Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009000.1 Hibiscus syriacus cultivar Beakdansim tig00112382_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1742898
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 9
Found at i:1464060 original size:29 final size:28
Alignment explanation
Indices: 1464028--1464083 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
1464018 TTATTATTAT
* *
1464028 TATTATTATTTCTTTATTTTTATTTTTTC
1 TATTATTATTT-ATTATCTTTATTTTTTC
*
1464057 TATTTTTATTTATTATCTTTATTTTTT
1 TATTATTATTTATTATCTTTATTTTTT
1464084 GTAAGGGTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 14 0.58
29 10 0.42
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (28 bp):
TATTATTATTTATTATCTTTATTTTTTC
Found at i:1464062 original size:7 final size:6
Alignment explanation
Indices: 1464013--1464082 Score: 50
Period size: 6 Copynumber: 10.7 Consensus size: 6
1464003 ATTAGTATAC
* * *
1464013 TTTTAT TATTAT TATTAT TATTATT TCTTTAT TTTTATTT TTTCTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTA-T T-TTTAT TTTTA--T TTT-TAT TTTTAT
*
1464066 TTATTAT CTTTAT TTTT
1 TT-TTAT TTTTAT TTTT
1464083 TGTAAGGGTC
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
6 32 0.59
7 13 0.24
8 7 0.13
9 2 0.04
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTAT
Found at i:1464062 original size:15 final size:14
Alignment explanation
Indices: 1464027--1464080 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
1464017 ATTATTATTA
*
1464027 TTATTATTATTTCT
1 TTATTTTTATTTCT
*
1464041 TTATTTTTATTTTT
1 TTATTTTTATTTCT
*
1464055 TCTATTTTTATTT-A
1 T-TATTTTTATTTCT
*
1464069 TTATCTTTATTT
1 TTATTTTTATTT
1464081 TTTGTAAGGG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
13 10 0.29
14 14 0.40
15 11 0.31
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.76
Consensus pattern (14 bp):
TTATTTTTATTTCT
Found at i:1470188 original size:2 final size:2
Alignment explanation
Indices: 1470181--1470205 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1470171 AACAATACTT
1470181 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1470206 CACCTTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1474814 original size:225 final size:225
Alignment explanation
Indices: 1474076--1474986 Score: 1530
Period size: 225 Copynumber: 4.1 Consensus size: 225
1474066 CCCTCCACTA
*
1474076 TTATAAAAGTGTCCATACTTATTTCACTGT-GAAAATATATTTATTATTATCTTTGGTTAATATT
1 TTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTA-T-TCTTTGGTTAATATT
*
1474140 GTTAAATTTAAATTCTAAATAATATTTATAAAATATCAAAAAAATCAAATAATTTTGTGTGT-AA
64 GTTAAATTTAAATTCTAAATAATATTTATAAAATATC-AAAAAATCAAATAATTTTTTGTGTAAA
*
1474204 TG-AATTATTAAATTAATA-TGTAGGTGGAAAACATGAAACACTATTAAAAAAAATGAAACATAA
128 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
1474267 ATTACATAAC-TTAAAAAAAGTATATATCATTT
193 ATTACATAACTTTAAAAAAAGTATATATCATTT
1474299 TTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTA-TCTTTGGTTAATATTGT
1 TTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATTCTTTGGTTAATATTGT
*
1474363 TAAATTTAAATTCTAAATAATATTTATAAAATATCAAATAATCAAATAA-TTTTTGTGTAAATGA
66 TAAATTTAAATTCTAAATAATATTTATAAAATATCAAAAAATCAAATAATTTTTTGTGTAAATGA
*
1474427 AA-TATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAATATAAATT
131 AATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATT
1474491 ACATAACTTTAAAAAAAGTATATATCATTT
196 ACATAACTTTAAAAAAAGTATATATCATTT
*
1474521 TTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATTATTTGGTTAATATTGT
1 TTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATTCTTTGGTTAATATTGT
*
1474586 TAAA-TTAAATTCTAAATAATATTT-TATAAATATCAAATAATCAAATAATTTTTTGTGTAAATG
66 TAAATTTAAATTCTAAATAATATTTATA-AAATATCAAAAAATCAAATAATTTTTTGTGTAAATG
* *
1474649 AAATTATTAAAGTAATATTGTAGGTGGAAAACACGAAACACTATTAAAAAAAATTGAAACATAAA
130 AAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAA
1474714 TTACATAACTTTAAAAAAAAGTATATATCA-TT
194 TTACATAACTTT-AAAAAAAGTATATATCATTT
1474746 TT-TAAAAGTGGTCCATAC-TATTT-ACTGTGGAAAACATATTTATTATTTTCTTTGGTTAATAT
1 TTATAAAAGT-GTCCATACTTATTTCACTGTGGAAAACATATTTATTA--TTCTTTGGTTAATAT
*
1474808 TGTTAAATTT-AATTCTAAATAATATTTTTAAAATATCAAAAAATCAAATAATTTTTTGTGTAAA
63 TGTTAAATTTAAATTCTAAATAATATTTATAAAATATCAAAAAATCAAATAATTTTTTGTGTAAA
1474872 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
128 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
*
1474937 ATTACATAAATTTAAAAAAAG-ATATATCATTT
193 ATTACATAACTTTAAAAAAAGTATATATCATTT
1474969 TTATAAAAGTGTCCATAC
1 TTATAAAAGTGTCCATAC
1474987 GTATAAAAGT
Statistics
Matches: 656, Mismatches: 14, Indels: 36
0.93 0.02 0.05
Matches are distributed among these distances:
219 8 0.01
220 30 0.05
221 109 0.17
222 118 0.18
223 109 0.17
224 103 0.16
225 158 0.24
226 21 0.03
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.38
Consensus pattern (225 bp):
TTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATTCTTTGGTTAATATTGT
TAAATTTAAATTCTAAATAATATTTATAAAATATCAAAAAATCAAATAATTTTTTGTGTAAATGA
AATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATT
ACATAACTTTAAAAAAAGTATATATCATTT
Found at i:1475074 original size:19 final size:18
Alignment explanation
Indices: 1475021--1475080 Score: 66
Period size: 20 Copynumber: 3.1 Consensus size: 18
1475011 AAGAAATATT
* *
1475021 AAAACGATATACCAGGTAA
1 AAAATGATAAACC-GGTAA
1475040 AAATATGATAAAACCGGTAA
1 AAA-ATGAT-AAACCGGTAA
1475060 CAAAATGATAAACCGGTAA
1 -AAAATGATAAACCGGTAA
1475079 AA
1 AA
1475081 GTTACCGGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
18 2 0.06
19 13 0.36
20 14 0.39
21 7 0.19
ACGTcount: A:0.55, C:0.13, G:0.15, T:0.17
Consensus pattern (18 bp):
AAAATGATAAACCGGTAA
Found at i:1477444 original size:21 final size:21
Alignment explanation
Indices: 1477420--1477463 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1477410 AAGACAATCA
1477420 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
1477441 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
1477462 AG
1 AG
1477464 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:1477539 original size:33 final size:33
Alignment explanation
Indices: 1477497--1477562 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1477487 AAATAGATGG
*
1477497 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
1477530 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
1477563 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:1479376 original size:19 final size:19
Alignment explanation
Indices: 1479352--1479400 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1479342 AATGTAGGGT
1479352 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1479371 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
1479390 TATTTTTGTAT
1 TAATTTTGTAT
1479401 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:1480036 original size:197 final size:199
Alignment explanation
Indices: 1479517--1480871 Score: 2346
Period size: 197 Copynumber: 6.9 Consensus size: 199
1479507 CAATATGGCC
* * * * *
1479517 AACAGGGTGCAACCATAAAGTGTCGATCC--ATATAAAAAGTGTCAATCCCAAAAACATTGAAAC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1479580 C-AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
*
1479644 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
1479709 GGAA
196 GGAA
* * *
1479713 AACAGGGTGCAACTATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1479778 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
* *
1479843 AATATGTCTAAATAATGTGTCGACACT-TTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
1479907 GGAA
196 GGAA
1479911 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1479975 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
* * * *
1480040 AATATGTCTAAATACTGTGTCGACACTAATTTAGTTTGTGTCAATATTTTTGTTCCAAAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
1480105 GGAA
196 GGAA
*
1480109 AACAGGGTGCACCCATAACGTGTCGATCC--ATATAAAAAGTGTCGATCCC-AAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1480171 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAA-CGGTACAAGTTTACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
*
1480235 AATATGTCTAAATAATGTGTCGACACT-TTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
1480299 GGAA
196 GGAA
*
1480303 AACAGGGTGCACCCATAAAGTGTCGATTCATATATAAAAAGTGTCGATCCCAAAATCATCGAA-C
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
1480367 CAAAAGTATAATGTAATATATAATTTTTCAATCTAACCGGTACAAGTTTACC-GTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
*
1480431 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
1480496 GGAA
196 GGAA
*
1480500 AACAAGGTGCA-CCATAAAGTGTCGATCC-TATATAAAAAGTGTCGAT-CCAAAATCATCGAAAC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
*
1480562 ACAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
*
1480627 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGGTCCATAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
1480692 TGGAA
195 TGGAA
*
1480697 AACAGGGTGCGCCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
1480762 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
* *
1480827 AATATGTCTAAAAAATGTGTCGACAC-ATTTTAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATA
1480872 CTAATTTAAA
Statistics
Matches: 1104, Mismatches: 39, Indels: 30
0.94 0.03 0.03
Matches are distributed among these distances:
194 76 0.07
195 74 0.07
196 243 0.22
197 297 0.27
198 202 0.18
199 200 0.18
200 12 0.01
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.32
Consensus pattern (199 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
GGAA
Found at i:1482340 original size:3 final size:3
Alignment explanation
Indices: 1482332--1482403 Score: 65
Period size: 3 Copynumber: 24.3 Consensus size: 3
1482322 AAGATGAAGC
* * * * * *
1482332 TGA TGA TGA AGA TGA CGA TGA TGA TGA CGA TGA AGC TGA CGA TGA -GA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
* *
1482379 TGA CGA TGA TGA TGA AGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA T
1482404 CCAAACAAGT
Statistics
Matches: 52, Mismatches: 16, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
2 2 0.04
3 50 0.96
ACGTcount: A:0.36, C:0.07, G:0.33, T:0.24
Consensus pattern (3 bp):
TGA
Found at i:1482342 original size:18 final size:18
Alignment explanation
Indices: 1482321--1482399 Score: 97
Period size: 18 Copynumber: 4.4 Consensus size: 18
1482311 AGCGGTCGCA
*
1482321 GAAGATGAAGCTGATGAT
1 GAAGATGAAGATGATGAT
*
1482339 GAAGATGACGATGATGAT
1 GAAGATGAAGATGATGAT
* * *
1482357 GACGATGAAGCTGACGAT
1 GAAGATGAAGATGATGAT
*
1482375 G-AGATGACGATGATGAT
1 GAAGATGAAGATGATGAT
1482392 GAAGATGA
1 GAAGATGA
1482400 TGATCCAAAC
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
17 13 0.26
18 37 0.74
ACGTcount: A:0.38, C:0.08, G:0.34, T:0.20
Consensus pattern (18 bp):
GAAGATGAAGATGATGAT
Found at i:1482345 original size:6 final size:6
Alignment explanation
Indices: 1482321--1482399 Score: 70
Period size: 6 Copynumber: 13.3 Consensus size: 6
1482311 AGCGGTCGCA
* * * * * *
1482321 GAAGAT GAAGCT GATGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* * *
1482369 GACGAT G-AGAT GACGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
1482400 TGATCCAAAC
Statistics
Matches: 57, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
5 4 0.07
6 53 0.93
ACGTcount: A:0.38, C:0.08, G:0.34, T:0.20
Consensus pattern (6 bp):
GAAGAT
Found at i:1482403 original size:12 final size:12
Alignment explanation
Indices: 1482324--1482399 Score: 91
Period size: 12 Copynumber: 6.4 Consensus size: 12
1482314 GGTCGCAGAA
* *
1482324 GATGAAGCTGAT
1 GATGAAGATGAC
1482336 GATGAAGATGAC
1 GATGAAGATGAC
*
1482348 GATGATGATGAC
1 GATGAAGATGAC
*
1482360 GATGAAGCTGAC
1 GATGAAGATGAC
1482372 GATG-AGATGAC
1 GATGAAGATGAC
* *
1482383 GATGATGATGAA
1 GATGAAGATGAC
1482395 GATGA
1 GATGA
1482400 TGATCCAAAC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
11 10 0.18
12 45 0.82
ACGTcount: A:0.37, C:0.08, G:0.34, T:0.21
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:1484174 original size:183 final size:182
Alignment explanation
Indices: 1483893--1484385 Score: 853
Period size: 183 Copynumber: 2.7 Consensus size: 182
1483883 GCAATGCTAT
*
1483893 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATCTT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1483958 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTTAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-TTAAAAAGTGTCGACA
*
1484023 TTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
*
1484076 TGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
* * * *
1484141 GTGTCGGTACTTTATGTCCATATTGGCAGAAAAATGTGTCGATACGATTTAAAAAAGTATCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTTTAAAAAGTGTCGACA
*
1484206 TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
* *
1484259 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1484324 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCA-TTTAAAAAGGTGTCG
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTTTAAAAA-GTGTCG
1484386 GTAATTTTAA
Statistics
Matches: 292, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
182 7 0.02
183 281 0.96
184 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34
Consensus pattern (182 bp):
CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTTAAAAAGTGTCGACAT
TTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:1484589 original size:39 final size:39
Alignment explanation
Indices: 1484545--1484631 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
1484535 GCTGATGCTC
*
1484545 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
* *
1484584 ATCAAAATTCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
1484623 ATCAAAATC
1 ATCAAAATC
1484632 TACAACTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:1485080 original size:23 final size:23
Alignment explanation
Indices: 1485049--1485121 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1485039 ATAGGTAAAA
*
1485049 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1485072 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1485095 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1485118 ATAT
1 ATAT
1485122 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1485505 original size:23 final size:23
Alignment explanation
Indices: 1485474--1485546 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1485464 ATAGGTAAAA
*
1485474 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1485497 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1485520 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1485543 ATAT
1 ATAT
1485547 TGTATAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1485926 original size:23 final size:23
Alignment explanation
Indices: 1485895--1485967 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
1485885 ATAGGTAAAA
*
1485895 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
1485918 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1485941 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1485964 ATAT
1 ATAT
1485968 TGTAAAGTGT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1485995 original size:421 final size:426
Alignment explanation
Indices: 1484847--1486321 Score: 2680
Period size: 425 Copynumber: 3.5 Consensus size: 426
1484837 GTTAATGTTG
1484847 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
1484912 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
*
1484977 ATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
131 ATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAATATAATA
1485042 GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
196 GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
1485107 AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
261 AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
*
1485172 GAAAATATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
326 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
1485237 TCTAATGATTTATTTTTTACGTT-CGATATATATTA
391 TCTAATGATTTATTTTTTACGTTACGATATATATTA
1485272 TTATTAATT-AAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCA
1 TTA--AATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCA
1485336 AATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA-TGAAACAT
64 AATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACAT
1485400 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAATATAA
129 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAATATAA
1485465 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
194 TAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTA
* *
1485530 ATAGGTAGTGGTTATATTGTATAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACGG
259 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
1485595 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
324 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
*
1485660 CATCTAATGATTTA-TTTTTACGTTACGATATATTATTA
389 CGTCTAATGATTTATTTTTTACGTTACGATATA-TATTA
*
1485698 TTAAATT-AAAATTCTAAATAATATTTTATAAAAGATC-AAAAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
* *
1485761 TGAAATTATTAAAATAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAATTGAAACAT-A
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
* *
1485825 ATTACATAACTTT-AAAGAAGTATCGATCATTTTTAT-AAAAGTATGGACACTTTCAATATAATA
131 ATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAATATAATA
*
1485888 GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATATGTATCGTTTATATAATGTAAT
196 GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
*
1485953 AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATATTTTTTTCACTGTG
261 AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
1486018 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
326 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
1486083 TCTAATGATTTATTTTTTACGTTACGATATATATTA
391 TCTAATGATTTATTTTTTACGTTACGATATATATTA
* *
1486119 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTGTCGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAA-AATCAAATAATTTTTTGTGCAA
*
1486184 ATGAAATTATTAAATTAATATTGTAGGTGGAAAATATGAAACACTATTAAAAAAAATTGAAACAT
65 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACAT
*
1486249 AAATTACATAACTTTAAAAGAAGTATCGATCTTTTTTATAAAAAGTATAGACACTTTCAATATAT
129 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAATATA-
*
1486314 ATATGTAA
193 ATAGGTAA
1486322 TAGGTAAATT
Statistics
Matches: 1012, Mismatches: 24, Indels: 24
0.95 0.02 0.02
Matches are distributed among these distances:
421 240 0.24
422 69 0.07
423 95 0.09
424 116 0.11
425 303 0.30
426 133 0.13
427 26 0.03
428 23 0.02
429 7 0.01
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (426 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
ATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAATATAATA
GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
TCTAATGATTTATTTTTTACGTTACGATATATATTA
Found at i:1488553 original size:33 final size:33
Alignment explanation
Indices: 1488509--1488584 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
1488499 ATATATATAT
1488509 ATATATAATATTAATAAATTTAATTTAAATAAAA
1 ATATAT-ATATTAATAAATTTAATTTAAATAAAA
* * * *
1488543 ATATATATATTTATATATTTAATTTAAATATAT
1 ATATATATATTAATAAATTTAATTTAAATAAAA
1488576 ATATATATA
1 ATATATATA
1488585 CTCGGCCCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
33 32 0.84
34 6 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (33 bp):
ATATATATATTAATAAATTTAATTTAAATAAAA
Found at i:1488617 original size:12 final size:12
Alignment explanation
Indices: 1488602--1488636 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
1488592 CGATTCTCGG
1488602 CCCAATACCCGA
1 CCCAATACCCGA
*
1488614 CCCAATACCCGG
1 CCCAATACCCGA
1488626 CCCAATACCCG
1 CCCAATACCCG
1488637 TTTAAATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.29, C:0.51, G:0.11, T:0.09
Consensus pattern (12 bp):
CCCAATACCCGA
Found at i:1489097 original size:17 final size:17
Alignment explanation
Indices: 1489057--1489099 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
1489047 TTAATACATA
* *
1489057 TAGTTCATTTAGTTATG
1 TAGTTCATTTAATTAAG
* *
1489074 CACTTCATTTAATTAAG
1 TAGTTCATTTAATTAAG
1489091 TAGTTCATT
1 TAGTTCATT
1489100 AATGCATAAT
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.49
Consensus pattern (17 bp):
TAGTTCATTTAATTAAG
Found at i:1489149 original size:35 final size:36
Alignment explanation
Indices: 1489093--1489187 Score: 108
Period size: 35 Copynumber: 2.7 Consensus size: 36
1489083 TAATTAAGTA
* **
1489093 GTTCATTAATGCATAA-T-GTTCATTCAATG-AAGTTG
1 GTTCATTAATGTA-AACTAGTTCATTC-ATGTAAACTG
1489128 GTTCATTAAT-TAAACTAGTTCATTCATGTAAACTG
1 GTTCATTAATGTAAACTAGTTCATTCATGTAAACTG
*
1489163 GTTCATTCATGTAAACTAGTTCATT
1 GTTCATTAATGTAAACTAGTTCATT
1489188 AATTAAGCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
33 2 0.04
34 5 0.10
35 31 0.60
36 14 0.27
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (36 bp):
GTTCATTAATGTAAACTAGTTCATTCATGTAAACTG
Found at i:1489161 original size:18 final size:18
Alignment explanation
Indices: 1489128--1489187 Score: 95
Period size: 18 Copynumber: 3.4 Consensus size: 18
1489118 AATGAAGTTG
*
1489128 GTTCATTAAT-TAAACTA
1 GTTCATTCATGTAAACTA
*
1489145 GTTCATTCATGTAAACTG
1 GTTCATTCATGTAAACTA
1489163 GTTCATTCATGTAAACTA
1 GTTCATTCATGTAAACTA
1489181 GTTCATT
1 GTTCATT
1489188 AATTAAGCTA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
17 9 0.23
18 30 0.77
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.42
Consensus pattern (18 bp):
GTTCATTCATGTAAACTA
Found at i:1493663 original size:14 final size:14
Alignment explanation
Indices: 1493639--1493673 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1493629 ATTTTCCATC
*
1493639 TCTTC-TCTTCATT
1 TCTTCTTCTTCATA
1493652 TCTTCTTCTTCATA
1 TCTTCTTCTTCATA
1493666 TCTTCTTC
1 TCTTCTTC
1493674 CTCCATCTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 5 0.25
14 15 0.75
ACGTcount: A:0.09, C:0.31, G:0.00, T:0.60
Consensus pattern (14 bp):
TCTTCTTCTTCATA
Found at i:1507381 original size:21 final size:20
Alignment explanation
Indices: 1507355--1507407 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
1507345 TTATAAGGGT
** *
1507355 AGTATCGATACTCATTCATTG
1 AGTATCGATACTCAAGCA-GG
*
1507376 AGTATCAATAC-CAAGCAGG
1 AGTATCGATACTCAAGCAGG
1507395 AGTATCGATACTC
1 AGTATCGATACTC
1507408 CCCATAGGGG
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 11 0.42
20 5 0.19
21 10 0.38
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (20 bp):
AGTATCGATACTCAAGCAGG
Found at i:1507408 original size:177 final size:177
Alignment explanation
Indices: 1507106--1507471 Score: 585
Period size: 177 Copynumber: 2.1 Consensus size: 177
1507096 CAGTAGCGAC
*
1507106 GGTATCGATATTATATGAATAATAATGATATTGTTCGTCAGTCAAACATAAATTAGGCATATTTA
1 GGTATCGATATTATATGAATAATAATGATATTGTTCGTCAGTCAAACATAAATTAGGCACATTTA
* *
1507171 TAAGGGTAGTATCGATACTCATTCATTAAATATCGATACCAGGCAGAAGTATCAATACTCCCCAT
66 TAAGGGTAGTATCGATACTCATTCATTAAATATCAATACCAAGCAGAAGTATCAATACTCCCCAT
*
1507236 AGGGGTATCAATACTAT-GGAAAATTTTAAAACA-ATGAACCTAAATTT
131 AGGGGTATCAAAACT-TGGGAAAATTTTAAAACATA-GAACCTAAATTT
* *
1507283 GGTATCGATATTGTATGAATAAT-ATCGATATTGTTCGTTAGTCAAACATAAATTAGGCACATTT
1 GGTATCGATATTATATGAATAATAAT-GATATTGTTCGTCAGTCAAACATAAATTAGGCACATTT
* * * *
1507347 ATAAGGGTAGTATCGATACTCATTCATTGAGTATCAATACCAAGCAGGAGTATCGATACTCCCCA
65 ATAAGGGTAGTATCGATACTCATTCATTAAATATCAATACCAAGCAGAAGTATCAATACTCCCCA
*
1507412 TAGGGGTATCAAAACTTGGGAAATTTTTAAAACATAGAACCTAAATTT
130 TAGGGGTATCAAAACTTGGGAAAATTTTAAAACATAGAACCTAAATTT
1507460 GGTATCGATATT
1 GGTATCGATATT
1507472 CGATCAATAA
Statistics
Matches: 175, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
176 3 0.02
177 171 0.98
178 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (177 bp):
GGTATCGATATTATATGAATAATAATGATATTGTTCGTCAGTCAAACATAAATTAGGCACATTTA
TAAGGGTAGTATCGATACTCATTCATTAAATATCAATACCAAGCAGAAGTATCAATACTCCCCAT
AGGGGTATCAAAACTTGGGAAAATTTTAAAACATAGAACCTAAATTT
Found at i:1508941 original size:23 final size:23
Alignment explanation
Indices: 1508915--1508958 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1508905 CACCACAGCT
*
1508915 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
1508938 CGTAGAATTGTACCGTAGTGC
1 CGTAGAATTGCACCGAAGTGC
1508959 TATATAATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:1509177 original size:149 final size:149
Alignment explanation
Indices: 1508938--1509241 Score: 572
Period size: 149 Copynumber: 2.0 Consensus size: 149
1508928 CGAAGTGCCA
* *
1508938 CGTAGAATTGTACCGTAGTGCTATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAAT
*
1509003 CATATACATATACTAGGGATCAAGTATGTTTCTTACAAGACTTCACACATGTTCCACAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
1509068 TATATATCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
1509087 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAAT
*
1509152 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACATAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
1509217 TATATATCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
1509236 CGTAGA
1 CGTAGA
1509242 CCCTCTACCC
Statistics
Matches: 151, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 151 1.00
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAAT
CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
TATATATCCCGAAGGACCG
Found at i:1509803 original size:63 final size:63
Alignment explanation
Indices: 1509697--1509855 Score: 203
Period size: 63 Copynumber: 2.5 Consensus size: 63
1509687 TAATGGAGGC
* * * *
1509697 ATGCATCGATGCACTTCTGATGCATCGATGCACTGAGGGCATTCGATGTTCAT-TTTATTAGAA
1 ATGCATCGATGCACTTCTTATGCATCGATGCACTGACGACATTCGATGTTCATATTTA-AAGAA
* ** **
1509760 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTTGTATTTAAATTA
1 ATGCATCGATGCACTTCTTATGCATCGATGCACTGACGACATTCGATGTTCATATTTAAAGAA
* *
1509823 ATGCATCGATGCACTTCATATGCATCAATGCAC
1 ATGCATCGATGCACTTCTTATGCATCGATGCAC
1509856 CTTCAACAAA
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
63 79 0.95
64 4 0.05
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (63 bp):
ATGCATCGATGCACTTCTTATGCATCGATGCACTGACGACATTCGATGTTCATATTTAAAGAA
Found at i:1509847 original size:19 final size:20
Alignment explanation
Indices: 1509823--1509860 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
1509813 ATTTAAATTA
*
1509823 ATGCATCGATGCA-CTTCAT
1 ATGCATCAATGCACCTTCAT
1509842 ATGCATCAATGCACCTTCA
1 ATGCATCAATGCACCTTCA
1509861 ACAAATTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (20 bp):
ATGCATCAATGCACCTTCAT
Found at i:1515980 original size:23 final size:23
Alignment explanation
Indices: 1515954--1515999 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
1515944 CACCACAGCT
*
1515954 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
*
1515977 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
1516000 TATATAATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:1516145 original size:145 final size:145
Alignment explanation
Indices: 1515977--1516272 Score: 551
Period size: 145 Copynumber: 2.0 Consensus size: 145
1515967 CGAAGTGCCA
1515977 CGTAGAATTGCACCGTAGTGCCATAT-ATAATGTCCATAAGGACCACATATTATT-CTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAAT
*
1516040 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
66 C--ATACATATACTAGGGATCAAGTATGTGTCTTAAAAGACTTCACACATGTTCCACAGAATATA
1516105 TATATCCCGAAGGACCG
129 TATATCCCGAAGGACCG
1516122 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAAT
1516187 CATACATATACTAGGGATCAAGTATGTGTCTTAAAAGACTTCACACATGTTCCACAGAATATATA
66 CATACATATACTAGGGATCAAGTATGTGTCTTAAAAGACTTCACACATGTTCCACAGAATATATA
1516252 TATCCCGAAGGACCG
131 TATCCCGAAGGACCG
1516267 CGTAGA
1 CGTAGA
1516273 CCCTCTACCC
Statistics
Matches: 148, Mismatches: 1, Indels: 4
0.97 0.01 0.03
Matches are distributed among these distances:
145 110 0.74
146 28 0.19
147 10 0.07
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (145 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAAT
CATACATATACTAGGGATCAAGTATGTGTCTTAAAAGACTTCACACATGTTCCACAGAATATATA
TATCCCGAAGGACCG
Found at i:1516854 original size:63 final size:63
Alignment explanation
Indices: 1516725--1516880 Score: 179
Period size: 63 Copynumber: 2.5 Consensus size: 63
1516715 TAATGGAGGT
* * * * *
1516725 ATGCATCGATGCACTTCTGATGCATCGATGCACTAAGGGCATTCGATGTTCATTTTATTAGAA
1 ATGCATCGATGCACTTCTTATGCATCGATGAACTAACGACATTCGATGTTCATTTTATAAGAA
* * ** **
1516788 ATGCATCGATGCACTCCTTATGCATCGATGAACTGACGACATTCGATGTTTGTATTTA-AATTA
1 ATGCATCGATGCACTTCTTATGCATCGATGAACTAACGACATTCGATGTTCAT-TTTATAAGAA
* *
1516851 ATGCATCGATGCACTTCATATGGATCGATG
1 ATGCATCGATGCACTTCTTATGCATCGATG
1516881 CACCTTCAAC
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
63 74 0.95
64 4 0.05
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (63 bp):
ATGCATCGATGCACTTCTTATGCATCGATGAACTAACGACATTCGATGTTCATTTTATAAGAA
Found at i:1518110 original size:20 final size:20
Alignment explanation
Indices: 1518085--1518142 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
1518075 CAAGATTGGA
*
1518085 TGGTCTCTATACCGAAAGAC
1 TGGTCTCCATACCGAAAGAC
* *
1518105 TGGTCTCCATATCGAAGGAC
1 TGGTCTCCATACCGAAAGAC
* *
1518125 TAGTATCCATACC-AAAGA
1 TGGTCTCCATACCGAAAGA
1518143 TTGAGCATCT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 4 0.13
20 27 0.87
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (20 bp):
TGGTCTCCATACCGAAAGAC
Found at i:1521492 original size:2 final size:2
Alignment explanation
Indices: 1521485--1521535 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
1521475 TGTTTTAATT
1521485 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1521527 TA TA TA TA T
1 TA TA TA TA T
1521536 GTGTGTGTGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1521723 original size:81 final size:81
Alignment explanation
Indices: 1521631--1522443 Score: 1151
Period size: 81 Copynumber: 10.0 Consensus size: 81
1521621 CTGTTTTAAA
* * *
1521631 TAAAAGATTAATTGTCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATTAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
*
1521696 ATTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * *
1521712 TAAAAGATTAATAGCCTAGTTGTGCATTTGATAGAAATGTGTTAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
1521777 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* *
1521793 TAAAAGATTAATTACCTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
1521858 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
1521874 TAAAAGATTAATTTCCTAGCTATGCATTTGAAAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
*
1521939 ATTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
1521955 TAAAATATTAATCGCCTAGTTGTGCATTTGATAGAAATGTGTCAATTATGCCAGTTAGAGGAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
1522020 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * *
1522036 TAAAAGATTAATTGCCTAGATGTGCATTTGACAAAAAGGTGTCAATTATGCCATTTAGATTAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
*
1522101 GTTAAATACATTTGAG
66 GTTAAATACCTTTGAG
*
1522117 TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGTCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
*
1522182 ATTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * ** * *
1522198 TAAAAGATTAATTACCAACCTGTGCATTTGATAGAAATGTGTCAATTATGCCAGTTATATGAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
*
1522263 GTTAAATGCCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
1522279 TAAAAGATTAATTGCCTAGCTATGCATTTGACAAAAATGTTTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
* * *
1522344 GCTAAATGCCTTTAAG
66 GTTAAATACCTTTGAG
* * * * * * * *
1522360 TTAAATATTAAATGTCTAATTGTGCATTTGGCAGAAATGTGTCAATCT-TACAAGTTAGATGAAA
1 TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAATGTGTCAAT-TATGCCAGTTAGATGAAA
* * *
1522424 GGCTAAATGCCTTTGGG
65 GGTTAAATACCTTTGAG
1522441 TAA
1 TAA
1522444 TGCTTAACAG
Statistics
Matches: 653, Mismatches: 78, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
81 652 1.00
82 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (81 bp):
TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:1546398 original size:177 final size:177
Alignment explanation
Indices: 1546100--1546463 Score: 649
Period size: 177 Copynumber: 2.1 Consensus size: 177
1546090 CAGTAGCGAC
1546100 GGTATCGATACTGTATGAATAATATCGATATTTATCGTCAGTCAAGCATAAATTAGGCACATTTA
1 GGTATCGATACTGTATGAATAATATCGATATTTATCGTCAGTCAAGCATAAATTAGGCACATTTA
* *
1546165 TAATGGTAGTATCAATACTCATTCATTGAGTATCGATACCAGGAAGGAGGATCGATACTCCCCAT
66 TAAGGGAAGTATCAATACTCATTCATTGAGTATCGATACCAGGAAGGAGGATCGATACTCCCCAT
*
1546230 AGGGGTATCAATACTGGGGAAATTTTTAAAACATAGAACCTAAATTT
131 AGGGGTATCAACACTGGGGAAATTTTTAAAACATAGAACCTAAATTT
*
1546277 GGTATCGATACTTTATGAATAATATCGATA-TTATTCGTCAGTCAAGCATAAATTAGGCACATTT
1 GGTATCGATACTGTATGAATAATATCGATATTTA-TCGTCAGTCAAGCATAAATTAGGCACATTT
* *
1546341 ATAAGGGAAGTATCGATACTCATTCATTGAGTATCGATACCAGGAAGGAGTATCGATACTCCCCA
65 ATAAGGGAAGTATCAATACTCATTCATTGAGTATCGATACCAGGAAGGAGGATCGATACTCCCCA
*
1546406 TAGGGGTATCAACACTGGGGAAATTTTTAAAATATAGAACCTAAATTT
130 TAGGGGTATCAACACTGGGGAAATTTTTAAAACATAGAACCTAAATTT
1546454 GGTATCGATA
1 GGTATCGATA
1546464 TTCAATCAAT
Statistics
Matches: 179, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
176 3 0.02
177 176 0.98
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.30
Consensus pattern (177 bp):
GGTATCGATACTGTATGAATAATATCGATATTTATCGTCAGTCAAGCATAAATTAGGCACATTTA
TAAGGGAAGTATCAATACTCATTCATTGAGTATCGATACCAGGAAGGAGGATCGATACTCCCCAT
AGGGGTATCAACACTGGGGAAATTTTTAAAACATAGAACCTAAATTT
Found at i:1547883 original size:20 final size:20
Alignment explanation
Indices: 1547833--1547929 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
1547823 CAAGATTGGA
* *
1547833 TAGTCTCTATACCGAAGGAC
1 TAGTCTCCATACCGAAGAAC
*
1547853 TAGTCTCCATACCGAAGAAT
1 TAGTCTCCATACCGAAGAAC
* * * *
1547873 TATTCTTCATACCAAAGGAC
1 TAGTCTCCATACCGAAGAAC
* * *
1547893 TAATATCCATACCAAAG-AC
1 TAGTCTCCATACCGAAGAAC
*
1547912 TAAGTATCCATACCGAAG
1 T-AGTCTCCATACCGAAG
1547930 GCTCCATATC
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
19 3 0.05
20 60 0.95
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (20 bp):
TAGTCTCCATACCGAAGAAC
Found at i:1549765 original size:17 final size:17
Alignment explanation
Indices: 1549715--1549767 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
1549705 AATAAAGTTG
1549715 GTTCATTAATTAAACTA
1 GTTCATTAATTAAACTA
* ***
1549732 GTTTATTCGCGTAAACTA
1 GTTCATT-AATTAAACTA
1549750 GTTCATTAATTAAACTA
1 GTTCATTAATTAAACTA
1549767 G
1 G
1549768 ATATTTAAAT
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
17 14 0.52
18 13 0.48
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (17 bp):
GTTCATTAATTAAACTA
Found at i:1551669 original size:81 final size:81
Alignment explanation
Indices: 1551531--1551942 Score: 560
Period size: 81 Copynumber: 5.1 Consensus size: 81
1551521 CTGTTTTAAA
* *
1551531 TAAAAGATTAATTGCCTAGTTGTGCATTTGACAGAAAGGTGTCAAATATG-CATGTTAGATGAAA
1 TAAAAGATTAATTGCCTAGTTATGCATTTGACAGAAAGGTGTCAATTATGCCA-GTTAGATGAAA
*
1551595 GATTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
* * * *
1551612 TAAAAGATTAATCGCCTAGTTGTGCATTTTACTGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGTTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1551677 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
*
1551693 TAAAAGATTAATTGCCTAGCTT-TGTATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
1 TAAAAGATTAATTGCCTAG-TTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
*
1551757 AGTTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
* * * *
1551774 TAAAAGATTAATTGTCTAGCTATGCATTTGACAGAAAGGGGTCAATTATACCAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGTTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
* **
1551839 GCTAAACGCCTTTGAG
66 GTTAAATACCTTTGAG
* * * * * * *
1551855 TTAAAGATTAAATGCCTAGCTATGCATTTGGCAAAAAGGTGTCAATCATGCAAGTTAGATGAAAG
1 TAAAAGATTAATTGCCTAGTTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
1551920 GTTAAATGCCTTTG-G
66 GTTAAATACCTTTGAG
1551935 ATAAAAGA
1 -TAAAAGA
1551943 CTAAATGCTT
Statistics
Matches: 296, Mismatches: 31, Indels: 8
0.88 0.09 0.02
Matches are distributed among these distances:
80 2 0.01
81 290 0.98
82 4 0.01
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (81 bp):
TAAAAGATTAATTGCCTAGTTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:1553628 original size:13 final size:13
Alignment explanation
Indices: 1553610--1553634 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1553600 TAGTCATAAA
1553610 ATAATATTTATTT
1 ATAATATTTATTT
1553623 ATAATATTTATT
1 ATAATATTTATT
1553635 ATCTCAAGAT
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:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATAATATTTATTT
Found at i:1553783 original size:12 final size:12
Alignment explanation
Indices: 1553761--1553789 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1553751 TCTATATTTT
1553761 TATTA-CTTTGA
1 TATTATCTTTGA
1553772 TATTATCTTTGA
1 TATTATCTTTGA
1553784 TATTAT
1 TATTAT
1553790 ATAATTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.59
Consensus pattern (12 bp):
TATTATCTTTGA
Found at i:1554245 original size:21 final size:20
Alignment explanation
Indices: 1554218--1554316 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
1554208 AATCAGTTTC
*
1554218 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAATGCGATT-TT
* * *
1554239 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAATGCGAT-TTT
* *
1554260 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAATGCGATTTT
* * *
1554280 CAAGAATCGCAACGCGAATAT
1 CAA-AATCGCAATGCGATTTT
*
1554301 GAAAATCGCAATGCGA
1 CAAAATCGCAATGCGA
1554317 ACACGTAAAT
Statistics
Matches: 60, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
20 16 0.27
21 44 0.73
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.22
Consensus pattern (20 bp):
CAAAATCGCAATGCGATTTT
Found at i:1554343 original size:20 final size:20
Alignment explanation
Indices: 1554284--1554512 Score: 221
Period size: 20 Copynumber: 11.4 Consensus size: 20
1554274 GATTTTCAAG
* ** *
1554284 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
1554304 AATCGCAATGCG-AACACGTA
1 AATCGCAACGCGTATC-CGTA
1554324 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
1554344 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
1554364 AATAGTAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1554384 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1554404 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1554424 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
1554444 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
1554464 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
1554484 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
1554504 AATCACAAC
1 AATCGCAAC
1554513 ACTGAAATTT
Statistics
Matches: 173, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.01
20 169 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:1555235 original size:23 final size:23
Alignment explanation
Indices: 1555206--1555250 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
1555196 AATTTGGTCT
1555206 TGGTCAATATC-CGGACTTTGATA
1 TGGTCAATA-CACGGACTTTGATA
*
1555229 TGGTCAATACACGGATTTTGAT
1 TGGTCAATACACGGACTTTGAT
1555251 GATGTTTCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.36
Consensus pattern (23 bp):
TGGTCAATACACGGACTTTGATA
Found at i:1555442 original size:12 final size:12
Alignment explanation
Indices: 1555425--1555449 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1555415 ATATAATCCT
1555425 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1555437 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1555449 G
1 G
1555450 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1557816 original size:19 final size:19
Alignment explanation
Indices: 1557747--1558008 Score: 278
Period size: 19 Copynumber: 14.7 Consensus size: 19
1557737 GCAACGAGAG
1557747 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1557766 AATCCCAA--C--AA-GAA
1 AATCGCAATGCGAAATGAA
1557780 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
1557800 AATCGTAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1557819 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1557838 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1557852 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
1557872 AATCGCAATGTGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1557891 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1557905 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
1557925 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1557944 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1557958 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
1557978 AATCGCAATGCG-AATGAA
1 AATCGCAATGCGAAATGAA
*
1557996 AATCGCATTGCGA
1 AATCGCAATGCGA
1558009 TTCTCTCGTT
Statistics
Matches: 205, Mismatches: 13, Indels: 50
0.76 0.05 0.19
Matches are distributed among these distances:
14 40 0.20
15 5 0.02
16 4 0.02
17 9 0.04
18 17 0.08
19 79 0.39
20 51 0.25
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1557837 original size:72 final size:72
Alignment explanation
Indices: 1557747--1557985 Score: 287
Period size: 72 Copynumber: 3.4 Consensus size: 72
1557737 GCAACGAGAG
* *
1557747 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGTAATGCG
1 AATCGCAATGCGAAATGAAAATCGCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
1557812 AAATGAA
66 AAATGAA
* * *
1557819 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGTG
1 AATCGCAATGCGAAATGAAAATCGCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
1557884 AAATGAA
66 AAATGAA
* * * * *
1557891 AATCGCAACGAGAGAATCG-CAATGCGGAA-ATGAAAATCGCAATGC-GAAATGAAAATCGCAA-
1 AATCGCAATGCGA-AAT-GAAAAT-CGCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAAT
*
1557952 -CG--A-GAG
63 GCGAAATGAA
1557958 AATCGCAATGCGGAAATGAAAATCGCAA
1 AATCGCAATGC-GAAATGAAAATCGCAA
1557986 TGCGAATGAA
Statistics
Matches: 144, Mismatches: 18, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
66 5 0.03
67 17 0.12
68 3 0.02
70 1 0.01
72 94 0.65
73 19 0.13
74 5 0.03
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (72 bp):
AATCGCAATGCGAAATGAAAATCGCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
AAATGAA
Found at i:1557868 original size:53 final size:53
Alignment explanation
Indices: 1557733--1558002 Score: 394
Period size: 53 Copynumber: 5.1 Consensus size: 53
1557723 CGGAAATTAC
*
1557733 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCCCAA--C--AA-GAA
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
* *
1557780 AATCGCAATGCGGAAATGAAAATCGTAATGC-GAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
*
1557838 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGTGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1557891 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1557944 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCG-AATGAA
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1557996 AATCGCA
1 AATCGCA
1558003 TTGCGATTCT
Statistics
Matches: 204, Mismatches: 7, Indels: 19
0.89 0.03 0.08
Matches are distributed among these distances:
47 8 0.04
49 1 0.00
50 1 0.00
52 26 0.13
53 152 0.75
55 2 0.01
56 1 0.00
57 2 0.01
58 11 0.05
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (53 bp):
AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
Found at i:1558057 original size:19 final size:19
Alignment explanation
Indices: 1558017--1558104 Score: 123
Period size: 19 Copynumber: 4.8 Consensus size: 19
1558007 GATTCTCTCG
1558017 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
1558037 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1558056 TTGCGA--TTC---TCTCA
1 TTGCGATTTTCATTTCGCA
1558070 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1558089 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
1558105 AACATAATGC
Statistics
Matches: 61, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
14 10 0.16
16 3 0.05
17 3 0.05
19 30 0.49
20 15 0.25
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:1558065 original size:53 final size:52
Alignment explanation
Indices: 1557998--1558104 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 52
1557988 CGAATGAAAA
*
1557998 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCATTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1558051 TCGCATTGCGATTCTCTCATTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCATTGCGATTTTCATTTCGCATTGCGATTTTCATT
1558103 TC
1 TC
1558105 AACATAATGC
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 20 0.38
53 33 0.62
ACGTcount: A:0.14, C:0.24, G:0.16, T:0.46
Consensus pattern (52 bp):
TCGCATTGCGATTCTCTCATTGCGATTTTCATTTCGCATTGCGATTTTCATT
Found at i:1558214 original size:14 final size:14
Alignment explanation
Indices: 1558195--1558231 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1558185 CATCAATTAC
1558195 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1558209 ACAAATCATCTTTT
1 ACAAATCAACTTTT
1558223 ACAAATCAA
1 ACAAATCAA
1558232 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1560210 original size:38 final size:37
Alignment explanation
Indices: 1560166--1560322 Score: 152
Period size: 33 Copynumber: 4.4 Consensus size: 37
1560156 CATGAAACTT
*
1560166 AAAATCGCAACGCGAAATGAGAATCGCAACGAC-AAACC
1 AAAATCGCAACGCGAAA-CAGAATCGCAACG-CGAAACC
* **
1560204 AAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAA-CAGAATCGCAACGCGAAACC
1560242 AAAATCGCAA--CG--ACAGAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACAGAATCGCAACGCGAAACC
* **
1560275 AAAATCGCAA--CG--AGAGAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAACAGAATCGCAACGCGAAACC
*
1560308 AAAATCGCAATGCGA
1 AAAATCGCAACGCGA
1560323 TTTTGGTTTC
Statistics
Matches: 104, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
33 57 0.55
34 1 0.01
35 2 0.02
36 2 0.02
37 1 0.01
38 41 0.39
ACGTcount: A:0.46, C:0.25, G:0.20, T:0.08
Consensus pattern (37 bp):
AAAATCGCAACGCGAAACAGAATCGCAACGCGAAACC
Found at i:1560239 original size:57 final size:52
Alignment explanation
Indices: 1560166--1560286 Score: 179
Period size: 52 Copynumber: 2.2 Consensus size: 52
1560156 CATGAAACTT
*
1560166 AAAATCGCAACGCGAAATGAGAATCGCAACGACAAACCAAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATGAAAATCGCAACG----A-CAAAATCGCAACGCGAAACC
*
1560223 AAAATCGCAACGCGAAATGAAAATCGCAACGACAGAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAACC
1560275 AAAATCGCAACG
1 AAAATCGCAACG
1560287 AGAGAATCGC
Statistics
Matches: 62, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
52 31 0.50
53 1 0.02
57 30 0.48
ACGTcount: A:0.47, C:0.27, G:0.18, T:0.07
Consensus pattern (52 bp):
AAAATCGCAACGCGAAATGAAAATCGCAACGACAAAATCGCAACGCGAAACC
Found at i:1560263 original size:14 final size:14
Alignment explanation
Indices: 1560244--1560300 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
1560234 GCGAAATGAA
1560244 AATCGCAACGACAG
1 AATCGCAACGACAG
*
1560258 AATCGCAACGCGAAACCAA
1 AATCGCAA--CG--A-CAG
*
1560277 AATCGCAACGAGAG
1 AATCGCAACGACAG
1560291 AATCGCAACG
1 AATCGCAACG
1560301 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.44, C:0.28, G:0.21, T:0.07
Consensus pattern (14 bp):
AATCGCAACGACAG
Found at i:1560267 original size:33 final size:33
Alignment explanation
Indices: 1560225--1560317 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
1560215 GCGAAACCAA
1560225 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
** *
1560258 AATCGCAACGCGAAACCAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1560291 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
1560318 TGCGATTTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.46, C:0.25, G:0.20, T:0.09
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:1560314 original size:52 final size:52
Alignment explanation
Indices: 1560184--1560322 Score: 158
Period size: 52 Copynumber: 2.7 Consensus size: 52
1560174 AACGCGAAAT
* *
1560184 GAGAATCGCAACGAC-AAACCAAAATCGCAACGCGAAACCAAAATCGCAACGC
1 GAGAATCGCAACG-CGAAACGAAAATCGCAACGCGAAACCAAAATCGCAACGA
* ** *
1560236 GA-AAT-GAAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGA
1 GAGAATCGCAACGCGAAACGA-A-AATCGCAACGCGAAACCAAAATCGCAACGA
* *
1560288 GAGAATCGCAACGCGAAATGAAAATCGCAATGCGA
1 GAGAATCGCAACGCGAAACGAAAATCGCAACGCGA
1560323 TTTTGGTTTC
Statistics
Matches: 70, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
49 1 0.01
50 7 0.10
51 4 0.06
52 45 0.64
53 4 0.06
54 9 0.13
ACGTcount: A:0.46, C:0.26, G:0.20, T:0.08
Consensus pattern (52 bp):
GAGAATCGCAACGCGAAACGAAAATCGCAACGCGAAACCAAAATCGCAACGA
Found at i:1560315 original size:19 final size:19
Alignment explanation
Indices: 1560166--1560322 Score: 138
Period size: 19 Copynumber: 8.8 Consensus size: 19
1560156 CATGAAACTT
*
1560166 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAACG
* *
1560185 AGAATCGCAACGAC-AAACC
1 AAAATCGCAACG-CGAAACG
*
1560204 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACG
*
1560223 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAACG
1560242 AAAATCGCAA--CG--AC-
1 AAAATCGCAACGCGAAACG
* *
1560256 AGAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAACG
1560275 AAAATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAACG
* *
1560289 AGAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAACG
*
1560308 AAAATCGCAATGCGA
1 AAAATCGCAACGCGA
1560323 TTTTGGTTTC
Statistics
Matches: 113, Mismatches: 13, Indels: 24
0.75 0.09 0.16
Matches are distributed among these distances:
14 18 0.16
15 2 0.02
16 4 0.04
17 4 0.04
18 4 0.04
19 80 0.71
20 1 0.01
ACGTcount: A:0.46, C:0.25, G:0.20, T:0.08
Consensus pattern (19 bp):
AAAATCGCAACGCGAAACG
Found at i:1560371 original size:19 final size:18
Alignment explanation
Indices: 1560318--1560408 Score: 74
Period size: 19 Copynumber: 5.4 Consensus size: 18
1560308 AAAATCGCAA
1560318 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
1560337 TGCGA-TTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
1560350 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
1560369 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
1560383 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
1560402 TGCGATT
1 TGCGATT
1560409 CTCTCGTTGC
Statistics
Matches: 58, Mismatches: 3, Indels: 22
0.70 0.04 0.27
Matches are distributed among these distances:
13 8 0.14
14 14 0.24
15 2 0.03
16 1 0.02
17 3 0.05
18 4 0.07
19 26 0.45
ACGTcount: A:0.08, C:0.18, G:0.29, T:0.46
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:1560385 original size:14 final size:14
Alignment explanation
Indices: 1560334--1560422 Score: 54
Period size: 14 Copynumber: 5.7 Consensus size: 14
1560324 TTTGGTTTCG
1560334 CGTTGCGATT-TGT
1 CGTTGCGATTCTGT
*
1560347 CGTTGCGATTTTGGTTT
1 CGTTGCGATTCT-G--T
1560364 CGCGTTGCGATTCTGT
1 --CGTTGCGATTCTGT
*
1560380 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TGT
*
1560397 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTGT
1560413 CGTTGCGATT
1 CGTTGCGATT
1560423 TTAAGTTTCG
Statistics
Matches: 62, Mismatches: 3, Indels: 21
0.72 0.03 0.24
Matches are distributed among these distances:
13 10 0.16
14 19 0.31
15 1 0.02
16 6 0.10
17 6 0.10
18 1 0.02
19 19 0.31
ACGTcount: A:0.08, C:0.20, G:0.27, T:0.45
Consensus pattern (14 bp):
CGTTGCGATTCTGT
Found at i:1560386 original size:33 final size:33
Alignment explanation
Indices: 1560318--1560440 Score: 185
Period size: 33 Copynumber: 3.7 Consensus size: 33
1560308 AAAATCGCAA
1560318 TGCGATTTTGGTTTCGCGTTGCGATT-TGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1560350 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** *
1560383 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* *
1560416 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
1560441 AAGTAAACTA
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
32 26 0.31
33 45 0.54
34 12 0.14
ACGTcount: A:0.09, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:1560604 original size:83 final size:87
Alignment explanation
Indices: 1560488--1560760 Score: 315
Period size: 93 Copynumber: 3.1 Consensus size: 87
1560478 ATGGATTGCA
* * **
1560488 TTAC-TTCAACCAATAGACAAAACAAAGATAAATACTGACTT-CAG-G-G-TA-TTAGTTTAGCA
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACT-ACTTACAGTGAGATACACAGTTTAGCA
1560547 GAATTGGCAGCAACCGAACAAAT
65 GAATTGGCAGCAACCGAACAAAT
*
1560570 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTACTT-ACAGTG----AG-ATACACAGTT
1560635 TAGCAGAATTGGCAGCAACCGAACAAAT
60 TAGCAGAATTGGCAGCAACCGAACAAAT
*
1560663 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTACTT-ACAGTG----AG-ATACACAGTT
* *
1560728 TAGCAGAATTGGCACCAACCGAATAAAT
60 TAGCAGAATTGGCAGCAACCGAACAAAT
1560756 TTACT
1 TTACT
1560761 AAGCAATCTA
Statistics
Matches: 172, Mismatches: 7, Indels: 13
0.90 0.04 0.07
Matches are distributed among these distances:
82 7 0.04
83 30 0.17
84 3 0.02
85 1 0.01
90 1 0.01
92 2 0.01
93 128 0.74
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.23
Consensus pattern (87 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTACTTACAGTGAGATACACAGTTTAGCAG
AATTGGCAGCAACCGAACAAAT
Found at i:1560697 original size:93 final size:93
Alignment explanation
Indices: 1560538--1560760 Score: 428
Period size: 93 Copynumber: 2.4 Consensus size: 93
1560528 TCAGGGTATT
1560538 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1560603 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
1560631 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1560696 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
* *
1560724 AGTTTAGCAGAATTGGCACCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
1560761 AAGCAATCTA
Statistics
Matches: 128, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 128 1.00
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:1562520 original size:33 final size:33
Alignment explanation
Indices: 1562483--1562564 Score: 137
Period size: 33 Copynumber: 2.5 Consensus size: 33
1562473 CACAACGAGA
* *
1562483 GAAATGAAAATCGTAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCACAACGC
1562516 GAAATGAAAATCGCAACGAGAGAATCACAACGC
1 GAAATGAAAATCGCAACGAGAGAATCACAACGC
*
1562549 AAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
1562565 TGCGATTTTG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.50, C:0.18, G:0.21, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCACAACGC
Found at i:1562529 original size:19 final size:19
Alignment explanation
Indices: 1562505--1562569 Score: 59
Period size: 19 Copynumber: 3.7 Consensus size: 19
1562495 GTAACGAGAG
1562505 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
1562524 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
* *
1562538 AATCACAACGCAAAATGAA
1 AATCGCAACGCGAAATGAA
*
1562557 AATCGCAATGCGA
1 AATCGCAACGCGA
1562570 TTTTGGTTTC
Statistics
Matches: 34, Mismatches: 7, Indels: 10
0.67 0.14 0.20
Matches are distributed among these distances:
14 9 0.26
15 1 0.03
16 1 0.03
17 2 0.06
18 1 0.03
19 20 0.59
ACGTcount: A:0.48, C:0.22, G:0.20, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:1562600 original size:14 final size:14
Alignment explanation
Indices: 1562581--1562637 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1562571 TTTGGTTTCG
1562581 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1562595 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1562614 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1562628 CGTTGCGATT
1 CGTTGCGATT
1562638 TTCATTTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1562613 original size:33 final size:33
Alignment explanation
Indices: 1562565--1562644 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
1562555 AAAATCGCAA
**
1562565 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1562598 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1562631 TGCGATTTTCATTT
1 TGCGATTTTCATTT
1562645 TTCTCGTTGC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.09, C:0.21, G:0.23, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:1562650 original size:21 final size:21
Alignment explanation
Indices: 1562625--1562696 Score: 92
Period size: 21 Copynumber: 3.4 Consensus size: 21
1562615 GTTGCGATTC
1562625 TCTCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
**
1562646 TCTCGTTGCAGATAGTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
* *
1562667 TCACGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTT
1562688 TCTCGTTGC
1 TCTCGTTGC
1562697 AACTCTTCTG
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
20 6 0.14
21 30 0.71
22 6 0.14
ACGTcount: A:0.14, C:0.21, G:0.17, T:0.49
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:1562820 original size:33 final size:33
Alignment explanation
Indices: 1562778--1562848 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
1562768 AATACTAACT
1562778 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
1562811 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1562844 TGAAA
1 TGAAA
1562849 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:1563253 original size:20 final size:20
Alignment explanation
Indices: 1563228--1563379 Score: 189
Period size: 20 Copynumber: 7.6 Consensus size: 20
1563218 CTTTAAAAAT
1563228 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1563248 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1563268 CACATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
1563288 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1563308 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
1563328 CGCATTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
1563348 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
1563368 CGCGTTGCGATT
1 CGCGTTGCGATT
1563380 CTGTAAAATC
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
20 113 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1563379 original size:60 final size:60
Alignment explanation
Indices: 1563227--1563379 Score: 209
Period size: 60 Copynumber: 2.5 Consensus size: 60
1563217 GCTTTAAAAA
*
1563227 TCGCGTTGCGATTTACGGATACGCGTTGCGATATACGGATACACATTGCGATTTACGGAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACACATTGCGATTTACGGAT
* * * *
1563287 ACGCGTTGCGATTTACGGATACACGTTGCGATTTACGGATACGCATTGCGATTTATGTG-T
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACACATTGCGATTTACG-GAT
* ** *
1563347 TCGCGTTGCGATTTTCATATTCGCGTTGCGATT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATT
1563380 CTGTAAAATC
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
60 80 0.99
61 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (60 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACACATTGCGATTTACGGAT
Found at i:1563397 original size:21 final size:20
Alignment explanation
Indices: 1563373--1563443 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 20
1563363 ATATTCGCGT
1563373 TGCGATTCTGTAAAATCGCAA
1 TGCGATT-TGTAAAATCGCAA
** *
1563394 TGCGAATTTGTACTATCGCAT
1 TGCG-ATTTGTAAAATCGCAA
**
1563415 TGCGA-TTGTCAAGAATCGCGT
1 TGCGATTTGT-AA-AATCGCAA
1563436 TGCGATTT
1 TGCGATTT
1563444 TGGAAACTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
19 4 0.10
20 2 0.05
21 29 0.73
22 5 0.12
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (20 bp):
TGCGATTTGTAAAATCGCAA
Found at i:1564405 original size:12 final size:12
Alignment explanation
Indices: 1564382--1564411 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1564372 ATCTACATTT
1564382 ATATTA-CTTTG
1 ATATTATCTTTG
1564393 ATATTATCTTTG
1 ATATTATCTTTG
1564405 ATATTAT
1 ATATTAT
1564412 ATAATTATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.33
12 12 0.67
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (12 bp):
ATATTATCTTTG
Found at i:1564704 original size:17 final size:16
Alignment explanation
Indices: 1564681--1564722 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
1564671 GTATCTTCTG
*
1564681 AATATTTAAAATTATT
1 AATATTTAAAATAATT
1564697 ATATATTTAAAATAATT
1 A-ATATTTAAAATAATT
1564714 AAT-TTTAAA
1 AATATTTAAA
1564723 TTTTTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 6 0.25
16 3 0.12
17 15 0.62
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATATTTAAAATAATT
Found at i:1564738 original size:23 final size:24
Alignment explanation
Indices: 1564702--1564748 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
1564692 TTATTATATA
*
1564702 TTTAAAATAATT-AATTTTAAATT
1 TTTAAAATAATTAAAATTTAAATT
**
1564725 TTTAAAATTTTTAAAATTTAAATT
1 TTTAAAATAATTAAAATTTAAATT
1564749 CACTTCTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TTTAAAATAATTAAAATTTAAATT
Found at i:1565852 original size:103 final size:100
Alignment explanation
Indices: 1565571--1565869 Score: 320
Period size: 101 Copynumber: 2.9 Consensus size: 100
1565561 AATTCATACT
* * *
1565571 ATAAAAATATATAGTACTTAACACATACTTACATCAATATAATGAATAAAATAAAAAAATTATAG
1 ATAAAAATATATA-TAATTAACACATACTTACATCAGTATAATGAATAAAAT-AAAAAAGTATAG
*** *
1565636 CACTTAATATATACTTATGCCGATGT-GGTGAATAAA
64 CACTTAATATATACTTATATTGATGTAAGTGAATAAA
* *
1565672 ATAAAAA-AT-TATAACACTTAACACATATTTACATCGGTATAAATGAATAAAATAAAAAAGTAT
1 ATAAAAATATATAT-A-A-TTAACACATACTTACATCAGTAT-AATGAATAAAATAAAAAAGTAT
* * * *
1565735 AACAATTAACATATACTTACATTGATGTAAGTGAATAAA
62 AGCACTTAATATATACTTATATTGATGTAAGTGAATAAA
* *
1565774 ATAAAATATATATATAATGTAACACATACTTACACCAGTGTAAGTGAATAAAAT-AAAAA-TATA
1 ATAAAA-ATATATATAAT-TAACACATACTTACATCAGTATAA-TGAATAAAATAAAAAAGTATA
*
1565837 GCACTTTATATATATACTTATATTGGTGTAAGT
63 GCAC-TTA-ATATATACTTATATTGATGTAAGT
1565870 ATGTACATCT
Statistics
Matches: 164, Mismatches: 22, Indels: 22
0.79 0.11 0.11
Matches are distributed among these distances:
98 1 0.01
99 3 0.02
100 2 0.01
101 63 0.38
102 38 0.23
103 51 0.31
104 3 0.02
105 3 0.02
ACGTcount: A:0.49, C:0.10, G:0.09, T:0.31
Consensus pattern (100 bp):
ATAAAAATATATATAATTAACACATACTTACATCAGTATAATGAATAAAATAAAAAAGTATAGCA
CTTAATATATACTTATATTGATGTAAGTGAATAAA
Found at i:1565866 original size:51 final size:51
Alignment explanation
Indices: 1565586--1565869 Score: 229
Period size: 51 Copynumber: 5.6 Consensus size: 51
1565576 AATATATAGT
* ** * *
1565586 ACTTAACACATACTTACATCAATATAA-TGAATAAAATAAAAAAATTATAGC
1 ACTTAACATATACTTACATCGGTGTAAGTGAATAAAAT-AAAAAATTATAAC
* *** * *
1565637 ACTTAATATATACTTATGCCGATGT-GGTGAATAAAATAAAAAATTATAAC
1 ACTTAACATATACTTACATCGGTGTAAGTGAATAAAATAAAAAATTATAAC
* * * * *
1565687 ACTTAACACATATTTACATCGGTATAAATGAATAAAATAAAAAAGTATAAC
1 ACTTAACATATACTTACATCGGTGTAAGTGAATAAAATAAAAAATTATAAC
* * * *
1565738 AATTAACATATACTTACATTGATGTAAGTGAATAAAATAAAATATATATATA-
1 ACTTAACATATACTTACATCGGTGTAAGTGAATAAAATAAAAAAT-TATA-AC
* * * *
1565790 A-TGTAACACATACTTACACCAGTGTAAGTGAATAAAAT-AAAAA-TATAGC
1 ACT-TAACATATACTTACATCGGTGTAAGTGAATAAAATAAAAAATTATAAC
* * *
1565839 ACTTTATATATATACTTATATTGGTGTAAGT
1 AC-TTA-ACATATACTTACATCGGTGTAAGT
1565870 ATGTACATCT
Statistics
Matches: 182, Mismatches: 42, Indels: 18
0.75 0.17 0.07
Matches are distributed among these distances:
49 5 0.03
50 31 0.17
51 110 0.60
52 35 0.19
53 1 0.01
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.31
Consensus pattern (51 bp):
ACTTAACATATACTTACATCGGTGTAAGTGAATAAAATAAAAAATTATAAC
Found at i:1566059 original size:49 final size:49
Alignment explanation
Indices: 1565967--1566060 Score: 120
Period size: 49 Copynumber: 1.9 Consensus size: 49
1565957 CAAATTTTAT
* * *
1565967 TAAAAATATATATAAATTATAAATAATAAGAAATTTTATTTTATTTGTG
1 TAAAAATATATATAAATTAGAAATAATAAGAAAATTTAATTTATTTGTG
*
1566016 TAAAAATATA-ATAAATTAGAAAT-ATAATTATAAATTTAATTTATT
1 TAAAAATATATATAAATTAGAAATAATAA-GA-AAATTTAATTTATT
1566061 AACGGTTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
47 4 0.10
48 13 0.33
49 22 0.56
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (49 bp):
TAAAAATATATATAAATTAGAAATAATAAGAAAATTTAATTTATTTGTG
Found at i:1566596 original size:27 final size:27
Alignment explanation
Indices: 1566559--1566610 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
1566549 TCGTTTACAT
1566559 TATGTCATTGAGCCAA-TTCTTAAAACA
1 TATGTCATTGAG-CAAGTTCTTAAAACA
* *
1566586 TATGTCGTTGAGTAAGTTCTTAAAA
1 TATGTCATTGAGCAAGTTCTTAAAA
1566611 GCAACGGCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.09
27 20 0.91
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (27 bp):
TATGTCATTGAGCAAGTTCTTAAAACA
Found at i:1568705 original size:27 final size:27
Alignment explanation
Indices: 1568675--1568727 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
1568665 ATTCTCCCTC
* * *
1568675 CCCTTTGCATGTGCTTTCCCCATCATT
1 CCCTTCGCATGTGCTCTCCACATCATT
*
1568702 CCCTTCGCCTGTGCTCTCCACATCAT
1 CCCTTCGCATGTGCTCTCCACATCAT
1568728 CCCATGCTTC
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:0.11, C:0.42, G:0.11, T:0.36
Consensus pattern (27 bp):
CCCTTCGCATGTGCTCTCCACATCATT
Found at i:1569130 original size:20 final size:20
Alignment explanation
Indices: 1569077--1569157 Score: 60
Period size: 20 Copynumber: 4.2 Consensus size: 20
1569067 TTCATCCGAA
*
1569077 AAAAAAACCCAGTTTTTT--
1 AAAAAAATCCAGTTTTTTCC
**
1569095 AAAAAAAT-TGGATTTTTTCC
1 AAAAAAATCCAG-TTTTTTCC
* **
1569115 GAAAAAATCCAGTTTTTTTT
1 AAAAAAATCCAGTTTTTTCC
* *
1569135 AAAAAAATCGAGTTTTTTGC
1 AAAAAAATCCAGTTTTTTCC
1569155 AAA
1 AAA
1569158 CCGAAACCGG
Statistics
Matches: 47, Mismatches: 12, Indels: 6
0.72 0.18 0.09
Matches are distributed among these distances:
17 1 0.02
18 13 0.28
20 32 0.68
21 1 0.02
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.37
Consensus pattern (20 bp):
AAAAAAATCCAGTTTTTTCC
Found at i:1569447 original size:21 final size:21
Alignment explanation
Indices: 1569421--1569461 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
1569411 TTTAAGATTT
1569421 AAAAAAAAAGATTATTTTTTCA
1 AAAAAAAAAG-TTATTTTTTCA
1569443 AAAAAAAAAGTTATTTTTT
1 AAAAAAAAAGTTATTTTTT
1569462 ATTTTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (21 bp):
AAAAAAAAAGTTATTTTTTCA
Found at i:1581838 original size:39 final size:39
Alignment explanation
Indices: 1581784--1581889 Score: 124
Period size: 39 Copynumber: 2.7 Consensus size: 39
1581774 TACCGAGTCA
* * *
1581784 AAGAC-TCTAAGCTTACCTGGCGTCTTCAACCCAACTAGG
1 AAGACTTC-AAGCTTACCTGACGTCTTCAACCAAAATAGG
**
1581823 AAGACTTCAAGCTTACCTGACGTCTTCAAGTAAAATAGG
1 AAGACTTCAAGCTTACCTGACGTCTTCAACCAAAATAGG
* * *
1581862 AAGACTACAAGCTTACTTGACGTTTTCA
1 AAGACTTCAAGCTTACCTGACGTCTTCA
1581890 GTCTAGAGTA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
39 56 0.97
40 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (39 bp):
AAGACTTCAAGCTTACCTGACGTCTTCAACCAAAATAGG
Found at i:1584461 original size:2 final size:2
Alignment explanation
Indices: 1584454--1584485 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1584444 TTCCTAATTA
1584454 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1584486 TGAATTTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1585051 original size:22 final size:24
Alignment explanation
Indices: 1585023--1585066 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
1585013 GAACAAAGAC
1585023 AAATGATAAAATT-TTT-AAATGT
1 AAATGATAAAATTATTTCAAATGT
*
1585045 AAATGATTAAATTATTTCAAAT
1 AAATGATAAAATTATTTCAAAT
1585067 TACAACCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 3 0.16
24 4 0.21
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (24 bp):
AAATGATAAAATTATTTCAAATGT
Found at i:1585433 original size:31 final size:32
Alignment explanation
Indices: 1585390--1585450 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
1585380 AGGGATAAAT
1585390 TATGTTTTTAGTA-CATAAACTATCAATTTTGA
1 TATGTTTTTAGTATC-TAAACTATCAATTTTGA
* *
1585422 TATG-TTTTAGTATCTAATCTTTCAATTTT
1 TATGTTTTTAGTATCTAAACTATCAATTTT
1585451 TTCAAAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (32 bp):
TATGTTTTTAGTATCTAAACTATCAATTTTGA
Found at i:1586717 original size:65 final size:65
Alignment explanation
Indices: 1586598--1586827 Score: 217
Period size: 65 Copynumber: 3.6 Consensus size: 65
1586588 TTTTTCAGAG
* * *
1586598 TGATGCACCGATGCAC-CAATCCATGCATCGATGCAC-CATGA-ATTAAATTG-AACATCGAATG
1 TGATGCATCGATGCACTC-ATCCATGCACCGATGCACTCAGGATATT---TTGAAACATCGAATG
1586659 CATT
62 CATT
* * *
1586663 TCATGCATCGATGCACTTA-CCATGCACCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCA
1 TGATGCATCGATGCACTCATCCATGCACCGATGCACTCAGGATATTT-TG-AAACATCGAATGCA
1586726 TT
64 TT
* * * * *
1586728 TGATGCATCGATGCAC-CATCTATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACT
1 TGATGCATCGATGCACTCATCCATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
* *
1586792 TGATGCATCAATGCACTC-T-TAGTGCACCGATGCACT
1 TGATGCATCGATGCACTCATCCA-TGCACCGATGCACT
1586828 AAGGGTCCAA
Statistics
Matches: 139, Mismatches: 16, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 60 0.43
65 71 0.51
66 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (65 bp):
TGATGCATCGATGCACTCATCCATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
Found at i:1592691 original size:20 final size:20
Alignment explanation
Indices: 1592668--1592731 Score: 110
Period size: 20 Copynumber: 3.2 Consensus size: 20
1592658 TGTGCATTGG
1592668 TGCACGGGGTCATGCATCGA
1 TGCACGGGGTCATGCATCGA
*
1592688 TGCACGGGGTCATGCATTGA
1 TGCACGGGGTCATGCATCGA
*
1592708 TGCACGGGGTCATGTATCGA
1 TGCACGGGGTCATGCATCGA
1592728 TGCA
1 TGCA
1592732 TCCGTCGGGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.20, C:0.22, G:0.34, T:0.23
Consensus pattern (20 bp):
TGCACGGGGTCATGCATCGA
Found at i:1594834 original size:2 final size:2
Alignment explanation
Indices: 1594827--1594859 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1594817 CAGCTTAAGC
1594827 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1594860 CAATTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1597126 original size:18 final size:17
Alignment explanation
Indices: 1597099--1597133 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1597089 CATTCAAGAA
1597099 CTCAAAATCTTTAATCT
1 CTCAAAATCTTTAATCT
*
1597116 CTCATAAATCTTTCATCT
1 CTCA-AAATCTTTAATCT
1597134 TGTTGTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.31, C:0.26, G:0.00, T:0.43
Consensus pattern (17 bp):
CTCAAAATCTTTAATCT
Found at i:1598755 original size:12 final size:12
Alignment explanation
Indices: 1598738--1598762 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1598728 TTGACTTCTA
1598738 CCTCTACCTCTT
1 CCTCTACCTCTT
1598750 CCTCTACCTCTT
1 CCTCTACCTCTT
1598762 C
1 C
1598763 TCCTCTGAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.52, G:0.00, T:0.40
Consensus pattern (12 bp):
CCTCTACCTCTT
Found at i:1600830 original size:16 final size:17
Alignment explanation
Indices: 1600799--1600832 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1600789 CCATGGGCAT
*
1600799 TATTCTTGTGTTTCATG
1 TATTCATGTGTTTCATG
1600816 TATTCATGT-TTTCATG
1 TATTCATGTGTTTCATG
1600832 T
1 T
1600833 CATTTCTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.59
Consensus pattern (17 bp):
TATTCATGTGTTTCATG
Found at i:1602269 original size:64 final size:65
Alignment explanation
Indices: 1602143--1602269 Score: 177
Period size: 64 Copynumber: 2.0 Consensus size: 65
1602133 CAATGCACTT
* *
1602143 ACCATGCACCGATGCACTGAGGATTTTATGAAAACATCGAATGCATTTGATGCATCGATGCACCA
1 ACCATGCACCGATGCACTCAGGATTTTATGAAAACATCGAATGCACTTGATGCATCGATGCACCA
* * * *
1602208 ACCATGCATCGATGCACTCTGGCTATTT-TG-AAACATCGAATGCACTTGATGCATCGTTGCAC
1 ACCATGCACCGATGCACTCAGGAT-TTTATGAAAACATCGAATGCACTTGATGCATCGATGCAC
1602270 TCTTAGTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
64 30 0.55
65 22 0.40
66 3 0.05
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (65 bp):
ACCATGCACCGATGCACTCAGGATTTTATGAAAACATCGAATGCACTTGATGCATCGATGCACCA
Found at i:1605008 original size:12 final size:12
Alignment explanation
Indices: 1604963--1605007 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
1604953 AGTCTTTTTT
1604963 TATT-TTATTTA
1 TATTATTATTTA
1604974 TATTATTATTTA
1 TATTATTATTTA
*
1604986 TAATATTA-TTA
1 TATTATTATTTA
1604997 TTATTATTATT
1 -TATTATTATT
1605008 AATTACAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 7 0.24
12 21 0.72
13 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TATTATTATTTA
Found at i:1606702 original size:2 final size:2
Alignment explanation
Indices: 1606695--1606722 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1606685 TTGCATATTC
1606695 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1606723 TACCAATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1612134 original size:16 final size:16
Alignment explanation
Indices: 1612113--1612150 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
1612103 TCGAGAAAAC
**
1612113 ATACATCAATGCATAT
1 ATACATCAACACATAT
1612129 ATACATCAACACATAT
1 ATACATCAACACATAT
1612145 ATACAT
1 ATACAT
1612151 ATTACATGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.21, G:0.03, T:0.29
Consensus pattern (16 bp):
ATACATCAACACATAT
Found at i:1612765 original size:107 final size:103
Alignment explanation
Indices: 1612496--1612813 Score: 379
Period size: 107 Copynumber: 3.0 Consensus size: 103
1612486 ATTTTGAGAA
* ** * *
1612496 TTTTAAAACAAATTTCATCTCAATTGAGACATTTTTCCTTTAAGATACAAAATTT-GAATTTGTT
1 TTTTAAAACAAATTTCGTCTTGATTGAGACATTTTTCCTTTGAGATAC-AAATTTCGAATTTGAT
*
1612560 TCACATTAAACAAAGTTGATCTCAGTTGAGATCGCTTTC
65 TCACATTAAACAAAGTTGATCTCACTTGAGATCGCTTTC
* * * *
1612599 TCTTAAAACAAACTTCGTCTTGCTTGAGACATTTTTTTTCCTTTGATATACAAATTTCGAATTTG
1 TTTTAAAACAAATTTCGTCTTGATTGAGACA---TTTTTCCTTTGAGATACAAATTTCGAATTTG
* * * * *
1612664 ATTCAC-TTGAAACAAAAATTAATCTCACTTGAGATTGTTATTT
63 ATTCACATT-AAAC-AAAGTTGATCTCACTTGAGATCGCT-TTC
*
1612707 TTTTCAAAACAAATTTCGTCTTGTTTGAGACATTTTTCCTTTGAGAATACAAATTTCGAATTTGA
1 TTTT-AAAACAAATTTCGTCTTGATTGAGACATTTTTCCTTTGAG-ATACAAATTTCGAATTTGA
*
1612772 TTTCACATTAAACAAAGTTGATCTCACTTGAGATCGTTTTC
64 -TTCACATTAAACAAAGTTGATCTCACTTGAGATCGCTTTC
1612813 T
1 T
1612814 CAAAAAACAA
Statistics
Matches: 181, Mismatches: 23, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
103 25 0.14
105 8 0.04
106 46 0.25
107 61 0.34
108 14 0.08
109 27 0.15
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.42
Consensus pattern (103 bp):
TTTTAAAACAAATTTCGTCTTGATTGAGACATTTTTCCTTTGAGATACAAATTTCGAATTTGATT
CACATTAAACAAAGTTGATCTCACTTGAGATCGCTTTC
Found at i:1612856 original size:36 final size:36
Alignment explanation
Indices: 1612781--1612919 Score: 154
Period size: 36 Copynumber: 3.8 Consensus size: 36
1612771 ATTTCACATT
** *
1612781 AAACAAA-GTTGATCTCACTTGAGATCGTTTTCTCAAA
1 AAACAAATGTTG-TCTCACTTGAGA-CAATTTCTCTAA
* *
1612818 AAACAAACGTTGTCTCGCTTGAGACAATTTCTCTAA
1 AAACAAATGTTGTCTCACTTGAGACAATTTCTCTAA
* * * **
1612854 AAATAATTTTTGTCTCGTTTGAGACAATTTCTCTAA
1 AAACAAATGTTGTCTCACTTGAGACAATTTCTCTAA
*
1612890 AAACAAATGTTGTCCCACTTGAGACAATTT
1 AAACAAATGTTGTCTCACTTGAGACAATTT
1612920 TCCAAATTAT
Statistics
Matches: 86, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
36 64 0.74
37 18 0.21
38 4 0.05
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.35
Consensus pattern (36 bp):
AAACAAATGTTGTCTCACTTGAGACAATTTCTCTAA
Found at i:1613146 original size:99 final size:100
Alignment explanation
Indices: 1612987--1613166 Score: 247
Period size: 99 Copynumber: 1.8 Consensus size: 100
1612977 GAAACAAAGG
* * * *
1612987 ATCTTTGAGTCTATTTCTTTTAAAACAAAACTTTGTCTCTCTTGAGACAGATTTTATTGAAA-AA
1 ATCTTTGAGTATATTTATTTGAAAACAAAACTTTGTCTCTCTTGAGAAAGATTTTATTGAAAGAA
1613051 TCTTTGAGCATGTTTCACCTAAAACAAAATGAAAA
66 TCTTTGAGCATGTTTCACCTAAAACAAAATGAAAA
* * * * *
1613086 ATCTTTGAGTATGTTTATTTGATAACAAAATTTTGTCTCTTTTGAGAAAG-TTTCTTTTGAAAGA
1 ATCTTTGAGTATATTTATTTGAAAACAAAACTTTGTCTCTCTTGAGAAAGATTT-TATTGAAAGA
*
1613150 ATCTTTGAGTATGTTTC
65 ATCTTTGAGCATGTTTC
1613167 TTTGGAAAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
98 3 0.04
99 49 0.71
100 17 0.25
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.42
Consensus pattern (100 bp):
ATCTTTGAGTATATTTATTTGAAAACAAAACTTTGTCTCTCTTGAGAAAGATTTTATTGAAAGAA
TCTTTGAGCATGTTTCACCTAAAACAAAATGAAAA
Found at i:1613154 original size:64 final size:60
Alignment explanation
Indices: 1613080--1613270 Score: 195
Period size: 64 Copynumber: 3.0 Consensus size: 60
1613070 TAAAACAAAA
*
1613080 TGAAAAATCTTTGAGTATGTTTATTTGATAACAAAATTTTGTCTCTTTTGAGAAAGTTTCTTT
1 TGAAAAATCTTTGAGTATGTTT-TTTGA-AACAAAAATTTGTCTCTTTTGAGAAA-TTTCTTT
*
1613143 TGAAAGAATCTTTGAGTATGTTTCTTTGGAAA-AAAAATTTGTCTCTTTTTGAGACATTTCCTTT
1 TGAAA-AATCTTTGAGTATGTTT-TTT-GAAACAAAAATTTGTCTC-TTTTGAGAAATTT-CTTT
* * **
1613207 TGAAGAAAAATCTTTAAGTCTGTTTTTATGAAAACAAAGGTTTGTCTCTTTTGAGACAATTTCT
1 T---GAAAAATCTTTGAGTATGTTTTT-TG-AAACAAAAATTTGTCTCTTTTGAGA-AATTTCT
1613271 CTTAAAACAA
Statistics
Matches: 109, Mismatches: 8, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
63 20 0.18
64 36 0.33
65 5 0.05
66 29 0.27
67 19 0.17
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (60 bp):
TGAAAAATCTTTGAGTATGTTTTTTGAAACAAAAATTTGTCTCTTTTGAGAAATTTCTTT
Found at i:1613183 original size:27 final size:27
Alignment explanation
Indices: 1613126--1613183 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
1613116 TTTTGTCTCT
* * **
1613126 TTTGAGAAAGTTTCTTTTGAAAGAATC
1 TTTGAGAAAGTTTCTTTGGAAAAAAAA
* *
1613153 TTTGAGTATGTTTCTTTGGAAAAAAAA
1 TTTGAGAAAGTTTCTTTGGAAAAAAAA
1613180 TTTG
1 TTTG
1613184 TCTCTTTTTG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (27 bp):
TTTGAGAAAGTTTCTTTGGAAAAAAAA
Found at i:1613322 original size:33 final size:33
Alignment explanation
Indices: 1613283--1613345 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
1613273 TAAAACAAAC
*
1613283 ATCTTTGAGATTGTTTCACTTGAAATAAAACCT
1 ATCTTTGAGATTGTTTCACTTGAAACAAAACCT
* * *
1613316 ATCTTTGTGTTTGTTTCTCTTGAAACAAAA
1 ATCTTTGAGATTGTTTCACTTGAAACAAAA
1613346 GTCTGTGAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (33 bp):
ATCTTTGAGATTGTTTCACTTGAAACAAAACCT
Found at i:1613362 original size:29 final size:29
Alignment explanation
Indices: 1613266--1613430 Score: 136
Period size: 29 Copynumber: 5.6 Consensus size: 29
1613256 TTTGAGACAA
* * *
1613266 TTTCTCTTAAAACAAACATCTTTGAGATTG
1 TTTCTTTTGAAACAAAAATCTTTGAG-TTG
** * *
1613296 TTTCACTTGAAATAAAACCTATCTTTGTGTTTG
1 TTTCTTTTGAAACAAAA---ATCTTTGAG-TTG
* * *
1613329 TTTCTCTTGAAACAAAAGTCTGTGAGTTG
1 TTTCTTTTGAAACAAAAATCTTTGAGTTG
* *
1613358 TTTCTTTTGAAATAAAAATCTTTGAGTTA
1 TTTCTTTTGAAACAAAAATCTTTGAGTTG
*
1613387 TTTCTTTTG-AA-AAAATTCTTTGAGTCTG
1 TTTCTTTTGAAACAAAAATCTTTGAGT-TG
*
1613415 TTTCTTTTGAACCAAA
1 TTTCTTTTGAAACAAA
1613431 GTTTTGTCTC
Statistics
Matches: 110, Mismatches: 19, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
27 13 0.12
28 12 0.11
29 37 0.34
30 22 0.20
33 26 0.24
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (29 bp):
TTTCTTTTGAAACAAAAATCTTTGAGTTG
Found at i:1613515 original size:30 final size:29
Alignment explanation
Indices: 1613329--1613503 Score: 87
Period size: 29 Copynumber: 5.9 Consensus size: 29
1613319 TTTGTGTTTG
* * **
1613329 TTTCTCTTGAAA-CAAAAGTCTGTGAGTTG
1 TTTCTTTTGAAACCAAAA-TCTTTGAGTCA
** *
1613358 TTTCTTTTGAAATAAAAATCTTTGAGTTA
1 TTTCTTTTGAAACCAAAATCTTTGAGTCA
* *
1613387 TTTCTTTTGAAA--AAATTCTTTGAGTCTG
1 TTTCTTTTGAAACCAAAATCTTTGAGTC-A
* **
1613415 TTTCTTTTG-AACCAAAGT-TTTGTCTC-
1 TTTCTTTTGAAACCAAAATCTTTGAGTCA
1613441 TCTTAAGACAATTTCATGAAA--AAAATCTTTGAGTCA
1 T-TT----C--TTT--TGAAACCAAAATCTTTGAGTCA
1613477 TTTCTTTTGAAACCAAAATCTTTGAGT
1 TTTCTTTTGAAACCAAAATCTTTGAGT
1613504 TTGCTTCTTT
Statistics
Matches: 115, Mismatches: 13, Indels: 36
0.70 0.08 0.22
Matches are distributed among these distances:
26 1 0.01
27 21 0.18
28 15 0.13
29 52 0.45
30 4 0.03
31 2 0.02
33 3 0.03
34 4 0.03
35 10 0.09
36 3 0.03
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (29 bp):
TTTCTTTTGAAACCAAAATCTTTGAGTCA
Found at i:1613522 original size:29 final size:29
Alignment explanation
Indices: 1613457--1613522 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
1613447 GACAATTTCA
**
1613457 TGAAA-AAAATCTTTGAG-TCATTTCTTT
1 TGAAACAAAATCTTTGAGTTTGTTTCTTT
*
1613484 TGAAACCAAAATCTTTGAGTTTGCTTCTTT
1 TGAAA-CAAAATCTTTGAGTTTGTTTCTTT
1613514 TGAAACAAA
1 TGAAACAAA
1613523 GTTTTGTCTC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 5 0.15
29 16 0.48
30 12 0.36
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (29 bp):
TGAAACAAAATCTTTGAGTTTGTTTCTTT
Found at i:1613523 original size:92 final size:91
Alignment explanation
Indices: 1613371--1613592 Score: 290
Period size: 92 Copynumber: 2.4 Consensus size: 91
1613361 CTTTTGAAAT
* * * *
1613371 AAAAATCTTTGAGTTATTTCTTTTGAAAAAATTCTTTGAGTCTGTTTCTTTTGAACCAAAGTTTT
1 AAAAATCTTTGAGTCATTTCTTTTGAAAAAAATCTTTGAGTCTGCTTCTTTTGAAACAAAGTTTT
1613436 GTCTCTCTTAAGACA-ATTTCATGAA
66 GTCTCTCTTAAGACAGATTTCATGAA
*
1613461 AAAAATCTTTGAGTCATTTCTTTTGAAACCAAAATCTTTGAGTTTGCTTCTTTTGAAACAAAGTT
1 AAAAATCTTTGAGTCATTTCTTTTGAAA--AAAATCTTTGAGTCTGCTTCTTTTGAAACAAAGTT
* * * *
1613526 TTGTCTCTCTTGAGACAGTTTTTCTTGAG
64 TTGTCTCTCTTAAGACAG-ATTTCATGAA
1613555 AAAAATCTTTGAGTC-TGTTCCTTTTG--AAAAATCTTTGA
1 AAAAATCTTTGAGTCAT-TT-CTTTTGAAAAAAATCTTTGA
1613593 TATTGTGTCT
Statistics
Matches: 117, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
90 27 0.23
91 11 0.09
92 47 0.40
93 2 0.02
94 24 0.21
95 6 0.05
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.44
Consensus pattern (91 bp):
AAAAATCTTTGAGTCATTTCTTTTGAAAAAAATCTTTGAGTCTGCTTCTTTTGAAACAAAGTTTT
GTCTCTCTTAAGACAGATTTCATGAA
Found at i:1613885 original size:39 final size:38
Alignment explanation
Indices: 1613815--1613889 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 38
1613805 CTAAAGATGG
* * **
1613815 CCAGAACTCTTCATCATGTATGAGCTGTGTCATCCCCAA
1 CCAGAACTCTTCATCACGTATAAGCCCTGTCA-CCCCAA
*
1613854 CCAGATCTCTTCATCACGTATAAGCCCTGTCACCCC
1 CCAGAACTCTTCATCACGTATAAGCCCTGTCACCCC
1613890 TAGATAACCA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
38 4 0.13
39 27 0.87
ACGTcount: A:0.24, C:0.36, G:0.13, T:0.27
Consensus pattern (38 bp):
CCAGAACTCTTCATCACGTATAAGCCCTGTCACCCCAA
Found at i:1614042 original size:133 final size:133
Alignment explanation
Indices: 1613804--1614161 Score: 511
Period size: 133 Copynumber: 2.7 Consensus size: 133
1613794 AATCATTATC
* * * * *
1613804 CCTAAAGATGGCCAGAACTCTTCATCATGTATGAGCTGTGTCATCCCCAACCAGATCTCTTCATC
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCGACCAGATATCCTCATC
** *
1613869 ACGTATAAGCCCTGTCACCCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCACC
66 ACGTAGGAGCCATGTCACCCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCACC
1613934 CTT
131 CTT
* * * *
1613937 CCTAAAGATGACCAGAACTCTTCATCACGTATGAACCGTGTCATCCCCGACTAGATATCCTCATC
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCGACCAGATATCCTCATC
* * **
1614002 GCGTAGGAGCCGTGTCACCCCTAGATAACCA-CCTGTCCTCATCGTGTAGGAACCGAGTTATCAC
66 ACGTAGGAGCCATGTCACCCCTAGATAACCAGCC-GTCCTCATCACGTAGGAACCGAGTTATCAC
1614066 CCTT
130 CCTT
*
1614070 CCTAAAGATGGCCAAGAACTCTTCATCACGTATGAGCAGTGTCATCCCTCGACCAGATTTCCTCA
1 CCTAAAGATGGCC-AGAACTCTTCATCACGTATGAGCAGTGTCATCCC-CGACCAGATATCCTCA
* *
1614135 TCACGTAGGAACCATGTCACCCTTAGA
64 TCACGTAGGAGCCATGTCACCCCTAGA
1614162 CGACCCAAAC
Statistics
Matches: 199, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
132 2 0.01
133 128 0.64
134 32 0.16
135 37 0.19
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (133 bp):
CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCGACCAGATATCCTCATC
ACGTAGGAGCCATGTCACCCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCACC
CTT
Found at i:1616124 original size:2 final size:2
Alignment explanation
Indices: 1616117--1616154 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
1616107 TTGCATATTC
* *
1616117 AT AT AT AT AT AT AC AT AC AT AT AT AT AT 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
1616155 TACCAATGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1619611 original size:4 final size:4
Alignment explanation
Indices: 1619602--1619632 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
1619592 AAGAAAAGAA
1619602 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1619633 GGTTTTCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:1620424 original size:136 final size:136
Alignment explanation
Indices: 1620195--1621364 Score: 1261
Period size: 136 Copynumber: 8.6 Consensus size: 136
1620185 GATTGAGCTA
* * * * * ** *
1620195 AGGTTGAACAAGTTTTTCACATTATGAACTTCTTTTCCCTC-ACCGAATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTAT
** * * ** * ** * ***
1620259 GAACTCTCCATCAGAAACGTCAATTCCTCAAATGAGGTGTTGCTGATTCAAAGTGTTGTGAATCG
66 GAACTCTCCATTTGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCAAAATACCGTGAATCG
**
1620324 AGCAAT
131 AGTGAT
* * *
1620330 AGGTTGAACAAGCTCTTCTCATTATGAAGTTCTTCTCCCTCTGTCGGATGAGTTCTTCTTATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTAT
* ** * * * *
1620395 GAAATCTCCATAGGAAATCTCAATCCCTCAAGCGTGGCGTCACTGATTCAAAATACTGTAAATCG
66 GAACTCTCCATTTGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCAAAATACCGTGAATCG
1620460 AGTGAT
131 AGTGAT
* * * *
1620466 AGGTCAAACAAGCTCTTCTAATTATGAACTTCTTCTCTCTCTGTCAGATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTAT
* *
1620531 GAACTATCCATTTGAAATGTCAATCCATCAAGCGAGGCGTCACTGATTCAAAATACCGTGAATCG
66 GAACTCTCCATTTGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCAAAATACCGTGAATCG
*
1620596 AGTAAT
131 AGTGAT
* * * *
1620602 AGGTCGAACAACCTCTTCTTACTATGAACTTCTTCTCCCTCTGTCGGATGGGTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTAT
* * * * * *
1620667 GAACTCTCCA-TCGAAAATGCCAATCCCTCAAGTGAGGCATCACTGATTCAAAATGCTGTGAATC
66 GAACTCTCCATTTG-AAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCAAAATACCGTGAATC
1620731 GAGTGAT
130 GAGTGAT
* * * * * *
1620738 AGGTCGAACAAACTCTTATTATTATGAACTTGTTCTCCCTCTGTCGAATGAGTTCTTCTCATAAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTAT
* * * * * ** *
1620803 GAATTCTCCATTTGAAATGTTAATCTCTAAAGCGAGGTGTCACTGATTTGAAATACTGTGAATCG
66 GAACTCTCCATTTGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCAAAATACCGTGAATCG
1620868 AGTGAT
131 AGTGAT
* * * * * * *
1620874 AGATCGTACAAGCTCTTCTCGTTATGAACTTCTTCTCCCTTTTTCGGATGAGTTCTTATCATTAC
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTAT
* * * * * * * * * *
1620939 AAACTCTCAATTTGGAATGTCAATCGCTTAAGCGAGGCATCAGTGATTCGAAATACCATGAATTG
66 GAACTCTCCATTTGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCAAAATACCGTGAATCG
1621004 AGTGAT
131 AGTGAT
* * * ** *
1621010 AGGTCAAACAAGCTCTTCTCATTATGAACTTCTTCTACCTCTTTTAGA-CATGTTCTTCTCATTA
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGA-GTTCTTCTCATTA
* * * ** ** *
1621074 TTAACTCTCCATTTAAAATATCAATCCCTCAAGCGAGGCGTCGTTGATT-AGAAATGTCATGAAT
65 TGAACTCTCCATTTGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCA-AAATACCGTGAAT
*
1621138 CGAGCGAT
129 CGAGTGAT
* * **
1621146 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTATCATATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTAT
* * * * * **
1621211 GAACTCTCCATTTGAGATGTTAATCCCTCAAGCGAGGCGTCGCTGGTTCGAAATGTCGTGAATCG
66 GAACTCTCCATTTGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCAAAATACCGTGAATCG
1621276 AGTGAT
131 AGTGAT
* * *
1621282 AGGTCGAACAAGCTCTTCTCATTATGAACTCCCTCTCCCT-TGTCAGATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTAT
* * *
1621346 GAACTTTCAATTGGAAATG
66 GAACTCTCCATTTGAAATG
1621365 ATGATCGGTT
Statistics
Matches: 871, Mismatches: 157, Indels: 14
0.84 0.15 0.01
Matches are distributed among these distances:
135 76 0.09
136 792 0.91
137 3 0.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (136 bp):
AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTAT
GAACTCTCCATTTGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCAAAATACCGTGAATCG
AGTGAT
Found at i:1622838 original size:3 final size:3
Alignment explanation
Indices: 1622832--1622881 Score: 75
Period size: 3 Copynumber: 16.7 Consensus size: 3
1622822 TATATAATAA
*
1622832 TAT TAT TA- TAT GAT ATAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1622877 TAT TA
1 TAT TA
1622882 CAAGACCCGA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 2 0.05
3 39 0.91
4 2 0.05
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:1622840 original size:18 final size:18
Alignment explanation
Indices: 1622817--1622876 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
1622807 GTGACGTACC
*
1622817 TATTATATATAATAATAT
1 TATTATATATAATATTAT
1622835 TATTATATGAT-ATATTAT
1 TATTATAT-ATAATATTAT
*
1622853 TATTAT-TATTATTATTAT
1 TATTATATA-TAATATTAT
1622871 TATTAT
1 TATTAT
1622877 TATTACAAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
16 1 0.03
17 2 0.05
18 32 0.86
19 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
TATTATATATAATATTAT
Found at i:1623927 original size:13 final size:13
Alignment explanation
Indices: 1623909--1623947 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
1623899 TTCTTATGCG
1623909 TTTTAATTTTATC
1 TTTTAATTTTATC
*
1623922 TTTTAATTTTATT
1 TTTTAATTTTATC
1623935 TATTTATATTTTA
1 T-TTTA-ATTTTA
1623948 GTCTATACCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 13 0.57
14 4 0.17
15 6 0.26
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTAATTTTATC
Found at i:1624115 original size:22 final size:23
Alignment explanation
Indices: 1624087--1624130 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1624077 TATTATAAAT
*
1624087 CTATAT-ATTTTTATAATTTAAC
1 CTATATAATTTTAATAATTTAAC
*
1624109 CTATATAATTTTAATATTTTAA
1 CTATATAATTTTAATAATTTAA
1624131 ATAAATATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (23 bp):
CTATATAATTTTAATAATTTAAC
Found at i:1625254 original size:47 final size:47
Alignment explanation
Indices: 1625154--1625256 Score: 113
Period size: 47 Copynumber: 2.2 Consensus size: 47
1625144 ATTTAGTATT
* * * *
1625154 GATTTATTTTTCGAATAAATACATGCGAACTAGAAATCATATGGTTA
1 GATTTATTTTTCCAATAAAAACATGCGAACTAGAAAACATATGGTAA
*
1625201 GGTTTATTTTTCCAA-ACAAAACATG-GAACTAGAAAACATGA-GGATAA
1 GATTTATTTTTCCAATA-AAAACATGCGAACTAGAAAACAT-ATGG-TAA
1625248 GATTTATTT
1 GATTTATTT
1625257 ACAGATAGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
46 16 0.34
47 31 0.66
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.34
Consensus pattern (47 bp):
GATTTATTTTTCCAATAAAAACATGCGAACTAGAAAACATATGGTAA
Found at i:1633057 original size:40 final size:39
Alignment explanation
Indices: 1632998--1633106 Score: 155
Period size: 40 Copynumber: 2.8 Consensus size: 39
1632988 ATTTCCCACA
*
1632998 AATTTGTAAAACCTCCGGGTAATTTGTAAAACCTCTGGGT
1 AATTTGTAAAACCTTCGGGTAATTTGTAAAACCTCT-GGT
* * **
1633038 AATTTGTAAAGCCTTCGGGTCATTTACAAAACCTCTGGT
1 AATTTGTAAAACCTTCGGGTAATTTGTAAAACCTCTGGT
*
1633077 AATTTGTAAAACCTTCAGGTAATTTGTAAA
1 AATTTGTAAAACCTTCGGGTAATTTGTAAA
1633107 TCCTTCGAGT
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
39 28 0.47
40 31 0.53
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (39 bp):
AATTTGTAAAACCTTCGGGTAATTTGTAAAACCTCTGGT
Found at i:1633111 original size:20 final size:20
Alignment explanation
Indices: 1632998--1633113 Score: 137
Period size: 20 Copynumber: 5.8 Consensus size: 20
1632988 ATTTCCCACA
*
1632998 AATTTGTAAAACCTCCGGGT
1 AATTTGTAAAACCTTCGGGT
1633018 AATTTGTAAAACC-TCTGGGT
1 AATTTGTAAAACCTTC-GGGT
*
1633038 AATTTGTAAAGCCTTCGGGT
1 AATTTGTAAAACCTTCGGGT
* ** *
1633058 CATTTACAAAACC-TCTGGT
1 AATTTGTAAAACCTTCGGGT
*
1633077 AATTTGTAAAACCTTCAGGT
1 AATTTGTAAAACCTTCGGGT
*
1633097 AATTTGTAAATCCTTCG
1 AATTTGTAAAACCTTCG
1633114 AGTGAAATGG
Statistics
Matches: 80, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
19 16 0.20
20 62 0.77
21 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.34
Consensus pattern (20 bp):
AATTTGTAAAACCTTCGGGT
Done.