Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 217 of 343
Found at i:71605643 original size:22 final size:22
Alignment explanation
Indices: 71605612--71605671 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
71605602 ACAAGTAAAT
71605612 TTCAGCAGCCCTCTGCATCGCC
1 TTCAGCAGCCCTCTGCATCGCC
*
71605634 TTCAGTAGCCCTCTGCATCG-C
1 TTCAGCAGCCCTCTGCATCGCC
**
71605655 TGTTGGCAGCCCTCTGC
1 T-TCAGCAGCCCTCTGC
71605672 TGCATCTCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 2 0.06
22 31 0.94
ACGTcount: A:0.12, C:0.40, G:0.22, T:0.27
Consensus pattern (22 bp):
TTCAGCAGCCCTCTGCATCGCC
Found at i:71607198 original size:211 final size:214
Alignment explanation
Indices: 71606940--71607381 Score: 703
Period size: 211 Copynumber: 2.1 Consensus size: 214
71606930 ATTTTAAATA
* *
71606940 TTTTA-TTTAATTTTTAAATTACCTAATTAAATTAAATTATATTTAAAGTTTTATTTTGAATATG
1 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTATATTTAAAGTTTTATTTTAAATATG
* * *
71607004 TTATTTTATTTTATTTTAATCACAAAAAATATTTTGTCTACTTTTTTTTTA-TTTTTAAATTACC
66 TTATTTGATTTTAATTTAATCACAAAAAATATTTTGTCTACTTTTATTTTATTTTTTAAATTACC
* *
71607068 TAATTAAATTAAATTGTATTTAAAGTTTTATTTTTAATA-G-TTTATTTGATTTTAATTTAATCA
131 TAATTAAATTAAATTGTAGTTAAAGTTTTATTTCTAATATGTTTTATTTGATTTTAATTTAATCA
*
71607131 CGGAAAATATTTTATCTAC
196 CGAAAAATATTTTATCTAC
* *
71607150 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTTTATTTAAAGTTTTATTTTAAATATT
1 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTATATTTAAAGTTTTATTTTAAATATG
*
71607215 TTATTTGATTTTAATTTAATCACTAAAAATATTTTGTCTACTTTTATTTTATTTTTTAAATTACC
66 TTATTTGATTTTAATTTAATCACAAAAAATATTTTGTCTACTTTTATTTTATTTTTTAAATTACC
* *
71607280 TAATTAAATTAAATTGTAGTTAAAGTTTTATTTCTAATATGTTATTTTATTTTATTTTATTTTAA
131 TAATTAAATTAAATTGTAGTTAAAGTTTTATTTCTAATATG---TTTTATTTGATTTTAATTTAA
*
71607345 TCACGAAAAATATTTTGTCTAC
193 TCACGAAAAATATTTTATCTAC
71607367 TTTTATTTTATTTTT
1 TTTTATTTTATTTTT
71607382 AATCTAATAA
Statistics
Matches: 211, Mismatches: 14, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
210 5 0.02
211 102 0.48
212 50 0.24
213 1 0.00
217 53 0.25
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (214 bp):
TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTATATTTAAAGTTTTATTTTAAATATG
TTATTTGATTTTAATTTAATCACAAAAAATATTTTGTCTACTTTTATTTTATTTTTTAAATTACC
TAATTAAATTAAATTGTAGTTAAAGTTTTATTTCTAATATGTTTTATTTGATTTTAATTTAATCA
CGAAAAATATTTTATCTAC
Found at i:71607219 original size:106 final size:106
Alignment explanation
Indices: 71606940--71607381 Score: 672
Period size: 106 Copynumber: 4.1 Consensus size: 106
71606930 ATTTTAAATA
* * * *
71606940 TTTTA-TTTAATTTTTAAATTACCTAATTAAATTAAATTATATTTAAAGTTTTATTTTGAATATG
1 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
* * *
71607004 TTATTTTATTTTATTTTAATCACAAAAAATATTTTGTCTAC
66 TTATTTGATTTTAATTTAATCACGAAAAATATTTTGTCTAC
* * *
71607045 TTTTTTTTTA-TTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTTAATAGT
1 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
* *
71607109 TTATTTGATTTTAATTTAATCACGGAAAATATTTTATCTAC
66 TTATTTGATTTTAATTTAATCACGAAAAATATTTTGTCTAC
*
71607150 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTTTATTTAAAGTTTTATTTTAAATATT
1 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
*
71607215 TTATTTGATTTTAATTTAATCACTAAAAATATTTTGTCTAC
66 TTATTTGATTTTAATTTAATCACGAAAAATATTTTGTCTAC
*
71607256 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTAGTTAAAGTTTTATTTCTAATATG
1 TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTT-TAA-A--
* *
71607321 TTATTTTATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTAC
62 -TATTTTATTTGATTTTAATTTAATCACGAAAAATATTTTGTCTAC
71607367 TTTTATTTTATTTTT
1 TTTTATTTTATTTTT
71607382 AATCTAATAA
Statistics
Matches: 308, Mismatches: 22, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
105 99 0.32
106 148 0.48
107 3 0.01
108 1 0.00
111 57 0.19
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (106 bp):
TTTTATTTTATTTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
TTATTTGATTTTAATTTAATCACGAAAAATATTTTGTCTAC
Found at i:71609271 original size:12 final size:12
Alignment explanation
Indices: 71609254--71609278 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
71609244 AAGATCGAGG
71609254 GATGAATCTGAT
1 GATGAATCTGAT
71609266 GATGAATCTGAT
1 GATGAATCTGAT
71609278 G
1 G
71609279 GAGAGGATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (12 bp):
GATGAATCTGAT
Found at i:71615062 original size:13 final size:14
Alignment explanation
Indices: 71615046--71615074 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
71615036 TTCTAAATAT
71615046 TTATAA-TGTTTAA
1 TTATAATTGTTTAA
71615059 TTATAATTGTTTAA
1 TTATAATTGTTTAA
71615073 TT
1 TT
71615075 CAATTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTATAATTGTTTAA
Found at i:71615541 original size:21 final size:21
Alignment explanation
Indices: 71615489--71615543 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
71615479 ACTTAGAGCG
*
71615489 GAGGCAGCAGAGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
71615510 -ACGGCAGCAGCGAGGGAGGCA
1 GA-GGCAGCAGCGAGGGAGGCA
71615531 GAGGCAGCAGCGA
1 GAGGCAGCAGCGA
71615544 TGGCAGCAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.31, C:0.20, G:0.49, T:0.00
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCA
Found at i:71615552 original size:21 final size:21
Alignment explanation
Indices: 71615489--71615554 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
71615479 ACTTAGAGCG
* *
71615489 GAGGCAGCAGAGAGGGAGGCA
1 GAGGCAGCAGCGAGGCAGGCA
*
71615510 -ACGGCAGCAGCGAGGGAGGCA
1 GA-GGCAGCAGCGAGGCAGGCA
71615531 GAGGCAGCAGCGATGGCA-GCA
1 GAGGCAGCAGCGA-GGCAGGCA
71615552 GAG
1 GAG
71615555 CAGAGCAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
20 1 0.03
21 35 0.88
22 4 0.10
ACGTcount: A:0.30, C:0.20, G:0.48, T:0.02
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGCAGGCA
Found at i:71621801 original size:22 final size:22
Alignment explanation
Indices: 71621773--71621817 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
71621763 GGCAGAATAC
71621773 CCACAAGTAGTCAACTAGAAAG
1 CCACAAGTAGTCAACTAGAAAG
71621795 CCACAAGTAGTCAACTAGAAAG
1 CCACAAGTAGTCAACTAGAAAG
71621817 C
1 C
71621818 TTTAATGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.24, G:0.18, T:0.13
Consensus pattern (22 bp):
CCACAAGTAGTCAACTAGAAAG
Found at i:71622318 original size:20 final size:20
Alignment explanation
Indices: 71622289--71622346 Score: 53
Period size: 22 Copynumber: 2.8 Consensus size: 20
71622279 CAAAATTTTA
* *
71622289 TTTTAATTTATTTTATACAT
1 TTTTATTTTATTTTATAAAT
*
71622309 TTTTATTTTAATATGTATAAAT
1 TTTTATTTT-AT-TTTATAAAT
*
71622331 TATTATTTATATTTTA
1 TTTTATTT-TATTTTA
71622347 AATAAGTGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
20 8 0.27
21 5 0.17
22 16 0.53
23 1 0.03
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTATTTTATTTTATAAAT
Found at i:71622941 original size:30 final size:29
Alignment explanation
Indices: 71622905--71622963 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 29
71622895 CAATTTAACA
*
71622905 AGCAAATGTCTTTAAATTAATAACAAAATT
1 AGCAAATGTCTTTAAAATAATAA-AAAATT
71622935 AGCAAATGTCTTTAAAATAATAAAAAATT
1 AGCAAATGTCTTTAAAATAATAAAAAATT
71622964 TAACAATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 6 0.21
30 22 0.79
ACGTcount: A:0.53, C:0.08, G:0.07, T:0.32
Consensus pattern (29 bp):
AGCAAATGTCTTTAAAATAATAAAAAATT
Found at i:71623024 original size:22 final size:22
Alignment explanation
Indices: 71622999--71623041 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
71622989 TATCCAAATA
71622999 ATAACAAC-AAAATAGTAGCAAC
1 ATAA-AACTAAAATAGTAGCAAC
*
71623021 ATAATACTAAAATAGTAGCAA
1 ATAAAACTAAAATAGTAGCAA
71623042 AATAGGGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.58, C:0.14, G:0.09, T:0.19
Consensus pattern (22 bp):
ATAAAACTAAAATAGTAGCAAC
Found at i:71624513 original size:12 final size:13
Alignment explanation
Indices: 71624478--71624515 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
71624468 TGATTATTTG
*
71624478 AATTGAATTTTTT
1 AATTGAATTTTAT
71624491 AATTGAA-TTTAT
1 AATTGAATTTTAT
71624503 AATT-AATTTTAT
1 AATTGAATTTTAT
71624515 A
1 A
71624516 TATTTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 2 0.09
12 14 0.61
13 7 0.30
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (13 bp):
AATTGAATTTTAT
Found at i:71628783 original size:18 final size:18
Alignment explanation
Indices: 71628744--71628777 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
71628734 AGAAGTTGTG
71628744 ATAATTACACATTTAAAA
1 ATAATTACACATTTAAAA
*
71628762 ATAATTAGA-ATTTAAA
1 ATAATTACACATTTAAA
71628778 TTATAACTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (18 bp):
ATAATTACACATTTAAAA
Found at i:71631292 original size:31 final size:31
Alignment explanation
Indices: 71631235--71631293 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
71631225 GAAACAGAGT
* *
71631235 CACACGCCCGTGCTGGTAGGCTGTGTGGTCA
1 CACACGCCCGTGCTGGTAGCCCGTGTGGTCA
71631266 CACACGCCCGTGC-GGCTAGCCCGTGTGG
1 CACACGCCCGTGCTGG-TAGCCCGTGTGG
71631294 CTTGGGACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 2 0.08
31 23 0.92
ACGTcount: A:0.12, C:0.34, G:0.36, T:0.19
Consensus pattern (31 bp):
CACACGCCCGTGCTGGTAGCCCGTGTGGTCA
Found at i:71640244 original size:13 final size:13
Alignment explanation
Indices: 71640226--71640279 Score: 99
Period size: 13 Copynumber: 4.2 Consensus size: 13
71640216 CTGGACTTTC
*
71640226 TCACACGGGCGTG
1 TCACACGGCCGTG
71640239 TCACACGGCCGTG
1 TCACACGGCCGTG
71640252 TCACACGGCCGTG
1 TCACACGGCCGTG
71640265 TCACACGGCCGTG
1 TCACACGGCCGTG
71640278 TC
1 TC
71640280 CCATTGCCAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.15, C:0.37, G:0.31, T:0.17
Consensus pattern (13 bp):
TCACACGGCCGTG
Found at i:71642846 original size:42 final size:42
Alignment explanation
Indices: 71642739--71642847 Score: 130
Period size: 42 Copynumber: 2.6 Consensus size: 42
71642729 TCGTTTCAAT
* * * * *
71642739 GCCATATCCCCGATATGGTCTTACATGAAATATCATATCGAT
1 GCCATATCCCAGATATGGTCTTATAAGAAATATCATACCGAG
* * *
71642781 GCCATGTCCCTGACATGGTCTTATAAGAAATCA-CATACCGAG
1 GCCATATCCCAGATATGGTCTTATAAGAAAT-ATCATACCGAG
71642823 GCCATATCCCAGATATGGTCTTATA
1 GCCATATCCCAGATATGGTCTTATA
71642848 CGGAATCTTA
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 55 0.98
43 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (42 bp):
GCCATATCCCAGATATGGTCTTATAAGAAATATCATACCGAG
Found at i:71647054 original size:49 final size:48
Alignment explanation
Indices: 71647001--71647455 Score: 262
Period size: 46 Copynumber: 9.6 Consensus size: 48
71646991 ATGTCGTGTT
*
71647001 CCAGACAGGTCTTACACTGACTTTCATATATCGAGGCCGATGCCATGTC
1 CCAGACAGGTCTTACACTGACTCTCATATATCGAGGCCGATG-CATGTC
* * * *
71647050 CCAGACAGGTCTTACACTGGCTCTCATCTATC-AGTGTCAATGCCATGTC
1 CCAGACAGGTCTTACACTGACTCTCATATATCGAG-GCCGATG-CATGTC
* * * * * * *
71647099 CCAGGCAGGTCTCATACTGGCTCTTATCTATCG-GTGTCGATGCCATGTC
1 CCAGACAGGTCTTACACTGACTCTCATATATCGAG-GCCGATG-CATGTC
*
71647148 CCAGACAGGTCTTACACT-AGCT-T-GTATATCCCGAGGCCGATGCATGTC
1 CCAGACAGGTCTTACACTGA-CTCTCATATAT--CGAGGCCGATGCATGTC
* * * * * *
71647196 CCAGACATGTCTTATACT-AGCTCTC--ATCTCAATGCCGGTGCATGTC
1 CCAGACAGGTCTTACACTGA-CTCTCATATATCGAGGCCGATGCATGTC
* * * *
71647242 CCAGAAAGGTCTTACACT-A-GCT-AGTATATCCCGAGGTCGACGCATGTC
1 CCAGACAGGTCTTACACTGACTCTCA-TATAT--CGAGGCCGATGCATGTC
* * * * * * * *
71647290 CCAGGCATGTTTTACACT-AGCTCTC--ATCTCAATGCCGGTGTATGTC
1 CCAGACAGGTCTTACACTGA-CTCTCATATATCGAGGCCGATGCATGTC
* * * * * *
71647336 CCAGACATGTCTTATACTGGCTCTCATA-AT-GTGGCCGGTGTATGTC
1 CCAGACAGGTCTTACACTGACTCTCATATATCGAGGCCGATGCATGTC
* * * *
71647382 CCAGACATGTCTTACACTGGCTCTCATA-AT-GTGGTCGATGCATGTC
1 CCAGACAGGTCTTACACTGACTCTCATATATCGAGGCCGATGCATGTC
* * * *
71647428 CCAAACATGTCTTACACTGGCTCACATA
1 CCAGACAGGTCTTACACTGACTCTCATA
71647456 CCACCCAATG
Statistics
Matches: 328, Mismatches: 59, Indels: 41
0.77 0.14 0.10
Matches are distributed among these distances:
44 2 0.01
46 145 0.44
47 5 0.02
48 63 0.19
49 110 0.34
50 3 0.01
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (48 bp):
CCAGACAGGTCTTACACTGACTCTCATATATCGAGGCCGATGCATGTC
Found at i:71647263 original size:94 final size:94
Alignment explanation
Indices: 71647142--71647408 Score: 344
Period size: 94 Copynumber: 2.9 Consensus size: 94
71647132 GTGTCGATGC
71647142 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCCCGAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCCCGAGGCCGATGCATGTCCCAGACATGTC
*
71647207 TTATACTAGCTCTCATCTCAATGCCGGTG
66 TTACACTAGCTCTCATCTCAATGCCGGTG
* * * * * *
71647236 CATGTCCCAGAAAGGTCTTACACTAGCTAGTATATCCCGAGGTCGACGCATGTCCCAGGCATGTT
1 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCCCGAGGCCGATGCATGTCCCAGACATGTC
71647301 TTACACTAGCTCTCATCTCAATGCCGGTG
66 TTACACTAGCTCTCATCTCAATGCCGGTG
* * * * * * * *
71647330 TATGTCCCAGACATGTCTTATACTGGCTCT-CATAAT---GTGGCCGGTGTATGTCCCAGACATG
1 CATGTCCCAGACAGGTCTTACACTAGCT-TGTAT-ATCCCGAGGCCGATGCATGTCCCAGACATG
*
71647391 TCTTACACTGGCTCTCAT
64 TCTTACACTAGCTCTCAT
71647409 AATGTGGTCG
Statistics
Matches: 149, Mismatches: 22, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
92 35 0.23
94 112 0.75
95 2 0.01
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (94 bp):
CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCCCGAGGCCGATGCATGTCCCAGACATGTC
TTACACTAGCTCTCATCTCAATGCCGGTG
Found at i:71650035 original size:42 final size:42
Alignment explanation
Indices: 71649989--71650106 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 42
71649979 TATTGTTTCA
* *
71649989 ATGCCATATCCCCGATATGGTCTTACATGAAAT-ATCATATCG
1 ATGCCATATCCCCGATATGGTCTTACACGAAATCA-CATACCG
* * * * *
71650031 ATGCCATGTCCCTGACATGGTGTTATACGAAATCACATACCG
1 ATGCCATATCCCCGATATGGTCTTACACGAAATCACATACCG
* * * *
71650073 AGGCCATATCCCGGATATGGTCTTATACGGAATC
1 ATGCCATATCCCCGATATGGTCTTACACGAAATC
71650107 TTAATAACCT
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
42 61 0.98
43 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (42 bp):
ATGCCATATCCCCGATATGGTCTTACACGAAATCACATACCG
Found at i:71653546 original size:16 final size:15
Alignment explanation
Indices: 71653525--71653554 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
71653515 AAGCCTTGCG
71653525 TCTTTCTTTCTCTTTT
1 TCTTTCTTTC-CTTTT
71653541 TCTTTCTTTCCTTT
1 TCTTTCTTTCCTTT
71653555 CTGTTTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (15 bp):
TCTTTCTTTCCTTTT
Found at i:71660514 original size:15 final size:15
Alignment explanation
Indices: 71660490--71660519 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
71660480 ATTAACACAT
*
71660490 ATTCATTTCAATTAA
1 ATTCAATTCAATTAA
71660505 ATTCAATTCAATTAA
1 ATTCAATTCAATTAA
71660520 CTTTAAATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTCAATTCAATTAA
Found at i:71666049 original size:21 final size:21
Alignment explanation
Indices: 71666028--71666220 Score: 147
Period size: 21 Copynumber: 9.2 Consensus size: 21
71666018 CTTTTCTTTT
* *
71666028 AGCTCTTACGAGCTTCTGTTT
1 AGCTCTTATGAGCTTCTGTTC
* * * *
71666049 AACTCATATGAGTTTCCGTTC
1 AGCTCTTATGAGCTTCTGTTC
* * * *
71666070 AACTCTTTTAAGCTTCTATTC
1 AGCTCTTATGAGCTTCTGTTC
* *
71666091 AACTCTTATGAGTTTCTGTTC
1 AGCTCTTATGAGCTTCTGTTC
* *
71666112 AGCTCTTATGAGCTTCTATTT
1 AGCTCTTATGAGCTTCTGTTC
* * *
71666133 AACTCATATGAGTTTCTGTTC
1 AGCTCTTATGAGCTTCTGTTC
71666154 AGCTCTTACT-AGCTTCTGTTC
1 AGCTCTTA-TGAGCTTCTGTTC
* * * * *
71666175 A-ATCCTTATGGGTTTCTATTT
1 AGCT-CTTATGAGCTTCTGTTC
*
71666196 AGCTCTTACGAGCTTCTGTTC
1 AGCTCTTATGAGCTTCTGTTC
71666217 AGCT
1 AGCT
71666221 TTCGAGTTTC
Statistics
Matches: 129, Mismatches: 39, Indels: 8
0.73 0.22 0.05
Matches are distributed among these distances:
20 2 0.02
21 125 0.97
22 2 0.02
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.44
Consensus pattern (21 bp):
AGCTCTTATGAGCTTCTGTTC
Found at i:71666160 original size:63 final size:63
Alignment explanation
Indices: 71666080--71666234 Score: 165
Period size: 63 Copynumber: 2.5 Consensus size: 63
71666070 AACTCTTTTA
* * * *
71666080 AGCTTCTATTCAACTCTTATGAGTTTCTGTTC-AGCTCTTATGAGCTTCTATTTAACTCATATG
1 AGCTTCTGTTCAGCTCTTATGAGTTTCTGTTCAATC-CTTATGAGCTTCTATTTAACTCATACG
* * * * * *
71666143 AGTTTCTGTTCAGCTCTTACT-AGCTTCTGTTCAATCCTTATGGGTTTCTATTTAGCTCTTACG
1 AGCTTCTGTTCAGCTCTTA-TGAGTTTCTGTTCAATCCTTATGAGCTTCTATTTAACTCATACG
*
71666206 AGCTTCTGTTCAGCT-TT-CGAGTTTCTGTT
1 AGCTTCTGTTCAGCTCTTATGAGTTTCTGTT
71666235 AATGATGTAC
Statistics
Matches: 76, Mismatches: 13, Indels: 8
0.78 0.13 0.08
Matches are distributed among these distances:
61 9 0.12
62 2 0.03
63 62 0.82
64 3 0.04
ACGTcount: A:0.17, C:0.21, G:0.15, T:0.46
Consensus pattern (63 bp):
AGCTTCTGTTCAGCTCTTATGAGTTTCTGTTCAATCCTTATGAGCTTCTATTTAACTCATACG
Found at i:71666169 original size:84 final size:83
Alignment explanation
Indices: 71666020--71666212 Score: 264
Period size: 84 Copynumber: 2.3 Consensus size: 83
71666010 GTGTTTTACT
* *
71666020 TTTCTTTTAGCTCTTACGAGCTTCTGTTTAACTCATATGAGTTTCCGTTCAACTCTTTTAAGCTT
1 TTTCTTTTAGCTCTTACGAGCTTCTATTTAACTCATATGAGTTTCCGTTCAACTCTTCTAAGCTT
71666085 CTATTCAA-CTCTTATGAG
66 CTATTCAATC-CTTATGAG
* * * *
71666103 TTTCTGTTCAGCTCTTATGAGCTTCTATTTAACTCATATGAGTTTCTGTTCAGCTCTTACT-AGC
1 TTTCT-TTTAGCTCTTACGAGCTTCTATTTAACTCATATGAGTTTCCGTTCAACTCTT-CTAAGC
* *
71666167 TTCTGTTCAATCCTTATGGG
64 TTCTATTCAATCCTTATGAG
71666187 TTTCTATTTAGCTCTTACGAGCTTCT
1 TTTCT-TTTAGCTCTTACGAGCTTCT
71666213 GTTCAGCTTT
Statistics
Matches: 96, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
83 5 0.05
84 89 0.93
85 2 0.02
ACGTcount: A:0.19, C:0.22, G:0.13, T:0.46
Consensus pattern (83 bp):
TTTCTTTTAGCTCTTACGAGCTTCTATTTAACTCATATGAGTTTCCGTTCAACTCTTCTAAGCTT
CTATTCAATCCTTATGAG
Found at i:71666190 original size:42 final size:42
Alignment explanation
Indices: 71666020--71666217 Score: 206
Period size: 42 Copynumber: 4.7 Consensus size: 42
71666010 GTGTTTTACT
* * *
71666020 TTTCT-TTTAGCTCTTACGAGCTTCTGTTTAACTCATATGAG
1 TTTCTGTTCAGCTCTTACTAGCTTCTGTTCAACTCATATGAG
* * * * *
71666061 TTTCCGTTCAACTCTT-TTAAGCTTCTATTCAACTCTTATGAG
1 TTTCTGTTCAGCTCTTACT-AGCTTCTGTTCAACTCATATGAG
* *
71666103 TTTCTGTTCAGCTCTTA-TGAGCTTCTATTTAACTCATATGAG
1 TTTCTGTTCAGCTCTTACT-AGCTTCTGTTCAACTCATATGAG
* *
71666145 TTTCTGTTCAGCTCTTACTAGCTTCTGTTCAA-TCCTTATGGG
1 TTTCTGTTCAGCTCTTACTAGCTTCTGTTCAACT-CATATGAG
* * *
71666187 TTTCTATTTAGCTCTTACGAGCTTCTGTTCA
1 TTTCTGTTCAGCTCTTACTAGCTTCTGTTCA
71666218 GCTTTCGAGT
Statistics
Matches: 132, Mismatches: 20, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
41 5 0.04
42 126 0.95
43 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.46
Consensus pattern (42 bp):
TTTCTGTTCAGCTCTTACTAGCTTCTGTTCAACTCATATGAG
Found at i:71675830 original size:20 final size:22
Alignment explanation
Indices: 71675779--71675832 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
71675769 ATGTAATTAA
71675779 AAATATAATATTTAAAAAAACT
1 AAATATAATATTTAAAAAAACT
71675801 AAATATAATATTT-AAAAAACT
1 AAATATAATATTTAAAAAAACT
*
71675822 AATTA-AATATT
1 AAATATAATATT
71675833 AAACATGTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 6 0.19
21 12 0.39
22 13 0.42
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATATAATATTTAAAAAAACT
Found at i:71676638 original size:23 final size:23
Alignment explanation
Indices: 71676588--71676632 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
71676578 CTTTATTTCT
* *
71676588 TAAATTTTATTTTAATTTTTTAG
1 TAAATTTAATTTTAATTTTTAAG
*
71676611 TAAATTTAATTTTAGTTTTTAA
1 TAAATTTAATTTTAATTTTTAA
71676633 AGAAATAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (23 bp):
TAAATTTAATTTTAATTTTTAAG
Found at i:71683228 original size:14 final size:15
Alignment explanation
Indices: 71683209--71683237 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
71683199 CTTTAACCTT
71683209 ATTTTAAT-ATAAAA
1 ATTTTAATCATAAAA
71683223 ATTTTAATCATAAAA
1 ATTTTAATCATAAAA
71683238 CTTAATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTTTAATCATAAAA
Found at i:71686127 original size:42 final size:41
Alignment explanation
Indices: 71686012--71686129 Score: 155
Period size: 43 Copynumber: 2.8 Consensus size: 41
71686002 ATACCAATGC
71686012 CATATCCCAGATATGGTCTTACATGGAATCTCATATTGATGG
1 CATATCCCAGATATGGTCTTACA-GGAATCTCATATTGATGG
* * * *
71686054 CAATAACCCAGTTATGGTCTTACACGAAATCTCATATTGATGT
1 C-ATATCCCAGATATGGTCTTACA-GGAATCTCATATTGATGG
*
71686097 CATATCTCAGATATGGTCTTACAGGTAATCTCA
1 CATATCCCAGATATGGTCTTACAGG-AATCTCA
71686130 ACTAACCCTA
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
41 1 0.02
42 27 0.42
43 37 0.57
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (41 bp):
CATATCCCAGATATGGTCTTACAGGAATCTCATATTGATGG
Found at i:71688619 original size:18 final size:20
Alignment explanation
Indices: 71688599--71688635 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
71688589 GTAGTAGAAA
*
71688599 TTTATTTT-TTAGAATAAAT
1 TTTATTTTCTGAGAATAAAT
71688618 TTTATTTTCTGAGAATAA
1 TTTATTTTCTGAGAATAA
71688636 TAATTTTACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.54
Consensus pattern (20 bp):
TTTATTTTCTGAGAATAAAT
Found at i:71689500 original size:13 final size:13
Alignment explanation
Indices: 71689482--71689506 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71689472 CCAAACACAC
71689482 GCCCGTGTCCCTA
1 GCCCGTGTCCCTA
71689495 GCCCGTGTCCCT
1 GCCCGTGTCCCT
71689507 CACATGGCCT
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:0.04, C:0.48, G:0.24, T:0.24
Consensus pattern (13 bp):
GCCCGTGTCCCTA
Found at i:71689798 original size:37 final size:37
Alignment explanation
Indices: 71689748--71689823 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
71689738 TGTGTCACAC
71689748 ACGGCCTAGACACATACCCGTGTGTCTACCCGTGTGG
1 ACGGCCTAGACACATACCCGTGTGTCTACCCGTGTGG
71689785 ACGGCCTAGACACATACCCGTGTGTCTACCCGTGTGG
1 ACGGCCTAGACACATACCCGTGTGTCTACCCGTGTGG
71689822 AC
1 AC
71689824 CTTTTTAGGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.20, C:0.33, G:0.26, T:0.21
Consensus pattern (37 bp):
ACGGCCTAGACACATACCCGTGTGTCTACCCGTGTGG
Found at i:71692005 original size:18 final size:18
Alignment explanation
Indices: 71691982--71692021 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
71691972 TAATAGTAAT
71691982 AGTAACAGCAACAATAAC
1 AGTAACAGCAACAATAAC
* *
71692000 AGTAACAGTAACAATAGC
1 AGTAACAGCAACAATAAC
71692018 AGTA
1 AGTA
71692022 TCGGTACACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.17, G:0.15, T:0.15
Consensus pattern (18 bp):
AGTAACAGCAACAATAAC
Found at i:71702185 original size:19 final size:19
Alignment explanation
Indices: 71702161--71702200 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
71702151 AAACAAGGAG
*
71702161 TTTATCAACTAGGACCAAC
1 TTTATCAACTAAGACCAAC
*
71702180 TTTATCAACTAAGACCGAC
1 TTTATCAACTAAGACCAAC
71702199 TT
1 TT
71702201 GCCTAGAGGG
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:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (19 bp):
TTTATCAACTAAGACCAAC
Found at i:71704163 original size:13 final size:13
Alignment explanation
Indices: 71704145--71704169 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71704135 CCAAACACAC
71704145 GCCCGTGTCCCTG
1 GCCCGTGTCCCTG
71704158 GCCCGTGTCCCT
1 GCCCGTGTCCCT
71704170 CACACGACTT
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:0.00, C:0.48, G:0.28, T:0.24
Consensus pattern (13 bp):
GCCCGTGTCCCTG
Found at i:71704317 original size:30 final size:30
Alignment explanation
Indices: 71704283--71704351 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
71704273 CCATGTGCTA
*
71704283 GGCCGTGTCCTCCACACGGTTGAGATACAC
1 GGCCGTGTCCTCCACACGGTTGAGACACAC
71704313 GGCCGTGTCCTCCACACGGTTGAGACACAC
1 GGCCGTGTCCTCCACACGGTTGAGACACAC
*
71704343 GGCCATGTC
1 GGCCGTGTC
71704352 TCTGGCCGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.19, C:0.35, G:0.28, T:0.19
Consensus pattern (30 bp):
GGCCGTGTCCTCCACACGGTTGAGACACAC
Found at i:71705844 original size:18 final size:18
Alignment explanation
Indices: 71705821--71705858 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
71705811 TTATCATGCA
71705821 ATGAATATCTAAATTTTC
1 ATGAATATCTAAATTTTC
71705839 ATGAATATCTAAATTTTC
1 ATGAATATCTAAATTTTC
71705857 AT
1 AT
71705859 ACATTCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (18 bp):
ATGAATATCTAAATTTTC
Found at i:71725253 original size:18 final size:19
Alignment explanation
Indices: 71725220--71725278 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
71725210 AAATTATGGT
*
71725220 ATTTTTATTAAAAAATTCAA
1 ATTTTCATT-AAAAATTCAA
* *
71725240 A-TTTCTTTAAAAATATAAA
1 ATTTTCATTAAAAAT-TCAA
*
71725259 ATTTTCATTAAATATTCAA
1 ATTTTCATTAAAAATTCAA
71725278 A
1 A
71725279 AAATTCCTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
18 6 0.19
19 13 0.42
20 12 0.39
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTTTCATTAAAAATTCAA
Found at i:71726661 original size:30 final size:30
Alignment explanation
Indices: 71726606--71726663 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
71726596 AATTTTTTGT
*
71726606 AATTTTCTAAAATTTGATTATATTTTTAAA
1 AATTTTCTAAAATTTGATGATATTTTTAAA
71726636 AATTTTCTAAATATTCTG-TGA-ATTTTTA
1 AATTTTCTAAA-ATT-TGATGATATTTTTA
71726664 TATTTTTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 18 0.72
31 5 0.20
32 2 0.08
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.53
Consensus pattern (30 bp):
AATTTTCTAAAATTTGATGATATTTTTAAA
Found at i:71739582 original size:10 final size:10
Alignment explanation
Indices: 71739569--71739602 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
71739559 GAAGTCTTTG
71739569 AAATATTGAT
1 AAATATTGAT
*
71739579 AAATATTTAT
1 AAATATTGAT
*
71739589 ATATATTGAT
1 AAATATTGAT
71739599 AAAT
1 AAAT
71739603 CTTTAAATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (10 bp):
AAATATTGAT
Found at i:71739596 original size:20 final size:19
Alignment explanation
Indices: 71739571--71739697 Score: 77
Period size: 20 Copynumber: 6.6 Consensus size: 19
71739561 AGTCTTTGAA
71739571 ATATTGATAAATATTTATAT
1 ATATTGATAAATATTTA-AT
*
71739591 ATATTGATAAATCTTTAAAT
1 ATATTGATAAATATTT-AAT
* *
71739611 ATTCTTG-TAAATGA-TCAAT
1 A-TATTGATAAAT-ATTTAAT
* *
71739630 -T-TTGATAAA-AGCTTAGAA
1 ATATTGATAAATA-TTTA-AT
* *
71739648 ATATTGATAAATCTTTAAA
1 ATATTGATAAATATTTAAT
*
71739667 ATATTAATAAA-ATTTAGAT
1 ATATTGATAAATATTTA-AT
71739686 ATATTGATAAAT
1 ATATTGATAAAT
71739698 CATTAAAACA
Statistics
Matches: 83, Mismatches: 12, Indels: 24
0.70 0.10 0.20
Matches are distributed among these distances:
15 1 0.01
16 3 0.04
17 7 0.08
18 5 0.06
19 27 0.33
20 35 0.42
21 5 0.06
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.43
Consensus pattern (19 bp):
ATATTGATAAATATTTAAT
Found at i:71739691 original size:38 final size:38
Alignment explanation
Indices: 71739642--71739715 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
71739632 TGATAAAAGC
* *
71739642 TTAGAAATATTGATAAATCTTTAAAATATTAATAAAAT
1 TTAGAAATATTGATAAATCATTAAAACATTAATAAAAT
* *
71739680 TTAGATATATTGATAAATCATTAAAACATTAGTAAA
1 TTAGAAATATTGATAAATCATTAAAACATTAATAAA
71739716 TTCTTTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (38 bp):
TTAGAAATATTGATAAATCATTAAAACATTAATAAAAT
Found at i:71742923 original size:45 final size:45
Alignment explanation
Indices: 71742821--71742925 Score: 138
Period size: 45 Copynumber: 2.3 Consensus size: 45
71742811 AATGATTAAG
* * *
71742821 ACCATAGTTGAAAGACACTATGGCACTATACCAAAAATAAATAAT
1 ACCATAGTTGAAAGACACTATGGCACCATACCAAAAACAAATAAA
* * *
71742866 ACCATAGTTGAAAGACACTATGGCACCATACCAGAAACGAGTAAA
1 ACCATAGTTGAAAGACACTATGGCACCATACCAAAAACAAATAAA
* *
71742911 ACTATAGCTGAAAGA
1 ACCATAGTTGAAAGA
71742926 TGTTATCGCA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.47, C:0.19, G:0.15, T:0.19
Consensus pattern (45 bp):
ACCATAGTTGAAAGACACTATGGCACCATACCAAAAACAAATAAA
Found at i:71743097 original size:45 final size:46
Alignment explanation
Indices: 71742990--71743116 Score: 166
Period size: 46 Copynumber: 2.8 Consensus size: 46
71742980 ATCACAAATC
* * * * *
71742990 AAATAAATAAGACCATAGTTGAAAAACATTATAGCAACACGACGAA
1 AAATAAATAAGACCATGGTTGAAAGACACTATGGCAACAAGACGAA
* *
71743036 AAATGAATAAGACCATGGTTGAAAGACACTATGGCATCAAGACG-A
1 AAATAAATAAGACCATGGTTGAAAGACACTATGGCAACAAGACGAA
* *
71743081 GAATAAATAAGACCATGGTTGAAAGACACCATGGCA
1 AAATAAATAAGACCATGGTTGAAAGACACTATGGCA
71743117 CTCTCCAATC
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
45 34 0.48
46 37 0.52
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.17
Consensus pattern (46 bp):
AAATAAATAAGACCATGGTTGAAAGACACTATGGCAACAAGACGAA
Found at i:71747120 original size:46 final size:46
Alignment explanation
Indices: 71747068--71747526 Score: 740
Period size: 46 Copynumber: 10.0 Consensus size: 46
71747058 TTTGACATGA
* * * * * *
71747068 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* *** *
71747114 TGCCATAGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
71747160 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
71747206 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
71747252 TGCCATGGTATCTTTCAACCACGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
71747298 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
71747344 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
71747390 TGCCATGGTATCTTTCAACCACGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
71747436 TGCCATGGTATCTTTCAACCAAGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
71747482 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGG
71747527 GAGCACACTC
Statistics
Matches: 390, Mismatches: 22, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
45 4 0.01
46 386 0.99
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.37
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:71754252 original size:43 final size:43
Alignment explanation
Indices: 71754205--71754288 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
71754195 AAATCGATTA
*
71754205 ACAATGCCAATGTCCTAGACATGGTCTTACACGTAATCACAAT
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAAT
*
71754248 ACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA
71754289 TCTCGGTAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.25
Consensus pattern (43 bp):
ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAAT
Found at i:71758656 original size:48 final size:49
Alignment explanation
Indices: 71758537--71758769 Score: 197
Period size: 48 Copynumber: 4.8 Consensus size: 49
71758527 TAAGATTCCG
* * * * *
71758537 ATGCCATGTCCCATACATGGTCTTACACTGGCTCTCATATATTGGTACCG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATAGTGG-ACCA
* * *
71758587 ATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGTGG-CCA
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATAGTGGACCA
* * * * * *
71758635 ATGCCATGTCCCAGATATGGTCTTACTCTAGCTCTCATATAAAT--ACCG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAT-AGTGGACCA
* * * * ** *
71758683 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATAAAT--TTCG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAT-AGTGGACCA
* *
71758731 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATA
71758770 ACCCTAGTAT
Statistics
Matches: 156, Mismatches: 25, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
48 117 0.75
49 1 0.01
50 38 0.24
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.30
Consensus pattern (49 bp):
ATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATAGTGGACCA
Found at i:71758711 original size:96 final size:97
Alignment explanation
Indices: 71758537--71758716 Score: 281
Period size: 96 Copynumber: 1.9 Consensus size: 97
71758527 TAAGATTCCG
* * **
71758537 ATGCCATGTCCCATACATGGTCTTACACTGGCTCTCATATATTGGTACCGATGCCATGTTCCAAA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATA-TAATACCGATGCCATGTTCCAAA
71758602 CATGGTCTTACACTAGCTCACATGTCGTGGCCA
65 CATGGTCTTACACTAGCTCACATGTCGTGGCCA
* *
71758635 ATGCCATGTCCCAGATATGGTCTTACTCTAGCTCTCATATA-AATACCGATGCCATGTTCCAAAC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATAATACCGATGCCATGTTCCAAAC
*
71758699 ATGGTCTTACACTGGCTC
66 ATGGTCTTACACTAGCTC
71758717 TCATATAAAT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
96 38 0.51
98 37 0.49
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.30
Consensus pattern (97 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATAATACCGATGCCATGTTCCAAAC
ATGGTCTTACACTAGCTCACATGTCGTGGCCA
Found at i:71758735 original size:96 final size:97
Alignment explanation
Indices: 71758534--71758769 Score: 278
Period size: 96 Copynumber: 2.4 Consensus size: 97
71758524 TGGTAAGATT
* * **
71758534 CCGATGCCATGTCCCATACATGGTCTTACACTGGCTCTCATATATTGGTACCGATGCCATGTTCC
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATA-TAATACCGATGCCATGTTCC
* **
71758599 AAACATGGTCTTACACTAGCTCACATGTCGTGG
65 AAACATGGTCTTACACTAGCTCACATATAATGG
* * * *
71758632 CCAATGCCATGTCCCAGATATGGTCTTACTCTAGCTCTCATATA-AATACCGATGCCATGTTCCA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATAATACCGATGCCATGTTCCA
* * *
71758696 AACATGGTCTTACACTGGCTCTCATATAAAT-T
66 AACATGGTCTTACACTAGCTCACATAT-AATGG
* * * *
71758728 TCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATA
71758770 ACCCTAGTAT
Statistics
Matches: 116, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
96 76 0.66
97 1 0.01
98 39 0.34
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (97 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATAATACCGATGCCATGTTCCA
AACATGGTCTTACACTAGCTCACATATAATGG
Found at i:71767313 original size:22 final size:20
Alignment explanation
Indices: 71767278--71767319 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
71767268 TCATAGTTGA
*
71767278 GAAATTGATGAATTAGGCTT
1 GAAATTGATGAATTAAGCTT
71767298 GAAATTGATGGAAATTAAGCTT
1 GAAATTGAT-G-AATTAAGCTT
71767320 AGATCATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 1 0.05
22 9 0.47
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (20 bp):
GAAATTGATGAATTAAGCTT
Found at i:71770139 original size:25 final size:25
Alignment explanation
Indices: 71770111--71770162 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
71770101 AAACTACATT
71770111 GCACTTGTAGAGAACTGAAACCTAA
1 GCACTTGTAGAGAACTGAAACCTAA
*
71770136 GCACTTGTAGAGAATTGAAACCTAA
1 GCACTTGTAGAGAACTGAAACCTAA
71770161 GC
1 GC
71770163 CTAAGCTGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.21
Consensus pattern (25 bp):
GCACTTGTAGAGAACTGAAACCTAA
Found at i:71770791 original size:19 final size:19
Alignment explanation
Indices: 71770753--71770791 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
71770743 AAAGAGTGAG
*
71770753 AATTTATTTTCTAAGTATA
1 AATTTATTTTCTAAGAATA
71770772 AATTCTATTTTCT-AGAATA
1 AATT-TATTTTCTAAGAATA
71770791 A
1 A
71770792 CAATTCAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (19 bp):
AATTTATTTTCTAAGAATA
Found at i:71773768 original size:42 final size:42
Alignment explanation
Indices: 71773659--71773778 Score: 163
Period size: 43 Copynumber: 2.8 Consensus size: 42
71773649 CTGTACCAAT
*
71773659 GCCATATCCCAGATATGGTCTTACATGTAATCTCATATCGAT
1 GCCATATCCCAGATATGGTCTTACATGTAATCTCATATCGAA
*
71773701 GCCA-ATTGCCCAGCTATGGTCTTACATG-AATTCTCATATCGAA
1 GCCATA-T-CCCAGATATGGTCTTACATGTAA-TCTCATATCGAA
* *
71773744 GCCATATCCCAGATATGGTCTTACACGTTATCTCA
1 GCCATATCCCAGATATGGTCTTACATGTAATCTCA
71773779 ATAACCCTAA
Statistics
Matches: 68, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
41 1 0.01
42 30 0.44
43 36 0.53
44 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (42 bp):
GCCATATCCCAGATATGGTCTTACATGTAATCTCATATCGAA
Found at i:71780084 original size:28 final size:28
Alignment explanation
Indices: 71780053--71780109 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
71780043 TGTGTAAGTT
71780053 TCAATTTTAGGAACTAAATTGGATAAAC
1 TCAATTTTAGGAACTAAATTGGATAAAC
71780081 TCAATTTTAGGAACTAAATTGGATAAAC
1 TCAATTTTAGGAACTAAATTGGATAAAC
71780109 T
1 T
71780110 GTAAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (28 bp):
TCAATTTTAGGAACTAAATTGGATAAAC
Found at i:71780690 original size:29 final size:28
Alignment explanation
Indices: 71780599--71780704 Score: 104
Period size: 29 Copynumber: 3.6 Consensus size: 28
71780589 GTCATTAGGG
*
71780599 TTTATCAGGCACTAAGTGCCCATGATTATA
1 TTTATCAGGCACTATGTG-CCATG-TTATA
* * * * *
71780629 TTTATTAGGTATACTTTGTACCGTGTTATA
1 TTTATCAGG--CACTATGTGCCATGTTATA
71780659 TTTATCAGGCACTATGTGCCAATGTTATA
1 TTTATCAGGCACTATGTGCC-ATGTTATA
*
71780688 TTTATCAGGTACTATGT
1 TTTATCAGGCACTATGT
71780705 ACTAGTGGTG
Statistics
Matches: 61, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
28 8 0.13
29 23 0.38
30 21 0.34
31 4 0.07
32 5 0.08
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (28 bp):
TTTATCAGGCACTATGTGCCATGTTATA
Found at i:71782182 original size:25 final size:26
Alignment explanation
Indices: 71782154--71782207 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 26
71782144 TTTAAGTGAT
*
71782154 TTTTGTTATTTAATAA-AAAGGTTAA
1 TTTTGGTATTTAATAATAAAGGTTAA
71782179 TTTTGGTATTTAATAATTAAAGGTTAA
1 TTTTGGTATTTAATAA-TAAAGGTTAA
71782206 TT
1 TT
71782208 ATAATAAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 15 0.58
27 11 0.42
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (26 bp):
TTTTGGTATTTAATAATAAAGGTTAA
Found at i:71785060 original size:46 final size:46
Alignment explanation
Indices: 71785000--71785227 Score: 314
Period size: 46 Copynumber: 5.0 Consensus size: 46
71784990 TTTGACATGA
* * * * * *
71785000 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* *** *
71785046 TGCCATGGAATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
71785092 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
71785138 TGCCATGGTCTCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
71785184 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
71785228 AGAGCACACT
Statistics
Matches: 164, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 160 0.98
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:71787386 original size:11 final size:11
Alignment explanation
Indices: 71787370--71787421 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
71787360 TATACTAAAT
71787370 AAATAATAATA
1 AAATAATAATA
71787381 AAATAATAATA
1 AAATAATAATA
* * *
71787392 GACAT-CTCATA
1 -AAATAATAATA
*
71787403 AAATATTAATA
1 AAATAATAATA
71787414 AAATAATA
1 AAATAATA
71787422 TTTATCTAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
10 3 0.09
11 26 0.81
12 3 0.09
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (11 bp):
AAATAATAATA
Found at i:71798363 original size:13 final size:13
Alignment explanation
Indices: 71798345--71798410 Score: 65
Period size: 13 Copynumber: 5.5 Consensus size: 13
71798335 AATTTAAAAT
71798345 TATTTAGTGATAA
1 TATTTAGTGATAA
71798358 TATTTA---A-AA
1 TATTTAGTGATAA
71798367 TTATTTAGTGATAA
1 -TATTTAGTGATAA
*
71798381 TATTTA-AGAT--
1 TATTTAGTGATAA
71798391 TATTTAGTGATAA
1 TATTTAGTGATAA
71798404 TATTTAG
1 TATTTAG
71798411 GAAAATCTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 16
0.70 0.03 0.26
Matches are distributed among these distances:
9 2 0.05
10 13 0.30
11 3 0.07
12 3 0.07
13 20 0.47
14 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:71798363 original size:23 final size:23
Alignment explanation
Indices: 71798336--71798409 Score: 139
Period size: 23 Copynumber: 3.2 Consensus size: 23
71798326 GATTTTTAAA
71798336 ATTTAAAATTATTTAGTGATAAT
1 ATTTAAAATTATTTAGTGATAAT
71798359 ATTTAAAATTATTTAGTGATAAT
1 ATTTAAAATTATTTAGTGATAAT
*
71798382 ATTTAAGATTATTTAGTGATAAT
1 ATTTAAAATTATTTAGTGATAAT
71798405 ATTTA
1 ATTTA
71798410 GGAAAATCTA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (23 bp):
ATTTAAAATTATTTAGTGATAAT
Found at i:71799572 original size:16 final size:16
Alignment explanation
Indices: 71799553--71799584 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
71799543 TTTTCATAAA
71799553 AAAATATCTTAATTAT
1 AAAATATCTTAATTAT
71799569 AAAATATCTTAATTAT
1 AAAATATCTTAATTAT
71799585 TTTTTTCACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
AAAATATCTTAATTAT
Found at i:71800224 original size:25 final size:25
Alignment explanation
Indices: 71800196--71800262 Score: 91
Period size: 24 Copynumber: 2.7 Consensus size: 25
71800186 CATAGTTTTG
*
71800196 TGGTTTTATTTTGTCCCCAATTTCA
1 TGGTTTTATTTTGTCCACAATTTCA
* *
71800221 TGGTTTGA-TTTGTCCACATTTTCA
1 TGGTTTTATTTTGTCCACAATTTCA
71800245 TGGTTTTTATTTTGTCCA
1 TGG-TTTTATTTTGTCCA
71800263 TTTTGTTTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 17 0.47
25 11 0.31
26 8 0.22
ACGTcount: A:0.15, C:0.16, G:0.15, T:0.54
Consensus pattern (25 bp):
TGGTTTTATTTTGTCCACAATTTCA
Found at i:71800735 original size:20 final size:21
Alignment explanation
Indices: 71800689--71800735 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
71800679 ATTTAAGGTG
71800689 ATTTT-TATCGTTTGTACTAT
1 ATTTTATATCGTTTGTACTAT
* *
71800709 ATATTATATC-TTTGTATTAT
1 ATTTTATATCGTTTGTACTAT
*
71800729 TTTTTAT
1 ATTTTAT
71800736 GATTCCAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.64
Consensus pattern (21 bp):
ATTTTATATCGTTTGTACTAT
Found at i:71805620 original size:21 final size:21
Alignment explanation
Indices: 71805594--71805645 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
71805584 AGCGGTGGCG
*
71805594 GTGAGATTAGTTACTGTAGCA
1 GTGAGATTAGGTACTGTAGCA
* *
71805615 GTGAGATTGGGTATTGTAGCA
1 GTGAGATTAGGTACTGTAGCA
71805636 GTGAGATTAG
1 GTGAGATTAG
71805646 AAACAGCAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.06, G:0.35, T:0.33
Consensus pattern (21 bp):
GTGAGATTAGGTACTGTAGCA
Found at i:71812905 original size:41 final size:41
Alignment explanation
Indices: 71812848--71812930 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
71812838 GTATGGCTAA
*
71812848 CACTTAGGCTATTTTCCAAGCCTTCATGTTTCCCATAAACC
1 CACTTAGGCTACTTTCCAAGCCTTCATGTTTCCCATAAACC
71812889 CACTTAGGCTACTTTCCAAGCCTTCATGTTTCCCATAAACC
1 CACTTAGGCTACTTTCCAAGCCTTCATGTTTCCCATAAACC
71812930 C
1 C
71812931 TTACAACCTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.24, C:0.34, G:0.10, T:0.33
Consensus pattern (41 bp):
CACTTAGGCTACTTTCCAAGCCTTCATGTTTCCCATAAACC
Found at i:71814567 original size:24 final size:24
Alignment explanation
Indices: 71814539--71814617 Score: 60
Period size: 24 Copynumber: 3.2 Consensus size: 24
71814529 CACTTAGTAC
71814539 TACACACGTGACCTAACCATCTGA
1 TACACACGTGACCTAACCATCTGA
71814563 T--ACACGTAGTAGCCT-A-CA-CTTAGTA
1 TACACACGT-G-A-CCTAACCATC-T-G-A
71814588 CTACACACGTGACCTAACCATCTGA
1 -TACACACGTGACCTAACCATCTGA
71814613 TACAC
1 TACAC
71814618 GTAGTAGCCT
Statistics
Matches: 43, Mismatches: 0, Indels: 24
0.64 0.00 0.36
Matches are distributed among these distances:
22 7 0.16
23 4 0.09
24 9 0.21
25 8 0.19
26 4 0.09
27 4 0.09
28 7 0.16
ACGTcount: A:0.33, C:0.32, G:0.13, T:0.23
Consensus pattern (24 bp):
TACACACGTGACCTAACCATCTGA
Found at i:71814569 original size:22 final size:22
Alignment explanation
Indices: 71814542--71814619 Score: 68
Period size: 22 Copynumber: 3.3 Consensus size: 22
71814532 TTAGTACTAC
71814542 ACACGTGACCTAACCATCTGAT
1 ACACGTGACCTAACCATCTGAT
* *
71814564 ACACGTAGTAGCCTACACTTAGTACT-AC
1 ACACGT-G-A-CCTA-AC-CA-T-CTGAT
71814592 ACACGTGACCTAACCATCTGAT
1 ACACGTGACCTAACCATCTGAT
71814614 ACACGT
1 ACACGT
71814620 AGTAGCCTGC
Statistics
Matches: 44, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
21 2 0.05
22 14 0.32
23 2 0.05
24 3 0.07
25 8 0.18
26 3 0.07
27 2 0.05
28 8 0.18
29 2 0.05
ACGTcount: A:0.32, C:0.31, G:0.14, T:0.23
Consensus pattern (22 bp):
ACACGTGACCTAACCATCTGAT
Found at i:71814583 original size:50 final size:50
Alignment explanation
Indices: 71814470--71814746 Score: 385
Period size: 50 Copynumber: 5.5 Consensus size: 50
71814460 CTGGTATGCA
* * * * *
71814470 TAGTAGCCTGCACTTAATACTACACATGTGACC-AACAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
71814519 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
*
71814569 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * * * *
71814619 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATTTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * **
71814669 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATCTTAAACATA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACCATCTGATACACG
*
71814721 TAGTAGCCTGCACATAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
71814747 TGTGTCCTCA
Statistics
Matches: 203, Mismatches: 22, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
49 31 0.15
50 138 0.68
52 34 0.17
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
Found at i:71820922 original size:22 final size:22
Alignment explanation
Indices: 71820894--71820940 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
71820884 AGTATATTGA
71820894 CTTAGACACATCTTTATGGTGT
1 CTTAGACACATCTTTATGGTGT
71820916 CTTAGACACATCTTTATGGTGT
1 CTTAGACACATCTTTATGGTGT
71820938 CTT
1 CTT
71820941 GTAACACCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.43
Consensus pattern (22 bp):
CTTAGACACATCTTTATGGTGT
Found at i:71825560 original size:17 final size:16
Alignment explanation
Indices: 71825520--71825563 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 16
71825510 ATTTATTCAT
71825520 AATTAACAATAAGTATA
1 AATTAACAA-AAGTATA
71825537 AATTAACAAAAGTAATTA
1 AATTAACAAAAGT-A-TA
71825555 AA-TAACAAA
1 AATTAACAAA
71825564 TTAAACAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.16
17 17 0.68
18 4 0.16
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.25
Consensus pattern (16 bp):
AATTAACAAAAGTATA
Found at i:71826482 original size:146 final size:144
Alignment explanation
Indices: 71826229--71826501 Score: 324
Period size: 146 Copynumber: 1.9 Consensus size: 144
71826219 GTTACATATC
*
71826229 ATTAATAGTTTACATTAATTATATAATGTTAATTTTATATTATTATAATCTACCATAAAGTTAGT
1 ATTAATAGTTTACATTAATTATATAATGCTAATTTTATATTATTATAATCTACCATAAAGTTAG-
* *
71826294 TACACGTTTAGGGTTTAAGTTTACATATATAAAAATGCACATTATAAT-ATCATAATTGTATATT
65 T-CAC-TTTAGGGTTTAAGCTTACATATATAAAAATACACATTATAATAAT-ATAATTGTATATT
71826358 ATGTTATATATCATTAAT
127 ATGTTATATATCATTAAT
* *
71826376 ATTAAT-GATTTACTTTAATTATATAATGCTAATTGTT-TA-TATTATAATCTACCATAAAATTT
1 ATTAATAG-TTTACATTAATTATATAATGCTAATT-TTATATTATTATAATCTACCAT-AAAGTT
* * * *
71826438 AG-GA-TTTATGGTTTAAGCTTACATATTAATAGAAAAATATACATTATAATAATATAGTTGTAT
63 AGTCACTTTAGGGTTTAAGCTTACATA-T-AT--AAAAATACACATTATAATAATATAATTGTAT
71826501 A
124 A
71826502 CAGGATTACA
Statistics
Matches: 109, Mismatches: 9, Indels: 17
0.81 0.07 0.13
Matches are distributed among these distances:
142 19 0.17
143 1 0.01
144 3 0.03
146 43 0.39
147 41 0.38
148 2 0.02
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.44
Consensus pattern (144 bp):
ATTAATAGTTTACATTAATTATATAATGCTAATTTTATATTATTATAATCTACCATAAAGTTAGT
CACTTTAGGGTTTAAGCTTACATATATAAAAATACACATTATAATAATATAATTGTATATTATGT
TATATATCATTAAT
Found at i:71826570 original size:24 final size:22
Alignment explanation
Indices: 71826523--71826564 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
71826513 ATCATTAATG
71826523 ATATACCTTAATTATATAATTA
1 ATATACCTTAATTATATAATTA
71826545 ATATACCTTAATTATATAAT
1 ATATACCTTAATTATATAAT
71826565 GTTAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (22 bp):
ATATACCTTAATTATATAATTA
Found at i:71831883 original size:41 final size:39
Alignment explanation
Indices: 71831763--71831892 Score: 135
Period size: 36 Copynumber: 3.3 Consensus size: 39
71831753 CAGCTTGGCT
*
71831763 CCCAGTGCCTCATC-AGATAATTCGAAGTAGTAAATTGACA
1 CCCAGTGCCTCATCGA-ATAAATCGAAGTA-TAAATTGACA
* * *
71831803 TCCAGTGTCTCATCGATTAAA-CGAAG--TAAATTGGA-A
1 CCCAGTGCCTCATCGAATAAATCGAAGTATAAATT-GACA
71831839 CCCAGTGCCTCATCGAATAAATCCGAAGTAATAAATTGACA
1 CCCAGTGCCTCATCGAATAAAT-CGAAGT-ATAAATTGACA
*
71831880 CCCAGTGTCTCAT
1 CCCAGTGCCTCAT
71831893 TGACTCGAAG
Statistics
Matches: 74, Mismatches: 8, Indels: 15
0.76 0.08 0.15
Matches are distributed among these distances:
36 25 0.34
37 2 0.03
38 5 0.07
39 5 0.07
40 17 0.23
41 20 0.27
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (39 bp):
CCCAGTGCCTCATCGAATAAATCGAAGTATAAATTGACA
Found at i:71834698 original size:74 final size:69
Alignment explanation
Indices: 71834553--71834703 Score: 158
Period size: 74 Copynumber: 2.1 Consensus size: 69
71834543 TTGACGGAAA
* * * * ** *
71834553 AAGACCATGGTTGGACCATGGAAATGTGTTAAATGTAAGACCATAACTGGGTTATGGCTTTGTGA
1 AAGACCATGGTTGGACCATGGAAATATGATAAATGTAAGACCATAACTGGGCTATGGCATCCTAA
71834618 ACAT
66 ACAT
* **
71834622 AAGACCATGGTTGGACCATGGCAGTATATGAATACAAGTGTAAGACCATAGTTGGGCTATGGCAT
1 AAGACCATGGTTGGACCATGG-A-AATATG-ATA-AA-TGTAAGACCATAACTGGGCTATGGCAT
*
71834687 CCTAAAGAT
61 CCTAAACAT
71834696 AAGACCAT
1 AAGACCAT
71834704 AACTGGGTTA
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
69 21 0.32
70 1 0.02
71 4 0.06
72 2 0.03
73 2 0.03
74 36 0.55
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (69 bp):
AAGACCATGGTTGGACCATGGAAATATGATAAATGTAAGACCATAACTGGGCTATGGCATCCTAA
ACAT
Found at i:71842329 original size:16 final size:17
Alignment explanation
Indices: 71842310--71842342 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
71842300 AATCAATCAA
71842310 TTTTTT-GAAAACCCAT
1 TTTTTTAGAAAACCCAT
*
71842326 TTTTTTATAAAACCCAT
1 TTTTTTAGAAAACCCAT
71842343 AATCCACAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.18, G:0.03, T:0.45
Consensus pattern (17 bp):
TTTTTTAGAAAACCCAT
Found at i:71848150 original size:3 final size:3
Alignment explanation
Indices: 71848138--71848173 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
71848128 GGTAGAGGAG
71848138 AGA A-A AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
71848174 AACGTCAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:71855219 original size:13 final size:15
Alignment explanation
Indices: 71855190--71855226 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
71855180 TTTTAATTTC
71855190 AATATTATTTGTATT
1 AATATTATTTGTATT
71855205 AATA-TATTT-TATT
1 AATATTATTTGTATT
*
71855218 AATGTTATT
1 AATATTATT
71855227 ATTATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 7 0.35
14 9 0.45
15 4 0.20
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (15 bp):
AATATTATTTGTATT
Found at i:71855477 original size:22 final size:21
Alignment explanation
Indices: 71855447--71855494 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
71855437 ATTATGTTTC
*
71855447 TATTAATATATTATACATATA
1 TATTAATATATAATACATATA
*
71855468 GTATTTATATATAATACATATA
1 -TATTAATATATAATACATATA
71855490 TATTA
1 TATTA
71855495 TGTATGTGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (21 bp):
TATTAATATATAATACATATA
Found at i:71856255 original size:19 final size:19
Alignment explanation
Indices: 71856233--71856289 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
71856223 GTTCCTAATA
*
71856233 TATATTGTATATGTTTATT
1 TATATTGTATATATTTATT
*
71856252 TATATTATGTATATATATATT
1 TATA-T-TGTATATATTTATT
71856273 TAGTA-TGTATATATTTA
1 TA-TATTGTATATATTTA
71856290 GTATTATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
19 15 0.47
20 1 0.03
21 14 0.44
22 2 0.06
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (19 bp):
TATATTGTATATATTTATT
Found at i:71856288 original size:15 final size:15
Alignment explanation
Indices: 71856260--71856293 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
71856250 TTTATATTAT
71856260 GTATATATATATTTA
1 GTATATATATATTTA
*
71856275 GTATGTATATATTTA
1 GTATATATATATTTA
71856290 GTAT
1 GTAT
71856294 TATTATGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
GTATATATATATTTA
Found at i:71856300 original size:21 final size:19
Alignment explanation
Indices: 71856238--71856309 Score: 72
Period size: 21 Copynumber: 3.6 Consensus size: 19
71856228 TAATATATAT
*
71856238 TGTATATGTTTATTTATATTA
1 TGTATATATTTA-TT-TATTA
* *
71856259 TGTATATATATATTTAGTA
1 TGTATATATTTATTTATTA
71856278 TGTATATATTTAGTATTATTA
1 TGTATATATTTA-T-TTATTA
*
71856299 TGTCTATATTT
1 TGTATATATTT
71856310 TTCATTCCTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
19 15 0.35
20 3 0.07
21 25 0.58
ACGTcount: A:0.31, C:0.01, G:0.10, T:0.58
Consensus pattern (19 bp):
TGTATATATTTATTTATTA
Found at i:71867310 original size:24 final size:22
Alignment explanation
Indices: 71867283--71867326 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
71867273 AGTTGTGGAT
71867283 GTGGTGGAAGAAGGATGAGAGAAG
1 GTGGTGGAAG-AGGA-GAGAGAAG
*
71867307 GTGGTGGTAGAGGAGAGAGA
1 GTGGTGGAAGAGGAGAGAGA
71867327 GGAAAGAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 4 0.21
24 9 0.47
ACGTcount: A:0.34, C:0.00, G:0.52, T:0.14
Consensus pattern (22 bp):
GTGGTGGAAGAGGAGAGAGAAG
Found at i:71867398 original size:16 final size:17
Alignment explanation
Indices: 71867348--71867408 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
71867338 TTGTGGTGGA
71867348 GGTGGAGGAGGAGG-GG
1 GGTGGAGGAGGAGGAGG
* *
71867364 GGTTTGAGGAAGAAGGAGGAG
1 GG-TGGAGG-AGGAGGA-G-G
71867385 GGTGGAGGAGGAGGAGG
1 GGTGGAGGAGGAGGAGG
71867402 GGTGGAG
1 GGTGGAG
71867409 AGGCGTTTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
16 2 0.06
17 13 0.36
18 6 0.17
19 6 0.17
20 6 0.17
21 3 0.08
ACGTcount: A:0.25, C:0.00, G:0.66, T:0.10
Consensus pattern (17 bp):
GGTGGAGGAGGAGGAGG
Found at i:71873789 original size:19 final size:19
Alignment explanation
Indices: 71873767--71873805 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
71873757 TAATACATGC
71873767 CAAGTAAAGATCCTCTCTA
1 CAAGTAAAGATCCTCTCTA
*
71873786 CAAGTAAAGGTCCTCTCTA
1 CAAGTAAAGATCCTCTCTA
71873805 C
1 C
71873806 TTACGTTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (19 bp):
CAAGTAAAGATCCTCTCTA
Found at i:71881775 original size:22 final size:22
Alignment explanation
Indices: 71881747--71881791 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
71881737 TTAATAAAAA
71881747 AAAATATCTACA-ATATATTCCT
1 AAAATATCTACAGA-ATATTCCT
*
71881769 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAGAATATTCCT
71881791 A
1 A
71881792 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.36
Consensus pattern (22 bp):
AAAATATCTACAGAATATTCCT
Found at i:71886266 original size:22 final size:22
Alignment explanation
Indices: 71886241--71886285 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
71886231 TTTTAATAAA
71886241 AAAAAATCTACAAAATATTCCT
1 AAAAAATCTACAAAATATTCCT
* * *
71886263 AAAATATTTACAGAATATTCCT
1 AAAAAATCTACAAAATATTCCT
71886285 A
1 A
71886286 CAAATTTGTT
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:0.51, C:0.16, G:0.02, T:0.31
Consensus pattern (22 bp):
AAAAAATCTACAAAATATTCCT
Found at i:71887294 original size:18 final size:18
Alignment explanation
Indices: 71887271--71887308 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
71887261 TAAATAGAGG
71887271 TTACATAGGTTTTTATTC
1 TTACATAGGTTTTTATTC
71887289 TTACATAGGTTTTTATTC
1 TTACATAGGTTTTTATTC
71887307 TT
1 TT
71887309 GTAGAATAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.58
Consensus pattern (18 bp):
TTACATAGGTTTTTATTC
Found at i:71904667 original size:20 final size:20
Alignment explanation
Indices: 71904642--71904681 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
71904632 CGTAAAATGA
*
71904642 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
71904662 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
71904682 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:71904671 original size:34 final size:35
Alignment explanation
Indices: 71904627--71904693 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
71904617 GAGTAAAATA
*
71904627 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
71904661 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
71904694 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:71904697 original size:14 final size:15
Alignment explanation
Indices: 71904621--71904697 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
71904611 GATTGAGAGT
* *
71904621 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
71904635 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
71904649 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
71904669 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
71904684 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
71904698 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:71906909 original size:13 final size:13
Alignment explanation
Indices: 71906891--71906923 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
71906881 ATATATGTAT
71906891 TTATAAAAAAATA
1 TTATAAAAAAATA
71906904 TTATAAAAAAATA
1 TTATAAAAAAATA
71906917 TTATAAA
1 TTATAAA
71906924 TGTTTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TTATAAAAAAATA
Found at i:71911265 original size:18 final size:19
Alignment explanation
Indices: 71911242--71911286 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
71911232 TTTTTTACTA
71911242 ATAATTATAAATTAAAT-T
1 ATAATTATAAATTAAATAT
**
71911260 ATAATTAT-TTTTAAATAT
1 ATAATTATAAATTAAATAT
71911278 ATAATTATA
1 ATAATTATA
71911287 GTAACTTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATAATTATAAATTAAATAT
Found at i:71911335 original size:42 final size:44
Alignment explanation
Indices: 71911252--71911340 Score: 130
Period size: 42 Copynumber: 2.1 Consensus size: 44
71911242 ATAATTATAA
* *
71911252 ATTAAATTATAATTATTTTTAAATATATAATTATAGTAACTTCT
1 ATTAAATTATAATTATTTTTAAATATATAACTATAGCAACTTCT
71911296 ATTAAATTATAATT-TTTTTAAA-ATATAACTATCA-CAACTTCT
1 ATTAAATTATAATTATTTTTAAATATATAACTAT-AGCAACTTCT
71911338 ATT
1 ATT
71911341 TTACATCAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
42 19 0.45
43 9 0.21
44 14 0.33
ACGTcount: A:0.43, C:0.08, G:0.01, T:0.48
Consensus pattern (44 bp):
ATTAAATTATAATTATTTTTAAATATATAACTATAGCAACTTCT
Found at i:71929610 original size:16 final size:16
Alignment explanation
Indices: 71929590--71929645 Score: 94
Period size: 16 Copynumber: 3.5 Consensus size: 16
71929580 CGTTTGGTTG
*
71929590 GCTGTAATGGAATAGG
1 GCTGTAATGGAATAGA
*
71929606 GCTGTAATTGAATAGA
1 GCTGTAATGGAATAGA
71929622 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
71929638 GCTGTAAT
1 GCTGTAAT
71929646 AAGTAATTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.34, C:0.07, G:0.30, T:0.29
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:71937624 original size:28 final size:29
Alignment explanation
Indices: 71937564--71937624 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
71937554 GTTAACTATT
* * *
71937564 TAAATTGCTAAAAAAATTAAATTGTTAAT
1 TAAAATGCTAAAAAAATTAAATTATTAAA
71937593 TAAAATGCT-AAAAAATT-AATTATATAAA
1 TAAAATGCTAAAAAAATTAAATTAT-TAAA
71937621 TAAA
1 TAAA
71937625 TATGAAGTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 5 0.18
28 15 0.54
29 8 0.29
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.34
Consensus pattern (29 bp):
TAAAATGCTAAAAAAATTAAATTATTAAA
Found at i:71937881 original size:33 final size:33
Alignment explanation
Indices: 71937823--71937935 Score: 82
Period size: 33 Copynumber: 3.4 Consensus size: 33
71937813 CTTGATCCGA
** *
71937823 GAGGAGTGGAGTACAGCAATTGATACGGGCCGG
1 GAGGAGTGGAGTACAGCGGTGGATACGGGCCGG
* * *
71937856 GAGGAGTGGAGTACGGCGGTGGATACAGGCTGG
1 GAGGAGTGGAGTACAGCGGTGGATACGGGCCGG
* * ** * * * *
71937889 AAAGAGCAGAGTACTGAGGTGGATACGAGCCAG
1 GAGGAGTGGAGTACAGCGGTGGATACGGGCCGG
* *
71937922 GATGACTGGAGTAC
1 GAGGAGTGGAGTAC
71937936 TTATGTGGTA
Statistics
Matches: 59, Mismatches: 21, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.28, C:0.14, G:0.42, T:0.15
Consensus pattern (33 bp):
GAGGAGTGGAGTACAGCGGTGGATACGGGCCGG
Found at i:71940078 original size:43 final size:43
Alignment explanation
Indices: 71939946--71940173 Score: 194
Period size: 43 Copynumber: 5.4 Consensus size: 43
71939936 ACCGCTATAG
* *
71939946 CAAACGTCGCTAAAGACCATGACCTTTAGCGGC-TTTTTTTCA
1 CAAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTTTCA
* * ** * *** *
71939988 CAAATGTCGCTAAAGACCATGACCTTTAGCAACGCTTTCCCCG
1 CAAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTTTCA
* * * *
71940031 CAAACGCCGTTAAAGACCATGACTTTTAGCGGCGCTTTTTTAA
1 CAAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTTTCA
* * * * *
71940074 CAAACACCACTAAAAACCATAACCTTTAGCGACACTTTTTT-A
1 CAAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTTTCA
* * * * *
71940116 CAAACGCTGCTACAA-AACA-AACTTTTAGCGGCACTTTTCTCA
1 CAAACGCCGCTA-AAGACCATGACCTTTAGCGGCACTTTTTTCA
71940158 CAAACGCCGCTAAAGA
1 CAAACGCCGCTAAAGA
71940174 ATATAACCTT
Statistics
Matches: 147, Mismatches: 35, Indels: 8
0.77 0.18 0.04
Matches are distributed among these distances:
41 20 0.14
42 56 0.38
43 71 0.48
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (43 bp):
CAAACGCCGCTAAAGACCATGACCTTTAGCGGCACTTTTTTCA
Found at i:71941649 original size:168 final size:168
Alignment explanation
Indices: 71941366--71941707 Score: 639
Period size: 168 Copynumber: 2.0 Consensus size: 168
71941356 ATGGCATGTA
71941366 ACCACATTGCACCAATCTCATTCCCTGATTTCAACTTTTTTATTGAAAGAGAGAGCCAAACTTAG
1 ACCACATTGCACCAATCTCATTCCCTGATTTCAACTTTTTTATTGAAAGAGAGAGCCAAACTTAG
*
71941431 ATCACTTTGACATAACAAAAGAACATACCACCATGCAAAATTAGACAGTTTGTAAATTTTCATTT
66 ATCACTTTGACATAACAAAAGAACATACCACCATGCAAAATTAGACAGTTTGCAAATTTTCATTT
71941496 AAGTTTAAACGATAAAAGAGCATATAGCAGAAGATCAT
131 AAGTTTAAACGATAAAAGAGCATATAGCAGAAGATCAT
* * *
71941534 ACCATATTGCACCAATCTCGTTCCCTGATTTCAGCTTTTTTATTGAAAGAGAGAGCCAAACTTAG
1 ACCACATTGCACCAATCTCATTCCCTGATTTCAACTTTTTTATTGAAAGAGAGAGCCAAACTTAG
71941599 ATCACTTTGACATAACAAAAGAACATACCACCATGCAAAATTAGACAGTTTGCAAATTTTCATTT
66 ATCACTTTGACATAACAAAAGAACATACCACCATGCAAAATTAGACAGTTTGCAAATTTTCATTT
*
71941664 AAGTTTAAATGATAAAAGAGCATATAGCAGAAGATCAT
131 AAGTTTAAACGATAAAAGAGCATATAGCAGAAGATCAT
71941702 ACCACA
1 ACCACA
71941708 ATCAAATGCG
Statistics
Matches: 168, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
168 168 1.00
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.28
Consensus pattern (168 bp):
ACCACATTGCACCAATCTCATTCCCTGATTTCAACTTTTTTATTGAAAGAGAGAGCCAAACTTAG
ATCACTTTGACATAACAAAAGAACATACCACCATGCAAAATTAGACAGTTTGCAAATTTTCATTT
AAGTTTAAACGATAAAAGAGCATATAGCAGAAGATCAT
Found at i:71944259 original size:93 final size:93
Alignment explanation
Indices: 71944100--71944285 Score: 354
Period size: 93 Copynumber: 2.0 Consensus size: 93
71944090 GTCAAAACCC
*
71944100 CCAGAAGGAAAAACCACTCTAAGTCAGCAAATTTACAGTATTTACTAACAAATCAAGATCAAATG
1 CCAGAAGGAAAAACCACTCCAAGTCAGCAAATTTACAGTATTTACTAACAAATCAAGATCAAATG
71944165 AAGAAAACCTAGAAAATAATTCCAATAA
66 AAGAAAACCTAGAAAATAATTCCAATAA
*
71944193 CCAGAAGGAACAACCACTCCAAGTCAGCAAATTTACAGTATTTACTAACAAATCAAGATCAAATG
1 CCAGAAGGAAAAACCACTCCAAGTCAGCAAATTTACAGTATTTACTAACAAATCAAGATCAAATG
71944258 AAGAAAACCTAGAAAATAATTCCAATAA
66 AAGAAAACCTAGAAAATAATTCCAATAA
71944286 AAAAGCCATA
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 91 1.00
ACGTcount: A:0.50, C:0.19, G:0.11, T:0.20
Consensus pattern (93 bp):
CCAGAAGGAAAAACCACTCCAAGTCAGCAAATTTACAGTATTTACTAACAAATCAAGATCAAATG
AAGAAAACCTAGAAAATAATTCCAATAA
Found at i:71944859 original size:41 final size:43
Alignment explanation
Indices: 71944786--71944885 Score: 141
Period size: 42 Copynumber: 2.4 Consensus size: 43
71944776 TTTTAATGGC
* * *
71944786 TTTTTGCGGCGTTTTCAACAAAAAGCGTCACTATAGTTTAA-T
1 TTTTTGCGGCGTTTTTAACAAAAAGCGCCACTATAATTTAATT
*
71944828 TTTTTGCGGCGTTTTTAATAAAAA-CGCCACTATAATTTAATT
1 TTTTTGCGGCGTTTTTAACAAAAAGCGCCACTATAATTTAATT
*
71944870 TTTTTGTGGCGTTTTT
1 TTTTTGCGGCGTTTTT
71944886 CTATTTAATT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
41 14 0.27
42 38 0.73
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.45
Consensus pattern (43 bp):
TTTTTGCGGCGTTTTTAACAAAAAGCGCCACTATAATTTAATT
Found at i:71945034 original size:7 final size:7
Alignment explanation
Indices: 71945022--71945049 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
71945012 ATATGGACTA
71945022 AAATATT
1 AAATATT
71945029 AAATATT
1 AAATATT
71945036 AAATATT
1 AAATATT
71945043 AAATATT
1 AAATATT
71945050 TTAGTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAATATT
Found at i:71945065 original size:6 final size:7
Alignment explanation
Indices: 71945055--71945082 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
71945045 ATATTTTAGT
71945055 TTTTTAA
1 TTTTTAA
71945062 TTTTTAA
1 TTTTTAA
71945069 TTTTTAA
1 TTTTTAA
71945076 TTTTTAA
1 TTTTTAA
71945083 AATTTTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTTAA
Found at i:71945065 original size:8 final size:8
Alignment explanation
Indices: 71945048--71945111 Score: 51
Period size: 9 Copynumber: 7.8 Consensus size: 8
71945038 ATATTAAATA
*
71945048 TTTTAGTT
1 TTTTAATT
71945056 TTTTAA-T
1 TTTTAATT
71945063 TTTTAA-T
1 TTTTAATT
71945070 TTTTAATT
1 TTTTAATT
*
71945078 TTTAAAATT
1 TTT-TAATT
71945087 TTTTGAATAT
1 TTTT-AAT-T
*
71945097 TTTTATAAT
1 TTTTA-ATT
71945106 TTTTAA
1 TTTTAA
71945112 ATTATCATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
7 14 0.30
8 10 0.21
9 17 0.36
10 6 0.13
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (8 bp):
TTTTAATT
Found at i:71945114 original size:8 final size:8
Alignment explanation
Indices: 71945041--71945114 Score: 55
Period size: 7 Copynumber: 8.9 Consensus size: 8
71945031 ATATTAAATA
71945041 TTAAATATT
1 TTAAAT-TT
*
71945050 TT-AGTTT
1 TTAAATTT
*
71945057 TTTAATTT
1 TTAAATTT
71945065 TT-AATTT
1 TTAAATTT
71945072 TT-AATTT
1 TTAAATTT
71945079 TTAAAATTTT
1 TT-AAA-TTT
71945089 TTGAATATTT
1 TT-AA-ATTT
71945099 TTATAATTT
1 TTA-AATTT
71945108 TTAAATT
1 TTAAATT
71945115 ATCATATAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
7 18 0.32
8 12 0.21
9 12 0.21
10 13 0.23
11 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (8 bp):
TTAAATTT
Found at i:71945729 original size:14 final size:14
Alignment explanation
Indices: 71945703--71945741 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
71945693 TCATACACTT
*
71945703 TAAACCTTAAATCA
1 TAAACCCTAAATCA
*
71945717 TATACCCTAAATCA
1 TAAACCCTAAATCA
71945731 TAAACCCTAAA
1 TAAACCCTAAA
71945742 CCCAAAACTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAACCCTAAATCA
Found at i:71946045 original size:21 final size:21
Alignment explanation
Indices: 71946021--71946067 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
71946011 AAATAGTAAT
*
71946021 CATAAAC-ATTAAACCCTTAAC
1 CATAAACTA-TAAACCCTAAAC
*
71946042 CATATACTATAAACCCTAAAC
1 CATAAACTATAAACCCTAAAC
*
71946063 TATAA
1 CATAA
71946068 TGATAATTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (21 bp):
CATAAACTATAAACCCTAAAC
Found at i:71946485 original size:76 final size:76
Alignment explanation
Indices: 71946364--71946542 Score: 236
Period size: 76 Copynumber: 2.3 Consensus size: 76
71946354 ATTTTTTGTG
* * * * *
71946364 GCGTTTTTCAAAAAGCGCTGCTATAGTCACTAAAAGCTCATTACAAAACG-CTGGCGTTTTGCAA
1 GCGTTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGCTCAATACAAAACGAC-GGCGTTTTGCAA
*
71946428 AATTCTTTTGCT
65 AATTCTTTTGCA
* *
71946440 GCGTTTTTTGAAAAA-CGCCGCTAAAGCCATTAAAAGCTCAATACAAAACGACGGTGTTTTGCAA
1 GCGTTTTTT-AAAAAGCGCCGCTAAAGCCACTAAAAGCTCAATACAAAACGACGGCGTTTTGCAA
71946504 AATTCTTTTGCA
65 AATTCTTTTGCA
*
71946516 GCGTTTTTTAAAAAGTGCCGCCTAAAG
1 GCGTTTTTTAAAAAGCGCCG-CTAAAG
71946543 GTGTACCTAT
Statistics
Matches: 90, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
75 5 0.06
76 73 0.81
77 12 0.13
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (76 bp):
GCGTTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGCTCAATACAAAACGACGGCGTTTTGCAAA
ATTCTTTTGCA
Found at i:71946596 original size:40 final size:40
Alignment explanation
Indices: 71946505--71946643 Score: 127
Period size: 40 Copynumber: 3.5 Consensus size: 40
71946495 GTTTTGCAAA
* * * *
71946505 ATTCTTTTGCAGCGTTTTTTAAAAAGTGCCGCCTAAAGGTGT
1 ATTCTTTAGCGGCGTTTTTTAAAAAGTGCCG-CTAATGCT-T
* * *
71946547 A-CCTATAGCGGCATTTTTTAAAAAGTGCCGCTAATGCTT
1 ATTCTTTAGCGGCGTTTTTTAAAAAGTGCCGCTAATGCTT
* ** * *
71946586 ATTCTTTAGCGGTGTTTTTCGAAAAGCGCCGCTAATGCTC
1 ATTCTTTAGCGGCGTTTTTTAAAAAGTGCCGCTAATGCTT
* *
71946626 ATTTTTTAACGGCGTTTT
1 ATTCTTTAGCGGCGTTTT
71946644 CATTTAAACG
Statistics
Matches: 78, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 51 0.65
41 24 0.31
42 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (40 bp):
ATTCTTTAGCGGCGTTTTTTAAAAAGTGCCGCTAATGCTT
Found at i:71947977 original size:23 final size:22
Alignment explanation
Indices: 71947941--71947984 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
71947931 AAAGGTTAAA
*
71947941 TTTTTTTTAATTTTTTGATTTC
1 TTTTTTTTAATTTTTTCATTTC
71947963 TTTTTTTTAATTTTTTTCATTT
1 TTTTTTTTAA-TTTTTTCATTT
71947985 TTGATTTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.80
Consensus pattern (22 bp):
TTTTTTTTAATTTTTTCATTTC
Found at i:71947992 original size:22 final size:22
Alignment explanation
Indices: 71947945--71947992 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
71947935 GTTAAATTTT
* **
71947945 TTTTAATTTTTTGATTTCTTTT
1 TTTTAATTTTTTCATTTCTTGA
71947967 TTTTAATTTTTTTCATTT-TTGA
1 TTTTAA-TTTTTTCATTTCTTGA
71947989 TTTT
1 TTTT
71947993 GCTTTTAAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.77
Consensus pattern (22 bp):
TTTTAATTTTTTCATTTCTTGA
Found at i:71948977 original size:17 final size:17
Alignment explanation
Indices: 71948946--71948989 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
71948936 TATTATCTCC
*
71948946 GTTACTATTATTATTATT
1 GTTA-TATTACTATTATT
*
71948964 TTTATATTACTATTATT
1 GTTATATTACTATTATT
71948981 GTTATATTA
1 GTTATATTA
71948990 TCACTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 20 0.87
18 3 0.13
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (17 bp):
GTTATATTACTATTATT
Found at i:71948995 original size:20 final size:21
Alignment explanation
Indices: 71948972--71949011 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
71948962 TTTTTATATT
*
71948972 ACTATTATTGTTA-TATTATC
1 ACTATTATTCTTACTATTATC
*
71948992 ACTATTTTTCTTACTATTAT
1 ACTATTATTCTTACTATTAT
71949012 TATTACTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.28, C:0.12, G:0.03, T:0.57
Consensus pattern (21 bp):
ACTATTATTCTTACTATTATC
Found at i:71948997 original size:17 final size:17
Alignment explanation
Indices: 71948946--71948997 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
71948936 TATTATCTCC
*
71948946 GTTACTATTATTATTATT
1 GTTA-TATTATCATTATT
*
71948964 TTTATATTA-CTATTATT
1 GTTATATTATC-ATTATT
*
71948981 GTTATATTATCACTATT
1 GTTATATTATCATTATT
71948998 TTTCTTACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
17 24 0.86
18 4 0.14
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.60
Consensus pattern (17 bp):
GTTATATTATCATTATT
Found at i:71949031 original size:3 final size:3
Alignment explanation
Indices: 71948909--71949016 Score: 67
Period size: 3 Copynumber: 35.7 Consensus size: 3
71948899 TTTTTATTTA
* * * *
71948909 TAT TAT TAT TAG TAT CAT TAT TAT TAT TAT TAT CTCCGT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -T--AT TAT TAT TAT
* * * * * * *
71948957 TAT TAT TTT TA- TAT TAC TAT TAT TGT TA- TAT TAT CAC TAT TTT TCT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
71949003 TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TA
71949017 CTACAACTAT
Statistics
Matches: 77, Mismatches: 23, Indels: 10
0.70 0.21 0.09
Matches are distributed among these distances:
2 4 0.05
3 70 0.91
4 1 0.01
5 1 0.01
6 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:71949204 original size:21 final size:21
Alignment explanation
Indices: 71949159--71949239 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
71949149 TTTCTCTGTT
** *
71949159 TTATTACTATTATTAATATCA
1 TTATTACTATTATTTTTATTA
*
71949180 TTATTACTATTATTTTTATTT
1 TTATTACTATTATTTTTATTA
71949201 TTATT--T-TTATTTTTATTA
1 TTATTACTATTATTTTTATTA
* * *
71949219 CTACTACTGTTATTTTTATTA
1 TTATTACTATTATTTTTATTA
71949240 ACATATTTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
18 14 0.28
19 1 0.02
20 1 0.02
21 34 0.68
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.64
Consensus pattern (21 bp):
TTATTACTATTATTTTTATTA
Found at i:71949237 original size:6 final size:6
Alignment explanation
Indices: 71949189--71949217 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
71949179 ATTATTACTA
71949189 TTATTT TTATTT TTATTT TTATTT TTATT
1 TTATTT TTATTT TTATTT TTATTT TTATT
71949218 ACTACTACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTATTT
Found at i:71949351 original size:15 final size:15
Alignment explanation
Indices: 71949331--71949361 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
71949321 TATTATTTTC
71949331 TATTTATTACTATTA
1 TATTTATTACTATTA
71949346 TATTTATTACTATTA
1 TATTTATTACTATTA
71949361 T
1 T
71949362 TAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTTATTACTATTA
Found at i:71953835 original size:6 final size:6
Alignment explanation
Indices: 71953824--71953859 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
71953814 GGCGCTATAT
71953824 GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA
1 GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA
71953860 AAAAAGGACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.50, C:0.17, G:0.33, T:0.00
Consensus pattern (6 bp):
GGCAAA
Found at i:71956638 original size:26 final size:26
Alignment explanation
Indices: 71956602--71956685 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
71956592 CATGAAATTC
71956602 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
71956628 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
71956654 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
71956680 TTATCA
1 TTATCA
71956686 AATTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:71957519 original size:16 final size:16
Alignment explanation
Indices: 71957498--71957534 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 16
71957488 CTTTAAGACC
71957498 AAAAAAGAAAAAAAGAA
1 AAAAAAG-AAAAAAGAA
71957515 AAAAAAGAAAAAAGAA
1 AAAAAAGAAAAAAGAA
71957531 AAAA
1 AAAA
71957535 GGATAGGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAAAGAA
Done.