Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 150 of 163
Found at i:49639947 original size:18 final size:18
Alignment explanation
Indices: 49639843--49639986 Score: 89
Period size: 19 Copynumber: 7.7 Consensus size: 18
49639833 AGGAGAGGGG
49639843 AAGAAGAAAGAAAGG-AAGA
1 AAGAA-AAAG-AAGGAAAGA
49639862 AAGAAAAAGAAGG--A-A
1 AAGAAAAAGAAGGAAAGA
* *
49639877 AAGGAAAGGAGAGGAAAGA
1 AAGAAAAAGA-AGGAAAGA
*
49639896 AAGAAAAAGAAGGATAGAA
1 AAGAAAAAGAAGGAAAG-A
** *
49639915 AAGGAAAGGGGAGGAAAGA
1 AA-GAAAAAGAAGGAAAGA
*
49639934 AAGAAAAATAAGGAAAGAA
1 AAGAAAAAGAAGGAAAG-A
* *
49639953 AAGGAAATGAGAAGAGAAAAA
1 AA-GAAA-AAGAAG-GAAAGA
49639974 AAGAAGAAAGAAG
1 AAGAA-AAAGAAG
49639987 AAGAAGAGGG
Statistics
Matches: 97, Mismatches: 17, Indels: 21
0.72 0.13 0.16
Matches are distributed among these distances:
15 9 0.09
16 4 0.04
17 4 0.04
18 22 0.23
19 23 0.24
20 23 0.24
21 8 0.08
22 4 0.04
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (18 bp):
AAGAAAAAGAAGGAAAGA
Found at i:49640524 original size:27 final size:27
Alignment explanation
Indices: 49640486--49640562 Score: 127
Period size: 27 Copynumber: 2.9 Consensus size: 27
49640476 NNNNNNNNNG
*
49640486 AGGGAACACTGTTGGCGGCACCAAACA
1 AGGGAACCCTGTTGGCGGCACCAAACA
49640513 AGGGAACCCTGTTGGCGGCACCAAACA
1 AGGGAACCCTGTTGGCGGCACCAAACA
**
49640540 AGGGTTCCCTGTTGGCGGCACCA
1 AGGGAACCCTGTTGGCGGCACCA
49640563 CCCGTTTTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.26, C:0.29, G:0.31, T:0.14
Consensus pattern (27 bp):
AGGGAACCCTGTTGGCGGCACCAAACA
Found at i:49640647 original size:19 final size:18
Alignment explanation
Indices: 49640607--49640657 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
49640597 AAAATATATA
**
49640607 TAATATTTTGGTATTTTT
1 TAATATTTTATTATTTTT
49640625 TAATATTTTATTATTTTT
1 TAATATTTTATTATTTTT
*
49640643 GTAATGTTTTATTAT
1 -TAATATTTTATTAT
49640658 GGGTTTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 16 0.55
19 13 0.45
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (18 bp):
TAATATTTTATTATTTTT
Found at i:49640682 original size:13 final size:13
Alignment explanation
Indices: 49640664--49640689 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49640654 TTATGGGTTT
49640664 TATAAAAAAATAA
1 TATAAAAAAATAA
49640677 TATAAAAAAATAA
1 TATAAAAAAATAA
49640690 AAAAATTACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
TATAAAAAAATAA
Found at i:49640745 original size:27 final size:28
Alignment explanation
Indices: 49640695--49640763 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
49640685 AATAAAAAAA
49640695 TTACCAAAATAT-TATAACTTTTTTTTAT
1 TTACCAAAATATATATAAC-TTTTTTTAT
49640723 TTACCAAAATATATATAA-TTTTTTTAT
1 TTACCAAAATATATATAACTTTTTTTAT
49640750 TTACCAAAATATAT
1 TTACCAAAATATAT
49640764 CAAAAAAAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
27 23 0.57
28 12 0.30
29 5 0.12
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (28 bp):
TTACCAAAATATATATAACTTTTTTTAT
Found at i:49640787 original size:16 final size:16
Alignment explanation
Indices: 49640766--49640805 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
49640756 AAATATATCA
49640766 AAAAAAAGT-AAAAAAC
1 AAAAAAA-TAAAAAAAC
49640782 AAAAAAATAAAAAAAC
1 AAAAAAATAAAAAAAC
49640798 AGAAAAAA
1 A-AAAAAA
49640806 ACACACTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 15 0.68
17 6 0.27
ACGTcount: A:0.85, C:0.05, G:0.05, T:0.05
Consensus pattern (16 bp):
AAAAAAATAAAAAAAC
Found at i:49641047 original size:10 final size:11
Alignment explanation
Indices: 49641022--49641048 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
49641012 AAGTAAGAGT
49641022 TTTTTACTAAC
1 TTTTTACTAAC
49641033 TTTTTACTAAC
1 TTTTTACTAAC
49641044 TTTTT
1 TTTTT
49641049 GTTCAACTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.15, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTTTACTAAC
Found at i:49642154 original size:17 final size:17
Alignment explanation
Indices: 49642132--49642168 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
49642122 ATGGGGTAAG
49642132 ATGCTATTCTAATATTC
1 ATGCTATTCTAATATTC
49642149 ATGCTATTCTAATATTC
1 ATGCTATTCTAATATTC
49642166 ATG
1 ATG
49642169 ACATCTTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.16, G:0.08, T:0.46
Consensus pattern (17 bp):
ATGCTATTCTAATATTC
Found at i:49643173 original size:15 final size:14
Alignment explanation
Indices: 49643133--49643161 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
49643123 TTTTTGTATC
49643133 AATTTAATTATTCT
1 AATTTAATTATTCT
49643147 AATTTAATTATTCT
1 AATTTAATTATTCT
49643161 A
1 A
49643162 GTTTTAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (14 bp):
AATTTAATTATTCT
Found at i:49644911 original size:94 final size:93
Alignment explanation
Indices: 49644738--49644927 Score: 353
Period size: 94 Copynumber: 2.0 Consensus size: 93
49644728 TCATTTTTAC
*
49644738 TGACTGTAATTACCGTCCGGGCCGTAATATGGTCTTCCCTGCAACTCAATCACAGTCCCCGGTAC
1 TGACTGTAATTACCGTCCGGGCCGTAATATGGTCTTCCCTGCAACTCAATCACAGTCCCCGATAC
49644803 ATACTCCCGCATAGCAGCTATCCAACCT
66 ATACTCCCGCATAGCAGCTATCCAACCT
*
49644831 TGACTGTAATTGGCCGTCCGGGCCGTAATATGGTCTTCCCTGCAACTCAATCACAGTCCCCGATA
1 TGACTGTAATT-ACCGTCCGGGCCGTAATATGGTCTTCCCTGCAACTCAATCACAGTCCCCGATA
49644896 CATACTCCCGCATAGCAGCTATCCAACCT
65 CATACTCCCGCATAGCAGCTATCCAACCT
49644925 TGA
1 TGA
49644928 AGCTCGTTAT
Statistics
Matches: 94, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
93 11 0.12
94 83 0.88
ACGTcount: A:0.24, C:0.34, G:0.18, T:0.25
Consensus pattern (93 bp):
TGACTGTAATTACCGTCCGGGCCGTAATATGGTCTTCCCTGCAACTCAATCACAGTCCCCGATAC
ATACTCCCGCATAGCAGCTATCCAACCT
Found at i:49650069 original size:26 final size:26
Alignment explanation
Indices: 49650038--49650107 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
49650028 TTTTTTGTTT
49650038 TTTATATATTTTGGTAAAT-AAAAAA
1 TTTATATATTTTGGTAAATAAAAAAA
*
49650063 TTATATATATTTTGATAAATAAAAAAA
1 TT-TATATATTTTGGTAAATAAAAAAA
49650090 TTTATAATATTTTGGTAA
1 TTTAT-ATATTTTGGTAA
49650108 TTTTTTATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
25 2 0.05
26 19 0.47
27 19 0.47
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.46
Consensus pattern (26 bp):
TTTATATATTTTGGTAAATAAAAAAA
Found at i:49650099 original size:27 final size:26
Alignment explanation
Indices: 49650038--49650103 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 26
49650028 TTTTTTGTTT
*
49650038 TTTAT-ATATTTTGGTAAATAAAAAA
1 TTTATAATATTTTGATAAATAAAAAA
49650063 -TTATATATATTTTGATAAATAAAAAAA
1 TTTATA-ATATTTTGATAAAT-AAAAAA
49650090 TTTATAATATTTTG
1 TTTATAATATTTTG
49650104 GTAATTTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
24 4 0.11
26 13 0.36
27 14 0.39
28 5 0.14
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (26 bp):
TTTATAATATTTTGATAAATAAAAAA
Found at i:49650233 original size:13 final size:13
Alignment explanation
Indices: 49650217--49650260 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
49650207 AGTTAATAGT
49650217 ATCAATTAATTAA
1 ATCAATTAATTAA
49650230 ATCAATTAA-TAGA
1 ATCAATTAATTA-A
* *
49650243 ATTAATTAATCAA
1 ATCAATTAATTAA
49650256 ATCAA
1 ATCAA
49650261 CTACTATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 2 0.08
13 23 0.88
14 1 0.04
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (13 bp):
ATCAATTAATTAA
Found at i:49650249 original size:26 final size:26
Alignment explanation
Indices: 49650209--49650260 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
49650199 AAATAAACAG
* *
49650209 TTAATAGTATCAATTAATTAAATCAA
1 TTAATAGAATCAATTAATCAAATCAA
*
49650235 TTAATAGAATTAATTAATCAAATCAA
1 TTAATAGAATCAATTAATCAAATCAA
49650261 CTACTATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (26 bp):
TTAATAGAATCAATTAATCAAATCAA
Found at i:49650575 original size:24 final size:25
Alignment explanation
Indices: 49650524--49650574 Score: 72
Period size: 22 Copynumber: 2.2 Consensus size: 25
49650514 AAAAAAATAG
49650524 TTTTAATTATTTAATATTTAATATT
1 TTTTAATTATTTAATATTTAATATT
*
49650549 TTTTAGTTA-TTAA-ATTT-ATATT
1 TTTTAATTATTTAATATTTAATATT
49650571 TTTT
1 TTTT
49650575 TGTCAAATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 9 0.36
23 4 0.16
24 4 0.16
25 8 0.32
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTTAATTATTTAATATTTAATATT
Found at i:49653257 original size:9 final size:9
Alignment explanation
Indices: 49653243--49653359 Score: 134
Period size: 9 Copynumber: 13.4 Consensus size: 9
49653233 GTAGTGATTC
49653243 AATTCGGTT
1 AATTCGGTT
49653252 AATTCGGTT
1 AATTCGGTT
*
49653261 AATTCGGGT
1 AATTCGGTT
*
49653270 AATTCGGGT
1 AATTCGGTT
49653279 AATT--G-T
1 AATTCGGTT
49653285 AATTCGG-T
1 AATTCGGTT
*
49653293 AATTCAGTT
1 AATTCGGTT
*
49653302 AATTCGGGT
1 AATTCGGTT
*
49653311 AATTCGGGT
1 AATTCGGTT
49653320 AATTCGGTT
1 AATTCGGTT
*
49653329 AATTCAGTT
1 AATTCGGTT
**
49653338 AATTCAATT
1 AATTCGGTT
49653347 AATTCGGTT
1 AATTCGGTT
49653356 AATT
1 AATT
49653360 TTTAACCAAA
Statistics
Matches: 96, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
6 5 0.05
7 1 0.01
8 8 0.08
9 82 0.85
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:49653295 original size:14 final size:15
Alignment explanation
Indices: 49653268--49653314 Score: 60
Period size: 14 Copynumber: 3.0 Consensus size: 15
49653258 GTTAATTCGG
49653268 GTAATTCGGGTAATT
1 GTAATTCGGGTAATT
49653283 GTAATTC-GGTAATT
1 GTAATTCGGGTAATT
49653297 CAGTTAATTCGGGTAATT
1 --G-TAATTCGGGTAATT
49653315 CGGGTAATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
14 7 0.25
15 7 0.25
16 1 0.04
17 6 0.21
18 7 0.25
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (15 bp):
GTAATTCGGGTAATT
Found at i:49654131 original size:24 final size:24
Alignment explanation
Indices: 49654099--49654210 Score: 161
Period size: 24 Copynumber: 4.7 Consensus size: 24
49654089 TAAATTGCCA
*
49654099 TCAATTCATCATTTACATTTTCCG
1 TCAATTCATCCTTTACATTTTCCG
49654123 TCAATTCATCCTTTACATTTTCCG
1 TCAATTCATCCTTTACATTTTCCG
* * * *
49654147 CCAGTTCCTCCTTTATATTTTCCG
1 TCAATTCATCCTTTACATTTTCCG
* *
49654171 TCAATTTATCCTTTACATTTTTCG
1 TCAATTCATCCTTTACATTTTCCG
49654195 TCAATTCATCCTTTAC
1 TCAATTCATCCTTTAC
49654211 CAAAGAACAA
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 76 1.00
ACGTcount: A:0.21, C:0.28, G:0.04, T:0.47
Consensus pattern (24 bp):
TCAATTCATCCTTTACATTTTCCG
Found at i:49674376 original size:26 final size:27
Alignment explanation
Indices: 49674307--49674358 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
49674297 CCTAATGTTA
49674307 CCCT-AGTAAAATTTTGACGATTTTAT
1 CCCTCAGTAAAATTTTGACGATTTTAT
49674333 CCCTCAGTAAAATTTTGACGATTTTA
1 CCCTCAGTAAAATTTTGACGATTTTA
49674359 CACCCGTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (27 bp):
CCCTCAGTAAAATTTTGACGATTTTAT
Found at i:49678560 original size:30 final size:30
Alignment explanation
Indices: 49678524--49678586 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
49678514 ACTTAACAAG
49678524 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
49678554 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
49678584 CAA
1 CAA
49678587 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:49680664 original size:46 final size:47
Alignment explanation
Indices: 49680595--49680692 Score: 182
Period size: 46 Copynumber: 2.1 Consensus size: 47
49680585 AATGATGCTT
49680595 ATATTTGTGTATTATTGGTCATGGTTTAAGGTCATGTGTGAAAATAA
1 ATATTTGTGTATTATTGGTCATGGTTTAAGGTCATGTGTGAAAATAA
49680642 ATATTTGTGTA-TATTGGTCATGGTTTAAGGTCATGTGTGAAAATAA
1 ATATTTGTGTATTATTGGTCATGGTTTAAGGTCATGTGTGAAAATAA
49680688 A-ATTT
1 ATATTT
49680693 CATAGTATGT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
45 4 0.08
46 36 0.71
47 11 0.22
ACGTcount: A:0.31, C:0.04, G:0.22, T:0.43
Consensus pattern (47 bp):
ATATTTGTGTATTATTGGTCATGGTTTAAGGTCATGTGTGAAAATAA
Found at i:49684031 original size:49 final size:50
Alignment explanation
Indices: 49683956--49684054 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 50
49683946 ATCCTAGCGA
*
49683956 TTACAGTGGCGGCTGTGGCTTGGGATAATGGAAAGTGGTGGTGAAGATGG
1 TTACAGTGGCGGCTGTGGCTTAGGATAATGGAAAGTGGTGGTGAAGATGG
49684006 TTACAGTGGC-GCTGTGGCTTAGGATAATGGAAAGTGGTGGTGAAGATGG
1 TTACAGTGGCGGCTGTGGCTTAGGATAATGGAAAGTGGTGGTGAAGATGG
49684055 GTTTGGGGGA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 38 0.79
50 10 0.21
ACGTcount: A:0.23, C:0.08, G:0.42, T:0.26
Consensus pattern (50 bp):
TTACAGTGGCGGCTGTGGCTTAGGATAATGGAAAGTGGTGGTGAAGATGG
Found at i:49697762 original size:21 final size:24
Alignment explanation
Indices: 49697713--49697759 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
49697703 TCATAGGCAG
*
49697713 ATTTGGGTAATGAAGGATCAAACAC
1 ATTTGAGTAATGAAGGATC-AACAC
49697738 ATTTGAGTAATGAA-GATCAACA
1 ATTTGAGTAATGAAGGATCAACA
49697760 TTTAATTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.19
24 4 0.19
25 13 0.62
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.26
Consensus pattern (24 bp):
ATTTGAGTAATGAAGGATCAACAC
Found at i:49699561 original size:3 final size:3
Alignment explanation
Indices: 49699553--49699602 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
49699543 ATGTAGGCCC
49699553 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT -TT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
49699600 CTT
1 CTT
49699603 TTTGGGGGGG
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
CTT
Found at i:49704280 original size:24 final size:25
Alignment explanation
Indices: 49704253--49704308 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
49704243 GGTGATATAT
49704253 AATATTATA-ATGTAAATAT-TAAAA
1 AATATTA-AGATGTAAATATATAAAA
*
49704277 AATATTAAGATGTCAATATATAAAA
1 AATATTAAGATGTAAATATATAAAA
49704302 AA-ATTAA
1 AATATTAA
49704309 ATAAAATGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 1 0.03
24 21 0.72
25 7 0.24
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (25 bp):
AATATTAAGATGTAAATATATAAAA
Found at i:49712326 original size:34 final size:37
Alignment explanation
Indices: 49712278--49712349 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 37
49712268 AAAAAGATTT
*
49712278 TTAAATAAATACTAATAAAT-TT-ATTT-AAATTTAA
1 TTAAATAAATACTAAAAAATCTTAATTTAAAATTTAA
49712312 TTAAAT-AATAACTAAAAAATCTTGAATTTAAAATTTAA
1 TTAAATAAAT-ACTAAAAAATCTT-AATTTAAAATTTAA
49712350 CTATGTTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
33 3 0.09
34 15 0.47
35 2 0.06
37 4 0.12
38 8 0.25
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.40
Consensus pattern (37 bp):
TTAAATAAATACTAAAAAATCTTAATTTAAAATTTAA
Found at i:49718908 original size:20 final size:21
Alignment explanation
Indices: 49718885--49718923 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
49718875 GCAAAGACTA
49718885 GAGAAA-TAGACCAAATGTTG
1 GAGAAATTAGACCAAATGTTG
*
49718905 GAGAAATTAGAGCAAATGT
1 GAGAAATTAGACCAAATGT
49718924 GAATACAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.46, C:0.08, G:0.26, T:0.21
Consensus pattern (21 bp):
GAGAAATTAGACCAAATGTTG
Found at i:49720932 original size:11 final size:10
Alignment explanation
Indices: 49720914--49720959 Score: 58
Period size: 11 Copynumber: 4.5 Consensus size: 10
49720904 ATCCAAAAGA
49720914 AAAAAAGAAC
1 AAAAAAGAAC
49720924 AAAAGAAGAAC
1 AAAA-AAGAAC
*
49720935 AAAAAACAA-
1 AAAAAAGAAC
49720944 AAAAAAGAAAC
1 AAAAAAG-AAC
49720955 AAAAA
1 AAAAA
49720960 CCTCTACTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 6 0.19
10 10 0.32
11 15 0.48
ACGTcount: A:0.83, C:0.09, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAC
Found at i:49720938 original size:19 final size:18
Alignment explanation
Indices: 49720910--49720960 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
49720900 TTCAATCCAA
49720910 AAGAAAAAAAGAACAAAAG
1 AAGAAAAAAA-AACAAAAG
* *
49720929 AAGAACAAAAAACAAAAAA
1 AAGAAAAAAAAAC-AAAAG
*
49720948 AAGAAACAAAAAC
1 AAGAAAAAAAAAC
49720961 CTCTACTAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 3 0.11
19 24 0.89
ACGTcount: A:0.80, C:0.10, G:0.10, T:0.00
Consensus pattern (18 bp):
AAGAAAAAAAAACAAAAG
Found at i:49720947 original size:20 final size:21
Alignment explanation
Indices: 49720914--49720959 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
49720904 ATCCAAAAGA
*
49720914 AAAAAAGAACAAAAGAAG-AAC
1 AAAAAACAACAAAA-AAGAAAC
49720935 AAAAAACAA-AAAAAAGAAAC
1 AAAAAACAACAAAAAAGAAAC
49720955 AAAAA
1 AAAAA
49720960 CCTCTACTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 3 0.13
20 12 0.52
21 8 0.35
ACGTcount: A:0.83, C:0.09, G:0.09, T:0.00
Consensus pattern (21 bp):
AAAAAACAACAAAAAAGAAAC
Found at i:49721490 original size:28 final size:26
Alignment explanation
Indices: 49721430--49721491 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 26
49721420 ACTTTGAGTC
49721430 GTAAAAAAAATAAATGAAATGAAAAA
1 GTAAAAAAAATAAATGAAATGAAAAA
* *
49721456 ATGAAAAAGAAT-AATGAAAAATGGAAAAA
1 GT-AAAAAAAATAAATG--AAAT-GAAAAA
49721485 GTAAAAA
1 GTAAAAA
49721492 TGGAGAGGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
26 5 0.17
27 8 0.28
28 9 0.31
29 7 0.24
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (26 bp):
GTAAAAAAAATAAATGAAATGAAAAA
Found at i:49722908 original size:88 final size:88
Alignment explanation
Indices: 49722744--49722918 Score: 287
Period size: 88 Copynumber: 2.0 Consensus size: 88
49722734 GAGACCTCAG
* * *
49722744 CCTTATCTCCCTGAGTAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGGCA
1 CCTTATCTCCCTGAGTAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGCCTTCCTGTACTGACA
* * *
49722809 GCGAAGTAGATCGAAGATACCAA
66 GCAAAGCAGATCGAAGACACCAA
*
49722832 CCTTGTCTCCCTGAGTAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGCCTTCCTGTACTGACA
1 CCTTATCTCCCTGAGTAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGCCTTCCTGTACTGACA
49722897 GCAAAGCAGATCGAAGACACCA
66 GCAAAGCAGATCGAAGACACCA
49722919 GTCTTATCAC
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 80 1.00
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.25
Consensus pattern (88 bp):
CCTTATCTCCCTGAGTAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGCCTTCCTGTACTGACA
GCAAAGCAGATCGAAGACACCAA
Found at i:49723224 original size:100 final size:100
Alignment explanation
Indices: 49723095--49723417 Score: 486
Period size: 100 Copynumber: 3.2 Consensus size: 100
49723085 ATCTCTTTGG
* *
49723095 CATTACAGTTAAACAAATTGAAGCTACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACA
1 CATTGCAGTTAAACAGATTGAAGCTACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACA
49723160 GATTGAAGCTACGACGGCGAATCTTGTTTCCCCGA
66 GATTGAAGCTACGACGGCGAATCTTGTTTCCCCGA
* * *
49723195 CATTGCAGTTAAATAGATTGAAGCTACAACGGCGAATCTTACTTCCTTGGCGGTGTAGTAGAACA
1 CATTGCAGTTAAACAGATTGAAGCTACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACA
* ** *
49723260 GATTGAAGCTACGAAGATGAATCTTGTTTCTCCGA
66 GATTGAAGCTACGACGGCGAATCTTGTTTCCCCGA
* * * * *
49723295 CATTGCAGTTAAATAGATTGAAG-TCACAACGGTGAATCTTACTTTCCTGGCGGTGCAGTGGAAT
1 CATTGCAGTTAAACAGATTGAAGCT-ACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAAC
**
49723359 AGATTGAAGCTACGACGGCGAATCTTGTTTCCCTAA
65 AGATTGAAGCTACGACGGCGAATCTTGTTTCCCCGA
49723395 CATTGCAGTTAAACAGATTGAAG
1 CATTGCAGTTAAACAGATTGAAG
49723418 AAACCAATCC
Statistics
Matches: 200, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
99 1 0.00
100 199 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (100 bp):
CATTGCAGTTAAACAGATTGAAGCTACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACA
GATTGAAGCTACGACGGCGAATCTTGTTTCCCCGA
Found at i:49723402 original size:50 final size:50
Alignment explanation
Indices: 49723100--49723417 Score: 268
Period size: 50 Copynumber: 6.4 Consensus size: 50
49723090 TTTGGCATTA
* ** * *
49723100 CAGTTAAACAAATTGAAGCTACAACGGCGAATCTTACTTCCCTGGCGGTG
1 CAGTTAAACAGATTGAAGCTACAACGGCGAATCTTGTTTCCCTGACAGTG
* ** * * *
49723150 TAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGTTTCCCCGACATTG
1 CAGTTAAACAGATTGAAGCTACAACGGCGAATCTTGTTTCCCTGACAGTG
* ** * * *
49723200 CAGTTAAATAGATTGAAGCTACAACGGCGAATCTTACTTCCTTGGCGGTG
1 CAGTTAAACAGATTGAAGCTACAACGGCGAATCTTGTTTCCCTGACAGTG
* ** *
49723250 TAG-TAGAACAGATTGAAGCTACGAA-GATGAATCTTGTTTCTCC-GACATTG
1 CAGTTA-AACAGATTGAAGCTAC-AACGGCGAATCTTGTTTC-CCTGACAGTG
* * * * *
49723300 CAGTTAAATAGATTGAAG-TCACAACGGTGAATCTTACTTT-CCTGGCGGTG
1 CAGTTAAACAGATTGAAGCT-ACAACGGCGAATCTT-GTTTCCCTGACAGTG
** * * * *
49723350 CAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCCTAACATTG
1 CAGTTAAACAGATTGAAGCTACAACGGCGAATCTTGTTTCCCTGACAGTG
49723400 CAGTTAAACAGATTGAAG
1 CAGTTAAACAGATTGAAG
49723418 AAACCAATCC
Statistics
Matches: 206, Mismatches: 52, Indels: 20
0.74 0.19 0.07
Matches are distributed among these distances:
49 10 0.05
50 187 0.91
51 9 0.04
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (50 bp):
CAGTTAAACAGATTGAAGCTACAACGGCGAATCTTGTTTCCCTGACAGTG
Found at i:49724934 original size:19 final size:20
Alignment explanation
Indices: 49724892--49724936 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
49724882 AATTGGTTTA
*
49724892 ATAT-TAATCTACTTTTTTT
1 ATATATAATCTACTTATTTT
*
49724911 TTATATAATCTAC-TATTTT
1 ATATATAATCTACTTATTTT
49724930 ATATATA
1 ATATATA
49724937 TGCATATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (20 bp):
ATATATAATCTACTTATTTT
Found at i:49724936 original size:21 final size:20
Alignment explanation
Indices: 49724888--49724937 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
49724878 AATTAATTGG
49724888 TTTA-ATAT-TAATCTACTT
1 TTTATATATATAATCTACTT
* *
49724906 TTTTTTTATATAATCTACTAT
1 TTTATATATATAATCTACT-T
49724927 TTTATATATAT
1 TTTATATATAT
49724938 GCATATATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 3 0.12
19 3 0.12
20 9 0.36
21 10 0.40
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTATATATATAATCTACTT
Found at i:49725199 original size:29 final size:28
Alignment explanation
Indices: 49725166--49725232 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 28
49725156 TTTTAACATC
* *
49725166 TTTAACTTATTTCAACTCATTTCAATAT
1 TTTAATTTATTTAAACTCATTTCAATAT
* * *
49725194 TGTTAATTTATTTAAATTTATTTTAATAT
1 T-TTAATTTATTTAAACTCATTTCAATAT
49725223 TTTAATTTAT
1 TTTAATTTAT
49725233 ATATTATATT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 10 0.30
29 23 0.70
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.58
Consensus pattern (28 bp):
TTTAATTTATTTAAACTCATTTCAATAT
Found at i:49725244 original size:18 final size:19
Alignment explanation
Indices: 49725202--49725274 Score: 64
Period size: 18 Copynumber: 3.9 Consensus size: 19
49725192 ATTGTTAATT
49725202 TATTTAAATTTAT-T-TTAA
1 TATTTAAATTTATATATT-A
*
49725220 TATTTTAATTTATATATTA
1 TATTTAAATTTATATATTA
* *
49725239 TATTT--ATTTCTTAAATTA
1 TATTTAAATTT-ATATATTA
*
49725257 TATTTAAATTTGTATATT
1 TATTTAAATTTATATATT
49725275 TCGTTAGTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
17 4 0.09
18 23 0.51
19 12 0.27
20 6 0.13
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (19 bp):
TATTTAAATTTATATATTA
Found at i:49727277 original size:20 final size:21
Alignment explanation
Indices: 49727254--49727292 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
49727244 GCAAAGACTA
49727254 GAGAAA-TAGACCAAATGTTG
1 GAGAAATTAGACCAAATGTTG
*
49727274 GAGAAATTAGAGCAAATGT
1 GAGAAATTAGACCAAATGT
49727293 GAATACAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.46, C:0.08, G:0.26, T:0.21
Consensus pattern (21 bp):
GAGAAATTAGACCAAATGTTG
Found at i:49729301 original size:11 final size:10
Alignment explanation
Indices: 49729283--49729328 Score: 58
Period size: 11 Copynumber: 4.5 Consensus size: 10
49729273 ATCCAAAAGA
49729283 AAAAAAGAAC
1 AAAAAAGAAC
49729293 AAAAGAAGAAC
1 AAAA-AAGAAC
*
49729304 AAAAAACAA-
1 AAAAAAGAAC
49729313 AAAAAAGAAAC
1 AAAAAAG-AAC
49729324 AAAAA
1 AAAAA
49729329 CCTCTACTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 6 0.19
10 10 0.32
11 15 0.48
ACGTcount: A:0.83, C:0.09, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAC
Found at i:49729307 original size:19 final size:18
Alignment explanation
Indices: 49729279--49729329 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
49729269 TTCAATCCAA
49729279 AAGAAAAAAAGAACAAAAG
1 AAGAAAAAAA-AACAAAAG
* *
49729298 AAGAACAAAAAACAAAAAA
1 AAGAAAAAAAAAC-AAAAG
*
49729317 AAGAAACAAAAAC
1 AAGAAAAAAAAAC
49729330 CTCTACTAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 3 0.11
19 24 0.89
ACGTcount: A:0.80, C:0.10, G:0.10, T:0.00
Consensus pattern (18 bp):
AAGAAAAAAAAACAAAAG
Found at i:49729316 original size:20 final size:21
Alignment explanation
Indices: 49729283--49729328 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
49729273 ATCCAAAAGA
*
49729283 AAAAAAGAACAAAAGAAG-AAC
1 AAAAAACAACAAAA-AAGAAAC
49729304 AAAAAACAA-AAAAAAGAAAC
1 AAAAAACAACAAAAAAGAAAC
49729324 AAAAA
1 AAAAA
49729329 CCTCTACTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 3 0.13
20 12 0.52
21 8 0.35
ACGTcount: A:0.83, C:0.09, G:0.09, T:0.00
Consensus pattern (21 bp):
AAAAAACAACAAAAAAGAAAC
Found at i:49729859 original size:28 final size:26
Alignment explanation
Indices: 49729799--49729860 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 26
49729789 ACTTTGAGTC
49729799 GTAAAAAAAATAAATGAAATGAAAAA
1 GTAAAAAAAATAAATGAAATGAAAAA
* *
49729825 ATGAAAAAGAAT-AATGAAAAATGGAAAAA
1 GT-AAAAAAAATAAATG--AAAT-GAAAAA
49729854 GTAAAAA
1 GTAAAAA
49729861 TGGAGAGGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
26 5 0.17
27 8 0.28
28 9 0.31
29 7 0.24
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (26 bp):
GTAAAAAAAATAAATGAAATGAAAAA
Found at i:49729970 original size:150 final size:151
Alignment explanation
Indices: 49729782--49730084 Score: 590
Period size: 150 Copynumber: 2.0 Consensus size: 151
49729772 AAAAACCCGC
49729782 AAATGGCACTTTGAGTCGTAAAAAAAATAAATGAAATGAAAAAATGAAAAAGAATAATGAAAAAT
1 AAATGGCACTTTGAGTCGTAAAAAAAATAAATGAAATGAAAAAATGAAAAAGAATAATGAAAAAT
*
49729847 GGAAAAAGTAAAAATGGAGAGGCTAAGGTGAAAACCCGCAAAATGCGCCTTAGACCAAAGGGGAT
66 GGAAAAAGTAAAAATGGAGAGGCTAAAGTGAAAACCCGCAAAATGCGCCTTAGACCAAAGGGGAT
49729912 TTGAGTTGAAAACCCGAAAAT
131 TTGAGTTGAAAACCCGAAAAT
49729933 AAATGGCAC-TTGAGTCGTAAAAAAAATAAATGAAATGAAAAAATGAAAAAGAATAATGAAAAAT
1 AAATGGCACTTTGAGTCGTAAAAAAAATAAATGAAATGAAAAAATGAAAAAGAATAATGAAAAAT
49729997 GGAAAAAGTAAAAATGGAGAGGCTAAAGTGAAAACCCGCAAAATGCGCCTTAGACCAAAGGGGAT
66 GGAAAAAGTAAAAATGGAGAGGCTAAAGTGAAAACCCGCAAAATGCGCCTTAGACCAAAGGGGAT
49730062 TTGAGTTGAAAACCCGAAAAT
131 TTGAGTTGAAAACCCGAAAAT
49730083 AA
1 AA
49730085 CGGCTCAAAT
Statistics
Matches: 151, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
150 142 0.94
151 9 0.06
ACGTcount: A:0.51, C:0.11, G:0.21, T:0.17
Consensus pattern (151 bp):
AAATGGCACTTTGAGTCGTAAAAAAAATAAATGAAATGAAAAAATGAAAAAGAATAATGAAAAAT
GGAAAAAGTAAAAATGGAGAGGCTAAAGTGAAAACCCGCAAAATGCGCCTTAGACCAAAGGGGAT
TTGAGTTGAAAACCCGAAAAT
Found at i:49730009 original size:28 final size:26
Alignment explanation
Indices: 49729949--49730010 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 26
49729939 CACTTGAGTC
49729949 GTAAAAAAAATAAATGAAATGAAAAA
1 GTAAAAAAAATAAATGAAATGAAAAA
* *
49729975 ATGAAAAAGAAT-AATGAAAAATGGAAAAA
1 GT-AAAAAAAATAAATG--AAAT-GAAAAA
49730004 GTAAAAA
1 GTAAAAA
49730011 TGGAGAGGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
26 5 0.17
27 8 0.28
28 9 0.31
29 7 0.24
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (26 bp):
GTAAAAAAAATAAATGAAATGAAAAA
Found at i:49734129 original size:29 final size:28
Alignment explanation
Indices: 49734096--49734162 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 28
49734086 TTTTAACATC
* *
49734096 TTTAACTTATTTCAACTCATTTCAATAT
1 TTTAATTTATTTAAACTCATTTCAATAT
* * *
49734124 TGTTAATTTATTTAAATTTATTTTAATAT
1 T-TTAATTTATTTAAACTCATTTCAATAT
49734153 TTTAATTTAT
1 TTTAATTTAT
49734163 ATATTATATT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 10 0.30
29 23 0.70
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.58
Consensus pattern (28 bp):
TTTAATTTATTTAAACTCATTTCAATAT
Found at i:49734174 original size:18 final size:19
Alignment explanation
Indices: 49734132--49734204 Score: 64
Period size: 18 Copynumber: 3.9 Consensus size: 19
49734122 ATTGTTAATT
49734132 TATTTAAATTTAT-T-TTAA
1 TATTTAAATTTATATATT-A
*
49734150 TATTTTAATTTATATATTA
1 TATTTAAATTTATATATTA
* *
49734169 TATTT--ATTTCTTAAATTA
1 TATTTAAATTT-ATATATTA
*
49734187 TATTTAAATTTGTATATT
1 TATTTAAATTTATATATT
49734205 TCGTTAGTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
17 4 0.09
18 23 0.51
19 12 0.27
20 6 0.13
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (19 bp):
TATTTAAATTTATATATTA
Found at i:49750940 original size:16 final size:15
Alignment explanation
Indices: 49750919--49750949 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
49750909 TTGTTTTCCC
49750919 TTCATTCATATTTTCA
1 TTCATTC-TATTTTCA
49750935 TTCATTCTATTTTCA
1 TTCATTCTATTTTCA
49750950 AAGAAAAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.23, C:0.19, G:0.00, T:0.58
Consensus pattern (15 bp):
TTCATTCTATTTTCA
Found at i:49763165 original size:21 final size:22
Alignment explanation
Indices: 49763139--49763186 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
49763129 TGATTTTATG
*
49763139 TATTTTTAA-TTATATAATATA
1 TATTTTTAATTTATAAAATATA
*
49763160 TATTTTTAATTTTTAAAATATA
1 TATTTTTAATTTATAAAATATA
49763182 TATTT
1 TATTT
49763187 ATGATAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 9 0.38
22 15 0.62
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTTTTAATTTATAAAATATA
Found at i:49763197 original size:22 final size:22
Alignment explanation
Indices: 49763145--49763198 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
49763135 TATGTATTTT
*
49763145 TAATTATATAATATATATTTTTAA
1 TAATTA-A-AATATATATTTATAA
** *
49763169 TTTTTAAAATATATATTTATGA
1 TAATTAAAATATATATTTATAA
49763191 TAATTAAA
1 TAATTAAA
49763199 TGAGGATTAG
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
22 19 0.79
23 1 0.04
24 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TAATTAAAATATATATTTATAA
Found at i:49763311 original size:32 final size:30
Alignment explanation
Indices: 49763275--49763333 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
49763265 AAAAAATATT
*
49763275 AAATTAAATTATTAAAATAATATACAGATTTG
1 AAATTAAA-TAATAAAATAA-ATACAGATTTG
*
49763307 AAATTATATAATAAAATAAATACAGAT
1 AAATTAAATAATAAAATAAATACAGAT
49763334 GATATTTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 8 0.32
31 10 0.40
32 7 0.28
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (30 bp):
AAATTAAATAATAAAATAAATACAGATTTG
Found at i:49763936 original size:7 final size:7
Alignment explanation
Indices: 49763924--49763955 Score: 50
Period size: 6 Copynumber: 4.9 Consensus size: 7
49763914 CAATTATTTT
49763924 TAATTAA
1 TAATTAA
49763931 TAATTAA
1 TAATTAA
49763938 TAATT-A
1 TAATTAA
49763944 TAATT-A
1 TAATTAA
49763950 TAATTA
1 TAATTA
49763956 TCACAACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAATTAA
Found at i:49772178 original size:29 final size:31
Alignment explanation
Indices: 49772105--49772178 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 31
49772095 TTTAATATTT
* *
49772105 ACTTTGA-TTTGATGCAATTATATATATGAA
1 ACTTTGATTTTGATTCAATTATATATATAAA
**
49772135 A-TTTGAATTGCGATTC-A-TATATATATAAA
1 ACTTTG-ATTTTGATTCAATTATATATATAAA
49772164 ACTTTGATTTTGATT
1 ACTTTGATTTTGATT
49772179 AAACTATACA
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
29 23 0.66
30 7 0.20
31 5 0.14
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.46
Consensus pattern (31 bp):
ACTTTGATTTTGATTCAATTATATATATAAA
Found at i:49774939 original size:891 final size:891
Alignment explanation
Indices: 49773218--49775000 Score: 3566
Period size: 891 Copynumber: 2.0 Consensus size: 891
49773208 AAAAAATAAT
49773218 ATTATTTAAACTCTAAAAATTTCCAAAAGTTATGGTTACATATTTTATTATAAAAAAATAATCTA
1 ATTATTTAAACTCTAAAAATTTCCAAAAGTTATGGTTACATATTTTATTATAAAAAAATAATCTA
49773283 CATGTTATAAAAATGTTTTAATATGTTTATTTATGAAAACTTATGGCCAAAAAATATGATTATAG
66 CATGTTATAAAAATGTTTTAATATGTTTATTTATGAAAACTTATGGCCAAAAAATATGATTATAG
49773348 TTTAATTATCTTTCCATGTTATATATTATTAAAATAATATACTTATTGTTTTATCATAACTTATT
131 TTTAATTATCTTTCCATGTTATATATTATTAAAATAATATACTTATTGTTTTATCATAACTTATT
49773413 TATAAAAAATAACTTTCCAAAATTGTGATAAAAAATTATATTATTTATAAAAAGTGTTATATGAA
196 TATAAAAAATAACTTTCCAAAATTGTGATAAAAAATTATATTATTTATAAAAAGTGTTATATGAA
49773478 AGTTTTGGGTAGTCTATAAAACATTTTAAATAAAGGTTATATATTATATATTATAAATTTTATAT
261 AGTTTTGGGTAGTCTATAAAACATTTTAAATAAAGGTTATATATTATATATTATAAATTTTATAT
49773543 TATTTTTTACTTAATTTACGTATTATAAAAAAAGATATAATCTAGTATATAAGTTTTTTTTTCCA
326 TATTTTTTACTTAATTTACGTATTATAAAAAAAGATATAATCTAGTATATAAGTTTTTTTTTCCA
49773608 AATTAAGTTTATATAAGTTCTTATAATTAAAGCTAAAACTATTTGGATTGTGAACTTAAATATTA
391 AATTAAGTTTATATAAGTTCTTATAATTAAAGCTAAAACTATTTGGATTGTGAACTTAAATATTA
49773673 TAAGATCGAAGCTAATTATGCAAATAGAAATTATTTTATTCGGATTGTTTTATTTTAATTTTTGT
456 TAAGATCGAAGCTAATTATGCAAATAGAAATTATTTTATTCGGATTGTTTTATTTTAATTTTTGT
49773738 TACTTGTTTAGAAATTATTTTTATCATACTAATACATTTTATAGTAATTAATACTTTTTAAAAAT
521 TACTTGTTTAGAAATTATTTTTATCATACTAATACATTTTATAGTAATTAATACTTTTTAAAAAT
49773803 ATAAATTATGTAACTATGTAATTATAATTTATAATACACTCTATTAGCCAAACACATTTAAAAAT
586 ATAAATTATGTAACTATGTAATTATAATTTATAATACACTCTATTAGCCAAACACATTTAAAAAT
49773868 TACAATTTTTTTGTAATTTAATAACTAATGATTAACTAATTGATTTAATTTGATAACTCGTATTG
651 TACAATTTTTTTGTAATTTAATAACTAATGATTAACTAATTGATTTAATTTGATAACTCGTATTG
49773933 ATTAATTTAACTTGTAAGATTTATGAACTTCAAAATTAATAATGTAAAATAAAAGATGAATAAAA
716 ATTAATTTAACTTGTAAGATTTATGAACTTCAAAATTAATAATGTAAAATAAAAGATGAATAAAA
49773998 GTAATAATACTTGCGCCTGCTATACGTCTTCAATATATAAATTCTATTGTAAATTTACAATTATT
781 GTAATAATACTTGCGCCTGCTATACGTCTTCAATATATAAATTCTATTGTAAATTTACAATTATT
49774063 CTTTCATTATTATAGGTGCATAAAAATTACTTTAGATAAAAATTTG
846 CTTTCATTATTATAGGTGCATAAAAATTACTTTAGATAAAAATTTG
49774109 ATTATTTAAACTCTAAAAATTTCCAAAAGTTATGGTTACATATTTTATTATAAAAAAATAATCTA
1 ATTATTTAAACTCTAAAAATTTCCAAAAGTTATGGTTACATATTTTATTATAAAAAAATAATCTA
49774174 CATGTTATAAAAATGTTTTAATATGTTTATTTATGAAAACTTATGGCCAAAAAATATGATTATAG
66 CATGTTATAAAAATGTTTTAATATGTTTATTTATGAAAACTTATGGCCAAAAAATATGATTATAG
49774239 TTTAATTATCTTTCCATGTTATATATTATTAAAATAATATACTTATTGTTTTATCATAACTTATT
131 TTTAATTATCTTTCCATGTTATATATTATTAAAATAATATACTTATTGTTTTATCATAACTTATT
49774304 TATAAAAAATAACTTTCCAAAATTGTGATAAAAAATTATATTATTTATAAAAAGTGTTATATGAA
196 TATAAAAAATAACTTTCCAAAATTGTGATAAAAAATTATATTATTTATAAAAAGTGTTATATGAA
49774369 AGTTTTGGGTAGTCTATAAAACATTTTAAATAAAGGTTATATATTATATATTATAAATTTTATAT
261 AGTTTTGGGTAGTCTATAAAACATTTTAAATAAAGGTTATATATTATATATTATAAATTTTATAT
49774434 TATTTTTTACTTAATTTACGTATTATAAAAAAAGATATAATCTAGTATATAAGTTTTTTTTTCCA
326 TATTTTTTACTTAATTTACGTATTATAAAAAAAGATATAATCTAGTATATAAGTTTTTTTTTCCA
49774499 AATTAAGTTTATATAAGTTCTTATAATTAAAGCTAAAACTATTTGGATTGTGAACTTAAATATTA
391 AATTAAGTTTATATAAGTTCTTATAATTAAAGCTAAAACTATTTGGATTGTGAACTTAAATATTA
49774564 TAAGATCGAAGCTAATTATGCAAATAGAAATTATTTTATTCGGATTGTTTTATTTTAATTTTTGT
456 TAAGATCGAAGCTAATTATGCAAATAGAAATTATTTTATTCGGATTGTTTTATTTTAATTTTTGT
49774629 TACTTGTTTAGAAATTATTTTTATCATACTAATACATTTTATAGTAATTAATACTTTTTAAAAAT
521 TACTTGTTTAGAAATTATTTTTATCATACTAATACATTTTATAGTAATTAATACTTTTTAAAAAT
49774694 ATAAATTATGTAACTATGTAATTATAATTTATAATACACTCTATTAGCCAAACACATTTAAAAAT
586 ATAAATTATGTAACTATGTAATTATAATTTATAATACACTCTATTAGCCAAACACATTTAAAAAT
49774759 TACAATTTTTTTGTAATTTAATAACTAATGATTAACTAATTGATTTAATTTGATAACTCGTATTG
651 TACAATTTTTTTGTAATTTAATAACTAATGATTAACTAATTGATTTAATTTGATAACTCGTATTG
49774824 ATTAATTTAACTTGTAAGATTTATGAACTTCAAAATTAATAATGTAAAATAAAAGATGAATAAAA
716 ATTAATTTAACTTGTAAGATTTATGAACTTCAAAATTAATAATGTAAAATAAAAGATGAATAAAA
49774889 GTAATAATACTTGCGCCTGCTATACGTCTTCAATATATAAATTCTATTGTAAATTTACAATTATT
781 GTAATAATACTTGCGCCTGCTATACGTCTTCAATATATAAATTCTATTGTAAATTTACAATTATT
49774954 CTTTCATTATTATAGGTGCATAAAAATTACTTTAGATAAAAATTTG
846 CTTTCATTATTATAGGTGCATAAAAATTACTTTAGATAAAAATTTG
49775000 A
1 A
49775001 CAGATAAACT
Statistics
Matches: 892, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
891 892 1.00
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (891 bp):
ATTATTTAAACTCTAAAAATTTCCAAAAGTTATGGTTACATATTTTATTATAAAAAAATAATCTA
CATGTTATAAAAATGTTTTAATATGTTTATTTATGAAAACTTATGGCCAAAAAATATGATTATAG
TTTAATTATCTTTCCATGTTATATATTATTAAAATAATATACTTATTGTTTTATCATAACTTATT
TATAAAAAATAACTTTCCAAAATTGTGATAAAAAATTATATTATTTATAAAAAGTGTTATATGAA
AGTTTTGGGTAGTCTATAAAACATTTTAAATAAAGGTTATATATTATATATTATAAATTTTATAT
TATTTTTTACTTAATTTACGTATTATAAAAAAAGATATAATCTAGTATATAAGTTTTTTTTTCCA
AATTAAGTTTATATAAGTTCTTATAATTAAAGCTAAAACTATTTGGATTGTGAACTTAAATATTA
TAAGATCGAAGCTAATTATGCAAATAGAAATTATTTTATTCGGATTGTTTTATTTTAATTTTTGT
TACTTGTTTAGAAATTATTTTTATCATACTAATACATTTTATAGTAATTAATACTTTTTAAAAAT
ATAAATTATGTAACTATGTAATTATAATTTATAATACACTCTATTAGCCAAACACATTTAAAAAT
TACAATTTTTTTGTAATTTAATAACTAATGATTAACTAATTGATTTAATTTGATAACTCGTATTG
ATTAATTTAACTTGTAAGATTTATGAACTTCAAAATTAATAATGTAAAATAAAAGATGAATAAAA
GTAATAATACTTGCGCCTGCTATACGTCTTCAATATATAAATTCTATTGTAAATTTACAATTATT
CTTTCATTATTATAGGTGCATAAAAATTACTTTAGATAAAAATTTG
Found at i:49775237 original size:8 final size:9
Alignment explanation
Indices: 49775211--49775235 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
49775201 AATATAATAC
49775211 ATTAAAAAT
1 ATTAAAAAT
49775220 ATTAAAAAT
1 ATTAAAAAT
49775229 ATTAAAA
1 ATTAAAA
49775236 TAAATGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
ATTAAAAAT
Found at i:49775262 original size:20 final size:20
Alignment explanation
Indices: 49775214--49775263 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
49775204 ATAATACATT
49775214 AAAAATAT-TAAAAATATTA
1 AAAAATATGTAAAAATATTA
49775233 AAATAA-ATGTAAACAA-ATTA
1 AAA-AATATGTAAA-AATATTA
49775253 AAAAATATGTA
1 AAAAATATGTA
49775264 TACTTAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 7 0.26
20 18 0.67
21 2 0.07
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (20 bp):
AAAAATATGTAAAAATATTA
Found at i:49776710 original size:28 final size:28
Alignment explanation
Indices: 49776676--49776741 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
49776666 ACAAAAAATA
49776676 ACTAAAATATTATAACA-TTTTTTTATTT
1 ACTAAAATATTATAA-ATTTTTTTTATTT
49776704 A-TCAAAATATTATAAATTTTTTTTATTT
1 ACT-AAAATATTATAAATTTTTTTTATTT
49776732 ACTAAAATAT
1 ACTAAAATAT
49776742 ACCTAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
27 2 0.06
28 32 0.91
29 1 0.03
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (28 bp):
ACTAAAATATTATAAATTTTTTTTATTT
Found at i:49777459 original size:18 final size:16
Alignment explanation
Indices: 49777431--49777492 Score: 65
Period size: 18 Copynumber: 3.8 Consensus size: 16
49777421 ATAATTGTAG
49777431 TTTAAATTATAATTAT
1 TTTAAATTATAATTAT
*
49777447 TTTGAAATATATAACTA-
1 TTT-AAAT-TATAATTAT
49777464 -TTAAATTATAATTATT
1 TTTAAATTATAATTA-T
49777480 TTTAAATTTATAA
1 TTTAAA-TTATAA
49777493 AGAGTATTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 7 0.18
15 4 0.11
16 5 0.13
17 9 0.24
18 13 0.34
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (16 bp):
TTTAAATTATAATTAT
Found at i:49777469 original size:32 final size:32
Alignment explanation
Indices: 49777432--49777492 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
49777422 TAATTGTAGT
49777432 TTAAATTATAATTATTTTGAAATATATAACTA
1 TTAAATTATAATTATTTTGAAATATATAACTA
* *
49777464 TTAAATTATAATTATTTTTAAATTTATAA
1 TTAAATTATAATTATTTTGAAATATATAA
49777493 AGAGTATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (32 bp):
TTAAATTATAATTATTTTGAAATATATAACTA
Found at i:49777479 original size:14 final size:14
Alignment explanation
Indices: 49777432--49777479 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 14
49777422 TAATTGTAGT
49777432 TTAAATTATAATTA
1 TTAAATTATAATTA
*
49777446 TTTTGAAATATATAACTA
1 --TT-AAAT-TATAATTA
49777464 TTAAATTATAATTA
1 TTAAATTATAATTA
49777478 TT
1 TT
49777480 TTTAAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 9 0.32
15 4 0.14
16 4 0.14
17 4 0.14
18 7 0.25
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (14 bp):
TTAAATTATAATTA
Found at i:49777957 original size:27 final size:27
Alignment explanation
Indices: 49777914--49777987 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
49777904 TAGTTCTTTA
*
49777914 GCACCATTGGTGTCGCCAATCACATTG
1 GCACCATTGGTGCCGCCAATCACATTG
* *
49777941 GCACCATTGATGCCGCCAATCTCATTG
1 GCACCATTGGTGCCGCCAATCACATTG
* *
49777968 GCACCCTTGGTGCCTCCAAT
1 GCACCATTGGTGCCGCCAAT
49777988 GTGATTGGCC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.20, C:0.34, G:0.20, T:0.26
Consensus pattern (27 bp):
GCACCATTGGTGCCGCCAATCACATTG
Found at i:49777994 original size:27 final size:27
Alignment explanation
Indices: 49777914--49777996 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 27
49777904 TAGTTCTTTA
* * *
49777914 GCACCATTGGTGTCGCCAATCACATTG
1 GCACCATTGATGCCGCCAATCTCATTG
49777941 GCACCATTGATGCCGCCAATCTCATTG
1 GCACCATTGATGCCGCCAATCTCATTG
* * * * *
49777968 GCACCCTTGGTGCCTCCAATGTGATTG
1 GCACCATTGATGCCGCCAATCTCATTG
49777995 GC
1 GC
49777997 CTGATCAGGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.19, C:0.31, G:0.23, T:0.27
Consensus pattern (27 bp):
GCACCATTGATGCCGCCAATCTCATTG
Found at i:49789249 original size:3 final size:3
Alignment explanation
Indices: 49789241--49789279 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
49789231 GTACGTCCAT
*
49789241 TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC -TC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
49789280 CTTTTCTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:49789286 original size:15 final size:16
Alignment explanation
Indices: 49789242--49789286 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
49789232 TACGTCCATT
49789242 TCTTCTTCTTCTTCTTC
1 TCTTC-TCTTCTTCTTC
*
49789259 T-TTTTCTTCTTCTTC
1 TCTTCTCTTCTTCTTC
49789274 TCTTCTCTT-TTCT
1 TCTTCTCTTCTTCT
49789287 GATGATAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 16 0.64
16 8 0.32
17 1 0.04
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (16 bp):
TCTTCTCTTCTTCTTC
Found at i:49789988 original size:101 final size:102
Alignment explanation
Indices: 49789812--49790018 Score: 407
Period size: 101 Copynumber: 2.0 Consensus size: 102
49789802 AAAAAAATTA
49789812 TATTAAAATATAGAACTGACAAAAATGTTATTATAATAATATTTATTACATTGGATTAATTTCTA
1 TATTAAAATATAGAACTGACAAAAATGTTATTATAATAATATTTATTACATTGGATTAATTTCTA
49789877 AGAGCAATGTAATAATATAAATTCAAATTCATCATTT
66 AGAGCAATGTAATAATATAAATTCAAATTCATCATTT
49789914 TATTAAAATATAG-ACTGACAAAAATGTTATTATAATAATATTTATTACATTGGATTAATTTCTA
1 TATTAAAATATAGAACTGACAAAAATGTTATTATAATAATATTTATTACATTGGATTAATTTCTA
49789978 AGAGCAATGTAATAATATAAATTCAAATTCATCATTT
66 AGAGCAATGTAATAATATAAATTCAAATTCATCATTT
49790015 TATT
1 TATT
49790019 TAAAGATACA
Statistics
Matches: 105, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
101 92 0.88
102 13 0.12
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (102 bp):
TATTAAAATATAGAACTGACAAAAATGTTATTATAATAATATTTATTACATTGGATTAATTTCTA
AGAGCAATGTAATAATATAAATTCAAATTCATCATTT
Found at i:49799610 original size:30 final size:30
Alignment explanation
Indices: 49799569--49799631 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
49799559 ACTTAACAAG
*
49799569 CAAATGACTTTAAAATAATAGCAAAATTAA
1 CAAATGACTTTAAAATAATAACAAAATTAA
*
49799599 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGACTTTAAAATAATAACAAAATTAA
49799629 CAA
1 CAA
49799632 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.11, G:0.05, T:0.27
Consensus pattern (30 bp):
CAAATGACTTTAAAATAATAACAAAATTAA
Found at i:49803565 original size:13 final size:14
Alignment explanation
Indices: 49803537--49803569 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
49803527 TAACTAGAGG
*
49803537 AAATAATATGTTAA
1 AAATAATATATTAA
49803551 AAATAATA-ATTAA
1 AAATAATATATTAA
49803564 AAATAA
1 AAATAA
49803570 AAGTAATGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (14 bp):
AAATAATATATTAA
Found at i:49812244 original size:9 final size:9
Alignment explanation
Indices: 49812230--49812269 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
49812220 CTCAATTTAT
49812230 TAATAACAA
1 TAATAACAA
*
49812239 TAATAATAA
1 TAATAACAA
*
49812248 TAATAATAA
1 TAATAACAA
49812257 TAATAAACAA
1 TAAT-AACAA
49812267 TAA
1 TAA
49812270 ATGGAAGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
9 21 0.75
10 7 0.25
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (9 bp):
TAATAACAA
Found at i:49812245 original size:3 final size:3
Alignment explanation
Indices: 49812230--49812262 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
49812220 CTCAATTTAT
*
49812230 TAA TAA CAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
49812263 ACAATAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:49824113 original size:24 final size:25
Alignment explanation
Indices: 49824077--49824124 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
49824067 GATCCCCATA
49824077 TTTTTTTCGTTTTAAGTAATTTAAT
1 TTTTTTTCGTTTTAAGTAATTTAAT
* *
49824102 TTTTTTTC-TTTTATGTACTTTAA
1 TTTTTTTCGTTTTAAGTAATTTAA
49824125 ACTTTCCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.21, C:0.06, G:0.06, T:0.67
Consensus pattern (25 bp):
TTTTTTTCGTTTTAAGTAATTTAAT
Found at i:49824417 original size:24 final size:25
Alignment explanation
Indices: 49824390--49824437 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
49824380 AGAGGAAAGT
49824390 TTAAAGAACATAAAA-GAAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAAA
** *
49824414 TTAAATTACTTAAAACGAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAA
49824438 TATGGGGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (25 bp):
TTAAAGAACATAAAACGAAAAAAAA
Found at i:49826796 original size:24 final size:24
Alignment explanation
Indices: 49826768--49826819 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
49826758 TTTCTAGAAG
* *
49826768 ATTTAATATTTATAAATATAATAT
1 ATTTAACATTTATAAACATAATAT
* *
49826792 ATTTAACGTTTATTAACATAATAT
1 ATTTAACATTTATAAACATAATAT
49826816 ATTT
1 ATTT
49826820 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (24 bp):
ATTTAACATTTATAAACATAATAT
Found at i:49827318 original size:57 final size:57
Alignment explanation
Indices: 49827230--49827344 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
49827220 CTATGCAAAA
49827230 TATGTAGATCAAATTTTTAGGTTTGGGTCCAATCTAGATTCAAAAATCAATTTACTT
1 TATGTAGATCAAATTTTTAGGTTTGGGTCCAATCTAGATTCAAAAATCAATTTACTT
*
49827287 TATGTAGATCAAATTTTTCGGTTTGGGTCCAATCTAGATTCAAAAATCAATTTACTT
1 TATGTAGATCAAATTTTTAGGTTTGGGTCCAATCTAGATTCAAAAATCAATTTACTT
49827344 T
1 T
49827345 TTTGTTCAAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (57 bp):
TATGTAGATCAAATTTTTAGGTTTGGGTCCAATCTAGATTCAAAAATCAATTTACTT
Found at i:49827444 original size:17 final size:17
Alignment explanation
Indices: 49827422--49827455 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
49827412 TTTTTTAGAT
49827422 TAATTT-TTATTTAAAAA
1 TAATTTCTT-TTTAAAAA
49827439 TAATTTCTTTTTAAAAA
1 TAATTTCTTTTTAAAAA
49827456 CATATAATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TAATTTCTTTTTAAAAA
Found at i:49831253 original size:11 final size:11
Alignment explanation
Indices: 49831237--49831261 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
49831227 GAGTCTCACT
49831237 TAATTTTATTA
1 TAATTTTATTA
49831248 TAATTTTATTA
1 TAATTTTATTA
49831259 TAA
1 TAA
49831262 ATGTGTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TAATTTTATTA
Found at i:49836915 original size:30 final size:30
Alignment explanation
Indices: 49836854--49836915 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
49836844 GGAAGGGAGG
* **
49836854 GGAGTAAAAGTTCTAGGGGGAAAGTGGAAA
1 GGAGTAAAAGTTCTAGGGGAAAAGTAAAAA
49836884 GGAGTAAAAGTTCT-GAGGGAAAAGTAAAAA
1 GGAGTAAAAGTTCTAG-GGGAAAAGTAAAAA
49836914 GG
1 GG
49836916 TTTGGGAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 1 0.04
30 27 0.96
ACGTcount: A:0.44, C:0.03, G:0.37, T:0.16
Consensus pattern (30 bp):
GGAGTAAAAGTTCTAGGGGAAAAGTAAAAA
Found at i:49836971 original size:9 final size:9
Alignment explanation
Indices: 49836957--49836984 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
49836947 TATAGTTTGA
49836957 TATTCGAAT
1 TATTCGAAT
49836966 TATTCGAAT
1 TATTCGAAT
49836975 TATTCGAAT
1 TATTCGAAT
49836984 T
1 T
49836985 CGAAAACTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:49837055 original size:9 final size:9
Alignment explanation
Indices: 49837038--49837068 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
49837028 TCGAGTTGAT
49837038 TCGAATAAC
1 TCGAATAAC
*
49837047 TCGATTAAC
1 TCGAATAAC
49837056 TCGAATAAC
1 TCGAATAAC
49837065 TCGA
1 TCGA
49837069 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:49839006 original size:10 final size:11
Alignment explanation
Indices: 49838989--49839040 Score: 72
Period size: 10 Copynumber: 4.9 Consensus size: 11
49838979 AGCCCATTTT
49838989 TATTTTAAAAA
1 TATTTTAAAAA
49839000 T-TTTTAAAAA
1 TATTTTAAAAA
**
49839010 T-TTAAAAAAA
1 TATTTTAAAAA
49839020 TATTTTAAAAA
1 TATTTTAAAAA
49839031 TATTTTAAAA
1 TATTTTAAAA
49839041 TTAAAAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
10 18 0.50
11 18 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:49839047 original size:30 final size:30
Alignment explanation
Indices: 49838989--49839078 Score: 112
Period size: 30 Copynumber: 3.0 Consensus size: 30
49838979 AGCCCATTTT
49838989 TATTTTAAAAAT-TTTTAAAAATTTAAAAAAA
1 TATTTTAAAAATATTTT-AAAA-TTAAAAAAA
49839020 TATTTTAAAAATATTTTAAAATTAAAAAAA
1 TATTTTAAAAATATTTTAAAATTAAAAAAA
** *
49839050 T-TTAAAAAAAGTATTTTAAAGTTAAAAAA
1 TATTTTAAAAA-TATTTTAAAATTAAAAAA
49839079 TAAAAATAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
29 7 0.13
30 27 0.50
31 16 0.30
32 4 0.07
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (30 bp):
TATTTTAAAAATATTTTAAAATTAAAAAAA
Found at i:49839096 original size:29 final size:31
Alignment explanation
Indices: 49838994--49839095 Score: 95
Period size: 30 Copynumber: 3.4 Consensus size: 31
49838984 ATTTTTATTT
***
49838994 TAAAAAT-TTTTAAAAATTTAAAAAAAT-ATTT
1 TAAAAATATTTT-AAAA-TTAAAAAAATAAAAA
**
49839025 TAAAAATATTTTAAAATTAAAAAAATTTAAA
1 TAAAAATATTTTAAAATTAAAAAAATAAAAA
* *
49839056 -AAAAGTATTTTAAAGTT-AAAAAATAAAAA
1 TAAAAATATTTTAAAATTAAAAAAATAAAAA
49839085 TAAAAATATTT
1 TAAAAATATTT
49839096 ATTATTCGGG
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
29 10 0.17
30 34 0.58
31 11 0.19
32 4 0.07
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (31 bp):
TAAAAATATTTTAAAATTAAAAAAATAAAAA
Found at i:49839764 original size:1 final size:1
Alignment explanation
Indices: 49839758--49839788 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
49839748 CAAAACATTC
49839758 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
49839789 GTTCTCTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:49846005 original size:21 final size:22
Alignment explanation
Indices: 49845981--49846022 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
49845971 TTTTAAAAAA
*
49845981 TTGTTGGATT-TTTTCAAATTC
1 TTGTAGGATTATTTTCAAATTC
*
49846002 TTGTAGGATTATTTTTAAATT
1 TTGTAGGATTATTTTCAAATT
49846023 TTTATGTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.24, C:0.05, G:0.14, T:0.57
Consensus pattern (22 bp):
TTGTAGGATTATTTTCAAATTC
Found at i:49846702 original size:39 final size:39
Alignment explanation
Indices: 49846658--49846742 Score: 161
Period size: 39 Copynumber: 2.2 Consensus size: 39
49846648 TACATAGCCA
49846658 TGACATGGAATTCATGTCAGCATTTAATCACATAATTTG
1 TGACATGGAATTCATGTCAGCATTTAATCACATAATTTG
49846697 TGACATGGAATTCATGTCAGCATTTAATCACATAATTTG
1 TGACATGGAATTCATGTCAGCATTTAATCACATAATTTG
*
49846736 TGCCATG
1 TGACATG
49846743 TCATACTTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (39 bp):
TGACATGGAATTCATGTCAGCATTTAATCACATAATTTG
Found at i:49848814 original size:6 final size:7
Alignment explanation
Indices: 49848787--49848811 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
49848777 TAACCTTTCG
49848787 TTTTTAA
1 TTTTTAA
49848794 TTTTTAA
1 TTTTTAA
49848801 TTTTTAA
1 TTTTTAA
49848808 TTTT
1 TTTT
49848812 AATGATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTAA
Found at i:49849151 original size:22 final size:23
Alignment explanation
Indices: 49849117--49849160 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
49849107 TATTTGAATG
* * *
49849117 AAAATTATATATATGTATATTTA
1 AAAACTATATATAAGTAAATTTA
49849140 AAAACTAT-TATAAGTAAATTT
1 AAAACTATATATAAGTAAATTT
49849161 GTATACTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (23 bp):
AAAACTATATATAAGTAAATTTA
Found at i:49849856 original size:17 final size:18
Alignment explanation
Indices: 49849829--49849867 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
49849819 ATTTTTAAAT
49849829 AATAATGATTTTT-TTGAA
1 AATAATGATTTTTATT-AA
49849847 AATAAT-ATTTTTATTAA
1 AATAATGATTTTTATTAA
49849864 AATA
1 AATA
49849868 TTTTAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (18 bp):
AATAATGATTTTTATTAA
Found at i:49851030 original size:21 final size:21
Alignment explanation
Indices: 49851006--49851048 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
49850996 TGCTTTTGTT
*
49851006 TAAATTTAATTAC-AAATAATA
1 TAAATTTAAAT-CTAAATAATA
49851027 TAAATTTAAATCTAAATAATA
1 TAAATTTAAATCTAAATAATA
49851048 T
1 T
49851049 GTTAATCGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTTAAATCTAAATAATA
Found at i:49851396 original size:138 final size:130
Alignment explanation
Indices: 49851131--49851389 Score: 511
Period size: 129 Copynumber: 2.0 Consensus size: 130
49851121 TAAATCAGAA
49851131 ATTAACCAAATTAACCGAACTTAATAAATAATATTATATATTATATGTATTGTGATATTACTAAT
1 ATTAACCAAATTAACCGAACTTAATAAATAATATTATATATTATATGTATTGTGATATTACTAAT
49851196 TCGGTTAATTTGGTTAATTCATATAATCCGGCCAAATAAACATTAACAATTTATTTTTTTATATG
66 TCGGTTAATTTGGTTAATTCATATAATCCGGCCAAATAAACATTAACAATTTATTTTTTTATATG
49851261 ATTAACCAAA-TAACCGAACTTAATAAATAATATTATATATTATATGTATTGTGATATTACTAAT
1 ATTAACCAAATTAACCGAACTTAATAAATAATATTATATATTATATGTATTGTGATATTACTAAT
49851325 TCGGTTAATTTGGTTAATTCATATAATCCGGCCAAATAAACATTAACAATTTATTTTTTTATATG
66 TCGGTTAATTTGGTTAATTCATATAATCCGGCCAAATAAACATTAACAATTTATTTTTTTATATG
49851390 TTTTATACTT
Statistics
Matches: 129, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
129 119 0.92
130 10 0.08
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.41
Consensus pattern (130 bp):
ATTAACCAAATTAACCGAACTTAATAAATAATATTATATATTATATGTATTGTGATATTACTAAT
TCGGTTAATTTGGTTAATTCATATAATCCGGCCAAATAAACATTAACAATTTATTTTTTTATATG
Found at i:49853535 original size:19 final size:19
Alignment explanation
Indices: 49853511--49853547 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
49853501 ATTTTATAAT
49853511 GAAAATGGA-AAGAGAAAAG
1 GAAAATGGAGAAGA-AAAAG
49853530 GAAAATGGAGAAGAAAAA
1 GAAAATGGAGAAGAAAAA
49853548 AAACTGGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.65, C:0.00, G:0.30, T:0.05
Consensus pattern (19 bp):
GAAAATGGAGAAGAAAAAG
Found at i:49867993 original size:17 final size:18
Alignment explanation
Indices: 49867963--49867996 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
49867953 AAATAATAAC
49867963 TAAAATATTATTATTTTG
1 TAAAATATTATTATTTTG
49867981 TAAAATA-TATTATTTT
1 TAAAATATTATTATTTT
49867997 ATTTTAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (18 bp):
TAAAATATTATTATTTTG
Found at i:49870597 original size:15 final size:15
Alignment explanation
Indices: 49870560--49870604 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
49870550 GAGAGAAACT
49870560 AAATAAAAAAATATTA
1 AAAT-AAAAAATATTA
**
49870576 AGTTAAAAAATATTA
1 AAATAAAAAATATTA
49870591 AAATAAAAAGATAT
1 AAATAAAAA-ATAT
49870605 ATTTGAAGAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 18 0.75
16 6 0.25
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (15 bp):
AAATAAAAAATATTA
Found at i:49872230 original size:6 final size:6
Alignment explanation
Indices: 49872183--49872239 Score: 64
Period size: 6 Copynumber: 9.8 Consensus size: 6
49872173 ACCGAAGATT
* * *
49872183 AGAAAA A-AAAA A-AAAA AAAAAA AAAAAA AAAAAA AGAAAA AGAAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA
*
49872229 AGAAAG AGAAA
1 AGAAAA AGAAA
49872240 CATAAAAAGG
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
5 10 0.21
6 38 0.79
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:49872230 original size:12 final size:12
Alignment explanation
Indices: 49872183--49872233 Score: 79
Period size: 11 Copynumber: 4.4 Consensus size: 12
49872173 ACCGAAGATT
49872183 AGAAAAAAAAAA
1 AGAAAAAAAAAA
49872195 A-AAAAAAAAAA
1 AGAAAAAAAAAA
49872206 A-AAAAAAAAAA
1 AGAAAAAAAAAA
*
49872217 AGAAAAAGAAAA
1 AGAAAAAAAAAA
49872229 AGAAA
1 AGAAA
49872234 GAGAAACATA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
11 22 0.59
12 15 0.41
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AGAAAAAAAAAA
Found at i:49872247 original size:1 final size:1
Alignment explanation
Indices: 49872185--49872229 Score: 72
Period size: 1 Copynumber: 45.0 Consensus size: 1
49872175 CGAAGATTAG
* *
49872185 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
49872230 GAAAGAGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.96, C:0.00, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:49873032 original size:27 final size:27
Alignment explanation
Indices: 49873002--49873062 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
49872992 CAAATGCCGA
49873002 GTGGAGGTGGGGGTGAAGGTGGAGGAG
1 GTGGAGGTGGGGGTGAAGGTGGAGGAG
* *
49873029 GTGGTGGTGGGGGTGAAGGTGGAGGGG
1 GTGGAGGTGGGGGTGAAGGTGGAGGAG
*
49873056 GAGGAGG
1 GTGGAGG
49873063 GGGAGGGGGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.16, C:0.00, G:0.69, T:0.15
Consensus pattern (27 bp):
GTGGAGGTGGGGGTGAAGGTGGAGGAG
Found at i:49873049 original size:15 final size:15
Alignment explanation
Indices: 49873010--49873071 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 15
49873000 GAGTGGAGGT
49873010 GGGGGTGAAGGTGGA
1 GGGGGTGAAGGTGGA
* *
49873025 GGAGGT---GGTGGT
1 GGGGGTGAAGGTGGA
49873037 GGGGGTGAAGGTGGA
1 GGGGGTGAAGGTGGA
* * *
49873052 GGGGGAGGAGGGGGA
1 GGGGGTGAAGGTGGA
49873067 GGGGG
1 GGGGG
49873072 AGGAATGGGA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
12 10 0.27
15 27 0.73
ACGTcount: A:0.16, C:0.00, G:0.73, T:0.11
Consensus pattern (15 bp):
GGGGGTGAAGGTGGA
Found at i:49873072 original size:15 final size:15
Alignment explanation
Indices: 49873043--49873085 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
49873033 TGGTGGGGGT
49873043 GAAGGTGGAGGGGGAG
1 GAAGG-GGAGGGGGAG
*
49873059 GAGGGGGAGGGGGAG
1 GAAGGGGAGGGGGAG
*
49873074 GAATGGGAGGGG
1 GAAGGGGAGGGG
49873086 CAGGGGTAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.23, C:0.00, G:0.72, T:0.05
Consensus pattern (15 bp):
GAAGGGGAGGGGGAG
Found at i:49873666 original size:316 final size:316
Alignment explanation
Indices: 49873093--49873715 Score: 1237
Period size: 316 Copynumber: 2.0 Consensus size: 316
49873083 GGGCAGGGGT
49873093 AGGAGGAGGGATATCACAGAAACTGACTACCAATGATGCCTTAACATATCTAAAGGAAGTGAGGG
1 AGGAGGAGGGATATCACAGAAACTGACTACCAATGATGCCTTAACATATCTAAAGGAAGTGAGGG
49873158 AGATGTTTCAGGATCAAAAAGAGAAGTATGACATGTTCCTTGAAGTCATGAAGGATTTCAAGGCT
66 AGATGTTTCAGGATCAAAAAGAGAAGTATGACATGTTCCTTGAAGTCATGAAGGATTTCAAGGCT
49873223 CAAAGGTATACTGTGTTTGAAATGCCAAGTTCTGCCAATGGACGTTGAATTGTTGCTTTAAACTA
131 CAAAGGTATACTGTGTTTGAAATGCCAAGTTCTGCCAATGGACGTTGAATTGTTGCTTTAAACTA
49873288 CTAAATGCTTAATAAATCTTTTTTCTTTTGCAGGACTGACACAGCCGGTGTCATTGCCCGAGTTA
196 CTAAATGCTTAATAAATCTTTTTTCTTTTGCAGGACTGACACAGCCGGTGTCATTGCCCGAGTTA
49873353 AAGAATTATTCAAAGGGCATAACAACTTGATTTATGGATTTAATACCGAGGGGCAG
261 AAGAATTATTCAAAGGGCATAACAACTTGATTTATGGATTTAATACCGAGGGGCAG
*
49873409 AGGAGGAGGTATATCACAGAAACTGACTACCAATGATGCCTTAACATATCTAAAGGAAGTGAGGG
1 AGGAGGAGGGATATCACAGAAACTGACTACCAATGATGCCTTAACATATCTAAAGGAAGTGAGGG
49873474 AGATGTTTCAGGATCAAAAAGAGAAGTATGACATGTTCCTTGAAGTCATGAAGGATTTCAAGGCT
66 AGATGTTTCAGGATCAAAAAGAGAAGTATGACATGTTCCTTGAAGTCATGAAGGATTTCAAGGCT
49873539 CAAAGGTATACTGTGTTTGAAATGCCAAGTTCTGCCAATGGACGTTGAATTGTTGCTTTAAACTA
131 CAAAGGTATACTGTGTTTGAAATGCCAAGTTCTGCCAATGGACGTTGAATTGTTGCTTTAAACTA
49873604 CTAAATGCTTAATAAATCTTTTTTCTTTTGCAGGACTGACACAGCCGGTGTCATTGCCCGAGTTA
196 CTAAATGCTTAATAAATCTTTTTTCTTTTGCAGGACTGACACAGCCGGTGTCATTGCCCGAGTTA
49873669 AAGAATTATTCAAAGGGCATAACAACTTGATTTATGGATTTAATACC
261 AAGAATTATTCAAAGGGCATAACAACTTGATTTATGGATTTAATACC
49873716 TTCCTGCCAA
Statistics
Matches: 306, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
316 306 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (316 bp):
AGGAGGAGGGATATCACAGAAACTGACTACCAATGATGCCTTAACATATCTAAAGGAAGTGAGGG
AGATGTTTCAGGATCAAAAAGAGAAGTATGACATGTTCCTTGAAGTCATGAAGGATTTCAAGGCT
CAAAGGTATACTGTGTTTGAAATGCCAAGTTCTGCCAATGGACGTTGAATTGTTGCTTTAAACTA
CTAAATGCTTAATAAATCTTTTTTCTTTTGCAGGACTGACACAGCCGGTGTCATTGCCCGAGTTA
AAGAATTATTCAAAGGGCATAACAACTTGATTTATGGATTTAATACCGAGGGGCAG
Found at i:49884447 original size:19 final size:19
Alignment explanation
Indices: 49884423--49884516 Score: 125
Period size: 19 Copynumber: 4.8 Consensus size: 19
49884413 AATTTTTGAG
*
49884423 GATATGCAATCTTATATAT
1 GATATGCAATCTTAGATAT
*
49884442 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
49884461 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
* **
49884482 GATGTATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
49884501 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
49884517 AGATATGATT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
19 46 0.72
21 18 0.28
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:49884468 original size:40 final size:38
Alignment explanation
Indices: 49884423--49884516 Score: 125
Period size: 40 Copynumber: 2.4 Consensus size: 38
49884413 AATTTTTGAG
* *
49884423 GATATGCAATCTTATATATGATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATATGATATACAATCCTAGATAT
* * *
49884461 GATATATGCAATCTTAGATATGATGTATAATCTTAGATAT
1 G--ATATGCAATCTTAGATATGATATACAATCCTAGATAT
49884501 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
49884517 AGATATGATT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
38 16 0.33
40 33 0.67
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATACAATCCTAGATAT
Found at i:49884538 original size:23 final size:21
Alignment explanation
Indices: 49884423--49884543 Score: 96
Period size: 21 Copynumber: 6.0 Consensus size: 21
49884413 AATTTTTGAG
*
49884423 GATATGCAATCTT--ATATAT
1 GATATGCAATCTTAGAGATAT
* *
49884442 GATATGCAATCCTAGATATGAT
1 GATATGCAATCTTAGAGAT-AT
*
49884464 -ATATGCAATCTTAGATATGAT
1 GATATGCAATCTTAGAGAT-AT
49884485 G-TAT--AATCTT--AGATAT
1 GATATGCAATCTTAGAGATAT
49884501 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAG-AGATAT
* *
49884523 GATTTTGTAATCTTAGAGATA
1 GA-TATGCAATCTTAGAGATA
49884544 CCCTTTAATC
Statistics
Matches: 86, Mismatches: 5, Indels: 19
0.78 0.05 0.17
Matches are distributed among these distances:
16 3 0.03
17 6 0.07
19 24 0.28
21 27 0.31
22 15 0.17
23 11 0.13
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (21 bp):
GATATGCAATCTTAGAGATAT
Found at i:49892879 original size:41 final size:42
Alignment explanation
Indices: 49892815--49892907 Score: 116
Period size: 41 Copynumber: 2.2 Consensus size: 42
49892805 AAATGTTTTT
* * *
49892815 TAAAAGTCATGTTTTTAGCGGCGTTTGT-CAAAAAGCGCCGC
1 TAAAAGTCATCTTTATAGCGGCGTTTGTGCAAAAAGAGCCGC
* ** *
49892856 TAAAAGTCATCTTTATAGTGGCGTTTGTGGTATAAGAGCCGC
1 TAAAAGTCATCTTTATAGCGGCGTTTGTGCAAAAAGAGCCGC
49892898 TAAAAGTCAT
1 TAAAAGTCAT
49892908 GATCTTTATG
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 25 0.57
42 19 0.43
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (42 bp):
TAAAAGTCATCTTTATAGCGGCGTTTGTGCAAAAAGAGCCGC
Found at i:49893002 original size:3 final size:3
Alignment explanation
Indices: 49892994--49893029 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
49892984 CAATATGTAA
*
49892994 AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
49893030 TTAATTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:49895789 original size:46 final size:46
Alignment explanation
Indices: 49895722--49895828 Score: 178
Period size: 46 Copynumber: 2.3 Consensus size: 46
49895712 CATGGCAAAG
* *
49895722 TGTGAAACGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGT
*
49895768 TGTGAAAAGTAGGTATGGTATTTCGGTAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGT
*
49895814 TATGAAAAGTAGGTA
1 TGTGAAAAGTAGGTA
49895829 CATACTGAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 57 1.00
ACGTcount: A:0.37, C:0.08, G:0.26, T:0.28
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGT
Found at i:49895832 original size:25 final size:25
Alignment explanation
Indices: 49895804--49895853 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
49895794 TAAAGAAAAC
49895804 CATACTGAGTTATGAAAAGTAGGTA
1 CATACTGAGTTATGAAAAGTAGGTA
*
49895829 CATACTGAGTTGTGAAAAGTAGGTA
1 CATACTGAGTTATGAAAAGTAGGTA
49895854 TGGTGTTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.26, T:0.28
Consensus pattern (25 bp):
CATACTGAGTTATGAAAAGTAGGTA
Found at i:49895882 original size:40 final size:40
Alignment explanation
Indices: 49895838--49895913 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
49895828 ACATACTGAG
* *
49895838 TTGTGAAAAGTAGGTATGGTGTTTTGGTGAAGAAAACCAT
1 TTGTGAAAAGTAGGTATGGTATTTTCGTGAAGAAAACCAT
49895878 TTGTGAAAAGTAGGTATGGTATTTTCGTGAAGAAAA
1 TTGTGAAAAGTAGGTATGGTATTTTCGTGAAGAAAA
49895914 TCATACTGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.33
Consensus pattern (40 bp):
TTGTGAAAAGTAGGTATGGTATTTTCGTGAAGAAAACCAT
Found at i:49895922 original size:111 final size:114
Alignment explanation
Indices: 49895722--49895927 Score: 294
Period size: 111 Copynumber: 1.8 Consensus size: 114
49895712 CATGGCAAAG
*
49895722 TGTGAAACGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGTTGTGAAAAGTAGGTATGGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCA-ACT--GTTGTGAAAAGTAGGTATGGT
49895787 ATTTCGGTAAAGAAAACCATACTGAGTTATGAAAAGTAGGTACATACTGAGT
63 ATTTCGGTAAAGAAAACCATACTGAGTTATGAAAAGTAGGTACATACTGAGT
* **
49895839 TGTGAAAAGTAGGTATGGTGTTTTGGTGAAGAAAACC-A-T-TTGTGAAAAGTAGGTATGGTATT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCAACTGTTGTGAAAAGTAGGTATGGTA-T
* *
49895901 TTC-GTGAAGAAAATCATACTGAGTTAT
65 TTCGGTAAAGAAAACCATACTGAGTTAT
49895928 AGCAATGTGA
Statistics
Matches: 82, Mismatches: 6, Indels: 8
0.85 0.06 0.08
Matches are distributed among these distances:
111 43 0.52
112 4 0.05
114 1 0.01
115 1 0.01
117 33 0.40
ACGTcount: A:0.35, C:0.08, G:0.26, T:0.31
Consensus pattern (114 bp):
TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCAACTGTTGTGAAAAGTAGGTATGGTATT
TCGGTAAAGAAAACCATACTGAGTTATGAAAAGTAGGTACATACTGAGT
Found at i:49902253 original size:41 final size:42
Alignment explanation
Indices: 49902208--49902287 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
49902198 TTTTGGTTTA
* * *
49902208 AGGTTTTTAGGG-TTAAGATTTTGTTATAATAATTTAGGCTT
1 AGGTTTGTAGGGTTTAAGATTTTGCTAAAATAATTTAGGCTT
*
49902249 AGGTTTGTAGGGTTTAAGGTTTTGCTAAAATAATTTAGG
1 AGGTTTGTAGGGTTTAAGATTTTGCTAAAATAATTTAGG
49902288 GTTCTAGGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
41 11 0.32
42 23 0.68
ACGTcount: A:0.28, C:0.03, G:0.25, T:0.45
Consensus pattern (42 bp):
AGGTTTGTAGGGTTTAAGATTTTGCTAAAATAATTTAGGCTT
Found at i:49902432 original size:33 final size:32
Alignment explanation
Indices: 49902333--49902444 Score: 152
Period size: 33 Copynumber: 3.4 Consensus size: 32
49902323 GATTTAGTGT
*
49902333 TTTTTTAAAAAAATAATTAAATTAGGGTTTAGG
1 TTTTTTAAAAAATTAATTAAATTAGGGTTTA-G
** *
49902366 GGTTTTAAATAAATAAATTAAATTAGGGTTTAG
1 TTTTTTAAA-AAATTAATTAAATTAGGGTTTAG
49902399 TTTTTTAAGAAAATTAATTAAATTAGGGTTTAG
1 TTTTTTAA-AAAATTAATTAAATTAGGGTTTAG
*
49902432 TTTTTTTAAAAAT
1 TTTTTTAAAAAAT
49902445 AATATTGTGT
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
32 5 0.07
33 43 0.62
34 21 0.30
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (32 bp):
TTTTTTAAAAAATTAATTAAATTAGGGTTTAG
Found at i:49902661 original size:125 final size:126
Alignment explanation
Indices: 49902503--49902770 Score: 412
Period size: 125 Copynumber: 2.1 Consensus size: 126
49902493 GGATTTTATT
* * * *
49902503 TTTTTCTATAATAGTTCCTGAAAAAATAATTTTGAGAATACGGTTCTGAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
* *
49902568 ACACTTCAAGCAAGATGCACTGTCAACAAAATTACTG-AAAAAGCTCCCACGTCGACGCTC
66 ACACTTCAAGCAAGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACATCAACGCTC
49902628 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
* * * * * * *
49902693 ACGCTTTAAGCAGGATGCACTGTTAGCAAAATTATTGAAAAAAGCTCCCACATCAACGTTC
66 ACACTTCAAGCAAGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACATCAACGCTC
49902754 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
49902771 ATGTTTGACC
Statistics
Matches: 129, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
125 92 0.71
126 37 0.29
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
ACACTTCAAGCAAGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACATCAACGCTC
Found at i:49905882 original size:24 final size:23
Alignment explanation
Indices: 49905826--49905882 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 23
49905816 AAGAACTTCT
49905826 ATTTTATTGAAAATATAAAAATA
1 ATTTTATTGAAAATATAAAAATA
49905849 ATTTACTATT-AAAATATTAAAAATA
1 ATTT--TATTGAAAATA-TAAAAATA
49905874 ACTTTTATT
1 A-TTTTATT
49905883 TTATTAAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
23 4 0.13
24 10 0.33
25 13 0.43
26 3 0.10
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (23 bp):
ATTTTATTGAAAATATAAAAATA
Found at i:49906306 original size:18 final size:18
Alignment explanation
Indices: 49906283--49906320 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
49906273 GGAAAAAAAA
*
49906283 ACATATAAGGGTTAGGAT
1 ACATATAAGGGCTAGGAT
49906301 ACATATAAGGGCTAGGAT
1 ACATATAAGGGCTAGGAT
49906319 AC
1 AC
49906321 GCAGCTGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (18 bp):
ACATATAAGGGCTAGGAT
Found at i:49908106 original size:30 final size:30
Alignment explanation
Indices: 49908070--49908133 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
49908060 ATTAATTAAA
49908070 GAGAGCTTTGAGAAATTTAAGGAGAAATTT
1 GAGAGCTTTGAGAAATTTAAGGAGAAATTT
*
49908100 GAGAGCTTTGAGAAATTTAGGGAGAAATTT
1 GAGAGCTTTGAGAAATTTAAGGAGAAATTT
49908130 GAGA
1 GAGA
49908134 ATTTTTTGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.39, C:0.03, G:0.30, T:0.28
Consensus pattern (30 bp):
GAGAGCTTTGAGAAATTTAAGGAGAAATTT
Found at i:49911677 original size:63 final size:60
Alignment explanation
Indices: 49911610--49911729 Score: 161
Period size: 63 Copynumber: 1.9 Consensus size: 60
49911600 AATTTATTTT
* *
49911610 AATATAAATATTATGTTATTAAC-TTTTAATGATTATTATTTAAAAATAAATATAGTTTTTCTA
1 AATATAAATATTATGTTA-T-ACGTTTTAATGACTA-TATTT-AAAATAAATATAATTTTTCTA
* *
49911673 AATATAAATATTATTTTATACGTTTTAATGACTATATTTAACATAAATATAATTTTT
1 AATATAAATATTATGTTATACGTTTTAATGACTATATTTAAAATAAATATAATTTTT
49911730 ATATATATTT
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
60 16 0.31
61 7 0.13
62 12 0.23
63 17 0.33
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (60 bp):
AATATAAATATTATGTTATACGTTTTAATGACTATATTTAAAATAAATATAATTTTTCTA
Found at i:49911689 original size:21 final size:20
Alignment explanation
Indices: 49911596--49911689 Score: 64
Period size: 21 Copynumber: 4.5 Consensus size: 20
49911586 ATATTTATTC
*
49911596 TATTAATTTATTTTAATATAAA
1 TATT-ATTT-TTTAAATATAAA
* * * *
49911618 TATTATGTTATTAACTTTTAA
1 TATTAT-TTTTTAAATATAAA
* *
49911639 TGATTATTATTTAAAAATAAA
1 T-ATTATTTTTTAAATATAAA
49911660 TA-TAGTTTTTCTAAATATAAA
1 TATTA-TTTTT-TAAATATAAA
49911681 TATTATTTT
1 TATTATTTT
49911690 ATACGTTTTA
Statistics
Matches: 54, Mismatches: 13, Indels: 11
0.69 0.17 0.14
Matches are distributed among these distances:
19 2 0.04
20 5 0.09
21 34 0.63
22 13 0.24
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.53
Consensus pattern (20 bp):
TATTATTTTTTAAATATAAA
Found at i:49911754 original size:17 final size:17
Alignment explanation
Indices: 49911705--49911756 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
49911695 TTTTAATGAC
* *
49911705 TATATTTAACATAAATA
1 TATATTTAACATATATT
* *
49911722 TA-ATTTTTATATATATT
1 TATA-TTTAACATATATT
49911739 TATATTTAACATATATT
1 TATATTTAACATATATT
49911756 T
1 T
49911757 TAAAATTATA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
16 1 0.04
17 25 0.93
18 1 0.04
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (17 bp):
TATATTTAACATATATT
Found at i:49915399 original size:18 final size:18
Alignment explanation
Indices: 49915373--49915407 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
49915363 CTCACAGAAT
* *
49915373 TTGAGGGCATCATTTGAG
1 TTGAAGGCATCACTTGAG
49915391 TTGAAGGCATCACTTGA
1 TTGAAGGCATCACTTGA
49915408 TTAGTAAAGT
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:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (18 bp):
TTGAAGGCATCACTTGAG
Found at i:49920807 original size:22 final size:23
Alignment explanation
Indices: 49920776--49920851 Score: 95
Period size: 22 Copynumber: 3.4 Consensus size: 23
49920766 AACTAATCAT
*
49920776 CTCTCAAATTTCCTCTCAATTTC
1 CTCTCAAATTTCCTCTAAATTTC
*
49920799 CTCT-AAATTTCCTCTAAATTTG
1 CTCTCAAATTTCCTCTAAATTTC
*
49920821 CTCTCAAA-TTCCTTCCAAATTT-
1 CTCTCAAATTTCC-TCTAAATTTC
49920843 CTCTCAAAT
1 CTCTCAAAT
49920852 CCATATTTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
22 32 0.68
23 15 0.32
ACGTcount: A:0.26, C:0.30, G:0.01, T:0.42
Consensus pattern (23 bp):
CTCTCAAATTTCCTCTAAATTTC
Found at i:49920818 original size:33 final size:34
Alignment explanation
Indices: 49920775--49920851 Score: 104
Period size: 33 Copynumber: 2.3 Consensus size: 34
49920765 AAACTAATCA
* *
49920775 TCTCTCAAATTTCCTCTCAATTTCC-TCTAAATT
1 TCTCTCAAATTTCCTCTCAAATTCCTTCCAAATT
*
49920808 TC-CTCTAAATTTGCTCTCAAATTCCTTCCAAATT
1 TCTCTC-AAATTTCCTCTCAAATTCCTTCCAAATT
49920842 TCTCTCAAAT
1 TCTCTCAAAT
49920852 CCATATTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
32 3 0.08
33 19 0.50
34 13 0.34
35 3 0.08
ACGTcount: A:0.26, C:0.30, G:0.01, T:0.43
Consensus pattern (34 bp):
TCTCTCAAATTTCCTCTCAAATTCCTTCCAAATT
Done.