Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 29 of 91
Found at i:5990981 original size:13 final size:12
Alignment explanation
Indices: 5990906--5990973 Score: 75
Period size: 13 Copynumber: 5.4 Consensus size: 12
5990896 TTTTCGTCGG
5990906 ATAATT-TAATT
1 ATAATTATAATT
5990917 ATCTAATTATAATT
1 A--TAATTATAATT
*
5990931 ATAATTTTAAATT
1 ATAATTAT-AATT
5990944 ATAATTATAATT
1 ATAATTATAATT
*
5990956 TTAAATTATAATT
1 AT-AATTATAATT
5990969 ATAAT
1 ATAAT
5990974 GTTTAATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
11 1 0.02
12 14 0.29
13 27 0.56
14 6 0.12
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (12 bp):
ATAATTATAATT
Found at i:5990981 original size:19 final size:19
Alignment explanation
Indices: 5990921--5990979 Score: 109
Period size: 19 Copynumber: 3.1 Consensus size: 19
5990911 TTAATTATCT
5990921 AATTATAATTATAATTTTA
1 AATTATAATTATAATTTTA
5990940 AATTATAATTATAATTTTA
1 AATTATAATTATAATTTTA
5990959 AATTATAATTATAATGTTTA
1 AATTATAATTATAAT-TTTA
5990979 A
1 A
5990980 TTTTTAAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
19 34 0.87
20 5 0.13
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
AATTATAATTATAATTTTA
Found at i:5992175 original size:110 final size:109
Alignment explanation
Indices: 5991914--5992156 Score: 267
Period size: 110 Copynumber: 2.2 Consensus size: 109
5991904 CGCATGGAGG
* * * * * * *
5991914 TCCCACATAGTTTAGCGTGGTTTTGCATGTTGGTTACTTGTGAGG-ACCAAAGTTGTTATTTACC
1 TCCC-CATAGTTTAGCGTGTTTTTGAATGTTGGTAACCTGT-AGGAAACAAAATTTTTATTTACC
* *
5991978 CTTTTTCATGCATGTTATATATTTTTTGGGATATTTTCTGTTTAGT
64 CTTTTTCATGCATGTTATATATTTATTGGAATATTTTCTGTTTAGT
*
5992024 TCCCCATAGTTTAGCGTGTTTTTGAATGTTGGTAACCTGTAGGAAACAAAATTTTTATTTACCTT
1 TCCCCATAGTTTAGCGTGTTTTTGAATGTTGGTAACCTGTAGGAAACAAAATTTTTATTTACC-C
* * * *
5992089 TTTTTCTTGTATGTTATGTGTTTATTGGAATATTTGT-TGTTTAGT
65 TTTTTCATGCATGTTATATATTTATTGGAATATTT-TCTGTTTAGT
* * *
5992134 TGCCCTTA-TTTAAGTGTGTTTTT
1 TCCCCATAGTTT-AGCGTGTTTTT
5992157 ACATTTTGGT
Statistics
Matches: 112, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
108 3 0.03
109 51 0.46
110 57 0.51
111 1 0.01
ACGTcount: A:0.20, C:0.12, G:0.19, T:0.49
Consensus pattern (109 bp):
TCCCCATAGTTTAGCGTGTTTTTGAATGTTGGTAACCTGTAGGAAACAAAATTTTTATTTACCCT
TTTTCATGCATGTTATATATTTATTGGAATATTTTCTGTTTAGT
Found at i:5993795 original size:19 final size:19
Alignment explanation
Indices: 5993773--5993818 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
5993763 AAATGTTTTA
5993773 AAAAAATATACAAAAAGAT
1 AAAAAATATACAAAAAGAT
5993792 AAAAAATATACAAAAAGAT
1 AAAAAATATACAAAAAGAT
5993811 AAAAAATA
1 AAAAAATA
5993819 AAACGATGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.15
Consensus pattern (19 bp):
AAAAAATATACAAAAAGAT
Found at i:5996312 original size:29 final size:29
Alignment explanation
Indices: 5996257--5996312 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
5996247 TAAATTCATA
** *
5996257 TATTTAAAATTTTGATATTTTATAATATT
1 TATTTAAAATTTTGATAAATTAAAATATT
5996286 TATTTAAATATTTTGA-AAATTAAAATA
1 TATTTAAA-ATTTTGATAAATTAAAATA
5996313 AATAACGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 16 0.70
30 7 0.30
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.52
Consensus pattern (29 bp):
TATTTAAAATTTTGATAAATTAAAATATT
Found at i:6007510 original size:24 final size:24
Alignment explanation
Indices: 6007483--6007570 Score: 131
Period size: 24 Copynumber: 3.7 Consensus size: 24
6007473 TTCTATTATA
*
6007483 ATACCTGACCTGGATTCTGATCGG
1 ATACTTGACCTGGATTCTGATCGG
*
6007507 ATACTTGACCTGGATTCTGATCGA
1 ATACTTGACCTGGATTCTGATCGG
* *
6007531 ATACTTGACCTGGATTTTGATCTG
1 ATACTTGACCTGGATTCTGATCGG
*
6007555 ATACTTGACTTGGATT
1 ATACTTGACCTGGATT
6007571 ATATTTTGAT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (24 bp):
ATACTTGACCTGGATTCTGATCGG
Found at i:6009148 original size:18 final size:18
Alignment explanation
Indices: 6009124--6009166 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
6009114 ATATATCATC
6009124 ATTATCACCATCAATATT
1 ATTATCACCATCAATATT
* **
6009142 CTTATCATTATCAATATT
1 ATTATCACCATCAATATT
6009160 ATTATCA
1 ATTATCA
6009167 TTAATCCCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.37, C:0.19, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTATCACCATCAATATT
Found at i:6009167 original size:18 final size:18
Alignment explanation
Indices: 6009133--6009169 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
6009123 CATTATCACC
*
6009133 ATCAATATTCTTATCATT
1 ATCAATATTATTATCATT
6009151 ATCAATATTATTATCATT
1 ATCAATATTATTATCATT
6009169 A
1 A
6009170 ATCCCTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.49
Consensus pattern (18 bp):
ATCAATATTATTATCATT
Found at i:6009412 original size:21 final size:21
Alignment explanation
Indices: 6009386--6009467 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 21
6009376 GCCATATAGA
6009386 ATGTCCCGAAGGACAACATAT
1 ATGTCCCGAAGGACAACATAT
** ** * *
6009407 ATGTCCCGAATAACCTCGTAGA
1 ATGTCCCGAAGGACAACATA-T
*
6009429 ATAGTCCCGAATGATC-ACATAT
1 AT-GTCCCGAAGGA-CAACATAT
6009451 ATGTCCCGAAGGACAAC
1 ATGTCCCGAAGGACAAC
6009468 GTAGAACCCT
Statistics
Matches: 46, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
20 1 0.02
21 27 0.59
22 4 0.09
23 13 0.28
24 1 0.02
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (21 bp):
ATGTCCCGAAGGACAACATAT
Found at i:6009471 original size:44 final size:43
Alignment explanation
Indices: 6009382--6009473 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 43
6009372 GAGTGCCATA
* **
6009382 TAGAATGTCCCGAAGGACAACATATATGTCCCGAATAACCTCG
1 TAGAATGTCCCGAAGGACAACATATATGTCCCGAAGAACAACG
* *
6009425 TAGAATAGTCCCGAATGATC-ACATATATGTCCCGAAGGACAACG
1 TAGAAT-GTCCCGAAGGA-CAACATATATGTCCCGAAGAACAACG
6009469 TAGAA
1 TAGAA
6009474 CCCTCGACTC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
43 6 0.14
44 35 0.83
45 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.21
Consensus pattern (43 bp):
TAGAATGTCCCGAAGGACAACATATATGTCCCGAAGAACAACG
Found at i:6009916 original size:31 final size:30
Alignment explanation
Indices: 6009845--6009916 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 30
6009835 TAGTTCAATT
*
6009845 TCACATAGC-T-TGTCACATAGGCATGTAT
1 TCACATAGCTTATGTCACATAGGCATGTAA
* * *
6009873 TCTCAAAACTTATGATCACATAGGCATGTAA
1 TCACATAGCTTATG-TCACATAGGCATGTAA
6009904 TCACATAGCTTAT
1 TCACATAGCTTAT
6009917 AACATAGATT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
28 6 0.18
29 1 0.03
30 2 0.06
31 25 0.74
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (30 bp):
TCACATAGCTTATGTCACATAGGCATGTAA
Found at i:6012964 original size:18 final size:18
Alignment explanation
Indices: 6012941--6012982 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
6012931 TATATCATCA
6012941 TTATCACCATCAATATTC
1 TTATCACCATCAATATTC
** *
6012959 TTATCATTATCAATATTT
1 TTATCACCATCAATATTC
6012977 TTATCA
1 TTATCA
6012983 TTAATCCCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.48
Consensus pattern (18 bp):
TTATCACCATCAATATTC
Found at i:6012983 original size:18 final size:18
Alignment explanation
Indices: 6012949--6012985 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
6012939 CATTATCACC
6012949 ATCAATATTCTTATCATT
1 ATCAATATTCTTATCATT
*
6012967 ATCAATATTTTTATCATT
1 ATCAATATTCTTATCATT
6012985 A
1 A
6012986 ATCCCTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.14, G:0.00, T:0.51
Consensus pattern (18 bp):
ATCAATATTCTTATCATT
Found at i:6013264 original size:44 final size:43
Alignment explanation
Indices: 6013198--6013289 Score: 130
Period size: 44 Copynumber: 2.1 Consensus size: 43
6013188 GAGTGCCATA
* **
6013198 TAGAATGTCCCGAATGACCACATATATATCTCGAATGACCTCG
1 TAGAATGTCCCGAATGACCACATATATATCCCGAATGACAGCG
* *
6013241 TAGAATTGTCCCGAATGATCACATATATGTCCCGAATGACAGCG
1 TAGAA-TGTCCCGAATGACCACATATATATCCCGAATGACAGCG
6013285 TAGAA
1 TAGAA
6013290 CCCTCGACTC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 5 0.12
44 38 0.88
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (43 bp):
TAGAATGTCCCGAATGACCACATATATATCCCGAATGACAGCG
Found at i:6013273 original size:21 final size:21
Alignment explanation
Indices: 6013202--6013280 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
6013192 GCCATATAGA
6013202 ATGTCCCGAATGACCACATAT
1 ATGTCCCGAATGACCACATAT
* * * * *
6013223 ATATCTCGAATGACCTCGTAGA
1 ATGTCCCGAATGACCACATA-T
*
6013245 ATTGTCCCGAATGATCACATAT
1 A-TGTCCCGAATGACCACATAT
6013267 ATGTCCCGAATGAC
1 ATGTCCCGAATGAC
6013281 AGCGTAGAAC
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
21 28 0.64
22 2 0.05
23 14 0.32
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (21 bp):
ATGTCCCGAATGACCACATAT
Found at i:6013721 original size:31 final size:31
Alignment explanation
Indices: 6013650--6013725 Score: 79
Period size: 31 Copynumber: 2.6 Consensus size: 31
6013640 TAGTTCAATT
*
6013650 TCACATAGC-T-TG-TCACAGAGGCATGTAT
1 TCACATAGCTTATGATCACAGAGGCATGTAA
* * * *
6013678 TCTCAAAACTTATGATCACATAGGCATGTAA
1 TCACATAGCTTATGATCACAGAGGCATGTAA
6013709 TCACATAGCTTAT-ATCA
1 TCACATAGCTTATGATCA
6013726 TAGATTCATT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
28 6 0.16
29 1 0.03
30 6 0.16
31 24 0.65
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.30
Consensus pattern (31 bp):
TCACATAGCTTATGATCACAGAGGCATGTAA
Found at i:6019251 original size:41 final size:40
Alignment explanation
Indices: 6019194--6019294 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 40
6019184 TTAGTGTCGT
* * * * **
6019194 TTTTTGAACAAACGCCGGTAAATACTCATACATTAGTGGTG
1 TTTTTGTATAAACGCCGCTAAATACT-ATACATTAGCGGCA
* * *
6019235 TTTTTTTATAAACGCCGCTAATTACTATACTTTAGCGGCA
1 TTTTTGTATAAACGCCGCTAAATACTATACATTAGCGGCA
6019275 TTTTTGTATAAACGCCGCTA
1 TTTTTGTATAAACGCCGCTA
6019295 CAAACTCGTA
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
40 29 0.58
41 21 0.42
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.37
Consensus pattern (40 bp):
TTTTTGTATAAACGCCGCTAAATACTATACATTAGCGGCA
Found at i:6019285 original size:40 final size:41
Alignment explanation
Indices: 6019194--6019319 Score: 114
Period size: 41 Copynumber: 3.1 Consensus size: 41
6019184 TTAGTGTCGT
* * * * **
6019194 TTTTTGAACAAACGCCGGTAAATACTCATACATTAGTGGTG
1 TTTTTGTATAAACGCCGCTAAATACTCATACATTAGCGGCA
* * *
6019235 TTTTTTTATAAACGCCGCTAATTACT-ATACTTTAGCGGCA
1 TTTTTGTATAAACGCCGCTAAATACTCATACATTAGCGGCA
* *
6019275 TTTTTGTATAAACGCCGCTACAA-ACTCGTAC-TCTAGCGGCG
1 TTTTTGTATAAACGCCGCTA-AATACTCATACAT-TAGCGGCA
6019316 TTTT
1 TTTT
6019320 AAGAACAAAC
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
40 33 0.48
41 36 0.52
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.36
Consensus pattern (41 bp):
TTTTTGTATAAACGCCGCTAAATACTCATACATTAGCGGCA
Found at i:6019411 original size:123 final size:123
Alignment explanation
Indices: 6019222--6019451 Score: 327
Period size: 123 Copynumber: 1.9 Consensus size: 123
6019212 TAAATACTCA
* * ** * *
6019222 TACATTAGTGGTGTTTTTTTATAAACGCCGCTAATTACTATACTTTAGCGGCATTTTTGTATAAA
1 TACATTAGTAGAGTTTTCATATAAACGCCGCTAATTACTATACTTTAGCAGCATTTTTGTACAAA
*
6019287 CGCCGCTACAAA-CTCGTACTCTAGCGGCGTTTTAAGAACAAACACCGCTAAAGGCCCC
66 CGCCACTA-AAAGCTCGTACTCTAGCGGCGTTTTAAGAACAAACACCGCTAAAGGCCCC
* *
6019345 TACATTAGTAGAGTTTTCATATAAACGCCGCTAATTACTATACTTTAGCAGCGTTTTTGTGCAAA
1 TACATTAGTAGAGTTTTCATATAAACGCCGCTAATTACTATACTTTAGCAGCATTTTTGTACAAA
* * * *
6019410 CGCCACTAAAAGCTCTTATTTTAGCGGCGTTTTAAGTACAAA
66 CGCCACTAAAAGCTCGTACTCTAGCGGCGTTTTAAGAACAAA
6019452 ACCTACCCAT
Statistics
Matches: 93, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
122 3 0.03
123 90 0.97
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.33
Consensus pattern (123 bp):
TACATTAGTAGAGTTTTCATATAAACGCCGCTAATTACTATACTTTAGCAGCATTTTTGTACAAA
CGCCACTAAAAGCTCGTACTCTAGCGGCGTTTTAAGAACAAACACCGCTAAAGGCCCC
Found at i:6021290 original size:24 final size:23
Alignment explanation
Indices: 6021246--6021290 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
6021236 ATGTTTTGAC
**
6021246 CAGTAGATTTTGAAGTTACTGCA
1 CAGTAGATTTTGAAGCAACTGCA
*
6021269 CAGTAGCTGTTTGAAGCAACTG
1 CAGTAGAT-TTTGAAGCAACTG
6021291 TGAGGAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 7 0.39
24 11 0.61
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (23 bp):
CAGTAGATTTTGAAGCAACTGCA
Found at i:6022467 original size:53 final size:54
Alignment explanation
Indices: 6022363--6022473 Score: 161
Period size: 53 Copynumber: 2.1 Consensus size: 54
6022353 AATGACATTA
* * *
6022363 AATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACATCATTTAATACACAAT-
1 AATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACACCACTAAATACACAATC
* * *
6022416 AATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACGCCGCTAAATGCACAATC
1 AATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACACCACTAAATACACAATC
6022470 AATA
1 AATA
6022474 GCGGCATTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 47 0.92
54 4 0.08
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.22
Consensus pattern (54 bp):
AATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACACCACTAAATACACAATC
Found at i:6022486 original size:43 final size:43
Alignment explanation
Indices: 6022416--6022732 Score: 438
Period size: 43 Copynumber: 7.4 Consensus size: 43
6022406 AATACACAAT
*
6022416 AATACACAGTCAATAGCGGCGTTTGTAAAGAAAAACGCCGCTA
1 AATACACAGTCAATAGCGGCGTTTGTAAAGACAAACGCCGCTA
* * *
6022459 AATGCACAATCAATAGCGGCATTTGTAAAGACAAACGCCGCTA
1 AATACACAGTCAATAGCGGCGTTTGTAAAGACAAACGCCGCTA
* *
6022502 AATACACAGTCAATAGCGGCGTTTATAAATACAAACGCCGCTA
1 AATACACAGTCAATAGCGGCGTTTGTAAAGACAAACGCCGCTA
* * * *
6022545 AATACACAATCAATAACGGCATTTGTAAAGAAAAACGCCGCTA
1 AATACACAGTCAATAGCGGCGTTTGTAAAGACAAACGCCGCTA
* * * **
6022588 AATGCACAATCAATAGCGGCGTTTGTAAAGATAAATACCGCT-
1 AATACACAGTCAATAGCGGCGTTTGTAAAGACAAACGCCGCTA
* *
6022630 AATACATAGTCAATAGCGGCGTTTATAAAGACAAACGCCGCTA
1 AATACACAGTCAATAGCGGCGTTTGTAAAGACAAACGCCGCTA
* * *
6022673 AATACACAGTAAATAGCGGCGTTTATAAAGACAAACGCCGTTA
1 AATACACAGTCAATAGCGGCGTTTGTAAAGACAAACGCCGCTA
*
6022716 AATACACAGTTAATAGC
1 AATACACAGTCAATAGC
6022733 AAACGCCGCT
Statistics
Matches: 241, Mismatches: 32, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
42 35 0.15
43 206 0.85
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.21
Consensus pattern (43 bp):
AATACACAGTCAATAGCGGCGTTTGTAAAGACAAACGCCGCTA
Found at i:6024281 original size:81 final size:81
Alignment explanation
Indices: 6024141--6024307 Score: 289
Period size: 81 Copynumber: 2.1 Consensus size: 81
6024131 CCATGGTTAA
*
6024141 TTTCAAACAAAAAGGATCAAGCTCAAAATTGGCTTTATAAGGATGAGAATTAGGGTAGGCTCTTT
1 TTTCAAACAAAAAGGATCAAGCTCAAAATTAGCTTTATAAGGATGAGAATTAGGGTAGGCTCTTT
*
6024206 ACGAAAGCTAAATTGG
66 ACAAAAGCTAAATTGG
* * *
6024222 TTTCCAACAAAAAGGATCAGGCTCAAAATTAGCTTTCTAAGGATGAGAATTAGGGTAGGCTCTTT
1 TTTCAAACAAAAAGGATCAAGCTCAAAATTAGCTTTATAAGGATGAGAATTAGGGTAGGCTCTTT
6024287 ACAAAAGCTAAATTGG
66 ACAAAAGCTAAATTGG
6024303 TTTCA
1 TTTCA
6024308 TCTAAATGCC
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (81 bp):
TTTCAAACAAAAAGGATCAAGCTCAAAATTAGCTTTATAAGGATGAGAATTAGGGTAGGCTCTTT
ACAAAAGCTAAATTGG
Found at i:6025232 original size:16 final size:16
Alignment explanation
Indices: 6025211--6025244 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6025201 TTGTACATCG
*
6025211 AAAAATCAAGAATAAA
1 AAAAATCAAAAATAAA
*
6025227 AAAAATTAAAAATAAA
1 AAAAATCAAAAATAAA
6025243 AA
1 AA
6025245 CAAAAATTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (16 bp):
AAAAATCAAAAATAAA
Found at i:6025263 original size:20 final size:19
Alignment explanation
Indices: 6025227--6025273 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
6025217 CAAGAATAAA
*
6025227 AAAAATTAAAAATAAAAAC
1 AAAAATTGAAAATAAAAAC
* *
6025246 AAAAATTGAAATTGAAAAAG
1 AAAAATTGAAAAT-AAAAAC
6025266 AAAAATTG
1 AAAAATTG
6025274 GGTTGCCTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (19 bp):
AAAAATTGAAAATAAAAAC
Found at i:6031839 original size:16 final size:16
Alignment explanation
Indices: 6031821--6031850 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6031811 TAAATAGATA
6031821 AAAATATT-ATTATAC
1 AAAATATTAATTATAC
6031836 AAAATATTAATTATA
1 AAAATATTAATTATA
6031851 ATTCAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
AAAATATTAATTATAC
Found at i:6033049 original size:24 final size:25
Alignment explanation
Indices: 6033022--6033088 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 25
6033012 TTTTTTTGTC
*
6033022 TTTTTTCTCATT-TGTTTTACCATT
1 TTTTTTATCATTATGTTTTACCATT
**
6033046 TTTTTTATTTTTATGTTTTACCA-T
1 TTTTTTATCATTATGTTTTACCATT
**
6033070 TTTTTTATTTTTATGTTTT
1 TTTTTTATCATTATGTTTT
6033089 CTCAGGATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
24 29 0.74
25 10 0.26
ACGTcount: A:0.13, C:0.09, G:0.04, T:0.73
Consensus pattern (25 bp):
TTTTTTATCATTATGTTTTACCATT
Found at i:6033050 original size:25 final size:25
Alignment explanation
Indices: 6033034--6033088 Score: 85
Period size: 24 Copynumber: 2.2 Consensus size: 25
6033024 TTTTCTCATT
*
6033034 TGTTTTACCATTTTTTTTATTTTTA
1 TGTTTTACCATTTTTTTTATTATTA
*
6033059 TGTTTTACCA-TTTTTTTATTTTTA
1 TGTTTTACCATTTTTTTTATTATTA
6033083 TGTTTT
1 TGTTTT
6033089 CTCAGGATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 20 0.67
25 10 0.33
ACGTcount: A:0.15, C:0.07, G:0.05, T:0.73
Consensus pattern (25 bp):
TGTTTTACCATTTTTTTTATTATTA
Found at i:6034513 original size:24 final size:25
Alignment explanation
Indices: 6034467--6034513 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
6034457 GAGAATATAA
* *
6034467 TTTAATTTGAGATAAAAATGAGATT
1 TTTAAGTTGAGAGAAAAATGAGATT
6034492 TTTAAGTTGAGAGAAAAA-GAGA
1 TTTAAGTTGAGAGAAAAATGAGA
6034514 AATTACTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (25 bp):
TTTAAGTTGAGAGAAAAATGAGATT
Found at i:6035489 original size:20 final size:21
Alignment explanation
Indices: 6035466--6035512 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
6035456 AAATCAATAC
*
6035466 CCATACCGGAGGACTT-GTAT
1 CCATACCAGAGGACTTGGTAT
* *
6035486 CCATACCAGATGAGTTGGTAT
1 CCATACCAGAGGACTTGGTAT
6035507 CCATAC
1 CCATAC
6035513 AATATGAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (21 bp):
CCATACCAGAGGACTTGGTAT
Found at i:6038205 original size:24 final size:25
Alignment explanation
Indices: 6038159--6038205 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
6038149 GAGAATTTAA
* *
6038159 TTTAATTTGAGATAAAAATGAGATT
1 TTTAAGTTGAGAGAAAAATGAGATT
6038184 TTTAAGTTGAGAGAAAAA-GAGA
1 TTTAAGTTGAGAGAAAAATGAGA
6038206 AATGACTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (25 bp):
TTTAAGTTGAGAGAAAAATGAGATT
Found at i:6039058 original size:21 final size:21
Alignment explanation
Indices: 6039034--6039090 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
6039024 TTTATATATC
* *
6039034 TTGGTATCGATATTGGATAAA
1 TTGGAATCGATATCGGATAAA
* *
6039055 TTGGAATCGATAACGGTTAAA
1 TTGGAATCGATATCGGATAAA
6039076 TTGGAATCGATATCG
1 TTGGAATCGATATCG
6039091 ATCCCTTGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.33, C:0.09, G:0.25, T:0.33
Consensus pattern (21 bp):
TTGGAATCGATATCGGATAAA
Found at i:6039187 original size:20 final size:20
Alignment explanation
Indices: 6039162--6039230 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
6039152 GATAAGTTGG
6039162 TATCCATACTAGTGGGTCGA
1 TATCCATACTAGTGGGTCGA
* * ***
6039182 TATCCATACGAATAAATC-A
1 TATCCATACTAGTGGGTCGA
6039201 GTATCCATACTAGTGGGTCGA
1 -TATCCATACTAGTGGGTCGA
6039222 TATCCATAC
1 TATCCATAC
6039231 GAATAAATCA
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
19 1 0.03
20 35 0.95
21 1 0.03
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (20 bp):
TATCCATACTAGTGGGTCGA
Found at i:6039207 original size:40 final size:40
Alignment explanation
Indices: 6039161--6039250 Score: 180
Period size: 40 Copynumber: 2.2 Consensus size: 40
6039151 AGATAAGTTG
6039161 GTATCCATACTAGTGGGTCGATATCCATACGAATAAATCA
1 GTATCCATACTAGTGGGTCGATATCCATACGAATAAATCA
6039201 GTATCCATACTAGTGGGTCGATATCCATACGAATAAATCA
1 GTATCCATACTAGTGGGTCGATATCCATACGAATAAATCA
6039241 GTATCCATAC
1 GTATCCATAC
6039251 CGGAGGACTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (40 bp):
GTATCCATACTAGTGGGTCGATATCCATACGAATAAATCA
Found at i:6039245 original size:20 final size:20
Alignment explanation
Indices: 6039182--6039250 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
6039172 AGTGGGTCGA
6039182 TATCCATACGAATAAATCAG
1 TATCCATACGAATAAATCAG
* * ***
6039202 TATCCATACTAGTGGGTC-G
1 TATCCATACGAATAAATCAG
6039221 ATATCCATACGAATAAATCAG
1 -TATCCATACGAATAAATCAG
6039242 TATCCATAC
1 TATCCATAC
6039251 CGGAGGACTT
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
19 1 0.03
20 35 0.95
21 1 0.03
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.28
Consensus pattern (20 bp):
TATCCATACGAATAAATCAG
Found at i:6039266 original size:40 final size:40
Alignment explanation
Indices: 6039161--6039270 Score: 132
Period size: 40 Copynumber: 2.8 Consensus size: 40
6039151 AGATAAGTTG
* * *
6039161 GTATCCATACTAGTGGGTCGATATCCATACGAATAAATCA
1 GTATCCATACCAGAGGCTCGATATCCATACGAATAAATCA
* * *
6039201 GTATCCATACTAGTGGGTCGATATCCATACGAATAAATCA
1 GTATCCATACCAGAGGCTCGATATCCATACGAATAAATCA
* *
6039241 GTATCCATACCGGAGGACTTG-TATCCATAC
1 GTATCCATACCAGAGG-CTCGATATCCATAC
6039271 TAGATGAGTT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
40 62 0.97
41 2 0.03
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (40 bp):
GTATCCATACCAGAGGCTCGATATCCATACGAATAAATCA
Found at i:6039854 original size:20 final size:20
Alignment explanation
Indices: 6039829--6039867 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6039819 TATCAGTAAC
6039829 AAGGGTGGGTATCGATACTA
1 AAGGGTGGGTATCGATACTA
* *
6039849 AAGGGTTGGTATTGATACT
1 AAGGGTGGGTATCGATACT
6039868 TACCGATACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.08, G:0.33, T:0.31
Consensus pattern (20 bp):
AAGGGTGGGTATCGATACTA
Found at i:6046661 original size:3 final size:3
Alignment explanation
Indices: 6046641--6046735 Score: 77
Period size: 3 Copynumber: 32.0 Consensus size: 3
6046631 TTAGTGAGAC
*
6046641 ATA ATA A-A A-A ATA TATA ATA ATA GTA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * * *
6046685 ACA ACA ACA ACA ACA ACA ACA ACA ACA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6046733 ATA
1 ATA
6046736 CAAAACATAT
Statistics
Matches: 86, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
2 4 0.05
3 79 0.92
4 3 0.03
ACGTcount: A:0.66, C:0.09, G:0.01, T:0.23
Consensus pattern (3 bp):
ATA
Found at i:6050907 original size:48 final size:48
Alignment explanation
Indices: 6050849--6050946 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
6050839 TCTCAATAAT
* *
6050849 TTTAATAATAATATCAAATCAATATCATTTGCAAAATAATTAACTTAA
1 TTTAATAATAATATAAAATCAATATCATTTGAAAAATAATTAACTTAA
6050897 TTTAATAATAATATAAAATCAATATCATTTGAAAAATAATTAACTTAA
1 TTTAATAATAATATAAAATCAATATCATTTGAAAAATAATTAACTTAA
6050945 TT
1 TT
6050947 ATGCATGCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (48 bp):
TTTAATAATAATATAAAATCAATATCATTTGAAAAATAATTAACTTAA
Found at i:6051349 original size:27 final size:27
Alignment explanation
Indices: 6051307--6051439 Score: 133
Period size: 27 Copynumber: 4.9 Consensus size: 27
6051297 ACGAGTATAC
* *
6051307 GGTGCATCACCCCGAAGGATGTAATAT
1 GGTGCATCATCCCGAAGGATGGAATAT
*
6051334 GGTGCATCATCTCGAAGGATGGAATAT
1 GGTGCATCATCCCGAAGGATGGAATAT
* ****
6051361 AGTGCATCATTTTAAAGGATGGAATACT
1 GGTGCATCATCCCGAAGGATGGAATA-T
* * *
6051389 -ATGCATCATCCCGAAGGATGAAATAC
1 GGTGCATCATCCCGAAGGATGGAATAT
* *
6051415 GGAGCATCATCCCGAAGGATAGAAT
1 GGTGCATCATCCCGAAGGATGGAAT
6051440 TCTATTCATC
Statistics
Matches: 86, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
27 85 0.99
28 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (27 bp):
GGTGCATCATCCCGAAGGATGGAATAT
Found at i:6051433 original size:54 final size:54
Alignment explanation
Indices: 6051303--6051450 Score: 145
Period size: 54 Copynumber: 2.7 Consensus size: 54
6051293 TTAAACGAGT
* * * * *
6051303 ATACGGTGCATCACCCCGAAGGATGTAATA-TGGTGCATCATCTCGAAGGATGGA
1 ATACGGTGCATCATCCCGAAGGATGGAATACT-ATGCATCATCCCGAAGGATGAA
** ****
6051357 ATATAGTGCATCATTTTAAAGGATGGAATACTATGCATCATCCCGAAGGATGAA
1 ATACGGTGCATCATCCCGAAGGATGGAATACTATGCATCATCCCGAAGGATGAA
* * * *
6051411 ATACGGAGCATCATCCCGAAGGATAGAATTCTATTCATCA
1 ATACGGTGCATCATCCCGAAGGATGGAATACTATGCATCA
6051451 CCCTGAATGG
Statistics
Matches: 72, Mismatches: 21, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
54 71 0.99
55 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (54 bp):
ATACGGTGCATCATCCCGAAGGATGGAATACTATGCATCATCCCGAAGGATGAA
Found at i:6061045 original size:26 final size:26
Alignment explanation
Indices: 6061015--6061072 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
6061005 AAACATATAT
6061015 AGAAAAA-ACACAAAAATAAAGAAAAA
1 AGAAAAATA-ACAAAAATAAAGAAAAA
* *
6061041 AGAAAAATAAGAAAAATAAAGAATAA
1 AGAAAAATAACAAAAATAAAGAAAAA
6061067 A-AAAAA
1 AGAAAAA
6061073 GAAATGAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 23 0.79
27 1 0.03
ACGTcount: A:0.81, C:0.03, G:0.09, T:0.07
Consensus pattern (26 bp):
AGAAAAATAACAAAAATAAAGAAAAA
Found at i:6061052 original size:16 final size:16
Alignment explanation
Indices: 6061026--6061076 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
6061016 GAAAAAACAC
6061026 AAAAATAAAGAAAAAAG
1 AAAAAT-AAGAAAAAAG
6061043 AAAAATAAGAAAAATA-
1 AAAAATAAGAAAAA-AG
*
6061059 AAGAATAA-AAAAAAG
1 AAAAATAAGAAAAAAG
6061074 AAA
1 AAA
6061077 TGAAACAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
14 1 0.03
15 7 0.23
16 15 0.50
17 7 0.23
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.08
Consensus pattern (16 bp):
AAAAATAAGAAAAAAG
Found at i:6063742 original size:48 final size:46
Alignment explanation
Indices: 6063653--6063826 Score: 187
Period size: 48 Copynumber: 3.8 Consensus size: 46
6063643 TCAACTCCCC
* * * *
6063653 CCAGATATGATATTCCCTTCAGAGTAAGCAGAACATGTCTCTATTCT
1 CCAGATTTGATATTCCCTTCAGAGTAAGCGGAATATATCTCT-TTCT
6063700 CCGAGATTTGATATTCCCTTCAGAGTAAGCGGAATATATCTCTCTTCT
1 CC-AGATTTGATATTCCCTTCAGAGTAAGCGGAATATATCTCT-TTCT
* *
6063748 CCAAGATTTTG-TATTCCCTTCAGAGTAAGC--AA-GTCTCTCTTT-T
1 CC-AGA-TTTGATATTCCCTTCAGAGTAAGCGGAATATATCTCTTTCT
* *
6063791 CCATGATTTGATATTCCCTTCATAGTAAGTGGAATA
1 CCA-GATTTGATATTCCCTTCAGAGTAAGCGGAATA
6063827 AGTCTGCCTC
Statistics
Matches: 109, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
42 5 0.05
43 22 0.20
44 2 0.02
45 8 0.07
46 2 0.02
47 2 0.02
48 64 0.59
49 4 0.04
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.36
Consensus pattern (46 bp):
CCAGATTTGATATTCCCTTCAGAGTAAGCGGAATATATCTCTTTCT
Found at i:6064042 original size:48 final size:47
Alignment explanation
Indices: 6063972--6064098 Score: 155
Period size: 48 Copynumber: 2.6 Consensus size: 47
6063962 CAACTCTCTC
* *
6063972 AGATATGATATTCTCTTCAGAGTAAGCGGAACATGTCTCTCTTCTCCA
1 AGATTTGATATT-TCTTCAGAGTAAGAGGAACATGTCTCTCTTCTCCA
* * *
6064020 AGATTTGATATTTCATTTAGAGTAAGAAGAACATGTCTCTCTTTTCCA
1 AGATTTGATATTTC-TTCAGAGTAAGAGGAACATGTCTCTCTTCTCCA
* * *
6064068 AGATTTGAAATTCCCTTCAGAGTAAGTGGAA
1 AGATTTGATATT-TCTTCAGAGTAAGAGGAA
6064099 TAAGTCTACC
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
47 2 0.03
48 64 0.96
49 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (47 bp):
AGATTTGATATTTCTTCAGAGTAAGAGGAACATGTCTCTCTTCTCCA
Found at i:6064052 original size:113 final size:113
Alignment explanation
Indices: 6063759--6064045 Score: 368
Period size: 113 Copynumber: 2.6 Consensus size: 113
6063749 CAAGATTTTG
* * * *
6063759 TATTCCCTTCAGAGTAAGC---A-A-GTCTCTCTTTTCCATGATTTGATATTCCCTTCATAGTAA
1 TATTCCCTTCAGAGTAAGCAAAACAGGTCTCTCTTCTCCAAGATTTGATATTCCATTCAGAGTAA
* * * * *
6063819 GTGGAATAAGTCTGCCTCGATTTAATGGATCAACTCCCCCATAAATGA
66 GTGGAACAAATCTGCCCCGATTCAATGGATCAACTCCCCCAGAAATGA
*
6063867 TATTCCCTTCAGAGTAAGCAAAATAGGTCTCTCTTCTCCAAGATTTGATATTCCATTCAGAGTAA
1 TATTCCCTTCAGAGTAAGCAAAACAGGTCTCTCTTCTCCAAGATTTGATATTCCATTCAGAGTAA
* * *
6063932 GTGGAACAAATCTGCCCCGATTCAATGGATCAACTCTCTCAGATATGA
66 GTGGAACAAATCTGCCCCGATTCAATGGATCAACTCCCCCAGAAATGA
* ** * * *
6063980 TATTCTCTTCAGAGTAAGCGGAACATGTCTCTCTTCTCCAAGATTTGATATTTCATTTAGAGTAA
1 TATTCCCTTCAGAGTAAGCAAAACAGGTCTCTCTTCTCCAAGATTTGATATTCCATTCAGAGTAA
6064045 G
66 G
6064046 AAGAACATGT
Statistics
Matches: 155, Mismatches: 19, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
108 19 0.12
111 1 0.01
112 1 0.01
113 134 0.86
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (113 bp):
TATTCCCTTCAGAGTAAGCAAAACAGGTCTCTCTTCTCCAAGATTTGATATTCCATTCAGAGTAA
GTGGAACAAATCTGCCCCGATTCAATGGATCAACTCCCCCAGAAATGA
Found at i:6064070 original size:161 final size:161
Alignment explanation
Indices: 6063864--6064206 Score: 472
Period size: 161 Copynumber: 2.1 Consensus size: 161
6063854 CCCCCATAAA
* * * * *
6063864 TGATATTCCCTTCAGAGTAAGCAA-AATAGGTCTCTCTTCTCCAAGATTTGATATTCCATTCAGA
1 TGATATTCCATTAAGAGTAAG-AAGAACATGTCTCTCTTCTCCAAGATTTGAAATTCCATTCAGA
* * * *
6063928 GTAAGTGGAACAAATCTGCCCCGATTCAATGGATCAACTCTCTCAGATATGATATTCTCTTCAGA
65 GTAAGTGGAACAAATCTACCCCGATTCAATGGATCAACTCCCCCAGATATGATATTCCCTTCAGA
*
6063993 GTAAGCGGAACATGTCTCTCTTCTCCAAGATT
130 GTAAGCAGAACATGTCTCTCTTCTCCAAGATT
* * * *
6064025 TGATATTTCATTTAGAGTAAGAAGAACATGTCTCTCTTTTCCAAGATTTGAAATTCCCTTCAGAG
1 TGATATTCCATTAAGAGTAAGAAGAACATGTCTCTCTTCTCCAAGATTTGAAATTCCATTCAGAG
* * * * *
6064090 TAAGTGGAATAAGTCTACCTCGATTTAATGGATCAACTCCCCCAGATATGATATTCCCTTCAGGG
66 TAAGTGGAACAAATCTACCCCGATTCAATGGATCAACTCCCCCAGATATGATATTCCCTTCAGAG
* *
6064155 TAAGCAGAACCTGTCTCTCTTTTCCAAGATT
131 TAAGCAGAACATGTCTCTCTTCTCCAAGATT
*
6064186 TGATATTCCCTTAAGAGTAAG
1 TGATATTCCATTAAGAGTAAG
6064207 TGGAAAAAGT
Statistics
Matches: 158, Mismatches: 23, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
160 2 0.01
161 156 0.99
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (161 bp):
TGATATTCCATTAAGAGTAAGAAGAACATGTCTCTCTTCTCCAAGATTTGAAATTCCATTCAGAG
TAAGTGGAACAAATCTACCCCGATTCAATGGATCAACTCCCCCAGATATGATATTCCCTTCAGAG
TAAGCAGAACATGTCTCTCTTCTCCAAGATT
Found at i:6064113 original size:274 final size:269
Alignment explanation
Indices: 6063703--6064307 Score: 804
Period size: 274 Copynumber: 2.2 Consensus size: 269
6063693 CTATTCTCCG
* * * *
6063703 AGATTTGATATTCCCTTCAGAGTAAGCGGAATATATCTCTCTTCTCCAAGATTTTG-TATTCCCT
1 AGATATGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTCTTCTCCAAGA-TTTGATATTCCAT
* * *
6063767 TCAGAGTAAGCAAGTCTCTCTTTTCCATGATTTGATATTCCCTTCATAGTAAGTGGAATAAGTCT
65 TCAGAGTAAGCAAGTCTCTCTTTTCCAAGATTTGAAATTCCCTTCAGAGTAAGTGGAATAAGTCT
* * *
6063832 GCCTCGATTTAATGGATCAACTCCCCCATAAATGATATTCCCTTCAGAGTAAGCAAAATAGGTCT
130 ACCTCGATTTAATGGATCAACTCCCCCAGAAATGATATTCCCTTCAGAGTAAGCAAAACAGGTCT
*
6063897 CTCTTCTCCAAGATTTGATATTCCATTCAGAGTAAGTGGAACAAA-TCTGCCCCGATTCAATGGA
195 CTCTTCTCCAAGATTTGATATTCCATTAAGAGTAAGTGGAA-AAAGTCTGCCCCGATTCAATGGA
* * *
6063961 TCAACTCTCTC
259 TAAACTCCCAC
* *
6063972 AGATATGATATTCTCTTCAGAGTAAGCGGAACATGTCTCTCTTCTCCAAGATTTGATATTTCATT
1 AGATATGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTCTTCTCCAAGATTTGATATTCCATT
* *
6064037 TAGAGTAAGAAGAACATGTCTCTCTTTTCCAAGATTTGAAATTCCCTTCAGAGTAAGTGGAATAA
66 CAGAGT---AAG--CAAGTCTCTCTTTTCCAAGATTTGAAATTCCCTTCAGAGTAAGTGGAATAA
* * * **
6064102 GTCTACCTCGATTTAATGGATCAACTCCCCCAGATATGATATTCCCTTCAGGGTAAGCAGAACCT
126 GTCTACCTCGATTTAATGGATCAACTCCCCCAGAAATGATATTCCCTTCAGAGTAAGCAAAACAG
* * * *
6064167 GTCTCTCTTTTCCAAGATTTGATATTCCCTTAAGAGTAAGTGGAAAAAGTCTTCCCCGATTGAAT
191 GTCTCTCTTCTCCAAGATTTGATATTCCATTAAGAGTAAGTGGAAAAAGTCTGCCCCGATTCAAT
6064232 GGATAAACTCCCAC
256 GGATAAACTCCCAC
* * * * * *
6064246 AAATCTGATTTTCCCTTCAGCA-TAAGTGGAACAAGTCTCTCTT-TTCAAGGATTTGATATTCC
1 AGATATGATATTCCCTTCAG-AGTAAGCGGAACATGTCTCTCTTCTCCAA-GATTTGATATTCC
6064308 CTAAGTAACA
Statistics
Matches: 292, Mismatches: 35, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
268 4 0.01
269 59 0.20
272 3 0.01
273 7 0.02
274 218 0.75
275 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (269 bp):
AGATATGATATTCCCTTCAGAGTAAGCGGAACATGTCTCTCTTCTCCAAGATTTGATATTCCATT
CAGAGTAAGCAAGTCTCTCTTTTCCAAGATTTGAAATTCCCTTCAGAGTAAGTGGAATAAGTCTA
CCTCGATTTAATGGATCAACTCCCCCAGAAATGATATTCCCTTCAGAGTAAGCAAAACAGGTCTC
TCTTCTCCAAGATTTGATATTCCATTAAGAGTAAGTGGAAAAAGTCTGCCCCGATTCAATGGATA
AACTCCCAC
Found at i:6064142 original size:113 final size:113
Alignment explanation
Indices: 6064020--6064309 Score: 352
Period size: 113 Copynumber: 2.6 Consensus size: 113
6064010 CTCTTCTCCA
* * * *
6064020 AGATTTGATATTTCATTTAGAGTAAGAAGAACATGTCTCTCTTTTCCAAGATTTGAAATTCCCTT
1 AGATATGATATTTCCTTCAGAGTAAGAAGAACATGTCTCTCTTTTCCAAGATTTGATATTCCCTT
* * * * * *
6064085 CAGAGTAAGTGGAATAAGTCTACCTCGATTTAATGGATCAACTCCCCC
66 AAGAGTAAGTGGAAAAAGTCTACCCCGATTGAATGGATAAACTCCCAC
* * * *
6064133 AGATATGATATTCCCTTCAGGGTAAGCAGAACCTGTCTCTCTTTTCCAAGATTTGATATTCCCTT
1 AGATATGATATTTCCTTCAGAGTAAGAAGAACATGTCTCTCTTTTCCAAGATTTGATATTCCCTT
*
6064198 AAGAGTAAGTGGAAAAAGTCTTCCCCGATTGAATGGATAAACTCCCAC
66 AAGAGTAAGTGGAAAAAGTCTACCCCGATTGAATGGATAAACTCCCAC
* * ** *
6064246 AAATCTGAT-TTTCCCTTCAGCA-TAAGTGGAACAAGTCTCTCTTTT-CAAGGATTTGATATTCC
1 AGATATGATATTT-CCTTCAG-AGTAAGAAGAACATGTCTCTCTTTTCCAA-GATTTGATATTCC
6064308 CT
63 CT
6064310 AAGTAACAAC
Statistics
Matches: 151, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
112 5 0.03
113 146 0.97
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (113 bp):
AGATATGATATTTCCTTCAGAGTAAGAAGAACATGTCTCTCTTTTCCAAGATTTGATATTCCCTT
AAGAGTAAGTGGAAAAAGTCTACCCCGATTGAATGGATAAACTCCCAC
Found at i:6064701 original size:22 final size:20
Alignment explanation
Indices: 6064673--6064744 Score: 69
Period size: 22 Copynumber: 3.5 Consensus size: 20
6064663 TTTTTGTCCC
6064673 ATTTAATATTAATTCTATTATT
1 ATTTAATATTAA-T-TATTATT
6064695 ATTTAATATT-ATTATTATT
1 ATTTAATATTAATTATTATT
*
6064714 AATATTACTATTAA-TATTTATT
1 -AT-TTAATATTAATTA-TTATT
6064736 -TTTAATATT
1 ATTTAATATT
6064745 GGAAGTTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
19 14 0.32
20 4 0.09
21 10 0.23
22 16 0.36
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTAATATTAATTATTATT
Found at i:6064719 original size:25 final size:25
Alignment explanation
Indices: 6064688--6064744 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
6064678 ATATTAATTC
*
6064688 TATTATTATTTAATATTATTATTATTAA
1 TATTACTA-TTAATA-T-TTATTATTAA
*
6064716 TATTACTATTAATATTTATTTTTAA
1 TATTACTATTAATATTTATTATTAA
6064741 TATT
1 TATT
6064745 GGAAGTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 13 0.48
26 1 0.04
27 6 0.22
28 7 0.26
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (25 bp):
TATTACTATTAATATTTATTATTAA
Found at i:6076581 original size:16 final size:16
Alignment explanation
Indices: 6076522--6076573 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
6076512 ACTAGTAGTA
*
6076522 TTGGCCTTATGATGCT
1 TTGGGCTTATGATGCT
*
6076538 TTGGGCTTATGGTGCT
1 TTGGGCTTATGATGCT
6076554 TTGGGCTTATGATGCT
1 TTGGGCTTATGATGCT
6076570 TTGG
1 TTGG
6076574 ACTAATGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.10, C:0.13, G:0.33, T:0.44
Consensus pattern (16 bp):
TTGGGCTTATGATGCT
Found at i:6079189 original size:16 final size:16
Alignment explanation
Indices: 6079176--6079206 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6079166 ATCATTGATT
6079176 GGTCCGACCATTGACC
1 GGTCCGACCATTGACC
*
6079192 GGTCCGACCGTTGAC
1 GGTCCGACCATTGAC
6079207 TGTTGACTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.35, G:0.29, T:0.19
Consensus pattern (16 bp):
GGTCCGACCATTGACC
Found at i:6081603 original size:944 final size:945
Alignment explanation
Indices: 6079624--6086545 Score: 8685
Period size: 944 Copynumber: 7.4 Consensus size: 945
6079614 TACATTGAAT
* * *
6079624 AAGGCTCAAACAACATGCATAGACACAAGAAGACTAATAAGAAATGATTTCAAGTTCGGTGATTA
1 AAGGCTCAGACTACATGCATAGACACAAGAAGACTGATAAGAAATGATTTCAAGTTCGGTGATTA
* * * *
6079689 TTTGAAAAATGAAATAACCTCAAAATATCTAAATTCTATTTGTCATTGTTAAAAACTTTAATACC
66 TTCGGAAAAGGAAATAACCTCAAAATCTCTAAATTCTATTTGTCATTGTTAAAAACTTTAATACC
* *
6079754 GAAATTATTTGGTTATGAAATTAAAAAATTTCCCCTATGAGGTAAAAATGGCCTGGACTGACCTT
131 GAAATTATTTGGTTATGAAATTACAAAATTTCCCCTATGAGGTAAAAATGGCCTGGACTGACCCT
* *
6079819 GATAGTGAAAGTACTCTGAGAATTCGTAATTAATACGATAAACTACTAATTTACATGTTAAATTC
196 GATAGTGAAAGTACCCTGAGAATTCGTAATTAATTCGATAAACTACTAATTTACATGTTAAATTC
*
6079884 CTTATATGCTCGGATAGTCACTAATAATCAGATCCTAACATTCGAGAAGGTACAAGACCTATAAT
261 CTTATATGCTCGGATAGTCACTGATAATCAGATCCTAACATTCGAGAAGGTACAAGACCTATAAT
* * * *
6079949 TATTGATTAATCAGTAAGCACCTAAAGACGAAAACATCAGAAGTACTATTCATGTTTGAATTATT
326 TATTGATTTATCAGAAAGAACCTAAAGACGAAAACATCAAAAGTACTATTCATGTTTGAATTATT
* * * *
6080014 CGGAAAAATTGAATTAAATGGAAATACTGGACAGAAGAAAAGGACTGTAATACCCTTGAACTGTA
391 CGAAAAAATTGAATTAAATGGAAATACTGGACGGAAGGAAAGGACTGGAATACCCTTGAACTGTA
* * *
6080079 AAATGCCCCTAGAGTGTAAATGACCTAAGATACCCTCAAGTCATGGAATGACTAAATATTTGTTC
456 AAATGCCCCTGGAGTGTAAATGACCTAAGATACCC-CAAGTCATGGAATGACTGAATACTTGTTC
6080144 GTCTCCTCAAGGTTCCTTCGATGATAATAATAAAAGTGCTCAGCTCAGCTCAACTCAACTTTATG
520 GTCTCCTCAAGGTTCCTTCGATGATAATAATAAAAGTGCTCAGCTCAGCTCAACTCAACTTTATG
*
6080209 GCGCAATTAGTACTAAGAAGTGAATATTCGTGAGACTACTCTACCCGTAAACTCGGTAAGTACCG
585 GCGCAATTAGTACTAAGAAGTGAATATTCGTGAGACTACTCTACCTGTAAACTCGGTAAGTACCG
* * *
6080274 CATTATTGGGATTTGATCAGTTTGACTGGATTTGGAAGCTGAATAAGACACTTGAAATCTGAAAT
650 CATTATTGGGATCTGATCAGTTCGACTGGATTTGGAAGCTGGATAAGACACTTGAAATCTGAAAT
* * * *
6080339 ACTATAAATCAATTCTTGCCTTTATTAAACTAAATTACAAAAATTTCTCAGGAATTTAAATGACT
715 ACTGTAAATCACTTCTTGCCTTTATTAAACTGAATTACAAAAATTTCTCAAGAATTTAAATGACT
* * * * *
6080404 ATAACG-CCTTATGTGTGTATGATTTACAGAATCACTACGAGAATATCCAACTCTTAAATAATTA
780 ATAATGCCCTTACGTGTGTATGATTTACGGAATCACCACGAGAATATCCAAATCTTAAATAATTA
* * * *
6080468 TGATGTAGTAGTTTCTCACACATCTTAGGGTTATATCTGAATATTATTTGATACTAATGTATCAC
845 TGATGTAGAAGTTTCTGACACATCCTAGGGTTATATCTGAATATTATTCGATACTAATGTATCAC
*
6080533 TTTCCTAATGATCTGTAGATATTGTTTCTACCGAAA
910 TTTCCTAATGATCTCTAGATATTGTTTCTACCGAAA
* * * * *
6080569 AAGGCTTAGACTACATGCATAGACACAAAAAG-GTGGATAAGAAATGATTTCAAGTTCGGTAACT
1 AAGGCTCAGACTACATGCATAGACACAAGAAGACT-GATAAGAAATGATTTCAAGTTCGGTGATT
* * * *
6080633 ATCCAGAAAAGTAAATAACCTCAAAATATCTAAATTCTATTTGTCATTGTTAAAAACTTTAATAC
65 ATTCGGAAAAGGAAATAACCTCAAAATCTCTAAATTCTATTTGTCATTGTTAAAAACTTTAATAC
* **
6080698 CAAAATTATTTGGTTATGAAATTACAAAATTTCCCCTATGAGGTAAAAATGGAATGGACTGACCC
130 CGAAATTATTTGGTTATGAAATTACAAAATTTCCCCTATGAGGTAAAAATGGCCTGGACTGACCC
* *
6080763 TGATAGTGAAAGCACCCTGAGAATTCGTAATTAATACGATAAACTACTAATTTACATGTTAAATT
195 TGATAGTGAAAGTACCCTGAGAATTCGTAATTAATTCGATAAACTACTAATTTACATGTTAAATT
* ** * * * *
6080828 CCTTATCTGCTCATATAGTCATTCATAATCAGATCCTAACGTTCGAGAATGTACAAGACCTATAA
260 CCTTATATGCTCGGATAGTCACTGATAATCAGATCCTAACATTCGAGAAGGTACAAGACCTATAA
*
6080893 TTATTGATTTATCAGAAAGAACCTAAAGACGAAAA-ATCAAAAGTACTATTTATGTTTGAATTAT
325 TTATTGATTTATCAGAAAGAACCTAAAGACGAAAACATCAAAAGTACTATTCATGTTTGAATTAT
* ** * *
6080957 TCAAAAAAATTGAATTAAATATAAATATTGGACAGAAGGAAAGGACTGGAATACCCTTGAACTGT
390 TCGAAAAAATTGAATTAAATGGAAATACTGGACGGAAGGAAAGGACTGGAATACCCTTGAACTGT
* * * *
6081022 AAAATGCCCATGGAGTGTAAATGACCTAAGATGCCCCAAGTCATGAAATAACTGAATACTTGTTC
455 AAAATGCCCCTGGAGTGTAAATGACCTAAGATACCCCAAGTCATGGAATGACTGAATACTTGTTC
** * * * *
6081087 GTCTCCTCAAAATTCCTTCGCTGAAAATAATAAAAGTGCTCAACTCAGCTCAACTCAACTTTATT
520 GTCTCCTCAAGGTTCCTTCGATGATAATAATAAAAGTGCTCAGCTCAGCTCAACTCAACTTTATG
*
6081152 GCGCAATTAGTACTAAGAAGTGAATATTCGTGAGACTACTCTACCTGTAAACTTGGTAAGTACCG
585 GCGCAATTAGTACTAAGAAGTGAATATTCGTGAGACTACTCTACCTGTAAACTCGGTAAGTACCG
**
6081217 CATTATTGGGATCTGATCAGTTCGACTAAATTTGGAAGCTGGATAAGACACTTGAAATCTGAAAT
650 CATTATTGGGATCTGATCAGTTCGACTGGATTTGGAAGCTGGATAAGACACTTGAAATCTGAAAT
* * *
6081282 ATTGTAAATCACTACTTTCCTTTATTAAACTGAATTACAAAAATTTCTCAAGAATTTAAATGACT
715 ACTGTAAATCACTTCTTGCCTTTATTAAACTGAATTACAAAAATTTCTCAAGAATTTAAATGACT
* * *
6081347 ATAATGCCCTTACGTGTGTATGATTTACGGAATCACCACGTGAATATCCAAATCTTACATAACTA
780 ATAATGCCCTTACGTGTGTATGATTTACGGAATCACCACGAGAATATCCAAATCTTAAATAATTA
* * *
6081412 TGATGTAGAAGTTTCTGACACATCTTAGGGTTATATATGAATATTATTCGATACCAATGTATCAC
845 TGATGTAGAAGTTTCTGACACATCCTAGGGTTATATCTGAATATTATTCGATACTAATGTATCAC
* *
6081477 TTTCCTAATGATCTCTAGATACTATTTCTACCGAAA
910 TTTCCTAATGATCTCTAGATATTGTTTCTACCGAAA
* * * * *
6081513 AAGACTCAGACTACCTGCATAGATACAAGAAGAATGATAAGAAATAATTTCAAGTTCGGTGATTA
1 AAGGCTCAGACTACATGCATAGACACAAGAAGACTGATAAGAAATGATTTCAAGTTCGGTGATTA
* ** * *
6081578 TTCGGAAAATGAAATAATTTCAAAATCTCTCAAA-TCTATTTCTCATTGTTAAAATCTTTAATAC
66 TTCGGAAAAGGAAATAACCTCAAAATCTCT-AAATTCTATTTGTCATTGTTAAAAACTTTAATAC
* * * *
6081642 CAAAATTATATAG-TATGAAATTACAAAATTTCCCCTATGAGGTAAAAATGGTCTGGACT-AGCC
130 CGAAATTATTTGGTTATGAAATTACAAAATTTCCCCTATGAGGTAAAAATGGCCTGGACTGA-CC
* * * * * *
6081705 TTGATAGTGAAAGCACACTGAGAATTCGTTATTAATACGATAAACTACTAATTTACATGCTAAAT
194 CTGATAGTGAAAGTACCCTGAGAATTCGTAATTAATTCGATAAACTACTAATTTACATGTTAAAT
* * *
6081770 TCCTAATATGTTCGGATAGTCACTGATAATCAGATCCTAACATTCGAGAAGGTACAAGACTTATA
259 TCCTTATATGCTCGGATAGTCACTGATAATCAGATCCTAACATTCGAGAAGGTACAAGACCTATA
* * * **
6081835 ATTATTGA-TTACCAGTAAGAACCTAAAGGCGAAAGTAT-AATAAGTACTATTCATGTTTGAATT
324 ATTATTGATTTATCAGAAAGAACCTAAAGACGAAAACATCAA-AAGTACTATTCATGTTTGAATT
* * * *
6081898 ATTC-AGAAAAATAGGATTAAATGGAAATACTAGATGGAAGGAAAGGACTGGAATACCCTTGAAC
388 ATTCGA-AAAAATTGAATTAAATGGAAATACTGGACGGAAGGAAAGGACTGGAATACCCTTGAAC
* * *
6081962 TGTAAAATGCCCATGGAGTGTAAATGCCCTAAGATACCCCCAAGTCATGAAATGACTGAATACTT
452 TGTAAAATGCCCCTGGAGTGTAAATGACCTAAGATA-CCCCAAGTCATGGAATGACTGAATACTT
* * *
6082027 GTTCGTCTCCTCAAGGTTCATTCGATGATAATAATAAAAGTGATCAGCTCAGCTCAACTTAACTT
516 GTTCGTCTCCTCAAGGTTCCTTCGATGATAATAATAAAAGTGCTCAGCTCAGCTCAACTCAACTT
* * * *
6082092 TATGGCGTAATTAGTACAAAAAAGTGAATATTCGTGAGACTACTCTACCTATAAACTCGGTAAGT
581 TATGGCGCAATTAGTACTAAGAAGTGAATATTCGTGAGACTACTCTACCTGTAAACTCGGTAAGT
* * * * *
6082157 ATCGCATTATTGGGATCTGATAAGTTCGACCGGATTTGGAAACTGTATAAGACACTTGAAATCTG
646 ACCGCATTATTGGGATCTGATCAGTTCGACTGGATTTGGAAGCTGGATAAGACACTTGAAATCTG
* * * *
6082222 AAATACTGTTAATCACTTCTTGCATTTATTAAACTGAATTACAAAAATTTCTTAGGAATTTAAAT
711 AAATACTGTAAATCACTTCTTGCCTTTATTAAACTGAATTACAAAAATTTCTCAAGAATTTAAAT
* *
6082287 GACTATAATACCCTTACGTGTGTATGATTTACGGAATCACCACGAGAATATTCAAATCTTAAATA
776 GACTATAATGCCCTTACGTGTGTATGATTTACGGAATCACCACGAGAATATCCAAATCTTAAATA
* * * *
6082352 ATTCTGATGTAGCAGTTTCTAACACATCTTAGGGTTATATCTGAATATTATTCGATACTAATGTA
841 ATTATGATGTAGAAGTTTCTGACACATCCTAGGGTTATATCTGAATATTATTCGATACTAATGTA
* * *
6082417 TCACATTCCTAATAATCTCTAGATACTGTTTCTACCGAAA
906 TCACTTTCCTAATGATCTCTAGATATTGTTTCTACCGAAA
* *
6082457 AAGGCTCAGACTACATGCATAGACACAAAAAGACTGGTAAGAAATGATTTCAAGTTCGGTGATTA
1 AAGGCTCAGACTACATGCATAGACACAAGAAGACTGATAAGAAATGATTTCAAGTTCGGTGATTA
* * * ** *
6082522 TACGAAAAAGGAATTAATTTCAAAATCTCTAAATTATATTTGTCATTGTTAAAAACTTTAATACC
66 TTCGGAAAAGGAAATAACCTCAAAATCTCTAAATTCTATTTGTCATTGTTAAAAACTTTAATACC
* * * ** *
6082587 GAAATTATATGGTTATAAAATTAAAAAATTTCCCCTATGAGGTAAAAATGGTTTGGACTGGCCCT
131 GAAATTATTTGGTTATGAAATTACAAAATTTCCCCTATGAGGTAAAAATGGCCTGGACTGACCCT
* ** * * * * *
6082652 GATAGTAAAAACACCTTGAGAATTCATAATTAATTCGATAAACTAATGATTTACCTGTTAAATTC
196 GATAGTGAAAGTACCCTGAGAATTCGTAATTAATTCGATAAACTACTAATTTACATGTTAAATTC
* * * * * * *
6082717 CTTATATACTTGGATAGTCATTGATAATCAGATCCTAACATTTGATAATGTACAAGACATATAAT
261 CTTATATGCTCGGATAGTCACTGATAATCAGATCCTAACATTCGAGAAGGTACAAGACCTATAAT
* * * * *
6082782 TATT-ATTTATCAGTAAGCACCTAAAGATGAAAATATCAGAAGTACTATTCATGTTTGAATTATT
326 TATTGATTTATCAGAAAGAACCTAAAGACGAAAACATCAAAAGTACTATTCATGTTTGAATTATT
* * * * * * * *
6082846 C-AGAAAAATTGAATTAAATGGAAAAACTAGACGGAATGAAAAGATTGGAACACCTTTAAACTGT
391 CGA-AAAAATTGAATTAAATGGAAATACTGGACGGAAGGAAAGGACTGGAATACCCTTGAACTGT
* * * *
6082910 AAAATTCCCCTAGAGTGTAAATGACCTAAGATACCCGTAAGTCATGGAATGACTGAATACATGTT
455 AAAATGCCCCTGGAGTGTAAATGACCTAAGATACCC-CAAGTCATGGAATGACTGAATACTTGTT
* * * ** *
6082975 CTTCTCCTCGAGGTTCTTTCGATGATAATTCTAAAAGTGCTCAACTCAGCTCAACTCAACTTTAT
519 CGTCTCCTCAAGGTTCCTTCGATGATAATAATAAAAGTGCTCAGCTCAGCTCAACTCAACTTTAT
* * * * *
6083040 GGCACAATTAGTACTAAGAAGTGAATATTTGTGAGACTACTCAACCTGTAAACTCGGTAAGTTCT
584 GGCGCAATTAGTACTAAGAAGTGAATATTCGTGAGACTACTCTACCTGTAAACTCGGTAAGTACC
* * * ** *
6083105 GCATTATTGGGATCTCATCAGTTCAACTGGATTTGGAAGCTGGATCAGACACTTGAAAAATAAAA
649 GCATTATTGGGATCTGATCAGTTCGACTGGATTTGGAAGCTGGATAAGACACTTGAAATCTGAAA
* * * *
6083170 TACTATAAATCACCTCTTGCCTTTATTAAATTGAATTACAAAAATTTCTCAGGAATTTAAATGAC
714 TACTGTAAATCACTTCTTGCCTTTATTAAACTGAATTACAAAAATTTCTCAAGAATTTAAATGAC
* *
6083235 TATAATGCCCTTAC-TATTTATGA-TT------T----ACG-G-A-AT-C--A---TAAATAATT
779 TATAATGCCCTTACGTGTGTATGATTTACGGAATCACCACGAGAATATCCAAATCTTAAATAATT
* * * *
6083279 CTGATGTAGTAGTTTTTGACACATCCTAGGGTTATAT-TCGAATATTATAT-GATATTAATGTAT
844 ATGATGTAGAAGTTTCTGACACATCCTAGGGTTATATCT-GAATATTAT-TCGATACTAATGTAT
* * *
6083342 AACTTTCCTAATGATCTCTAGATATTGTTTATA-CTAAA
907 CACTTTCCTAATGATCTCTAGATATTGTTTCTACCGAAA
* **
6083380 CAAGGCTCAGACTACATGCATAGACACAAGAAGACTGATAAGAAATGATTTAAAGTTCATTGATT
1 -AAGGCTCAGACTACATGCATAGACACAAGAAGACTGATAAGAAATGATTTCAAGTTCGGTGATT
* * *
6083445 A-TCTGGAAAAGGAAATAATCTTAGAATCTCTAAATTCTATTTGTCATTGTTAAAAACTTTAATA
65 ATTC-GGAAAAGGAAATAACCTCAAAATCTCTAAATTCTATTTGTCATTGTTAAAAACTTTAATA
* * * * * *
6083509 CC-AACATTATCTT-GTTATAAAATTAAAAAATTACCCCTATGAGGTAAAAATGACCTAGATTGA
129 CCGAA-ATTAT-TTGGTTATGAAATTACAAAATTTCCCCTATGAGGTAAAAATGGCCTGGACTGA
* * * * *
6083572 CACTGGTAGTGAAAGTACCCTGAGAATTCGTAATTAATTCCATAAACTACTGATTTACCTGTTAA
192 CCCTGATAGTGAAAGTACCCTGAGAATTCGTAATTAATTCGATAAACTACTAATTTACATGTTAA
* *
6083637 ATTCCTTATATTCTCGGATAGTCACTGATAATCATATCCTAACATTCGAGAAGGTACAAGACCTA
257 ATTCCTTATATGCTCGGATAGTCACTGATAATCAGATCCTAACATTCGAGAAGGTACAAGACCTA
* * * * *
6083702 TAATTATTGATTAATCA-ACAAGAACCAAAAGACGAAAACATCAGAAGTACTACTCATGTTTAAA
322 TAATTATTGATTTATCAGA-AAGAACCTAAAGACGAAAACATCAAAAGTACTATTCATGTTTGAA
* * * *
6083766 TTATTCGAAAAAATTGAATTAAATGGAAAGATTGGACGGAAAGAAAGGACTGAAATACCCTTGAA
386 TTATTCGAAAAAATTGAATTAAATGGAAATACTGGACGGAAGGAAAGGACTGGAATACCCTTGAA
* * * *
6083831 CTATAAAATACCCCTGGAGTGTAAATGACCTAAGATACCCCAAGTCATGGAATGATTGAATACAT
451 CTGTAAAATGCCCCTGGAGTGTAAATGACCTAAGATACCCCAAGTCATGGAATGACTGAATACTT
* * **
6083896 -TTCTATCTCCTCGAGGTTCCTTCGATGATAATTCTAAAA--G-T--GCTCAGCTCAACTCAACT
516 GTTC-GTCTCCTCAAGGTTCCTTCGATGATAATAATAAAAGTGCTCAGCTCAGCTCAACTCAACT
* * * *
6083955 TTATGGTGCAATT-GTACTAAGAAGTGAATATTCGTGAGACTACTTTATCCT-CAAACTCGGCAA
580 TTATGGCGCAATTAGTACTAAGAAGTGAATATTCGTGAGACTACTCTA-CCTGTAAACTCGGTAA
* * * * *
6084018 GTACCACATTATTGGGATTTGGTCAGTTCGATTGGATTTGGAAGTTGGATAAGACACTTGAAATC
644 GTACCGCATTATTGGGATCTGATCAGTTCGACTGGATTTGGAAGCTGGATAAGACACTTGAAATC
* * * *
6084083 TAAAATATTGTAAATCACTGCTTGCCTTTATTAAACTGAATTA-AAAAATTTCT-TAGAAATTTA
709 TGAAATACTGTAAATCACTTCTTGCCTTTATTAAACTGAATTACAAAAATTTCTCAAG-AATTTA
* ** * * * * * **
6084146 AATGACTGTAATGCTGTTATGTGTTTATGATTTACGGAAT-ATCTATGGGAATATCTGAATCTTA
773 AATGACTATAATGCCCTTACGTGTGTATGATTTACGGAATCA-CCACGAGAATATCCAAATCTTA
* * * **
6084210 AATAATTCA-AATGTAGAAGTTTCAGACACATCCTAGGGTTATATCCGAATATTATAAGATACTA
837 AATAATT-ATGATGTAGAAGTTTCTGACACATCCTAGGGTTATATCTGAATATTATTCGATACTA
* ** **
6084274 ATGTATCACTTTCCTAATGATCTATAGATATTGTTTCTATTGATC
901 ATGTATCACTTTCCTAATGATCTCTAGATATTGTTTCTACCGAAA
* * * **
6084319 AAGGCTCAAACTACATGCATAGACACAAGAAGACTGAAAAGAAATGATTTAAAGTTCATTGATTA
1 AAGGCTCAGACTACATGCATAGACACAAGAAGACTGATAAGAAATGATTTCAAGTTCGGTGATTA
* * * * * * *
6084384 TCCGGAAAAAGAAATAACCTTAGAATCTCTAAATTCTATTTGTCCTTCTTCAAAACTTTAATACC
66 TTCGGAAAAGGAAATAACCTCAAAATCTCTAAATTCTATTTGTCATTGTTAAAAACTTTAATACC
* * * * *
6084449 GAAATTATCTT-GTTATAAAATTACAATATTTCCCCTACGAGATAAAAATGGCCTGAACTGACCC
131 GAAATTAT-TTGGTTATGAAATTACAAAATTTCCCCTATGAGGTAAAAATGGCCTGGACTGACCC
** * ** * *
6084513 TGATAGTGAAAGTACTATGAGAATTCATAATTAATTTAATAAACTACTAATTTATATGCTAAATT
195 TGATAGTGAAAGTACCCTGAGAATTCGTAATTAATTCGATAAACTACTAATTTACATGTTAAATT
* * * ** * *
6084578 CCTTATCTGTTTGGATAGTCTTTGATAACCAGATCCTAACATTCGAGAAGGTACAAGACCTGTAA
260 CCTTATATGCTCGGATAGTCACTGATAATCAGATCCTAACATTCGAGAAGGTACAAGACCTATAA
* * *
6084643 TTATTGATTTATCAGTAAGAACATAAAGACGAAAACATCATAAGTACTATTCATGTTTGAATTAT
325 TTATTGATTTATCAGAAAGAACCTAAAGACGAAAACATCAAAAGTACTATTCATGTTTGAATTA-
* ** * * * * *
6084708 TTTGTGAAAATAGAATTAAAAT-GAAAGACTGAACGGAAGGAAAGGACTTGAATACCATTGAACT
389 TTCGAAAAAATTGAATT-AAATGGAAATACTGGACGGAAGGAAAGGACTGGAATACCCTTGAACT
*
6084772 GTAAAATGCCCCTGGAGTGTAAATGACCTAAGATACCTACAAGTCATGGAATGACTGAATAAC-T
453 GTAAAATGCCCCTGGAGTGTAAATGACCTAAGATACC-CCAAGTCATGGAATGACTGAAT-ACTT
* * * * ** *
6084836 ATTCGTCTCCTCAATGTTTCTTTGATGATAATTCTAAAA--G-T--GCTCAGCTCAATTCAACTT
516 GTTCGTCTCCTCAAGGTTCCTTCGATGATAATAATAAAAGTGCTCAGCTCAGCTCAACTCAACTT
* * * *
6084896 TATGCCGCAATTAGAACTAAGAAGTGAATATTCATGAGACTACTCTACCTGCAAAC-CTGGTAAG
581 TATGGCGCAATTAGTACTAAGAAGTGAATATTCGTGAGACTACTCTACCTGTAAACTC-GGTAAG
* ** *
6084960 TACTGCATTATTAAGATCTGAGCAGTTCGACTGGATTTGGAAGCTGGATAAGACACTTGAAATCT
645 TACCGCATTATTGGGATCTGATCAGTTCGACTGGATTTGGAAGCTGGATAAGACACTTGAAATCT
* * ** *
6085025 GAAATACTGTAAATCACTTCTTTCCTTTGTTAATTTGAATTACAAAAAATTT-TCAAAAATTTAA
710 GAAATACTGTAAATCACTTCTTGCCTTTATTAAACTGAATTAC-AAAAATTTCTCAAGAATTTAA
* * * * **
6085089 ATTACTATAATGGCCTTACGTGTGTATGATTTACGAAATCACCA-TAGGAATATCTGAATCTTAA
774 ATGACTATAATGCCCTTACGTGTGTATGATTTACGGAATCACCACGA-GAATATCCAAATCTTAA
* * * *
6085153 ATAATTATGATGTAGCAA-TTTCTAACACATCATAGGGCTATATCTGAATATTATACGATACTAA
838 ATAATTATGATGTAG-AAGTTTCTGACACATCCTAGGGTTATATCTGAATATTATTCGATACTAA
* * * * *
6085217 TGTAACACTTTACTAATAATCTCTAGATATTGTTTCTACTGAAT
902 TGTATCACTTTCCTAATGATCTCTAGATATTGTTTCTACCGAAA
* * * *
6085261 AAGGCTCAGACTACACGCATTGACACAAAAAGACTGATAAGAAATGATTTCAAGTTTGGTGATTA
1 AAGGCTCAGACTACATGCATAGACACAAGAAGACTGATAAGAAATGATTTCAAGTTCGGTGATTA
* * * *
6085326 TCCGGAAAAGGAAATAACCTCAGAATCTCTAAATTTTATTAT-TCATTTTTAAAAACTTTAATAC
66 TTCGGAAAAGGAAATAACCTCAAAATCTCTAAATTCTATT-TGTCATTGTTAAAAACTTTAATAC
* * * *
6085390 TGAAATTATCTGGTTAT-AAATTACAAAATTTCCCCTATGAGGTAAAAATGGCATGGACTGATCC
130 CGAAATTATTTGGTTATGAAATTACAAAATTTCCCCTATGAGGTAAAAATGGCCTGGACTGACCC
*
6085454 TGATAGTGAAAGTACCCTGAGAATTCGTAATTAATTCGATAAACTACTGATTTATC-TGTTAAAT
195 TGATAGTGAAAGTACCCTGAGAATTCGTAATTAATTCGATAAACTACTAATTTA-CATGTTAAAT
* * * * * *
6085518 TCCATATCTTCTCGGATAGTCACTCATAATCATATCCTAACATTCGAGAAGGTAGAAGACCTATA
259 TCCTTATATGCTCGGATAGTCACTGATAATCAGATCCTAACATTCGAGAAGGTACAAGACCTATA
* * **
6085583 ATTATTGATTTATCA-ATAAGCACCTAAAGACGAAAACATCGAAAGTACTATTCATGTTTTTATT
324 ATTATTGATTTATCAGA-AAGAACCTAAAGACGAAAACATCAAAAGTACTATTCATGTTTGAATT
* *
6085647 ATTTGAAAAAATTGAA-T---T---AA-A-T-----G-A-G-AA-GACTGGAATACTCTTGAACT
388 ATTCGAAAAAATTGAATTAAATGGAAATACTGGACGGAAGGAAAGGACTGGAATACCCTTGAACT
* *
6085694 CTAAAATGCCCCTGGAGTGTAAATGACCTAAGATACCCCAAGTCATGGAATGACTGAATACCTGT
453 GTAAAATGCCCCTGGAGTGTAAATGACCTAAGATACCCCAAGTCATGGAATGACTGAATACTTGT
* * * * * * *
6085759 TTGTCTCATCGAGGTTTCTTTTGATGATAATAATAAAAGTGCTCAGCTCAACTCAACTCAATTTT
518 TCGTCTCCTCAAGG-TTCCTTCGATGATAATAATAAAAGTGCTCAGCTCAGCTCAACTCAACTTT
* * ***
6085824 ATGGCACAATTAGTACTAAGAAGTGAATATTCGTGAGATTACTCTACCCACAAACTCGGTAAGTA
582 ATGGCGCAATTAGTACTAAGAAGTGAATATTCGTGAGACTACTCTACCTGTAAACTCGGTAAGTA
** * * **
6085889 TTGCATTATTGGGATCTGATCAGTTCAACTAGATTTCAAAGCTGGATAAGACACTTGAAATCTGA
647 CCGCATTATTGGGATCTGATCAGTTCGACTGGATTTGGAAGCTGGATAAGACACTTGAAATCTGA
* * * *
6085954 AATATTGTAAATCACTACTTG-TTTTATTAAACTGAATTACAAAAAATTCTCAAGAATTTAAATG
712 AATACTGTAAATCACTTCTTGCCTTTATTAAACTGAATTACAAAAATTTCTCAAGAATTTAAATG
* * * * *
6086018 ACTATAATGCCCTTACATGTATATGATTTACGGAATCACCACGGGAATATCCGAATCATAAATAA
777 ACTATAATGCCCTTACGTGTGTATGATTTACGGAATCACCACGAGAATATCCAAATCTTAAATAA
* * * ** *
6086083 TTCTGATGTAGCAGTTTCTGACATATCCTAGGGTTATATCCAAATATTATACGATACTAATGTAT
842 TTATGATGTAGAAGTTTCTGACACATCCTAGGGTTATATCTGAATATTATTCGATACTAATGTAT
* * * *
6086148 TACTTTCCCAATGATCTCTAGATATTATTTCTACCGAAT
907 CACTTTCCTAATGATCTCTAGATATTGTTTCTACCGAAA
* * * * * *
6086187 AAGGATCAGACTATATGCATAGACATAAGAAGACTAATAAGAAATGATTTAAAGTTCGATGATTA
1 AAGGCTCAGACTACATGCATAGACACAAGAAGACTGATAAGAAATGATTTCAAGTTCGGTGATTA
* * * * *
6086252 -TCTGTAAAAGGAAACAACCTCAGAATATCTAAATTCTATTTGTCCTTGTTAAAAACTTTAATAC
66 TTC-GGAAAAGGAAATAACCTCAAAATCTCTAAATTCTATTTGTCATTGTTAAAAACTTTAATAC
* * * *
6086316 TGAAATTATTTGGTTATGAAATTACAAAATTTCCCCTGTGAGATAAAAATGGCATGGACTGACCC
130 CGAAATTATTTGGTTATGAAATTACAAAATTTCCCCTATGAGGTAAAAATGGCCTGGACTGACCC
* * * *
6086381 TGATAGTGAAAGTACCCTAAGAATTCATAATCAATTCAATAAACTACTAATTTACATGTTAAATT
195 TGATAGTGAAAGTACCCTGAGAATTCGTAATTAATTCGATAAACTACTAATTTACATGTTAAATT
* ** * * *
6086446 CATTATATGCTCATATAGTCACTGATAATCATATCCTAACATTCGAGATA-GTAGAAGACTTATA
260 CCTTATATGCTCGGATAGTCACTGATAATCAGATCCTAACATTCGAGA-AGGTACAAGACCTATA
* * *
6086510 ATTATTGATTTATTAGTAAA-CACCTAAAGACAAAAA
324 ATTATTGATTTATCAG-AAAGAACCTAAAGACGAAAA
6086546 GATTTTGTGG
Statistics
Matches: 5220, Mismatches: 665, Indels: 202
0.86 0.11 0.03
Matches are distributed among these distances:
916 1 0.00
917 32 0.01
918 140 0.03
919 33 0.01
920 2 0.00
921 34 0.01
922 73 0.01
923 13 0.00
924 434 0.08
925 151 0.03
926 298 0.06
927 334 0.06
928 4 0.00
929 4 0.00
930 3 0.00
931 3 0.00
932 4 0.00
933 5 0.00
935 2 0.00
937 1 0.00
938 429 0.08
939 89 0.02
940 101 0.02
941 346 0.07
942 299 0.06
943 569 0.11
944 928 0.18
945 887 0.17
946 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (945 bp):
AAGGCTCAGACTACATGCATAGACACAAGAAGACTGATAAGAAATGATTTCAAGTTCGGTGATTA
TTCGGAAAAGGAAATAACCTCAAAATCTCTAAATTCTATTTGTCATTGTTAAAAACTTTAATACC
GAAATTATTTGGTTATGAAATTACAAAATTTCCCCTATGAGGTAAAAATGGCCTGGACTGACCCT
GATAGTGAAAGTACCCTGAGAATTCGTAATTAATTCGATAAACTACTAATTTACATGTTAAATTC
CTTATATGCTCGGATAGTCACTGATAATCAGATCCTAACATTCGAGAAGGTACAAGACCTATAAT
TATTGATTTATCAGAAAGAACCTAAAGACGAAAACATCAAAAGTACTATTCATGTTTGAATTATT
CGAAAAAATTGAATTAAATGGAAATACTGGACGGAAGGAAAGGACTGGAATACCCTTGAACTGTA
AAATGCCCCTGGAGTGTAAATGACCTAAGATACCCCAAGTCATGGAATGACTGAATACTTGTTCG
TCTCCTCAAGGTTCCTTCGATGATAATAATAAAAGTGCTCAGCTCAGCTCAACTCAACTTTATGG
CGCAATTAGTACTAAGAAGTGAATATTCGTGAGACTACTCTACCTGTAAACTCGGTAAGTACCGC
ATTATTGGGATCTGATCAGTTCGACTGGATTTGGAAGCTGGATAAGACACTTGAAATCTGAAATA
CTGTAAATCACTTCTTGCCTTTATTAAACTGAATTACAAAAATTTCTCAAGAATTTAAATGACTA
TAATGCCCTTACGTGTGTATGATTTACGGAATCACCACGAGAATATCCAAATCTTAAATAATTAT
GATGTAGAAGTTTCTGACACATCCTAGGGTTATATCTGAATATTATTCGATACTAATGTATCACT
TTCCTAATGATCTCTAGATATTGTTTCTACCGAAA
Found at i:6088379 original size:19 final size:19
Alignment explanation
Indices: 6088341--6088380 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
6088331 CTAATAATTG
* *
6088341 AATCGAATATAATATTTTA
1 AATCGAATATAAAATCTTA
6088360 AATCGAATATAAAATCTTA
1 AATCGAATATAAAATCTTA
6088379 AA
1 AA
6088381 ATTACTTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (19 bp):
AATCGAATATAAAATCTTA
Found at i:6090626 original size:21 final size:20
Alignment explanation
Indices: 6090600--6090668 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 20
6090590 TCGATACACG
*
6090600 AGTATCGATACCCATTGAACC
1 AGTATCGATACCTATTGAA-C
* *
6090621 AGTATCGGTA-CTGTTAAGAAC
1 AGTATCGATACCTATT--GAAC
6090642 AGTATCGATACCTATTGAAGC
1 AGTATCGATACCTATTGAA-C
6090663 AGTATC
1 AGTATC
6090669 AGTACTATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
20 6 0.15
21 26 0.67
22 7 0.18
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (20 bp):
AGTATCGATACCTATTGAAC
Found at i:6095049 original size:18 final size:19
Alignment explanation
Indices: 6095006--6095050 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
6094996 GCAACACCAA
*
6095006 CATTCTTCTTTTTATCTGT
1 CATTCTTCTTTGTATCTGT
*
6095025 C-TCCTTCTTTGTAT-TGT
1 CATTCTTCTTTGTATCTGT
6095042 CATTCTTCT
1 CATTCTTCT
6095051 CGTGATCTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 4 0.18
18 17 0.77
19 1 0.05
ACGTcount: A:0.09, C:0.24, G:0.07, T:0.60
Consensus pattern (19 bp):
CATTCTTCTTTGTATCTGT
Found at i:6097619 original size:16 final size:16
Alignment explanation
Indices: 6097589--6097622 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6097579 ATGACCGTTA
*
6097589 ACTGTTGACTAGTCTG
1 ACTGTTGACCAGTCTG
*
6097605 ACTGTTGACCGGTCTG
1 ACTGTTGACCAGTCTG
6097621 AC
1 AC
6097623 CAAAAAAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.24, G:0.26, T:0.32
Consensus pattern (16 bp):
ACTGTTGACCAGTCTG
Found at i:6097798 original size:2 final size:2
Alignment explanation
Indices: 6097786--6097820 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
6097776 AATTTCTATT
*
6097786 TA TA CA 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 TA T
6097821 CCAAGTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:6099366 original size:36 final size:36
Alignment explanation
Indices: 6099326--6099445 Score: 115
Period size: 35 Copynumber: 3.4 Consensus size: 36
6099316 TTGATAAATA
6099326 TGGTAATTCCTTATATAGGTTCAACTCTGATCAAGC
1 TGGTAATTCCTTATATAGGTTCAACTCTGATCAAGC
* * *
6099362 TGGTAATTCCTTATACAGATTCAACACCT-ATCAA--
1 TGGTAATTCCTTATATAGGTTCAAC-TCTGATCAAGC
* * * *
6099396 TAGGTAATTCTTTATATAGGTTTAA-TATTGAT-TAGC
1 T-GGTAATTCCTTATATAGGTTCAACT-CTGATCAAGC
6099432 TGGTAATTCCTTAT
1 TGGTAATTCCTTAT
6099446 GGATATAAGA
Statistics
Matches: 67, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
34 3 0.04
35 33 0.49
36 29 0.43
37 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (36 bp):
TGGTAATTCCTTATATAGGTTCAACTCTGATCAAGC
Found at i:6109407 original size:30 final size:30
Alignment explanation
Indices: 6109373--6109437 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
6109363 AAAAAAACGG
* *
6109373 CGGTTAAAATCGGTTTTGCCGGTTTTCAGC
1 CGGTTAAAACCGGTTTTGCCGGTTCTCAGC
* * * *
6109403 CGGTTCACACCGGTTTTGTCGGTTCTCAGT
1 CGGTTAAAACCGGTTTTGCCGGTTCTCAGC
6109433 CGGTT
1 CGGTT
6109438 CTTCCGGTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.12, C:0.23, G:0.28, T:0.37
Consensus pattern (30 bp):
CGGTTAAAACCGGTTTTGCCGGTTCTCAGC
Found at i:6114301 original size:22 final size:22
Alignment explanation
Indices: 6114286--6114327 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
6114276 TTGACCAGAG
6114286 TTGACTTTGATTTTGACCAACA
1 TTGACTTTGATTTTGACCAACA
*
6114308 TTGACTTTGACTTTGACCAA
1 TTGACTTTGATTTTGACCAA
6114328 AAAGTCAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40
Consensus pattern (22 bp):
TTGACTTTGATTTTGACCAACA
Found at i:6123523 original size:24 final size:19
Alignment explanation
Indices: 6123471--6123518 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
6123461 TAATAACGAA
6123471 TGGGTAGAAGTACACCAGT
1 TGGGTAGAAGTACACCAGT
6123490 TGGGTAGAAGTACACCAGT
1 TGGGTAGAAGTACACCAGT
*
6123509 TGGGTTGAAG
1 TGGGTAGAAG
6123519 AGAAGGTGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.29, C:0.12, G:0.35, T:0.23
Consensus pattern (19 bp):
TGGGTAGAAGTACACCAGT
Found at i:6134949 original size:22 final size:22
Alignment explanation
Indices: 6134922--6134974 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
6134912 CATTTAACAT
6134922 CATAAATATTATAATAAGATAA
1 CATAAATATTATAATAAGATAA
*
6134944 CATAAATATTATAATAAGATAG
1 CATAAATATTATAATAAGATAA
6134966 CATAAATAT
1 CATAAATAT
6134975 ATGTACAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.32
Consensus pattern (22 bp):
CATAAATATTATAATAAGATAA
Found at i:6136828 original size:132 final size:132
Alignment explanation
Indices: 6136629--6137221 Score: 814
Period size: 132 Copynumber: 4.5 Consensus size: 132
6136619 TTAAGCGAAC
* * * * *
6136629 AAATATCGATCCACCTCCTTCTGTGACGGAATCGAACGAGATGTCGGTGCTGATCTACCTCCTTC
1 AAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATATCAGTGTTGATCTACCTCCTTC
* * *
6136694 TGTGATAGAATCGAGCTAAAAGCTGACGCTGATCCAACTTCTTCTACGATGGATTTGAGAAAAAA
66 TGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAG-AAAAA
6136759 TAA
130 TAA
* ** *
6136762 AAATGTC-ATCCATCTCCTTCTGTGATGGAATCGAACGAGATATTGGTGTTGATTTACCTCCTTC
1 AAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATATCAGTGTTGATCTACCTCCTTC
* ** *
6136826 TGTGATAGAATCGAGCTAAAAGTTGACGCTGATCAAACTCCTTCTGCGATGGATTTGAGTGAGAT
66 TGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGAAAAAT
6136891 AA
131 AA
* * *
6136893 AAATGTCGATCCACCTCATTCTGTGATGGAATCGAATGAGATATCAGTGATGATCTACCTCCTTC
1 AAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATATCAGTGTTGATCTACCTCCTTC
* * * ** *
6136958 TGTGATAGAATCGAGTTAAAAGTTGACACTGATCCAACTCCTTCTTCGATGGATTTGAGCGAGAT
66 TGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGAAAAAT
6137023 AA
131 AA
* * * *
6137025 AAATGTCGATCTACCTCATTCTGTGATGGAATCGAACGAGATATCAGTGTTGATATACCTCATTC
1 AAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATATCAGTGTTGATCTACCTCCTTC
*
6137090 TATGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA-ACGAAA
66 TGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGA--AAA
6137154 ATAAA
129 AT-AA
* * * * *
6137159 AAATGTTGATCCACCTCCTTCTG-GATAGAATCGAACGAGATATCAGTGCTGATATACCCCCTT
1 AAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATATCAGTGTTGATCTACCTCCTT
6137222 ATTTACTTTT
Statistics
Matches: 411, Mismatches: 45, Indels: 8
0.89 0.10 0.02
Matches are distributed among these distances:
131 12 0.03
132 332 0.81
133 45 0.11
134 22 0.05
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (132 bp):
AAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATATCAGTGTTGATCTACCTCCTTC
TGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGAAAAAT
AA
Found at i:6137065 original size:44 final size:44
Alignment explanation
Indices: 6136886--6137103 Score: 133
Period size: 44 Copynumber: 5.0 Consensus size: 44
6136876 GGATTTGAGT
* *
6136886 GAGATAAAAATGTCGATCCACCTCATTCTGTGATGGAATCGAAT
1 GAGATAAAAATGTCGATCTACCTCATTCTGTGATGGAATCGAAC
** * * *
6136930 GAGATATCAGTGAT-GATCTACCTCCTTCTGTGATAGAAT----C
1 GAGATAAAAATG-TCGATCTACCTCATTCTGTGATGGAATCGAAC
* * * * * * * * *
6136970 GAGTTAAAAGTTGACACTGATCCAACTCCTTCT-TCGATGGATTTGAGC
1 GAGATAAAA-ATG--TC-GATCTACCTCATTCTGT-GATGGAATCGAAC
6137018 GAGATAAAAATGTCGATCTACCTCATTCTGTGATGGAATCGAAC
1 GAGATAAAAATGTCGATCTACCTCATTCTGTGATGGAATCGAAC
** * * * * *
6137062 GAGATATCAGTGTTGATATACCTCATTCTATGATAGAATCGA
1 GAGATAAAAATGTCGATCTACCTCATTCTGTGATGGAATCGA
6137104 GCTAAAAGTT
Statistics
Matches: 130, Mismatches: 33, Indels: 22
0.70 0.18 0.12
Matches are distributed among these distances:
40 6 0.05
41 2 0.02
43 1 0.01
44 107 0.82
45 3 0.02
47 2 0.02
48 9 0.07
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (44 bp):
GAGATAAAAATGTCGATCTACCTCATTCTGTGATGGAATCGAAC
Found at i:6154356 original size:18 final size:18
Alignment explanation
Indices: 6154333--6154367 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6154323 TTTCACCCTC
6154333 TTTCTTT-TTTATCTTTGT
1 TTTCTTTATTTA-CTTTGT
6154351 TTTCTTTATTTACTTTG
1 TTTCTTTATTTACTTTG
6154368 ATATTGCTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.09, C:0.11, G:0.06, T:0.74
Consensus pattern (18 bp):
TTTCTTTATTTACTTTGT
Found at i:6156632 original size:3 final size:3
Alignment explanation
Indices: 6156624--6156712 Score: 153
Period size: 3 Copynumber: 29.7 Consensus size: 3
6156614 CTAGGTCTAA
*
6156624 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ACTT ACT ATT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT
6156669 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
6156713 CACTAATTAT
Statistics
Matches: 82, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
2 2 0.02
3 77 0.94
4 3 0.04
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:6158104 original size:25 final size:27
Alignment explanation
Indices: 6158048--6158111 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 27
6158038 TACTTATTTA
* *
6158048 TATTTTTATTTTTTTGATTGTTTTTAC
1 TATTTTTATTTATTTGATTGTTTTAAC
* *
6158075 CATTTTTA-TTATTTG-TTGTTTTAAT
1 TATTTTTATTTATTTGATTGTTTTAAC
*
6158100 TATTTTAATTTA
1 TATTTTTATTTA
6158112 GTTCCTTGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
25 14 0.47
26 9 0.30
27 7 0.23
ACGTcount: A:0.20, C:0.03, G:0.06, T:0.70
Consensus pattern (27 bp):
TATTTTTATTTATTTGATTGTTTTAAC
Found at i:6159262 original size:244 final size:246
Alignment explanation
Indices: 6158923--6159406 Score: 649
Period size: 241 Copynumber: 2.0 Consensus size: 246
6158913 CAATATTATG
*
6158923 TTTAGTTCTGGCTTTGATAGTTTTTACACCTGAAACACTTTTGAGTGAATTGAGTTAATCCTTGT
1 TTTAGTTCTGGCTTTGAGAGTTTTTACACCTGAAACACTTTT--GTGAA-TGAG-TAATCCTTGT
* *
6158988 GAAGGTGTTGAGTTTGGTGTATTGAGATTGATAGATGAATGAGATGTCATGATTTTGTTTAACTT
62 GAAGGTATTGAGTTTGGTGCATTGAGATTGATAGATGAATGAGATGTCATGA--TT-TTTAACTT
* * * * *
6159053 TATTATATTTTTGCTTTCTACTTGATTGATATTTCAATTAGGATAATTGTTATGGAC-TGCACTT
124 TATCATATTTATGATTTCCACTTGATTGATATTTCAATTAGGATAATTGTTATGGACTTG-AATT
* * * *
6159117 GAATGGTTTTCCGAGATACAAGACGAATCAATGAATGGAAAATGAAGGTGTTGAGAGTT
188 GAATGATTTTCCAAGATACAAGACGAAGCAATGAATGGAAAATAAAGGTGTTGAGAGTT
* *
6159176 TTTAGTTCTGGCTTTGAGATTTTTTACACCTGGAACAC-TTT-TG-A-GAG-AATCCTTGTG-AG
1 TTTAGTTCTGGCTTTGAGAGTTTTTACACCTGAAACACTTTTGTGAATGAGTAATCCTTGTGAAG
*
6159235 GATATTGAGTTTGGTGCATTGAGATTGATAGATGAATGAGATGTCATGATTTTTAACTTTATCCT
66 G-TATTGAGTTTGGTGCATTGAGATTGATAGATGAATGAGATGTCATGATTTTTAACTTTATCAT
** *
6159300 ATTTATGATTTCCACTTGATTGATATTTTGATTTGGATAATTGTTATGGACTTGAATTGAATGAT
130 ATTTATGATTTCCACTTGATTGATATTTCAATTAGGATAATTGTTATGGACTTGAATTGAATGAT
* * *
6159365 TTTCCAAGATAGAAGATGAAGCAATGAATGTAAAATAAAGGT
195 TTTCCAAGATACAAGACGAAGCAATGAATGGAAAATAAAGGT
6159407 TTTAACAAAT
Statistics
Matches: 208, Mismatches: 21, Indels: 16
0.85 0.09 0.07
Matches are distributed among these distances:
241 102 0.49
242 4 0.02
243 3 0.01
244 55 0.26
246 3 0.01
248 1 0.00
249 2 0.01
252 3 0.01
253 35 0.17
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (246 bp):
TTTAGTTCTGGCTTTGAGAGTTTTTACACCTGAAACACTTTTGTGAATGAGTAATCCTTGTGAAG
GTATTGAGTTTGGTGCATTGAGATTGATAGATGAATGAGATGTCATGATTTTTAACTTTATCATA
TTTATGATTTCCACTTGATTGATATTTCAATTAGGATAATTGTTATGGACTTGAATTGAATGATT
TTCCAAGATACAAGACGAAGCAATGAATGGAAAATAAAGGTGTTGAGAGTT
Found at i:6161772 original size:2 final size:2
Alignment explanation
Indices: 6161765--6161836 Score: 89
Period size: 2 Copynumber: 37.0 Consensus size: 2
6161755 TTATTATTTT
6161765 TA TA TA TA TA -A CT- TA TA TCA TA T- TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA
*
6161806 TA TA TA TA -A TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6161837 GATGTATTAA
Statistics
Matches: 62, Mismatches: 2, Indels: 12
0.82 0.03 0.16
Matches are distributed among these distances:
1 4 0.06
2 56 0.90
3 2 0.03
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:6161790 original size:23 final size:23
Alignment explanation
Indices: 6161764--6161836 Score: 91
Period size: 23 Copynumber: 3.2 Consensus size: 23
6161754 TTTATTATTT
6161764 TTATATATATA-ACT-TATATCATA
1 TTATATATATATA-TATATAT-ATA
6161787 TTATATATATATATATATATATA
1 TTATATATATATATATATATATA
6161810 -TATA-ATATATATATATATATA
1 TTATATATATATATATATATATA
6161831 TGTATA
1 T-TATA
6161837 GATGTATTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
21 17 0.37
22 4 0.09
23 19 0.41
24 6 0.13
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (23 bp):
TTATATATATATATATATATATA
Found at i:6161793 original size:25 final size:25
Alignment explanation
Indices: 6161778--6161836 Score: 91
Period size: 25 Copynumber: 2.3 Consensus size: 25
6161768 ATATATAACT
*
6161778 TATATCATATTATATATATATATATA
1 TATAT-ATATAATATATATATATATA
6161804 TATATATATAATATATATATATATA
1 TATATATATAATATATATATATATA
*
6161829 TATGTATA
1 TATATATA
6161837 GATGTATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 26 0.84
26 5 0.16
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (25 bp):
TATATATATAATATATATATATATA
Found at i:6161915 original size:38 final size:40
Alignment explanation
Indices: 6161867--6161948 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
6161857 TTTACTAGTA
6161867 ATATATTTTCTTAATA-TATA-TTTTATACATATTTATAT
1 ATATATTTTCTTAATATTATATTTTTATACATATTTATAT
* * **
6161905 ATATATTTTCTTAATATTCTATTTTTGTATTTATTTATAT
1 ATATATTTTCTTAATATTATATTTTTATACATATTTATAT
6161945 ATAT
1 ATAT
6161949 TATATTTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
38 16 0.42
39 3 0.08
40 19 0.50
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (40 bp):
ATATATTTTCTTAATATTATATTTTTATACATATTTATAT
Found at i:6163319 original size:17 final size:17
Alignment explanation
Indices: 6163294--6163326 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6163284 CGCCGTGGAA
*
6163294 ATAATATTTCAATCTTT
1 ATAAAATTTCAATCTTT
6163311 ATAAAATTTCAATCTT
1 ATAAAATTTCAATCTT
6163327 GCCGTGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.48
Consensus pattern (17 bp):
ATAAAATTTCAATCTTT
Found at i:6163893 original size:12 final size:12
Alignment explanation
Indices: 6163876--6163918 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
6163866 AGATCCTTAT
*
6163876 GCTAATTGTTAG
1 GCTAATTATTAG
6163888 GCTAATTATTAG
1 GCTAATTATTAG
* *
6163900 GCAAATTCTTA-
1 GCTAATTATTAG
6163911 GCTAATTA
1 GCTAATTA
6163919 CCTTTAATGT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
11 6 0.23
12 20 0.77
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.40
Consensus pattern (12 bp):
GCTAATTATTAG
Found at i:6164449 original size:239 final size:248
Alignment explanation
Indices: 6164011--6164501 Score: 865
Period size: 239 Copynumber: 2.0 Consensus size: 248
6164001 GTGAACTACA
*
6164011 TTCTATACTGTAGTTTTACATGGTATCATATGTTTTAAAATATCTAGGTGCTTAAATTTTTTCCC
1 TTCTATACTGTAGTTTTACATGGTATCATATGTTTTAAAATATCTAGGTGCTTAAATTATTTCCC
6164076 TGAGTTGTTTGGGTATCAAAAGAAGGTTGTGTTTTTTGTTGTTTTTTAGTGGTAGCTTTTAGAGG
66 TGAGTTGTTTGGGTATCAAAAGAAGGTTGTGTTTTTTGTTGTTTTTTAGTGGTAGCTTTTAGAGG
6164141 CCCCTCTCTCAACACCGCAAGCACCAGGAGGTCTGTCGTGCACTGATCGATGGATCTAGAAAGTT
131 CCCCTCTCTCAACACCGCAAGCACCAGGAGGTCTGTCGTGCACTGATCGATGGATCTAGAAAGTT
6164206 TGGTCACTAAACTCAGTACGTGAACTGCACATGCTTCCATAACTTTTCGTGAG
196 TGGTCACTAAACTCAGTACGTGAACTGCACATGCTTCCATAACTTTTCGTGAG
*
6164259 TTCTATACTGTAGTTTTACATGGTATCATATGTTTTAAAATATCTGGGTGCTTAAA-TATTTCCC
1 TTCTATACTGTAGTTTTACATGGTATCATATGTTTTAAAATATCTAGGTGCTTAAATTATTTCCC
6164323 TGA-TTGTTTGGGTATCAAAAGAAGGTTGTG-TTTTTGTTG-TTTTTAGTGGTAGC-TTTAGAGG
66 TGAGTTGTTTGGGTATCAAAAGAAGGTTGTGTTTTTTGTTGTTTTTTAGTGGTAGCTTTTAGAGG
*
6164384 -CCC-CTCTC-A-ACCGCAAGCACCAGGAGGTCTGTCTTGCACTGATCGATGGATCTAGAAAGTT
131 CCCCTCTCTCAACACCGCAAGCACCAGGAGGTCTGTCGTGCACTGATCGATGGATCTAGAAAGTT
* **
6164445 TGGTCACTAAACTCAGTGCGTGAACTGCATGTGCTTCCATAACTTTTCGTGAG
196 TGGTCACTAAACTCAGTACGTGAACTGCACATGCTTCCATAACTTTTCGTGAG
6164498 TTCT
1 TTCT
6164502 TCACGTGAGA
Statistics
Matches: 237, Mismatches: 6, Indels: 9
0.94 0.02 0.04
Matches are distributed among these distances:
239 105 0.44
240 1 0.00
241 5 0.02
242 3 0.01
243 8 0.03
244 14 0.06
245 9 0.04
246 27 0.11
247 10 0.04
248 55 0.23
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (248 bp):
TTCTATACTGTAGTTTTACATGGTATCATATGTTTTAAAATATCTAGGTGCTTAAATTATTTCCC
TGAGTTGTTTGGGTATCAAAAGAAGGTTGTGTTTTTTGTTGTTTTTTAGTGGTAGCTTTTAGAGG
CCCCTCTCTCAACACCGCAAGCACCAGGAGGTCTGTCGTGCACTGATCGATGGATCTAGAAAGTT
TGGTCACTAAACTCAGTACGTGAACTGCACATGCTTCCATAACTTTTCGTGAG
Found at i:6177536 original size:18 final size:18
Alignment explanation
Indices: 6177513--6177547 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6177503 TTTCACCCTC
6177513 TTTCTTT-TTTATCTTTGT
1 TTTCTTTATTTA-CTTTGT
6177531 TTTCTTTATTTACTTTG
1 TTTCTTTATTTACTTTG
6177548 ATATTGCTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.09, C:0.11, G:0.06, T:0.74
Consensus pattern (18 bp):
TTTCTTTATTTACTTTGT
Found at i:6179858 original size:3 final size:3
Alignment explanation
Indices: 6179852--6179931 Score: 110
Period size: 3 Copynumber: 26.7 Consensus size: 3
6179842 TTTGGTCTAA
*
6179852 ATT ATT ATT ATT ATT ATT ATT ATT ACTT ACT ATT A-T ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
*
6179897 ACTT ACT ATT A-T ATT ATT ATT ATT ATT ATT ATT AT
1 A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
6179932 CACTAATTAT
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
2 4 0.06
3 59 0.86
4 6 0.09
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:6181141 original size:22 final size:21
Alignment explanation
Indices: 6181108--6181148 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
6181098 CTTTAGTTTA
6181108 ATTTAGTCCCTGTTAGTTTTTG
1 ATTTAGTCCCTGTTA-TTTTTG
6181130 ATTTAG-CACCTGTTATTTT
1 ATTTAGTC-CCTGTTATTTT
6181149 AATTATTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.17, C:0.15, G:0.15, T:0.54
Consensus pattern (21 bp):
ATTTAGTCCCTGTTATTTTTG
Found at i:6181318 original size:25 final size:27
Alignment explanation
Indices: 6181262--6181325 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 27
6181252 TACTTATTTA
* *
6181262 TATTTTTATTTTTTTGATTGTTTTTAC
1 TATTTTTATTTATTTGATTGTTTTAAC
* *
6181289 CATTTTTA-TTATTTG-TTGTTTTAAT
1 TATTTTTATTTATTTGATTGTTTTAAC
*
6181314 TATTTTAATTTA
1 TATTTTTATTTA
6181326 GTTCCTTGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
25 14 0.47
26 9 0.30
27 7 0.23
ACGTcount: A:0.20, C:0.03, G:0.06, T:0.70
Consensus pattern (27 bp):
TATTTTTATTTATTTGATTGTTTTAAC
Found at i:6188287 original size:37 final size:39
Alignment explanation
Indices: 6188246--6188478 Score: 118
Period size: 39 Copynumber: 5.9 Consensus size: 39
6188236 ATTTCATCCC
6188246 CTATATATATATTTTTA-ATTATATTTT-TTTTTATTTA
1 CTATATATATATTTTTATATTATATTTTATTTTTATTTA
*
6188283 CTATAT-TCCT-TTTTT-TATT-TA--TTATTTTTATTATA
1 CTATATAT-ATATTTTTATATTATATTTTATTTTTATT-TA
* *
6188318 -TATAACTTATATCATTATATATATTATATGTATTAATTTCTCCATTTA
1 CTAT-A--TATAT-ATT-TTTATATTATAT-T-TT-ATTT-T-TATTTA
**
6188366 CTATGTATATATATTTTCTATATTATATTTTATACGTT-TTTA
1 CTA--TATATATATTTT-TATATTATATTTTAT-TTTTATTTA
* *
6188408 -TATATATAT-TTTCTTAATATTCTATTTTGTTTTTATTTA
1 CTATATATATATTT-TT-ATATTATATTTTATTTTTATTTA
*
6188447 -TATATATTATATTTTTA-CTT-TATTTTATTTTT
1 CTATATA-TATATTTTTATATTATATTTTATTTTT
6188479 TTCTATTATT
Statistics
Matches: 152, Mismatches: 14, Indels: 60
0.67 0.06 0.27
Matches are distributed among these distances:
33 2 0.01
34 11 0.07
35 5 0.03
36 9 0.06
37 20 0.13
38 9 0.06
39 33 0.22
40 7 0.05
41 9 0.06
42 6 0.04
44 3 0.02
45 2 0.01
46 4 0.03
47 17 0.11
48 8 0.05
49 5 0.03
50 1 0.01
51 1 0.01
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (39 bp):
CTATATATATATTTTTATATTATATTTTATTTTTATTTA
Found at i:6188289 original size:19 final size:18
Alignment explanation
Indices: 6188265--6188311 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 18
6188255 TATTTTTAAT
6188265 TATATTTTTTTTTATTTA
1 TATATTTTTTTTTATTTA
6188283 CTATATTCCTTTTTTTATTTA
1 -TATATT--TTTTTTTATTTA
6188304 T-TATTTTT
1 TATATTTTT
6188312 ATTATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 3 0.12
19 10 0.38
20 1 0.04
21 12 0.46
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.74
Consensus pattern (18 bp):
TATATTTTTTTTTATTTA
Found at i:6188468 original size:22 final size:22
Alignment explanation
Indices: 6188384--6188469 Score: 72
Period size: 22 Copynumber: 4.0 Consensus size: 22
6188374 ATATATTTTC
*
6188384 TATATTATATTTTATACGTTTTTA
1 TATATTATATTTT-TAC-TTTATA
*
6188408 TATA-TATA-TTTT-CTTAATA
1 TATATTATATTTTTACTTTATA
* * *
6188427 TTCTATTTTGTTTTTA-TTTATA
1 -TATATTATATTTTTACTTTATA
6188449 TATATTATATTTTTACTTTAT
1 TATATTATATTTTTACTTTAT
6188470 TTTATTTTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
19 4 0.08
20 4 0.08
21 15 0.31
22 17 0.35
23 4 0.08
24 4 0.08
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (22 bp):
TATATTATATTTTTACTTTATA
Found at i:6188479 original size:18 final size:18
Alignment explanation
Indices: 6188453--6188490 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
6188443 TTTATATATA
6188453 TTATATTTTTACT-TTATT
1 TTATATTTTT-CTATTATT
*
6188471 TTATTTTTTTCTATTATT
1 TTATATTTTTCTATTATT
6188489 TT
1 TT
6188491 TTTCTTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.76
Consensus pattern (18 bp):
TTATATTTTTCTATTATT
Found at i:6188487 original size:13 final size:13
Alignment explanation
Indices: 6188471--6188495 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6188461 TTACTTTATT
6188471 TTATTTTTTTCTA
1 TTATTTTTTTCTA
6188484 TTATTTTTTTCT
1 TTATTTTTTTCT
6188496 TAATATCATG
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:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTTTTTTCTA
Found at i:6189623 original size:20 final size:20
Alignment explanation
Indices: 6189593--6189642 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
6189583 TGTCACACAT
* *
6189593 TTATA-ATATTATATATATA
1 TTATATATATTAAACATATA
6189612 -TATATTATATTAAACATATA
1 TTATA-TATATTAAACATATA
6189632 TTATATATATT
1 TTATATATATT
6189643 TATTATTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 4 0.15
20 18 0.69
21 4 0.15
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
TTATATATATTAAACATATA
Found at i:6190515 original size:12 final size:12
Alignment explanation
Indices: 6190498--6190580 Score: 121
Period size: 12 Copynumber: 6.9 Consensus size: 12
6190488 TTACAAATCT
6190498 TTAGGCTAATTG
1 TTAGGCTAATTG
6190510 TTAGGCTAATTG
1 TTAGGCTAATTG
*
6190522 TTAGGCTAATTA
1 TTAGGCTAATTG
*
6190534 TTAGACTAATTG
1 TTAGGCTAATTG
*
6190546 TTAGGCTAATTA
1 TTAGGCTAATTG
* *
6190558 TTAGGCAAATTC
1 TTAGGCTAATTG
6190570 TTAGGCTAATT
1 TTAGGCTAATT
6190581 ACCTTTAATG
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 63 1.00
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (12 bp):
TTAGGCTAATTG
Found at i:6191112 original size:249 final size:248
Alignment explanation
Indices: 6190675--6191175 Score: 921
Period size: 249 Copynumber: 2.0 Consensus size: 248
6190665 GTGAACTACA
* *
6190675 TTCTATACTGTAGTTTTATATGGTATCATATGTTTTAAAATATTTGGGTGCTTAAAGTTTTTCCC
1 TTCTATACTGTAGTTTTACATGGTATCATATGTTTTAAAATATCTGGGTGCTTAAAGTTTTTCCC
6190740 TGAGTTGTTTGGGTATCAAAAGAAGGTTGTGTTTTTTGTTGTTTTTTAGTGGTAGCTTTTAGAGG
66 TGAGTTGTTTGGGTATCAAAAGAAGGTTGTGTTTTTTGTTGTTTTTTAGTGGTAGCTTTTAGAGG
6190805 CCCCTCTCTCAACACCGCAAGCACCAGGAGGTCTGTCATGCACTGATCAATGGATCTAGAAAGTT
131 CCCCTCTCTCAACACCGCAAGCACCAGGAGGTCTGTCATGCACTGATCAATGGATCTAGAAAGTT
*
6190870 TAGTCACTAAACTCAGTGCGTGAACTGCACATGCTTCCATAACTTTTCGTGAG
196 TAGTCACTAAACTCAGTGCGTGAACTGCACATGCTTCCATAACTTTTCATGAG
*
6190923 TTCTATACTGTAGTTTTACATGGTATCATATGTTTTAAAATATCTGGGTGCTTAAAATTTTTTCC
1 TTCTATACTGTAGTTTTACATGGTATCATATGTTTTAAAATATCTGGGTGCTT-AAAGTTTTTCC
6190988 CTGAGTTGTTTGGGTATCAAAAGAAGGTTGTGTTTTTTGTTGTTTTTTAGTGGTAGCTTTTAGAG
65 CTGAGTTGTTTGGGTATCAAAAGAAGGTTGTGTTTTTTGTTGTTTTTTAGTGGTAGCTTTTAGAG
* *
6191053 GCCCCTCTCTCAACACCGCAAGCACCAGGAGGTCTGTCGTGCACTGATCGATGGATCTAGAAAGT
130 GCCCCTCTCTCAACACCGCAAGCACCAGGAGGTCTGTCATGCACTGATCAATGGATCTAGAAAGT
* *
6191118 TTGGTCACTAAACTCAGTGCGTGAACTGCACGTGCTTCCATAACTTTTCATGAG
195 TTAGTCACTAAACTCAGTGCGTGAACTGCACATGCTTCCATAACTTTTCATGAG
6191172 TTCT
1 TTCT
6191176 TCACGTGAGA
Statistics
Matches: 244, Mismatches: 8, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
248 51 0.21
249 193 0.79
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.38
Consensus pattern (248 bp):
TTCTATACTGTAGTTTTACATGGTATCATATGTTTTAAAATATCTGGGTGCTTAAAGTTTTTCCC
TGAGTTGTTTGGGTATCAAAAGAAGGTTGTGTTTTTTGTTGTTTTTTAGTGGTAGCTTTTAGAGG
CCCCTCTCTCAACACCGCAAGCACCAGGAGGTCTGTCATGCACTGATCAATGGATCTAGAAAGTT
TAGTCACTAAACTCAGTGCGTGAACTGCACATGCTTCCATAACTTTTCATGAG
Found at i:6197604 original size:26 final size:26
Alignment explanation
Indices: 6197566--6197624 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
6197556 TATCCGGGAA
*
6197566 AGACTTGATAGGGGAGTCACAAACGT
1 AGACTTGACAGGGGAGTCACAAACGT
*
6197592 AGACTTGACAGGGGAGTCGCAAACGT
1 AGACTTGACAGGGGAGTCACAAACGT
*
6197618 AGCCTTG
1 AGACTTG
6197625 GGGTAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.31, C:0.19, G:0.32, T:0.19
Consensus pattern (26 bp):
AGACTTGACAGGGGAGTCACAAACGT
Found at i:6206159 original size:63 final size:63
Alignment explanation
Indices: 6206086--6206210 Score: 223
Period size: 63 Copynumber: 2.0 Consensus size: 63
6206076 TTCGATTTCA
* *
6206086 GTTCTCATTTTCAAAAACTAACAAAGGACATTTCATATTTTAGTGAAAACCGAACCGAACCAT
1 GTTCTCATTTTCAAAAACTAACAAAGGACAATTCATATTTTAGTGAAAACCGAACCAAACCAT
*
6206149 GTTCTGATTTTCAAAAACTAACAAAGGACAATTCATATTTTAGTGAAAACCGAACCAAACCA
1 GTTCTCATTTTCAAAAACTAACAAAGGACAATTCATATTTTAGTGAAAACCGAACCAAACCA
6206211 GATACACCTC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.27
Consensus pattern (63 bp):
GTTCTCATTTTCAAAAACTAACAAAGGACAATTCATATTTTAGTGAAAACCGAACCAAACCAT
Found at i:6211665 original size:111 final size:111
Alignment explanation
Indices: 6211426--6211963 Score: 564
Period size: 111 Copynumber: 4.8 Consensus size: 111
6211416 TTGGTAGGGG
* * * * *
6211426 TTACATTGTCTAAGTTCATATCTACTGGAATGGTAACACTCGCCTCTGAGGATGCGA-CTTCAGC
1 TTACATGGTCTAAGTTCGTATCTACTGGAATGGTAACACTCGTCTCTGAAGATGCAACCTT-AG-
* * * ** *
6211490 CATGGGATAAGTTA-ATGAATTATCGGGGTTCAAGGACAAATCTTTATCTT
64 C-T-GGATAAGTTACA-GGATTCTTGGGGTTGGAGGACAAATCTTTATCCT
* * * *
6211540 TTACATGGTCTAAGTTTGTATCAACTGGAATGGCAACACTCATCTCTGAAGATGCAACCTTAGCT
1 TTACATGGTCTAAGTTCGTATCTACTGGAATGGTAACACTCGTCTCTGAAGATGCAACCTTAGCT
* *
6211605 GGATAAGTTACATGATTCTTGGGGTTGGAGGACAGATCTGTT-TCCT
66 GGATAAGTTACAGGATTCTTGGGGTTGGAGGACAAATCT-TTATCCT
* * * * * * *
6211651 TTACATTGTCTAAGTTCGTATCAACTGTAATAGTAACACTTGTCTCTGAAGATGCAACTTTAGCC
1 TTACATGGTCTAAGTTCGTATCTACTGGAATGGTAACACTCGTCTCTGAAGATGCAACCTTAGCT
* * * *
6211716 GGATAAGTTAGAGGATTTTTGGGGTTGGAGGAAAAATCTTTATCTT
66 GGATAAGTTACAGGATTCTTGGGGTTGGAGGACAAATCTTTATCCT
* * ** * *
6211762 TTACACGGTCTATGTTCGTATCTACTAAAATGGTAACACTCGTCTCGGAAGATGCAA-CTTCAGA
1 TTACATGGTCTAAGTTCGTATCTACTGGAATGGTAACACTCGTCTCTGAAGATGCAACCTT-AGC
* ** *
6211826 AGGATAAGTTACAGGATTCTCCGGGTTGGAGGACAAATCTGTATCCT
65 TGGATAAGTTACAGGATTCTTGGGGTTGGAGGACAAATCTTTATCCT
* *
6211873 TTACATGGTCTAAGTTCGTATCTACTGGAATGGTAACACTCGTCT-TCGAGGATGCAACTTTAGC
1 TTACATGGTCTAAGTTCGTATCTACTGGAATGGTAACACTCGTCTCT-GAAGATGCAACCTTAG-
* *
6211937 CATGGGATTAGTTACAGGATTCCTGGG
64 C-T-GGATAAGTTACAGGATTCTTGGG
6211964 ATCAGAGGGC
Statistics
Matches: 350, Mismatches: 64, Indels: 20
0.81 0.15 0.05
Matches are distributed among these distances:
110 4 0.01
111 267 0.76
112 6 0.02
113 1 0.00
114 69 0.20
115 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (111 bp):
TTACATGGTCTAAGTTCGTATCTACTGGAATGGTAACACTCGTCTCTGAAGATGCAACCTTAGCT
GGATAAGTTACAGGATTCTTGGGGTTGGAGGACAAATCTTTATCCT
Found at i:6211815 original size:222 final size:223
Alignment explanation
Indices: 6211426--6211938 Score: 665
Period size: 222 Copynumber: 2.3 Consensus size: 223
6211416 TTGGTAGGGG
* * * *
6211426 TTACATTGTCTAAGTTCATATCTACTGGAATGGTAACACTCGCCTCTGAGGATGCGACTTCAGCC
1 TTACATTGTCTAAGTTCGTATCTACTGGAATGGTAACACTCGTCTCTGAGGATGCAACTTTAGCC
* *
6211491 ATGGGATAAGTTAATGAATTATCGGGGTTCAAGGACAAATCTTTATCTTTTACATGGTCTAAGTT
66 A--GGATAAGTTAATGAATTATCGGGGTTCAAGGAAAAATCTTTATCTTTTACACGGTCTAAGTT
* ** * ** *
6211556 TGTATCAACTGGAATGGCAACACTCATCTCTGAAGATGCAACCTT-AGCTGGATAAGTTACATGA
129 CGTATCAACTAAAATGGCAACACTCATCTCGGAAGATGCAA-CTTCAGAAGGATAAGTTACAGGA
** * *
6211620 TTCTTGGGGTTGGAGGACAGATCTGTTTCCT
193 TTCTCCGGGTTGGAGGACAAATCTGTATCCT
* * * * *
6211651 TTACATTGTCTAAGTTCGTATCAACTGTAATAGTAACACTTGTCTCTGAAGATGCAACTTTAGCC
1 TTACATTGTCTAAGTTCGTATCTACTGGAATGGTAACACTCGTCTCTGAGGATGCAACTTTAGCC
* * * ** *
6211716 -GGATAAGTTAGA-GGATTTTTGGGGTTGGAGGAAAAATCTTTATCTTTTACACGGTCTATGTTC
66 AGGATAAGTTA-ATGAATTATCGGGGTTCAAGGAAAAATCTTTATCTTTTACACGGTCTAAGTTC
* * *
6211779 GTATCTACTAAAATGGTAACACTCGTCTCGGAAGATGCAACTTCAGAAGGATAAGTTACAGGATT
130 GTATCAACTAAAATGGCAACACTCATCTCGGAAGATGCAACTTCAGAAGGATAAGTTACAGGATT
6211844 CTCCGGGTTGGAGGACAAATCTGTATCCT
195 CTCCGGGTTGGAGGACAAATCTGTATCCT
*
6211873 TTACATGGTCTAAGTTCGTATCTACTGGAATGGTAACACTCGTCT-TCGAGGATGCAACTTTAGC
1 TTACATTGTCTAAGTTCGTATCTACTGGAATGGTAACACTCGTCTCT-GAGGATGCAACTTTAGC
6211937 CA
65 CA
6211939 TGGGATTAGT
Statistics
Matches: 247, Mismatches: 37, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
221 4 0.02
222 186 0.75
223 1 0.00
225 56 0.23
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (223 bp):
TTACATTGTCTAAGTTCGTATCTACTGGAATGGTAACACTCGTCTCTGAGGATGCAACTTTAGCC
AGGATAAGTTAATGAATTATCGGGGTTCAAGGAAAAATCTTTATCTTTTACACGGTCTAAGTTCG
TATCAACTAAAATGGCAACACTCATCTCGGAAGATGCAACTTCAGAAGGATAAGTTACAGGATTC
TCCGGGTTGGAGGACAAATCTGTATCCT
Found at i:6219032 original size:27 final size:27
Alignment explanation
Indices: 6218994--6219054 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
6218984 TACAAACCAT
6218994 GGCATACATCAGACTTCCAATTGCTAA
1 GGCATACATCAGACTTCCAATTGCTAA
* *
6219021 GGCATACATCAGACTTCCTATTGCTGA
1 GGCATACATCAGACTTCCAATTGCTAA
6219048 GGCATAC
1 GGCATAC
6219055 GGCACCTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (27 bp):
GGCATACATCAGACTTCCAATTGCTAA
Found at i:6219656 original size:16 final size:16
Alignment explanation
Indices: 6219644--6219677 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
6219634 AAATTTTCTG
6219644 CAGCTACAATTTTCAA
1 CAGCTACAATTTTCAA
6219660 CAGCTACAATTTTCAA
1 CAGCTACAATTTTCAA
6219676 CA
1 CA
6219678 CCAGTCTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.29
Consensus pattern (16 bp):
CAGCTACAATTTTCAA
Found at i:6223618 original size:27 final size:27
Alignment explanation
Indices: 6223580--6223640 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
6223570 TACAAACAAT
*
6223580 GGCATACATCAGACTTCCAATTGTTTA
1 GGCATACATCAGACTTCCAATTGTTGA
6223607 GGCATACATCAGACTTCCAATTGTTGA
1 GGCATACATCAGACTTCCAATTGTTGA
6223634 GGCATAC
1 GGCATAC
6223641 GGCACCTTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (27 bp):
GGCATACATCAGACTTCCAATTGTTGA
Found at i:6228969 original size:6 final size:6
Alignment explanation
Indices: 6228958--6228983 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6228948 CCATTTACAT
6228958 AAGAAA AAGAAA AAGAAA AAGAAA AA
1 AAGAAA AAGAAA AAGAAA AAGAAA AA
6228984 AAAGATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:6231905 original size:19 final size:19
Alignment explanation
Indices: 6231881--6231920 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
6231871 ACACTTCTCC
6231881 CATTTATCATTTTAAAACA
1 CATTTATCATTTTAAAACA
6231900 CATTTATCATTTTAAAACA
1 CATTTATCATTTTAAAACA
6231919 CA
1 CA
6231921 CTTAAAACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.40
Consensus pattern (19 bp):
CATTTATCATTTTAAAACA
Found at i:6234218 original size:20 final size:21
Alignment explanation
Indices: 6234166--6234226 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
6234156 CCTGTGGGGG
6234166 GGGGGGATCGGTTCCCCTTCAAA
1 GGGGGGATCGGTT-CCC-TCAAA
* *
6234189 GGGGGAATCGGTTCCCTC-AT
1 GGGGGGATCGGTTCCCTCAAA
*
6234209 GGGGGGATCGATTCCCTC
1 GGGGGGATCGGTTCCCTC
6234227 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 12 0.35
ACGTcount: A:0.15, C:0.26, G:0.36, T:0.23
Consensus pattern (21 bp):
GGGGGGATCGGTTCCCTCAAA
Found at i:6240684 original size:66 final size:67
Alignment explanation
Indices: 6240617--6240837 Score: 180
Period size: 74 Copynumber: 3.2 Consensus size: 67
6240607 AATCTCTATG
6240617 TTTTTATTTATTTCATTTTTGGCACTTATGATTAATTATTTTTAATTTAGTCACTTATATGTCAT
1 TTTTTATTTATTTCATTTTTGGCACTTATGATTAATTATTTTTAATTTAGTCACTTATATGTCAT
6240682 GTTTT
66 G---T
* * * ** ** * * *
6240687 CTGTTTTATTTAGTTCTAATTTTGGCATTTTATTTTTCTCTTA-TTTTATTTTAGTCCCTGA-AT
1 -T-TTTTATTTATTTC-ATTTTTGGCA-CTTATGATT-AATTATTTTTAATTTAGTCACTTATAT
* * *
6240750 CTC-CGCA
61 GTCATG-T
*
6240757 TTTTTATTTATTTCGTTTTTGGCACTTATGATTAATTATTTTTAATTTAGTCA-TTGATATGTCA
1 TTTTTATTTATTTCATTTTTGGCACTTATGATTAATTATTTTTAATTTAGTCACTT-ATATGTCA
6240821 TGT
65 TGT
*
6240824 TTTTTGTTTTATTT
1 TTTTT-ATTTATTT
6240838 AGTTCTGATT
Statistics
Matches: 112, Mismatches: 29, Indels: 21
0.69 0.18 0.13
Matches are distributed among these distances:
65 4 0.04
66 19 0.17
67 17 0.15
68 20 0.18
69 1 0.01
71 1 0.01
72 13 0.12
73 13 0.12
74 21 0.19
75 3 0.03
ACGTcount: A:0.20, C:0.10, G:0.10, T:0.60
Consensus pattern (67 bp):
TTTTTATTTATTTCATTTTTGGCACTTATGATTAATTATTTTTAATTTAGTCACTTATATGTCAT
GT
Found at i:6240765 original size:140 final size:139
Alignment explanation
Indices: 6240599--6240884 Score: 448
Period size: 140 Copynumber: 2.1 Consensus size: 139
6240589 TTTTTTTTCA
* **
6240599 AGTCCCTGAATCTCTATGTTTTTATTTATTTCATTTTTGGCACTTATGATTAATTATTTTTAATT
1 AGTCCCTGAATCTCCACATTTTTATTTATTTCATTTTTGGCACTTATGATTAATTATTTTTAATT
* *
6240664 TAGTCACTT-ATATGTCATGTTTTCTGTTTTATTTAGTTCTAATTTTGGCATTTTATTTTTCTCT
66 TAGTCA-TTGATATGTCATGTTTTCTGTTTTATTTAGTTCTAATTTTGGCACTTTATTTTTCT-A
*
6240728 TATTTTATTTT
129 TAATTTATTTT
* *
6240739 AGTCCCTGAATCTCCGCATTTTTATTTATTTCGTTTTTGGCACTTATGATTAATTATTTTTAATT
1 AGTCCCTGAATCTCCACATTTTTATTTATTTCATTTTTGGCACTTATGATTAATTATTTTTAATT
* *
6240804 TAGTCATTGATATGTCATGTTTTTTGTTTTATTTAGTTCTGATTTTGGCACTTTATTTTTCTATA
66 TAGTCATTGATATGTCATGTTTTCTGTTTTATTTAGTTCTAATTTTGGCACTTTATTTTTCTATA
6240869 ATTTATTTT
131 ATTTATTTT
*
6240878 AGACCCT
1 AGTCCCT
6240885 TATTTTACTA
Statistics
Matches: 134, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
139 18 0.13
140 116 0.87
ACGTcount: A:0.20, C:0.12, G:0.10, T:0.57
Consensus pattern (139 bp):
AGTCCCTGAATCTCCACATTTTTATTTATTTCATTTTTGGCACTTATGATTAATTATTTTTAATT
TAGTCATTGATATGTCATGTTTTCTGTTTTATTTAGTTCTAATTTTGGCACTTTATTTTTCTATA
ATTTATTTT
Found at i:6240854 original size:73 final size:73
Alignment explanation
Indices: 6240633--6240856 Score: 214
Period size: 73 Copynumber: 3.2 Consensus size: 73
6240623 TTTATTTCAT
*
6240633 TTTTGGCACTTATGATTAATTATTTTTAATTTAGTCACTT-ATATGTCATGTTTTCTGTTTTATT
1 TTTTGGCACTTATGATTAATTATTTTTAATTTAGTCA-TTGATATGTCATGTTTTATGTTTTATT
*
6240697 TAGTTCTAA
65 TAGTTCTGA
* ** ** * ** * * *
6240706 TTTTGGCATTTTATTTTTCTCTTA-TTTTATTTTAGTCCCTGA-ATCTC-CG---CAT-TTTTAT
1 TTTTGGCA-CTTATGATT-AATTATTTTTAATTTAGTCATTGATATGTCATGTTTTATGTTTTAT
* *
6240764 TTATTTC-GT
64 TTAGTTCTGA
*
6240773 TTTTGGCACTTATGATTAATTATTTTTAATTTAGTCATTGATATGTCATGTTTTTTGTTTTATTT
1 TTTTGGCACTTATGATTAATTATTTTTAATTTAGTCATTGATATGTCATGTTTTATGTTTTATTT
6240838 AGTTCTGA
66 AGTTCTGA
6240846 TTTTGGCACTT
1 TTTTGGCACTT
6240857 TATTTTTCTA
Statistics
Matches: 111, Mismatches: 29, Indels: 22
0.69 0.18 0.14
Matches are distributed among these distances:
65 3 0.03
66 21 0.19
67 12 0.11
68 13 0.12
69 1 0.01
71 1 0.01
72 13 0.12
73 25 0.23
74 19 0.17
75 3 0.03
ACGTcount: A:0.20, C:0.11, G:0.12, T:0.58
Consensus pattern (73 bp):
TTTTGGCACTTATGATTAATTATTTTTAATTTAGTCATTGATATGTCATGTTTTATGTTTTATTT
AGTTCTGA
Found at i:6240879 original size:73 final size:73
Alignment explanation
Indices: 6240656--6240879 Score: 189
Period size: 73 Copynumber: 3.2 Consensus size: 73
6240646 GATTAATTAT
* * *
6240656 TTTTAATTTAGTCACTT-ATATGTCATGTTTTCTGTTTTATTTAGTTCTAATTTTGGCATTTTAT
1 TTTTAATTTAGTCA-TTGATATGTCATGTTTTATGTTTTATTTAGTTCTGATTTTGGCACTTTAT
*
6240720 TTTTCTCTTA
65 TTTTCT-ATA
* ** * * * * *
6240730 TTTTATTTTAGTCCCTGA-ATCTC-CG---CAT-TTTTATTTATTTC-GTTTTTGGCACTTATGA
1 TTTTAATTTAGTCATTGATATGTCATGTTTTATGTTTTATTTAGTTCTGATTTTGGCACTT-T-A
**
6240788 TTAAT-TAT-
64 TTTTTCTATA
*
6240796 TTTTAATTTAGTCATTGATATGTCATGTTTTTTGTTTTATTTAGTTCTGATTTTGGCACTTTATT
1 TTTTAATTTAGTCATTGATATGTCATGTTTTATGTTTTATTTAGTTCTGATTTTGGCACTTTATT
6240861 TTTCTATA
66 TTTCTATA
* *
6240869 ATTTATTTTAG
1 TTTTAATTTAG
6240880 ACCCTTATTT
Statistics
Matches: 111, Mismatches: 27, Indels: 25
0.68 0.17 0.15
Matches are distributed among these distances:
66 15 0.14
67 15 0.14
68 15 0.14
69 5 0.05
71 5 0.05
72 17 0.15
73 26 0.23
74 13 0.12
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.59
Consensus pattern (73 bp):
TTTTAATTTAGTCATTGATATGTCATGTTTTATGTTTTATTTAGTTCTGATTTTGGCACTTTATT
TTTCTATA
Found at i:6241168 original size:16 final size:16
Alignment explanation
Indices: 6241147--6241185 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
6241137 TTTATTTCGA
*
6241147 TCATTTTTATCTCT-TT
1 TCATTTTTATAT-TGTT
6241163 TCATTTTTATATTGTT
1 TCATTTTTATATTGTT
6241179 TCATTTT
1 TCATTTT
6241186 AGCTTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 1 0.05
16 20 0.95
ACGTcount: A:0.15, C:0.13, G:0.03, T:0.69
Consensus pattern (16 bp):
TCATTTTTATATTGTT
Found at i:6247777 original size:22 final size:22
Alignment explanation
Indices: 6247749--6247793 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6247739 GGCATGTGAA
6247749 ATATGTCCCAAAAGACCTATGT
1 ATATGTCCCAAAAGACCTATGT
** *
6247771 ATATGTCCTGAAGGACCTATGT
1 ATATGTCCCAAAAGACCTATGT
6247793 A
1 A
6247794 ACCATCGACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (22 bp):
ATATGTCCCAAAAGACCTATGT
Found at i:6254978 original size:19 final size:20
Alignment explanation
Indices: 6254925--6254978 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
6254915 CATCAATCTC
*
6254925 ATATCATATAAATCATATAGC
1 ATAT-ATATAAATCATATAGA
6254946 ATATAT-TAAATCATATA-A
1 ATATATATAAATCATATAGA
*
6254964 ATATATATAACTCAT
1 ATATATATAAATCAT
6254979 GCATGTGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 6 0.20
19 18 0.60
20 2 0.07
21 4 0.13
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.37
Consensus pattern (20 bp):
ATATATATAAATCATATAGA
Found at i:6255456 original size:20 final size:20
Alignment explanation
Indices: 6255433--6255477 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
6255423 CTGACCTTAT
*
6255433 GGTATCAATACTACCCTCTA
1 GGTATCAATACTACCCTCCA
*
6255453 GGTATCGATACTACCCTCCA
1 GGTATCAATACTACCCTCCA
6255473 GGTAT
1 GGTAT
6255478 AGATACCCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
GGTATCAATACTACCCTCCA
Found at i:6255482 original size:20 final size:20
Alignment explanation
Indices: 6255440--6255483 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
6255430 TATGGTATCA
* *
6255440 ATACTACCCTCTAGGTATCG
1 ATACTACCCTCCAGGTATAG
6255460 ATACTACCCTCCAGGTATAG
1 ATACTACCCTCCAGGTATAG
6255480 ATAC
1 ATAC
6255484 CCCATGAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.27
Consensus pattern (20 bp):
ATACTACCCTCCAGGTATAG
Found at i:6255816 original size:7 final size:7
Alignment explanation
Indices: 6255804--6255828 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6255794 ATTCTAACAC
6255804 TTCATAT
1 TTCATAT
6255811 TTCATAT
1 TTCATAT
6255818 TTCATAT
1 TTCATAT
6255825 TTCA
1 TTCA
6255829 ACTAAAGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.16, G:0.00, T:0.56
Consensus pattern (7 bp):
TTCATAT
Found at i:6267046 original size:138 final size:137
Alignment explanation
Indices: 6266658--6267057 Score: 350
Period size: 137 Copynumber: 2.9 Consensus size: 137
6266648 AATCTAGGGT
* * * * *
6266658 ATTAAACCTAAAAAGTGTG-GGCTATAATATTAATCCTAA-TAATTTTTGGTAAATTATTGAATT
1 ATTAAACCT-AAAA-TG-GAGGCTCTAATATTAATCCTAATTAA-TTTTAGTTAGTTATTGAATC
* * * * * *
6266721 GAACAACCAAAATGGAACCTCAAGCATAAGCGAA-GACCAAATCAAAAATTC-CCTAGATTAAAG
62 GAATAACTAAATTGGAACCTCGAGCATAAGCGAAGGACCAAATAAAAAATTCTCCTA-ATTTAAG
* ** *
6266784 GACTAGGTTTAA
126 GAATAAATTGAA
* * * * *
6266796 ATTAAACCTAAAATGGAGGCTCTAAACATTACT-CT-ATTCGATTTTA-ATCGATTA-TGCAATT
1 ATTAAACCTAAAATGGAGGCTCT-AATATTAATCCTAATT-AATTTTAGTTAG-TTATTG-AA-T
* * * *
6266857 CGAATAATTAAATTGGAACCTCGAGCAAAAGCG-AGGACCAAATTAAGAATTCTCCTAATTTAAG
61 CGAATAACTAAATTGGAACCTCGAGCATAAGCGAAGGACCAAATAAAAAATTCTCCTAATTTAAG
*
6266921 TAATAAATGTGAA
126 GAATAAAT-TGAA
**
6266934 ATTAGGCCTAAAATGGAGGCTCTAATATTAATCCTAATTAATTTTAGTTAGTTATTGAATCGAAT
1 ATTAAACCTAAAATGGAGGCTCTAATATTAATCCTAATTAATTTTAGTTAGTTATTGAATCGAAT
* * * * *
6266999 AACTAATTTGGAACCTCGAGCATAAGCGAAGGGCAAAATAAAAAATTCTCTTAAATTAA
66 AACTAAATTGGAACCTCGAGCATAAGCGAAGGACCAAATAAAAAATTCTCCTAATTTAA
6267058 AAGTTTAGGG
Statistics
Matches: 207, Mismatches: 40, Indels: 30
0.75 0.14 0.11
Matches are distributed among these distances:
135 4 0.02
136 20 0.10
137 102 0.49
138 74 0.36
139 7 0.03
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.29
Consensus pattern (137 bp):
ATTAAACCTAAAATGGAGGCTCTAATATTAATCCTAATTAATTTTAGTTAGTTATTGAATCGAAT
AACTAAATTGGAACCTCGAGCATAAGCGAAGGACCAAATAAAAAATTCTCCTAATTTAAGGAATA
AATTGAA
Found at i:6269539 original size:59 final size:59
Alignment explanation
Indices: 6269421--6269542 Score: 163
Period size: 59 Copynumber: 2.1 Consensus size: 59
6269411 CTAACTCGAG
* * * * * **
6269421 TATGACACATAAGGTCGTGCCCACCATCTGTACTAGTTATACTTTAGTGTAGTTTCGAA
1 TATGACACATAAGGTCATGCCCACCATATGCACTAGTTATACTTTAGTGCAATCCCGAA
* *
6269480 TATGACACATAAGGTCATGCCCACCATATGCACTATTTATACTTTATTGCAATCCCGAA
1 TATGACACATAAGGTCATGCCCACCATATGCACTAGTTATACTTTAGTGCAATCCCGAA
6269539 TATG
1 TATG
6269543 CAGCCTGCTG
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.33
Consensus pattern (59 bp):
TATGACACATAAGGTCATGCCCACCATATGCACTAGTTATACTTTAGTGCAATCCCGAA
Found at i:6272541 original size:14 final size:15
Alignment explanation
Indices: 6272522--6272550 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6272512 ATTTTTGGTA
6272522 ATAATAA-AAATATT
1 ATAATAATAAATATT
6272536 ATAATAATAAATATT
1 ATAATAATAAATATT
6272551 TTTGGGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAATAATAAATATT
Found at i:6273241 original size:79 final size:79
Alignment explanation
Indices: 6273075--6273244 Score: 202
Period size: 79 Copynumber: 2.2 Consensus size: 79
6273065 CATCGAATGG
* *
6273075 GTTCTTCTCATTACGAACCTTACATTAGAAATATTGATCCACCTCCTTCTATGATGGAATCGAGT
1 GTTCTTCTCATTACGAACCTTACATTAGAAATATTGATCCACCTCATTCTATGATGGAATCGAGA
*
6273140 GAAATGTTGAACAA
66 CAAATGTTGAACAA
* * * * * * *
6273154 GTTATTCTCATTAGGAACGACTT-CATTGGAAATGTTGGTCCACCTCATTCTATGATGGATTTGA
1 GTTCTTCTCATTACGAAC--CTTACATTAGAAATATTGATCCACCTCATTCTATGATGGAATCGA
6273218 -ACAAA-GATTGAACAA
64 GACAAATG-TTGAACAA
6273233 GTTCTTCTCATT
1 GTTCTTCTCATT
6273245 GAACTTCTTC
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
78 1 0.01
79 38 0.49
80 35 0.45
81 3 0.04
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (79 bp):
GTTCTTCTCATTACGAACCTTACATTAGAAATATTGATCCACCTCATTCTATGATGGAATCGAGA
CAAATGTTGAACAA
Found at i:6274932 original size:54 final size:54
Alignment explanation
Indices: 6274829--6275107 Score: 235
Period size: 54 Copynumber: 5.1 Consensus size: 54
6274819 TTACAATTAT
* ** ** * *
6274829 CATCAAGAAACCCCTCAAAATTGGGCTTATTTTCTTTTAAACATTCATTTGAAAA
1 CATCAAGAAACCCCTAAAAATCAGGCTTA-GCTCCTTTAAAAATTCATTTGAAAA
* * *
6274884 CATTAAGAAACCTCTAAAAA-CTAGGCTTAGCTCCTTTAAAAATTCATTTAAAAA
1 CATCAAGAAACCCCTAAAAATC-AGGCTTAGCTCCTTTAAAAATTCATTTGAAAA
* * * * *
6274938 TATCAATAAACCCCTAAAAATCAGGCTTAG-TGCATTT-GAAATATCATTTAAAGAAAT
1 CATCAAGAAACCCCTAAAAATCAGGCTTAGCT-CCTTTAAAAAT-TCATTT---GAAAA
* * *
6274995 CATCAAGAAACTTCC-GAAAATC-GGACTTAACTCCTTTAAAAATTCATTTGAAAA
1 CATCAAGAAAC-CCCTAAAAATCAGG-CTTAGCTCCTTTAAAAATTCATTTGAAAA
* * * * *
6275049 CATCCAGAAACCCCTGAAAATCAGGCTTAGCTTCTTTCAAAATTGATTTGAAAA
1 CATCAAGAAACCCCTAAAAATCAGGCTTAGCTCCTTTAAAAATTCATTTGAAAA
6275103 CATCA
1 CATCA
6275108 TATTGTTTAG
Statistics
Matches: 178, Mismatches: 33, Indels: 27
0.75 0.14 0.11
Matches are distributed among these distances:
53 7 0.04
54 104 0.58
55 26 0.15
56 2 0.01
57 32 0.18
58 7 0.04
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.30
Consensus pattern (54 bp):
CATCAAGAAACCCCTAAAAATCAGGCTTAGCTCCTTTAAAAATTCATTTGAAAA
Found at i:6275108 original size:111 final size:108
Alignment explanation
Indices: 6274809--6275109 Score: 286
Period size: 111 Copynumber: 2.7 Consensus size: 108
6274799 GGCTTCTTCA
* * ** *
6274809 AAAAATTCATTTACAATTATCATCAAGAAACCCCTCAAAATTGGGCTTATTTTCTTTTAAACATT
1 AAAAATTCATTTA-AA--AACATCAAGAAACCCCTAAAAATCAGGCTTA-GTTC-TTTAAA-ATT
* *
6274874 CATTTGAAAACAT--TAAGAAACCTCTAAAAACTAGGCTTAGCTCCTTT
60 CATTTGAAAACATCATAAGAAACCTCCAAAAACTAGGCTTAACTCCTTT
* * * *
6274921 AAAAATTCATTTAAAAATATCAATAAACCCCTAAAAATCAGGCTTAGTGCATTTGAAATATCATT
1 AAAAATTCATTTAAAAACATCAAGAAACCCCTAAAAATCAGGCTTAGTTC-TTTAAAAT-TCATT
* * * *
6274986 T-AAAGAAATCATCAAGAAACTTCCGAAAA-TCGGACTTAACTCCTTT
64 TGAAA-ACATCAT-AAGAAACCTCCAAAAACTAGG-CTTAACTCCTTT
* * * *
6275032 AAAAATTCATTTGAAAACATCCAGAAACCCCTGAAAATCAGGCTTAGCTTCTTTCAAAATTGATT
1 AAAAATTCATTTAAAAACATCAAGAAACCCCTAAAAATCAGGCTTAG-TTCTTT-AAAATTCATT
6275097 TGAAAACATCATA
64 TGAAAACATCATA
6275110 TTGTTTAGGT
Statistics
Matches: 155, Mismatches: 25, Indels: 20
0.77 0.12 0.10
Matches are distributed among these distances:
107 5 0.03
108 16 0.10
109 25 0.16
110 5 0.03
111 82 0.53
112 22 0.14
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.31
Consensus pattern (108 bp):
AAAAATTCATTTAAAAACATCAAGAAACCCCTAAAAATCAGGCTTAGTTCTTTAAAATTCATTTG
AAAACATCATAAGAAACCTCCAAAAACTAGGCTTAACTCCTTT
Found at i:6278633 original size:2 final size:2
Alignment explanation
Indices: 6278626--6278659 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
6278616 AGTCCCATGA
* *
6278626 AT AT AT AT AT AT AT AT AT AT AT GT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6278660 GCATGTTTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6284159 original size:95 final size:95
Alignment explanation
Indices: 6284051--6284665 Score: 685
Period size: 95 Copynumber: 6.5 Consensus size: 95
6284041 TTTCCCTCAA
* * *
6284051 AACACAAATTTTGAAATTGTTTCACTTGAAACAAAAATTTATCACCTGAGATGGTTTTTCTTAAA
1 AACACAAATTTTGAAATTATTTCACTCGAAACAAAAATTTATCACTTGAGATGGTTTTTCTTAAA
* *
6284116 ATTAATTTTGCTTGAAATACTTCCCTTTGG
66 ATCAATTTTGCTTGAAATAGTTCCCTTTGG
* * *
6284146 AACACATATTTTGAAA--ATTTCACTCGAAATAAAAATTTATCACTTGAGATGGATTTTCTTAAA
1 AACACAAATTTTGAAATTATTTCACTCGAAACAAAAATTTATCACTTGAGATGGTTTTTCTTAAA
** * *
6284209 ATCAATTTCATTTTTTTTGAAATAGTTTCCC-TCGA
66 ATC-A----ATTTTGCTTGAAATAG-TTCCCTTTGG
* * * *
6284244 AACACAAATTTTGAAATTGTTTCACTCAAAACAAAAATTTATCACATGAGATGTTTTTTCTTAAA
1 AACACAAATTTTGAAATTATTTCACTCGAAACAAAAATTTATCACTTGAGATGGTTTTTCTTAAA
6284309 ATCAATTTTGCTTGAAATAGTT-CCTATTGG
66 ATCAATTTTGCTTGAAATAGTTCCCT-TTGG
* * * *
6284339 AACACATATTTTGAATTTTTTTTCACTCGAAACAAAAATTTATCACTT-AGATGTTTTTTTCTTA
1 AACACAAATTTTGAA-ATTATTTCACTCGAAACAAAAATTTATCACTTGAGATG-GTTTTTCTTA
6284403 AAATCAATTTTGCTTGAAATAGTTCCCTTTGG
64 AAATCAATTTTGCTTGAAATAGTTCCCTTTGG
** * * *
6284435 AACACAAATTTTGAAAACATTTCACTCGAAACAAAAATTTATCACTTGATATGGGTTTTCGTAAA
1 AACACAAATTTTGAAATTATTTCACTCGAAACAAAAATTTATCACTTGAGATGGTTTTTCTTAAA
*** *
6284500 ATCAA-TTT-CATT-TTTTAGTTCCCCTTGG
66 ATCAATTTTGC-TTGAAATAGTTCCCTTTGG
* * * * *
6284528 AACATATATTTTGAAATTTTTTCATTCAAAACAAAAATTTATCACTTGAGATGGTTTTTCTTAAA
1 AACACAAATTTTGAAATTATTTCACTCGAAACAAAAATTTATCACTTGAGATGGTTTTTCTTAAA
* *
6284593 ATTAATTTTGCTT-AAGATAGTTCCCCTTGG
66 ATCAATTTTGCTTGAA-ATAGTTCCCTTTGG
* * *
6284623 AACACAGATTTTGGAATTATTTTACAT-GAAGAC-AAAATTTATC
1 AACACAAATTTTGAAATTATTTCAC-TCGAA-ACAAAAATTTATC
6284666 TCTTCTCATA
Statistics
Matches: 438, Mismatches: 62, Indels: 40
0.81 0.11 0.07
Matches are distributed among these distances:
93 118 0.27
94 13 0.03
95 137 0.31
96 87 0.20
97 3 0.01
98 30 0.07
99 6 0.01
100 44 0.10
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.40
Consensus pattern (95 bp):
AACACAAATTTTGAAATTATTTCACTCGAAACAAAAATTTATCACTTGAGATGGTTTTTCTTAAA
ATCAATTTTGCTTGAAATAGTTCCCTTTGG
Found at i:6284265 original size:29 final size:29
Alignment explanation
Indices: 6284223--6284283 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
6284213 ATTTCATTTT
* * *
6284223 TTTTGAAATAGTTTCCCTCGAAACACAAA
1 TTTTGAAATAGTTTCACTCAAAACAAAAA
*
6284252 TTTTGAAATTGTTTCACTCAAAACAAAAA
1 TTTTGAAATAGTTTCACTCAAAACAAAAA
6284281 TTT
1 TTT
6284284 ATCACATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.36
Consensus pattern (29 bp):
TTTTGAAATAGTTTCACTCAAAACAAAAA
Found at i:6284341 original size:193 final size:192
Alignment explanation
Indices: 6284005--6284600 Score: 699
Period size: 193 Copynumber: 3.1 Consensus size: 192
6283995 TAAGATGTTT
* * * * * *
6284005 TTTTTCTTAAAATCAATTTCGTCTTTCTTGAGACAATTTCCCTCAAAACACAAATTTTGAAATTG
1 TTTTTCTTAAAATCAATTTCATTTTTCTTGAAATAGTTTCCCTCGAAACACAAATTTTGAAATTG
* * *
6284070 TTTCACTTGAAACAAAAATTTATCACCTGAGATGGTTTTTCTTAAAATTAATTTTGCTTGAAATA
66 TTTCACTCGAAACAAAAATTTATCACATGAGATGGTTTTTCTTAAAATCAATTTTGCTTGAAATA
* * *
6284135 CTTCCCTTTGGAACACATATTTTGAAAATTTCACTCGAAATAAAAATTTATCACTTGAGATGG
131 GTT-CCTTTGGAACACATATTTTGAAATTTTCACTCGAAACAAAAATTTATCACTTGAGATGG
* *
6284198 ATTTTCTTAAAATCAATTTCATTTTTTTTGAAATAGTTTCCCTCGAAACACAAATTTTGAAATTG
1 TTTTTCTTAAAATCAATTTCATTTTTCTTGAAATAGTTTCCCTCGAAACACAAATTTTGAAATTG
* *
6284263 TTTCACTCAAAACAAAAATTTATCACATGAGATGTTTTTTCTTAAAATCAATTTTGCTTGAAATA
66 TTTCACTCGAAACAAAAATTTATCACATGAGATGGTTTTTCTTAAAATCAATTTTGCTTGAAATA
*
6284328 GTTCCTATTGGAACACATATTTTGAATTTTTTTTCACTCGAAACAAAAATTTATCACTT-AGATG
131 GTTCCT-TTGGAACACATATTTTGAA---ATTTTCACTCGAAACAAAAATTTATCACTTGAGATG
*
6284392 TT
192 -G
* * * **
6284394 TTTTTCTTAAAATC-A----ATTTTGCTTGAAATAG-TTCCCTTTGGAACACAAATTTTGAAAAC
1 TTTTTCTTAAAATCAATTTCATTTTTCTTGAAATAGTTTCCC-TCGAAACACAAATTTTGAAATT
* * * * * ***
6284453 ATTTCACTCGAAACAAAAATTTATCACTTGATATGGGTTTTCGTAAAATCAA-TTT-CATT-TTT
65 GTTTCACTCGAAACAAAAATTTATCACATGAGATGGTTTTTCTTAAAATCAATTTTGC-TTGAAA
* * * *
6284515 TAGTTCCCCTTGGAACATATATTTTGAAATTTTTTCATTCAAAACAAAAATTTATCACTTGAGAT
129 TAGTT-CCTTTGGAACACATATTTTGAAA--TTTTCACTCGAAACAAAAATTTATCACTTGAGAT
6284580 GG
191 GG
*
6284582 TTTTTCTTAAAATTAATTT
1 TTTTTCTTAAAATCAATTT
6284601 TGCTTAAGAT
Statistics
Matches: 346, Mismatches: 42, Indels: 31
0.83 0.10 0.07
Matches are distributed among these distances:
188 40 0.12
189 30 0.09
190 12 0.03
191 77 0.22
192 3 0.01
193 138 0.40
195 6 0.02
196 40 0.12
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (192 bp):
TTTTTCTTAAAATCAATTTCATTTTTCTTGAAATAGTTTCCCTCGAAACACAAATTTTGAAATTG
TTTCACTCGAAACAAAAATTTATCACATGAGATGGTTTTTCTTAAAATCAATTTTGCTTGAAATA
GTTCCTTTGGAACACATATTTTGAAATTTTCACTCGAAACAAAAATTTATCACTTGAGATGG
Found at i:6285157 original size:139 final size:139
Alignment explanation
Indices: 6284942--6285332 Score: 504
Period size: 139 Copynumber: 2.8 Consensus size: 139
6284932 GGATAAACCA
* * * *
6284942 ATCAACATTT-TCAGTGGAGAGTTCATAATAAGAAGAACTCATCC-GATAAGGGATAAAAATTTC
1 ATCAACATTTCT-AGTGGAGAGTTCATAATGAGAAGAACTCA-CCTGATGAGGGAGAAGAATTTC
* * *
6285005 ATAATGAGAAGAACTTATTCAACCTTAGCTCGATTCATCACATAGGGAGTTGAATCAGCAACGCC
64 ATAATGAGAAGAACTTATTCAACCTTAGCTCGATTCATCACATAAGGAGTTGAATCAACAACACC
6285070 TCACTTGAGGG
129 TCACTTGAGGG
* * *
6285081 ATCAACATTTCTGGTGGAGAGTTCATAATGAGAAAAACTCACCTGATGAGGGAGAAGAAGTTCAT
1 ATCAACATTTCTAGTGGAGAGTTCATAATGAGAAGAACTCACCTGATGAGGGAGAAGAATTTCAT
* * * * *
6285146 AATGAGAAGAACTTATTTAACCTTAGCTCGATTCATCATATATGGAGTTTAATCAACAATACCTC
66 AATGAGAAGAACTTATTCAACCTTAGCTCGATTCATCACATAAGGAGTTGAATCAACAACACCTC
6285211 ACTTGAGGG
131 ACTTGAGGG
* * * * ** *
6285220 ATCAACATTTCCAGTGAAAATTTCATAATGAGAAGAACTCATTTGACGAGGGAGAAGAATTTCAT
1 ATCAACATTTCTAGTGGAGAGTTCATAATGAGAAGAACTCACCTGATGAGGGAGAAGAATTTCAT
* *
6285285 AATGAGAAGAACTTGTTCAACC-T--CTCGTTTCCATCACATAAGGAGTTG
66 AATGAGAAGAACTTATTCAACCTTAGCTCGATT-CATCACATAAGGAGTTG
6285333 GAGCAACACA
Statistics
Matches: 219, Mismatches: 30, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
136 6 0.03
137 14 0.06
138 3 0.01
139 195 0.89
140 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.27
Consensus pattern (139 bp):
ATCAACATTTCTAGTGGAGAGTTCATAATGAGAAGAACTCACCTGATGAGGGAGAAGAATTTCAT
AATGAGAAGAACTTATTCAACCTTAGCTCGATTCATCACATAAGGAGTTGAATCAACAACACCTC
ACTTGAGGG
Done.