Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 204 of 226
Found at i:64514464 original size:27 final size:27
Alignment explanation
Indices: 64514432--64514488 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
64514422 AACACGTCAA
* *
64514432 GAAAGAAAATCCTTTATGGCTTAATAT
1 GAAAGAAAAGCCTTTATGGCGTAATAT
* *
64514459 GAAAGAAAAGCCTTTTTGGCGTGATAT
1 GAAAGAAAAGCCTTTATGGCGTAATAT
64514486 GAA
1 GAA
64514489 TGATTAGCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.30
Consensus pattern (27 bp):
GAAAGAAAAGCCTTTATGGCGTAATAT
Found at i:64517709 original size:6 final size:6
Alignment explanation
Indices: 64517698--64517738 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
64517688 CGAGTATGTA
* *
64517698 TATATG TATATG TATATA TATATG TATATA TATATG TATAT
1 TATATG TATATG TATATG TATATG TATATG TATATG TATAT
64517739 AATGCTCGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:64517713 original size:12 final size:12
Alignment explanation
Indices: 64517692--64517739 Score: 78
Period size: 12 Copynumber: 3.8 Consensus size: 12
64517682 AAGGTACGAG
64517692 TATGTATATATGTA
1 TATGTATATA--TA
64517706 TATGTATATATA
1 TATGTATATATA
64517718 TATGTATATATA
1 TATGTATATATA
64517730 TATGTATATA
1 TATGTATATA
64517740 ATGCTCGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 24 0.71
14 10 0.29
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:64517756 original size:2 final size:2
Alignment explanation
Indices: 64517696--64517739 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
64517686 TACGAGTATG
* * * *
64517696 TA TA TA TG TA TA TG TA TA TA TA TA TG TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
64517738 TA
1 TA
64517740 ATGCTCGAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (2 bp):
TA
Found at i:64518551 original size:69 final size:70
Alignment explanation
Indices: 64518461--64518616 Score: 199
Period size: 69 Copynumber: 2.2 Consensus size: 70
64518451 TTTGAAGAAC
* * * **
64518461 ATGTATATACATTTGGTGATAATACTTGTTAGGC-ATATGTATATATGCATTCAGCTATTCATG-
1 ATGTATATACATTCGATGATAATACTTGTTAAGCAATATGTATATACACATTCAGCTATTCATGT
64518524 TTTAA
66 TTTAA
* *
64518529 AGTGTATATACATTCGATGATAATATTTGTTAAGCATATATGTATATACACATTCGGCTATTCAT
1 A-TGTATATACATTCGATGATAATACTTGTTAAGCA-ATATGTATATACACATTCAGCTATTCAT
64518594 GTTTTAA
64 GTTTTAA
*
64518601 ATAGTATATGCATTCG
1 AT-GTATATACATTCG
64518617 GTTTTAAGTG
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
68 1 0.01
69 29 0.39
71 27 0.36
72 18 0.24
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (70 bp):
ATGTATATACATTCGATGATAATACTTGTTAAGCAATATGTATATACACATTCAGCTATTCATGT
TTTAA
Found at i:64524596 original size:41 final size:41
Alignment explanation
Indices: 64524549--64524954 Score: 573
Period size: 41 Copynumber: 9.9 Consensus size: 41
64524539 TAAGTTTTTT
* *
64524549 GGGCCTTTAGCGGCGTTTTAGAAAAAGCGCCGCTAATGCTG
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
**
64524590 GGGCCTTTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
*
64524631 GGGCCTTTAGCGTCGTTTTT-AACAAAGCGCCGCTAATGC-C
1 GGGCCTTTAGCGGCGTTTTTGAA-AAAGCGCCGCTAATGCTC
* * *
64524671 GGGCCTTTAGCGGCGTTTGTGAAGAAGCGCCGCTAATGCTG
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
64524712 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * * *
64524753 GAGCCTTTTAGCGGCGTTTCTGAAGAAGCGCCGCTAATTCTC
1 GGGCC-TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * *
64524795 GTGCCTTTAGCGGCGTTTTTGATAAAGCGCCGCTAGTGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
64524836 TGGCCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * * *
64524877 CGGTCTTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
64524918 TGGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
64524955 AATAACAAAA
Statistics
Matches: 324, Mismatches: 37, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
40 35 0.11
41 252 0.78
42 37 0.11
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.28
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
Found at i:64525606 original size:7 final size:7
Alignment explanation
Indices: 64525594--64525655 Score: 63
Period size: 7 Copynumber: 8.9 Consensus size: 7
64525584 TAAATAAGGT
64525594 TTAGGGG
1 TTAGGGG
64525601 TTAGGGG
1 TTAGGGG
*
64525608 TTAGAGG
1 TTAGGGG
64525615 TTAGGGG
1 TTAGGGG
*
64525622 CT-GGGG
1 TTAGGGG
*
64525628 TTATGGG
1 TTAGGGG
*
64525635 TTATGGGT
1 TTA-GGGG
*
64525643 TTAGGGT
1 TTAGGGG
64525650 TTAGGG
1 TTAGGG
64525656 TTTTAAGGTT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
6 5 0.11
7 36 0.78
8 5 0.11
ACGTcount: A:0.15, C:0.02, G:0.50, T:0.34
Consensus pattern (7 bp):
TTAGGGG
Found at i:64525656 original size:7 final size:7
Alignment explanation
Indices: 64525591--64525689 Score: 60
Period size: 7 Copynumber: 14.0 Consensus size: 7
64525581 TATTAAATAA
64525591 GGTTTAG
1 GGTTTAG
*
64525598 GGGTTAG
1 GGTTTAG
*
64525605 GGGTTAG
1 GGTTTAG
64525612 AGG-TTAG
1 -GGTTTAG
**
64525619 GGGCT-G
1 GGTTTAG
*
64525625 GGGTTATG
1 GGTTTA-G
64525633 GG-TTATG
1 GGTTTA-G
64525640 GGTTTAG
1 GGTTTAG
64525647 GGTTTAG
1 GGTTTAG
*
64525654 GGTTTTAA
1 GG-TTTAG
*
64525662 GGTTTAA
1 GGTTTAG
*
64525669 GGTTAAG
1 GGTTTAG
*
64525676 GGTTCAG
1 GGTTTAG
64525683 GGTTTAG
1 GGTTTAG
64525690 AATTTAAGGG
Statistics
Matches: 78, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
6 7 0.09
7 57 0.73
8 14 0.18
ACGTcount: A:0.17, C:0.02, G:0.44, T:0.36
Consensus pattern (7 bp):
GGTTTAG
Found at i:64525841 original size:21 final size:21
Alignment explanation
Indices: 64525807--64525868 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
64525797 ATTGGGGTAA
64525807 TTAGGG-TTATGAGTTTGGGA-
1 TTAGGGTTTA-GAGTTTGGGAT
* *
64525827 TTAGAGGTTTAGAGTTAGAGAT
1 TTAG-GGTTTAGAGTTTGGGAT
64525849 TTAGGGTTTAGAGATTTGGG
1 TTAGGGTTTAGAG-TTTGGG
64525869 GTCGAGTTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 4 0.12
21 19 0.56
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.37, T:0.39
Consensus pattern (21 bp):
TTAGGGTTTAGAGTTTGGGAT
Found at i:64526472 original size:21 final size:21
Alignment explanation
Indices: 64526415--64526472 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 21
64526405 AGGTTTAGGG
*
64526415 GTTAGGGGTTTAAGAGTTAAAT
1 GTTAGAGGTTT-AGAGTTAAAT
*
64526437 GTTAGAGGTTAAGAGTTAGGAAT
1 GTTAGAGGTTTAGAGTTA--AAT
64526460 -TTA-AGGTTTAGAG
1 GTTAGAGGTTTAGAG
64526473 ATTTAGGGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 16 0.52
22 12 0.39
23 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.34
Consensus pattern (21 bp):
GTTAGAGGTTTAGAGTTAAAT
Found at i:64535266 original size:22 final size:22
Alignment explanation
Indices: 64535238--64535280 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
64535228 CTTTGGCGCT
*
64535238 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
64535260 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
64535281 GTTTTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:64538433 original size:25 final size:25
Alignment explanation
Indices: 64538405--64538454 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
64538395 AATTTTTAAA
64538405 ATCAAACCGCTATTATTGGTTTTGG
1 ATCAAACCGCTATTATTGGTTTTGG
64538430 ATCAAACCGCTATTATTGGTTTTGG
1 ATCAAACCGCTATTATTGGTTTTGG
64538455 GTATTTCTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (25 bp):
ATCAAACCGCTATTATTGGTTTTGG
Found at i:64538964 original size:18 final size:19
Alignment explanation
Indices: 64538935--64538997 Score: 76
Period size: 18 Copynumber: 3.3 Consensus size: 19
64538925 TTTTAGATTT
64538935 TTTTTTGAAATTTTTAT-AA
1 TTTTTTG-AATTTTTATAAA
64538954 TTTTTTGAATTTTTATAAA
1 TTTTTTGAATTTTTATAAA
* *
64538973 TATTTTG-ATTTTTAAAAA
1 TTTTTTGAATTTTTATAAA
64538991 TTATTTT
1 TT-TTTT
64538998 AAACTATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
18 20 0.51
19 19 0.49
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTTTTGAATTTTTATAAA
Found at i:64542640 original size:19 final size:19
Alignment explanation
Indices: 64542590--64542638 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
64542580 TTTCTCAATT
* * *
64542590 TAAGTATGTTAAAGTAAAA
1 TAAGTTTGTTTAATTAAAA
*
64542609 TAATTTTGTTTAATTAAAA
1 TAAGTTTGTTTAATTAAAA
64542628 TATAGTTTGTT
1 TA-AGTTTGTT
64542639 AACCTATAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (19 bp):
TAAGTTTGTTTAATTAAAA
Found at i:64547116 original size:32 final size:32
Alignment explanation
Indices: 64547079--64547139 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
64547069 TGAAAATTTT
64547079 ATTTAATTCATCTAA-A-TTATAAAAAAATTGCA
1 ATTTAA-TCA-CTAATATTTATAAAAAAATTGCA
*
64547111 ATTTAATCACTAATATTTATAAAATAATT
1 ATTTAATCACTAATATTTATAAAAAAATT
64547140 AATATTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 4 0.15
31 4 0.15
32 18 0.69
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (32 bp):
ATTTAATCACTAATATTTATAAAAAAATTGCA
Found at i:64552874 original size:3 final size:3
Alignment explanation
Indices: 64552866--64552906 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
64552856 TTAAAGATAA
64552866 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
64552907 AACATAGTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:64553231 original size:18 final size:18
Alignment explanation
Indices: 64553210--64553253 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
64553200 GTAAAAAATA
*
64553210 ATAAAAATATTAAAATCG
1 ATAAAAATATAAAAATCG
**
64553228 ATAAAAATATAAAAATTT
1 ATAAAAATATAAAAATCG
64553246 ATAAAAAT
1 ATAAAAAT
64553254 TATAGATGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
ATAAAAATATAAAAATCG
Found at i:64553256 original size:9 final size:9
Alignment explanation
Indices: 64553203--64553257 Score: 51
Period size: 10 Copynumber: 6.1 Consensus size: 9
64553193 ACACATGGTA
*
64553203 AAAAATAAT
1 AAAAATTAT
64553212 AAAAA-TAT
1 AAAAATTAT
* *
64553220 TAAAATCGAT
1 AAAAAT-TAT
64553230 AAAAA-TAT
1 AAAAATTAT
64553238 AAAAATTTAT
1 AAAAA-TTAT
64553248 AAAAATTAT
1 AAAAATTAT
64553257 A
1 A
64553258 GATGATTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
8 13 0.35
9 10 0.27
10 14 0.38
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:64557193 original size:35 final size:35
Alignment explanation
Indices: 64557147--64557217 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
64557137 AATTAATTGA
64557147 ACTCGAATTATACAGTAGGTCAATATTCCATTTTC
1 ACTCGAATTATACAGTAGGTCAATATTCCATTTTC
64557182 ACTCGAATTATACAGTAGGTCAATATTCCATTTTC
1 ACTCGAATTATACAGTAGGTCAATATTCCATTTTC
64557217 A
1 A
64557218 AAGGTATCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (35 bp):
ACTCGAATTATACAGTAGGTCAATATTCCATTTTC
Found at i:64557334 original size:40 final size:40
Alignment explanation
Indices: 64557268--64557397 Score: 208
Period size: 40 Copynumber: 3.3 Consensus size: 40
64557258 CAGAGCATGA
* * *
64557268 ATGTGCATTCA-GGGTATCGAAATACAAACAGGGGCACGT
1 ATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACAT
* *
64557307 ATGTGCATTCAGGGGTACCGAAGTACAAATAGGAGCACAT
1 ATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACAT
64557347 ATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACAT
1 ATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACAT
64557387 ATGTGCATTCA
1 ATGTGCATTCA
64557398 ATAATATTTT
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 11 0.13
40 72 0.87
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (40 bp):
ATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACAT
Found at i:64559096 original size:42 final size:42
Alignment explanation
Indices: 64558979--64559302 Score: 418
Period size: 42 Copynumber: 7.6 Consensus size: 42
64558969 AAAGGCATTT
* * * * *
64558979 GCGGCGCTTACAGAAAAAACGTCGCTAAAAATCATATTTTTTA
1 GCGGCGCTTA-GGAAAAAACGCCGCTAAAGATCATGTTCTTTA
* * *
64559022 GCGGCGCTAAGGAAAAAAATGCCGCTAAAGATCATCTTCTTTA
1 GCGGCGCTTAGG-AAAAAACGCCGCTAAAGATCATGTTCTTTA
* *
64559065 GCGGCGCTTATGAAAAAACGCCGCTACAGATCATGTTCTTTA
1 GCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTA
*
64559107 GCGGCGCTTAGGAAAAAACGCCGCTACAGATCATGTTCTTTA
1 GCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTA
*
64559149 GCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATATTCTTTA
1 GCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTA
*
64559191 GCGGCGCTTGGGAAAAAACGCCGCTAAAGATCATGTTCTTTA
1 GCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTA
* * * *
64559233 GAGGCGCTTAGGAAGAAAACGCCGCTAAA-AGTAATATTCTATA
1 GCGGCGCTTAGGAA-AAAACGCCGCTAAAGA-TCATGTTCTTTA
* *
64559276 GCGGCG-TTTGGTCAAAAACGCCGCTAA
1 GCGGCGCTTAGG-AAAAAACGCCGCTAA
64559303 TAGTAGTGTT
Statistics
Matches: 252, Mismatches: 25, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
42 179 0.71
43 73 0.29
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (42 bp):
GCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTA
Found at i:64569061 original size:2 final size:2
Alignment explanation
Indices: 64569054--64569092 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
64569044 AGTAATTACT
64569054 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
64569093 CCATATAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:64569684 original size:7 final size:7
Alignment explanation
Indices: 64569674--64569777 Score: 64
Period size: 7 Copynumber: 14.3 Consensus size: 7
64569664 CTAAACCTTA
64569674 AACCCCT
1 AACCCCT
64569681 AACCCCT
1 AACCCCT
*
64569688 AACCTCT
1 AACCCCT
*
64569695 AAATCTCCT
1 -AA-CCCCT
* *
64569704 AGCCCTT
1 AACCCCT
**
64569711 AAATTCCT
1 -AACCCCT
64569719 AACCCCT
1 AACCCCT
64569726 AACCCCT
1 AACCCCT
*
64569733 AACCTCT
1 AACCCCT
* *
64569740 AAATCCTT
1 -AACCCCT
*
64569748 AACCCTT
1 AACCCCT
64569755 AACCCCT
1 AACCCCT
*
64569762 AACCCTT
1 AACCCCT
*
64569769 AACTCCT
1 AACCCCT
64569776 AA
1 AA
64569778 ACCTTATATC
Statistics
Matches: 72, Mismatches: 21, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
7 59 0.82
8 10 0.14
9 3 0.04
ACGTcount: A:0.31, C:0.43, G:0.01, T:0.25
Consensus pattern (7 bp):
AACCCCT
Found at i:64569733 original size:29 final size:28
Alignment explanation
Indices: 64569701--64569780 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 28
64569691 CTCTAAATCT
64569701 CCTAGCCCTTAAATTCC-TAACCCCTAACC
1 CCTA-CCCTTAAA-TCCTTAACCCCTAACC
* *
64569730 CCTAACCTCTAAATCCTTAACCCTTAACC
1 CCTACCCT-TAAATCCTTAACCCCTAACC
* *
64569759 CCTAACCCTTAACTCCTAAACC
1 CCT-ACCCTTAAATCCTTAACC
64569781 TTATATCCCA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
28 6 0.14
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.44, G:0.01, T:0.25
Consensus pattern (28 bp):
CCTACCCTTAAATCCTTAACCCCTAACC
Found at i:64570858 original size:41 final size:42
Alignment explanation
Indices: 64570759--64570878 Score: 127
Period size: 42 Copynumber: 2.9 Consensus size: 42
64570749 GCGCTTCAAC
*
64570759 AAAAACGCTGCTAAAACCCCTAACATTAGCGGTGCTTATCAT
1 AAAAACGCTGCTAAAAGCCCTAACATTAGCGGTGCTTATCAT
* * * * *
64570801 AGAAACG-TCGCTAAAAGTCTTAACTTTAGCGTTGCTTAT-AT
1 AAAAACGCT-GCTAAAAGCCCTAACATTAGCGGTGCTTATCAT
* * * *
64570842 AAAAACGCTGCTAAAAGACCAAATATTAGCGGCGCTT
1 AAAAACGCTGCTAAAAGCCCTAACATTAGCGGTGCTT
64570879 CAAAGAAATC
Statistics
Matches: 62, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
41 30 0.48
42 32 0.52
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.26
Consensus pattern (42 bp):
AAAAACGCTGCTAAAAGCCCTAACATTAGCGGTGCTTATCAT
Found at i:64573763 original size:21 final size:21
Alignment explanation
Indices: 64573737--64573780 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
64573727 TTACTAATTC
64573737 TAAAAA-TTCTAAAATATA-TTT
1 TAAAAAGTT-TAAAA-ATACTTT
64573758 TAAAAAGTTTAAAAATACTTT
1 TAAAAAGTTTAAAAATACTTT
64573779 TA
1 TA
64573781 TGTTAACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 3 0.14
21 16 0.76
22 2 0.10
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (21 bp):
TAAAAAGTTTAAAAATACTTT
Found at i:64575249 original size:126 final size:126
Alignment explanation
Indices: 64575020--64575304 Score: 437
Period size: 126 Copynumber: 2.3 Consensus size: 126
64575010 AAATAGGAAG
* * *
64575020 TACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTCTTTCAGTACTTTTGCTGACATTGCATTCTGC
1 TACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTCTTTCAGTACTTTTGCTAACAATGCATCCTGC
* *
64575085 TTGAAGCATTTTGGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAGAAAC
66 TTAAAGCATTTTGGACACTATTTGCTCAAAAACATCTTCTCAAAATTATTTTTTCAGAAAC
* *
64575146 TACTGTAGCAAAAGGGCGTCTACGTGAGAGCTTCTTTCAGTACTTTTGCTAACAATGCATCCTGC
1 TACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTCTTTCAGTACTTTTGCTAACAATGCATCCTGC
* * * *
64575211 TTAAAGCGTGTTT-GACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAGGAAC
66 TTAAAGCAT-TTTGGACACTATTTGCTCAAAAACATCTTCTCAAAATTATTTTTTCAGAAAC
* *
64575272 TACAGTAGCAAAAGAACGTCCACGTGAGAGCTT
1 TACTGTAGCAAAAGAGCGTCCACGTGAGAGCTT
64575305 TTTTAAATTA
Statistics
Matches: 143, Mismatches: 15, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
126 140 0.98
127 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (126 bp):
TACTGTAGCAAAAGAGCGTCCACGTGAGAGCTTCTTTCAGTACTTTTGCTAACAATGCATCCTGC
TTAAAGCATTTTGGACACTATTTGCTCAAAAACATCTTCTCAAAATTATTTTTTCAGAAAC
Found at i:64575376 original size:7 final size:7
Alignment explanation
Indices: 64575364--64575393 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
64575354 TTTTCCTTAA
64575364 AAACCCT
1 AAACCCT
64575371 AAACCCT
1 AAACCCT
64575378 AAACCCT
1 AAACCCT
64575385 AAACCCT
1 AAACCCT
64575392 AA
1 AA
64575394 TCTAATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.47, C:0.40, G:0.00, T:0.13
Consensus pattern (7 bp):
AAACCCT
Found at i:64575538 original size:94 final size:95
Alignment explanation
Indices: 64575329--64575759 Score: 543
Period size: 95 Copynumber: 4.5 Consensus size: 95
64575319 ATAATTAAAT
*
64575329 TAACCCTAAACCTTAATTTATTTGA--TTTTCCTTAAAAACCCTAAACCCTAAACCCTAAACCCT
1 TAACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAAA-CCTAAA--C---A--CTAAACCCT
*
64575392 AATCTAATTTTTTTAAAATTTATAGTTAATTTACTCAAG
58 AATCTAA-TTTTTTAAAATTTATAATTAATTTACTCAAG
* *
64575431 TAACCCCAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCTAAACACTAAACCTTAATCT-AT
1 TAACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCTAAACACTAAACCCTAATCTAAT
**
64575495 TTTTTTTAATTTATAATTAATTTACTCAAG
66 TTTTTAAAATTTATAATTAATTTACTCAAG
64575525 TAACCCTAAACCCTAATTTATTTGATTTTTT-CTTAAAAACCTTAAACACTAAACCCTAATCT-A
1 TAACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAAACC-TAAACACTAAACCCTAATCTAA
64575588 TTTTTTAAAAATTTATAATTAATTTACTCAAG
65 TTTTTT-AAAATTTATAATTAATTTACTCAAG
* * * *
64575620 TAACCCTAAACCTTAATTTATTTAATTTTTT-CTTAAAAGCCATAAACACTAAACTCTAATCTAA
1 TAACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAAACC-TAAACACTAAACCCTAATCTAA
* * *
64575684 TTTTTTAAAACTTATAATTAATTTAATTAAG
65 TTTTTTAAAATTTATAATTAATTTACTCAAG
* * * * *
64575715 AAACCCTAAACTCTTATTTATTT-AATTTTTCCTTAAAACCCTAAA
1 TAACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCTAAA
64575760 TCTAAAAACC
Statistics
Matches: 299, Mismatches: 24, Indels: 20
0.87 0.07 0.06
Matches are distributed among these distances:
93 10 0.03
94 94 0.31
95 131 0.44
96 20 0.07
98 1 0.00
101 1 0.00
102 23 0.08
103 6 0.02
104 13 0.04
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.41
Consensus pattern (95 bp):
TAACCCTAAACCCTAATTTATTTGATTTTTTCCTTAAAAACCTAAACACTAAACCCTAATCTAAT
TTTTTAAAATTTATAATTAATTTACTCAAG
Found at i:64575617 original size:189 final size:193
Alignment explanation
Indices: 64575329--64575757 Score: 577
Period size: 189 Copynumber: 2.2 Consensus size: 193
64575319 ATAATTAAAT
* *
64575329 TAACCCTAAACCTTAATTTATTTGA-TTTTCCTTAAAAACCCTAAACCCTAAACCCTAAACCCTA
1 TAACCCTAAACCCTAATTTATTTGATTTTTCCTTAAAAACCCT--A---TAAACACTAAACCCTA
* * *
64575393 ATCTAATTTTTTTAAAATTTATAGTTAATTTACTCAAGTAACCCCAAACCCTAATTTATTTGATT
61 ATCTAATTTTTTAAAAATTTATAATTAATTTACTCAAGTAACCCCAAACCCTAATTTATTTAATT
** * *
64575458 TTTTCCTTAAAAACC-TAAACACTAAAC-CTTAATCT-ATTTTTTTTAATTTATAATTAATTTAC
126 TTTT-CTTAAAAACCATAAACACTAAACTC-TAATCTAATTTTTTAAAACTTATAATTAATTTAA
64575520 TCAAG
189 TCAAG
*
64575525 TAACCCTAAACCCTAATTTATTTGATTTTTTCTTAAAAA-CCT-TAAACACTAAACCCTAATCT-
1 TAACCCTAAACCCTAATTTATTTGATTTTTCCTTAAAAACCCTATAAACACTAAACCCTAATCTA
* *
64575587 ATTTTTTAAAAATTTATAATTAATTTACTCAAGTAACCCTAAACCTTAATTTATTTAATTTTTTC
66 ATTTTTTAAAAATTTATAATTAATTTACTCAAGTAACCCCAAACCCTAATTTATTTAATTTTTTC
* *
64575652 TTAAAAGCCATAAACACTAAACTCTAATCTAATTTTTTAAAACTTATAATTAATTTAATTAAG
131 TTAAAAACCATAAACACTAAACTCTAATCTAATTTTTTAAAACTTATAATTAATTTAATCAAG
* * * *
64575715 AAACCCTAAACTCTTATTTATTTAATTTTTCCTT-AAAACCCTA
1 TAACCCTAAACCCTAATTTATTTGATTTTTCCTTAAAAACCCTA
64575758 AATCTAAAAA
Statistics
Matches: 208, Mismatches: 19, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
188 9 0.04
189 81 0.39
190 79 0.38
196 27 0.13
197 12 0.06
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.41
Consensus pattern (193 bp):
TAACCCTAAACCCTAATTTATTTGATTTTTCCTTAAAAACCCTATAAACACTAAACCCTAATCTA
ATTTTTTAAAAATTTATAATTAATTTACTCAAGTAACCCCAAACCCTAATTTATTTAATTTTTTC
TTAAAAACCATAAACACTAAACTCTAATCTAATTTTTTAAAACTTATAATTAATTTAATCAAG
Found at i:64576086 original size:13 final size:11
Alignment explanation
Indices: 64576058--64576089 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
64576048 TCTTTCAATA
64576058 TTCTCTCAAAT
1 TTCTCTCAAAT
64576069 TTCTCTCAAAT
1 TTCTCTCAAAT
*
64576080 TCCTCTCAAA
1 TTCTCTCAAA
64576090 GCTCTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:64576095 original size:22 final size:22
Alignment explanation
Indices: 64576052--64576096 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
64576042 CTTCAATCTT
**
64576052 TCAATATTCTCTCAAATTTCTC
1 TCAATATTCTCTCAAAGCTCTC
64576074 TCAA-ATTCCTCTCAAAGCTCTC
1 TCAATATT-CTCTCAAAGCTCTC
64576096 T
1 T
64576097 TTAATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.27, C:0.31, G:0.02, T:0.40
Consensus pattern (22 bp):
TCAATATTCTCTCAAAGCTCTC
Found at i:64579987 original size:126 final size:125
Alignment explanation
Indices: 64579750--64580036 Score: 412
Period size: 126 Copynumber: 2.3 Consensus size: 125
64579740 GCCAAATAGG
* * * *
64579750 AACTACTGTAACAAAAGAGCATCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGATATTGAATCC
1 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGAATCC
* * *
64579815 TGCTTGAAGCGTTTTTGACACTATTTGCTTAGAAACATCTTTTCAAAATTATTTTTTCAGA
66 TGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTA-TTTTTCAGA
* * *
64579876 AACTACTGTAGCAAAAGAGCGTTCACGTGGGAGTTTCTTTCAGTACTTTTGCTGACAATGCATCC
1 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGAATCC
* * * *
64579941 TGCTTAAAGCGTTTTTGGCACTATTTGCTCATAAACGTCTTCTCAAAATTATTTTTCAGG
66 TGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTCAGA
* * *
64580001 AACTATTATAGCAAAAGAGCGTCCACGTAGGAGCTT
1 AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTT
64580037 TTTTAAATTA
Statistics
Matches: 142, Mismatches: 19, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
125 39 0.27
126 103 0.73
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (125 bp):
AACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGAATCC
TGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTCAGA
Found at i:64580356 original size:96 final size:96
Alignment explanation
Indices: 64580073--64580561 Score: 650
Period size: 97 Copynumber: 5.1 Consensus size: 96
64580063 AGTAACCTTA
* * * * * *
64580073 AACCCCAAACCCTAATTTATTTGA-GTTTTCCTTAAAAACCTTAAACCCTAAACCCTAATCTATT
1 AACCCTAAACCCTAATTTATTTGATTTTTTTCTTAAAAACCATAAACACTAAACCCTAATCTAAT
*
64580137 TTTTTAAAAAAATTATAATTAATTTACTCAAGT
66 TTTTT--AAAATTTATAATTAATTTACTCAAGT
* * * *
64580170 AACCATAAACCCTAATTTATTTGA-TTTTTTCTTAAAAACCTTAAACCCT-AA-TCTAAT-T--T
1 AACCCTAAACCCTAATTTATTTGATTTTTTTCTTAAAAACCATAAACACTAAACCCTAATCTAAT
*
64580229 TTTTTAAAAAATTATAATTAATTTACTCAAGT
66 TTTTT-AAAATTTATAATTAATTTACTCAAGT
* * * *
64580261 AACCTTAAACCCTAATTTATTTGATTTTTTTCTTAAAAACCCTGAACGCTAAACCCTAATCTAAT
1 AACCCTAAACCCTAATTTATTTGATTTTTTTCTTAAAAACCATAAACACTAAACCCTAATCTAAT
*
64580326 TTTTTAAAATTTATAATCAATTTACTCAAGT
66 TTTTTAAAATTTATAATTAATTTACTCAAGT
* * *
64580357 AACCCTAAATCCTAATTTATTTGATTTTTTCCTTAAAAACCAAAAACACTAAACCCTAATCTAAA
1 AACCCTAAACCCTAATTTATTTGATTTTTTTCTTAAAAACCATAAACACTAAACCCTAATCT-AA
*
64580422 TTTTTTAAAATTTATAACTAATTTACTCAAGT
65 TTTTTTAAAATTTATAATTAATTTACTCAAGT
*
64580454 AACCCTAAACCCTAATTTATTTGATTTTTTTCCTTAAAAACCATAAACACCAAACCCTAATCTAA
1 AACCCTAAACCCTAATTTATTTGATTTTTTT-CTTAAAAACCATAAACACTAAACCCTAATCTAA
* * *
64580519 TTTTTTAAAATTTATAATTAATTTAATTAAGA
65 TTTTTTAAAATTTATAATTAATTTACTCAAGT
*
64580551 AACTCTAAACC
1 AACCCTAAACC
64580562 TTAAACCCTA
Statistics
Matches: 354, Mismatches: 30, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
91 50 0.14
92 28 0.08
93 2 0.01
94 6 0.02
95 6 0.02
96 81 0.23
97 152 0.43
98 29 0.08
ACGTcount: A:0.40, C:0.19, G:0.03, T:0.39
Consensus pattern (96 bp):
AACCCTAAACCCTAATTTATTTGATTTTTTTCTTAAAAACCATAAACACTAAACCCTAATCTAAT
TTTTTAAAATTTATAATTAATTTACTCAAGT
Found at i:64584933 original size:38 final size:39
Alignment explanation
Indices: 64584800--64584921 Score: 122
Period size: 40 Copynumber: 3.1 Consensus size: 39
64584790 TTTTCGACAA
* * * *
64584800 AAAACGCCACTAAGAATCAAGCATTAGTGGCGCTTTTAT-A
1 AAAACGCCGCTAAAAAT-AAGCATTAGCGGCGCTTTT-TCG
* ** * *
64584840 AAAACACCGCTAAAGGTCTAGCATTAGCGGCGCTTTTTGG
1 AAAACGCCGCTAAAAAT-AAGCATTAGCGGCGCTTTTTCG
64584880 AAAACGCCGCTAAAAATAAGCATTAGCGGCG-TTTTTCG
1 AAAACGCCGCTAAAAATAAGCATTAGCGGCGCTTTTTCG
64584918 AAAA
1 AAAA
64584922 GCGTCGCAAA
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
38 10 0.15
39 14 0.21
40 44 0.65
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (39 bp):
AAAACGCCGCTAAAAATAAGCATTAGCGGCGCTTTTTCG
Found at i:64585036 original size:41 final size:40
Alignment explanation
Indices: 64584974--64585087 Score: 149
Period size: 40 Copynumber: 2.8 Consensus size: 40
64584964 TTTTGAGGCA
* * *
64584974 TTTAGCAACGTTTTTGAAAAAGCACCGCTAATGCTCGGGCC
1 TTTAGCGACGTTTTTGAAAAAGCGCCGCTAATACTC-GGCC
*
64585015 TTTAGCGACGTTTTT-ATAAAAGCGCCACTAATACTCGGCC
1 TTTAGCGACGTTTTTGA-AAAAGCGCCGCTAATACTCGGCC
* *
64585055 TTTAGCGGCATTTTTGAAAAAGCGCCGCTAATA
1 TTTAGCGACGTTTTTGAAAAAGCGCCGCTAATA
64585088 ATAATAAAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
40 33 0.52
41 31 0.48
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (40 bp):
TTTAGCGACGTTTTTGAAAAAGCGCCGCTAATACTCGGCC
Found at i:64585658 original size:15 final size:15
Alignment explanation
Indices: 64585638--64585674 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
64585628 CCATGAACTT
64585638 GGATTTTCATTCTTG
1 GGATTTTCATTCTTG
64585653 GGATTTTCATTCTTG
1 GGATTTTCATTCTTG
*
64585668 GAATTTT
1 GGATTTT
64585675 TGTGAGTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.16, C:0.11, G:0.19, T:0.54
Consensus pattern (15 bp):
GGATTTTCATTCTTG
Found at i:64587312 original size:3 final size:3
Alignment explanation
Indices: 64587304--64587346 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
64587294 TACACTAGTT
64587304 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
64587347 GATGTTACTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:64589027 original size:18 final size:18
Alignment explanation
Indices: 64589004--64589057 Score: 99
Period size: 18 Copynumber: 3.0 Consensus size: 18
64588994 TATTTTTCAT
64589004 TTGCTTCAATTTCTATGC
1 TTGCTTCAATTTCTATGC
64589022 TTGCTTCAATTTCTATGC
1 TTGCTTCAATTTCTATGC
*
64589040 TTGCTTCAATTTCCATGC
1 TTGCTTCAATTTCTATGC
64589058 CTTACAATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.17, C:0.24, G:0.11, T:0.48
Consensus pattern (18 bp):
TTGCTTCAATTTCTATGC
Found at i:64590359 original size:18 final size:18
Alignment explanation
Indices: 64590336--64590395 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
64590326 ATGTAATTCT
64590336 AATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
* * **
64590354 AATGTAA-AC-AATTTTCT
1 AATGTAATTCTAA-TATAG
*
64590371 TATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
64590389 AATGTAA
1 AATGTAA
64590396 CTTGTTTTAA
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 2 0.07
17 9 0.31
18 16 0.55
19 2 0.07
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (18 bp):
AATGTAATTCTAATATAG
Found at i:64590666 original size:44 final size:44
Alignment explanation
Indices: 64590589--64590720 Score: 180
Period size: 43 Copynumber: 3.0 Consensus size: 44
64590579 AAGTCATGTT
* * *
64590589 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTTC-TGGTC
1 TTTAGCGACATTTGTGGAAAAAGCGCCGCTAAAGGTTCTTGGTC
*
64590632 TTTAGTGACATTTGTCGGAAAAAGCGCCGCTAAA-GTTCTTGGTC
1 TTTAGCGACATTTGT-GGAAAAAGCGCCGCTAAAGGTTCTTGGTC
* *
64590676 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGG-TCTTGGTC
1 TTTAGCGACATTTGTGGAAAAAGCGCCGCTAAAGGTTCTTGGTC
64590719 TT
1 TT
64590721 GCTAAATTCA
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
43 44 0.56
44 35 0.44
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.30
Consensus pattern (44 bp):
TTTAGCGACATTTGTGGAAAAAGCGCCGCTAAAGGTTCTTGGTC
Found at i:64600016 original size:50 final size:50
Alignment explanation
Indices: 64599906--64600019 Score: 147
Period size: 50 Copynumber: 2.3 Consensus size: 50
64599896 GGTAAAGAGA
* * **
64599906 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAGAAC
** * * *
64599956 TCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAGAAC
64600006 TCCCATGTAAGACC
1 TCCCATGTAAGACC
64600020 GTATCTGAGA
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.20
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAGAAC
Found at i:64605809 original size:50 final size:50
Alignment explanation
Indices: 64605709--64605942 Score: 202
Period size: 50 Copynumber: 4.6 Consensus size: 50
64605699 GAGATCCTAC
**
64605709 GTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGGTTATGAGAGGTCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGG--T-ACCGA-G--ATGAGAGGTCCCAT
* **
64605765 GTAAGACCATGTCTGGGACATGGCGTTGGTACCGAGATGAGAGGTCCCCC
1 GTAAGACCATGTCTGGGACATGGCATTGGTACCGAGATGAGAGGTCCCAT
* * * * * **
64605815 GTAAGACCATGTTTGGGACATGGCATGGGCACCGATATAAGAACTCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGTACCGAGATGAGAGGTCCCAT
* * * * * * **
64605865 GTAAGACCATGTCTGGGATATGACGTTGGTA--GTACAAGAAACATCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGTACCG-AGATGAGAGGTCCCAT
*
64605914 GTAAGACCATGTCTGGGACATGGCTTTGG
1 GTAAGACCATGTCTGGGACATGGCATTGG
64605943 CATGTTATTA
Statistics
Matches: 147, Mismatches: 30, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
48 1 0.01
49 36 0.24
50 77 0.52
52 1 0.01
53 3 0.02
54 1 0.01
56 28 0.19
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGGCATTGGTACCGAGATGAGAGGTCCCAT
Found at i:64611072 original size:22 final size:21
Alignment explanation
Indices: 64611031--64611093 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 21
64611021 AATCTTCAAG
64611031 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTAGAGATAT
64611050 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAG-AGATAT
* *
64611072 GATTTTGTAATCTTAGAGATAT
1 GA-TATGCAATCTTAGAGATAT
64611094 AATTTGTAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
19 13 0.34
22 14 0.37
23 11 0.29
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (21 bp):
GATATGCAATCTTAGAGATAT
Found at i:64611101 original size:21 final size:23
Alignment explanation
Indices: 64611044--64611101 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 23
64611034 ATGCAATCTT
* *
64611044 AGATATG-ATATGCAATCTTAGA
1 AGATATGAATTTGTAATCTTAGA
*
64611066 AGATATGATTTTGTAATCTTAG-
1 AGATATGAATTTGTAATCTTAGA
64611088 AGATAT-AATTTGTA
1 AGATATGAATTTGTA
64611102 GATATCCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 7 0.23
22 13 0.42
23 11 0.35
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:64611338 original size:23 final size:23
Alignment explanation
Indices: 64611294--64611338 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
64611284 TCTTATTTTG
* *
64611294 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
64611317 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
64611339 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:64611732 original size:18 final size:18
Alignment explanation
Indices: 64611709--64611743 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
64611699 ACAAATTACA
*
64611709 TGGCCCAATTTCAAACAG
1 TGGCCCAATTACAAACAG
*
64611727 TGGCCCAGTTACAAACA
1 TGGCCCAATTACAAACA
64611744 CGGCCCAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (18 bp):
TGGCCCAATTACAAACAG
Found at i:64611879 original size:20 final size:20
Alignment explanation
Indices: 64611837--64611885 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
64611827 CACCTGCAAG
*
64611837 GAAACAAAACAACAAGGAAA
1 GAAACAAAACAACAAAGAAA
* * *
64611857 GAAATAAAACAGCAAAGATA
1 GAAACAAAACAACAAAGAAA
*
64611877 GAAAGAAAA
1 GAAACAAAA
64611886 TCAAAGATTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.69, C:0.10, G:0.16, T:0.04
Consensus pattern (20 bp):
GAAACAAAACAACAAAGAAA
Found at i:64612950 original size:25 final size:25
Alignment explanation
Indices: 64612900--64612950 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
64612890 AAAAATTAGT
* *
64612900 TAATTTTGATAATATAATTTTTTTA
1 TAATTTTCATAATATAATTTTATTA
*
64612925 TAATTTTCAT-ATGTAATTATTATTA
1 TAATTTTCATAATATAATT-TTATTA
64612950 T
1 T
64612951 TTTATTTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (25 bp):
TAATTTTCATAATATAATTTTATTA
Found at i:64617011 original size:44 final size:44
Alignment explanation
Indices: 64616957--64617463 Score: 646
Period size: 44 Copynumber: 11.8 Consensus size: 44
64616947 AAGATAGTAG
* **
64616957 TCCTGTCTCCCTGGAAAGCAGTGGAATAGGTTGAAGATTGT-AA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
* * *
64617000 GTCATATCTCCCTAGTCAGTAGTGGAATAGGTTGAAGATTGTGAA
1 -TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
*
64617045 TCCTATCTCCCTGGTCAACAGTGGAATAGGTTGAAGATTGTGAA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
*
64617089 TCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
* * * *
64617133 TCCTATCTCCCTGGTCAGCAATGGAATAGGTTGAAAATTTTGAG
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
* *
64617177 TCCTATCTCCCTGGTCAGCAGTAGAATAGTTTGAAGATTGT-AA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
*
64617220 GTTCTATCTCCCTGGTCAGCAGTGG-A-A---T--AG---GTGAA
1 -TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
*
64617255 TCCTATCTCCCTGGTCAGCAGT-GAATAGGTTGAAAATTGTGAA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
* *
64617298 TCTTATCTCTCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
* * *
64617342 TCTTATCTCCCTGGTTAGCAGTGGAATGGGTTGAAGATTGTGAA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
* *
64617386 -CTTATCTCCCTGGTCAGCAGTAGAATAGGTTGAAGATTGTGAA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
*** * *
64617429 TCCTATCTTATTGGGCAGCAGTGGAGTAGGTTGAA
1 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAA
64617464 AATAACAGAT
Statistics
Matches: 405, Mismatches: 43, Indels: 30
0.85 0.09 0.06
Matches are distributed among these distances:
33 1 0.00
34 24 0.06
35 3 0.01
37 2 0.00
38 1 0.00
39 1 0.00
40 1 0.00
42 1 0.00
43 67 0.17
44 302 0.75
45 2 0.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (44 bp):
TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA
Found at i:64617349 original size:121 final size:122
Alignment explanation
Indices: 64617128--64617463 Score: 401
Period size: 121 Copynumber: 2.7 Consensus size: 122
64617118 GTTGAAGATT
* * * * *
64617128 GTGAATCCTATCTCCCTGGTCAGCAATGGAATAGGTTGAAAATTTTGAGTCCTATCTCCCTGGTC
1 GTGAATCCTATCTCCCTGGTCAGCAGTAGAATAGGTTGAAAATTGTGAATCCTATCTCTCTGGTC
* *
64617193 AGCAGTAGAATAGTTTGAAGATTGTAAGTTCTATCTCCCTGGTCAGCAGTGGAATAG
66 AGCAGTGGAATAGGTTGAAGATTGTAAGTTCTATCTCCCTGGTCAGCAGTGGAATAG
*
64617250 GTGAATCCTATCTCCCTGGTCAGCAGT-GAATAGGTTGAAAATTGTGAATCTTATCTCTCTGGTC
1 GTGAATCCTATCTCCCTGGTCAGCAGTAGAATAGGTTGAAAATTGTGAATCCTATCTCTCTGGTC
* *
64617314 AGCAGTGGAATAGGTTGAAGATTGTGAA--TCTTATCTCCCTGGTTAGCAGTGGAATGG
66 AGCAGTGGAATAGGTTGAAGATTGT-AAGTTC-TATCTCCCTGGTCAGCAGTGGAATAG
* *
64617371 GTTGAAGATTGTGAACTTATCTCCCTGGTCAGCAGTAGAATAGGTTGAAGATTGTGAATCCTATC
1 G-TG-A-A---T---CCTATCTCCCTGGTCAGCAGTAGAATAGGTTGAAAATTGTGAATCCTATC
* * *
64617436 T-TATTGGGCAGCAGTGGAGTAGGTTGAA
57 TCT-CTGGTCAGCAGTGGAATAGGTTGAA
64617464 AATAACAGAT
Statistics
Matches: 186, Mismatches: 15, Indels: 17
0.85 0.07 0.08
Matches are distributed among these distances:
120 2 0.01
121 81 0.44
122 30 0.16
123 1 0.01
124 1 0.01
127 1 0.01
130 21 0.11
131 49 0.26
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (122 bp):
GTGAATCCTATCTCCCTGGTCAGCAGTAGAATAGGTTGAAAATTGTGAATCCTATCTCTCTGGTC
AGCAGTGGAATAGGTTGAAGATTGTAAGTTCTATCTCCCTGGTCAGCAGTGGAATAG
Found at i:64617378 original size:165 final size:165
Alignment explanation
Indices: 64617084--64617415 Score: 497
Period size: 165 Copynumber: 2.0 Consensus size: 165
64617074 GTTGAAGATT
*
64617084 GTGAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAATCCTATCTCCCTGGTC
1 GTGAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAAATTGTGAATCCTATCTCCCTGGTC
* * *
64617149 AGCAATGGAATAGGTTGAAAATTTTGAGTCCTATCTCCCTGGTCAGCAGTAGAATAGTTTGAAGA
66 AGCAATGGAATAGGTTGAAAATTGTGAATCCTATCTCCCTGGTCAGCAGTAGAATAGGTTGAAGA
* *
64617214 TTGT-AAGTTCTATCTCCCTGGTCAGCAGTGGAATAG
131 TTGTGAA-CT-TATCTCCCTGGTCAGCAGTAGAATAG
* * *
64617250 GTGAATCCTATCTCCCTGGTCAGCAGT-GAATAGGTTGAAAATTGTGAATCTTATCTCTCTGGTC
1 GTGAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAAATTGTGAATCCTATCTCCCTGGTC
* * * * * *
64617314 AGCAGTGGAATAGGTTGAAGATTGTGAATCTTATCTCCCTGGTTAGCAGTGGAATGGGTTGAAGA
66 AGCAATGGAATAGGTTGAAAATTGTGAATCCTATCTCCCTGGTCAGCAGTAGAATAGGTTGAAGA
64617379 TTGTGAACTTATCTCCCTGGTCAGCAGTAGAATAG
131 TTGTGAACTTATCTCCCTGGTCAGCAGTAGAATAG
64617414 GT
1 GT
64617416 TGAAGATTGT
Statistics
Matches: 150, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
164 27 0.18
165 95 0.63
166 28 0.19
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (165 bp):
GTGAATCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAAATTGTGAATCCTATCTCCCTGGTC
AGCAATGGAATAGGTTGAAAATTGTGAATCCTATCTCCCTGGTCAGCAGTAGAATAGGTTGAAGA
TTGTGAACTTATCTCCCTGGTCAGCAGTAGAATAG
Found at i:64617399 original size:87 final size:87
Alignment explanation
Indices: 64617250--64617466 Score: 310
Period size: 87 Copynumber: 2.5 Consensus size: 87
64617240 AGTGGAATAG
*
64617250 GTGAATCCTATCTCCCTGGTCAGCAGTGAATAGGTTGAAAATTGTGAATCTTATCTCTCTGGTCA
1 GTGAATCCTATCTCCCTGGTCAGCAGTGAATAGGTTGAAAATTGTGAATCTTATCTCCCTGGTCA
*
64617315 GCAGTGGAATAGGTTGAAGATT
66 GCAGTAGAATAGGTTGAAGATT
* * * *
64617337 GTGAATCTTATCTCCCTGGTTAGCAGTGGAATGGGTTGAAGATTGTGAA-CTTATCTCCCTGGTC
1 GTGAATCCTATCTCCCTGGTCAGCAGT-GAATAGGTTGAAAATTGTGAATCTTATCTCCCTGGTC
64617401 AGCAGTAGAATAGGTTGAAGATT
65 AGCAGTAGAATAGGTTGAAGATT
*** * *
64617424 GTGAATCCTATCTTATTGGGCAGCAGTGGAGTAGGTTGAAAAT
1 GTGAATCCTATCTCCCTGGTCAGCAGT-GAATAGGTTGAAAAT
64617467 AACAGATCTT
Statistics
Matches: 114, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
87 95 0.83
88 19 0.17
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (87 bp):
GTGAATCCTATCTCCCTGGTCAGCAGTGAATAGGTTGAAAATTGTGAATCTTATCTCCCTGGTCA
GCAGTAGAATAGGTTGAAGATT
Found at i:64617538 original size:89 final size:88
Alignment explanation
Indices: 64617445--64617835 Score: 354
Period size: 89 Copynumber: 4.4 Consensus size: 88
64617435 CTTATTGGGC
* * * *
64617445 AGCAGTGGAGTAGGTTGAAAATAACAGATCTTGTATTCCTGTATTGACAGCGAAGTAGATCGAAG
1 AGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTACTGACAGCGAAGCAGATCGAAG
*
64617510 ATAGCAAGTCCTATCTCCCTGAGT
66 ACA-CAAGTCCTATCTCCCTGAGT
* * * *
64617534 AGCAGTGGAGTAGGTTGAAAAGAGTAGATCTTGTCTTCCTGTACTGATAGCGAAACAGATCGAAG
1 AGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTACTGACAGCGAAGCAGATCGAAG
* *
64617599 ATAGCAAGTCTTATCTCCCTGAGT
66 ACA-CAAGTCCTATCTCCCTGAGT
* * * * * * ** *
64617623 TGCAGCGGAGCAGGCTGAAGATAGCAGATCTTGTCTTCCTGTATTGGTAGTGAAGCAGATCGAAG
1 AGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTACTGACAGCGAAGCAGATCGAAG
* *
64617688 ACACCAG-CCT-TGCCTCCTTGAGTT
66 ACACAAGTCCTAT--CTCCCTGAG-T
* ** * ** * * * * * * *
64617712 TGCAGCAGAGCAGACTGAAAATAGCAGATCTTATCTTCCTATACTGGCAGTGAAGTAGATCAAAA
1 AGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTACTGACAGCGAAGCAGATCGAAG
* *
64617777 ACACCAGTCCTATCTCCCTGAGA
66 ACACAAGTCCTATCTCCCTGAGT
* * * *
64617800 AGTAGTGGAGTAGGTTGAAAATTGTAGATCCTGTCT
1 AGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCT
64617836 CCCTAGGCAG
Statistics
Matches: 250, Mismatches: 47, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
86 1 0.00
87 2 0.01
88 36 0.14
89 207 0.83
90 3 0.01
91 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (88 bp):
AGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTACTGACAGCGAAGCAGATCGAAG
ACACAAGTCCTATCTCCCTGAGT
Found at i:64617688 original size:45 final size:45
Alignment explanation
Indices: 64617559--64617688 Score: 124
Period size: 44 Copynumber: 2.9 Consensus size: 45
64617549 TGAAAAGAGT
* * *
64617559 AGATCTTGTCTTCCTGTACTGATAGCGAAACAGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTGGTAGCGAAGCAGATCGAAGATAGC
* * * * *
64617604 A-AGTCTTATCTCCCTG-AGTT-GCAGCGGAGCAG-GCTGAAGATAGC
1 AGA-TCTTGTCTTCCTGTA-TTGGTAGCGAAGCAGATC-GAAGATAGC
*
64617648 AGATCTTGTCTTCCTGTATTGGTAGTGAAGCAGATCGAAGA
1 AGATCTTGTCTTCCTGTATTGGTAGCGAAGCAGATCGAAGA
64617689 CACCAGCCTT
Statistics
Matches: 64, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
43 1 0.02
44 33 0.52
45 29 0.45
46 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (45 bp):
AGATCTTGTCTTCCTGTATTGGTAGCGAAGCAGATCGAAGATAGC
Found at i:64617955 original size:131 final size:130
Alignment explanation
Indices: 64617782--64618176 Score: 555
Period size: 131 Copynumber: 3.0 Consensus size: 130
64617772 CAAAAACACC
* * *
64617782 AGTCCTATCTCCCTGAG-AAGTAGTGGAGTAGGTTGAAAATTGTAGATCCTGTCTCCCTAGGCAG
1 AGTCCTATCTCCCTAAGCAA-TAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAG
* * *
64617846 TAGTAGAGCAGATTGAAGACAGCGAATCTTATCTTCCCGAGATAGTAGGAAGCAGATTTAAGCCA
65 TAGTGGAGCAGATCGAAGAC-GCGAATCTTATCTTCCCGAGGTAGTAGGAAGCAGATTTAAGCCA
64617911 CT
129 CT
*
64617913 AGTCCTATCTCCCTAAGCAATAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCATT
1 AGTCCTATCTCCCTAAGCAATAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGT
* * * *
64617978 AGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCAAGGTAGTAGTTAAGTAGATTTAAGCCA
66 AGTGGAGCAGATCGAAGA-CGCGAATCTTATCTTCCCGAGGTAGTAG-GAAGCAGATTTAAGCCA
*
64618043 CC
129 CT
*
64618045 AGTCCTATCTCCCTACAGC---AGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCTCTAAGCAG
1 AGTCCTATCTCCCTA-AGCAATAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAG
* * *
64618107 TAGTGGAGCAGATCAAAGACGACGAGTCTTATCTTTCCGAGGTAGTAGGGAAGCAGATTTAAGCC
65 TAGTGGAGCAGATCGAAGACG-CGAATCTTATCTTCCCGAGGTAGTA-GGAAGCAGATTTAAGCC
64618172 ACT
128 ACT
64618175 AG
1 AG
64618177 CCTCATTTCA
Statistics
Matches: 236, Mismatches: 22, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
129 1 0.00
130 99 0.42
131 100 0.42
132 33 0.14
133 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (130 bp):
AGTCCTATCTCCCTAAGCAATAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGACGCGAATCTTATCTTCCCGAGGTAGTAGGAAGCAGATTTAAGCCACT
Found at i:64618114 original size:44 final size:44
Alignment explanation
Indices: 64617784--64618119 Score: 161
Period size: 44 Copynumber: 7.7 Consensus size: 44
64617774 AAAACACCAG
* * * *
64617784 TCCTATCTCCCTGAGAAGTAGTGGAGTAGGTTGAAAATTGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGA
* * * * ** *
64617828 TCCTGTCTCCCTAGGCAGTAGTAGAGCAGATTGAAGACAG-CGAA
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAG-A
* * * * ****
64617872 TCTTATCTTCCC-GAG-A-TAGTAGGAAGCAGATTTAAGCCACTAG-
1 TCCTATC-TCCCTAAGCAGTAGT-GG-AGTAGATTGAAGATTGTAGA
* *
64617915 TCCTATCTCCCTAAGCAATAGTGGAGTAGGTTGAAGATTGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGA
* * * * **
64617959 TCCTGTCTCCCTAAGCATTAGTGGAGCAGATCGAAGA-TGGCGAA
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAG-A
* * ** * *****
64618003 TCTTATCTTCCC-AAGGTAGTAGTTAAGTAGATTTAAGCCACCAG-
1 TCCTATC-TCCCTAA-GCAGTAGTGGAGTAGATTGAAGATTGTAGA
* *
64618047 TCCTATCTCCCT-A-CAGCAGTGGAGTAGGTTGAAGATTGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGA
* * *
64618089 TCCTGTCTCTCTAAGCAGTAGTGGAGCAGAT
1 TCCTATCTCCCTAAGCAGTAGTGGAGTAGAT
64618120 CAAAGACGAC
Statistics
Matches: 208, Mismatches: 67, Indels: 34
0.67 0.22 0.11
Matches are distributed among these distances:
41 17 0.08
42 18 0.09
43 32 0.15
44 112 0.54
45 28 0.13
46 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (44 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATTGTAGA
Found at i:64618642 original size:19 final size:19
Alignment explanation
Indices: 64618618--64618671 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
64618608 AATCTTCAAG
64618618 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
64618637 GATATGCAATTTTAGATAT
1 GATATGCAATCTTAGATAT
64618656 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
64618672 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:64618693 original size:23 final size:22
Alignment explanation
Indices: 64618618--64618694 Score: 76
Period size: 19 Copynumber: 3.7 Consensus size: 22
64618608 AATCTTCAAG
64618618 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
*
64618637 GATATGCAAT-TT--TAGATAT
1 GATATGCAATCTTAGAAGATAT
64618656 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
64618678 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
64618695 TATTTAATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.04
19 26 0.52
20 2 0.04
22 8 0.16
23 12 0.24
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:64618942 original size:23 final size:23
Alignment explanation
Indices: 64618898--64618942 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
64618888 TCTTATTTTG
* *
64618898 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
64618921 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
64618943 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:64626955 original size:21 final size:20
Alignment explanation
Indices: 64626931--64626980 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 20
64626921 TACAAGTAAG
64626931 AGCTTTTAGAACCTTATTTT
1 AGCTTTTAGAACCTTATTTT
64626951 AAGCTTTTAGAACCTTATTTT
1 -AGCTTTTAGAACCTTATTTT
64626972 AGTCTTTTA
1 AG-CTTTTA
64626981 CGCACTCACA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 2 0.07
21 26 0.93
ACGTcount: A:0.26, C:0.14, G:0.10, T:0.50
Consensus pattern (20 bp):
AGCTTTTAGAACCTTATTTT
Found at i:64631259 original size:29 final size:30
Alignment explanation
Indices: 64631209--64631265 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
64631199 GGGGAAGGGA
*
64631209 AAAGAAATAAAATAAATAGAAAATAAAAAC
1 AAAGAAATAAAATAAATAGAAAAGAAAAAC
*
64631239 AAAGAAA-AAAATAGAA-CGAAAAGAAAA
1 AAAGAAATAAAATA-AATAGAAAAGAAAA
64631266 TGACATAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.77, C:0.04, G:0.11, T:0.09
Consensus pattern (30 bp):
AAAGAAATAAAATAAATAGAAAAGAAAAAC
Found at i:64631402 original size:12 final size:11
Alignment explanation
Indices: 64631383--64631412 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
64631373 AAAAGGAAGG
64631383 GAAAAAAGAAA
1 GAAAAAAGAAA
64631394 GAAAGAAAGAAA
1 GAAA-AAAGAAA
64631406 GAAAAAA
1 GAAAAAA
64631413 CAAAAAGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
GAAAAAAGAAA
Found at i:64635550 original size:20 final size:20
Alignment explanation
Indices: 64635525--64635562 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
64635515 GAATTTAAAA
*
64635525 ATTAAACTAAAAACAAAAGT
1 ATTAAAATAAAAACAAAAGT
*
64635545 ATTAAAATAAAAATAAAA
1 ATTAAAATAAAAACAAAA
64635563 AATGGCTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (20 bp):
ATTAAAATAAAAACAAAAGT
Found at i:64644965 original size:27 final size:26
Alignment explanation
Indices: 64644925--64644975 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 26
64644915 ATGCAATTCT
64644925 TACAAACAATATGATTGAATAACAATA
1 TACAAACAATATGA-TGAATAACAATA
64644952 TACAAAGCAA-ATGATGAATAACAA
1 TACAAA-CAATATGATGAATAACAA
64644976 ACTAATTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 10 0.43
27 10 0.43
28 3 0.13
ACGTcount: A:0.57, C:0.12, G:0.10, T:0.22
Consensus pattern (26 bp):
TACAAACAATATGATGAATAACAATA
Found at i:64645089 original size:15 final size:17
Alignment explanation
Indices: 64645069--64645100 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
64645059 ACAAAACGAG
64645069 AATAA-TTAAT-ACAAA
1 AATAATTTAATCACAAA
64645084 AATAATTTAATCACAAA
1 AATAATTTAATCACAAA
64645101 TAAACCAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 5 0.33
17 5 0.33
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.28
Consensus pattern (17 bp):
AATAATTTAATCACAAA
Found at i:64645191 original size:25 final size:26
Alignment explanation
Indices: 64645154--64645205 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
64645144 AGAATAAAAA
*
64645154 TTTATAAGGCACAAAT-TATAATATAT
1 TTTATAAGACACAAATATAT-ATATAT
*
64645180 TTTATAA-ACACACATATATATATAT
1 TTTATAAGACACAAATATATATATAT
64645205 T
1 T
64645206 AAAAATAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (26 bp):
TTTATAAGACACAAATATATATATAT
Found at i:64645301 original size:18 final size:20
Alignment explanation
Indices: 64645264--64645302 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
64645254 AGGTAAAAAG
*
64645264 AATTTAAAATAATGTTGATA
1 AATTTAAAATAATGTGGATA
64645284 AATTT-AAAT-ATGTGGATA
1 AATTTAAAATAATGTGGATA
64645302 A
1 A
64645303 TAATTTAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 4 0.22
20 5 0.28
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (20 bp):
AATTTAAAATAATGTGGATA
Found at i:64647024 original size:28 final size:28
Alignment explanation
Indices: 64646989--64647051 Score: 126
Period size: 28 Copynumber: 2.2 Consensus size: 28
64646979 AGATAAACAT
64646989 ATATATTTATATAATTTTCCAAAACCAC
1 ATATATTTATATAATTTTCCAAAACCAC
64647017 ATATATTTATATAATTTTCCAAAACCAC
1 ATATATTTATATAATTTTCCAAAACCAC
64647045 ATATATT
1 ATATATT
64647052 AAACTAATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (28 bp):
ATATATTTATATAATTTTCCAAAACCAC
Found at i:64647059 original size:28 final size:28
Alignment explanation
Indices: 64646989--64647059 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 28
64646979 AGATAAACAT
*
64646989 ATATATTTATATAATTTTCCAAAACCAC
1 ATATATTTAAATAATTTTCCAAAACCAC
*
64647017 ATATATTTATATAATTTTCCAAAACCAC
1 ATATATTTAAATAATTTTCCAAAACCAC
64647045 ATATA-TTAAACTAAT
1 ATATATTTAAA-TAAT
64647060 CAAAACATGC
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 4 0.10
28 37 0.90
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.39
Consensus pattern (28 bp):
ATATATTTAAATAATTTTCCAAAACCAC
Found at i:64649702 original size:20 final size:20
Alignment explanation
Indices: 64649661--64649702 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
64649651 TCAATTAAAC
*
64649661 TATTAATTTAATTAGATGAA
1 TATTAATTTAATTAAATGAA
*
64649681 TATTTATTTAGATTAAAT-AA
1 TATTAATTTA-ATTAAATGAA
64649701 TA
1 TA
64649703 AGTCTAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (20 bp):
TATTAATTTAATTAAATGAA
Found at i:64652335 original size:129 final size:129
Alignment explanation
Indices: 64652179--64652434 Score: 503
Period size: 129 Copynumber: 2.0 Consensus size: 129
64652169 GTTAGATTTT
*
64652179 TTATTTTCAAAACTAAAACAAACTCTGAAAATTTTCTGTTTCAAGGTTAAGTAATCATTTAAGTA
1 TTATTTTCAAAACTAAAACAAACTCTGAAAATTTTCCGTTTCAAGGTTAAGTAATCATTTAAGTA
64652244 TTTTTCTAAAAATAAAATATATGGTTTGTAACACATTATTATTTTAATATTAGAAATGATATTA
66 TTTTTCTAAAAATAAAATATATGGTTTGTAACACATTATTATTTTAATATTAGAAATGATATTA
64652308 TTATTTTCAAAACTAAAACAAACTCTGAAAATTTTCCGTTTCAAGGTTAAGTAATCATTTAAGTA
1 TTATTTTCAAAACTAAAACAAACTCTGAAAATTTTCCGTTTCAAGGTTAAGTAATCATTTAAGTA
64652373 TTTTTCTAAAAATAAAATATATGGTTTGTAACACATTATTATTTTAATATTAGAAATGATAT
66 TTTTTCTAAAAATAAAATATATGGTTTGTAACACATTATTATTTTAATATTAGAAATGATAT
64652435 GCTAACATTA
Statistics
Matches: 126, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
129 126 1.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (129 bp):
TTATTTTCAAAACTAAAACAAACTCTGAAAATTTTCCGTTTCAAGGTTAAGTAATCATTTAAGTA
TTTTTCTAAAAATAAAATATATGGTTTGTAACACATTATTATTTTAATATTAGAAATGATATTA
Found at i:64655928 original size:23 final size:22
Alignment explanation
Indices: 64655885--64655928 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
64655875 TTCTAAGTCG
64655885 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
64655908 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
64655929 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:64656041 original size:45 final size:45
Alignment explanation
Indices: 64655973--64656060 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
64655963 AACATATACT
*
64655973 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGATTCAGCACATAGCAACCACCTTACTAATCAATGATGTC
*
64656018 CGGTGGAATT-AGCACATATCAACCACCTTACTAATCAATGATG
1 CGGTGG-ATTCAGCACATAGCAACCACCTTACTAATCAATGATG
64656061 GTCGGTTCAC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
45 37 0.93
46 3 0.08
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (45 bp):
CGGTGGATTCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:64656133 original size:51 final size:51
Alignment explanation
Indices: 64656062--64656202 Score: 166
Period size: 50 Copynumber: 2.8 Consensus size: 51
64656052 TCAATGATGG
*
64656062 TCGGTTCACATAGTAGCCTGCACATAGTACTACACACGTGGTCGAAACTATC-
1 TCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGG-CG-AACTATCT
* * *
64656114 T-GGTACGCATAATAGCCTGCACATAGTACTACACA--T-GCGACCTATCATT
1 TCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGGCGAACTATC--T
*
64656163 TCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTG
1 TCGGTACACATAGTAGCCTGCACATAGTACTACACACGTG
64656203 ACCATCACTT
Statistics
Matches: 75, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
46 6 0.08
47 2 0.03
48 1 0.01
49 2 0.03
50 31 0.41
51 31 0.41
52 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (51 bp):
TCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGGCGAACTATCT
Found at i:64660675 original size:23 final size:22
Alignment explanation
Indices: 64660632--64660675 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
64660622 TTCTAAGTCG
64660632 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
64660655 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
64660676 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:64660877 original size:51 final size:50
Alignment explanation
Indices: 64660819--64661005 Score: 207
Period size: 51 Copynumber: 3.7 Consensus size: 50
64660809 TTGGTTCACA
* *
64660819 TAGTAGCCTGCACATAGTACTACACATGTAACCATTATCATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TATCATCTGATACACG
* * * * * *
64660870 TAGTAGCCTGCACATAGTACTACACACGTGATCAAAACTATCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATATC-ATCTGATACACG
* * *
64660921 TAGTAGCCTGCACATAGTACTACACAAGCGACC-TATCAT-TCCAGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATATCATCT-GA-TACACG
* *
64660971 TACTAGCCTACACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
64661006 CACTTTCACT
Statistics
Matches: 111, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
48 1 0.01
49 2 0.02
50 37 0.33
51 71 0.64
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATATCATCTGATACACG
Found at i:64660999 original size:101 final size:101
Alignment explanation
Indices: 64660817--64661001 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 101
64660807 TTTTGGTTCA
* * * * *
64660817 CATAGTAGCCTGCACATAGTACTACACATGTAACCATTATCATCTGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACAAGCAACCA-TATCATCAGATACACGTACTAGCCTACA
64660882 CATAGTACTACACACGTGATCAAAACTATCTGGTACG
65 CATAGTACTACACACGTGATCAAAACTATCTGGTACG
*
64660919 CATAGTAGCCTGCACATAGTACTACACAAGCGACC-TATCATTCCAG-TACACGTACTAGCCTAC
1 CATAGTAGCCTGCACATAGTACTACACAAGCAACCATATCA-T-CAGATACACGTACTAGCCTAC
64660982 ACATAGTACTACACACGTGA
64 ACATAGTACTACACACGTGA
64661002 CCATCACTTT
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
100 5 0.07
101 36 0.48
102 34 0.45
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACAAGCAACCATATCATCAGATACACGTACTAGCCTACAC
ATAGTACTACACACGTGATCAAAACTATCTGGTACG
Found at i:64664740 original size:912 final size:912
Alignment explanation
Indices: 64662978--64664801 Score: 3576
Period size: 912 Copynumber: 2.0 Consensus size: 912
64662968 TGTAATTAGT
64662978 TAGCCTATATAAAGGTCTCTTCATTATTCACTAAACATACATTGATTAATAAATTTCAAGTTTTT
1 TAGCCTATATAAAGGTCTCTTCATTATTCACTAAACATACATTGATTAATAAATTTCAAGTTTTT
64663043 AAGTTATTTCTCTTTGTGAGATTTCTCTTTTGTTTATTTTAGAAATAGGTTTTCTTCTTAGTTTT
66 AAGTTATTTCTCTTTGTGAGATTTCTCTTTTGTTTATTTTAGAAATAGGTTTTCTTCTTAGTTTT
*
64663108 CTCTTTGAGGCCATAGGAGAACTATTCACCCTCCAATTTACTAAGGATTAACCTTAGGGGGTTGG
131 CTCTTTGAGGCCATAGGAGAACTATTCACCCTCCAATTTACTAAGGATCAACCTTAGGGGGTTGG
*
64663173 TTAGAGTCATAGTTGAGCTTGTTGGGAAATCTTCCTCTAAGGGTTCAACTAGACAATTATCCTTC
196 TTAGAGTCATAGTTGAGCTTGTTAGGAAATCTTCCTCTAAGGGTTCAACTAGACAATTATCCTTC
64663238 TATCCATATCCATCGATTTATTTCATCCATCTTCCACCTTTTAATTTTCATTTTTTTCATTTATT
261 TATCCATATCCATCGATTTATTTCATCCATCTTCCACCTTTTAATTTTCATTTTTTTCATTTATT
64663303 GTTTTGAATCTTTATTATTGTCCTTTAATTTATTTATTTTAGTTGTTTTCATTTTCTTTATTTTC
326 GTTTTGAATCTTTATTATTGTCCTTTAATTTATTTATTTTAGTTGTTTTCATTTTCTTTATTTTC
64663368 TAAATTTGTTTGGTTCTTCTTTTCAAGTTAGATTCGAATATTTTTTCTAGTTGAATAACTTGAAT
391 TAAATTTGTTTGGTTCTTCTTTTCAAGTTAGATTCGAATATTTTTTCTAGTTGAATAACTTGAAT
64663433 ATGATCATGGTCCATTATTTCTTATAAAACATATTTTATTTTTTCACAACATAGTGACATTTTTG
456 ATGATCATGGTCCATTATTTCTTATAAAACATATTTTATTTTTTCACAACATAGTGACATTTTTG
64663498 AGCTGCTCCATTGTAAACTTGAATGCGGAACCCTCTTGAAAGTTATCACAAATACCATACTGCTT
521 AGCTGCTCCATTGTAAACTTGAATGCGGAACCCTCTTGAAAGTTATCACAAATACCATACTGCTT
*
64663563 TGTCTTCATGCTAATATCCTTCGCAAGCACCCTGAACTGCAAAATCTTTTTTTCCATAGCACTAG
586 TGTCTTCATGCTAATATCCTTCGCAAGCACCCTGAACTACAAAATCTTTTTTTCCATAGCACTAG
64663628 TCCTCATTTTGTTGGTCATTCTTTAAAGTAGACAATTAAATATCACAAATTAAAGTAAAAAAAGA
651 TCCTCATTTTGTTGGTCATTCTTTAAAGTAGACAATTAAATATCACAAATTAAAGTAAAAAAAGA
64663693 CAAAATAGACACAAATAGAGAAAACAAATAAGAAAAAAGCAATTGAGAAGAAAATGTAGAGACAC
716 CAAAATAGACACAAATAGAGAAAACAAATAAGAAAAAAGCAATTGAGAAGAAAATGTAGAGACAC
*
64663758 TAAAGAATTGATAATGTTACGCTTTGTCTACTATTGGTTATATATAAAAACACAAAACCTTAACA
781 TAAAGAACTGATAATGTTACGCTTTGTCTACTATTGGTTATATATAAAAACACAAAACCTTAACA
64663823 AAAAGTGTTGAAGTCAAATGATATTATGAAACAATAGACCTCTCAAATGTGATAGTTTATCATTC
846 AAAAGTGTTGAAGTCAAATGATATTATGAAACAATAGACCTCTCAAATGTGATAGTTTATCATTC
64663888 AA
911 AA
*
64663890 TAGCCTATATAAAGGTCTCTTCATTATTCATTAAACATACATTGATTAATAAATTTCAAGTTTTT
1 TAGCCTATATAAAGGTCTCTTCATTATTCACTAAACATACATTGATTAATAAATTTCAAGTTTTT
64663955 AAGTTATTTCTCTTTGTGAGATTTCTCTTTTGTTTATTTTAGAAATAGGTTTTCTTCTTAGTTTT
66 AAGTTATTTCTCTTTGTGAGATTTCTCTTTTGTTTATTTTAGAAATAGGTTTTCTTCTTAGTTTT
64664020 CTCTTTGAGGCCATAGGAGAACTATTCACCCTCCAATTTACTAAGGATCAACCTTAGGGGGTTGG
131 CTCTTTGAGGCCATAGGAGAACTATTCACCCTCCAATTTACTAAGGATCAACCTTAGGGGGTTGG
64664085 TTAGAGTCATAGTTGAGCTTGTTAGGAAATCTTCCTCTAAGGGTTCAACTAGACAATTATCCTTC
196 TTAGAGTCATAGTTGAGCTTGTTAGGAAATCTTCCTCTAAGGGTTCAACTAGACAATTATCCTTC
64664150 TATCCATATCCATCGATTTATTTCATCCATCTTCCACCTTTTAATTTTCATTTTTTTCATTTATT
261 TATCCATATCCATCGATTTATTTCATCCATCTTCCACCTTTTAATTTTCATTTTTTTCATTTATT
64664215 GTTTTGAATCTTTATTATTGTCCTTTAATTTATTTATTTTAGTTGTTTTCATTTTCTTTATTTTC
326 GTTTTGAATCTTTATTATTGTCCTTTAATTTATTTATTTTAGTTGTTTTCATTTTCTTTATTTTC
64664280 TAAATTTGTTTGGTTCTTCTTTTCAAGTTAGATTCGAATATTTTTTCTAGTTGAATAACTTGAAT
391 TAAATTTGTTTGGTTCTTCTTTTCAAGTTAGATTCGAATATTTTTTCTAGTTGAATAACTTGAAT
64664345 ATGATCATGGTCCATTATTTCTTATAAAACATATTTTATTTTTTCACAACATAGTGACATTTTTG
456 ATGATCATGGTCCATTATTTCTTATAAAACATATTTTATTTTTTCACAACATAGTGACATTTTTG
*
64664410 AGCTGCTCCATTGTAAACTTGAATGCGGAACCCTCTTGAAAGTTATCACAAATACCATATTGCTT
521 AGCTGCTCCATTGTAAACTTGAATGCGGAACCCTCTTGAAAGTTATCACAAATACCATACTGCTT
64664475 TGTCTTCATGCTAATATCCTTCGCAAGCACCCTGAACTACAAAATCTTTTTTTCCATAGCACTAG
586 TGTCTTCATGCTAATATCCTTCGCAAGCACCCTGAACTACAAAATCTTTTTTTCCATAGCACTAG
*
64664540 TCCTCATTTTGTTGGTCATTCTTTAAAGTAGACAATTAAATATCACAATTTAAAGTAAAAAAAGA
651 TCCTCATTTTGTTGGTCATTCTTTAAAGTAGACAATTAAATATCACAAATTAAAGTAAAAAAAGA
64664605 CAAAATAGACACAAATAGAGAAAACAAATAAGAAAAAAGCAATTGAGAAGAAAATGTAGAGACAC
716 CAAAATAGACACAAATAGAGAAAACAAATAAGAAAAAAGCAATTGAGAAGAAAATGTAGAGACAC
64664670 TAAAGAACTGATAATGTTACGCTTTGTCTACTATTGGTTATATATAAAAACACAAAACCTTAACA
781 TAAAGAACTGATAATGTTACGCTTTGTCTACTATTGGTTATATATAAAAACACAAAACCTTAACA
*
64664735 AAAAGTGTTGAAGTCAAATGATATTATGAAACAATAGACCTCTCAAATGTGATATTTTATCATTC
846 AAAAGTGTTGAAGTCAAATGATATTATGAAACAATAGACCTCTCAAATGTGATAGTTTATCATTC
64664800 AA
911 AA
64664802 AACCCATTGC
Statistics
Matches: 904, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
912 904 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.40
Consensus pattern (912 bp):
TAGCCTATATAAAGGTCTCTTCATTATTCACTAAACATACATTGATTAATAAATTTCAAGTTTTT
AAGTTATTTCTCTTTGTGAGATTTCTCTTTTGTTTATTTTAGAAATAGGTTTTCTTCTTAGTTTT
CTCTTTGAGGCCATAGGAGAACTATTCACCCTCCAATTTACTAAGGATCAACCTTAGGGGGTTGG
TTAGAGTCATAGTTGAGCTTGTTAGGAAATCTTCCTCTAAGGGTTCAACTAGACAATTATCCTTC
TATCCATATCCATCGATTTATTTCATCCATCTTCCACCTTTTAATTTTCATTTTTTTCATTTATT
GTTTTGAATCTTTATTATTGTCCTTTAATTTATTTATTTTAGTTGTTTTCATTTTCTTTATTTTC
TAAATTTGTTTGGTTCTTCTTTTCAAGTTAGATTCGAATATTTTTTCTAGTTGAATAACTTGAAT
ATGATCATGGTCCATTATTTCTTATAAAACATATTTTATTTTTTCACAACATAGTGACATTTTTG
AGCTGCTCCATTGTAAACTTGAATGCGGAACCCTCTTGAAAGTTATCACAAATACCATACTGCTT
TGTCTTCATGCTAATATCCTTCGCAAGCACCCTGAACTACAAAATCTTTTTTTCCATAGCACTAG
TCCTCATTTTGTTGGTCATTCTTTAAAGTAGACAATTAAATATCACAAATTAAAGTAAAAAAAGA
CAAAATAGACACAAATAGAGAAAACAAATAAGAAAAAAGCAATTGAGAAGAAAATGTAGAGACAC
TAAAGAACTGATAATGTTACGCTTTGTCTACTATTGGTTATATATAAAAACACAAAACCTTAACA
AAAAGTGTTGAAGTCAAATGATATTATGAAACAATAGACCTCTCAAATGTGATAGTTTATCATTC
AA
Found at i:64667988 original size:71 final size:71
Alignment explanation
Indices: 64667910--64668126 Score: 168
Period size: 71 Copynumber: 3.1 Consensus size: 71
64667900 TATACAATTA
* *
64667910 ATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATG
1 ATATTTTGTATGAATCAAATTCATATATTAATTATATTATTTCCAAAAGAATATTAATTTACATG
64667975 TCTTTT
66 TCTTTT
* * * ** * *
64667981 ATATTTTGACTAT-AAT-TAATTAATATAACTGTTTATATTAATAAATTCGATAA-AATA-T-A-
1 ATATTTTG--TATGAATCAAATTCATAT-ATTAATTATATT-AT---TTCCAAAAGAATATTAAT
* *
64668040 -TACA----ATTA
59 TTACATGTCTTTT
* * *
64668048 ATATTTTGTACGAATCAAATTCATATATTACTTATATTTTTTCCAAAAGAATATTAATTTACATG
1 ATATTTTGTATGAATCAAATTCATATATTAATTATATTATTTCCAAAAGAATATTAATTTACATG
64668113 TCTTTT
66 TCTTTT
64668119 ATATTTTG
1 ATATTTTG
64668127 ACCGAAATTA
Statistics
Matches: 106, Mismatches: 22, Indels: 36
0.65 0.13 0.22
Matches are distributed among these distances:
62 6 0.06
63 4 0.04
64 1 0.01
65 4 0.04
66 12 0.11
67 22 0.21
71 29 0.27
72 12 0.11
73 5 0.05
74 1 0.01
75 4 0.04
76 6 0.06
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (71 bp):
ATATTTTGTATGAATCAAATTCATATATTAATTATATTATTTCCAAAAGAATATTAATTTACATG
TCTTTT
Found at i:64668224 original size:138 final size:137
Alignment explanation
Indices: 64667801--64668223 Score: 679
Period size: 138 Copynumber: 3.1 Consensus size: 137
64667791 TAGAAAAATG
*
64667801 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
64667866 TATAA-TTTTTCATAATAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
66 TATAACTATTTC-TATTAATAAATTT-GTAAAATATATACAATTAATATTTTGTATGAATCAAAT
64667930 TCATATATT
129 TCATATATT
* *
64667939 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGA-CTATAATTAATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGA-AATTAATTA
* * * *
64668003 ATATAACTGTTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTACGAATCAAAT
65 ATATAACTATTTCTATTAATAAATTTG-TAAAATATATACAATTAATATTTTGTATGAATCAAAT
64668068 TCATATATT
129 TCATATATT
* *
64668077 ACTTATATTTTTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGAAATTAATTAA
64668142 TATAACTATTTCTATTAATAAAATTTGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTATTTCTATTAAT-AAATTTGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
64668207 CATATATT
130 CATATATT
*
64668215 AATTTTATT
1 AATTATATT
64668224 TATGTTCTCC
Statistics
Matches: 263, Mismatches: 17, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
137 3 0.01
138 248 0.94
139 12 0.05
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.46
Consensus pattern (137 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTACATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTATTTCTATTAATAAATTTGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
ATATATT
Found at i:64668306 original size:17 final size:17
Alignment explanation
Indices: 64668284--64668317 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
64668274 TCTAACTATC
64668284 AAATTAAATTAATTCAA
1 AAATTAAATTAATTCAA
*
64668301 AAATTAATTTAATTCAA
1 AAATTAAATTAATTCAA
64668318 GTGACAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATTAAATTAATTCAA
Found at i:64693117 original size:23 final size:23
Alignment explanation
Indices: 64693091--64693140 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
64693081 GGGGTTATAG
*
64693091 AATACGTCACAAAGGCATCACAA
1 AATACGCCACAAAGGCATCACAA
* * *
64693114 AATATGCCATAAAGGCATCATAA
1 AATACGCCACAAAGGCATCACAA
64693137 AATA
1 AATA
64693141 AATCTTATTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.50, C:0.20, G:0.12, T:0.18
Consensus pattern (23 bp):
AATACGCCACAAAGGCATCACAA
Found at i:64697468 original size:40 final size:39
Alignment explanation
Indices: 64697411--64697556 Score: 193
Period size: 40 Copynumber: 3.7 Consensus size: 39
64697401 TGCTCAGACA
**
64697411 AGCCATACCTACCGAATCTACTGAAACGTATGCACTTTCG
1 AGCCATACCTATTGAATCTACTGAAA-GTATGCACTTTCG
* * *
64697451 AGCCATACTTATTGAATCTATTGGAAAGTATGCACTTTTG
1 AGCCATACCTATTGAATCTACT-GAAAGTATGCACTTTCG
* * *
64697491 AGCCACACCTACTGAATCTACTGAAATGTATGCACTTTCA
1 AGCCATACCTATTGAATCTACTGAAA-GTATGCACTTTCG
64697531 AGCCATACCTATTGAATCTACTGAAA
1 AGCCATACCTATTGAATCTACTGAAA
64697557 AGAATGCTCT
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.04
40 83 0.91
41 4 0.04
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.29
Consensus pattern (39 bp):
AGCCATACCTATTGAATCTACTGAAAGTATGCACTTTCG
Found at i:64698029 original size:18 final size:19
Alignment explanation
Indices: 64698000--64698035 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
64697990 ACTTGTTTGC
*
64698000 TTAAGTTGAAATGAATGAT
1 TTAAGTTGAAATCAATGAT
64698019 TTAAG-TGAAATCAATGA
1 TTAAGTTGAAATCAATGA
64698036 CCCTATATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.33
Consensus pattern (19 bp):
TTAAGTTGAAATCAATGAT
Found at i:64698908 original size:22 final size:21
Alignment explanation
Indices: 64698873--64698913 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
64698863 TAGTTGTAAC
64698873 ATTAATTAAATTAATTGTTGT
1 ATTAATTAAATTAATTGTTGT
*
64698894 ATTAATTTAATTTAATTGTT
1 ATTAA-TTAAATTAATTGTT
64698914 AAATTAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (21 bp):
ATTAATTAAATTAATTGTTGT
Found at i:64698919 original size:22 final size:21
Alignment explanation
Indices: 64698860--64698920 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
64698850 TTGGTATTGT
*
64698860 ATTTAGTTG-TAACATTAATTA
1 ATTTAATTGTTAA-ATTAATTA
* **
64698881 AATTAATTGTTGTATTAATTTA
1 ATTTAATTGTTAAATTAA-TTA
64698903 ATTTAATTGTTAAATTAA
1 ATTTAATTGTTAAATTAA
64698921 ACACATTATA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 12 0.39
22 19 0.61
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.51
Consensus pattern (21 bp):
ATTTAATTGTTAAATTAATTA
Found at i:64700597 original size:17 final size:16
Alignment explanation
Indices: 64700573--64700605 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
64700563 TATAATATGT
64700573 TATTATTTATATTATA
1 TATTATTTATATTATA
64700589 TATTGATTTATATTATA
1 TATT-ATTTATATTATA
64700606 AAAAATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
TATTATTTATATTATA
Found at i:64704672 original size:2 final size:2
Alignment explanation
Indices: 64704629--64704655 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
64704619 TACTCCCACA
64704629 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
64704656 AATTAAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:64708563 original size:3 final size:3
Alignment explanation
Indices: 64708555--64708599 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
64708545 CAACTAGCTT
64708555 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
64708600 CTAATGATCC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:64710830 original size:25 final size:25
Alignment explanation
Indices: 64710802--64710925 Score: 68
Period size: 25 Copynumber: 5.0 Consensus size: 25
64710792 AGCCTTCATG
64710802 GTGATTTATTTGGGAAGCCTTTGTA
1 GTGATTTATTTGGGAAGCCTTTGTA
* * ** *** *
64710827 GTGAGTCACCTATAAAGCCTTTGTG
1 GTGATTTATTTGGGAAGCCTTTGTA
* **
64710852 GGGATTTATTTGGGAAGCCTTTACA
1 GTGATTTATTTGGGAAGCCTTTGTA
* * * * * * *
64710877 GTAAGTCACTTGTGAAGCTTTTGTG
1 GTGATTTATTTGGGAAGCCTTTGTA
* *
64710902 GCGATTTATTTTGGAAGCCTTTGT
1 GTGATTTATTTGGGAAGCCTTTGT
64710926 GGCGAGTCAC
Statistics
Matches: 62, Mismatches: 37, Indels: 0
0.63 0.37 0.00
Matches are distributed among these distances:
25 62 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.40
Consensus pattern (25 bp):
GTGATTTATTTGGGAAGCCTTTGTA
Found at i:64710845 original size:50 final size:50
Alignment explanation
Indices: 64710804--64711104 Score: 300
Period size: 50 Copynumber: 6.0 Consensus size: 50
64710794 CCTTCATGGT
* * * *
64710804 GATTTATTTGGGAAGCCTTTGTAGTGAGTCACCTATAAAGCCTTTGTGGG
1 GATTTATTTGGGAAGCCTTTGTGGCGAGTCACCTGTAAAGCCTTTGTGGC
*** ** * * *
64710854 GATTTATTTGGGAAGCCTTTACAGTAAGTCACTTGTGAAGCTTTTGTGGC
1 GATTTATTTGGGAAGCCTTTGTGGCGAGTCACCTGTAAAGCCTTTGTGGC
* * *
64710904 GATTTATTTTGGAAGCCTTTGTGGCGAGTCACCTATAAAG-CTCTTGTAGC
1 GATTTATTTGGGAAGCCTTTGTGGCGAGTCACCTGTAAAGCCT-TTGTGGC
* * * * * *
64710954 AATTTATTTAGGAAGCATTTGTGGCAAGTCACCTGTAAAGCCCTTGTGGA
1 GATTTATTTGGGAAGCCTTTGTGGCGAGTCACCTGTAAAGCCTTTGTGGC
* * * *
64711004 AATTTATTTGGGAAGCCTTTCTGGAGAGTCACCTGTAAAGCCTTTGTGGT
1 GATTTATTTGGGAAGCCTTTGTGGCGAGTCACCTGTAAAGCCTTTGTGGC
* * * * *
64711054 GATTTATTTGGGGAGCCCTTGTGGC-ATGTTACTTGTAAAGCCTATGTGGC
1 GATTTATTTGGGAAGCCTTTGTGGCGA-GTCACCTGTAAAGCCTTTGTGGC
64711104 G
1 G
64711105 TAATGTCTGG
Statistics
Matches: 205, Mismatches: 43, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
49 2 0.01
50 202 0.99
51 1 0.00
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.36
Consensus pattern (50 bp):
GATTTATTTGGGAAGCCTTTGTGGCGAGTCACCTGTAAAGCCTTTGTGGC
Found at i:64711059 original size:100 final size:100
Alignment explanation
Indices: 64710805--64711095 Score: 332
Period size: 100 Copynumber: 2.9 Consensus size: 100
64710795 CTTCATGGTG
* * *
64710805 ATTTATTTGGGAAGCCTTTGTAGTGAGTCACCTATAAAGCCTTTGTGGGGATTTATTTGGGAAGC
1 ATTTATTTGGGAAGCCTTTGTGGAGAGTCACCTATAAAGCCTTTGTGGCGATTTATTTGGGAAGC
*** * * ** **
64710870 CTTTACAGTAAGTCACTTGTGAAGCTTTTGTGGCG
66 CTTTGTGGCAAGTCACTTGTAAAGCCCTTGTGGAA
* * * * *
64710905 ATTTATTTTGGAAGCCTTTGTGGCGAGTCACCTATAAAG-CTCTTGTAGCAATTTATTTAGGAAG
1 ATTTATTTGGGAAGCCTTTGTGGAGAGTCACCTATAAAGCCT-TTGTGGCGATTTATTTGGGAAG
* *
64710969 CATTTGTGGCAAGTCACCTGTAAAGCCCTTGTGGAA
65 CCTTTGTGGCAAGTCACTTGTAAAGCCCTTGTGGAA
* * * *
64711005 ATTTATTTGGGAAGCCTTTCTGGAGAGTCACCTGTAAAGCCTTTGTGGTGATTTATTTGGGGAGC
1 ATTTATTTGGGAAGCCTTTGTGGAGAGTCACCTATAAAGCCTTTGTGGCGATTTATTTGGGAAGC
* * *
64711070 CCTTGTGGCATGTTACTTGTAAAGCC
66 CTTTGTGGCAAGTCACTTGTAAAGCC
64711096 TATGTGGCGT
Statistics
Matches: 157, Mismatches: 32, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
99 2 0.01
100 153 0.97
101 2 0.01
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.36
Consensus pattern (100 bp):
ATTTATTTGGGAAGCCTTTGTGGAGAGTCACCTATAAAGCCTTTGTGGCGATTTATTTGGGAAGC
CTTTGTGGCAAGTCACTTGTAAAGCCCTTGTGGAA
Found at i:64711094 original size:150 final size:150
Alignment explanation
Indices: 64710805--64711078 Score: 370
Period size: 150 Copynumber: 1.8 Consensus size: 150
64710795 CTTCATGGTG
* * ** * **
64710805 ATTTATTTGGGAAGCCTTTGTAGTGAGTCACCTATAAAGCCTTTGTGGGGATTTATTTGGGAAGC
1 ATTTATTTAGGAAGCATTTGTAGCAAGTCACCTATAAAGCCCTTGTGGAAATTTATTTGGGAAGC
* * * * * *
64710870 CTTTACAGTAAGTCACTTGTGAAGCTTTTGTGGCGATTTATTTTGGAAGCCTTTGTGGCGAGTCA
66 CTTTACAGGAAGTCACCTGTAAAGCCTTTGTGGCGATTTATTTGGGAAGCCCTTGTGGCGAGTCA
64710935 CCTATAAAGCTCTTGTAGCA
131 CCTATAAAGCTCTTGTAGCA
* *
64710955 ATTTATTTAGGAAGCATTTGTGGCAAGTCACCTGTAAAGCCCTTGTGGAAATTTATTTGGGAAGC
1 ATTTATTTAGGAAGCATTTGTAGCAAGTCACCTATAAAGCCCTTGTGGAAATTTATTTGGGAAGC
* * *
64711020 CTTT-CTGGAGAGTCACCTGTAAAGCCTTTGTGGTGATTTATTTGGGGAGCCCTTGTGGC
66 CTTTACAGGA-AGTCACCTGTAAAGCCTTTGTGGCGATTTATTTGGGAAGCCCTTGTGGC
64711079 ATGTTACTTG
Statistics
Matches: 105, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
149 3 0.03
150 102 0.97
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (150 bp):
ATTTATTTAGGAAGCATTTGTAGCAAGTCACCTATAAAGCCCTTGTGGAAATTTATTTGGGAAGC
CTTTACAGGAAGTCACCTGTAAAGCCTTTGTGGCGATTTATTTGGGAAGCCCTTGTGGCGAGTCA
CCTATAAAGCTCTTGTAGCA
Found at i:64712557 original size:15 final size:14
Alignment explanation
Indices: 64712533--64712567 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
64712523 CAACATATAA
64712533 AAAG-AAATAAGTGT
1 AAAGAAAATAA-TGT
64712547 AAAGAAAATAATGT
1 AAAGAAAATAATGT
64712561 AAAGAAA
1 AAAGAAA
64712568 GTAAAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (14 bp):
AAAGAAAATAATGT
Found at i:64714313 original size:20 final size:21
Alignment explanation
Indices: 64714277--64714321 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
64714267 AATGTTCCTA
*
64714277 AAAGAAATGTTTTCAAAATGC
1 AAAGAAATGTTTCCAAAATGC
*
64714298 AAAGAAA-GTTTCCAAAATTC
1 AAAGAAATGTTTCCAAAATGC
64714318 AAAG
1 AAAG
64714322 TGACCAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.51, C:0.11, G:0.13, T:0.24
Consensus pattern (21 bp):
AAAGAAATGTTTCCAAAATGC
Found at i:64718836 original size:10 final size:10
Alignment explanation
Indices: 64718821--64718850 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
64718811 TGTGTGATGA
64718821 TATAATATGT
1 TATAATATGT
64718831 TATAATATGT
1 TATAATATGT
64718841 TATAAT-TGT
1 TATAATATGT
64718850 T
1 T
64718851 TTATCATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (10 bp):
TATAATATGT
Found at i:64719131 original size:37 final size:37
Alignment explanation
Indices: 64719054--64719131 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
64719044 TTTTTTGACT
* * *
64719054 TGTTTTCGGTTAGACTAGCTATTATAAGCATCTTGTG
1 TGTTTTCGGTTAGACTAGCTATTAGAAGCATCTGGCG
* * * *
64719091 TGTTTTTGGTTGGACTAGCTCTTAGGAGCATCTGGCG
1 TGTTTTCGGTTAGACTAGCTATTAGAAGCATCTGGCG
64719128 TGTT
1 TGTT
64719132 ATCAGGTGGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.17, C:0.14, G:0.27, T:0.42
Consensus pattern (37 bp):
TGTTTTCGGTTAGACTAGCTATTAGAAGCATCTGGCG
Found at i:64733049 original size:57 final size:58
Alignment explanation
Indices: 64732959--64733082 Score: 160
Period size: 57 Copynumber: 2.2 Consensus size: 58
64732949 ATAGAAACAG
* *
64732959 TGAAAATGAAGAAAAGGGAAACATTTGGAAATGATTATGGTTTTCTCCAAAATGAAAA
1 TGAAAATGAAGAAAAGGGAAACATTTGGAAATGAATACGGTTTTCTCCAAAATGAAAA
* * * * * * *
64733017 TGAAAATGGAG-AAATGGAATCATTTGGAAATGAATGCGGTTTTCTTCAAATTTAAAA
1 TGAAAATGAAGAAAAGGGAAACATTTGGAAATGAATACGGTTTTCTCCAAAATGAAAA
64733074 TGAAAATGA
1 TGAAAATGA
64733083 CTTGGAAATG
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
57 46 0.82
58 10 0.18
ACGTcount: A:0.44, C:0.06, G:0.21, T:0.28
Consensus pattern (58 bp):
TGAAAATGAAGAAAAGGGAAACATTTGGAAATGAATACGGTTTTCTCCAAAATGAAAA
Found at i:64733578 original size:17 final size:19
Alignment explanation
Indices: 64733546--64733581 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
64733536 AAAAGTTCCA
64733546 CTCATCTTTTCTATTTCTT
1 CTCATCTTTTCTATTTCTT
64733565 CTCAT-TTTTC-ATTTCTT
1 CTCATCTTTTCTATTTCTT
64733582 TCCTCTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 5 0.29
19 5 0.29
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (19 bp):
CTCATCTTTTCTATTTCTT
Found at i:64734387 original size:38 final size:38
Alignment explanation
Indices: 64734345--64734435 Score: 112
Period size: 38 Copynumber: 2.4 Consensus size: 38
64734335 TTGCATGTTT
* * *
64734345 AGCATGCCTACTATTACTGTTGAATTGAATTCAAGTTA
1 AGCATGTCTACTATTACTGTTGAACTGAATACAAGTTA
* * *
64734383 AGCATGTTTA-TAGATACTGTTGAACTGAATACATGTTA
1 AGCATGTCTACTA-TTACTGTTGAACTGAATACAAGTTA
64734421 AGCATGTCTACTATT
1 AGCATGTCTACTATT
64734436 TCTATATGAT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
37 2 0.05
38 39 0.91
39 2 0.05
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.37
Consensus pattern (38 bp):
AGCATGTCTACTATTACTGTTGAACTGAATACAAGTTA
Found at i:64736156 original size:19 final size:19
Alignment explanation
Indices: 64736129--64736166 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
64736119 TGATCTTTAT
*
64736129 GAATTATAATACTTTAAAA
1 GAATAATAATACTTTAAAA
64736148 GAATAATAATACTTTAAAA
1 GAATAATAATACTTTAAAA
64736167 TCTAATAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.34
Consensus pattern (19 bp):
GAATAATAATACTTTAAAA
Found at i:64737007 original size:17 final size:17
Alignment explanation
Indices: 64736985--64737019 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
64736975 AGTTATTTTA
*
64736985 TCTTTTAATTTTTCTTT
1 TCTTTTAAATTTTCTTT
*
64737002 TCTTTTAAATTTTGTTT
1 TCTTTTAAATTTTCTTT
64737019 T
1 T
64737020 ATTTCTCTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.14, C:0.09, G:0.03, T:0.74
Consensus pattern (17 bp):
TCTTTTAAATTTTCTTT
Found at i:64745938 original size:51 final size:52
Alignment explanation
Indices: 64745856--64745965 Score: 150
Period size: 51 Copynumber: 2.1 Consensus size: 52
64745846 TAGAAATGGG
* * *
64745856 GAAAATGGAGAGAAGGGAAACATTTGGAAATGATTATGGTTTTCTCCAAAAT
1 GAAAATGGAGAGAAGAGAAACATTTGAAAATGAATATGGTTTTCTCCAAAAT
* * *
64745908 GAAAATGGAGA-AATAGAATCATTTGAAAATGAATGTGGTTTTCTCCAAAAT
1 GAAAATGGAGAGAAGAGAAACATTTGAAAATGAATATGGTTTTCTCCAAAAT
*
64745959 TAAAATG
1 GAAAATG
64745966 AAAATCACAT
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
51 40 0.78
52 11 0.22
ACGTcount: A:0.43, C:0.07, G:0.22, T:0.28
Consensus pattern (52 bp):
GAAAATGGAGAGAAGAGAAACATTTGAAAATGAATATGGTTTTCTCCAAAAT
Found at i:64766663 original size:18 final size:20
Alignment explanation
Indices: 64766627--64766675 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
64766617 TATAATTTTT
*
64766627 AAAAAAATATATAATACATC
1 AAAAAAATATATAAAACATC
*
64766647 AAAAAAAT-TA-AAAACATT
1 AAAAAAATATATAAAACATC
64766665 AAAATAAATAT
1 AAAA-AAATAT
64766676 TTCCCAACGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 10 0.40
19 6 0.24
20 9 0.36
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAAAAATATATAAAACATC
Found at i:64766904 original size:20 final size:19
Alignment explanation
Indices: 64766865--64766921 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 19
64766855 AAAATAGTGA
*
64766865 AAAAAAACAACAAGAA-AAT
1 AAAAAAACAAGAA-AACAAT
64766884 AAGAAAAACAAGAAAACAAT
1 AA-AAAAACAAGAAAACAAT
*
64766904 AAAAAAA-AAGACAACAAT
1 AAAAAAACAAGAAAACAAT
64766922 TTTTTTTGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 10 0.29
19 9 0.26
20 15 0.44
ACGTcount: A:0.77, C:0.11, G:0.07, T:0.05
Consensus pattern (19 bp):
AAAAAAACAAGAAAACAAT
Found at i:64766907 original size:17 final size:17
Alignment explanation
Indices: 64766873--64766908 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
64766863 GAAAAAAAAC
*
64766873 AACAAGAAAATAAGAAA
1 AACAAGAAAACAAGAAA
*
64766890 AACAAGAAAACAATAAA
1 AACAAGAAAACAAGAAA
64766907 AA
1 AA
64766909 AAAAGACAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.78, C:0.08, G:0.08, T:0.06
Consensus pattern (17 bp):
AACAAGAAAACAAGAAA
Found at i:64770697 original size:33 final size:32
Alignment explanation
Indices: 64770660--64770722 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
64770650 TGTTACTGTC
64770660 ACTGTAATGGGCTAAGG-CTACACTGATACTGAT
1 ACTGTAATGGGCTAAGGCCTA-ACTGA-ACTGAT
*
64770693 ACTGTAATGGGCTATGGCCTAACTGAACTG
1 ACTGTAATGGGCTAAGGCCTAACTGAACTG
64770723 TTATTGAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 4 0.14
33 21 0.75
34 3 0.11
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (32 bp):
ACTGTAATGGGCTAAGGCCTAACTGAACTGAT
Found at i:64773177 original size:98 final size:98
Alignment explanation
Indices: 64773003--64773199 Score: 333
Period size: 98 Copynumber: 2.0 Consensus size: 98
64772993 ATACAATAAA
* *
64773003 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACTATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTCAGGGCACAATT
*
64773068 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
*
64773101 ACTTTAAAAGAA-AGTCCGCTTATCCAAGATTTAAGAAATCACACCCAATACGTCAGGGCACAAT
1 ACTTTAAAAGAACA-TCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTCAGGGCACAAT
*
64773165 TCCTTTAAAATCCCAAACTCGGAATATTTCTTTT
65 TCCTTTAAAATCCCAAACTCGGAATATTTCCTTT
64773199 A
1 A
64773200 TGATTTTTAA
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
97 1 0.01
98 92 0.99
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTCAGGGCACAATT
CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:64773999 original size:25 final size:25
Alignment explanation
Indices: 64773907--64774002 Score: 79
Period size: 25 Copynumber: 3.6 Consensus size: 25
64773897 TATTAATTGA
64773907 AAAAAAAAT-ATAATATGTACATATAT
1 AAAAAAAATGATAATA--TACATATAT
* * *
64773933 ATAAAAAATAATTATATACATATAT
1 AAAAAAAATGATAATATACATATAT
*
64773958 AGATTATAAAAACGATAAT-TACATATAT
1 A-A--A-AAAAATGATAATATACATATAT
64773986 ACAAAAAAATGATAATA
1 A-AAAAAAATGATAATA
64774003 ATTAAATTAA
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
25 21 0.38
26 9 0.16
27 5 0.09
28 12 0.21
29 9 0.16
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.30
Consensus pattern (25 bp):
AAAAAAAATGATAATATACATATAT
Found at i:64774162 original size:3 final size:3
Alignment explanation
Indices: 64774149--64774200 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
64774139 TTGTATGTAC
* *
64774149 ATA AAA ATA ATA ATT A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
64774196 ATA AT
1 ATA AT
64774201 GAGGAAGATG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
2 1 0.02
3 43 0.98
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:64775514 original size:132 final size:132
Alignment explanation
Indices: 64775334--64775756 Score: 738
Period size: 132 Copynumber: 3.2 Consensus size: 132
64775324 TTCAATCTAT
* * *
64775334 TCCACTAATGCTTAAGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGGAGT
1 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
* * *
64775399 AGAATTACTGGCTTCAATGTACTCCATTATACCCACAGGGAGGTAAAATCCGTCATCTTCGATCT
66 AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
64775464 GC
131 GC
64775466 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
1 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
*
64775531 AGAATTGCTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
66 AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
64775596 GC
131 GC
*
64775598 TCCACTACTGCTTAGGGAGATAAGATTTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
1 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
* * *
64775663 AGAATTACTAGCTTCAATGTACTCCACTATAACCACGGGGAGGTAAAACCCGCCATCTTCGATCT
66 AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
64775728 GC
131 GC
*
64775730 TCCATTACTGCTTAGGGAGATAAGATC
1 TCCACTACTGCTTAGGGAGATAAGATC
64775757 NNNNNNNNNN
Statistics
Matches: 277, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 277 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (132 bp):
TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGT
AGAATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCT
GC
Found at i:64775527 original size:44 final size:44
Alignment explanation
Indices: 64775302--64775647 Score: 129
Period size: 44 Copynumber: 7.9 Consensus size: 44
64775292 ACTGCGACTG
* * *
64775302 CAGGGAGATAAGA-CTTACAATCTTCAATCTATTCCACTAATGCT
1 CAGGGAGATAAGATCTGA-AATCTTCAATCTACTCCACTATTGCT
* * * *
64775346 TAAGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG-T
1 CAGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTATTGCT
* * * ** *
64775389 CCAGGG-GAGT-AGAATTACTG---GCTTCAATGTACTCCATTATACCCA
1 -CAGGGAGA-TAAG-A-T-CTGAAATCTTCAATCTACTCCACTAT-TGCT
* * * ** * * *
64775434 CAGGGAGGTAAAATCCGTCATCTTCGATCTGCTCCACTACTGCT
1 CAGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTATTGCT
* * *
64775478 TAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTG-T
1 CAGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTATTGCT
**** * ** *
64775521 CCAGGGA-AGT-AGAAT-TGCTGGCTTCAATGTACTCCACTATAACCA
1 -CAGGGAGA-TAAG-ATCTGAAATCTTCAATCTACTCCACTAT-TGCT
* * * ** * * *
64775566 CAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCT
1 CAGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTATTGCT
* * *
64775610 TAGGGAGATAAGATTTGAAATCTTCAATCTATTCCACT
1 CAGGGAGATAAGATCTGAAATCTTCAATCTACTCCACT
64775648 GTTGTCCAGG
Statistics
Matches: 209, Mismatches: 72, Indels: 42
0.65 0.22 0.13
Matches are distributed among these distances:
42 2 0.01
43 43 0.21
44 123 0.59
45 38 0.18
46 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (44 bp):
CAGGGAGATAAGATCTGAAATCTTCAATCTACTCCACTATTGCT
Found at i:64777484 original size:7 final size:7
Alignment explanation
Indices: 64777474--64777511 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
64777464 ATTTTTCCTT
64777474 TTTTTTG
1 TTTTTTG
*
64777481 TTTTTTA
1 TTTTTTG
64777488 TTTTTTG
1 TTTTTTG
64777495 --TTTTG
1 TTTTTTG
64777500 TTTTTTG
1 TTTTTTG
64777507 TTTTT
1 TTTTT
64777512 CTTTTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 5 0.19
7 22 0.81
ACGTcount: A:0.03, C:0.00, G:0.11, T:0.87
Consensus pattern (7 bp):
TTTTTTG
Found at i:64777498 original size:13 final size:13
Alignment explanation
Indices: 64777474--64777519 Score: 58
Period size: 12 Copynumber: 3.5 Consensus size: 13
64777464 ATTTTTCCTT
64777474 TTTTTTGTTTTTTA
1 TTTTTTG-TTTTTA
*
64777488 TTTTTTG-TTTTG
1 TTTTTTGTTTTTA
*
64777500 TTTTTTGTTTTTC
1 TTTTTTGTTTTTA
64777513 TTTTTTG
1 TTTTTTG
64777520 AATCTGAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 11 0.38
13 11 0.38
14 7 0.24
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.85
Consensus pattern (13 bp):
TTTTTTGTTTTTA
Found at i:64777500 original size:19 final size:18
Alignment explanation
Indices: 64777472--64777517 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
64777462 CTATTTTTCC
64777472 TTTTTTTTGTTTTTTATT
1 TTTTTTTTGTTTTTTATT
*
64777490 TTTTGTTTTGTTTTTTGTT
1 TTTT-TTTTGTTTTTTATT
64777509 TTTCTTTTT
1 TTT-TTTTT
64777518 TGAATCTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 4 0.16
19 20 0.80
20 1 0.04
ACGTcount: A:0.02, C:0.02, G:0.09, T:0.87
Consensus pattern (18 bp):
TTTTTTTTGTTTTTTATT
Found at i:64781112 original size:45 final size:45
Alignment explanation
Indices: 64781048--64781138 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
64781038 AATCCTTAGC
64781048 AAAACTTAAAAGGCTACGTATTAAGACCCTTATTATTTCAGAGAA
1 AAAACTTAAAAGGCTACGTATTAAGACCCTTATTATTTCAGAGAA
*
64781093 AAAACTTAAAATGCTACGTATTAAGACCCTTATTATTTCAGAGAA
1 AAAACTTAAAAGGCTACGTATTAAGACCCTTATTATTTCAGAGAA
64781138 A
1 A
64781139 GAAGATACCA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.30
Consensus pattern (45 bp):
AAAACTTAAAAGGCTACGTATTAAGACCCTTATTATTTCAGAGAA
Found at i:64781396 original size:98 final size:98
Alignment explanation
Indices: 64781222--64781418 Score: 333
Period size: 98 Copynumber: 2.0 Consensus size: 98
64781212 ATACAATAAA
* *
64781222 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACTATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTCAGGGCACAATT
*
64781287 CCTTTAGAATCCCAAACTCAGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCAGAATATTTCCTTT
*
64781320 ACTTTAAAAGAA-AGTCCGCTTATCCAAGATTTAAGAAATCACACCCAATACGTCAGGGCACAAT
1 ACTTTAAAAGAACA-TCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTCAGGGCACAAT
*
64781384 TCCTTTAAAATCCCAAACTCGGAATATTTCCTTT
65 TCCTTTAAAATCCCAAACTCAGAATATTTCCTTT
64781418 A
1 A
64781419 TGATTTTTAA
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
97 1 0.01
98 92 0.99
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTCAGGGCACAATT
CCTTTAAAATCCCAAACTCAGAATATTTCCTTT
Found at i:64782224 original size:25 final size:25
Alignment explanation
Indices: 64782132--64782227 Score: 79
Period size: 25 Copynumber: 3.6 Consensus size: 25
64782122 TATTAATTGA
64782132 AAAAAAAAT-ATAATATGTACATATAT
1 AAAAAAAATGATAATA--TACATATAT
* * *
64782158 ATAAAAAATAATTATATACATATAT
1 AAAAAAAATGATAATATACATATAT
*
64782183 AGATTATAAAAACGATAAT-TACATATAT
1 A-A--A-AAAAATGATAATATACATATAT
64782211 ACAAAAAAATGATAATA
1 A-AAAAAAATGATAATA
64782228 ATTAAATTAA
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
25 21 0.38
26 9 0.16
27 5 0.09
28 12 0.21
29 9 0.16
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.30
Consensus pattern (25 bp):
AAAAAAAATGATAATATACATATAT
Found at i:64782387 original size:3 final size:3
Alignment explanation
Indices: 64782374--64782440 Score: 109
Period size: 3 Copynumber: 22.7 Consensus size: 3
64782364 TTGTATGTAC
* *
64782374 ATA AAA ATA ATA ATT A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
64782421 ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
64782441 GATGAGGAAG
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
2 1 0.02
3 58 0.98
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Done.