Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold51
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: 3712191
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.32
Warning! 131352 characters in sequence are not A, C, G, or T
File 15 of 23
Found at i:2230616 original size:236 final size:236
Alignment explanation
Indices: 2230144--2230653 Score: 810
Period size: 236 Copynumber: 2.2 Consensus size: 236
2230134 ATGAGAAATT
* * * *
2230144 TAATATTTTGGAGATAATAA-CGGGATTGGAGTATCCCCTTGAAAATAACGAGGTTGGAGTATCC
1 TAATATTTTAGAAATAA-AACCGGGGTTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCC
* *
2230208 CCGGTTGTGAAAAATCAATGATTAGGAAATAAAATTGAGATTGGAGTATCCCCTCGGAAATAACG
65 CCGATTGTGAAAAATCAATGATTAGGAAATAAAATCGAGATTGGAGTATCCCCTCGGAAATAACG
*
2230273 GGGTTGGAGTACCCCGATTATGAGAAATTAATATTTTAGAAAGAAAATCGGGGTTGGAGTATCCC
130 GGGTTGGAGTACCCCGATTATGAGAAATTAATATTTTAGAAAGAAAATCGGGGTTAGAGTATCCC
2230338 CCCGGAAAGAACAGGGTTGGAGTATCCCCGATTATGAAAAAA
195 CCCGGAAAGAACAGGGTTGGAGTATCCCCGATTATGAAAAAA
* *
2230380 TAATATTTTAGAAATTAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCC
1 TAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCC
* * *
2230445 CGATTGTGAAGAATCGATGATTTA-GAAATAAAATCGGGATTGGAGTATCCCCTCGGAAATAACG
66 CGATTGTGAAAAATCAATGA-TTAGGAAATAAAATCGAGATTGGAGTATCCCCTCGGAAATAACG
* * *
2230509 GGGTTGGAGTATCCCTGATTATGAGAAATTAATATTTTAGAAATAAGATCGGGGTTAGAGTATCC
130 GGGTTGGAGTA-CCCCGATTATGAGAAATTAATATTTTAGAAAGAAAATCGGGGTTAGAGTATCC
* * *
2230574 CCTCGGAAATAACGGGGTTGGAGTATCCCCGATTAT-AAAAAA
194 CCCCGGAAAGAACAGGGTTGGAGTATCCCCGATTATGAAAAAA
2230616 TAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 TAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
2230654 GATTGTGGAA
Statistics
Matches: 252, Mismatches: 19, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
235 2 0.01
236 165 0.65
237 85 0.34
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.26
Consensus pattern (236 bp):
TAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCC
CGATTGTGAAAAATCAATGATTAGGAAATAAAATCGAGATTGGAGTATCCCCTCGGAAATAACGG
GGTTGGAGTACCCCGATTATGAGAAATTAATATTTTAGAAAGAAAATCGGGGTTAGAGTATCCCC
CCGGAAAGAACAGGGTTGGAGTATCCCCGATTATGAAAAAA
Found at i:2230651 original size:50 final size:49
Alignment explanation
Indices: 2230586--2230768 Score: 188
Period size: 51 Copynumber: 3.6 Consensus size: 49
2230576 TCGGAAATAA
* *
2230586 CGGGGTTGGAGTATCCCCGATTATAAAAAATAATATTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAAT-ATGTTTTAGAAATAAAAC
* * * *
2230636 CGGGGTTGGAGTATCCCCGATTGTGGAAAAT-TGGTGTTTCGAAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATAT-GT-TTTAG-AAATAAAAC
**** * *
2230687 TAAAGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTAT-GAAAAATA-TGTTTTAGAAATAAAAC
*
2230738 CGGGGTTGGAGTACCCCCGATTATGAAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAAT
2230769 TGAGGAACTT
Statistics
Matches: 106, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
48 1 0.01
49 1 0.01
50 38 0.36
51 54 0.51
52 9 0.08
53 2 0.02
54 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (49 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATATGTTTTAGAAATAAAAC
Found at i:2233572 original size:20 final size:20
Alignment explanation
Indices: 2233549--2233623 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 20
2233539 AAGTACCCAG
*
2233549 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATTTTTCA
* * *
2233569 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
2233589 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
2233609 ATGTATCGATACATT
1 ATGTATCGATACATT
2233624 CTGTCTTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:2240193 original size:93 final size:93
Alignment explanation
Indices: 2240030--2240206 Score: 257
Period size: 93 Copynumber: 1.9 Consensus size: 93
2240020 TTATGATGAT
* * *
2240030 TGTCGCAACGTGCATTCGACCTCGGTGATAGGACAAATGAGGCGCACCTGACTTAATATCCCTCA
1 TGTCGCAACGTGCACTCGACCTCAGCGATAGGACAAATGAGGCGCACCTGACTTAATATCCCTCA
*
2240095 TGATTGGAGATTTCTATGGTATGGTAAG
66 CGATTGGAGATTTCTATGGTATGGTAAG
* * *
2240123 TGTCGCAACGTGCGCTCGACCTCAGCGATAGGGCAAATGAGGCGC-GCTCGACTTAATATCCCTC
1 TGTCGCAACGTGCACTCGACCTCAGCGATAGGACAAATGAGGCGCACCT-GACTTAATATCCCTC
* *
2240187 GCGATTGGGGATTTCTATGG
65 ACGATTGGAGATTTCTATGG
2240207 CATGATGGGA
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (93 bp):
TGTCGCAACGTGCACTCGACCTCAGCGATAGGACAAATGAGGCGCACCTGACTTAATATCCCTCA
CGATTGGAGATTTCTATGGTATGGTAAG
Found at i:2244306 original size:49 final size:49
Alignment explanation
Indices: 2244140--2244986 Score: 763
Period size: 49 Copynumber: 17.8 Consensus size: 49
2244130 CGAAGAATGA
* * * * ** *
2244140 CAATGTGCTGATTCATGGCCAGCGACATTAGACTTGCAGAAGAA--TGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
** ** * *
2244187 CAATGTGCTGAGACAAGGCCAGTGACATTGGGCTT-AAGAATGTTAAAGATGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAG-ATG---AAGGTGC
* * * * *
2244239 CAATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* * *
2244288 CAATGTGTTGATTTAAGGCCAACAACATTGGTCTTAAAGATGGTTAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGAT-G--AAGGTGC
*
2244340 CAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* *
2244389 CAATGTGCTAATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGCGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* * * *
2244438 CAATGTGCTGATTTAAGGCCAGCGACATTGGTCATAAAGATGAAGGCGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* * * * *
2244487 GAATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* *
2244536 CAATGTGCTGATTCAAGGCCAGCAACATTGGTC-T-----T----GTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* * ** *
2244575 CAATGTACTAATTCAAGGCCAGTGACATCGGTCTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* *
2244624 CAATGTGCTAATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGCGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* *
2244673 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCATAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* * *
2244722 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* *
2244771 CAATGTGCTGATTCAAGGCCAGCAACATTGGTCTT---G-T--A----C
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* ** *
2244810 CAATGTACTGATTCAAGGCCAGTGACATTGGTCTTAAAGA-CAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* * * * *
2244858 CAATATGCTGATTTAAGGCCAGCGATATTGGGC-T-----T--A--TGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* * ** * *
2244897 CAATGTACTAATTCAAGGCCAGTGACATTGGTCTTAAAGCTAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
* * * * *
2244946 CAATATGCTGATTTAAGGCCAGCGATATTGGACTTAGAAGA
1 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTA-AAGA
2244987 AGACACCACC
Statistics
Matches: 659, Mismatches: 99, Indels: 81
0.79 0.12 0.10
Matches are distributed among these distances:
39 94 0.14
40 2 0.00
41 1 0.00
42 1 0.00
43 2 0.00
44 1 0.00
45 3 0.00
46 3 0.00
47 33 0.05
48 29 0.04
49 403 0.61
50 5 0.01
51 1 0.00
52 78 0.12
53 3 0.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGC
Found at i:2244608 original size:39 final size:39
Alignment explanation
Indices: 2244532--2244609 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
2244522 AAAGATGAAG
* * *
2244532 GTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTT
1 GTGCCAATGTACTAATTCAAGGCCAGCAACATCGGTCTT
**
2244571 GTGCCAATGTACTAATTCAAGGCCAGTGACATCGGTCTT
1 GTGCCAATGTACTAATTCAAGGCCAGCAACATCGGTCTT
2244610 AAAGATGAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.28
Consensus pattern (39 bp):
GTGCCAATGTACTAATTCAAGGCCAGCAACATCGGTCTT
Found at i:2244713 original size:186 final size:186
Alignment explanation
Indices: 2244385--2244742 Score: 563
Period size: 186 Copynumber: 1.9 Consensus size: 186
2244375 AAAGATGAAG
* * *
2244385 GTGCCAATGTGCTAATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGCGCCAATGTGCTGAT
1 GTGCCAATGTACTAATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGCGCCAATGTGCTAAT
* * * * *
2244450 TTAAGGCCAGCGACATTGGTCATAAAGATGAAGGCGCGAATATGCTGATTCAAGGCCAATGATAT
66 TCAAGGCCAACGACATTGGTCATAAAGATGAAGGCGCCAATATGCTGATTCAAGGCCAACGACAT
* *
2244515 TGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTT
131 TGGACATAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGGTCTT
** *
2244571 GTGCCAATGTACTAATTCAAGGCCAGTGACATCGGTCTTAAAGATGAAGGTGCCAATGTGCTAAT
1 GTGCCAATGTACTAATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGCGCCAATGTGCTAAT
* * *
2244636 TCAAGGCCAACGACATTGGTCTTAAAGATGAAGGCGCCAATGTGCTGATTCAAGGCCAGCGACAT
66 TCAAGGCCAACGACATTGGTCATAAAGATGAAGGCGCCAATATGCTGATTCAAGGCCAACGACAT
*
2244701 TGGTCATAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
131 TGGACATAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
2244743 ACGATATTGG
Statistics
Matches: 155, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
186 155 1.00
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (186 bp):
GTGCCAATGTACTAATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGCGCCAATGTGCTAAT
TCAAGGCCAACGACATTGGTCATAAAGATGAAGGCGCCAATATGCTGATTCAAGGCCAACGACAT
TGGACATAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGGTCTT
Found at i:2244751 original size:235 final size:235
Alignment explanation
Indices: 2244336--2244986 Score: 991
Period size: 235 Copynumber: 2.8 Consensus size: 235
2244326 GATGGTTAAG
* **
2244336 GTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATGTGCTAAT
1 GTGCCAATGTACTGATTCAAGGCCAGTGACATCGGTCTTAAAGATGAAGGTGCCAATGTGCTAAT
*
2244401 TCAAGGCCAACGACATTGGTCTTAAAGATGAAGGCGCCAATGTGCTGATTTAAGGCCAGCGACAT
66 TCAAGGCCAACGACATTGGTCTTAAAGATGAAGGCGCCAATGTGCTGATTCAAGGCCAGCGACAT
* * *
2244466 TGGTCATAAAGATGAAGGCGCGAATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGATGAA
131 TGGTCATAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAA
2244531 GGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTT
196 GGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTT
*
2244571 GTGCCAATGTACTAATTCAAGGCCAGTGACATCGGTCTTAAAGATGAAGGTGCCAATGTGCTAAT
1 GTGCCAATGTACTGATTCAAGGCCAGTGACATCGGTCTTAAAGATGAAGGTGCCAATGTGCTAAT
2244636 TCAAGGCCAACGACATTGGTCTTAAAGATGAAGGCGCCAATGTGCTGATTCAAGGCCAGCGACAT
66 TCAAGGCCAACGACATTGGTCTTAAAGATGAAGGCGCCAATGTGCTGATTCAAGGCCAGCGACAT
2244701 TGGTCATAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAA
131 TGGTCATAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAA
2244766 GGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTT
196 GGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTT
* * * * *
2244806 GTACCAATGTACTGATTCAAGGCCAGTGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGAT
1 GTGCCAATGTACTGATTCAAGGCCAGTGACATCGGTCTTAAAGATGAAGGTGCCAATGTGCTAAT
* * * * * * *
2244870 TTAAGGCCAGCGATATTGGGCTT----AT------GCCAATGTACTAATTCAAGGCCAGTGACAT
66 TCAAGGCCAACGACATTGGTCTTAAAGATGAAGGCGCCAATGTGCTGATTCAAGGCCAGCGACAT
* * * * *
2244925 TGGTCTTAAAGCTAAAGGTGCCAATATGCTGATTTAAGGCCAGCGATATTGGACTTAGAAGA
131 TGGTCATAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTA-AAGA
2244987 AGACACCACC
Statistics
Matches: 389, Mismatches: 26, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
224 79 0.20
225 4 0.01
230 2 0.01
234 36 0.09
235 268 0.69
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (235 bp):
GTGCCAATGTACTGATTCAAGGCCAGTGACATCGGTCTTAAAGATGAAGGTGCCAATGTGCTAAT
TCAAGGCCAACGACATTGGTCTTAAAGATGAAGGCGCCAATGTGCTGATTCAAGGCCAGCGACAT
TGGTCATAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAA
GGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTT
Found at i:2244824 original size:39 final size:39
Alignment explanation
Indices: 2244770--2244844 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
2244760 GATGAAGGTG
*
2244770 CCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTGTA
1 CCAATGTACTGATTCAAGGCCAGCAACATTGGTCTTGTA
**
2244809 CCAATGTACTGATTCAAGGCCAGTGACATTGGTCTT
1 CCAATGTACTGATTCAAGGCCAGCAACATTGGTCTT
2244845 AAAGACAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (39 bp):
CCAATGTACTGATTCAAGGCCAGCAACATTGGTCTTGTA
Found at i:2244888 original size:87 final size:87
Alignment explanation
Indices: 2244729--2244981 Score: 346
Period size: 87 Copynumber: 2.9 Consensus size: 87
2244719 TGCCAATATG
** * * * * *
2244729 CTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGC
1 CTGATTCAAGGCCAGTGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTTAAGGCCAGC
* * * *
2244794 AACATTGGTCTTGTACCAATGTA
65 GATATTGGGCTTATACCAATGTA
2244817 CTGATTCAAGGCCAGTGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTTAAGGCCAGCG
1 CTGATTCAAGGCCAGTGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTTAAGGCCAGCG
*
2244882 ATATTGGGCTTATGCCAATGTA
66 ATATTGGGCTTATACCAATGTA
*
2244904 CTAATTCAAGGCCAGTGACATTGGTCTTAAAG-CTAAAGGTGCCAATATGCTGATTTAAGGCCAG
1 CTGATTCAAGGCCAGTGACATTGGTCTTAAAGAC--AAGGTGCCAATATGCTGATTTAAGGCCAG
*
2244968 CGATATTGGACTTA
64 CGATATTGGGCTTA
2244982 GAAGAAGACA
Statistics
Matches: 149, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
86 1 0.01
87 77 0.52
88 71 0.48
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (87 bp):
CTGATTCAAGGCCAGTGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTTAAGGCCAGCG
ATATTGGGCTTATACCAATGTA
Found at i:2245060 original size:28 final size:29
Alignment explanation
Indices: 2244992--2245098 Score: 112
Period size: 30 Copynumber: 3.6 Consensus size: 29
2244982 GAAGAAGACA
*
2244992 CCACCAACTTGTGTTGGCTTTTGAAAGGGTTG
1 CCACTAACTTGTG--GGCTTTTGAAA-GGTTG
*
2245024 -CA-TCAACTTGTGTGCTTTTG-AAGGTTG
1 CCACT-AACTTGTGGGCTTTTGAAAGGTTG
*
2245051 CCACTAACTTGTGGGCTTTTGAAAGAGGTG
1 CCACTAACTTGTGGGCTTTTGAAAG-GTTG
*
2245081 CCACTGACTTGTGGGCTT
1 CCACTAACTTGTGGGCTT
2245099 ACAGGAAAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
27 5 0.08
28 19 0.29
29 11 0.17
30 20 0.31
31 10 0.15
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.35
Consensus pattern (29 bp):
CCACTAACTTGTGGGCTTTTGAAAGGTTG
Found at i:2245085 original size:30 final size:29
Alignment explanation
Indices: 2244992--2245098 Score: 112
Period size: 28 Copynumber: 3.6 Consensus size: 29
2244982 GAAGAAGACA
*
2244992 CCACCAACTTGTGTTGGCTTTTGAAAGGGTTG
1 CCACTAACTTGTG--GGCTTTTGAAAGGG-TG
* *
2245024 -CA-TCAACTTGTGTGCTTTTG-AAGGTTG
1 CCACT-AACTTGTGGGCTTTTGAAAGGGTG
2245051 CCACTAACTTGTGGGCTTTTGAAAGAGGTG
1 CCACTAACTTGTGGGCTTTTGAAAG-GGTG
*
2245081 CCACTGACTTGTGGGCTT
1 CCACTAACTTGTGGGCTT
2245099 ACAGGAAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
27 2 0.03
28 21 0.33
29 11 0.17
30 20 0.31
31 10 0.16
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.35
Consensus pattern (29 bp):
CCACTAACTTGTGGGCTTTTGAAAGGGTG
Found at i:2245151 original size:34 final size:33
Alignment explanation
Indices: 2245071--2245220 Score: 133
Period size: 34 Copynumber: 4.5 Consensus size: 33
2245061 GTGGGCTTTT
* * * * *
2245071 GAAAGAGGTGCCACTGACTTGTGGGCTT-ACAG
1 GAAAAAGGTGCCACGGAGTTGTGGACTTAAAAG
* *
2245103 GAAAAAGGGATGCCACGGAGGTGTGGGCTTAAAAGG
1 GAAAAA-GG-TGCCACGGAGTTGTGGACTTAAAA-G
* *** *
2245139 GAAAAAGGTGCCACAGAGCCATGGACTTAAAAA
1 GAAAAAGGTGCCACGGAGTTGTGGACTTAAAAG
*
2245172 GAAAAA-GTGCCACGGAGTTGTGCACTTAAAAG
1 GAAAAAGGTGCCACGGAGTTGTGGACTTAAAAG
*
2245204 GAAAAAGATGCCACGGA
1 GAAAAAGGTGCCACGGA
2245221 CTTATGGGCT
Statistics
Matches: 95, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
32 31 0.33
33 17 0.18
34 36 0.38
35 4 0.04
36 7 0.07
ACGTcount: A:0.37, C:0.16, G:0.32, T:0.15
Consensus pattern (33 bp):
GAAAAAGGTGCCACGGAGTTGTGGACTTAAAAG
Found at i:2245199 original size:32 final size:32
Alignment explanation
Indices: 2245113--2245220 Score: 117
Period size: 32 Copynumber: 3.3 Consensus size: 32
2245103 GAAAAAGGGA
* *
2245113 TGCCACGGAGGTGTGGGCTTAAAAGGGAAAAAGG
1 TGCCACGGAGCTGTGGACTTAAAA-GGAAAAA-G
* ** *
2245147 TGCCACAGAGCCATGGACTTAAAAAGAAAAAG
1 TGCCACGGAGCTGTGGACTTAAAAGGAAAAAG
* *
2245179 TGCCACGGAGTTGTGCACTTAAAAGGAAAAAG
1 TGCCACGGAGCTGTGGACTTAAAAGGAAAAAG
2245211 ATGCCACGGA
1 -TGCCACGGA
2245221 CTTATGGGCT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
32 27 0.44
33 15 0.25
34 19 0.31
ACGTcount: A:0.38, C:0.17, G:0.31, T:0.15
Consensus pattern (32 bp):
TGCCACGGAGCTGTGGACTTAAAAGGAAAAAG
Found at i:2245244 original size:28 final size:28
Alignment explanation
Indices: 2245212--2245379 Score: 230
Period size: 28 Copynumber: 6.0 Consensus size: 28
2245202 AGGAAAAAGA
* *
2245212 TGCCACGGACTTATGGGCTTTTGAAGGT
1 TGCCACTGACTTGTGGGCTTTTGAAGGT
2245240 TGCCACTGACTTGTGGGCTTTTGAAGGT
1 TGCCACTGACTTGTGGGCTTTTGAAGGT
*
2245268 TGCCACTGACTTGTGGGCTTTTAAAGGT
1 TGCCACTGACTTGTGGGCTTTTGAAGGT
* * *
2245296 TGCCACTAACTTGTGGGC-TTTGAAAAAGA
1 TGCCACTGACTTGTGGGCTTTTG--AAGGT
* *
2245325 TGCCATTGACCTGTGGGCTTTTGAAGGT
1 TGCCACTGACTTGTGGGCTTTTGAAGGT
*
2245353 TGCCACTAACTTGTGGGCTTTTGAAGG
1 TGCCACTGACTTGTGGGCTTTTGAAGG
2245380 GTGAGGAATG
Statistics
Matches: 122, Mismatches: 15, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
27 3 0.02
28 97 0.80
29 18 0.15
30 4 0.03
ACGTcount: A:0.19, C:0.18, G:0.30, T:0.33
Consensus pattern (28 bp):
TGCCACTGACTTGTGGGCTTTTGAAGGT
Found at i:2246830 original size:11 final size:11
Alignment explanation
Indices: 2246804--2246933 Score: 104
Period size: 11 Copynumber: 11.5 Consensus size: 11
2246794 ATCCAGACCC
2246804 TTTTTGTTGTTGT
1 TTTTTGTT-TT-T
*
2246817 TTTTT-TTTTA
1 TTTTTGTTTTT
*
2246827 TTTTTG-TTTG
1 TTTTTGTTTTT
*
2246837 TTTTTGTTTGT
1 TTTTTGTTTTT
2246848 TTTTTGTTTTT
1 TTTTTGTTTTT
*
2246859 TGTTTG-TTTT
1 TTTTTGTTTTT
*
2246869 TGTTTGTTTTGT
1 TTTTTGTTTT-T
2246881 TTTTTGTCTCTCTTT
1 TTTTTG--T-T-TTT
*
2246896 TTTTTGTTTTG
1 TTTTTGTTTTT
*
2246907 TTTTTGTTTTG
1 TTTTTGTTTTT
*
2246918 TTTTGGTTTTT
1 TTTTTGTTTTT
2246929 TTTTT
1 TTTTT
2246934 TGTGGAGGAT
Statistics
Matches: 98, Mismatches: 11, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
10 24 0.24
11 48 0.49
12 9 0.09
13 6 0.06
14 1 0.01
15 8 0.08
16 2 0.02
ACGTcount: A:0.01, C:0.02, G:0.15, T:0.82
Consensus pattern (11 bp):
TTTTTGTTTTT
Found at i:2246836 original size:27 final size:25
Alignment explanation
Indices: 2246806--2246934 Score: 116
Period size: 26 Copynumber: 4.8 Consensus size: 25
2246796 CCAGACCCTT
2246806 TTTGTTGTTGTTTTTTTTTTATTTTTG
1 TTTGTT-TTGTTTTTTTTTT-TTTTTG
2246833 TTTGTTTTTGTTTGTTTTTTGTTTTTTG
1 TTTG-TTTTGTTT-TTTTTT-TTTTTTG
* *
2246861 TTTGTTTTTGTTTGTTTTGTTTTTTG
1 TTTG-TTTTGTTTTTTTTTTTTTTTG
* * *
2246887 TCTCTCTTTT-TTTTGTTTTGTTTTTG
1 T-T-TGTTTTGTTTTTTTTTTTTTTTG
*
2246913 TTTTGTTTTGGTTTTTTTTTTT
1 -TTTGTTTTGTTTTTTTTTTTT
2246935 GTGGAGGATG
Statistics
Matches: 84, Mismatches: 11, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
25 5 0.06
26 30 0.36
27 20 0.24
28 28 0.33
29 1 0.01
ACGTcount: A:0.01, C:0.02, G:0.16, T:0.81
Consensus pattern (25 bp):
TTTGTTTTGTTTTTTTTTTTTTTTG
Found at i:2246840 original size:10 final size:10
Alignment explanation
Indices: 2246806--2246936 Score: 100
Period size: 10 Copynumber: 13.5 Consensus size: 10
2246796 CCAGACCCTT
*
2246806 TTTGTTGTTG
1 TTTGTTTTTG
2246816 -TT-TTTTT-
1 TTTGTTTTTG
*
2246823 TTTATTTTTG
1 TTTGTTTTTG
2246833 TTTGTTTTTG
1 TTTGTTTTTG
2246843 TTTGTTTTT-
1 TTTGTTTTTG
*
2246852 TGT-TTTTTG
1 TTTGTTTTTG
2246861 TTTGTTTTTG
1 TTTGTTTTTG
2246871 TTTG-TTTTG
1 TTTGTTTTTG
*
2246880 TTT-TTTGTCTC
1 TTTGTTT-T-TG
*
2246891 TCTTTTTTTTG
1 T-TTGTTTTTG
2246902 TTTTGTTTTTG
1 -TTTGTTTTTG
*
2246913 TTTTGTTTTGG
1 -TTTGTTTTTG
2246924 TTT-TTTTT-
1 TTTGTTTTTG
2246932 TTTGT
1 TTTGT
2246937 GGAGGATGCC
Statistics
Matches: 100, Mismatches: 9, Indels: 25
0.75 0.07 0.19
Matches are distributed among these distances:
8 14 0.14
9 26 0.26
10 32 0.32
11 21 0.21
12 4 0.04
13 3 0.03
ACGTcount: A:0.01, C:0.02, G:0.16, T:0.81
Consensus pattern (10 bp):
TTTGTTTTTG
Found at i:2246856 original size:38 final size:38
Alignment explanation
Indices: 2246813--2246933 Score: 127
Period size: 38 Copynumber: 3.1 Consensus size: 38
2246803 CTTTTTGTTG
*
2246813 TTGTTTTTTTTTTATTTTTGTTTGTTTTTGTTTGTTTT
1 TTGTTTTTTTTTTGTTTTTGTTTGTTTTTGTTTGTTTT
* *
2246851 TTGTTTTTTGTTTGTTTTTGTTTGTTTTGTTTTTTGTCTCTCT
1 TTGTTTTTTTTTTGTTTTTGTTTG-TTT-TTGTTTGT-T-T-T
* * *
2246894 TT-TTTTTGTTTTGTTTTTGTTTTGTTTTGGTTTTTTTT
1 TTGTTTTTTTTTTGTTTTTG-TTTGTTTTTGTTTGTTTT
2246932 TT
1 TT
2246934 TGTGGAGGAT
Statistics
Matches: 69, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
38 25 0.36
39 4 0.06
40 8 0.12
41 6 0.09
42 19 0.28
43 7 0.10
ACGTcount: A:0.01, C:0.02, G:0.15, T:0.82
Consensus pattern (38 bp):
TTGTTTTTTTTTTGTTTTTGTTTGTTTTTGTTTGTTTT
Found at i:2254777 original size:20 final size:20
Alignment explanation
Indices: 2254752--2254828 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
2254742 GTAAAAAGAT
*
2254752 AGAATGTATCGATACATAGA
1 AGAATGTATCGATACATTGA
*
2254772 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
*
2254792 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
* *
2254812 AAAAAGTATCGATACAT
1 AGAATGTATCGATACAT
2254829 CTAGGTAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.29
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:2256604 original size:29 final size:29
Alignment explanation
Indices: 2256041--2256593 Score: 562
Period size: 28 Copynumber: 19.2 Consensus size: 29
2256031 GAACTTAAAA
*
2256041 AAAAGG-TGCCACTAACTTGTGTAGGCTTTG
1 AAAAGGATGCCACTGACTTGTG--GGCTTTG
* *
2256071 AAAAGAGTTGCCACTAACTTGTGTGGGCTTTG
1 AAAAG-GATGCCACTGAC-T-TGTGGGCTTTG
* *
2256103 AAAGGGTATGCCACTGACTCGTGGGCTTT-
1 AAAAGG-ATGCCACTGACTTGTGGGCTTTG
* *
2256132 AAAAGGGTGCCACTAACTTGTGGGCTTTGG
1 AAAAGGATGCCACTGACTTGTGGGCTTT-G
* * *
2256162 AAAAAGTTGCCACCGACTTGTGTGGACTTTG
1 AAAAGGATGCCACTGACTTGTG-GG-CTTTG
* * *
2256193 AAAA-TAGTGCCACTGACTTTTAGGCTTTG
1 AAAAGGA-TGCCACTGACTTGTGGGCTTTG
* * * *
2256222 --AAGGGTGCCATTAACTTGTGGCCTTTG
1 AAAAGGATGCCACTGACTTGTGGGCTTTG
* *
2256249 -AAAGGATGCCACTGACTTGTAGACTTTG
1 AAAAGGATGCCACTGACTTGTGGGCTTTG
*
2256277 -AAAGGATGCCACTGACTTATGGGCTTTG
1 AAAAGGATGCCACTGACTTGTGGGCTTTG
* *
2256305 -AATGGATACCACTGACTTGTGGGCTTT-
1 AAAAGGATGCCACTGACTTGTGGGCTTTG
* *
2256332 AAAAAGATGCCACTGACTCGTGGGCTTTG
1 AAAAGGATGCCACTGACTTGTGGGCTTTG
*
2256361 AAAATG-TGCCACT-AGCTTGTGGGCTTTG
1 AAAAGGATGCCACTGA-CTTGTGGGCTTTG
2256389 -AAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAAGGATGCCACTGACTTGTGGGCTTTG
*
2256417 AGAAGG-TGCCACTGACTTGTGGGCTTTG
1 AAAAGGATGCCACTGACTTGTGGGCTTTG
* ** *
2256445 -AAAGGGTGCCACTGACTTGTACGCTTTA
1 AAAAGGATGCCACTGACTTGTGGGCTTTG
* *
2256473 AAAAGTGTTGCCACCGACTTGTGGGCTTTG
1 AAAAG-GATGCCACTGACTTGTGGGCTTTG
2256503 -AAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAAGGATGCCACTGACTTGTGGGCTTTG
* *
2256531 AGAATGAT-CCACTGACTTGTGGGCTTTG
1 AAAAGGATGCCACTGACTTGTGGGCTTTG
* *
2256559 AGAAGGATGCTACTGACTTGTGGGCTTTG
1 AAAAGGATGCCACTGACTTGTGGGCTTTG
2256588 AAAAGG
1 AAAAGG
2256594 GTCATATTGA
Statistics
Matches: 441, Mismatches: 59, Indels: 47
0.81 0.11 0.09
Matches are distributed among these distances:
27 28 0.06
28 242 0.55
29 57 0.13
30 53 0.12
31 22 0.05
32 34 0.08
33 1 0.00
34 4 0.01
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (29 bp):
AAAAGGATGCCACTGACTTGTGGGCTTTG
Found at i:2256619 original size:14 final size:14
Alignment explanation
Indices: 2256600--2256673 Score: 66
Period size: 13 Copynumber: 5.6 Consensus size: 14
2256590 AAGGGTCATA
2256600 TTGACAAAAATTTC
1 TTGACAAAAATTTC
*
2256614 TTGAC-AAAGTTTC
1 TTGACAAAAATTTC
*
2256627 -TGACAAACA-TTC
1 TTGACAAAAATTTC
* *
2256639 TCGAC-AAAAGTTC
1 TTGACAAAAATTTC
* *
2256652 TTGACGATAATTTC
1 TTGACAAAAATTTC
2256666 TTGACAAA
1 TTGACAAA
2256674 TGGTGAATTG
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
12 10 0.22
13 19 0.41
14 17 0.37
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (14 bp):
TTGACAAAAATTTC
Found at i:2256633 original size:26 final size:26
Alignment explanation
Indices: 2256600--2256673 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 26
2256590 AAGGGTCATA
2256600 TTGACAAAAATTTCTTGACAAAGTT-
1 TTGACAAAAATTTCTTGACAAAGTTC
* *
2256625 TCTGACAAACA-TTCTCGACAAAAGTTC
1 T-TGACAAAAATTTCTTGAC-AAAGTTC
* *
2256652 TTGACGATAATTTCTTGACAAA
1 TTGACAAAAATTTCTTGACAAA
2256674 TGGTGAATTG
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
25 8 0.21
26 23 0.59
27 8 0.21
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (26 bp):
TTGACAAAAATTTCTTGACAAAGTTC
Found at i:2257883 original size:9 final size:9
Alignment explanation
Indices: 2257857--2257906 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
2257847 GACCCTTTTA
2257857 TTTTTGTTT
1 TTTTTGTTT
* *
2257866 GTTTGGTTT
1 TTTTTGTTT
2257875 TTTTTGTTT
1 TTTTTGTTT
*
2257884 TTTTTG-TA
1 TTTTTGTTT
2257892 TTTTTGTATT
1 TTTTTGT-TT
2257902 TTTTT
1 TTTTT
2257907 TTTGGTACGA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
8 7 0.21
9 20 0.61
10 6 0.18
ACGTcount: A:0.04, C:0.00, G:0.14, T:0.82
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:2271929 original size:20 final size:20
Alignment explanation
Indices: 2271904--2271976 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
2271894 GTAAAAATAT
*
2271904 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTAA
*
2271924 AGAATGTATCGATACATTCAT
1 AGAATGTATCGATACATT-AA
*
2271945 A-CATGTATCGATACATTAA
1 AGAATGTATCGATACATTAA
*
2271964 ACAATGTATCGAT
1 AGAATGTATCGAT
2271977 GCATCTGGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 2 0.04
20 43 0.93
21 1 0.02
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.32
Consensus pattern (20 bp):
AGAATGTATCGATACATTAA
Found at i:2279915 original size:11 final size:11
Alignment explanation
Indices: 2279899--2279931 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
2279889 TCACGCTCCT
2279899 ATGTATCGATA
1 ATGTATCGATA
*
2279910 ATGTATTGATA
1 ATGTATCGATA
2279921 ATGTATCGATA
1 ATGTATCGATA
2279932 CATGCATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.36, C:0.06, G:0.18, T:0.39
Consensus pattern (11 bp):
ATGTATCGATA
Found at i:2280208 original size:20 final size:22
Alignment explanation
Indices: 2280183--2280227 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
2280173 GATACTTTGG
2280183 ATTATTTTT-TACTTG-AAAAC
1 ATTATTTTTATACTTGAAAAAC
*
2280203 ATTATTTTTATGCTTGAAAAAC
1 ATTATTTTTATACTTGAAAAAC
2280225 ATT
1 ATT
2280228 TATACTTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
21 5 0.23
22 8 0.36
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.49
Consensus pattern (22 bp):
ATTATTTTTATACTTGAAAAAC
Found at i:2280787 original size:21 final size:21
Alignment explanation
Indices: 2280754--2280797 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2280744 CTGTTGACTC
* *
2280754 ATTGTATCTAAGCCTTGATCT
1 ATTGTATCGAAGCATTGATCT
*
2280775 ATTGTGTCGAAGCATTGATCT
1 ATTGTATCGAAGCATTGATCT
2280796 AT
1 AT
2280798 GCGCTGAGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (21 bp):
ATTGTATCGAAGCATTGATCT
Found at i:2282306 original size:13 final size:13
Alignment explanation
Indices: 2282288--2282325 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
2282278 AATAGTACCT
2282288 ATGTATCGATACA
1 ATGTATCGATACA
*
2282301 ATGTATCGATATA
1 ATGTATCGATACA
2282314 ATGTATCGATAC
1 ATGTATCGATAC
2282326 TAAGAATGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2286798 original size:3 final size:3
Alignment explanation
Indices: 2286790--2286838 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
2286780 CGAGTCAACT
*
2286790 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCT TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
2286838 T
1 T
2286839 TGATGGTTGA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.37
Consensus pattern (3 bp):
TCA
Found at i:2288480 original size:20 final size:20
Alignment explanation
Indices: 2288453--2288507 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
2288443 CTGCCAGTTT
2288453 CATGTATCGATACAATTCAA
1 CATGTATCGATACAATTCAA
** * *
2288473 TGTGTATCGATACTA-TGAA
1 CATGTATCGATACAATTCAA
2288492 CATGTATCGATACAAT
1 CATGTATCGATACAAT
2288508 GTATCGATAC
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTCAA
Found at i:2288511 original size:13 final size:13
Alignment explanation
Indices: 2288493--2288517 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2288483 TACTATGAAC
2288493 ATGTATCGATACA
1 ATGTATCGATACA
2288506 ATGTATCGATAC
1 ATGTATCGATAC
2288518 TAAGCAATAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2288513 original size:32 final size:33
Alignment explanation
Indices: 2288475--2288538 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
2288465 CAATTCAATG
*
2288475 TGTATCGATACTATG-AACATGTATCGATACAA
1 TGTATCGATACTAAGCAACATGTATCGATACAA
*
2288507 TGTATCGATACTAAGCAATATGTATCGATACA
1 TGTATCGATACTAAGCAACATGTATCGATACA
2288539 TTTGGGTGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (33 bp):
TGTATCGATACTAAGCAACATGTATCGATACAA
Found at i:2288593 original size:19 final size:19
Alignment explanation
Indices: 2288569--2288617 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
2288559 TTCTAGGGTT
2288569 TTGACCTTTGTAGTTTAAG
1 TTGACCTTTGTAGTTTAAG
2288588 TTGACCTTTGTAGTTTAAG
1 TTGACCTTTGTAGTTTAAG
*
2288607 TCGACCTTTGT
1 TTGACCTTTGT
2288618 GTATCGATAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.18, C:0.14, G:0.20, T:0.47
Consensus pattern (19 bp):
TTGACCTTTGTAGTTTAAG
Found at i:2289887 original size:20 final size:20
Alignment explanation
Indices: 2289862--2289912 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
2289852 GTTTGAGGCA
**
2289862 ATGTATCGATATAATT-TTTC
1 ATGTATCGATAT-ATTGTGCC
2289882 ATGTATCGATATATTGTGCC
1 ATGTATCGATATATTGTGCC
2289902 ATGTATCGATA
1 ATGTATCGATA
2289913 CAAACAGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 3 0.11
20 25 0.89
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.43
Consensus pattern (20 bp):
ATGTATCGATATATTGTGCC
Found at i:2292485 original size:13 final size:13
Alignment explanation
Indices: 2292463--2292501 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
2292453 TAGTAACACG
*
2292463 TGTATTGATACAT
1 TGTATTGATACAA
*
2292476 TGTATCGATACAA
1 TGTATTGATACAA
2292489 TGTATTGATACAA
1 TGTATTGATACAA
2292502 AGAACATTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATTGATACAA
Found at i:2300819 original size:19 final size:20
Alignment explanation
Indices: 2300776--2300826 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
2300766 CACACCTAGA
*
2300776 TGTATCAATACATATTGCTT
1 TGTATCAATACATATTGCAT
2300796 TGTATCAATACATATT-CAT
1 TGTATCAATACATATTGCAT
*
2300815 TGTATCGATACA
1 TGTATCAATACA
2300827 CTAAAATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (20 bp):
TGTATCAATACATATTGCAT
Found at i:2311634 original size:101 final size:101
Alignment explanation
Indices: 2311473--2312144 Score: 878
Period size: 101 Copynumber: 6.9 Consensus size: 101
2311463 GGAAGAATGT
* **
2311473 CAATGTGCTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGGCGCCAATATGCTGAT
1 CAATGTGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGATGACGAAGGCGCCAATATGCTGAT
*
2311538 TCAAGGCCAGCGATATTGGACTTAAAAATGAAGGTGC
65 TCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * *
2311575 TAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGACGAAGGCGCCAATATGCTAATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTGATT
2311640 CAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
66 CAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* *
2311676 CAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGACGAATGCGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTGATT
2311741 CAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
66 CAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* *
2311777 CAATGTGCTGATTCAAGGCCAGCGACATTGCACTTAAAGATGACGAAGGCGCTAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTGATT
* *** *
2311842 CAAGGCCAGCAATATCACACTTAAAGATGAAAGTGC
66 CAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * *
2311878 CAATGTGCTGATTCGAGGCCAGCGACATTGGATTTAAAGATGACGAAGGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTGATT
* *
2311943 CAAGGCCAGCGATACTGGGC-T-----T----GTGC
66 CAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* *
2311969 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GAC-AAGGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTGATT
*
2312030 CAAGGCCAGCGATATTGGGC-T-----T--A--TGC
66 CAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * * *
2312056 CAATGTGCTGATTCAAGGCCAACAACATTGGTCTT-AA-A-GAC-AAGGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTGATT
2312117 CAAGGCCAGCGATATTGGACTTAGAAGA
66 CAAGGCCAGCGATATTGGACTTA-AAGA
2312145 AGACGCCACC
Statistics
Matches: 523, Mismatches: 39, Indels: 24
0.89 0.07 0.04
Matches are distributed among these distances:
87 122 0.23
88 4 0.01
89 1 0.00
90 2 0.00
91 36 0.07
95 1 0.00
100 1 0.00
101 329 0.63
102 27 0.05
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.24
Consensus pattern (101 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTGATT
CAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
Found at i:2311647 original size:52 final size:52
Alignment explanation
Indices: 2311362--2311954 Score: 615
Period size: 52 Copynumber: 11.6 Consensus size: 52
2311352 AAGAGTGATA
* * * **
2311362 AAGGTACCAATATGCTGATTC-AGGACCAGTGATATTGGGTTTAAAGATGTA--
1 AAGGTGCCAATATGCTGATTCAAGG-CCAGCGACATTGGACTTAAAGATG-ACG
* * * * * * * * *
2311413 AAGAATGTCAATGTGCTGATTCACGGTCAGCGACATTAGTCTTGAAGATG-GG
1 AAG-GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACG
* * * * **
2311465 AAGAATGTCAATGTGCTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACG
1 AAG-GTGCCAATATGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGATGACG
* * *
2311519 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-A--ATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACG
* * *
2311568 AAGGTGCTAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGACG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACG
* * *
2311620 AAGGCGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGAT---G
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACG
* *
2311669 AAGGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGACG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACG
* * *
2311721 AATGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT---G
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACG
* *
2311770 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGCACTTAAAGATGACG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACG
* * * * ***
2311822 AAGGCGCTAATATGCTGATTCAAGGCCAGCAATATCACACTTAAAGATGA--
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACG
* * *
2311872 AA-GTGCCAATGTGCTGATTCGAGGCCAGCGACATTGGATTTAAAGATGACG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACG
2311923 AAGGTGCCAATATGCTGATTCAAGGCCAGCGA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGA
2311955 TACTGGGCTT
Statistics
Matches: 450, Mismatches: 74, Indels: 35
0.81 0.13 0.06
Matches are distributed among these distances:
49 167 0.37
50 3 0.01
51 6 0.01
52 231 0.51
53 39 0.09
54 4 0.01
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.24
Consensus pattern (52 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACG
Found at i:2311980 original size:39 final size:39
Alignment explanation
Indices: 2311926--2312076 Score: 167
Period size: 39 Copynumber: 3.6 Consensus size: 39
2311916 GATGACGAAG
*
2311926 GTGCCAATATGCTGATTCAAGGCCAGCGATACTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* * *
2311965 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
2312004 AAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
* *
2312052 ATGCCAATGTGCTGATTCAAGGCCA
1 GTGCCAATATGCTGATTCAAGGCCA
2312077 ACAACATTGG
Statistics
Matches: 94, Mismatches: 9, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
39 58 0.62
48 36 0.38
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
Found at i:2312036 original size:48 final size:48
Alignment explanation
Indices: 2311965--2312144 Score: 216
Period size: 48 Copynumber: 3.9 Consensus size: 48
2311955 TACTGGGCTT
*
2311965 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* *
2312013 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-------A-
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * *
2312053 -TGCCAATGTGCTGATTCAAGGCCAACAACATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* *
2312100 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTA-AAGA
2312145 AGACGCCACC
Statistics
Matches: 109, Mismatches: 13, Indels: 19
0.77 0.09 0.13
Matches are distributed among these distances:
39 33 0.30
41 1 0.01
46 1 0.01
48 70 0.64
49 4 0.04
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (48 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
Found at i:2312051 original size:87 final size:87
Alignment explanation
Indices: 2311874--2312134 Score: 425
Period size: 87 Copynumber: 3.0 Consensus size: 87
2311864 AAAGATGAAA
*
2311874 GTGCCAATGTGCTGATTCGAGGCCAGCGACATTGGAT-TTAAAGATGACGAAGGTGCCAATATGC
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG-TCTT-AA-A-GAC-AAGGTGCCAATATGC
*
2311938 TGATTCAAGGCCAGCGATACTGGGCTT
61 TGATTCAAGGCCAGCGATATTGGGCTT
2311965 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
2312030 CAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* * *
2312052 ATGCCAATGTGCTGATTCAAGGCCAACAACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
2312117 CAAGGCCAGCGATATTGG
66 CAAGGCCAGCGATATTGG
2312135 ACTTAGAAGA
Statistics
Matches: 164, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
87 121 0.74
88 3 0.02
89 1 0.01
90 3 0.02
91 36 0.22
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (87 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGGCTT
Found at i:2312086 original size:39 final size:39
Alignment explanation
Indices: 2312014--2312091 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
2312004 AAAGACAAGG
* * *
2312014 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAACAACATTGGGCTTA
* *
2312053 TGCCAATGTGCTGATTCAAGGCCAACAACATTGGTCTTA
1 TGCCAATATGCTGATTCAAGGCCAACAACATTGGGCTTA
2312092 AAGACAAGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (39 bp):
TGCCAATATGCTGATTCAAGGCCAACAACATTGGGCTTA
Found at i:2312244 original size:33 final size:33
Alignment explanation
Indices: 2312201--2312605 Score: 298
Period size: 33 Copynumber: 12.8 Consensus size: 33
2312191 GTGTGCTTTT
* * * *
2312201 GAAAGTTGCCACTGACTTGTGGGCTTAAAAGGA
1 GAAAGATGCCACGGAGTTGTGGACTTAAAAGGA
*
2312234 GAAAGATGCCATGGAGTTGTGGACTTAAAAGGA
1 GAAAGATGCCACGGAGTTGTGGACTTAAAAGGA
* * * *
2312267 -ACAAGGTGCCCCAGAGTTGTGGACTTTAAAAAGA
1 GA-AAGATGCCACGGAGTTGTGGAC-TTAAAAGGA
* *
2312301 AAAAGATACCACGGAGTTGTGGACTTAAAAGGA
1 GAAAGATGCCACGGAGTTGTGGACTTAAAAGGA
* *
2312334 GAAAAATGCCACGAAGTTGTGGACTTAAAAGGA
1 GAAAGATGCCACGGAGTTGTGGACTTAAAAGGA
* *
2312367 AAAAGATGCCACGGAGGTGTGGACTTAAAA-G-
1 GAAAGATGCCACGGAGTTGTGGACTTAAAAGGA
*
2312398 G---G-TGCCACGAAGTTGTGGACTTAAAAGGA
1 GAAAGATGCCACGGAGTTGTGGACTTAAAAGGA
* * *
2312427 -AAAGGTGCCACGGAGTTGTGGGCTTTAAA--A
1 GAAAGATGCCACGGAGTTGTGGACTTAAAAGGA
*
2312457 G--AG-TGCCACAGAGTTGTGGACTTAAAA-G-
1 GAAAGATGCCACGGAGTTGTGGACTTAAAAGGA
**
2312485 G---G-TGCCACAAAGTTGTGGACTTTGAAAA-GA
1 GAAAGATGCCACGGAGTTGTGGAC-TT-AAAAGGA
* * * *
2312515 AAAAGGTGCCACGGAGTGGTGGGCTTTGAAAA-GA
1 GAAAGATGCCACGGAGTTGTGGAC-TT-AAAAGGA
* * * **
2312549 AAAAGGTGCCACGGAGTTGTGGGCTTTGAA-GA
1 GAAAGATGCCACGGAGTTGTGGACTTAAAAGGA
* *
2312581 -AAAGATGCCACTGAGTCGTGGACTT
1 GAAAGATGCCACGGAGTTGTGGACTT
2312606 TAGGACAAAA
Statistics
Matches: 309, Mismatches: 45, Indels: 38
0.79 0.11 0.10
Matches are distributed among these distances:
27 40 0.13
28 26 0.08
29 7 0.02
30 1 0.00
31 22 0.07
32 27 0.09
33 112 0.36
34 73 0.24
35 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.32, T:0.21
Consensus pattern (33 bp):
GAAAGATGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:2312306 original size:67 final size:66
Alignment explanation
Indices: 2312217--2312457 Score: 284
Period size: 67 Copynumber: 3.7 Consensus size: 66
2312207 TGCCACTGAC
* * * ** *
2312217 TTGTGGGCTTAAAAGGAGAAAGATGCCATGGAGTTGTGGACTTAAAAGGA-ACAAGGTGCC-CCA
1 TTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAGA-AAAATGCCACGA
2312280 GAG
65 -AG
* *
2312283 TTGTGGACTTTAAAAAGAAAAAGATACCACGGAGTTGTGGACTTAAAAGGAGAAAAATGCCACGA
1 TTGTGGAC-TTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAGAAAAATGCCACGA
2312348 AG
65 AG
*
2312350 TTGTGGACTTAAAAGGAAAAAGATGCCACGGAGGTGTGGACTTAAAAGG-G-----TGCCACGAA
1 TTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAGAAAAATGCCACGAA
2312409 G
66 G
* *
2312410 TTGTGGACTTAAAAGG-AAAAGGTGCCACGGAGTTGTGGGCTTTAAAAG
1 TTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGAC-TTAAAAG
2312458 AGTGCCACAG
Statistics
Matches: 157, Mismatches: 14, Indels: 14
0.85 0.08 0.08
Matches are distributed among these distances:
59 21 0.13
60 33 0.21
65 1 0.01
66 45 0.29
67 54 0.34
68 3 0.02
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.20
Consensus pattern (66 bp):
TTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAGAAAAATGCCACGAA
G
Found at i:2312352 original size:100 final size:93
Alignment explanation
Indices: 2312300--2312570 Score: 254
Period size: 87 Copynumber: 3.0 Consensus size: 93
2312290 CTTTAAAAAG
* * * *
2312300 AAAAAGATACCACGGAGTTGTGGACTTAAAAGGAGAAAAATGCCACGAAGTTGTGGACTTAAAAG
1 AAAAGGATACCACGAAGTTGTGGACTTAAAAGGAGAAAGATGCCACGGAGTTGTGGACTTAAAAG
*
2312365 GAAAAAGATGCCACGGAGGTGTGGACTT
66 GAAAAAGATGCCACAGAGGTGTGGACTT
* * * *
2312393 AAAAGGGTGCCACGAAGTTGTGGACTTAAAAGGA-AAAGGTGCCACGGAGTTGTGGGCTTTAAAA
1 AAAAGGATACCACGAAGTTGTGGACTTAAAAGGAGAAAGATGCCACGGAGTTGTGGAC-TTAAAA
*
2312457 -G----AG-TGCCACAGAGTTGTGGACTT
65 GGAAAAAGATGCCACAGAGGTGTGGACTT
* * * * * * *
2312480 AAAAGGGTGCCACAAAGTTGTGGACTTTGAAAA-GAAAAAGGTGCCACGGAGTGGTGGGCTTTGA
1 AAAAGGATACCACGAAGTTGTGGAC-TT-AAAAGGAGAAAGATGCCACGGAGTTGTGGAC-TT-A
* * *
2312544 AAA-GAAAAAGGTGCCACGGAGTTGTGG
62 AAAGGAAAAAGATGCCACAGAGGTGTGG
2312571 GCTTTGAAGA
Statistics
Matches: 155, Mismatches: 13, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
87 42 0.27
88 6 0.04
89 29 0.19
90 5 0.03
92 20 0.13
93 36 0.23
94 2 0.01
95 15 0.10
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.20
Consensus pattern (93 bp):
AAAAGGATACCACGAAGTTGTGGACTTAAAAGGAGAAAGATGCCACGGAGTTGTGGACTTAAAAG
GAAAAAGATGCCACAGAGGTGTGGACTT
Found at i:2312404 original size:27 final size:27
Alignment explanation
Indices: 2312373--2312506 Score: 151
Period size: 27 Copynumber: 4.7 Consensus size: 27
2312363 AGGAAAAAGA
*
2312373 TGCCACGGAGGTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
2312400 TGCCACGAAGTTGTGGACTTAAAAGGAAAAGG
1 TGCCACGGAGTTGTGGACTTAAAA-G----GG
* *
2312432 TGCCACGGAGTTGTGGGCTTTAAAAGAG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
*
2312460 TGCCACAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
**
2312487 TGCCACAAAGTTGTGGACTT
1 TGCCACGGAGTTGTGGACTT
2312507 TGAAAAGAAA
Statistics
Matches: 92, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
27 49 0.53
28 18 0.20
32 19 0.21
33 6 0.07
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:2312413 original size:60 final size:61
Alignment explanation
Indices: 2312217--2312485 Score: 287
Period size: 60 Copynumber: 4.3 Consensus size: 61
2312207 TGCCACTGAC
* * * *
2312217 TTGTGGGCTTAAAAGGAGAAAGATGCCATGGAGTTGTGGACTTAAAAGGAACAAGGTGCC-CCAG
1 TTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAA-G-----GGTGCCACGAG
2312281 AG
60 AG
* *
2312283 TTGTGGACTTTAAAAAGAAAAAGATACCACGGAGTTGTGGACTTAAAAGGAGAAAAATGCCACGA
1 TTGTGGAC-TTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGG-G-----TGCCACGA
2312348 -AG
59 GAG
*
2312350 TTGTGGACTTAAAAGGAAAAAGATGCCACGGAGGTGTGGACTTAAAAGGGTGCCACGA-AG
1 TTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAGAG
* * *
2312410 TTGTGGACTTAAAAGG-AAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAGTGCCAC-AGAG
1 TTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGAGAG
2312470 TTGTGGACTTAAAAGG
1 TTGTGGACTTAAAAGG
2312486 GTGCCACAAA
Statistics
Matches: 180, Mismatches: 13, Indels: 26
0.82 0.06 0.12
Matches are distributed among these distances:
59 22 0.12
60 58 0.32
61 1 0.01
62 1 0.01
65 1 0.01
66 46 0.26
67 49 0.27
68 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.20
Consensus pattern (61 bp):
TTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGAGAG
Found at i:2312585 original size:37 final size:34
Alignment explanation
Indices: 2312480--2312578 Score: 144
Period size: 34 Copynumber: 2.9 Consensus size: 34
2312470 TTGTGGACTT
* ** * *
2312480 AAAAGGGTGCCACAAAGTTGTGGACTTTGAAAAG
1 AAAAAGGTGCCACGGAGTGGTGGGCTTTGAAAAG
2312514 AAAAAGGTGCCACGGAGTGGTGGGCTTTGAAAAG
1 AAAAAGGTGCCACGGAGTGGTGGGCTTTGAAAAG
*
2312548 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAA
1 AAAAAGGTGCCACGGAGTGGTGGGCTTTGAA
2312579 GAAAAGATGC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 59 1.00
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.20
Consensus pattern (34 bp):
AAAAAGGTGCCACGGAGTGGTGGGCTTTGAAAAG
Found at i:2312620 original size:30 final size:31
Alignment explanation
Indices: 2312549--2312672 Score: 132
Period size: 31 Copynumber: 4.1 Consensus size: 31
2312539 TTTGAAAAGA
* * * *
2312549 AAAAGGTGCCACGGAGTTGTGGGCTTT-GAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTAG-AG
2312580 AAAAGATGCCACTGAGTCGTGGACTTTAG-G
1 AAAAGATGCCACTGAGTCGTGGACTTTAGAG
* *
2312610 ACAAA-ATGCCACTGAGTCATGGGCTTT-GAG
1 A-AAAGATGCCACTGAGTCGTGGACTTTAGAG
2312640 AAAAGATTGCCACTGAGTCGTGGACTTTA-AG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTAGAG
2312671 AA
1 AA
2312673 GGTATTTAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
29 4 0.05
30 25 0.32
31 49 0.62
32 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (31 bp):
AAAAGATGCCACTGAGTCGTGGACTTTAGAG
Found at i:2313968 original size:16 final size:15
Alignment explanation
Indices: 2313949--2313984 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
2313939 GCCTTTGCAC
2313949 TTTTTTTTTGTGTGTG
1 TTTTTTTTTGT-TGTG
*
2313965 TTTTTTTTTGTTTTG
1 TTTTTTTTTGTTGTG
2313980 TTTTT
1 TTTTT
2313985 GTGTTTACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (15 bp):
TTTTTTTTTGTTGTG
Found at i:2320910 original size:19 final size:21
Alignment explanation
Indices: 2320886--2320936 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
2320876 TAGCGATACA
2320886 TTGTATCGATATA-ACACT-T
1 TTGTATCGATATAGACACTAT
**
2320905 TTGTATCGATATAGTTACTAT
1 TTGTATCGATATAGACACTAT
2320926 TTGTATCGATA
1 TTGTATCGATA
2320937 CAAATTATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.46
20 3 0.11
21 12 0.43
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (21 bp):
TTGTATCGATATAGACACTAT
Found at i:2327492 original size:50 final size:50
Alignment explanation
Indices: 2327436--2327546 Score: 168
Period size: 50 Copynumber: 2.2 Consensus size: 50
2327426 TAACTAGATG
* *
2327436 TATCGATACATTGAAAAATGTATCAATACCTCTAGGTAAAAAACAGAATA
1 TATCGATACATTGAAAAATGTATCAATACATCTAGGTAAAAAACAAAATA
* * * *
2327486 TATCGATGCATTGAAAAATGTATCAATATATTTAGGTAAAAAACAAAATG
1 TATCGATACATTGAAAAATGTATCAATACATCTAGGTAAAAAACAAAATA
2327536 TATCGATACAT
1 TATCGATACAT
2327547 GTACTGTTCA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.47, C:0.12, G:0.13, T:0.29
Consensus pattern (50 bp):
TATCGATACATTGAAAAATGTATCAATACATCTAGGTAAAAAACAAAATA
Found at i:2330136 original size:13 final size:14
Alignment explanation
Indices: 2330120--2330149 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
2330110 TTTTTGGAAC
2330120 AAATTTCATAA-AA
1 AAATTTCATAAGAA
2330133 AAATTTCATAAGAA
1 AAATTTCATAAGAA
2330147 AAA
1 AAA
2330150 ATTCGCGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.63, C:0.07, G:0.03, T:0.27
Consensus pattern (14 bp):
AAATTTCATAAGAA
Found at i:2331775 original size:14 final size:14
Alignment explanation
Indices: 2331756--2331791 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
2331746 GTTTAAGTAC
2331756 AAAGAATAGCAATA
1 AAAGAATAGCAATA
2331770 AAAGAATAGCAATA
1 AAAGAATAGCAATA
2331784 AAAGAATA
1 AAAGAATA
2331792 AAAGCTCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.67, C:0.06, G:0.14, T:0.14
Consensus pattern (14 bp):
AAAGAATAGCAATA
Found at i:2332211 original size:14 final size:14
Alignment explanation
Indices: 2332194--2332220 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2332184 ACGTGAATAG
2332194 TATGAACAGTGATC
1 TATGAACAGTGATC
2332208 TATGAACAGTGAT
1 TATGAACAGTGAT
2332221 GTATCGATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (14 bp):
TATGAACAGTGATC
Found at i:2332240 original size:21 final size:22
Alignment explanation
Indices: 2332209--2332264 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
2332199 ACAGTGATCT
2332209 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
2332231 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
2332252 ATGAACAGTGATG
1 ATGAACAGTGATG
2332265 AATAGTGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:2332271 original size:10 final size:10
Alignment explanation
Indices: 2332252--2332282 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
2332242 GTATCGATAC
2332252 ATGAACAGTG
1 ATGAACAGTG
*
2332262 ATGAATAGTG
1 ATGAACAGTG
2332272 ATGAACAGTG
1 ATGAACAGTG
2332282 A
1 A
2332283 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:2332370 original size:53 final size:53
Alignment explanation
Indices: 2332306--2332442 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
2332296 CTACTTCCAA
2332306 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* * *
2332359 TGTATCGATACATATTGTGTGTATCGACACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
2332412 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
2332443 TATGCAATTT
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 66 0.85
54 12 0.15
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:2332475 original size:20 final size:20
Alignment explanation
Indices: 2332412--2332482 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
2332402 GCCAATGTCC
**
2332412 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
2332432 TGTATCGATAC-TATGCAATT
1 TGTATCGATACATAT-TAATG
2332452 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
2332472 TGTATCGATAC
1 TGTATCGATAC
2332483 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:2332548 original size:21 final size:21
Alignment explanation
Indices: 2332522--2332562 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2332512 GTCAACCTTG
2332522 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
2332543 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
2332563 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:2339553 original size:21 final size:21
Alignment explanation
Indices: 2339524--2339564 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
2339514 GTTCAAAAAC
2339524 CCAGAATGTATCGATACATTG
1 CCAGAATGTATCGATACATTG
*
2339545 CCAGCATGTATCGATACATT
1 CCAGAATGTATCGATACATT
2339565 CACTTATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (21 bp):
CCAGAATGTATCGATACATTG
Found at i:2339673 original size:20 final size:21
Alignment explanation
Indices: 2339644--2339692 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
2339634 TAAGCCTTAA
2339644 TATCGATACATTC-ACTT-ATG
1 TATCGATACA-TCGACTTGATG
*
2339664 TATCGGTACATCGACTTGATG
1 TATCGATACATCGACTTGATG
*
2339685 TATTGATA
1 TATCGATA
2339693 TAAATTATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 2 0.08
20 13 0.54
21 9 0.38
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (21 bp):
TATCGATACATCGACTTGATG
Found at i:2340269 original size:65 final size:65
Alignment explanation
Indices: 2340167--2340334 Score: 198
Period size: 65 Copynumber: 2.6 Consensus size: 65
2340157 CTAGAGGTCG
* * * * * *
2340167 ATGCCACCATCTT-TGTGGG-TTTTTGGGTACTGTCAACTCGCGCGGGCTTTTGGGAA-GGTTTA
1 ATGCCACCAACTTGTGTGGGCTTTTTGGGTGCCGCCAACTCACGCAGGCTTTT-GGAATGGTTTA
2340229 A
65 A
* * * *
2340230 ATGCCACCAGCTTGTGTGGGCTTTTTAGGTGCCGCCAACTCATGCAGGCTTTTGGAATGGTTTGA
1 ATGCCACCAACTTGTGTGGGCTTTTTGGGTGCCGCCAACTCACGCAGGCTTTTGGAATGGTTTAA
* *
2340295 GTGCCACCAACTTGTGTTGGCTTTTTGGGTGCCGCCAACT
1 ATGCCACCAACTTGTGTGGGCTTTTTGGGTGCCGCCAACT
2340335 TGTATGGGCT
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
63 12 0.13
64 10 0.11
65 67 0.75
ACGTcount: A:0.15, C:0.22, G:0.29, T:0.33
Consensus pattern (65 bp):
ATGCCACCAACTTGTGTGGGCTTTTTGGGTGCCGCCAACTCACGCAGGCTTTTGGAATGGTTTAA
Found at i:2340332 original size:28 final size:28
Alignment explanation
Indices: 2340290--2340346 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
2340280 TTTGGAATGG
* *
2340290 TTTGAGTGCCACCAACTTGTGTTGGCTT
1 TTTGAGTGCCACCAACTTGTATGGGCTT
* *
2340318 TTTGGGTGCCGCCAACTTGTATGGGCTT
1 TTTGAGTGCCACCAACTTGTATGGGCTT
2340346 T
1 T
2340347 GAGAAAGGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.12, C:0.21, G:0.28, T:0.39
Consensus pattern (28 bp):
TTTGAGTGCCACCAACTTGTATGGGCTT
Found at i:2340472 original size:59 final size:61
Alignment explanation
Indices: 2340395--2340535 Score: 164
Period size: 59 Copynumber: 2.4 Consensus size: 61
2340385 GGTTTGAGTG
* * **
2340395 CCACCAACTTGTGTGGGCTTTTTGGGTG-CACCAGTTCATGCAAGC-TTTGAGAAAGAATA
1 CCACTAACTTATGTGGGCTTTTTGGGTGCCACCAACTCATGCAAGCTTTTGAGAAAGAATA
* * *
2340454 CCACTAACTTATGTGGGC-TTTTGGGTGCCGCCAACTCATGCAAGCTTTTGAGAAAGGATG
1 CCACTAACTTATGTGGGCTTTTTGGGTGCCACCAACTCATGCAAGCTTTTGAGAAAGAATA
* *
2340514 CCA-TCAACTCATGCGGGCTTTT
1 CCACT-AACTTATGTGGGCTTTT
2340536 AAGCATCACC
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
58 9 0.13
59 31 0.45
60 26 0.38
61 3 0.04
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (61 bp):
CCACTAACTTATGTGGGCTTTTTGGGTGCCACCAACTCATGCAAGCTTTTGAGAAAGAATA
Found at i:2340534 original size:60 final size:59
Alignment explanation
Indices: 2340430--2340668 Score: 194
Period size: 60 Copynumber: 4.0 Consensus size: 59
2340420 GTGCACCAGT
* * * *
2340430 TCATGCAAGCTTTGAGAAAGAATACCACTAACTTATGTGGGCTTTTGGGTGCCGCCAAC
1 TCATGCAAGCTTTGAGAAAGGATGCCACTAACTCATGTGGGCTTTTAGGTGCCGCCAAC
* * *** * **
2340489 TCATGCAAGCTTTTGAGAAAGGATGCCA-TCAACTCATGCGGGCTTTTAAGCATCACCAGT
1 TCATGCAAGC-TTTGAGAAAGGATGCCACT-AACTCATGTGGGCTTTTAGGTGCCGCCAAC
** * * * * * ** *
2340549 TCATGCGGGCTTCGAGAAACGATGCCACCAGCTCGTGTGGGCTTTCGGGTGTCGCCAAC
1 TCATGCAAGCTTTGAGAAAGGATGCCACTAACTCATGTGGGCTTTTAGGTGCCGCCAAC
** * *
2340608 TCATAGGGA-CTTTTGAGAAGGGATGCCACTAACTCATGTAGGCTTTTAGGTGCCGCCAAC
1 TCAT-GCAAGC-TTTGAGAAAGGATGCCACTAACTCATGTGGGCTTTTAGGTGCCGCCAAC
2340668 T
1 T
2340669 TGTGCGGCCT
Statistics
Matches: 135, Mismatches: 40, Indels: 9
0.73 0.22 0.05
Matches are distributed among these distances:
59 50 0.37
60 85 0.63
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (59 bp):
TCATGCAAGCTTTGAGAAAGGATGCCACTAACTCATGTGGGCTTTTAGGTGCCGCCAAC
Found at i:2340770 original size:60 final size:59
Alignment explanation
Indices: 2340692--2340804 Score: 145
Period size: 59 Copynumber: 1.9 Consensus size: 59
2340682 GAAAGGTTGC
* * * * * *
2340692 CACCAACTTGTTTGGGCTTTTGGAAAATGATGCTAATAGCTTGTGTGGGCTTTTGGGTGT
1 CACCAACTTGTGTAGGCTTTT-GAAAAGGATGCCAACAACTTGTGTGGGCTTTTGGGTGT
* *
2340752 CACCAACTTGTGTAGGCTTTTGAAAAGGTTGCCACCAACTTGTGTGGGCTTTT
1 CACCAACTTGTGTAGGCTTTTGAAAAGGATGCCAACAACTTGTGTGGGCTTTT
2340805 TGGAAAAGGA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
59 26 0.58
60 19 0.42
ACGTcount: A:0.19, C:0.17, G:0.27, T:0.36
Consensus pattern (59 bp):
CACCAACTTGTGTAGGCTTTTGAAAAGGATGCCAACAACTTGTGTGGGCTTTTGGGTGT
Found at i:2340793 original size:32 final size:32
Alignment explanation
Indices: 2340658--2340839 Score: 151
Period size: 33 Copynumber: 5.8 Consensus size: 32
2340648 GGCTTTTAGG
* * * *
2340658 TGCCGCCAACTTGTGCGGCCTTTTG-AAAGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAAGGA
* *
2340689 TGCCACCAACTTGTTTGGGCTTTTGGAAAATGA
1 TGCCACCAACTTGTGTGGGCTTTT-GAAAAGGA
* ** *
2340722 TGCTAATAGCTTGTGTGGGCTTTTG----GG-
1 TGCCACCAACTTGTGTGGGCTTTTGAAAAGGA
* * *
2340749 TGTCACCAACTTGTGTAGGCTTTTGAAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAAGGA
2340781 TGCCACCAACTTGTGTGGGCTTTTTGGAAAAGGA
1 TGCCACCAACTTGTGTGGGC-TTTT-GAAAAGGA
* **
2340815 TGCCACCAGCTCATGTGGGCTTTTG
1 TGCCACCAACTTGTGTGGGCTTTTG
2340840 GGTGCCACCA
Statistics
Matches: 118, Mismatches: 24, Indels: 17
0.74 0.15 0.11
Matches are distributed among these distances:
27 19 0.16
28 1 0.01
31 22 0.19
32 21 0.18
33 31 0.26
34 24 0.20
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (32 bp):
TGCCACCAACTTGTGTGGGCTTTTGAAAAGGA
Found at i:2340819 original size:34 final size:33
Alignment explanation
Indices: 2340658--2340838 Score: 137
Period size: 32 Copynumber: 5.7 Consensus size: 33
2340648 GGCTTTTAGG
* * * *
2340658 TGCCGCCAACTTGTG-CGGCCTTTTG-AAAGGT
1 TGCCACCAACTTGTGTGGGCTTTTTGAAAAGGA
* * *
2340689 TGCCACCAACTTGTTTGGGCTTTTGGAAAATGA
1 TGCCACCAACTTGTGTGGGCTTTTTGAAAAGGA
* ** *
2340722 TGCTAATAGCTTGTGTGGGC-TTTTG----GG-
1 TGCCACCAACTTGTGTGGGCTTTTTGAAAAGGA
* * *
2340749 TGTCACCAACTTGTGTAGGC-TTTTGAAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTTTGAAAAGGA
2340781 TGCCACCAACTTGTGTGGGCTTTTTGGAAAAGGA
1 TGCCACCAACTTGTGTGGGCTTTTT-GAAAAGGA
* **
2340815 TGCCACCAGCTCATGTGGGCTTTT
1 TGCCACCAACTTGTGTGGGCTTTT
2340839 GGGTGCCACC
Statistics
Matches: 115, Mismatches: 26, Indels: 15
0.74 0.17 0.10
Matches are distributed among these distances:
27 19 0.17
28 1 0.01
31 15 0.13
32 29 0.25
33 23 0.20
34 28 0.24
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.33
Consensus pattern (33 bp):
TGCCACCAACTTGTGTGGGCTTTTTGAAAAGGA
Found at i:2340841 original size:93 final size:92
Alignment explanation
Indices: 2340628--2340899 Score: 304
Period size: 93 Copynumber: 3.0 Consensus size: 92
2340618 TTTTGAGAAG
* * * * *
2340628 GGATGCCACTAACTCATGTAGGCTTTTAGGTGCCGCCAACTTGTG-CGGCCTTTTG-AAAGGTTG
1 GGATGCCACTAGCTCATGTGGGCTTTTGGGTGCCACCAACTTGTGTAGG-CTTTTGAAAAGGTTG
*
2340691 CCACCAACTTGTTTGGGCTTTTGGAAAA
65 CCACCAACTTGTGTGGGCTTTTGGAAAA
* * * ** *
2340719 TGATGCTAATAGCTTGTGTGGGCTTTTGGGTGTCACCAACTTGTGTAGGCTTTTGAAAAGGTTGC
1 GGATGCCACTAGCTCATGTGGGCTTTTGGGTGCCACCAACTTGTGTAGGCTTTTGAAAAGGTTGC
2340784 CACCAACTTGTGTGGGCTTTTTGGAAAA
66 CACCAACTTGTGTGGGC-TTTTGGAAAA
*
2340812 GGATGCCACCAGCTCATGTGGGCTTTTGGGTGCCACCAACTCATGT-TA-GCTTTTAGAAAA-GT
1 GGATGCCACTAGCTCATGTGGGCTTTTGGGTGCCACCAACT--TGTGTAGGCTTTT-GAAAAGGT
* * *
2340874 CGCCACCAA-TTCATATGGGCTTTTGG
63 TGCCACCAACTT-GTGTGGGCTTTTGG
2340900 GTTACTCCAT
Statistics
Matches: 152, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
91 41 0.27
92 35 0.23
93 66 0.43
94 7 0.05
95 3 0.02
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (92 bp):
GGATGCCACTAGCTCATGTGGGCTTTTGGGTGCCACCAACTTGTGTAGGCTTTTGAAAAGGTTGC
CACCAACTTGTGTGGGCTTTTGGAAAA
Found at i:2340864 original size:61 final size:59
Alignment explanation
Indices: 2340781--2340901 Score: 136
Period size: 59 Copynumber: 2.0 Consensus size: 59
2340771 TTGAAAAGGT
** * * * *
2340781 TGCCACCAACTTGTGTGGGCTTTTTGGAAAAGGAT-GCCACCAGCTCATGTGGGCTTTTGGG
1 TGCCACCAACTCATGTGAGC-TTTTAGAAAA-G-TCGCCACCAACTCATATGGGCTTTTGGG
* *
2340842 TGCCACCAACTCATGTTAGCTTTTAGAAAAGTCGCCACCAATTCATATGGGCTTTTGGG
1 TGCCACCAACTCATGTGAGCTTTTAGAAAAGTCGCCACCAACTCATATGGGCTTTTGGG
2340901 T
1 T
2340902 TACTCCATTA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
58 1 0.02
59 25 0.49
60 9 0.18
61 16 0.31
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.31
Consensus pattern (59 bp):
TGCCACCAACTCATGTGAGCTTTTAGAAAAGTCGCCACCAACTCATATGGGCTTTTGGG
Found at i:2341090 original size:28 final size:28
Alignment explanation
Indices: 2341039--2341216 Score: 173
Period size: 28 Copynumber: 6.3 Consensus size: 28
2341029 GGCTTTACAA
* *
2341039 AAAAGGGTGCCATTGACTTGTGGGTTTG
1 AAAAGGGTGCCACTGACTTATGGGTTTG
*
2341067 AAAAGGGTGCCACTGATTTATGGGTTTTG
1 AAAAGGGTGCCACTGACTTATGGG-TTTG
* *
2341096 AAAAGGGTGCCATTGACTTGTGGGCTTT-
1 AAAAGGGTGCCACTGACTTATGGG-TTTG
* *
2341124 AAAAGGGTGCCACTAACTTATAGGCTTTG
1 AAAAGGGTGCCACTGACTTAT-GGGTTTG
* * *
2341153 AAAA-GGTGTCACTGACTTATAGGCTTTA
1 AAAAGGGTGCCACTGACTTAT-GGGTTTG
* * *
2341181 AAAAGGGTGCCACCGACTTGTAGGCTTTG
1 AAAAGGGTGCCACTGACTTAT-GGGTTTG
2341210 -AAAGGGT
1 AAAAGGGT
2341217 TCAACTCCCT
Statistics
Matches: 128, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
28 74 0.58
29 54 0.42
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (28 bp):
AAAAGGGTGCCACTGACTTATGGGTTTG
Found at i:2341106 original size:57 final size:56
Alignment explanation
Indices: 2341039--2341216 Score: 207
Period size: 57 Copynumber: 3.1 Consensus size: 56
2341029 GGCTTTACAA
* * * *
2341039 AAAAGGGTGCCATTGACTTGTGGGTTTGAAAAGGGTGCCACTGATTTATGGGTTTTG
1 AAAAGGGTGCCATTGACTTGTGGGTTT-AAAAGGGTGCCACTAACTTATAGGCTTTG
2341096 AAAAGGGTGCCATTGACTTGTGGGCTTTAAAAGGGTGCCACTAACTTATAGGCTTTG
1 AAAAGGGTGCCATTGACTTGTGGG-TTTAAAAGGGTGCCACTAACTTATAGGCTTTG
* * * * ** *
2341153 AAAA-GGTGTCACTGACTTATAGGCTTTAAAAAGGGTGCCACCGACTTGTAGGCTTTG
1 AAAAGGGTGCCATTGACTTGT-GGGTTT-AAAAGGGTGCCACTAACTTATAGGCTTTG
2341210 -AAAGGGT
1 AAAAGGGT
2341217 TCAACTCCCT
Statistics
Matches: 106, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
56 19 0.18
57 84 0.79
58 3 0.03
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (56 bp):
AAAAGGGTGCCATTGACTTGTGGGTTTAAAAGGGTGCCACTAACTTATAGGCTTTG
Found at i:2341166 original size:85 final size:85
Alignment explanation
Indices: 2341039--2341216 Score: 223
Period size: 85 Copynumber: 2.1 Consensus size: 85
2341029 GGCTTTACAA
* * * * * * * *
2341039 AAAAGGGTGCCATTGACTTGTGGGTTTGAAAAGGGTGCCACTGATTTATGGGTTTTGAAAAGGGT
1 AAAAGGGTGCCACTAACTTATGGCTTTGAAAAGGGTGCCACTGACTTATAGGCTTTAAAAAGGGT
** *
2341104 GCCATTGACTTGTGGGCTTT
66 GCCACCGACTTGTAGGCTTT
*
2341124 AAAAGGGTGCCACTAACTTATAGGCTTTGAAAA-GGTGTCACTGACTTATAGGCTTTAAAAAGGG
1 AAAAGGGTGCCACTAACTTAT-GGCTTTGAAAAGGGTGCCACTGACTTATAGGCTTTAAAAAGGG
2341188 TGCCACCGACTTGTAGGCTTT
65 TGCCACCGACTTGTAGGCTTT
*
2341209 GAAAGGGT
1 AAAAGGGT
2341217 TCAACTCCCT
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
85 69 0.87
86 10 0.13
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (85 bp):
AAAAGGGTGCCACTAACTTATGGCTTTGAAAAGGGTGCCACTGACTTATAGGCTTTAAAAAGGGT
GCCACCGACTTGTAGGCTTT
Found at i:2342024 original size:27 final size:28
Alignment explanation
Indices: 2341966--2342027 Score: 83
Period size: 27 Copynumber: 2.2 Consensus size: 28
2341956 TAGACTTTAA
*
2341966 TAGGGATTGTGATTTGTCCTAGTTCCAC
1 TAGGGATTGTGATTTGTCCTAATTCCAC
*
2341994 TAGGGATTG-GAATTT-TCCTAATTCCAT
1 TAGGGATTGTG-ATTTGTCCTAATTCCAC
2342021 TAGGGAT
1 TAGGGAT
2342028 CGTAGGTTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 18 0.58
28 13 0.42
ACGTcount: A:0.23, C:0.15, G:0.24, T:0.39
Consensus pattern (28 bp):
TAGGGATTGTGATTTGTCCTAATTCCAC
Found at i:2342078 original size:28 final size:28
Alignment explanation
Indices: 2342047--2342111 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
2342037 TCCAAGCTTT
*
2342047 ACTAAGGATTGCAAGCTCTCCAGACTCC
1 ACTAGGGATTGCAAGCTCTCCAGACTCC
* *
2342075 ACTAGGGATTGCAGGTTCTCCAGACTCC
1 ACTAGGGATTGCAAGCTCTCCAGACTCC
2342103 ACTAGGGAT
1 ACTAGGGAT
2342112 ATGACATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (28 bp):
ACTAGGGATTGCAAGCTCTCCAGACTCC
Found at i:2342400 original size:58 final size:58
Alignment explanation
Indices: 2342310--2342427 Score: 209
Period size: 58 Copynumber: 2.0 Consensus size: 58
2342300 ACTAATTTGG
2342310 CTCATGTCTCTAGTTTTGATAGGATTCCGATAGAACATACAGATCAATTTTTGGTTAT
1 CTCATGTCTCTAGTTTTGATAGGATTCCGATAGAACATACAGATCAATTTTTGGTTAT
* * *
2342368 CTCATGTCTCTAGTTTTGATTGGATTCCGATAGAATATACAGATTAATTTTTGGTTAT
1 CTCATGTCTCTAGTTTTGATAGGATTCCGATAGAACATACAGATCAATTTTTGGTTAT
2342426 CT
1 CT
2342428 TGAAATGGTT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.42
Consensus pattern (58 bp):
CTCATGTCTCTAGTTTTGATAGGATTCCGATAGAACATACAGATCAATTTTTGGTTAT
Found at i:2346632 original size:153 final size:155
Alignment explanation
Indices: 2346414--2346807 Score: 390
Period size: 153 Copynumber: 2.5 Consensus size: 155
2346404 AGAGGATACT
* ** * * * * **
2346414 TTCGATGTAGAAATACCTTATACCCCTAAAAGACTTAAAAAGGAGTATAAATCGGATGATCCTAT
1 TTCGATGTAGAAGTACCCGATACCCCTAAAA-ACTTAAAAAGAATTATAAATGGGGTGAAACTAT
** * ** * ** *
2346479 CCTAAATACCCACCTTTGGCATAAAAGTAGAATC-GATGGCAACCTCGGACTCAGTTT-TATAAA
65 CCTAAATACCCACCTTCAGCACAAAAGTAGACCCAG-TGACAACCTAAGACTCAGTTTCTAAAAA
* * *
2346542 ATTACTAAAAATGCCCTTAAGG-GATAT-
129 ATTACAAAAAATACCCCT-AGGAGAT-TC
* *
2346569 TTCGA-GTTA-AAGTGCCCGATACCCCTAAAGAACTTAAAAA-TATTATAAATGGGGTGAAACTA
1 TTCGATG-TAGAAGTACCCGATACCCCTAAA-AACTTAAAAAGAATTATAAATGGGGTGAAACTA
* * *
2346631 TCCTAGATA-CCACCTTCAGCACAAAAGTTGACCCAGTGACAACCTAAGACTCGGTTTCTAAAAA
64 TCCTAAATACCCACCTTCAGCACAAAAGTAGACCCAGTGACAACCTAAGACTCAGTTTCTAAAAA
2346695 ATTACAAAAAATACCCCTAGGAGATTCC
129 ATTACAAAAAATACCCCTAGGAGATT-C
2346723 TTCGATGTAGAAGTACCCGATACCCCTAAAAAACTTAAAAAGAATTATAAATGGGGTGGTAAACC
1 TTCGATGTAGAAGTACCCGATACCCCT-AAAAACTTAAAAAGAATTATAAATGGGGT-G-AAA-C
*
2346788 TATCCTAAATACCCATCTTC
62 TATCCTAAATACCCACCTTC
2346808 GACAGAAAAG
Statistics
Matches: 195, Mismatches: 29, Indels: 25
0.78 0.12 0.10
Matches are distributed among these distances:
152 40 0.21
153 48 0.25
154 33 0.17
155 35 0.18
156 17 0.09
157 1 0.01
158 3 0.02
159 11 0.06
160 7 0.04
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (155 bp):
TTCGATGTAGAAGTACCCGATACCCCTAAAAACTTAAAAAGAATTATAAATGGGGTGAAACTATC
CTAAATACCCACCTTCAGCACAAAAGTAGACCCAGTGACAACCTAAGACTCAGTTTCTAAAAAAT
TACAAAAAATACCCCTAGGAGATTC
Found at i:2346868 original size:160 final size:155
Alignment explanation
Indices: 2346408--2346885 Score: 382
Period size: 160 Copynumber: 3.1 Consensus size: 155
2346398 GCCTTTAGAG
* * ** * * * * *
2346408 GATACTTTCGATGTAGAAATACCTTATACCCCTAAAAGACTTAAAAAGGAGTATAAATCGGATGA
1 GATACCTTCGATGTAGAAGTACCCGATACCCCTAAAAAACTTAAAAA-AATTATAAATGGGGTGA
** ** * * * * **
2346473 TCCTATCCTAAATACCCACCTTTGGCATAAAAGTAGAATC-GATGGCAACCTCGGACTC-AGTTT
65 AACTATCCTAAATA-CCACCTTCAGCACAAAAGTCGAACCAG-TGACAACCTAAGACTCGA-TTT
* * * *
2346536 -TATAAAATTACTAAAAATGCCCTTAAGG-
127 CTAAAAAATTACAAAAAATACCCCT-AGGA
* * * *
2346564 GATA-TTTCGA-GTTA-AAGTGCCCGATACCCCTAAAGAACTTAAAAATATTATAAATGGGGTGA
1 GATACCTTCGATG-TAGAAGTACCCGATACCCCTAAAAAACTTAAAAAAATTATAAATGGGGTGA
* * * *
2346626 AACTATCCTAGATACCACCTTCAGCACAAAAGTTGACCCAGTGACAACCTAAGACTCGGTTTCTA
65 AACTATCCTAAATACCACCTTCAGCACAAAAGTCGAACCAGTGACAACCTAAGACTCGATTTCTA
2346691 AAAAATTACAAAAAATACCCCTAGGA
130 AAAAATTACAAAAAATACCCCTAGGA
*
2346717 GATTCCTTCGATGTAGAAGTACCCGATACCCCTAAAAAACTTAAAAAGAATTATAAATGGGGTGG
1 GATACCTTCGATGTAGAAGTACCCGATACCCCTAAAAAACTTAAAAA-AATTATAAATGGGGT-G
* * * * * *
2346782 TAAACCTATCCTAAATACCCATCTTC-GACAGAAAAG-CGAACTAGGTGACAACTTAGGAGTCGA
64 -AAA-CTATCCTAAATA-CCACCTTCAG-CACAAAAGTCGAACCA-GTGACAACCTAAGACTCGA
** * *
2346845 TTT-TGAAAAAATTATGAAAAATACCTCTAGGG
124 TTTCT-AAAAAATTACAAAAAATACCCCTAGGA
2346877 GATACCTTC
1 GATACCTTC
2346886 AACGTAAAAG
Statistics
Matches: 259, Mismatches: 47, Indels: 28
0.78 0.14 0.08
Matches are distributed among these distances:
152 38 0.15
153 48 0.19
154 33 0.13
155 38 0.15
156 18 0.07
157 1 0.00
158 3 0.01
159 17 0.07
160 63 0.24
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (155 bp):
GATACCTTCGATGTAGAAGTACCCGATACCCCTAAAAAACTTAAAAAAATTATAAATGGGGTGAA
ACTATCCTAAATACCACCTTCAGCACAAAAGTCGAACCAGTGACAACCTAAGACTCGATTTCTAA
AAAATTACAAAAAATACCCCTAGGA
Found at i:2350944 original size:15 final size:14
Alignment explanation
Indices: 2350926--2351006 Score: 80
Period size: 15 Copynumber: 5.8 Consensus size: 14
2350916 ATCCGGACCC
2350926 TTTTTGTTGTTGTT
1 TTTTTGTTGTTGTT
2350940 GTTTTTGTT-TTGTT
1 -TTTTTGTTGTTGTT
2350954 TTTTT-TTGCTTTGTT
1 TTTTTGTTG--TTGTT
*
2350969 TTTTTGTT-TTTTGT
1 TTTTTGTTGTTGT-T
*
2350983 TTTTTGTTTTTGTT
1 TTTTTGTTGTTGTT
2350997 TTTTT-TTGTT
1 TTTTTGTTGTT
2351007 TATTTGGTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
12 2 0.04
13 12 0.21
14 20 0.35
15 21 0.37
16 2 0.04
ACGTcount: A:0.00, C:0.01, G:0.16, T:0.83
Consensus pattern (14 bp):
TTTTTGTTGTTGTT
Found at i:2350952 original size:20 final size:20
Alignment explanation
Indices: 2350927--2351023 Score: 79
Period size: 18 Copynumber: 5.3 Consensus size: 20
2350917 TCCGGACCCT
*
2350927 TTTTGTTGTTGTTGTTTTTG
1 TTTTGTTGTTTTTGTTTTTG
2350947 --TT-TTG-TTTT-TTTTTG
1 TTTTGTTGTTTTTGTTTTTG
*
2350962 CTTTGTT-TTTTTGTTTTTTG
1 TTTTGTTGTTTTTG-TTTTTG
2350982 TTTT-TTGTTTTTGTTTTT-
1 TTTTGTTGTTTTTGTTTTTG
* *
2351000 TTTTGTT-TATTTGGTTTT-
1 TTTTGTTGTTTTTGTTTTTG
2351018 TTTTGT
1 TTTTGT
2351024 GGAGGACGCC
Statistics
Matches: 65, Mismatches: 4, Indels: 18
0.75 0.05 0.21
Matches are distributed among these distances:
15 6 0.09
16 3 0.05
17 5 0.08
18 27 0.42
19 9 0.14
20 15 0.23
ACGTcount: A:0.01, C:0.01, G:0.16, T:0.81
Consensus pattern (20 bp):
TTTTGTTGTTTTTGTTTTTG
Found at i:2350956 original size:6 final size:6
Alignment explanation
Indices: 2350932--2351007 Score: 65
Period size: 5 Copynumber: 13.0 Consensus size: 6
2350922 ACCCTTTTTG
*
2350932 TTGTTG TTGTTT TTG-TT TTG-TT TT-TTT TTGCTTT GTT-TTT TTGTTTT
1 TTGTTT TTGTTT TTGTTT TTGTTT TTGTTT TTG-TTT -TTGTTT TTG-TTT
2350979 TTGTTTT TTGTTT TTG-TT TT-TTT TTGTTT
1 TTG-TTT TTGTTT TTGTTT TTGTTT TTGTTT
2351008 ATTTGGTTTT
Statistics
Matches: 61, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
5 23 0.38
6 20 0.33
7 16 0.26
8 2 0.03
ACGTcount: A:0.00, C:0.01, G:0.16, T:0.83
Consensus pattern (6 bp):
TTGTTT
Found at i:2351017 original size:14 final size:13
Alignment explanation
Indices: 2350926--2351000 Score: 71
Period size: 13 Copynumber: 5.4 Consensus size: 13
2350916 ATCCGGACCC
*
2350926 TTTTTGTTGTTGT
1 TTTTTGTTTTTGT
2350939 TGTTTT-TGTTTTGT
1 T-TTTTGT-TTTTGT
*
2350953 TTTTTTTTGCTTTGTT
1 TTTTTGTT--TTTG-T
2350969 TTTTTGTTTTTTGT
1 TTTTTG-TTTTTGT
2350983 TTTTTGTTTTTGT
1 TTTTTGTTTTTGT
2350996 TTTTT
1 TTTTT
2351001 TTTGTTTATT
Statistics
Matches: 53, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
13 19 0.36
14 18 0.34
15 8 0.15
16 6 0.11
17 2 0.04
ACGTcount: A:0.00, C:0.01, G:0.16, T:0.83
Consensus pattern (13 bp):
TTTTTGTTTTTGT
Found at i:2365074 original size:52 final size:52
Alignment explanation
Indices: 2364874--2365054 Score: 317
Period size: 52 Copynumber: 3.5 Consensus size: 52
2364864 TGAAATATGA
2364874 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
2364926 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * * *
2364978 AAATTTGCCTCCATGTATCAATACATTTTATAGTGTATCGATACATCTGGAC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
2365030 AAATTTGCTTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2365055 AAGATCAGTG
Statistics
Matches: 122, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 122 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:2365081 original size:13 final size:13
Alignment explanation
Indices: 2365063--2365087 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2365053 CAAAGATCAG
2365063 TGTATCGATACAA
1 TGTATCGATACAA
2365076 TGTATCGATACA
1 TGTATCGATACA
2365088 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2365167 original size:13 final size:13
Alignment explanation
Indices: 2365149--2365173 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2365139 ACAAAACTTA
2365149 TGTATCGATACAT
1 TGTATCGATACAT
2365162 TGTATCGATACA
1 TGTATCGATACA
2365174 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2365169 original size:32 final size:33
Alignment explanation
Indices: 2365128--2365193 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
2365118 AGTAGCTTAT
2365128 ATTGTATCGATACAAAAC-TTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
*
2365160 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
2365193 A
1 A
2365194 AATCGTTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.53
33 15 0.47
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACAAAACTTTATGTATCGATAC
Found at i:2369109 original size:20 final size:19
Alignment explanation
Indices: 2369084--2369141 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
2369074 GAAACATTTT
*
2369084 TAAATGTATCGATACATGTA
1 TAAATGTATCAATACAT-TA
* *
2369104 TGAATGTATCAATATATTA
1 TAAATGTATCAATACATTA
*
2369123 TTCAATGTATCAATACATT
1 -TAAATGTATCAATACATT
2369142 CTGTCTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (19 bp):
TAAATGTATCAATACATTA
Found at i:2370113 original size:22 final size:23
Alignment explanation
Indices: 2370088--2370134 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
2370078 TTTTAATGTG
*
2370088 TCCAGCATTTCATTGAATG-TTA
1 TCCAGCAGTTCATTGAATGATTA
* *
2370110 TCCATCAGTTCATTGTATGATTA
1 TCCAGCAGTTCATTGAATGATTA
2370133 TC
1 TC
2370135 ACATTTTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.43
Consensus pattern (23 bp):
TCCAGCAGTTCATTGAATGATTA
Found at i:2383022 original size:9 final size:9
Alignment explanation
Indices: 2383005--2383047 Score: 50
Period size: 10 Copynumber: 4.4 Consensus size: 9
2382995 CCTTCATACC
2383005 CAAAAAAAA
1 CAAAAAAAA
*
2383014 AAGAAAAAAA
1 CA-AAAAAAA
2383024 CTAAAAAAAA
1 C-AAAAAAAA
2383034 CAAAAAAAAA
1 C-AAAAAAAA
2383044 CAAA
1 CAAA
2383048 GGAAAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 4 0.14
10 24 0.83
11 1 0.03
ACGTcount: A:0.86, C:0.09, G:0.02, T:0.02
Consensus pattern (9 bp):
CAAAAAAAA
Found at i:2383038 original size:25 final size:24
Alignment explanation
Indices: 2383006--2383066 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
2382996 CTTCATACCC
* *
2383006 AAAAA-AAAAAGAAAAAAACTAAA
1 AAAAACAAAAAAAAAAAAACGAAA
* *
2383029 AAAAACAAAAAAAAACAAAGGAAA
1 AAAAACAAAAAAAAAAAAACGAAA
2383053 AAATAACAAAAAAA
1 AAA-AACAAAAAAA
2383067 CAGAAAGGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 5 0.16
24 17 0.53
25 10 0.31
ACGTcount: A:0.85, C:0.07, G:0.05, T:0.03
Consensus pattern (24 bp):
AAAAACAAAAAAAAAAAAACGAAA
Found at i:2383068 original size:33 final size:31
Alignment explanation
Indices: 2383006--2383065 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
2382996 CTTCATACCC
2383006 AAAAAAAAAAGAAAAAAACTAAAAAAAACAA
1 AAAAAAAAAAGAAAAAAACTAAAAAAAACAA
*
2383037 AAAAAAACAAAGGAAAAAA-TAACAAAAAA
1 AAAAAAA-AAAGAAAAAAACTAA-AAAAAA
2383066 ACAGAAAGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 10 0.38
32 16 0.62
ACGTcount: A:0.85, C:0.07, G:0.05, T:0.03
Consensus pattern (31 bp):
AAAAAAAAAAGAAAAAAACTAAAAAAAACAA
Found at i:2384112 original size:28 final size:28
Alignment explanation
Indices: 2384072--2384366 Score: 340
Period size: 28 Copynumber: 10.1 Consensus size: 28
2384062 CGTTCATCTC
* * *
2384072 TTCAAAGCGCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
2384100 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
* **
2384129 TACAAAGCCCACACGAGTTGGTGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CTT
* *
2384161 TTCAAAGCCTACAAGTCAGTGGCATCC-G
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
2384189 TTCAAAGCCCACAAGTCAGTGGCACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
*
2384217 TTCAGAGCCCACAAGTCAGTGGCACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
* *
2384245 TTCAGAGCCCACAAGTCAGTGGCATTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
2384274 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
*
2384303 TTCAAAGCCCACACGAGTCAGTGGCAACTATT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CTT
*
2384335 TTCAAAGCCCACACAAGTTAGTGGCACCTT
1 TTCAAAG-CC-CACAAGTCAGTGGCACCTT
2384365 TT
1 TT
2384367 TTTAAAAAAA
Statistics
Matches: 234, Mismatches: 20, Indels: 24
0.84 0.07 0.09
Matches are distributed among these distances:
27 2 0.01
28 97 0.41
29 58 0.25
30 13 0.06
31 20 0.09
32 38 0.16
33 2 0.01
34 4 0.02
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.23
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCTT
Found at i:2384281 original size:145 final size:147
Alignment explanation
Indices: 2384072--2384366 Score: 393
Period size: 145 Copynumber: 2.0 Consensus size: 147
2384062 CGTTCATCTC
* *
2384072 TTCAAAGCGCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTACAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTACAAAGC
** * *
2384137 CCACACGAGTTGGTGGCAACTCTTTTCAAAGCCTACA-AGTCAGTGGC-A-TCCGTTCAAAG-CC
66 CCACA--AGTCAGTGGC-ACTCTTTTCAAAGCCCACACAGTCAGTGGCAACTACGTTCAAAGCCC
2384198 -CACAAGTCAGTGGCACCTT
128 ACACAAGTCAGTGGCACCTT
* * * * *
2384217 TTCAGAGCCCACAAGTCAGTGGCACCTTTTCAGAGCCCACAAGTCAGTGGCATTCTTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTACAAAGC
**
2384282 CCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGTCAGTGGCAACTATTTTCAAAGCCCAC
66 CCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAC-AGTCAGTGGCAACTACGTTCAAAGCCCAC
*
2384347 ACAAGTTAGTGGCACCTT
130 ACAAGTCAGTGGCACCTT
2384365 TT
1 TT
2384367 TTTAAAAAAA
Statistics
Matches: 130, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
142 18 0.14
143 8 0.06
144 10 0.08
145 64 0.49
146 8 0.06
147 2 0.02
148 20 0.15
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.23
Consensus pattern (147 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTACAAAGC
CCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACAGTCAGTGGCAACTACGTTCAAAGCCCACA
CAAGTCAGTGGCACCTT
Found at i:2384827 original size:16 final size:17
Alignment explanation
Indices: 2384796--2384832 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
2384786 AGGATCTGGA
2384796 TTAATTGAGCTTTTTTT
1 TTAATTGAGCTTTTTTT
*
2384813 TTAATTTAG-TTTTTTT
1 TTAATTGAGCTTTTTTT
2384829 TTAA
1 TTAA
2384833 AAAAAGAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.22, C:0.03, G:0.08, T:0.68
Consensus pattern (17 bp):
TTAATTGAGCTTTTTTT
Found at i:2385236 original size:20 final size:20
Alignment explanation
Indices: 2385213--2385265 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
2385203 AAGTACCCAG
*
2385213 ATGTATCGATACACT-TTTCA
1 ATGTATCGATACA-TGTATCA
*
2385233 ATGTATCGATACATGTATGA
1 ATGTATCGATACATGTATCA
2385253 ATGTATCGATACA
1 ATGTATCGATACA
2385266 ATCTGTCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATGTATCA
Found at i:2389393 original size:32 final size:31
Alignment explanation
Indices: 2389352--2389411 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 31
2389342 CTCTTTCCCA
** *
2389352 TTTTTATTCCCATTGTATCCTGTGATCTCCT
1 TTTTTATTCCCATCATATCCTATGATCTCCT
*
2389383 TTTTTCATTCCTATCATATCCTATGATCT
1 TTTTT-ATTCCCATCATATCCTATGATCT
2389412 TTTTTTTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 5 0.21
32 19 0.79
ACGTcount: A:0.17, C:0.25, G:0.07, T:0.52
Consensus pattern (31 bp):
TTTTTATTCCCATCATATCCTATGATCTCCT
Found at i:2392077 original size:93 final size:93
Alignment explanation
Indices: 2391914--2392094 Score: 272
Period size: 93 Copynumber: 1.9 Consensus size: 93
2391904 TTATGATGAT
* * * *
2391914 TGTCGCAACGTGCATTCGACCTTGGTGATAGGACAAATGAGGCGCACCCGACTTAATATCCCTCG
1 TGTCGCAACATGCACTCGACCTCGGCGATAGGACAAATGAGGCGCACCCGACTTAATATCCCTCG
*
2391979 TGATTGGAGATTTCTATGGCATGGTAAG
66 CGATTGGAGATTTCTATGGCATGGTAAG
* * * *
2392007 TGTCGCAACATGCGCTCGACCTCGGCGATAGGGCAAATGAGGCGCGCTCGACTTAATATCCCTCG
1 TGTCGCAACATGCACTCGACCTCGGCGATAGGACAAATGAGGCGCACCCGACTTAATATCCCTCG
*
2392072 CGATTGGGGATTTCTATGGCATG
66 CGATTGGAGATTTCTATGGCATG
2392095 ATGGGAAGTA
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 78 1.00
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (93 bp):
TGTCGCAACATGCACTCGACCTCGGCGATAGGACAAATGAGGCGCACCCGACTTAATATCCCTCG
CGATTGGAGATTTCTATGGCATGGTAAG
Found at i:2395191 original size:13 final size:13
Alignment explanation
Indices: 2395173--2395200 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2395163 ATACAAAGAT
2395173 CAATGTATCGATA
1 CAATGTATCGATA
2395186 CAATGTATCGATA
1 CAATGTATCGATA
2395199 CA
1 CA
2395201 TTGAATAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2395193 original size:33 final size:33
Alignment explanation
Indices: 2395155--2395220 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
2395145 AAATTCCCAG
*
2395155 ATGTATTGATACAAAG-ATCAATGTATCGATACA
1 ATGTATCGATACAAAGAAT-AATGTATCGATACA
**
2395188 ATGTATCGATACATTGAATAATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
2395221 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCGATACA
Found at i:2395276 original size:19 final size:19
Alignment explanation
Indices: 2395252--2395314 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
2395242 AGCGATACAT
2395252 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
*
2395271 TGTATC-A-A-TACA--T-
1 TGTATCGATACAACACTTA
2395284 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
2395303 TGTATCGATACA
1 TGTATCGATACA
2395315 TTTACTATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 6 0.17
14 2 0.06
15 1 0.03
16 6 0.17
17 1 0.03
18 2 0.06
19 18 0.50
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:2395287 original size:32 final size:32
Alignment explanation
Indices: 2395246--2395316 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
2395236 CTTTGTAGCG
2395246 ATACATTGTATCGATACAACACTTATGTATCA
1 ATACATTGTATCGATACAACACTTATGTATCA
*
2395278 ATACATTGTATCGATACAACACTTATGTATCG
1 ATACATTGTATCGATACAACACTTATGTATCA
2395310 ATACATT
1 ATACATT
2395317 TACTATTTGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (32 bp):
ATACATTGTATCGATACAACACTTATGTATCA
Found at i:2396235 original size:49 final size:49
Alignment explanation
Indices: 2396076--2396922 Score: 696
Period size: 49 Copynumber: 17.8 Consensus size: 49
2396066 GAAGAATGAA
* ** * * * * * *
2396076 AATGTGCTGATTCATGGCCAGTTACACTAGACTTGAAGAAGAA-TTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCC
** * * * * *
2396124 AATGTGCTGAGACAAGGCCAGTGACATTGGGCTTAGGAATGTTAAAGATGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA--AA-GATGAAGGTGCC
* * * * *
2396176 AATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATAAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCC
* *
2396225 AATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGATGGTTAAGGTGCT
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-G--AAGGTGCC
* ** *
2396277 AATGTGCTGATTCAAGGCCAACGACATCAGTCTTAAAGATGAAAGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCC
* * * ** *
2396326 AATGTGCTAATTCAAGGCCAACGACATTAGTCTTAAAGATGAAGGCACT
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCC
* * *
2396375 AATGTGCTGATTCAAGGCCAGCGATATTGGTCATAAAGATGAAGGCGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCC
* ** * * *
2396424 AATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGATGAAGGTGCT
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCC
* *
2396473 AATGTGCTAATTCAAGGCCAGCAACATTGGTC-T-----T----GTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCC
** * *
2396512 AATGTATTGATTCAAGGCCAGTGACATCGGTCTTAAAGATGAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCC
* * * *
2396561 AATGTGCTAATTCAAGGCCAACAACATTGGTCTTAAAGATGAAGGCGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCC
* *
2396610 AATGTGCTGATTCAAGGCCAGCGACATTGGTCATAAAGATGAAGGCGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCC
* ** * * *
2396659 AATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGATGAAGGTGCT
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCC
* *
2396708 AATGTGCTGATTCAAGGCCAGCAACATTGGTC-T-----T----GTGCT
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCC
* * * *
2396747 AATGTACTGATTTAAGGCCAGTGACATTGGTCTTAAAGA-CAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCC
* * * * *
2396795 AATATGCAGATTCAAGGCCAGTGATATTGGGC-T-----T----GTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCC
** * * *
2396834 AATGTATTGATTCAAGGCCAGTGACATTGGTCTTAAAGCTAAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCC
* * *
2396883 AATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTA-AAGA
2396923 AGACGCCACC
Statistics
Matches: 642, Mismatches: 118, Indels: 76
0.77 0.14 0.09
Matches are distributed among these distances:
39 94 0.15
40 3 0.00
43 2 0.00
45 2 0.00
47 1 0.00
48 59 0.09
49 395 0.62
50 7 0.01
51 4 0.01
52 75 0.12
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (49 bp):
AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCC
Found at i:2396570 original size:88 final size:91
Alignment explanation
Indices: 2396421--2396679 Score: 299
Period size: 88 Copynumber: 2.8 Consensus size: 91
2396411 AGATGAAGGC
* * * * * *
2396421 GCCAATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGATGAAGGTGCTAATGTGCTAATTC
1 GCCAATGTACTGATTCAAGGCCAGTGACATTGGTCTTAAAGATGAAGGTGCCAATGTGCTAATTC
*
2396486 AAGGCCAGCAACATTGGTCTT-G-T-
66 AAGGCCAACAACATTGGTCTTAGATG
* *
2396509 GCCAATGTATTGATTCAAGGCCAGTGACATCGGTCTTAAAGATGAAGGTGCCAATGTGCTAATTC
1 GCCAATGTACTGATTCAAGGCCAGTGACATTGGTCTTAAAGATGAAGGTGCCAATGTGCTAATTC
2396574 AAGGCCAACAACATTGGTCTTAAAGATGAAGG
66 AAGGCCAACAACATTGGTCTT--AGAT----G
* * * * * *
2396606 CGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCATAAAGATGAAGGCGCCAATATGCTGATT
1 -GCCAATGTACTGATTCAAGGCCAGTGACATTGGTCTTAAAGATGAAGGTGCCAATGTGCTAATT
2396671 CAAGGCCAA
65 CAAGGCCAA
2396680 TGATATTGGA
Statistics
Matches: 144, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
88 77 0.53
91 1 0.01
92 1 0.01
98 65 0.45
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (91 bp):
GCCAATGTACTGATTCAAGGCCAGTGACATTGGTCTTAAAGATGAAGGTGCCAATGTGCTAATTC
AAGGCCAACAACATTGGTCTTAGATG
Found at i:2396649 original size:186 final size:186
Alignment explanation
Indices: 2396321--2396678 Score: 491
Period size: 186 Copynumber: 1.9 Consensus size: 186
2396311 AAAGATGAAA
* * * *
2396321 GTGCCAATGTGCTAATTCAAGGCCAACGACATTAGTCTTAAAGATGAAGGCACTAATGTGCTGAT
1 GTGCCAATGTACTAATTCAAGGCCAACGACATCAGTCTTAAAGATGAAGGCACCAATGTGCTAAT
* * * * *
2396386 TCAAGGCCAGCGATATTGGTCATAAAGATGAAGGCGCCAATATGCTGATTCAAGGCCAATGATAT
66 TCAAGGCCAACAACATTGGTCATAAAGATGAAGGCGCCAATATGCTGATTCAAGGCCAACGACAT
* * * *
2396451 TGGACTTAAAGATGAAGGTGCTAATGTGCTAATTCAAGGCCAGCAACATTGGTCTT
131 TGGACATAAAGATGAAGGCGCCAATATGCTAATTCAAGGCCAGCAACATTGGTCTT
* * ** * **
2396507 GTGCCAATGTATTGATTCAAGGCCAGTGACATCGGTCTTAAAGATGAAGGTGCCAATGTGCTAAT
1 GTGCCAATGTACTAATTCAAGGCCAACGACATCAGTCTTAAAGATGAAGGCACCAATGTGCTAAT
* * *
2396572 TCAAGGCCAACAACATTGGTCTTAAAGATGAAGGCGCCAATGTGCTGATTCAAGGCCAGCGACAT
66 TCAAGGCCAACAACATTGGTCATAAAGATGAAGGCGCCAATATGCTGATTCAAGGCCAACGACAT
* *
2396637 TGGTCATAAAGATGAAGGCGCCAATATGCTGATTCAAGGCCA
131 TGGACATAAAGATGAAGGCGCCAATATGCTAATTCAAGGCCA
2396679 ATGATATTGG
Statistics
Matches: 147, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
186 147 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (186 bp):
GTGCCAATGTACTAATTCAAGGCCAACGACATCAGTCTTAAAGATGAAGGCACCAATGTGCTAAT
TCAAGGCCAACAACATTGGTCATAAAGATGAAGGCGCCAATATGCTGATTCAAGGCCAACGACAT
TGGACATAAAGATGAAGGCGCCAATATGCTAATTCAAGGCCAGCAACATTGGTCTT
Found at i:2396695 original size:235 final size:235
Alignment explanation
Indices: 2396272--2396922 Score: 921
Period size: 235 Copynumber: 2.8 Consensus size: 235
2396262 GATGGTTAAG
* * ** * *
2396272 GTGCTAATGTGCTGATTCAAGGCCAACGACATCAGTCTTAAAGATGAAAGTGCCAATGTGCTAAT
1 GTGCCAATGTACTGATTCAAGGCCAGTGACATCGGTCTTAAAGATGAAGGTGCCAATGTGCTAAT
* * * *
2396337 TCAAGGCCAACGACATTAGTCTTAAAGATGAAGGCACTAATGTGCTGATTCAAGGCCAGCGATAT
66 TCAAGGCCAACGACATTGGTCTTAAAGATGAAGGCGCCAATGTGCTGATTCAAGGCCAGCGACAT
2396402 TGGTCATAAAGATGAAGGCGCCAATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGATGAA
131 TGGTCATAAAGATGAAGGCGCCAATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGATGAA
2396467 GGTGCTAATGTGCTAATTCAAGGCCAGCAACATTGGTCTT
196 GGTGCTAATGTGCTAATTCAAGGCCAGCAACATTGGTCTT
*
2396507 GTGCCAATGTATTGATTCAAGGCCAGTGACATCGGTCTTAAAGATGAAGGTGCCAATGTGCTAAT
1 GTGCCAATGTACTGATTCAAGGCCAGTGACATCGGTCTTAAAGATGAAGGTGCCAATGTGCTAAT
*
2396572 TCAAGGCCAACAACATTGGTCTTAAAGATGAAGGCGCCAATGTGCTGATTCAAGGCCAGCGACAT
66 TCAAGGCCAACGACATTGGTCTTAAAGATGAAGGCGCCAATGTGCTGATTCAAGGCCAGCGACAT
2396637 TGGTCATAAAGATGAAGGCGCCAATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGATGAA
131 TGGTCATAAAGATGAAGGCGCCAATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGATGAA
*
2396702 GGTGCTAATGTGCTGATTCAAGGCCAGCAACATTGGTCTT
196 GGTGCTAATGTGCTAATTCAAGGCCAGCAACATTGGTCTT
* * * * *
2396742 GTGCTAATGTACTGATTTAAGGCCAGTGACATTGGTCTTAAAGA-CAAGGTGCCAATATGC-AGA
1 GTGCCAATGTACTGATTCAAGGCCAGTGACATCGGTCTTAAAGATGAAGGTGCCAATGTGCTA-A
** * * ** *
2396805 TTCAAGGCCAGTGATATTGGGCTT---G-T------GCCAATGTATTGATTCAAGGCCAGTGACA
65 TTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGCGCCAATGTGCTGATTCAAGGCCAGCGACA
* * * * **
2396860 TTGGTCTTAAAGCTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
130 TTGGTCATAAAGATGAAGGCGCCAATATGCTGATTCAAGGCCAATGATATTGGACTTA-AAGA
2396923 AGACGCCACC
Statistics
Matches: 381, Mismatches: 33, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
224 78 0.20
225 4 0.01
230 1 0.00
231 1 0.00
233 1 0.00
234 34 0.09
235 262 0.69
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (235 bp):
GTGCCAATGTACTGATTCAAGGCCAGTGACATCGGTCTTAAAGATGAAGGTGCCAATGTGCTAAT
TCAAGGCCAACGACATTGGTCTTAAAGATGAAGGCGCCAATGTGCTGATTCAAGGCCAGCGACAT
TGGTCATAAAGATGAAGGCGCCAATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGATGAA
GGTGCTAATGTGCTAATTCAAGGCCAGCAACATTGGTCTT
Found at i:2396757 original size:39 final size:39
Alignment explanation
Indices: 2396703--2396780 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
2396693 AAAGATGAAG
*
2396703 GTGCTAATGTGCTGATTCAAGGCCAGCAACATTGGTCTT
1 GTGCTAATGTACTGATTCAAGGCCAGCAACATTGGTCTT
* **
2396742 GTGCTAATGTACTGATTTAAGGCCAGTGACATTGGTCTT
1 GTGCTAATGTACTGATTCAAGGCCAGCAACATTGGTCTT
2396781 AAAGACAAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (39 bp):
GTGCTAATGTACTGATTCAAGGCCAGCAACATTGGTCTT
Found at i:2396830 original size:87 final size:87
Alignment explanation
Indices: 2396656--2396912 Score: 336
Period size: 87 Copynumber: 2.9 Consensus size: 87
2396646 AGATGAAGGC
* * * * * * * *
2396656 GCCAATATGCTGATTCAAGGCCAATGATATTGGACTTAAAGATGAAGGTGCTAATGTGCTGATTC
1 GCCAATGTACTGATTCAAGGCCAGTGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTC
* * *
2396721 AAGGCCAGCAACATTGGTCTTGT
65 AAGGCCAGCGATATTGGGCTTGT
* * *
2396744 GCTAATGTACTGATTTAAGGCCAGTGACATTGGTCTTAAAGACAAGGTGCCAATATGCAGATTCA
1 GCCAATGTACTGATTCAAGGCCAGTGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCA
*
2396809 AGGCCAGTGATATTGGGCTTGT
66 AGGCCAGCGATATTGGGCTTGT
*
2396831 GCCAATGTATTGATTCAAGGCCAGTGACATTGGTCTTAAAG-CTAAAGGTGCCAATATGCTGATT
1 GCCAATGTACTGATTCAAGGCCAGTGACATTGGTCTTAAAGAC--AAGGTGCCAATATGCTGATT
2396895 CAAGGCCAGCGATATTGG
64 CAAGGCCAGCGATATTGG
2396913 ACTTAGAAGA
Statistics
Matches: 147, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
86 1 0.01
87 75 0.51
88 71 0.48
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (87 bp):
GCCAATGTACTGATTCAAGGCCAGTGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCA
AGGCCAGCGATATTGGGCTTGT
Found at i:2397026 original size:30 final size:30
Alignment explanation
Indices: 2396927--2397034 Score: 123
Period size: 30 Copynumber: 3.6 Consensus size: 30
2396917 AGAAGAAGAC
2396927 GCCACCAACTTGTGTTGGCTTTTGAAAGGGTT
1 GCCACCAACTTGTG--GGCTTTTGAAAGGGTT
* *
2396959 G-CATCAACTTGTGTGCTTTTG-AA-GGTT
1 GCCACCAACTTGTGGGCTTTTGAAAGGGTT
** *
2396986 GCCACTGACTTGTGGGCTTTTGAAAGGGGT
1 GCCACCAACTTGTGGGCTTTTGAAAGGGTT
*
2397016 GCCACCGACTTGTGGGCTT
1 GCCACCAACTTGTGGGCTT
2397035 ACAGGTAAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
27 5 0.08
28 18 0.28
29 9 0.14
30 21 0.32
31 11 0.17
32 1 0.02
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (30 bp):
GCCACCAACTTGTGGGCTTTTGAAAGGGTT
Found at i:2397133 original size:33 final size:33
Alignment explanation
Indices: 2397096--2397164 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
2397086 CACAGAGCCA
*
2397096 TGGACTTAAAAAGAAAAAAATGCCACGGAGTTG
1 TGGACTTAAAAAGAAAAAAATGCCACGGACTTG
* *
2397129 TGGACTTAAAAGGAAAAAGATGCCACGGACTTG
1 TGGACTTAAAAAGAAAAAAATGCCACGGACTTG
2397162 TGG
1 TGG
2397165 GCTTTTGAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.41, C:0.13, G:0.28, T:0.19
Consensus pattern (33 bp):
TGGACTTAAAAAGAAAAAAATGCCACGGACTTG
Found at i:2397182 original size:28 final size:28
Alignment explanation
Indices: 2397149--2397287 Score: 251
Period size: 28 Copynumber: 5.0 Consensus size: 28
2397139 AGGAAAAAGA
*
2397149 TGCCACGGACTTGTGGGCTTTTGAAGGT
1 TGCCACTGACTTGTGGGCTTTTGAAGGT
2397177 TGCCACTGACTTGTGGGCTTTTGAAGGT
1 TGCCACTGACTTGTGGGCTTTTGAAGGT
*
2397205 TGCCACTGACTTGTGGGCTTTTAAAGGT
1 TGCCACTGACTTGTGGGCTTTTGAAGGT
*
2397233 TGCCACTGACTTGTGGGCTTTTAAAGGT
1 TGCCACTGACTTGTGGGCTTTTGAAGGT
2397261 TGCCACTGACTTGTGGGCTTTTGAAGG
1 TGCCACTGACTTGTGGGCTTTTGAAGG
2397288 GTGAGCAATG
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 108 1.00
ACGTcount: A:0.16, C:0.18, G:0.32, T:0.35
Consensus pattern (28 bp):
TGCCACTGACTTGTGGGCTTTTGAAGGT
Found at i:2398726 original size:1 final size:1
Alignment explanation
Indices: 2398722--2398811 Score: 63
Period size: 1 Copynumber: 90.0 Consensus size: 1
2398712 TTTGTTGTTG
* * * * * * * * * * *
2398722 TTTTTTTTGTTTTTGTTTGTTTTTTGTTTTTTTTTTATTTTTGTTTGTTTTGTTTTTTGTCTTTC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
2398787 TTTTTTTTGTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
2398812 GTAAAGGACG
Statistics
Matches: 63, Mismatches: 26, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.01, C:0.02, G:0.11, T:0.86
Consensus pattern (1 bp):
T
Found at i:2398762 original size:28 final size:27
Alignment explanation
Indices: 2398716--2398811 Score: 124
Period size: 28 Copynumber: 3.5 Consensus size: 27
2398706 ACCCTTTTTG
*
2398716 TTGTTGTTTTTTTTGTTTTTGTTTGTTTT
1 TTGTT-TTTTTTTTATTTTTGTTTG-TTT
2398745 TTGTTTTTTTTTTATTTTTGTTTG-TT
1 TTGTTTTTTTTTTATTTTTGTTTGTTT
*
2398771 TTGTTTTTTGTCTTTCTTTTT-TTTGTTT
1 TTGTTTTTT-T-TTTATTTTTGTTTGTTT
2398799 TTGTTTTTTTTTT
1 TTGTTTTTTTTTT
2398812 GTAAAGGACG
Statistics
Matches: 62, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
26 14 0.23
27 6 0.10
28 37 0.60
29 5 0.08
ACGTcount: A:0.01, C:0.02, G:0.12, T:0.84
Consensus pattern (27 bp):
TTGTTTTTTTTTTATTTTTGTTTGTTT
Found at i:2398779 original size:33 final size:34
Alignment explanation
Indices: 2398722--2398813 Score: 120
Period size: 33 Copynumber: 2.8 Consensus size: 34
2398712 TTTGTTGTTG
*
2398722 TTTTTTTTGTTTTTGTTTGTTTTTTGT-TTT-TTT
1 TTTTTTTTGTTTGT-TTTGTTTTTTGTCTTTCTTT
2398755 TTTATTTTTGTTTGTTTTGTTTTTTGTCTTTCTTT
1 TTT-TTTTTGTTTGTTTTGTTTTTTGTCTTTCTTT
*
2398790 TTTTTGTT-TTTGTTTT-TTTTTTGT
1 TTTTTTTTGTTTGTTTTGTTTTTTGT
2398814 AAAGGACGCC
Statistics
Matches: 54, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
32 8 0.15
33 23 0.43
34 17 0.31
35 6 0.11
ACGTcount: A:0.01, C:0.02, G:0.12, T:0.85
Consensus pattern (34 bp):
TTTTTTTTGTTTGTTTTGTTTTTTGTCTTTCTTT
Found at i:2406600 original size:20 final size:20
Alignment explanation
Indices: 2406575--2406652 Score: 104
Period size: 20 Copynumber: 3.9 Consensus size: 20
2406565 GTAAAAAGAT
*
2406575 AGAATGTATCGATACATAGA
1 AGAATGTATCGATACATTGA
*
2406595 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
*
2406615 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
*
2406635 AAAATGTATCGATACATT
1 AGAATGTATCGATACATT
2406653 TGGGTAAAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
19 1 0.02
20 49 0.96
21 1 0.02
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:2407978 original size:28 final size:28
Alignment explanation
Indices: 2407872--2408538 Score: 619
Period size: 28 Copynumber: 23.1 Consensus size: 28
2407862 TTAAAAAAAA
* *
2407872 GGTGCCACTAACTTGTGTAGGCTTTGAAAAAA
1 GGTGCCACTGACTTGTG--GGCTTTG--AAAG
* * *
2407904 GTTACCACTGACTTGTGTGGGTTTTGAAAG
1 GGTGCCACTGAC-T-TGTGGGCTTTGAAAG
2407934 GGTATGCCACTGACTTGTGGGCTTTGAAAG
1 GG--TGCCACTGACTTGTGGGCTTTGAAAG
2407964 GGTGCCACTGACTTGTGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
* * *
2407993 AGTGGCCACCGACTTGTGTGGACTTTGAAAAT
1 GGT-GCCACTGACTTGTG-GG-CTTTG-AAAG
* * *
2408025 AGTGCCACTGACTTTTAGGCTTTG-AAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
2408052 GGTGCCGCTAACTTGTGGCCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
2408080 GATGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
2408108 GGTGCCACTGACTTGTGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
* ** *
2408137 AGTGGCCACCAACTTGTGTGGACTTTGAAAAT
1 GGT-GCCACTGACTTGTG-GG-CTTTG-AAAG
* * *
2408169 AGTGCCACTGACTTTTAGGCTTTG-AAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
2408196 GGTGCCACTAACTTGTGGCCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
2408224 GATGCCACTGACTTGTAGACTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
2408252 GATGCCACTGACTTGTGGGCTTTGAAAA
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
2408280 TGTGCCACT-AGCTTATGGGCTTTGAAAG
1 GGTGCCACTGA-CTTGTGGGCTTTGAAAG
* *
2408308 GATGCCATTGACTTGTGGGCTTTGAGAA-
1 GGTGCCACTGACTTGTGGGCTTTGA-AAG
*
2408336 GGTGCCACTAACTTGTGGGCTTTGACAA-
1 GGTGCCACTGACTTGTGGGCTTTGA-AAG
**
2408364 GGTGCCACTGACTTGTGCACTTTGAGAA-
1 GGTGCCACTGACTTGTGGGCTTTGA-AAG
**
2408392 GGTGCCACTGACTTGTACGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
** ** *
2408421 TATTGCCACCAACTTGTGGGCTTTGAAAA
1 -GGTGCCACTGACTTGTGGGCTTTGAAAG
*
2408450 GATGCCACTGACTTGTGGGCTTTGAGAA-
1 GGTGCCACTGACTTGTGGGCTTTGA-AAG
*
2408478 TGTGCCACTGACTTGTGGGCTTTGAGAAG
1 GGTGCCACTGACTTGTGGGCTTTGA-AAG
* *
2408507 GATGCTACTGACTTGTGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
2408536 GGT
1 GGT
2408539 CATATTGATG
Statistics
Matches: 530, Mismatches: 82, Indels: 49
0.80 0.12 0.07
Matches are distributed among these distances:
27 42 0.08
28 284 0.54
29 57 0.11
30 68 0.13
31 26 0.05
32 48 0.09
33 1 0.00
34 4 0.01
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (28 bp):
GGTGCCACTGACTTGTGGGCTTTGAAAG
Found at i:2408119 original size:144 final size:142
Alignment explanation
Indices: 2407926--2408538 Score: 799
Period size: 144 Copynumber: 4.3 Consensus size: 142
2407916 TTGTGTGGGT
2407926 TTTGAAAGGGTATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAA
1 TTTGAAA-GG-ATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAA
* * * *
2407991 AGAGTGGCCACCGACTTGTGTGGACTTTGAAAATAGTGCCACTGACTTTTAGGCTTTGA-AGGGT
64 AGAGTGGCCACCAACTTGTG-GG-CTTTGAAAAGA-TGCCACTGACTTGTAGGCTTTGAGAAGGT
*
2408055 GCCGCTAACTTGTGGCC
126 GCCACTAACTTGTGGCC
2408072 TTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAG
1 TTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAG
* * *
2408137 AGTGGCCACCAACTTGTGTGGACTTTGAAAATAGTGCCACTGACTTTTAGGCTTTGA-AGGGTGC
66 AGTGGCCACCAACTTGTG-GG-CTTTGAAAAGA-TGCCACTGACTTGTAGGCTTTGAGAAGGTGC
2408201 CACTAACTTGTGGCC
128 CACTAACTTGTGGCC
* * *
2408216 TTTGAAAGGATGCCACTGACTTGTAGACTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAA-
1 TTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAG
* * * * * * *
2408280 TGT-GCCACTAGCTTATGGGCTTTGAAAGGATGCCATTGACTTGTGGGCTTTGAGAAGGTGCCAC
66 AGTGGCCACCAACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTAGGCTTTGAGAAGGTGCCAC
*
2408344 TAACTTGTGGGC
131 TAACTTGTGGCC
** **
2408356 TTTGACAAGG-TGCCACTGACTTGTGCACTTTGAGAA-GGTGCCACTGACTTGTACGCTTTGAAA
1 TTTGA-AAGGATGCCACTGACTTGTGGGCTTTGA-AAGGGTGCCACTGACTTGTGGGCTTTGAAA
* * *
2408419 AGTA-TTGCCACCAACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAGAATGTGC
64 AG-AGTGGCCACCAACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTAGGCTTTGAGAAGGTGC
* *
2408483 CACTGACTTGTGGGC
128 CACTAACTTGTGGCC
*
2408498 TTTGAGAAGGATGCTACTGACTTGTGGGCTTTGAAAAGGGT
1 TTTGA-AAGGATGCCACTGACTTGTGGGCTTTG-AAAGGGT
2408539 CATATTGATG
Statistics
Matches: 425, Mismatches: 33, Indels: 20
0.89 0.07 0.04
Matches are distributed among these distances:
139 20 0.05
140 80 0.19
141 9 0.02
142 86 0.20
143 23 0.05
144 198 0.47
145 2 0.00
146 7 0.02
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.30
Consensus pattern (142 bp):
TTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAG
AGTGGCCACCAACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTAGGCTTTGAGAAGGTGCCAC
TAACTTGTGGCC
Found at i:2408575 original size:12 final size:13
Alignment explanation
Indices: 2408553--2408616 Score: 53
Period size: 13 Copynumber: 4.9 Consensus size: 13
2408543 TTGATGAAAA
2408553 TTTCTTGACAAAG
1 TTTCTTGACAAAG
*
2408566 TTTC-TGACAAAC
1 TTTCTTGACAAAG
* *
2408578 ATTCTCGACAAAAG
1 TTTCTTGAC-AAAG
2408592 -TTCTTGACGATAA-
1 TTTCTTGAC-A-AAG
2408605 TTTCTTGACAAA
1 TTTCTTGACAAA
2408617 TGGTGAATTG
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
12 12 0.29
13 16 0.39
14 13 0.32
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (13 bp):
TTTCTTGACAAAG
Found at i:2409822 original size:11 final size:10
Alignment explanation
Indices: 2409802--2409855 Score: 67
Period size: 11 Copynumber: 5.4 Consensus size: 10
2409792 GACCCTTCTA
2409802 TTTTTGTTTT
1 TTTTTGTTTT
2409812 TTTTATGTTTT
1 TTTT-TGTTTT
*
2409823 TTTTTG--TA
1 TTTTTGTTTT
2409831 TTTTTGTATTT
1 TTTTTGT-TTT
2409842 TTTTTGTTTT
1 TTTTTGTTTT
2409852 TTTT
1 TTTT
2409856 GGTACGAAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
8 7 0.18
10 13 0.34
11 18 0.47
ACGTcount: A:0.06, C:0.00, G:0.09, T:0.85
Consensus pattern (10 bp):
TTTTTGTTTT
Done.