--1122632 Score: 726
Period size: 165 Copynumber: 3.1 Consensus size: 166
1122112 TTAGCCAAAA
* * * *
1122122 TTTT-TACCAATTGGACTTCAACTTCCTGTTTAATGAGTACTTTGTTTATTTTTAGTCAAAATTT
1 TTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGAGTACTTTGTTTATTTTTAGCCAAAATTT
* * * * * *
1122186 TCTAGCAAA-TTTCCGTCATAGATTTCTCAGCAACTATATATCGCAGATGCTTAAAATTTTAACA
66 TCAAACAAATTTTCC-TCAAAGATTTCTCAGCAGCTATTTATCGCAGATGCTTGAAATTTTAACA
*
1122250 CACTATTTTTTTGGGCATGCCATATTGTGGGATATAT
130 CACTATTTTTTTAGGCATGCCATATTGTGGGATATAT
* *
1122287 TTTTGTATCAATCGGACGTCAACTTCCTGTTAAAT-AATGACTTTG-TTATTTTTAGCCAAAATT
1 TTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGAGT-ACTTTGTTTATTTTTAGCCAAAATT
** * *
1122350 TTCAAACAAATTTTTGTCAAATATTTCTCAGCAGCTATTTATCGCAGATGCTTGAAATTTTTACA
65 TTCAAACAAATTTTCCTCAAAGATTTCTCAGCAGCTATTTATCGCAGATGCTTGAAATTTTAACA
* * ** * *
1122415 CAGTGTTTGCTAAGGCATGCCATATCGTGGGATATAT
130 CACTATTTTTTTAGGCATGCCATATTGTGGGATATAT
1122452 TTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGAGTACTTTGTTTA-TTTTAGCCAAAATTT
1 TTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGAGTACTTTGTTTATTTTTAGCCAAAATTT
* *
1122516 TCAAACAAATTTTCCTCAAAGATTCCTCAGCAGCTATTTATCGCAGGTGCTTGAAATTTTAACAC
66 TCAAACAAATTTTCCTCAAAGATTTCTCAGCAGCTATTTATCGCAGATGCTTGAAATTTTAACAC
*
1122581 ACTATTTTTTTAGTCATGCCATATTGTGGGATATAT
131 ACTATTTTTTTAGGCATGCCATATTGTGGGATATAT
*
1122617 TTCTGTACCAATCGGA
1 TTTTGTACCAATCGGA
1122633 TGCCAGCTTT
Statistics
Matches: 302, Mismatches: 39, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
165 262 0.87
166 40 0.13
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.40
Consensus pattern (166 bp):
TTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGAGTACTTTGTTTATTTTTAGCCAAAATTT
TCAAACAAATTTTCCTCAAAGATTTCTCAGCAGCTATTTATCGCAGATGCTTGAAATTTTAACAC
ACTATTTTTTTAGGCATGCCATATTGTGGGATATAT
Found at i:1123276 original size:146 final size:145
Alignment explanation
Indices: 1123014--1124254 Score: 1748
Period size: 146 Copynumber: 8.5 Consensus size: 145
1123004 TAAAACTGTT
* * *
1123014 GGTCATAAGCAATATTTGTGTGAAGTAAGAACATTCAATGCTTCTCCATAAGAAAGATAATGACC
1 GGTCATAAGCAATCTTTGTGTGAAGTTAGAAC-TTCAATGTTTCTCCATAAGAAAGATAATGACC
*
1123079 GGACACAAATTTTGCACTTTTTCTGCCAGTGACCTTGACCTTGCCCAAATGACCTTGGGTCAAGG
65 GGACACGAATTTTGCACTTTTTCTGCCAGTGACCTTGACCTTGCCCAAATGACCTTGGGTCAAGG
*
1123144 TCATGACACACCCTTT
130 TCATGACACACCCTTA
* * *
1123160 GGTCCTAAGCAATATTTGTGTGAAGTTAGAACATTCAATGCTTCTCCATAAGAAAGATAATGACC
1 GGTCATAAGCAATCTTTGTGTGAAGTTAGAAC-TTCAATGTTTCTCCATAAGAAAGATAATGACC
* ** *
1123225 GGACACGAATTTTGCACTATTTTC-CCCAACGACCTTGACCTTGCCCAAATGACCTTGGATCAAG
65 GGACACGAATTTTGCACT-TTTTCTGCCAGTGACCTTGACCTTGCCCAAATGACCTTGGGTCAAG
1123289 GTCATGACACACCCTTA
129 GTCATGACACACCCTTA
* * *
1123306 GGTCATTAGCAATCTTTGTATGAA-TTAAGAACTTCAAATGTTTCTCCATAAGAAAGATTTATG-
1 GGTCATAAGCAATCTTTGTGTGAAGTT-AGAACTTC-AATGTTTCTCCATAAGAAAGA-TAATGA
* *
1123369 CTGGACACAAATTTTGCACTTTTTCTGCCAGTGACCTTGACCTTGCCCAAATGACCTTGGGTCAA
63 CCGGACACGAATTTTGCACTTTTTCTGCCAGTGACCTTGACCTTGCCCAAATGACCTTGGGTCAA
*
1123434 GGTCATGACACACCCTTT
128 GGTCATGACACACCCTTA
* * *
1123452 GGTCCTAAGCAATATTTGTGTGAAGTTAGAACATTCAATGCTTCTCCATAAGAAAGATAATGACC
1 GGTCATAAGCAATCTTTGTGTGAAGTTAGAAC-TTCAATGTTTCTCCATAAGAAAGATAATGACC
* ** *
1123517 GGACACGAATTTTGCACTATTTTC-CCCAACGACCTTGACCTTGCCCAAATGACCTTGGATCAAG
65 GGACACGAATTTTGCACT-TTTTCTGCCAGTGACCTTGACCTTGCCCAAATGACCTTGGGTCAAG
1123581 GTCATGACACACCCTTA
129 GTCATGACACACCCTTA
* * *
1123598 GGTCATTAGCAATCTTTGTATGAA-TTAAGAACTTCAAATGTTTCTCCATAAGAAAGATTTATG-
1 GGTCATAAGCAATCTTTGTGTGAAGTT-AGAACTTC-AATGTTTCTCCATAAGAAAGA-TAATGA
* *
1123661 CTGGACACAAATTTTGCACTTTTTCTGCCAGTGACCTTGACCTTGCCCAAATGACCTTGGGTCAA
63 CCGGACACGAATTTTGCACTTTTTCTGCCAGTGACCTTGACCTTGCCCAAATGACCTTGGGTCAA
*
1123726 GGTCATGACACACCCTTT
128 GGTCATGACACACCCTTA
* * *
1123744 GGTCCTAAGCAATATTTGTGTGAAGTTAGAACATTCAATGCTTCTCCATAAGAAAGATAATGACC
1 GGTCATAAGCAATCTTTGTGTGAAGTTAGAAC-TTCAATGTTTCTCCATAAGAAAGATAATGACC
* ** *
1123809 GGACACGAATTTTGCACTATTTTC-CCCAACGACCTTGACCTTGCCCAAATGACCTTGGATCAAG
65 GGACACGAATTTTGCACT-TTTTCTGCCAGTGACCTTGACCTTGCCCAAATGACCTTGGGTCAAG
1123873 GTCATGACACACCCTTA
129 GTCATGACACACCCTTA
* * * *
1123890 GGTCATTAGCAATCTTTGTATGAA-TTAAGAACTTCAAATGTTTCTCCATAAGAAAGAT-TTGGG
1 GGTCATAAGCAATCTTTGTGTGAAGTT-AGAACTTC-AATGTTTCTCCATAAGAAAGATAAT-GA
* *
1123953 CCGGACACAAATTTTGCACTTTTTCTGCCAGTGACCTTGACCTTGCCCTAATGACCTTGGGTCAA
63 CCGGACACGAATTTTGCACTTTTTCTGCCAGTGACCTTGACCTTGCCCAAATGACCTTGGGTCAA
*
1124018 GGTCATGACACATCCTTA
128 GGTCATGACACACCCTTA
*
1124036 GGTCATAAGCAATCTTTGTGTGAAGTAAGAACTTCCAATGTTTCTCCATAAGAAAGAT-ATGGAC
1 GGTCATAAGCAATCTTTGTGTGAAGTTAGAACTT-CAATGTTTCTCCATAAGAAAGATAAT-GAC
* * * **
1124100 TGGACACGAATTTTGTATTTTTTCTGCCAGTGACCTTGACCTTGCCTGAATGACCTTGGGTCAAG
64 CGGACACGAATTTTGCACTTTTTCTGCCAGTGACCTTGACCTTGCCCAAATGACCTTGGGTCAAG
*
1124165 GTCATGACACACCCCTA
129 GTCATGACACACCCTTA
*
1124182 GGTCATAAGCAATCTTTGTGTGAAGTAAGAACTTCCAATGTTTCTCCATAAGAAAGAT-ATGGAC
1 GGTCATAAGCAATCTTTGTGTGAAGTTAGAACTT-CAATGTTTCTCCATAAGAAAGATAAT-GAC
1124246 CGGACACGA
64 CGGACACGA
1124255 TTGCACAGAC
Statistics
Matches: 984, Mismatches: 88, Indels: 46
0.88 0.08 0.04
Matches are distributed among these distances:
145 39 0.04
146 910 0.92
147 35 0.04
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (145 bp):
GGTCATAAGCAATCTTTGTGTGAAGTTAGAACTTCAATGTTTCTCCATAAGAAAGATAATGACCG
GACACGAATTTTGCACTTTTTCTGCCAGTGACCTTGACCTTGCCCAAATGACCTTGGGTCAAGGT
CATGACACACCCTTA
Found at i:1123563 original size:292 final size:292
Alignment explanation
Indices: 1123014--1124239 Score: 2093
Period size: 292 Copynumber: 4.2 Consensus size: 292
1123004 TAAAACTGTT
* * * * * *
1123014 GGTCATAAGCAATATTTGTGTGAAGTAAGAACATTC-AATGCTTCTCCATAAGAAAGA-TAATGA
1 GGTCATTAGCAATCTTTGTATGAATTAAGAAC-TTCAAATGTTTCTCCATAAGAAAGATTTATG-
1123077 CCGGACACAAATTTTGCACTTTTTCTGCCAGTGACCTTGACCTTGCCCAAATGACCTTGGGTCAA
64 CCGGACACAAATTTTGCACTTTTTCTGCCAGTGACCTTGACCTTGCCCAAATGACCTTGGGTCAA
1123142 GGTCATGACACACCCTTTGGTCCTAAGCAATATTTGTGTGAAGTTAGAACATTCAATGCTTCTCC
129 GGTCATGACACACCCTTTGGTCCTAAGCAATATTTGTGTGAAGTTAGAACATTCAATGCTTCTCC
1123207 ATAAGAAAGATAATGACCGGACACGAATTTTGCACTATTTTCCCCAACGACCTTGACCTTGCCCA
194 ATAAGAAAGATAATGACCGGACACGAATTTTGCACTATTTTCCCCAACGACCTTGACCTTGCCCA
1123272 AATGACCTTGGATCAAGGTCATGACACACCCTTA
259 AATGACCTTGGATCAAGGTCATGACACACCCTTA
*
1123306 GGTCATTAGCAATCTTTGTATGAATTAAGAACTTCAAATGTTTCTCCATAAGAAAGATTTATGCT
1 GGTCATTAGCAATCTTTGTATGAATTAAGAACTTCAAATGTTTCTCCATAAGAAAGATTTATGCC
1123371 GGACACAAATTTTGCACTTTTTCTGCCAGTGACCTTGACCTTGCCCAAATGACCTTGGGTCAAGG
66 GGACACAAATTTTGCACTTTTTCTGCCAGTGACCTTGACCTTGCCCAAATGACCTTGGGTCAAGG
1123436 TCATGACACACCCTTTGGTCCTAAGCAATATTTGTGTGAAGTTAGAACATTCAATGCTTCTCCAT
131 TCATGACACACCCTTTGGTCCTAAGCAATATTTGTGTGAAGTTAGAACATTCAATGCTTCTCCAT
1123501 AAGAAAGATAATGACCGGACACGAATTTTGCACTATTTTCCCCAACGACCTTGACCTTGCCCAAA
196 AAGAAAGATAATGACCGGACACGAATTTTGCACTATTTTCCCCAACGACCTTGACCTTGCCCAAA
1123566 TGACCTTGGATCAAGGTCATGACACACCCTTA
261 TGACCTTGGATCAAGGTCATGACACACCCTTA
*
1123598 GGTCATTAGCAATCTTTGTATGAATTAAGAACTTCAAATGTTTCTCCATAAGAAAGATTTATGCT
1 GGTCATTAGCAATCTTTGTATGAATTAAGAACTTCAAATGTTTCTCCATAAGAAAGATTTATGCC
1123663 GGACACAAATTTTGCACTTTTTCTGCCAGTGACCTTGACCTTGCCCAAATGACCTTGGGTCAAGG
66 GGACACAAATTTTGCACTTTTTCTGCCAGTGACCTTGACCTTGCCCAAATGACCTTGGGTCAAGG
1123728 TCATGACACACCCTTTGGTCCTAAGCAATATTTGTGTGAAGTTAGAACATTCAATGCTTCTCCAT
131 TCATGACACACCCTTTGGTCCTAAGCAATATTTGTGTGAAGTTAGAACATTCAATGCTTCTCCAT
1123793 AAGAAAGATAATGACCGGACACGAATTTTGCACTATTTTCCCCAACGACCTTGACCTTGCCCAAA
196 AAGAAAGATAATGACCGGACACGAATTTTGCACTATTTTCCCCAACGACCTTGACCTTGCCCAAA
1123858 TGACCTTGGATCAAGGTCATGACACACCCTTA
261 TGACCTTGGATCAAGGTCATGACACACCCTTA
**
1123890 GGTCATTAGCAATCTTTGTATGAATTAAGAACTTCAAATGTTTCTCCATAAGAAAGATTTGGGCC
1 GGTCATTAGCAATCTTTGTATGAATTAAGAACTTCAAATGTTTCTCCATAAGAAAGATTTATGCC
*
1123955 GGACACAAATTTTGCACTTTTTCTGCCAGTGACCTTGACCTTGCCCTAATGACCTTGGGTCAAGG
66 GGACACAAATTTTGCACTTTTTCTGCCAGTGACCTTGACCTTGCCCAAATGACCTTGGGTCAAGG
* * * * * *
1124020 TCATGACACATCCTTAGGTCATAAGCAATCTTTGTGTGAAGTAAGAAC-TTCCAATGTTTCTCCA
131 TCATGACACACCCTTTGGTCCTAAGCAATATTTGTGTGAAGTTAGAACATT-CAATGCTTCTCCA
* * * * ** *
1124084 TAAGAAAGAT-ATGGACTGGACACGAATTTTGTA-TTTTTTCTGCCAGTGACCTTGACCTTGCCT
195 TAAGAAAGATAAT-GACCGGACACGAATTTTGCACTATTTTC-CCCAACGACCTTGACCTTGCCC
* * *
1124147 GAATGACCTTGGGTCAAGGTCATGACACACCCCTA
258 AAATGACCTTGGATCAAGGTCATGACACACCCTTA
* * * *
1124182 GGTCATAAGCAATCTTTGTGTGAAGTAAGAACTTCCAATGTTTCTCCATAAGAAAGAT
1 GGTCATTAGCAATCTTTGTATGAATTAAGAACTTCAAATGTTTCTCCATAAGAAAGAT
1124240 ATGGACCGGA
Statistics
Matches: 898, Mismatches: 31, Indels: 10
0.96 0.03 0.01
Matches are distributed among these distances:
291 13 0.01
292 881 0.98
293 4 0.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (292 bp):
GGTCATTAGCAATCTTTGTATGAATTAAGAACTTCAAATGTTTCTCCATAAGAAAGATTTATGCC
GGACACAAATTTTGCACTTTTTCTGCCAGTGACCTTGACCTTGCCCAAATGACCTTGGGTCAAGG
TCATGACACACCCTTTGGTCCTAAGCAATATTTGTGTGAAGTTAGAACATTCAATGCTTCTCCAT
AAGAAAGATAATGACCGGACACGAATTTTGCACTATTTTCCCCAACGACCTTGACCTTGCCCAAA
TGACCTTGGATCAAGGTCATGACACACCCTTA
Found at i:1130101 original size:60 final size:60
Alignment explanation
Indices: 1130001--1130129 Score: 179
Period size: 60 Copynumber: 2.1 Consensus size: 60
1129991 GGTATTGTCA
* *
1130001 ATATCGACGTTAAATATGAAAAGACTGAGTTCTGTACATATGTAAATCGATATCGATACG
1 ATATCGACGTTAAATATGAAAAGACTGAGTTCTGTACATATGCAAATCAATATCGATACG
* * * * *
1130061 ATATCGACGTTAAATATGGACAG-CTGTAGTTGTGTGCATATGCAACTCAATATCGATACG
1 ATATCGACGTTAAATATGAAAAGACTG-AGTTCTGTACATATGCAAATCAATATCGATACG
1130121 ATATCGACG
1 ATATCGACG
1130130 ATATCGACAT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 3 0.05
60 58 0.95
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (60 bp):
ATATCGACGTTAAATATGAAAAGACTGAGTTCTGTACATATGCAAATCAATATCGATACG
Found at i:1130209 original size:13 final size:13
Alignment explanation
Indices: 1130188--1130221 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
1130178 TATTGATACG
*
1130188 ATATCGACGTTAA
1 ATATGGACGTTAA
1130201 ATATGGACGTTAA
1 ATATGGACGTTAA
*
1130214 ATTTGGAC
1 ATATGGAC
1130222 AGCTGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (13 bp):
ATATGGACGTTAA
Found at i:1130314 original size:20 final size:20
Alignment explanation
Indices: 1130275--1130315 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1130265 AATCAGTGAA
*
1130275 TCGATATCGATACAATATTG
1 TCGATATCGATACAACATTG
*
1130295 TCGATATCGATACTACATTG
1 TCGATATCGATACAACATTG
1130315 T
1 T
1130316 GTCTTGGACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.37
Consensus pattern (20 bp):
TCGATATCGATACAACATTG
Found at i:1142995 original size:24 final size:24
Alignment explanation
Indices: 1142965--1143014 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
1142955 GTAAGGCCAA
* * *
1142965 TTTTTTTGTTTTGTTTTTGTTGTT
1 TTTTTTTCTTTTCTTTTTGATGTT
1142989 TTTTTTTCTTTTCTTTTTGATGTT
1 TTTTTTTCTTTTCTTTTTGATGTT
1143013 TT
1 TT
1143015 GCGTGATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.02, C:0.04, G:0.12, T:0.82
Consensus pattern (24 bp):
TTTTTTTCTTTTCTTTTTGATGTT
Found at i:1143146 original size:17 final size:17
Alignment explanation
Indices: 1143124--1143156 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1143114 TCGCATAGCC
1143124 CCCTAACTCCGTCACTA
1 CCCTAACTCCGTCACTA
1143141 CCCTAACTCCGTCACT
1 CCCTAACTCCGTCACT
1143157 TTCGGGAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.48, G:0.06, T:0.24
Consensus pattern (17 bp):
CCCTAACTCCGTCACTA
Found at i:1147332 original size:177 final size:177
Alignment explanation
Indices: 1146580--1147322 Score: 1014
Period size: 177 Copynumber: 4.2 Consensus size: 177
1146570 AAAGACTAGG
** * * *
1146580 ATGCTGAATCTGAGTCC-TAAATTTCAGATGCTGGAGGAGGTTAAGGTTGTTGGACCAGGTTAAA
1 ATGCTGAATCTGAG-CCATAGGTTTCAGATGCTGGAGGAGGTTAAGGTTTTTAGAGCAGGTTAAA
* * *
1146644 GTTTTTGTTGCAGGTGCCCTTTGATAGCAATATCTAAGTTACTGCAGGTCCGTACTTCACCAAAC
65 GTTTTTGTTGCAGGTGCCCTCTGATAGCAATATCTAAGTTACTACTGGTCCGTACTTCACCAAAC
* *
1146709 TTGCATGGATGGTGTGTCTTATGATACTGATGCACCAGACAGGCTTGA
130 TTCCATGGATGGTGCGTCTTATGATACTGATGCACCAGACAGGCTTGA
* * * * *
1146757 GTGCTGAATCTGAGCTATAGGTTTCAGATGCTGGAGGGGGTTAAGGTTTTTGGAGCAGGTTACAG
1 ATGCTGAATCTGAGCCATAGGTTTCAGATGCTGGAGGAGGTTAAGGTTTTTAGAGCAGGTTAAAG
* *
1146822 TTTTTGTTGCAGGTGCCCTTTGATAGCAATATCTAAGTTACTGCTGGTCCGTACTTCACCAAACT
66 TTTTTGTTGCAGGTGCCCTCTGATAGCAATATCTAAGTTACTACTGGTCCGTACTTCACCAAACT
* * * *
1146887 TGCATGGATGGTGTGTCTTATGATACTGATGCACCAGGCAGGCTTGG
131 TCCATGGATGGTGCGTCTTATGATACTGATGCACCAGACAGGCTTGA
* * * * *
1146934 GTGCTGAATCTGAGCTATAGGTTACAGATGCTGAAGGAGGTTAAGGTTTTTAGAGCTGGTTAAAG
1 ATGCTGAATCTGAGCCATAGGTTTCAGATGCTGGAGGAGGTTAAGGTTTTTAGAGCAGGTTAAAG
* * *
1146999 TTTTTGTTGCAGGTGCCCTCTGAT-G-ATTATATCTTAGTTACTACTTGTCC-TAACTTCACCAG
66 TTTTTGTTGCAGGTGCCCTCTGATAGCA--ATATCTAAGTTACTACTGGTCCGT-ACTTCACCAA
1147061 ACTTCCATGGATGGTGCGTCTTATGATACTGATGCACCAGACAGGCTTGA
128 ACTTCCATGGATGGTGCGTCTTATGATACTGATGCACCAGACAGGCTTGA
* *
1147111 ATGCTGAATCTGAGCCATAGGTTTCGGATGCTGGAGGAGGTTAAGGTTTTTAGAGCTGGTTAAAG
1 ATGCTGAATCTGAGCCATAGGTTTCAGATGCTGGAGGAGGTTAAGGTTTTTAGAGCAGGTTAAAG
*** * * * *
1147176 TTTTTGAAACAGGTGCCCTCTGAT-G-ATTATATCTTAGTTATTACTTGTCC-TAACTTCACCAG
66 TTTTTGTTGCAGGTGCCCTCTGATAGCA--ATATCTAAGTTACTACTGGTCCGT-ACTTCACCAA
*
1147238 ACTTCCATGGATGGTGCGTCTTATGATACTGATGCACCTGACAGGCTTGA
128 ACTTCCATGGATGGTGCGTCTTATGATACTGATGCACCAGACAGGCTTGA
*
1147288 ATGCTGAGTCTGAGCCATAGGTTTCAGATGCTGGA
1 ATGCTGAATCTGAGCCATAGGTTTCAGATGCTGGA
1147323 TATGGTTAAG
Statistics
Matches: 524, Mismatches: 38, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
175 1 0.00
176 3 0.01
177 520 0.99
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (177 bp):
ATGCTGAATCTGAGCCATAGGTTTCAGATGCTGGAGGAGGTTAAGGTTTTTAGAGCAGGTTAAAG
TTTTTGTTGCAGGTGCCCTCTGATAGCAATATCTAAGTTACTACTGGTCCGTACTTCACCAAACT
TCCATGGATGGTGCGTCTTATGATACTGATGCACCAGACAGGCTTGA
Found at i:1147761 original size:157 final size:157
Alignment explanation
Indices: 1147473--1147762 Score: 442
Period size: 157 Copynumber: 1.8 Consensus size: 157
1147463 GCTAAAAAAT
* *
1147473 ATATCTTAGTTATTACAGGTCCTAACTTCACCAAACTTGAATGGATGGTGTGTCTTATGATACAG
1 ATATCTTAGTTATTACAGGTCCTAACTTCACCAAACTTGAATGGATGATGCGTCTTATGATACAG
* *
1147538 ATGCACCTGACAGGCATGGATGTTGAATCTGAGCCATAGGTTGCGGATGCTGGAGCAGGTTAAGT
66 ATGCACCTGACAGGCATGAATGCTGAATCTGAGCCATAGGTTGCGGATGCTGGAGCAGGTTAAGT
1147603 TTTAATTGCTAGTGCCCTCTGATGATG
131 TTTAATTGCTAGTGCCCTCTGATGATG
* *
1147630 ATATCTTAGTTATTACTGGT-CTGAACTTCACCAAACTTGCATGGA-GATGCGTCTTATGTATAC
1 ATATCTTAGTTATTACAGGTCCT-AACTTCACCAAACTTGAATGGATGATGCGTCTTATG-ATAC
* * * *
1147693 TGATGCACCTGACAGGCTTGAATGCTGAATCTGAGCCATAGGTTTCGGATGCTGGATG-AGGTTT
64 AGATGCACCTGACAGGCATGAATGCTGAATCTGAGCCATAGGTTGCGGATGCTGGA-GCAGGTTA
1147757 AGTTTT
128 AGTTTT
1147763 TTTGGAACAG
Statistics
Matches: 120, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
156 13 0.11
157 106 0.88
158 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (157 bp):
ATATCTTAGTTATTACAGGTCCTAACTTCACCAAACTTGAATGGATGATGCGTCTTATGATACAG
ATGCACCTGACAGGCATGAATGCTGAATCTGAGCCATAGGTTGCGGATGCTGGAGCAGGTTAAGT
TTTAATTGCTAGTGCCCTCTGATGATG
Found at i:1148160 original size:15 final size:15
Alignment explanation
Indices: 1148140--1148175 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
1148130 ATACAATATT
*
1148140 ATATTGTATCATACG
1 ATATTGTATAATACG
*
1148155 ATATTGTATAATATG
1 ATATTGTATAATACG
1148170 ATATTG
1 ATATTG
1148176 GTTTCTGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.44
Consensus pattern (15 bp):
ATATTGTATAATACG
Found at i:1148297 original size:50 final size:50
Alignment explanation
Indices: 1148141--1148305 Score: 147
Period size: 50 Copynumber: 3.3 Consensus size: 50
1148131 TACAATATTA
* * * *
1148141 TATTGTATCATACGATATTGTATAATATGATATTGGTTTCTGTAATTTAC
1 TATTGTATCATACGATATTGTATAATATGATATTGGTTTATATAATATAT
* * ** * * * * * *
1148191 AATTATATCACGCAAAACTGTA-ATTTATGATATT-G-TAATATTATATAT
1 TATTGTATCATACGATATTGTATA-ATATGATATTGGTTTATATAATATAT
* *
1148239 TATCGTATCATACGATATTGTATAATATGATATTGGTTTATATGATATAT
1 TATTGTATCATACGATATTGTATAATATGATATTGGTTTATATAATATAT
*
1148289 TATTGTATCATATGATA
1 TATTGTATCATACGATA
1148306 CAATATGTAT
Statistics
Matches: 84, Mismatches: 27, Indels: 8
0.71 0.23 0.07
Matches are distributed among these distances:
48 30 0.36
49 4 0.05
50 50 0.60
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.45
Consensus pattern (50 bp):
TATTGTATCATACGATATTGTATAATATGATATTGGTTTATATAATATAT
Found at i:1148406 original size:15 final size:15
Alignment explanation
Indices: 1148388--1148466 Score: 74
Period size: 15 Copynumber: 5.3 Consensus size: 15
1148378 GATACAATGT
*
1148388 AATATCAAATTATAC
1 AATATCATATTATAC
*
1148403 AATATCATATGATAC
1 AATATCATATTATAC
1148418 AATATCATATTAT--
1 AATATCATATTATAC
*
1148431 -GTATCAAATATTATAC
1 AATATC--ATATTATAC
**
1148447 AATATCATACAATAC
1 AATATCATATTATAC
1148462 AATAT
1 AATAT
1148467 ATCATACTGT
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
12 4 0.08
14 7 0.13
15 37 0.71
17 4 0.08
ACGTcount: A:0.49, C:0.13, G:0.03, T:0.35
Consensus pattern (15 bp):
AATATCATATTATAC
Found at i:1148579 original size:20 final size:20
Alignment explanation
Indices: 1148514--1148581 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
1148504 AATGTTATGA
* **
1148514 TGTATTATGTAATATGATAT
1 TGTATTATATAATACAATAT
*
1148534 TGTATCATATAATACAATAT
1 TGTATTATATAATACAATAT
*
1148554 TGTATTATAT-ATAATAATAT
1 TGTATTATATAAT-ACAATAT
1148574 TGTATTAT
1 TGTATTAT
1148582 GTGATCAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 2 0.05
20 39 0.95
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.49
Consensus pattern (20 bp):
TGTATTATATAATACAATAT
Found at i:1150878 original size:2 final size:2
Alignment explanation
Indices: 1150871--1150908 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
1150861 ATCAATATCA
*
1150871 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1150909 GGTATTGTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1152099 original size:25 final size:25
Alignment explanation
Indices: 1152061--1152259 Score: 346
Period size: 25 Copynumber: 8.0 Consensus size: 25
1152051 GTAATCTTGT
*
1152061 CTCATGTACCGTACACACTAAAACA
1 CTCATGTAACGTACACACTAAAACA
1152086 CTCATGT-ACTGTACACACTAAAACA
1 CTCATGTAAC-GTACACACTAAAACA
*
1152111 CTCATGTACCGTACACACTAAAACA
1 CTCATGTAACGTACACACTAAAACA
*
1152136 CTCATGTAACGTACACGCTAAAACA
1 CTCATGTAACGTACACACTAAAACA
*
1152161 CTCGTGTAACGTACACACTAAAACA
1 CTCATGTAACGTACACACTAAAACA
1152186 CTCATGTAACGTACACACTAAAACA
1 CTCATGTAACGTACACACTAAAACA
1152211 CTCATGTAACGTACACACTAAAACA
1 CTCATGTAACGTACACACTAAAACA
1152236 CTCATGTAACGTACACACTAAAAC
1 CTCATGTAACGTACACACTAAAAC
1152260 TTTTCCTCGT
Statistics
Matches: 165, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
24 1 0.01
25 163 0.99
26 1 0.01
ACGTcount: A:0.41, C:0.29, G:0.09, T:0.21
Consensus pattern (25 bp):
CTCATGTAACGTACACACTAAAACA
Found at i:1155623 original size:43 final size:43
Alignment explanation
Indices: 1155212--1155610 Score: 690
Period size: 43 Copynumber: 9.3 Consensus size: 43
1155202 GGAACCTGAG
*
1155212 TGTAGGACTCACCATATGGGTACAGCATCAGGTAAAGTATTAA
1 TGTAGGACTCACCATATGGGTACAGCATCAGGTACAGTATTAA
*
1155255 TGTAAGACTCACCATATGGGTACAGCATCAGGTACAGTATTAA
1 TGTAGGACTCACCATATGGGTACAGCATCAGGTACAGTATTAA
* *
1155298 TGGAGGACTCACCATATGGGTACAGCATCAGGTACAGTATTAC
1 TGTAGGACTCACCATATGGGTACAGCATCAGGTACAGTATTAA
1155341 TGTAGGACTCACCATATGGGTACAGCATCAGGTACAGTATTAA
1 TGTAGGACTCACCATATGGGTACAGCATCAGGTACAGTATTAA
*
1155384 TGTAGGACTCACCATATGGGTACAGCATCAGGGACAGTATTAA
1 TGTAGGACTCACCATATGGGTACAGCATCAGGTACAGTATTAA
*
1155427 TGTAGAACTCACCATATGGGTACAGCATCAGGTACAGTATTAA
1 TGTAGGACTCACCATATGGGTACAGCATCAGGTACAGTATTAA
1155470 TGTAGGACTCACCATATGGGTACAGCATCAGGTACAGTATTAA
1 TGTAGGACTCACCATATGGGTACAGCATCAGGTACAGTATTAA
* *
1155513 TGTAGAACTCACCATATGGGTACAGCATCAGGTACAGTATTAT
1 TGTAGGACTCACCATATGGGTACAGCATCAGGTACAGTATTAA
* ** *
1155556 TGTAGGACTCACCATATGGGTACATCATCACATACTGTATTAA
1 TGTAGGACTCACCATATGGGTACAGCATCAGGTACAGTATTAA
1155599 TGTAGGACTCAC
1 TGTAGGACTCAC
1155611 ATTATACATA
Statistics
Matches: 337, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 337 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (43 bp):
TGTAGGACTCACCATATGGGTACAGCATCAGGTACAGTATTAA
Found at i:1155701 original size:105 final size:105
Alignment explanation
Indices: 1155519--1155715 Score: 331
Period size: 105 Copynumber: 1.9 Consensus size: 105
1155509 TTAATGTAGA
* *
1155519 ACTCACCATATGGGTACAGCATCAGGTACAGTATTATTGTAGGACTCACCATATGGGTACATCAT
1 ACTCACCATATGGGTACAGCATCAGGTACAGTATTAATGTAGGACTCACCATATGGGTACAGCAT
*
1155584 CACATACTGTATTAATGTAGGACTCACATTATACATACAT
66 CACATACAGTATTAATGTAGGACTCACATTATACATACAT
* *
1155624 ACTCACCATATGGGTACAGCATCAGGTACAGTATTAATGTAGGACTCACCATTTGGGTATAGCAT
1 ACTCACCATATGGGTACAGCATCAGGTACAGTATTAATGTAGGACTCACCATATGGGTACAGCAT
**
1155689 CAGGTACAGTATTAATGTAGGACTCAC
66 CACATACAGTATTAATGTAGGACTCAC
1155716 CATATGGGTA
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
105 85 1.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.28
Consensus pattern (105 bp):
ACTCACCATATGGGTACAGCATCAGGTACAGTATTAATGTAGGACTCACCATATGGGTACAGCAT
CACATACAGTATTAATGTAGGACTCACATTATACATACAT
Done.