Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 161 of 171
Found at i:47844296 original size:24 final size:23
Alignment explanation
Indices: 47844252--47844297 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
47844242 GTAGAGATTC
***
47844252 CTTTCTTTTTATTCTTTCTTTTT
1 CTTTCTTTTTATTCCAACTTTTT
47844275 CTTTCGTTTTTATTCCAACTTTT
1 CTTTC-TTTTTATTCCAACTTTT
47844298 CATTCTCCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.09, C:0.20, G:0.02, T:0.70
Consensus pattern (23 bp):
CTTTCTTTTTATTCCAACTTTTT
Found at i:47845388 original size:6 final size:6
Alignment explanation
Indices: 47845379--47845463 Score: 76
Period size: 6 Copynumber: 15.0 Consensus size: 6
47845369 TTAATATTAT
*
47845379 TTTAAA TTT-AA -TTAAA TTTAAA TTTAAA -GTAAA TTTAAA TTTAAGA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA-A
* *
47845425 --TAAA TTTAAC TTTAAA -ATAAA TTTAAAA TTT-AA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA
47845464 ATCAAAAGCT
Statistics
Matches: 64, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
4 3 0.05
5 20 0.31
6 34 0.53
7 7 0.11
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (6 bp):
TTTAAA
Found at i:47845397 original size:17 final size:16
Alignment explanation
Indices: 47845379--47845457 Score: 104
Period size: 17 Copynumber: 4.7 Consensus size: 16
47845369 TTAATATTAT
*
47845379 TTTAAATTTAATTAAA
1 TTTAAATTTAAATAAA
47845395 TTTAAATTTAAAGTAAA
1 TTTAAATTTAAA-TAAA
47845412 TTTAAATTTAAGATAAA
1 TTTAAATTTAA-ATAAA
*
47845429 TTTAACTTTAAAATAAA
1 TTTAAATTT-AAATAAA
47845446 TTTAAAATTTAA
1 TTT-AAATTTAA
47845458 TTTAAAATCA
Statistics
Matches: 56, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
16 11 0.20
17 37 0.66
18 8 0.14
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:47845402 original size:11 final size:11
Alignment explanation
Indices: 47845379--47845463 Score: 64
Period size: 11 Copynumber: 7.5 Consensus size: 11
47845369 TTAATATTAT
*
47845379 TTTAAATTTAA
1 TTTAAATTAAA
47845390 -TTAAATTTAAA
1 TTTAAA-TTAAA
*
47845401 TTTAAAGTAAA
1 TTTAAATTAAA
*
47845412 TTTAAATTTAA
1 TTTAAATTAAA
** *
47845423 GATAAATTTAAC
1 TTTAAA-TTAAA
*
47845435 TTTAAAATAAA
1 TTTAAATTAAA
*
47845446 TTTAAAATTTAA
1 TTT-AAATTAAA
47845458 TTTAAA
1 TTTAAA
47845464 ATCAAAAGCT
Statistics
Matches: 56, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
10 5 0.09
11 30 0.54
12 21 0.38
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (11 bp):
TTTAAATTAAA
Found at i:47845870 original size:92 final size:92
Alignment explanation
Indices: 47845720--47846724 Score: 1746
Period size: 92 Copynumber: 11.0 Consensus size: 92
47845710 TGATGTCGAG
* * * *
47845720 GCTTCATCTTGCTCTTACTACAACTTCAGAAAGATAAAGACTTGCTATCCAACTTTACTACAACT
1 GCTTCATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
47845785 TCAAGAGGATAGGAAATGATGTTTGAT
66 TCAAGAGGATAGGAAATGATGTTTGAT
*
47845812 GCTTCATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAGCTTTACTACAACT
1 GCTTCATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
*
47845877 TCAAGAGGATAGGGAATGATGTTTGAT
66 TCAAGAGGATAGGAAATGATGTTTGAT
* *
47845904 GCTTCATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGTCTTACTATCCAACTTTACTACAACT
1 GCTTCATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
47845969 TCAAGAGGATAGGAAATGATGTTTGAT
66 TCAAGAGGATAGGAAATGATGTTTGAT
* * *
47845996 GCTTCATGTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAGCTTTACTATAACT
1 GCTTCATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
47846061 TCAA-AGGATAGGAAATGATG-TTGAT
66 TCAAGAGGATAGGAAATGATGTTTGAT
*
47846086 GCTTCATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGTCTTGCTATCCAACTTTACTACAACT
1 GCTTCATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
47846151 TCAAGAGGATAGGAAATGATGTTTGAT
66 TCAAGAGGATAGGAAATGATGTTTGAT
* *
47846178 GCTTCATGTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAGCTTTACTACAACT
1 GCTTCATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
47846243 TCAAGAGGATAGGAAATGATG-TTGAT
66 TCAAGAGGATAGGAAATGATGTTTGAT
47846269 GCTTCATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
1 GCTTCATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
47846334 TCAAGAGGATAGGAAATGATGTTTGAT
66 TCAAGAGGATAGGAAATGATGTTTGAT
* * *
47846361 GCTTCACCTAACTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTATTACAACT
1 GCTTCATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
47846426 TCAAGAGGATAGGAAATGATGTTTGAT
66 TCAAGAGGATAGGAAATGATGTTTGAT
*
47846453 GCTTCATCTAGCTCTTACTTCAATTTCAAAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
1 GCTTCATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
* *
47846518 TGAAGATGATAGGAAATGATGTTTGAT
66 TCAAGAGGATAGGAAATGATGTTTGAT
* * * *
47846545 GCTTCACCTAACTCTTACTTCAATTTTAGAGAGATAAATACTTGCTATCCAACTTTACTACAACT
1 GCTTCATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
47846610 TCAAGAGGATAGGAAATGATGTTTGAT
66 TCAAGAGGATAGGAAATGATGTTTGAT
* *
47846637 GGTTCATCTAACTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
1 GCTTCATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
*
47846702 TCAAAAGGATAGGAAATGATGTT
66 TCAAGAGGATAGGAAATGATGTT
47846725 ATTTTGATCT
Statistics
Matches: 865, Mismatches: 45, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
90 70 0.08
91 121 0.14
92 674 0.78
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (92 bp):
GCTTCATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
TCAAGAGGATAGGAAATGATGTTTGAT
Found at i:47863481 original size:15 final size:15
Alignment explanation
Indices: 47863461--47863491 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
47863451 GTTTCTCATG
*
47863461 TGTAGAGCTTGCAAC
1 TGTAGAGCTCGCAAC
47863476 TGTAGAGCTCGCAAC
1 TGTAGAGCTCGCAAC
47863491 T
1 T
47863492 TCAAGTGAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (15 bp):
TGTAGAGCTCGCAAC
Found at i:47872205 original size:19 final size:20
Alignment explanation
Indices: 47872170--47872211 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
47872160 TTCATACTAT
*
47872170 TTTTTGATTTTTTTAAA-TA
1 TTTTTGATTTTTCTAAATTA
47872189 TTTTT-ATTATTTCTAAATTA
1 TTTTTGATT-TTTCTAAATTA
47872209 TTT
1 TTT
47872212 ATAGATATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 3 0.15
19 12 0.60
20 5 0.25
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTTGATTTTTCTAAATTA
Found at i:47874034 original size:18 final size:20
Alignment explanation
Indices: 47874011--47874051 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
47874001 TCATATTATT
*
47874011 TTTTTATT-TTTTTAAA-TA
1 TTTTTATTATTTCTAAACTA
47874029 TTTTTATTATTTCTAAACTA
1 TTTTTATTATTTCTAAACTA
47874049 TTT
1 TTT
47874052 ATTGATATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 7 0.35
20 5 0.25
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTATTATTTCTAAACTA
Found at i:47875744 original size:6 final size:6
Alignment explanation
Indices: 47875733--47875758 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
47875723 ATTCATTCTG
47875733 TAATTA TAATTA TAATTA TAATTA TA
1 TAATTA TAATTA TAATTA TAATTA TA
47875759 GTATCTCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAATTA
Found at i:47883854 original size:23 final size:23
Alignment explanation
Indices: 47883828--47883885 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 23
47883818 CTAACGTGAC
47883828 ATCCAGTCAGCAGC-TTCTAGAAG
1 ATCCAGTCAGCAGCTTTC-AGAAG
47883851 ATCCAGTCAGCAGCTTTCAGAAG
1 ATCCAGTCAGCAGCTTTCAGAAG
* *
47883874 GTCTAGTCAGCA
1 ATCCAGTCAGCA
47883886 AGGATGGACG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
23 29 0.91
24 3 0.09
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.22
Consensus pattern (23 bp):
ATCCAGTCAGCAGCTTTCAGAAG
Found at i:47887960 original size:22 final size:21
Alignment explanation
Indices: 47887916--47887961 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
47887906 TCATCAATAA
**
47887916 TAATTATTTTTAAAAAATTAT
1 TAATTATTTTTAAAAAAGAAT
*
47887937 TAATTCATTTTTAAAATAGAAT
1 TAATT-ATTTTTAAAAAAGAAT
47887959 TAA
1 TAA
47887962 ATCAATATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
TAATTATTTTTAAAAAAGAAT
Found at i:47912621 original size:84 final size:84
Alignment explanation
Indices: 47912366--47912723 Score: 284
Period size: 84 Copynumber: 4.3 Consensus size: 84
47912356 AATGAAAATC
** ** * * *
47912366 AAATTTGTTGAACAACGAAAAT-AATCTCGAAATAGAATTATTCAATTTTAATTCTTG-TTTGAA
1 AAATTTGTTGAACGGCGGGAATAAATCTCAAAACAGAATTATTC-A-CTTAATTCTTGTTTTGAA
* * *
47912429 AACAAAA-TCAAAATCA-AATC
64 AAAAAAATTAAAAAT-AGAATA
* * ** ** * * * *
47912449 AAATCTGTTGAAAGATGGGAATAAATCTTGAAACAAAAATATT--TTTAATTCTTG-TTTGCAAA
1 AAATTTGTTGAACGGCGGGAATAAATCTCAAAACAGAATTATTCACTTAATTCTTGTTTTGAAAA
* *
47912511 CAAAATAAAAAATAGAATA
66 AAAAATTAAAAATAGAATA
*
47912530 AAATTTGTTGAACGGCGGGAATAAATCTCAAAACAGATTTATTCAACTT-ATTCTTGTTTTGAAA
1 AAATTTGTTGAACGGCGGGAATAAATCTCAAAACAGAATTATTC-ACTTAATTCTTGTTTTGAAA
* *
47912594 ATAAAATTAAAAATAAAATA
65 AAAAAATTAAAAATAGAATA
* * * * * *
47912614 AAATTTGTTGAACAGTGAGAATAAATCTCGAAATAGAATTATTCACTTAATTCTTGTTTGGAAAA
1 AAATTTGTTGAACGGCGGGAATAAATCTCAAAACAGAATTATTCACTTAATTCTTGTTTTGAAAA
* * **
47912679 AAAAAATCAAAATAGAAGC
66 AAAAATTAAAAATAGAATA
* *
47912698 AAA-CTGTTAAACGGCGGGAATAAATC
1 AAATTTGTTGAACGGCGGGAATAAATC
47912724 CCGAAATAAA
Statistics
Matches: 221, Mismatches: 46, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
80 24 0.11
81 42 0.19
83 45 0.20
84 110 0.50
ACGTcount: A:0.47, C:0.10, G:0.13, T:0.31
Consensus pattern (84 bp):
AAATTTGTTGAACGGCGGGAATAAATCTCAAAACAGAATTATTCACTTAATTCTTGTTTTGAAAA
AAAAATTAAAAATAGAATA
Found at i:47912992 original size:50 final size:49
Alignment explanation
Indices: 47912928--47913037 Score: 116
Period size: 50 Copynumber: 2.2 Consensus size: 49
47912918 ACAAAATAAT
* * *
47912928 TTAAACAAACATTTATGCTTATGTAAAA-A-CACATCTTAAACAAAAACAAA
1 TTAAATAAACATTTATACTTATGTAAAACATCAAATC-T-AA-AAAAACAAA
* * *
47912978 TTAAATAAATATTTATATTTATTTAAAACATCAAATCTAAAAAAACAAA
1 TTAAATAAACATTTATACTTATGTAAAACATCAAATCTAAAAAAACAAA
*
47913027 TTAATTAAACA
1 TTAAATAAACA
47913038 AAATTTGAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
49 18 0.36
50 25 0.50
51 2 0.04
52 5 0.10
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (49 bp):
TTAAATAAACATTTATACTTATGTAAAACATCAAATCTAAAAAAACAAA
Found at i:47917009 original size:26 final size:26
Alignment explanation
Indices: 47916973--47917025 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
47916963 AAGGGTGAAG
47916973 ATTGGTTATTGGTTTCTATGACCGAA
1 ATTGGTTATTGGTTTCTATGACCGAA
47916999 ATTGGTTATTGGTTTCTATGACCGAA
1 ATTGGTTATTGGTTTCTATGACCGAA
47917025 A
1 A
47917026 GGTCTAAGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.25, C:0.11, G:0.23, T:0.42
Consensus pattern (26 bp):
ATTGGTTATTGGTTTCTATGACCGAA
Found at i:47919975 original size:59 final size:59
Alignment explanation
Indices: 47919893--47920437 Score: 776
Period size: 59 Copynumber: 9.2 Consensus size: 59
47919883 ACTCGCGGGA
* * *
47919893 AAAATGGTAATTTTCGGTGAAATCGGGGTCAAAAAGGGAATTTTGGAAAATTT-GAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTTAG-GGGT
* * * ** *
47919952 AAAATAGTAACTTTTGGTGAAATCGAGGTTGAAAATGGAATTTTGGAAAG-TTCGAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTTAG-GGGT
* * *
47920011 AAAATGGTAAATTTTTGGTGAAATCGAGGTCAAAAAATGGAATTTTAGAAAGTTCAGGGGT
1 AAAATGGT-AATTTTTGGTGAAATCGGGGTC-AAAAATGGAATTTTGGAAAGTTTAGGGGT
*
47920072 AAAATGGTAATTTTTTGGTGAAATCGGGGT-TAAAATGGAATTTTGGAAAGTTTAGGGGT
1 AAAATGGTAA-TTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGT
* * *
47920131 AGAATGGTAATTTTTGGTGAAATTGAGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGT
*
47920190 AAAATGGTAATTTTTGGTGAAATCGGGGTC-AAAATGGAATTTTGGAAAGTTTAAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGT
* ** * *
47920248 AAAATGGTAATTTTTGGTAAAATCAAGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGT
* * *
47920307 AAAATGGTAATTTTTGGTGAAATTGGGGT-TAAAATAGAATTTTGGAAAGTTTAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGT
*
47920365 AAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTTAGAGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGT
47920424 AAAATGGTAATTTT
1 AAAATGGTAATTTT
47920438 CAAACAGTCC
Statistics
Matches: 434, Mismatches: 44, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
58 126 0.29
59 236 0.54
60 22 0.05
61 48 0.11
62 2 0.00
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.33
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGT
Found at i:47920242 original size:117 final size:117
Alignment explanation
Indices: 47919893--47920437 Score: 824
Period size: 117 Copynumber: 4.6 Consensus size: 117
47919883 ACTCGCGGGA
* * * *
47919893 AAAATGGTAATTTTCGGTGAAATCGGGGTCAAAAAGGGAATTTTGGAAAATTT-GAGGGTAAAAT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTCAAAAATGGAATTTTGGAAAGTTTAG-GGGTAAAAT
* * * *
47919957 AGTAACTTTTGGTGAAATCGAGGTTGAAAATGGAATTTTGGAAAG-TTCGAGGGT
65 GGTAATTTTTGGTGAAATCGGGGTT-AAAATGGAATTTTGGAAAGTTTAG-GGGT
* *
47920011 AAAATGGTAAATTTTTGGTGAAATCGAGGTCAAAAAATGGAATTTTAGAAAGTTCAGGGGTAAAA
1 AAAATGGT-AATTTTTGGTGAAATCGAGGTC-AAAAATGGAATTTTGGAAAGTTTAGGGGTAAAA
47920076 TGGTAATTTTTTGGTGAAATCGGGGTTAAAATGGAATTTTGGAAAGTTTAGGGGT
64 TGGTAA-TTTTTGGTGAAATCGGGGTTAAAATGGAATTTTGGAAAGTTTAGGGGT
* *
47920131 AGAATGGTAATTTTTGGTGAAATTGAGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATG
1 AAAATGGTAATTTTTGGTGAAATCGAGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATG
* *
47920196 GTAATTTTTGGTGAAATCGGGGTCAAAATGGAATTTTGGAAAGTTTAAGGGT
66 GTAATTTTTGGTGAAATCGGGGTTAAAATGGAATTTTGGAAAGTTTAGGGGT
* * * *
47920248 AAAATGGTAATTTTTGGTAAAATCAAGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAAAATG
1 AAAATGGTAATTTTTGGTGAAATCGAGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATG
* *
47920313 GTAATTTTTGGTGAAATTGGGGTTAAAATAGAATTTTGGAAAGTTTAGGGGT
66 GTAATTTTTGGTGAAATCGGGGTTAAAATGGAATTTTGGAAAGTTTAGGGGT
* *
47920365 AAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTTAGAGGTAAAATG
1 AAAATGGTAATTTTTGGTGAAATCGAGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATG
47920430 GTAATTTT
66 GTAATTTT
47920438 CAAACAGTCC
Statistics
Matches: 390, Mismatches: 32, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
117 220 0.56
118 45 0.12
119 41 0.11
120 62 0.16
121 22 0.06
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.33
Consensus pattern (117 bp):
AAAATGGTAATTTTTGGTGAAATCGAGGTCAAAAATGGAATTTTGGAAAGTTTAGGGGTAAAATG
GTAATTTTTGGTGAAATCGGGGTTAAAATGGAATTTTGGAAAGTTTAGGGGT
Found at i:47921081 original size:11 final size:11
Alignment explanation
Indices: 47921065--47921094 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
47921055 CCTACACGCT
*
47921065 CCGTCCGACCA
1 CCGTCCAACCA
47921076 CCGTCCAACCA
1 CCGTCCAACCA
47921087 CCGTCCAA
1 CCGTCCAA
47921095 GGTAAGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.23, C:0.53, G:0.13, T:0.10
Consensus pattern (11 bp):
CCGTCCAACCA
Found at i:47922302 original size:11 final size:11
Alignment explanation
Indices: 47922286--47922338 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
47922276 TGATTAAACT
47922286 TAAATTTAAAA
1 TAAATTTAAAA
47922297 TAAATTT-AAA
1 TAAATTTAAAA
* * **
47922307 T-AAGTGAATT
1 TAAATTTAAAA
47922317 TAAATTTAAAA
1 TAAATTTAAAA
47922328 TAAATTTAAAA
1 TAAATTTAAAA
47922339 CCTATTTAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
9 3 0.09
10 6 0.19
11 23 0.72
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:47929408 original size:28 final size:28
Alignment explanation
Indices: 47929350--47929408 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
47929340 ACATTGACCA
* *
47929350 ATTATTTAACTAGTAGACTAAGTATAAG
1 ATTATTTAACTAATAGAATAAGTATAAG
47929378 ATTATTTAACTACATA-AATAA-TATAATG
1 ATTATTTAACTA-ATAGAATAAGTATAA-G
47929406 ATT
1 ATT
47929409 TTGTCTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.19
28 20 0.74
29 2 0.07
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (28 bp):
ATTATTTAACTAATAGAATAAGTATAAG
Found at i:47930399 original size:16 final size:17
Alignment explanation
Indices: 47930365--47930400 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
47930355 CGCATAAAAT
*
47930365 AATAAACATATTTTAAA
1 AATAAACATATTATAAA
47930382 AATAAACAT-TTATAAA
1 AATAAACATATTATAAA
47930398 AAT
1 AAT
47930401 TCAATTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (17 bp):
AATAAACATATTATAAA
Found at i:47934347 original size:49 final size:49
Alignment explanation
Indices: 47934304--47934427 Score: 176
Period size: 49 Copynumber: 2.5 Consensus size: 49
47934294 CTATTTTATT
47934304 TTAATTAGAATAAGGTATTTCAACCTTACTACGTTACTCCTATTAGTTG
1 TTAATTAGAATAAGGTATTTCAACCTTACTACGTTACTCCTATTAGTTG
* * **
47934353 TTGATTGGAATAAGGTATTTCAACCTTACTACGTTACTTTTATTAGTTG
1 TTAATTAGAATAAGGTATTTCAACCTTACTACGTTACTCCTATTAGTTG
* * * *
47934402 TTGATTGGAATAAAGTTTTTCAACCT
1 TTAATTAGAATAAGGTATTTCAACCT
47934428 ATAAATAGGC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 69 1.00
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.43
Consensus pattern (49 bp):
TTAATTAGAATAAGGTATTTCAACCTTACTACGTTACTCCTATTAGTTG
Found at i:47936239 original size:15 final size:15
Alignment explanation
Indices: 47936219--47936248 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
47936209 TTTTTTCAGA
47936219 AAAGTTTAGGCATTC
1 AAAGTTTAGGCATTC
47936234 AAAGTTTAGGCATTC
1 AAAGTTTAGGCATTC
47936249 TTTCTGAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (15 bp):
AAAGTTTAGGCATTC
Found at i:47939690 original size:23 final size:23
Alignment explanation
Indices: 47939655--47939722 Score: 118
Period size: 23 Copynumber: 3.0 Consensus size: 23
47939645 AGTGTTGGGG
47939655 AAATAGTAAGCACACACAGTGCA
1 AAATAGTAAGCACACACAGTGCA
* *
47939678 AATTAGTAGGCACACACAGTGCA
1 AAATAGTAAGCACACACAGTGCA
47939701 AAATAGTAAGCACACACAGTGC
1 AAATAGTAAGCACACACAGTGC
47939723 TGAACAGTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.44, C:0.22, G:0.19, T:0.15
Consensus pattern (23 bp):
AAATAGTAAGCACACACAGTGCA
Found at i:47942081 original size:33 final size:33
Alignment explanation
Indices: 47941879--47942087 Score: 125
Period size: 33 Copynumber: 6.2 Consensus size: 33
47941869 TATCGGTTAT
* ** *
47941879 GTCTTAACATCAGAATGCCATATTCTAACTATG
1 GTCTTATCATCAGAATGCCATAGCCCAACTATG
* * * *
47941912 GTCTTATCATCGGTATGCTATAGCCCAACTATA
1 GTCTTATCATCAGAATGCCATAGCCCAACTATG
* * *
47941945 GTCTTATTA-CTAGAATGCCATAGCTCAGCTATG
1 GTCTTATCATC-AGAATGCCATAGCCCAACTATG
* * * * * * *
47941978 GTCTTACATATATATATACACTGCCATGGTCCAACCACG
1 GTCTT--AT-CAT-CAGA-A-TGCCATAGCCCAACTATG
* * * *
47942017 GTCTTA-CGTCAGAATGTCATGGCCCAGCTATG
1 GTCTTATCATCAGAATGCCATAGCCCAACTATG
*
47942049 GTCTTATCATCATAATGCCATAGCCCAACTATG
1 GTCTTATCATCAGAATGCCATAGCCCAACTATG
*
47942082 GCCTTA
1 GTCTTA
47942088 CATATATATA
Statistics
Matches: 129, Mismatches: 38, Indels: 18
0.70 0.21 0.10
Matches are distributed among these distances:
32 20 0.16
33 81 0.63
34 2 0.02
35 3 0.02
36 2 0.02
37 3 0.02
38 1 0.01
39 17 0.13
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (33 bp):
GTCTTATCATCAGAATGCCATAGCCCAACTATG
Found at i:47948376 original size:18 final size:18
Alignment explanation
Indices: 47948318--47948376 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
47948308 AGAAAGATTA
*
47948318 AGTTTAAAAAATGAATTTG
1 AGTTTAAAATATGAA-TTG
* * *
47948337 AG--TAAAATATTAAGTC
1 AGTTTAAAATATGAATTG
*
47948353 AATTTAAAATATGAATTG
1 AGTTTAAAATATGAATTG
47948371 AGTTTA
1 AGTTTA
47948377 GGTTTAAATA
Statistics
Matches: 29, Mismatches: 9, Indels: 5
0.67 0.21 0.12
Matches are distributed among these distances:
16 2 0.07
17 9 0.31
18 16 0.55
19 2 0.07
ACGTcount: A:0.47, C:0.02, G:0.14, T:0.37
Consensus pattern (18 bp):
AGTTTAAAATATGAATTG
Found at i:47948469 original size:16 final size:16
Alignment explanation
Indices: 47948429--47948469 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
47948419 TTTATAAATT
47948429 TATAATATTTTATATTA
1 TATAAT-TTTTATATTA
*
47948446 TATTATTTTTATATTA
1 TATAATTTTTATATTA
*
47948462 TGTAATTT
1 TATAATTT
47948470 ATAATATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
TATAATTTTTATATTA
Found at i:47948552 original size:15 final size:16
Alignment explanation
Indices: 47948524--47948554 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
47948514 TGTTTATATA
47948524 AAAAAATTTAATAAAT
1 AAAAAATTTAATAAAT
47948540 AAAAAATTT-ATAAAT
1 AAAAAATTTAATAAAT
47948555 TTATTAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAAAAATTTAATAAAT
Found at i:47949007 original size:2 final size:2
Alignment explanation
Indices: 47949000--47949031 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
47948990 TGCATTTAGA
47949000 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47949032 CATTTTAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47958911 original size:56 final size:56
Alignment explanation
Indices: 47958831--47958958 Score: 152
Period size: 56 Copynumber: 2.3 Consensus size: 56
47958821 AATCCCGCAT
* * *
47958831 CACTCATGGCCGC-AGTCAAAATAATCTTAG-GTGTCCGTAGTCTTATCCCGAGCGC
1 CACTCATGGCCGCTAGTAAAAATAAT-ATAGAGTGTCCATAGTCTTATCCCGAGCGC
* * * *
47958886 CACTCATGACCGCTAGTAAAAATAATATCGAGTGTTCATAGTGTTATCCCGAGCGC
1 CACTCATGGCCGCTAGTAAAAATAATATAGAGTGTCCATAGTCTTATCCCGAGCGC
* *
47958942 TACTCATGGCCACTAGT
1 CACTCATGGCCGCTAGT
47958959 TAGGTTAGAG
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
55 14 0.23
56 47 0.77
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (56 bp):
CACTCATGGCCGCTAGTAAAAATAATATAGAGTGTCCATAGTCTTATCCCGAGCGC
Found at i:47959468 original size:198 final size:197
Alignment explanation
Indices: 47959172--47959791 Score: 868
Period size: 198 Copynumber: 3.1 Consensus size: 197
47959162 AATCAAGCGT
* * * * * *
47959172 CATTTATTTTAAACGAAACTAGACTTCCAT-ACGATTATAGAGATATAAAGG-TCATTTCCTATT
1 CATTTGTTCTAAACGAAACTAGACTTCTATAAAG-TTGTAGGGATAT-AAGGCTCATTTCCTATT
* * * *
47959235 TTATCTCTTAAAATTTTTGGTGATTGTTCAAAGTCATTACTAAATCTGTTTTATAAGAATTCTGC
64 TTATCT-TTGAAATTTTTGGTGATTTTTCAAAGTCACTGCTAAATCTGTTTTATAAGAATTCTGC
*
47959300 TGCCAGATTTTTATGATATTTCAACATTCAAAAATTCATATCTTTTAAACTAAAAATCGAAATCT
128 TGCCAGATTTTTATGATATTTCAACATTCAAAAATTCATATCTTTTAAACTAAAAATCAAAATCT
47959365 ATCTC
193 ATCTC
* * * * *
47959370 CATTTGTTCTAAACGAAACTAGACTTTTGTATAGTTGTAGGGATATAAGTCTCATTTCCTCTTTT
1 CATTTGTTCTAAACGAAACTAGACTTCTATAAAGTTGTAGGGATATAAGGCTCATTTCCTATTTT
* * * *
47959435 ATCTTGTGCAATTTTTGGTAATTTTTTAAAGTCACTGCTAAAT-TGATTTTATAAGAATTCTACT
66 ATCTT-TGAAATTTTTGGTGATTTTTCAAAGTCACTGCTAAATCTG-TTTTATAAGAATTCTGCT
* * * *
47959499 GTCAGATTTTTATGATCTTTCAACATTAAAAAATTCATATCTTTTAAAATAAAAATCAAAATCTA
129 GCCAGATTTTTATGATATTTCAACATTCAAAAATTCATATCTTTTAAACTAAAAATCAAAATCTA
*
47959564 TCTT
194 TCTC
* *
47959568 CGTTTGTTCTAAACGAAACTAGACTTCTATAAAGTTGTAGGGATATAAGGCTCATTTCCTTTTTT
1 CATTTGTTCTAAACGAAACTAGACTTCTATAAAGTTGTAGGGATATAAGGCTCATTTCCTATTTT
*
47959633 ATCTTATGAAATTTTTGGTGATTTTTCAAAGTCACTGCTAAATCTGTTTTATAAGAATTTTGCTG
66 ATCTT-TGAAATTTTTGGTGATTTTTCAAAGTCACTGCTAAATCTGTTTTATAAGAATTCTGCTG
* * * *
47959698 CCAGATTTTTATGACATTTCAACACTCAAAAGTTCATATCTTTTAAACTAAAAATCAAAATCAAT
130 CCAGATTTTTATGATATTTCAACATTCAAAAATTCATATCTTTTAAACTAAAAATCAAAATCTAT
47959763 CTC
195 CTC
47959766 CATTTGTTCTAAAACGAAACTAGACT
1 CATTTGTTCT-AAACGAAACTAGACT
47959792 GACACGATTC
Statistics
Matches: 369, Mismatches: 47, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
197 6 0.02
198 345 0.93
199 18 0.05
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.41
Consensus pattern (197 bp):
CATTTGTTCTAAACGAAACTAGACTTCTATAAAGTTGTAGGGATATAAGGCTCATTTCCTATTTT
ATCTTTGAAATTTTTGGTGATTTTTCAAAGTCACTGCTAAATCTGTTTTATAAGAATTCTGCTGC
CAGATTTTTATGATATTTCAACATTCAAAAATTCATATCTTTTAAACTAAAAATCAAAATCTATC
TC
Found at i:47960607 original size:24 final size:24
Alignment explanation
Indices: 47960563--47960609 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
47960553 TTTGAAGTGT
* *
47960563 CAAATTGAATATCTAAAAATTTTA
1 CAAATAGAATATCGAAAAATTTTA
47960587 CAAATAGAATAT-GAAATAATTTT
1 CAAATAGAATATCGAAA-AATTTT
47960610 CTTTTCATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.36
Consensus pattern (24 bp):
CAAATAGAATATCGAAAAATTTTA
Found at i:47960702 original size:24 final size:24
Alignment explanation
Indices: 47960658--47960704 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
47960648 TTTGAAGTGT
* *
47960658 CAAATTGAATATCTAAAAATTTTA
1 CAAATAGAATATCGAAAAATTTTA
47960682 CAAATAGAATAT-GAAATAATTTT
1 CAAATAGAATATCGAAA-AATTTT
47960705 CTTTTCATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.36
Consensus pattern (24 bp):
CAAATAGAATATCGAAAAATTTTA
Found at i:47960716 original size:95 final size:95
Alignment explanation
Indices: 47960548--47960742 Score: 381
Period size: 95 Copynumber: 2.1 Consensus size: 95
47960538 ATCGAACTAT
*
47960548 TATAATTTGAAGTGTCAAATTGAATATCTAAAAATTTTACAAATAGAATATGAAATAATTTTCTT
1 TATATTTTGAAGTGTCAAATTGAATATCTAAAAATTTTACAAATAGAATATGAAATAATTTTCTT
47960613 TTCATTTTTACCGTGAGTTTACTAGATAAA
66 TTCATTTTTACCGTGAGTTTACTAGATAAA
47960643 TATATTTTGAAGTGTCAAATTGAATATCTAAAAATTTTACAAATAGAATATGAAATAATTTTCTT
1 TATATTTTGAAGTGTCAAATTGAATATCTAAAAATTTTACAAATAGAATATGAAATAATTTTCTT
47960708 TTCATTTTTACCGTGAGTTTACTAGATAAA
66 TTCATTTTTACCGTGAGTTTACTAGATAAA
47960738 TATAT
1 TATAT
47960743 AATATCATGG
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 99 1.00
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.42
Consensus pattern (95 bp):
TATATTTTGAAGTGTCAAATTGAATATCTAAAAATTTTACAAATAGAATATGAAATAATTTTCTT
TTCATTTTTACCGTGAGTTTACTAGATAAA
Found at i:47960998 original size:16 final size:16
Alignment explanation
Indices: 47960977--47961007 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
47960967 TACTCTTATG
47960977 ATTAGTAAAAAAATTC
1 ATTAGTAAAAAAATTC
47960993 ATTAGTAAAAAAATT
1 ATTAGTAAAAAAATT
47961008 AAAAAAATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.32
Consensus pattern (16 bp):
ATTAGTAAAAAAATTC
Found at i:47961368 original size:19 final size:18
Alignment explanation
Indices: 47961346--47961426 Score: 60
Period size: 20 Copynumber: 4.3 Consensus size: 18
47961336 ATGAAAATCA
47961346 TAAAAAAATATAAATTATT
1 TAAAAAAATATAAA-TATT
* *
47961365 T-AAAAATTACTAAAAATT
1 TAAAAAAATA-TAAATATT
*
47961383 ATAAAAAAATAATAAATTTAT
1 -TAAAAAAAT-ATAAATAT-T
47961404 TAAAAACAA-A-AAATATT
1 TAAAAA-AATATAAATATT
47961421 TAAAAA
1 TAAAAA
47961427 TTATTAAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
17 7 0.14
18 15 0.30
19 7 0.14
20 17 0.34
21 4 0.08
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAAAAATATAAATATT
Found at i:47961369 original size:18 final size:19
Alignment explanation
Indices: 47961346--47961427 Score: 55
Period size: 18 Copynumber: 4.4 Consensus size: 19
47961336 ATGAAAATCA
*
47961346 TAAAAAAATATAAATTATT
1 TAAAAATATATAAATTATT
* *
47961365 TAAAAATTACTAAAAATTATA
1 TAAAAA-TA-TATAAATTATT
*
47961386 AAAAAATA-ATAAATT-TAT
1 TAAAAATATATAAATTAT-T
* *
47961404 TAAAAACA-A-AAAATATT
1 TAAAAATATATAAATTATT
47961421 TAAAAAT
1 TAAAAAT
47961428 TATTAAAACT
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
17 12 0.24
18 14 0.29
19 6 0.12
20 3 0.06
21 14 0.29
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAAATATATAAATTATT
Found at i:47961369 original size:37 final size:39
Alignment explanation
Indices: 47961322--47961410 Score: 121
Period size: 38 Copynumber: 2.3 Consensus size: 39
47961312 TTTTTAAATG
*
47961322 ATTATTTAAAAACTA-TGAAAATCATAAAAAAAT-ATAA
1 ATTATTTAAAAACTACTAAAAATCATAAAAAAATAATAA
* *
47961359 ATTATTTAAAAATTACTAAAAATTATAAAAAAATAATAA
1 ATTATTTAAAAACTACTAAAAATCATAAAAAAATAATAA
47961398 ATT-TATTAAAAAC
1 ATTAT-TTAAAAAC
47961411 AAAAAATATT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
37 14 0.31
38 17 0.38
39 14 0.31
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (39 bp):
ATTATTTAAAAACTACTAAAAATCATAAAAAAATAATAA
Found at i:47961416 original size:36 final size:37
Alignment explanation
Indices: 47961322--47961426 Score: 92
Period size: 37 Copynumber: 2.8 Consensus size: 37
47961312 TTTTTAAATG
** *
47961322 ATTATTTAAAAACTA-TGAAAATCATAAAAAAATATAA
1 ATTATTTAAAAA-TACAAAAAATTATAAAAAAATATAA
*
47961359 ATTATTTAAAAATTACTAAAAATTATAAAAAAATAATAA
1 ATTATTTAAAAA-TACAAAAAATTATAAAAAAAT-ATAA
*
47961398 ATT-TATT-AAAA-ACAAAAAATATTTAAAAA
1 ATTAT-TTAAAAATACAAAAAAT-TATAAAAA
47961427 TTATTAAAAC
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
36 8 0.14
37 21 0.36
38 21 0.36
39 9 0.15
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (37 bp):
ATTATTTAAAAATACAAAAAATTATAAAAAAATATAA
Found at i:47961433 original size:10 final size:10
Alignment explanation
Indices: 47961357--47961435 Score: 51
Period size: 10 Copynumber: 8.2 Consensus size: 10
47961347 AAAAAAATAT
47961357 AAATTATTTAA
1 AAATTA-TTAA
*
47961368 AAATTACTAA
1 AAATTATTAA
*
47961378 AAATTATAAA
1 AAATTATTAA
* *
47961388 AAAATAAT-A
1 AAATTATTAA
*
47961397 AATTTATTAA
1 AAATTATTAA
*
47961407 AAA-CA--AA
1 AAATTATTAA
47961414 AAA-TATTTAA
1 AAATTA-TTAA
47961424 AAATTATTAA
1 AAATTATTAA
47961434 AA
1 AA
47961436 CTATAGTCTG
Statistics
Matches: 51, Mismatches: 12, Indels: 11
0.69 0.16 0.15
Matches are distributed among these distances:
7 6 0.12
9 7 0.14
10 30 0.59
11 8 0.16
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (10 bp):
AAATTATTAA
Found at i:47962736 original size:19 final size:17
Alignment explanation
Indices: 47962689--47962736 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
47962679 TTTCAAATAA
47962689 TTATATATTTAAATCAT
1 TTATATATTTAAATCAT
*
47962706 TTAAATAAATTTAAATTCAAT
1 TT--ATATATTTAAA-TC-AT
47962727 TTATATATTT
1 TTATATATTT
47962737 TTTTCCCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 2 0.08
19 17 0.68
20 2 0.08
21 4 0.16
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (17 bp):
TTATATATTTAAATCAT
Found at i:47965839 original size:24 final size:24
Alignment explanation
Indices: 47965798--47965857 Score: 77
Period size: 25 Copynumber: 2.5 Consensus size: 24
47965788 TTTTCAGGAG
* *
47965798 GGATGTTTTTTTCCTTATAAC-TT
1 GGATTTTTTTTTCATTATAACTTT
*
47965821 GGGTTTTTTTTTCAATTATAACTTT
1 GGATTTTTTTTTC-ATTATAACTTT
47965846 GGATTTTTTTTT
1 GGATTTTTTTTT
47965858 TTACTTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 11 0.35
24 7 0.23
25 13 0.42
ACGTcount: A:0.17, C:0.08, G:0.13, T:0.62
Consensus pattern (24 bp):
GGATTTTTTTTTCATTATAACTTT
Found at i:47995246 original size:24 final size:23
Alignment explanation
Indices: 47995219--47995263 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
47995209 TTTTAAATTT
*
47995219 ATTTATTTATTATATTCAAAAACA
1 ATTTATTTATT-TATTAAAAAACA
47995243 ATTTATTTATTTATTAAAAAA
1 ATTTATTTATTTATTAAAAAA
47995264 TATTAACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTTATTTATTTATTAAAAAACA
Found at i:48004501 original size:20 final size:19
Alignment explanation
Indices: 48004468--48004506 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
48004458 AGATTATTGA
48004468 ATTTGAATAATATATATTT
1 ATTTGAATAATATATATTT
*
48004487 ATTTGATATATTATATATTT
1 ATTTGA-ATAATATATATTT
48004507 TAAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
ATTTGAATAATATATATTT
Found at i:48004767 original size:19 final size:21
Alignment explanation
Indices: 48004728--48004770 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
48004718 TAGCCCATTC
48004728 ATATTAATTTTTAAAATATTT
1 ATATTAATTTTTAAAATATTT
48004749 ATATT-ATTTTTAATAAT-TTT
1 ATATTAATTTTTAA-AATATTT
48004769 AT
1 AT
48004771 GTACTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATTAATTTTTAAAATATTT
Found at i:48006290 original size:24 final size:24
Alignment explanation
Indices: 48006263--48006319 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
48006253 AATTTTTTTG
48006263 TTAAACTCTGTTTATTTGTTTCAA
1 TTAAACTCTGTTTATTTGTTTCAA
* * *
48006287 TTAAATTCTGTTTATTTGTTTGAG
1 TTAAACTCTGTTTATTTGTTTCAA
48006311 TTAAACTCT
1 TTAAACTCT
48006320 TATTAGTCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.25, C:0.11, G:0.11, T:0.54
Consensus pattern (24 bp):
TTAAACTCTGTTTATTTGTTTCAA
Found at i:48008104 original size:24 final size:24
Alignment explanation
Indices: 48008071--48008121 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
48008061 AGAAATAATC
* *
48008071 TTTCAGTTAAATTATATTTATTTG
1 TTTCAATTAAACTATATTTATTTG
* *
48008095 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTATATTTATTTG
48008119 TTT
1 TTT
48008122 GAGTCAAACT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.08, G:0.08, T:0.59
Consensus pattern (24 bp):
TTTCAATTAAACTATATTTATTTG
Found at i:48008130 original size:24 final size:24
Alignment explanation
Indices: 48008087--48008133 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
48008077 TTAAATTATA
*
48008087 TTTATTTGTTTCAATTAAACTCTG
1 TTTATTTGTTTCAATCAAACTCTG
* *
48008111 TTTATTTGTTTGAGTCAAACTCT
1 TTTATTTGTTTCAATCAAACTCT
48008134 TATTAGTCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.23, C:0.13, G:0.11, T:0.53
Consensus pattern (24 bp):
TTTATTTGTTTCAATCAAACTCTG
Found at i:48010204 original size:7 final size:7
Alignment explanation
Indices: 48010192--48010216 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
48010182 TATAAATGGG
48010192 TCTAGGA
1 TCTAGGA
48010199 TCTAGGA
1 TCTAGGA
48010206 TCTAGGA
1 TCTAGGA
48010213 TCTA
1 TCTA
48010217 TTCTACTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (7 bp):
TCTAGGA
Found at i:48013919 original size:25 final size:25
Alignment explanation
Indices: 48013868--48013919 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
48013858 TGAATATGTT
* * *
48013868 AAAAATGTTATAATTATTTTGTCAA
1 AAAAATATTATAATTATATTGTAAA
48013893 AAAAATATTATAATTATGATT-TAAA
1 AAAAATATTATAATTAT-ATTGTAAA
48013918 AA
1 AA
48013920 TTCTCCATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 21 0.91
26 2 0.09
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (25 bp):
AAAAATATTATAATTATATTGTAAA
Found at i:48015291 original size:228 final size:227
Alignment explanation
Indices: 48014886--48016393 Score: 959
Period size: 228 Copynumber: 6.6 Consensus size: 227
48014876 TTGACAGCAG
* * * * *
48014886 ATGCAGATCTTTGTGAAAACCCTTACTGGTAAGACCATCACCCTTGAGGTAGAAAGTTCTGACAC
1 ATGCAGATATTTGTGAAAACCCTTACTGGAAAAACCATCACCCTAGAGGTGGAAAGTTCTGACAC
* * * *
48014951 TATTGATAATGTCAAGGCCAAAATCCAAGACAAAGAAGGG-ATCCCTCCAGACCAACAGAGGCTT
66 GATTGATAATGTCAAGGCCAAGATCCAAGAC-AAGGAGGGTATCCCACCAGACCAACAGAGG-TT
* * * *
48015015 -ATCTTTGCCGGAAAACAACTCGAGGATGGCCGAACTCTTGCCGATTACAACATCCAAAAGGAGT
129 AATCTTTGCTGG-AAACAACTCGAAGATGGCCGAACCCTTGCAGATTACAACATCCAAAAGGAGT
*
48015079 CCACCCTCCACCTAGTCCTTCGTCTAAGGGGTGGC
193 CCACCCTCCACCTAGTCCTTCGTCTAAGGGGTGGA
* * * * *
48015114 ATGCAGATATTTGTGAAAACCCTTACTGGCAAGACCATTACCCTCGAGGTGGAAAGTTCTGATAC
1 ATGCAGATATTTGTGAAAACCCTTACTGGAAAAACCATCACCCTAGAGGTGGAAAGTTCTGACAC
* *
48015179 GATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGG-ATTCCTCCAGACCAACAGAGGCTT
66 GATTGATAATGTCAAGGCCAAGATCCAAGACAAGG-AGGGTATCCCACCAGACCAACAGAGG-TT
* * *
48015243 -ATCTTTGCTGGTAAACAACTTGAAGATGGCCGAACCCTCGCTGATTACAACATCCAGAAA-GAG
129 AATCTTTGCTGG-AAACAACTCGAAGATGGCCGAACCCTTGCAGATTACAACATCCA-AAAGGAG
* * * *
48015306 TCTACCCTCCACCTTGTCCTTCGTCTTAGGGGTGGG
192 TCCACCCTCCACCTAGTCCTTCGTCTAAGGGGTGGA
* * * * ** * *
48015342 ATGCAGATATTTGTAAAAACCCTCACAGGGAAAACCATCACTTTAGAGGTGGAGAGTTCTGATAC
1 ATGCAGATATTTGTGAAAACCCTTACTGGAAAAACCATCACCCTAGAGGTGGAAAGTTCTGACAC
* * * *
48015407 GATTGATAATGTTAAGGCCAAGATTCAGGACAAGGAGGGTATCCCACCAGACCAGCAGAGGTTAA
66 GATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAGGGTATCCCACCAGACCAACAGAGGTTAA
* * * * * * *
48015472 TCTTTGCTGGGAAACAGCTTGAAGATGGCCGAACCCTTGCAGACTATAACATTCAGAAGGAGTCG
131 TCTTTGCT-GGAAACAACTCGAAGATGGCCGAACCCTTGCAGATTACAACATCCAAAAGGAGTCC
* * * * * **
48015537 ACCCTTCACCTGGTGCTCCGACTGCGTGGG-GGA
195 ACCCTCCACCTAGTCCTTCGTCTAAG-GGGTGGA
* * * * ** * * * *
48015570 ATGCAGATTTTTGTGAAAA-CTTTGACTGGAAAAACTATTACATTGGAGGTGGAGAGCTCAGACA
1 ATGCAGATATTTGTGAAAACCCTT-ACTGGAAAAACCATCACCCTAGAGGTGGAAAGTTCTGACA
* * * * * *
48015634 CAATTGATAACGTGAAGGCCAAGATCCAAGACAAGGAGGGTATCCCACCTGACCAGCAGAGGTTG
65 CGATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAGGGTATCCCACCAGACCAACAGAGGTTA
* * * ** * * * *
48015699 ATTTTTGCTGGAAAGCAGCTCGAGGATGGGAGGACGCTTGCGGATTATAACATCCAAAAGGAGTC
130 ATCTTTGCTGGAAA-CAACTCGAAGATGGCCGAACCCTTGCAGATTACAACATCCAAAAGGAGTC
* * * * * * ** * * *
48015764 CACCCTGCACTTGGTTCTGCGCCTTCGAGGAGGG
194 CACCCTCCACCTAGTCCTTCGTCTAAGGGGTGGA
* * * * * * * * * * *
48015798 ATGCAGATATTCGTTAAGA-CCTTGACTGGTAAAACCATAACACTGGAGGTCGAGAGCTCGGACA
1 ATGCAGATATTTGTGAAAACCCTT-ACTGGAAAAACCATCACCCTAGAGGTGGAAAGTTCTGACA
* * * * * * * * * * * * * *
48015862 CCATTGACAATGTTAAAGCGAAGATTCAGGATAAGGAGGGAATTCCTCCAGACCAGCAGAGATTG
65 CGATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAGGGTATCCCACCAGACCAACAGAGGTTA
* * * * * ** * * * * *
48015927 ATTTTTGCCGGAAAGCAGCTTGAGGATGGGAGGACACTTGCGGACTATAACATCCAAAAGGAGTC
130 ATCTTTGCTGGAAA-CAACTCGAAGATGGCCGAACCCTTGCAGATTACAACATCCAAAAGGAGTC
* * * * * * * * * *
48015992 CACCCTGCACTTGGTTCTGCGCCTTAGAGGAGGG
194 CACCCTCCACCTAGTCCTTCGTCTAAGGGGTGGA
* * * * * * * * * * *
48016026 ATGCAGATATTTGTTAAGA-CCTTGACGGGTAAAACCATAACACTGGAGGTTGAGAGCTCGGACA
1 ATGCAGATATTTGTGAAAACCCTT-ACTGGAAAAACCATCACCCTAGAGGTGGAAAGTTCTGACA
* * * * * * * * * * *
48016090 CTATTGACAATGTCAAAGCGAAGATTCAGGACAAGGAGGGAATTCCTCCAGACCAGCAGAGGTTG
65 CGATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAGGGTATCCCACCAGACCAACAGAGGTTA
* * * * * ** * * * * * *
48016155 ATTTTTGCAGGAAAGCAGCTGGAGGATGGGAGGACACTTGCGGACTATAACATCCAAAAGGAATC
130 ATCTTTGCTGGAAA-CAACTCGAAGATGGCCGAACCCTTGCAGATTACAACATCCAAAAGGAGTC
* ** * * * * * * *
48016220 CACCCTGCATTTGGT-TTTGCGCCTTAGAGGAGGG
194 CACCCTCCACCTAGTCCTT-CGTCTAAGGGGTGGA
* * * * * * * *
48016254 ATGCAGATATTCGTGAAGA-CATTGACTGGGAAAACCATCACCCTGGAGGTGGAGAGCTCGGACA
1 ATGCAGATATTTGTGAAAACCCTT-ACTGGAAAAACCATCACCCTAGAGGTGGAAAGTTCTGACA
* * * * * * * * * * * *
48016318 CAATTGACAATGTGAAAGCTAAGATTCAGGACAAGGAGGGGATTCCTCCAGACCAGCAGAGGTTG
65 CGATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAGGGTATCCCACCAGACCAACAGAGGTTA
*
48016383 ATATTTGCTGG
130 ATCTTTGCTGG
48016394 GAAGCAGTTG
Statistics
Matches: 1119, Mismatches: 150, Indels: 22
0.87 0.12 0.02
Matches are distributed among these distances:
227 21 0.02
228 1090 0.97
229 8 0.01
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (227 bp):
ATGCAGATATTTGTGAAAACCCTTACTGGAAAAACCATCACCCTAGAGGTGGAAAGTTCTGACAC
GATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAGGGTATCCCACCAGACCAACAGAGGTTAA
TCTTTGCTGGAAACAACTCGAAGATGGCCGAACCCTTGCAGATTACAACATCCAAAAGGAGTCCA
CCCTCCACCTAGTCCTTCGTCTAAGGGGTGGA
Found at i:48015753 original size:456 final size:451
Alignment explanation
Indices: 48014885--48016465 Score: 1515
Period size: 456 Copynumber: 3.5 Consensus size: 451
48014875 GTTGACAGCA
* * * * * * * * * *
48014885 GATGCAGATCTTTGTGAAAACCCTTACTGGTAAGACCATCACCCTTGAGGTAGAAAGTTCTGACA
1 GATGCAGATATTCGTGAAAACCCTGACTGGGAAAACCATCACCCTGGAGGTGGAGAGCTCGGACA
* * * * * * * * *
48014950 CTATTGATAATGTCAAGGCCAAAATCCAAGACAAAGAAGGGATCCCTCCAGACCAACAGAGGCTT
66 CAATTGACAATGTTAAAGCCAAGATTCAGGAC-AAGGAGGGATCCCTCCAGACCAGCAGAGG-TT
* * * * * * *
48015015 -ATCTTTGCCGGAAAACAACTCGAGGATGGCCGAACTCTTGCCGATTACAACATCCAAAAGGAGT
129 GATCTTTGCTGGGAAACAGCTTGAGGATGGCCGAACCCTTGCAGACTACAACATCCAAAAGGAGT
* * *
48015079 CCACCCTCCACCTAGTCCTTCGTCTAAGGGGTGGCATGCAGATATTTGTGAAAACCCTT-ACTGG
194 CCACCCTCCACCTGGTCCTCCGACTAAGGGG-GG-ATGCAGATATTTGTGAAAA-CCTTGACTGG
* * * * * * * * *
48015143 CAAGACCATTACCCTCGAGGTGGAAAGTTCTGATACGATTGATAATGTCAAGGCCAAGATCCAAG
256 AAAAACCATTACACTGGAGGTGGAGAGCTCAGACACAATTGATAATGTCAAGGCCAAGATCCAAG
* * * * *
48015208 ACAAGGAAGGGATTCCTCCAGACCAACAGAGGCTT-ATCTTTGCTGGTAAA-CAACTTGAAGATG
321 ACAAGG-AGGGATTCCTCCAGACCAGCAGAGG-TTGATTTTTGCTGG-AAAGCAGCTCGAGGATG
** * * * * * * * *
48015271 GCCGAACCCTCGCTGATTACAACATCCAGAAA-GAGTCTACCCTCCACCTT-GTCCTTCGTCTTA
383 GGAGGACACTTGCGGATTATAACATCCA-AAAGGAGTCCACCCTGCA-CTTGGT-CTTCGCCTTA
* *
48015334 GGGGTGG
445 GAGGAGG
* * * * ** * * * *
48015341 GATGCAGATATTTGTAAAAACCCTCACAGGGAAAACCATCACTTTAGAGGTGGAGAGTTCTGATA
1 GATGCAGATATTCGTGAAAACCCTGACTGGGAAAACCATCACCCTGGAGGTGGAGAGCTCGGACA
* * * * *
48015406 CGATTGATAATGTTAAGGCCAAGATTCAGGACAAGGAGGGTATCCCACCAGACCAGCAGAGGTTA
66 CAATTGACAATGTTAAAGCCAAGATTCAGGACAAGGAGGG-ATCCCTCCAGACCAGCAGAGGTTG
* * * *
48015471 ATCTTTGCTGGGAAACAGCTTGAAGATGGCCGAACCCTTGCAGACTATAACATTCAGAAGGAGTC
130 ATCTTTGCTGGGAAACAGCTTGAGGATGGCCGAACCCTTGCAGACTACAACATCCAAAAGGAGTC
* * * ** * *
48015536 GACCCTTCACCTGGTGCTCCGACTGCGTGGGGGAATGCAGATTTTTGTGAAAACTTTGACTGGAA
195 CACCCTCCACCTGGTCCTCCGACTAAG-GGGGG-ATGCAGATATTTGTGAAAACCTTGACTGGAA
* * * *
48015601 AAACTATTACATTGGAGGTGGAGAGCTCAGACACAATTGATAACGTGAAGGCCAAGATCCAAGAC
258 AAACCATTACACTGGAGGTGGAGAGCTCAGACACAATTGATAATGTCAAGGCCAAGATCCAAGAC
* * *
48015666 AAGGAGGGTATCCCACCTGACCAGCAGAGGTTGATTTTTGCTGGAAAGCAGCTCGAGGATGGGAG
323 AAGGAGGG-ATTCCTCCAGACCAGCAGAGGTTGATTTTTGCTGGAAAGCAGCTCGAGGATGGGAG
* * *
48015731 GACGCTTGCGGATTATAACATCCAAAAGGAGTCCACCCTGCACTTGGTTCTGCGCCTTCGAGGAG
387 GACACTTGCGGATTATAACATCCAAAAGGAGTCCACCCTGCACTTGG-TCTTCGCCTTAGAGGAG
48015796 G
451 G
* * * * * * *
48015797 GATGCAGATATTCGTTAAGACCTTGACTGGTAAAACCATAACACTGGAGGTCGAGAGCTCGGACA
1 GATGCAGATATTCGTGAAAACCCTGACTGGGAAAACCATCACCCTGGAGGTGGAGAGCTCGGACA
* * * * *
48015862 CCATTGACAATGTTAAAGCGAAGATTCAGGATAAGGAGGGAATTCCTCCAGACCAGCAGAGATTG
66 CAATTGACAATGTTAAAGCCAAGATTCAGGACAAGGAGGG-ATCCCTCCAGACCAGCAGAGGTTG
* * ** * * * *
48015927 ATTTTTGC-CGGAAAGCAGCTTGAGGATGGGAGGACACTTGCGGACTATAACATCCAAAAGGAGT
130 ATCTTTGCTGGGAAA-CAGCTTGAGGATGGCCGAACCCTTGCAGACTACAACATCCAAAAGGAGT
* * * * * * * * * *
48015991 CCACCCTGCACTTGGTTCTGCGCCTTAGAGGAGGGATGCAGATATTTGTTAAGACCTTGACGGGT
194 CCACCCTCCACCTGGTCCTCCGAC-TA-AGGGGGGATGCAGATATTTGTGAAAACCTTGACTGGA
* * * * * * * * *
48016056 AAAACCATAACACTGGAGGTTGAGAGCTCGGACACTATTGACAATGTCAAAGCGAAGATTCAGGA
257 AAAACCATTACACTGGAGGTGGAGAGCTCAGACACAATTGATAATGTCAAGGCCAAGATCCAAGA
* *
48016121 CAAGGAGGGAATTCCTCCAGACCAGCAGAGGTTGATTTTTGCAGGAAAGCAGCTGGAGGATGGGA
322 CAAGGAGGG-ATTCCTCCAGACCAGCAGAGGTTGATTTTTGCTGGAAAGCAGCTCGAGGATGGGA
* * * *
48016186 GGACACTTGCGGACTATAACATCCAAAAGGAATCCACCCTGCATTTGGTTTTGCGCCTTAGAGGA
386 GGACACTTGCGGATTATAACATCCAAAAGGAGTCCACCCTGCACTTGGTCTT-CGCCTTAGAGGA
48016251 GG
450 GG
* **
48016253 GATGCAGATATTCGTGAAGACATTGACTGGGAAAACCATCACCCTGGAGGTGGAGAGCTCGGACA
1 GATGCAGATATTCGTGAAAACCCTGACTGGGAAAACCATCACCCTGGAGGTGGAGAGCTCGGACA
* * *
48016318 CAATTGACAATGTGAAAGCTAAGATTCAGGACAAGGAGGGGATTCCTCCAGACCAGCAGAGGTTG
66 CAATTGACAATGTTAAAGCCAAGATTCAGGACAAGGA-GGGATCCCTCCAGACCAGCAGAGGTTG
* * * * * *
48016383 ATATTTGCTGGGAAGCAG-TTGGAGGATGGTCGAA-CTTTAGCAGACTACAATATCCAGAAGGAG
130 ATCTTTGCTGGGAAACAGCTT-GAGGATGGCCGAACCCTT-GCAGACTACAACATCCAAAAGGAG
* * *
48016446 TCCACTCTGCATCTGGTCCT
193 TCCACCCTCCACCTGGTCCT
48016466 TCGCCTCCGT
Statistics
Matches: 927, Mismatches: 180, Indels: 36
0.81 0.16 0.03
Matches are distributed among these distances:
455 38 0.04
456 872 0.94
457 16 0.02
458 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (451 bp):
GATGCAGATATTCGTGAAAACCCTGACTGGGAAAACCATCACCCTGGAGGTGGAGAGCTCGGACA
CAATTGACAATGTTAAAGCCAAGATTCAGGACAAGGAGGGATCCCTCCAGACCAGCAGAGGTTGA
TCTTTGCTGGGAAACAGCTTGAGGATGGCCGAACCCTTGCAGACTACAACATCCAAAAGGAGTCC
ACCCTCCACCTGGTCCTCCGACTAAGGGGGGATGCAGATATTTGTGAAAACCTTGACTGGAAAAA
CCATTACACTGGAGGTGGAGAGCTCAGACACAATTGATAATGTCAAGGCCAAGATCCAAGACAAG
GAGGGATTCCTCCAGACCAGCAGAGGTTGATTTTTGCTGGAAAGCAGCTCGAGGATGGGAGGACA
CTTGCGGATTATAACATCCAAAAGGAGTCCACCCTGCACTTGGTCTTCGCCTTAGAGGAGG
Found at i:48016408 original size:228 final size:227
Alignment explanation
Indices: 48015063--48016411 Score: 1294
Period size: 228 Copynumber: 5.9 Consensus size: 227
48015053 TGCCGATTAC
* * * * * * * * * * *
48015063 AACATCCAAAAGGAGTCCACCCTCCACCTAGTCCTTCGTCTAAGGGGTGGCATGCAGATATTTGT
1 AACATCCAAAAGGAGTCCACCCTGCACTTGGTTCTGCGCCTTAGAGGAGGGATGCAGATATTCGT
* * * * * * * * * * * * *
48015128 GAAAACCCTT-ACTGGCAAGACCATTACCCTCGAGGTGGAAAGTTCTGATACGATTGATAATGTC
66 GAAGA-CCTTGACTGGGAAAACCATAACACTGGAGGTGGAGAGCTCGGACACAATTGACAATGTG
* * * * *
48015192 AAGGCCAAGATCCAAGACAAGGAAGGG-ATTCCTCCAGACCAACAGAGGCTT-ATCTTTGCTGGT
130 AAAGCCAAGATTCAGGACAAGG-AGGGAATTCCTCCAGACCAGCAGAGG-TTGATTTTTGCTGG-
* * ** * * * * * *
48015255 AAA-CAACTTGAAGATGGCCGAACCCTCGCTGATTAC
192 AAAGC-AGTTGAGGATGGGAGGACACTTGCGGACTAT
* * * * * * * *
48015291 AACATCCAGAAA-GAGTCTACCCTCCACCTT-GTCCTTCGTCTTAGGGGTGGGATGCAGATATTT
1 AACATCCA-AAAGGAGTCCACCCTGCA-CTTGGTTCTGCGCCTTAGAGGAGGGATGCAGATATTC
* * * * * * ** * * * * * *
48015354 GTAAAAACCCTCACAGGGAAAACCATCACTTTAGAGGTGGAGAGTTCTGATACGATTGATAATGT
64 GTGAAGACCTTGACTGGGAAAACCATAACACTGGAGGTGGAGAGCTCGGACACAATTGACAATGT
* * * * * * *
48015419 TAAGGCCAAGATTCAGGACAAGGAGGGTATCCCACCAGACCAGCAGAGGTTAATCTTTGCTGGGA
129 GAAAGCCAAGATTCAGGACAAGGAGGGAATTCCTCCAGACCAGCAGAGGTTGATTTTTGCT-GGA
* ** * * *
48015484 AA-CAGCTTGAAGATGGCCGAACCCTTGCAGACTAT
193 AAGCAG-TTGAGGATGGGAGGACACTTGCGGACTAT
* * * * * * * * ** * * *
48015519 AACATTCAGAAGGAGTCGACCCTTCACCTGGTGCTCCGACTGCGTGG-GGGAATGCAGATTTTTG
1 AACATCCAAAAGGAGTCCACCCTGCACTTGGTTCTGCGCCTTAGAGGAGGG-ATGCAGATATTCG
* * * * * * * * *
48015583 TGAAAACTTTGACTGGAAAAACTATTACATTGGAGGTGGAGAGCTCAGACACAATTGATAACGTG
65 TGAAGACCTTGACTGGGAAAACCATAACACTGGAGGTGGAGAGCTCGGACACAATTGACAATGTG
* * * * * * *
48015648 AAGGCCAAGATCCAAGACAAGGAGGGTATCCCACCTGACCAGCAGAGGTTGATTTTTGCTGGAAA
130 AAAGCCAAGATTCAGGACAAGGAGGGAATTCCTCCAGACCAGCAGAGGTTGATTTTTGCTGGAAA
* * *
48015713 GCAGCTCGAGGATGGGAGGACGCTTGCGGATTAT
195 GCAG-TTGAGGATGGGAGGACACTTGCGGACTAT
*
48015747 AACATCCAAAAGGAGTCCACCCTGCACTTGGTTCTGCGCCTTCGAGGAGGGATGCAGATATTCGT
1 AACATCCAAAAGGAGTCCACCCTGCACTTGGTTCTGCGCCTTAGAGGAGGGATGCAGATATTCGT
* * * * *
48015812 TAAGACCTTGACTGGTAAAACCATAACACTGGAGGTCGAGAGCTCGGACACCATTGACAATGTTA
66 GAAGACCTTGACTGGGAAAACCATAACACTGGAGGTGGAGAGCTCGGACACAATTGACAATGTGA
* * * *
48015877 AAGCGAAGATTCAGGATAAGGAGGGAATTCCTCCAGACCAGCAGAGATTGATTTTTGCCGGAAAG
131 AAGCCAAGATTCAGGACAAGGAGGGAATTCCTCCAGACCAGCAGAGGTTGATTTTTGCTGGAAAG
48015942 CAGCTTGAGGATGGGAGGACACTTGCGGACTAT
196 CAG-TTGAGGATGGGAGGACACTTGCGGACTAT
*
48015975 AACATCCAAAAGGAGTCCACCCTGCACTTGGTTCTGCGCCTTAGAGGAGGGATGCAGATATTTGT
1 AACATCCAAAAGGAGTCCACCCTGCACTTGGTTCTGCGCCTTAGAGGAGGGATGCAGATATTCGT
* * * *
48016040 TAAGACCTTGAC-GGGTAAAACCATAACACTGGAGGTTGAGAGCTCGGACACTATTGACAATGTC
66 GAAGACCTTGACTGGG-AAAACCATAACACTGGAGGTGGAGAGCTCGGACACAATTGACAATGTG
* *
48016104 AAAGCGAAGATTCAGGACAAGGAGGGAATTCCTCCAGACCAGCAGAGGTTGATTTTTGCAGGAAA
130 AAAGCCAAGATTCAGGACAAGGAGGGAATTCCTCCAGACCAGCAGAGGTTGATTTTTGCTGGAAA
*
48016169 GCAGCTGGAGGATGGGAGGACACTTGCGGACTAT
195 GCAG-TTGAGGATGGGAGGACACTTGCGGACTAT
* * *
48016203 AACATCCAAAAGGAATCCACCCTGCATTTGGTTTTGCGCCTTAGAGGAGGGATGCAGATATTCGT
1 AACATCCAAAAGGAGTCCACCCTGCACTTGGTTCTGCGCCTTAGAGGAGGGATGCAGATATTCGT
* * *
48016268 GAAGACATTGACTGGGAAAACCATCACCCTGGAGGTGGAGAGCTCGGACACAATTGACAATGTGA
66 GAAGACCTTGACTGGGAAAACCATAACACTGGAGGTGGAGAGCTCGGACACAATTGACAATGTGA
* * * *
48016333 AAGCTAAGATTCAGGACAAGGAGGGGATTCCTCCAGACCAGCAGAGGTTGATATTTGCTGGGAAG
131 AAGCCAAGATTCAGGACAAGGAGGGAATTCCTCCAGACCAGCAGAGGTTGATTTTTGCTGGAAAG
48016398 CAGTTGGAGGATGG
196 CAGTT-GAGGATGG
48016412 TCGAACTTTA
Statistics
Matches: 974, Mismatches: 132, Indels: 30
0.86 0.12 0.03
Matches are distributed among these distances:
227 25 0.03
228 936 0.96
229 13 0.01
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (227 bp):
AACATCCAAAAGGAGTCCACCCTGCACTTGGTTCTGCGCCTTAGAGGAGGGATGCAGATATTCGT
GAAGACCTTGACTGGGAAAACCATAACACTGGAGGTGGAGAGCTCGGACACAATTGACAATGTGA
AAGCCAAGATTCAGGACAAGGAGGGAATTCCTCCAGACCAGCAGAGGTTGATTTTTGCTGGAAAG
CAGTTGAGGATGGGAGGACACTTGCGGACTAT
Found at i:48017743 original size:19 final size:18
Alignment explanation
Indices: 48017710--48017759 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 18
48017700 TAAAAATTTT
48017710 AAATATAAAAA-ATTAAG
1 AAATATAAAAATATTAAG
48017727 AAATGATAAAAATATTAAG
1 AAAT-ATAAAAATATTAAG
48017746 AAATATTAAAAATA
1 AAATA-TAAAAATA
48017760 CACGTGAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.13
18 8 0.27
19 18 0.60
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (18 bp):
AAATATAAAAATATTAAG
Found at i:48017751 original size:10 final size:9
Alignment explanation
Indices: 48017698--48017759 Score: 53
Period size: 9 Copynumber: 7.1 Consensus size: 9
48017688 TCAGTAATTA
48017698 ATTAAAAAT
1 ATTAAAAAT
*
48017707 -TT-TAAAT
1 ATTAAAAAT
48017714 A-TAAAAA-
1 ATTAAAAAT
48017721 ATTAAGAAAT
1 ATTAA-AAAT
48017731 GA-TAAAAAT
1 -ATTAAAAAT
48017740 ATTAAGAAAT
1 ATTAA-AAAT
48017750 ATTAAAAAT
1 ATTAAAAAT
48017759 A
1 A
48017760 CACGTGAATG
Statistics
Matches: 43, Mismatches: 2, Indels: 16
0.70 0.03 0.26
Matches are distributed among these distances:
7 6 0.14
8 9 0.21
9 15 0.35
10 12 0.28
11 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.31
Consensus pattern (9 bp):
ATTAAAAAT
Found at i:48022172 original size:32 final size:32
Alignment explanation
Indices: 48022135--48022211 Score: 84
Period size: 32 Copynumber: 2.3 Consensus size: 32
48022125 AAGCTTACTC
** *
48022135 AAAATTGTTTATTTTTTTAATTTTATTTTGA-T
1 AAAATT-TTTATTTTCCTAATTTCATTTTGACT
*
48022167 TAAATTTGTTATTTTCCTAATTTCATTTTGACT
1 AAAATTT-TTATTTTCCTAATTTCATTTTGACT
48022200 AAAATTATTTAT
1 AAAATT-TTTAT
48022212 CTTAAGTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
31 1 0.03
32 25 0.68
33 10 0.27
34 1 0.03
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (32 bp):
AAAATTTTTATTTTCCTAATTTCATTTTGACT
Found at i:48025377 original size:228 final size:228
Alignment explanation
Indices: 48024869--48025917 Score: 984
Period size: 228 Copynumber: 4.6 Consensus size: 228
48024859 TTGATCGCAG
* *
48024869 ATGCAGATCTTTGTGAAAACCCTTACTGGTAAGACCATCACCCTTGAGGTAGAAAGCTCCGATAC
1 ATGCAGATCTTTGTAAAAACCCTTACTGGTAAGACCATCACCCTTGAGGTGGAAAGCTCCGATAC
* * * * *
48024934 AATCGATAATGTCAAGGCCAAAATCCAAGACAAAGAAGGGATCCCTCCTGACCAACAAAGGCTT-
66 AATCGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAACAGAGG-TTG
* * * * * *
48024998 ATCTTTGCCGGAAAACAAACTCGAGGATGGTCTAACTCTTGCCGACTACAATATCCA-AAAGGAG
130 ATCTTTGCCGGAAAAC-AACTCGAAGATGGTCGAACACTTGCAGATTACAACATCCAGAAA-GAG
* * * *
48025062 TCCACCCTCCACCTAGTCCTTCGTCTAAGGGGTGGC
193 TCTACCCTCCACCTTGTCCTTCGTCTTAGGGGTGGA
* * * * * * *
48025098 ATGCAGATATTCGTGAAAACCCTTACTGGCAAGACCATCACCCTCGAGGTGGAAAGTTCTGATAC
1 ATGCAGATCTTTGTAAAAACCCTTACTGGTAAGACCATCACCCTTGAGGTGGAAAGCTCCGATAC
*
48025163 AATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAACAGAGGCTT-
66 AATCGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAACAGAGG-TTG
* * * ** * * *
48025227 ATCTTTGCCGGTAAACAGCTTGAAGATGCCCGAACCCTCGCGGATTACAACATCCAGAAAGAGTC
130 ATCTTTGCCGGAAAACAACTCGAAGATGGTCGAACACTTGCAGATTACAACATCCAGAAAGAGTC
48025292 TACCCTCCACCTTGTCCTTCGTCTTAGGGGTGGA
195 TACCCTCCACCTTGTCCTTCGTCTTAGGGGTGGA
*
48025326 ATGCAGATCTTTGTAAAAACCCTTACTGGTAAGACCATCACCCTTGAGGTGGAGAGCTCCGATAC
1 ATGCAGATCTTTGTAAAAACCCTTACTGGTAAGACCATCACCCTTGAGGTGGAAAGCTCCGATAC
* * * * *
48025391 TATCGATAATTTCAAGGCCAAGATCCAAGACAAGGAAGGGATTCCACCAGATCAGCAGAGGTTGA
66 AATCGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAACAGAGGTTGA
* * * *
48025456 T-TTTCTCCGGAAAACAACTCGAAGATGGTAGGACACTTGCAGATTACAACATCCAGAAAGAATC
131 TCTTT-GCCGGAAAACAACTCGAAGATGGTCGAACACTTGCAGATTACAACATCCAGAAAGAGTC
*
48025520 TACCCTCCACCTTGTCCTTCGTCTTAGGGGTGGG
195 TACCCTCCACCTTGTCCTTCGTCTTAGGGGTGGA
* * * * * * * * * * * **
48025554 GTGCAGATTTTTGTAAAAACCCTCACCGGAAAAACTATTA-CATTG-GAGTGGAGAGTTTTGATA
1 ATGCAGATCTTTGTAAAAACCCTTACTGGTAAGACCATCACCCTTGAG-GTGGAAAGCTCCGATA
* * * * * * *
48025617 CGATCGATAATGTTAAGGCCAAGATTCAGGATAAGGAAGGGATCCCACCGGACCAGCAGAGGTTG
65 CAATCGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAACAGAGGTTG
* * * * * * ** * * * *
48025682 ATTTTTGCTGGAAAGCAGCTTGAGGATGGGAGGACACTTGCAGACTATAACATCCA-AAAGGAAT
130 ATCTTTGCCGGAAAACAACTCGAAGATGGTCGAACACTTGCAGATTACAACATCCAGAAA-GAGT
* * * * * * * * * *
48025746 CGACCCTGCATCTGGT-TTTACGACTTCGAGGAGGG
194 CTACCCTCCACCTTGTCCTT-CGTCTTAGGGGTGGA
* * * * * * * *
48025781 ATGCAGATATTCGTGAAGA-CCTTGACCGGTAAAACCATCA-CCTTGGAGGTGGAGAGCTCGGAT
1 ATGCAGATCTTTGTAAAAACCCTT-ACTGGTAAGACCATCACCCTT-GAGGTGGAAAGCTCCGAT
* * * * * * * * * * *
48025844 ACGATCGACAATGTGAAAGCGAAGATTCAGGACAAGGAGGGGATTCCACCAGACCAGCAAAGGTT
64 ACAATCGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAACAGAGGTT
*
48025909 GATATTTGC
129 GATCTTTGC
48025918 TGGGAAGCAG
Statistics
Matches: 692, Mismatches: 118, Indels: 21
0.83 0.14 0.03
Matches are distributed among these distances:
226 9 0.01
227 178 0.26
228 370 0.53
229 135 0.20
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.22
Consensus pattern (228 bp):
ATGCAGATCTTTGTAAAAACCCTTACTGGTAAGACCATCACCCTTGAGGTGGAAAGCTCCGATAC
AATCGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAACAGAGGTTGA
TCTTTGCCGGAAAACAACTCGAAGATGGTCGAACACTTGCAGATTACAACATCCAGAAAGAGTCT
ACCCTCCACCTTGTCCTTCGTCTTAGGGGTGGA
Found at i:48025832 original size:455 final size:457
Alignment explanation
Indices: 48024868--48025917 Score: 1150
Period size: 455 Copynumber: 2.3 Consensus size: 457
48024858 GTTGATCGCA
* *
48024868 GATGCAGATCTTTGTGAAAACCCTTACTGGTAAGACCATCACCCTTGAGGTAGAAAGCTCCGATA
1 GATGCAGATCTTTGTGAAAACCCTTACTGGTAAGACCATCACCCTTGAGGTGGAGAGCTCCGATA
* * * * * *
48024933 CAATCGATAATGTCAAGGCCAAAATCCAAGACAAAGAAGGGATCCCTCCTGACCAACAAAGGCTT
66 CAATCGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATTCCACCAGACCAGCAAAGG-TT
* ** * * * *
48024998 -ATCTTTGCCGGAAAACAAACTCGAGGATGGTCTAACTCTTGCCGACTACAATATCCAAAAGGAG
130 GATCTTTGCCGGAAAACAAACTCGAAGATGGTAGAACACTTGCAGACTACAACATCCAAAAGGAA
* * *
48025062 TCCACCCTCCACCTAGTCCTTCGTCTAAGGGGTGGCATGCAGATATTCGTGAAAACCCTTACTGG
195 TCCACCCTCCACCTAGTCCTTCGTCTAAGGGGTGGCATGCAGATATTCGTAAAAACCCTCACCGG
* * * *
48025127 CAAGACCATCACCCTCGAGGTGGAAAGTTCTGATACAATTGATAATGTCAAGGCCAAGATCCAAG
260 AAAAACCATCACACTCGAGGTGGAAAGTTCTGATACAATCGATAATGTCAAGGCCAAGATCCAAG
48025192 ACAAGGAAGGGATCCCACCAGACCAACAGAGGCTTATCTTTGCCGGTAAACAGCTTGAAGATGCC
325 ACAAGGAAGGGATCCCACCAGACCAACAGAGGCTTATCTTTGCCGGTAAACAGCTTGAAGATGCC
* * * * * * * * *
48025257 CGAACCCTCGCGGATTACAACATCCAGAAAGAGTCTACCCTCCACCTTGTCCTTCGTCTTAGGGG
390 AGAACACTCGCAGACTACAACATCCAGAAAGAATCGACCCTCCACCTGGTCCTTCGACTTAGAGG
*
48025322 TGG
455 AGG
* *
48025325 AATGCAGATCTTTGTAAAAACCCTTACTGGTAAGACCATCACCCTTGAGGTGGAGAGCTCCGATA
1 GATGCAGATCTTTGTGAAAACCCTTACTGGTAAGACCATCACCCTTGAGGTGGAGAGCTCCGATA
* * * *
48025390 CTATCGATAATTTCAAGGCCAAGATCCAAGACAAGGAAGGGATTCCACCAGATCAGCAGAGGTTG
66 CAATCGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATTCCACCAGACCAGCAAAGGTTG
* * *
48025455 AT-TTTCTCCGGAAAAC-AACTCGAAGATGGTAGGACACTTGCAGATTACAACATCCAGAAA-GA
131 ATCTTT-GCCGGAAAACAAACTCGAAGATGGTAGAACACTTGCAGACTACAACATCCA-AAAGGA
* * * ** * *
48025517 ATCTACCCTCCACCTTGTCCTTCGTCTTAGGGGTGGGGTGCAGATTTTTGTAAAAACCCTCACCG
194 ATCCACCCTCCACCTAGTCCTTCGTCTAAGGGGTGGCATGCAGATATTCGTAAAAACCCTCACCG
* * * * * * * * * *
48025582 GAAAAACTATTACATTGGA-GTGGAGAGTTTTGATACGATCGATAATGTTAAGGCCAAGATTCAG
259 GAAAAACCATCACACTCGAGGTGGAAAGTTCTGATACAATCGATAATGTCAAGGCCAAGATCCAA
* * * * * *
48025646 GATAAGGAAGGGATCCCACCGGACCAGCAGAGG-TTGATTTTTGCTGG-AAAGCAGCTTGAGGAT
324 GACAAGGAAGGGATCCCACCAGACCAACAGAGGCTT-ATCTTTGCCGGTAAA-CAGCTTGAAGAT
** * * * * * *
48025709 GGGAGGACACTTGCAGACTATAACATCCA-AAAGGAATCGACCCTGCATCTGGT-TTTACGACTT
387 GCCAGAACACTCGCAGACTACAACATCCAGAAA-GAATCGACCCTCCACCTGGTCCTT-CGACTT
*
48025772 CGAGGAGG
450 AGAGGAGG
* * * * * *
48025780 GATGCAGATATTCGTGAAGA-CCTTGACCGGTAAAACCATCA-CCTTGGAGGTGGAGAGCTCGGA
1 GATGCAGATCTTTGTGAAAACCCTT-ACTGGTAAGACCATCACCCTT-GAGGTGGAGAGCTCCGA
* * * * * * * *
48025843 TACGATCGACAATGTGAAAGCGAAGATTCAGGACAAGGAGGGGATTCCACCAGACCAGCAAAGGT
64 TACAATCGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATTCCACCAGACCAGCAAAGGT
*
48025908 TGATATTTGC
129 TGATCTTTGC
48025918 TGGGAAGCAG
Statistics
Matches: 490, Mismatches: 93, Indels: 22
0.81 0.15 0.04
Matches are distributed among these distances:
454 18 0.04
455 237 0.48
456 108 0.22
457 127 0.26
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.22
Consensus pattern (457 bp):
GATGCAGATCTTTGTGAAAACCCTTACTGGTAAGACCATCACCCTTGAGGTGGAGAGCTCCGATA
CAATCGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATTCCACCAGACCAGCAAAGGTTG
ATCTTTGCCGGAAAACAAACTCGAAGATGGTAGAACACTTGCAGACTACAACATCCAAAAGGAAT
CCACCCTCCACCTAGTCCTTCGTCTAAGGGGTGGCATGCAGATATTCGTAAAAACCCTCACCGGA
AAAACCATCACACTCGAGGTGGAAAGTTCTGATACAATCGATAATGTCAAGGCCAAGATCCAAGA
CAAGGAAGGGATCCCACCAGACCAACAGAGGCTTATCTTTGCCGGTAAACAGCTTGAAGATGCCA
GAACACTCGCAGACTACAACATCCAGAAAGAATCGACCCTCCACCTGGTCCTTCGACTTAGAGGA
GG
Found at i:48034887 original size:38 final size:38
Alignment explanation
Indices: 48034790--48034894 Score: 133
Period size: 37 Copynumber: 2.8 Consensus size: 38
48034780 AATCACCAGC
* * *
48034790 ACAAAGGCTTGCTAGGCATATAGCCTGAATACACCGGC
1 ACAAAGGCTTGCTAGGCACATAGCCTGAATAAACCGGA
*
48034828 ACGAAA--CTTGCTAGGCACATAGCTTGAATAAACCGGA
1 AC-AAAGGCTTGCTAGGCACATAGCCTGAATAAACCGGA
* *
48034865 ACAAAGGCCTGCTAGGCACATAGCCCGAAT
1 ACAAAGGCTTGCTAGGCACATAGCCTGAAT
48034895 GCTTAGATGT
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
36 3 0.05
37 29 0.51
38 22 0.39
39 3 0.05
ACGTcount: A:0.34, C:0.26, G:0.23, T:0.17
Consensus pattern (38 bp):
ACAAAGGCTTGCTAGGCACATAGCCTGAATAAACCGGA
Found at i:48052396 original size:6 final size:6
Alignment explanation
Indices: 48052378--48052409 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
48052368 GTTCATTAAC
*
48052378 ATCAAG ATAAAG ATCAAG ATCAAG ATCAAG AT
1 ATCAAG ATCAAG ATCAAG ATCAAG ATCAAG AT
48052410 AAGGTTTGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.53, C:0.12, G:0.16, T:0.19
Consensus pattern (6 bp):
ATCAAG
Found at i:48059067 original size:9 final size:9
Alignment explanation
Indices: 48059053--48059079 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
48059043 TTAAGTATGC
48059053 ATCATGCAT
1 ATCATGCAT
48059062 ATCATGCAT
1 ATCATGCAT
48059071 ATCATGCAT
1 ATCATGCAT
48059080 CATTTGAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (9 bp):
ATCATGCAT
Found at i:48060963 original size:18 final size:18
Alignment explanation
Indices: 48060932--48060983 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
48060922 AATTTATATG
* *
48060932 AAAATACCTTAAGGATTT
1 AAAATCCCTGAAGGATTT
48060950 AAAATCCCTGAAGGATTT
1 AAAATCCCTGAAGGATTT
*
48060968 AAAATCCCAGAAGGAT
1 AAAATCCCTGAAGGAT
48060984 ATAGAGTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (18 bp):
AAAATCCCTGAAGGATTT
Found at i:48063148 original size:30 final size:30
Alignment explanation
Indices: 48063112--48063177 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
48063102 GGATGTAACC
* *
48063112 TGAAAATAGAATAATAAAACTAGAGAACTA
1 TGAAAATAGAAGAAGAAAACTAGAGAACTA
*
48063142 TGAAAATAGAAGAAGAAAACTAGTGAACTA
1 TGAAAATAGAAGAAGAAAACTAGAGAACTA
48063172 TGAAAA
1 TGAAAA
48063178 AAATAGAAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.59, C:0.06, G:0.17, T:0.18
Consensus pattern (30 bp):
TGAAAATAGAAGAAGAAAACTAGAGAACTA
Found at i:48063186 original size:30 final size:30
Alignment explanation
Indices: 48063112--48063187 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
48063102 GGATGTAACC
* * *
48063112 TGAAAATAGAATAATAAAACTAGAGAACTA
1 TGAAAATAAAAGAAGAAAACTAGAGAACTA
* *
48063142 TGAAAATAGAAGAAGAAAACTAGTGAACTA
1 TGAAAATAAAAGAAGAAAACTAGAGAACTA
48063172 TGAAAA-AAATAGAAGA
1 TGAAAATAAA-AGAAGA
48063188 GGAGAACTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 2 0.05
30 39 0.95
ACGTcount: A:0.61, C:0.05, G:0.17, T:0.17
Consensus pattern (30 bp):
TGAAAATAAAAGAAGAAAACTAGAGAACTA
Found at i:48064814 original size:19 final size:18
Alignment explanation
Indices: 48064790--48064876 Score: 68
Period size: 19 Copynumber: 4.4 Consensus size: 18
48064780 ATTTGGTTTC
48064790 AAATTTATTTCTAAAGTTT
1 AAATTTATTTCTAAA-TTT
*
48064809 AAATTTAATTTAGATTTAAATTT
1 AAATTT-A-TT---TCTAAATTT
48064832 AAAAATTTATTT-TAAATTT
1 --AAATTTATTTCTAAATTT
*
48064851 AAATTTTTTTTCTAAATTT
1 AAA-TTTATTTCTAAATTT
48064870 AAATTTA
1 AAATTTA
48064877 GCTTAAATAT
Statistics
Matches: 56, Mismatches: 3, Indels: 19
0.72 0.04 0.24
Matches are distributed among these distances:
17 3 0.05
18 9 0.16
19 23 0.41
20 2 0.04
21 2 0.04
23 5 0.09
24 6 0.11
25 6 0.11
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (18 bp):
AAATTTATTTCTAAATTT
Found at i:48064825 original size:6 final size:6
Alignment explanation
Indices: 48064801--48064876 Score: 57
Period size: 6 Copynumber: 12.3 Consensus size: 6
48064791 AATTTATTTC
* *
48064801 TAAAGTT TAAATT T-AATT TAGATT TAAATT TAAAAATT T-ATTT TAAATT
1 TAAA-TT TAAATT TAAATT TAAATT TAAATT T--AAATT TAAATT TAAATT
***
48064850 TAAATT TTTTTT CTAAATT TAAATT TA
1 TAAATT TAAATT -TAAATT TAAATT TA
48064877 GCTTAAATAT
Statistics
Matches: 54, Mismatches: 10, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
5 9 0.17
6 32 0.59
7 7 0.13
8 6 0.11
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (6 bp):
TAAATT
Found at i:48064845 original size:25 final size:25
Alignment explanation
Indices: 48064809--48064856 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
48064799 TCTAAAGTTT
*
48064809 AAATTTAATTTAGATTTAAATTTAA
1 AAATTTAATTTAAATTTAAATTTAA
*
48064834 AAATTTATTTTAAATTTAAATTT
1 AAATTTAATTTAAATTTAAATTT
48064857 TTTTTCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
AAATTTAATTTAAATTTAAATTTAA
Found at i:48066925 original size:59 final size:58
Alignment explanation
Indices: 48066861--48067174 Score: 326
Period size: 59 Copynumber: 5.3 Consensus size: 58
48066851 TGAAACTTTT
* * * *
48066861 AAAAATTATCGTTTTACCCCCAAACTTTCCAAAATTCAATTTTTGACCTCGATTTTACC
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTC-ATTTTTAACCTCGATTTCACC
* ** * * *
48066920 CAAAATTACCATTTTACCCCTGAACCTTCCAAAATTCCATTTTTAACCTCGATTCCATC
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATT-CATTTTTAACCTCGATTTCACC
* * * *
48066979 AAAAATCACCATTTTACCCCTAAACTTTCCAAAATTTCATTTTTAACCCCGATTTCATC
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAAA-TTCATTTTTAACCTCGATTTCACC
*** ** *
48067038 AAAAATTACCATTTTACTTTCAAACTTTCCAAAACCCCATTTTTAGCCTCGATTTCACC
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAAA-TTCATTTTTAACCTCGATTTCACC
* * ** *
48067097 AAAAATTACCGTTTTACCCGCAAACTTTCCAAAATTTCATTTTTGGCC-CTAATTTCACC
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAAA-TTCATTTTTAACCTC-GATTTCACC
48067156 AAAAATTA-CATTTTTACCC
1 AAAAATTACCA-TTTTACCC
48067175 TCAGAAGTCA
Statistics
Matches: 214, Mismatches: 37, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
58 2 0.01
59 209 0.98
60 3 0.01
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.36
Consensus pattern (58 bp):
AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCATTTTTAACCTCGATTTCACC
Found at i:48066955 original size:29 final size:29
Alignment explanation
Indices: 48066919--48067014 Score: 88
Period size: 29 Copynumber: 3.3 Consensus size: 29
48066909 TCGATTTTAC
48066919 CCAAAATTACCATTTTACCCCTGAACCTT
1 CCAAAATTACCATTTTACCCCTGAACCTT
* * *
48066948 CCAAAATT-CCATTTTTA-ACCTCGATTCCAT
1 CCAAAATTACCA-TTTTACCCCT-GA-ACCTT
* * * *
48066978 CAAAAATCACCATTTTACCCCTAAACTTT
1 CCAAAATTACCATTTTACCCCTGAACCTT
48067007 CCAAAATT
1 CCAAAATT
48067015 TCATTTTTAA
Statistics
Matches: 50, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
28 6 0.12
29 23 0.46
30 15 0.30
31 6 0.12
ACGTcount: A:0.34, C:0.31, G:0.02, T:0.32
Consensus pattern (29 bp):
CCAAAATTACCATTTTACCCCTGAACCTT
Found at i:48067011 original size:118 final size:117
Alignment explanation
Indices: 48066872--48067177 Score: 366
Period size: 118 Copynumber: 2.6 Consensus size: 117
48066862 AAAATTATCG
* * *
48066872 TTTTACCCCCAAACTTTCCAAAA-TTCAATTTTTGACCTCGATTTTACCCAAAATTACCATTTTA
1 TTTTA-CCCCAAACTTTCCAAAATTTC-ATTTTTGACCCCGATTTCACCAAAAATTACCATTTTA
* ** *
48066936 CCC-CTGAACCTTCCAAAATTCCATTTTTAACCTCGATTCCATCAAAAATCACCA
64 CCCTC-AAACCTTCCAAAACCCCATTTTTAACCTCGATTCCACCAAAAATCACCA
* *
48066990 TTTTACCCCTAAACTTTCCAAAATTTCATTTTTAACCCCGATTTCATCAAAAATTACCATTTTAC
1 TTTTACCCC-AAACTTTCCAAAATTTCATTTTTGACCCCGATTTCACCAAAAATTACCATTTTAC
** * * * * *
48067055 TTTCAAACTTTCCAAAACCCCATTTTTAGCCTCGATTTCACCAAAAATTACCG
65 CCTCAAACCTTCCAAAACCCCATTTTTAACCTCGATTCCACCAAAAATCACCA
* **
48067108 TTTTACCCGCAAACTTTCCAAAATTTCATTTTTGGCCCTAATTTCACCAAAAATTA-CATTTTTA
1 TTTTACCC-CAAACTTTCCAAAATTTCATTTTTGACCCCGATTTCACCAAAAATTACCA-TTTTA
48067172 CCCTCA
64 CCCTCA
48067178 GAAGTCAAAA
Statistics
Matches: 160, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
117 6 0.04
118 149 0.93
119 5 0.03
ACGTcount: A:0.32, C:0.29, G:0.04, T:0.36
Consensus pattern (117 bp):
TTTTACCCCAAACTTTCCAAAATTTCATTTTTGACCCCGATTTCACCAAAAATTACCATTTTACC
CTCAAACCTTCCAAAACCCCATTTTTAACCTCGATTCCACCAAAAATCACCA
Found at i:48067053 original size:30 final size:30
Alignment explanation
Indices: 48066950--48067052 Score: 81
Period size: 30 Copynumber: 3.4 Consensus size: 30
48066940 TGAACCTTCC
* *
48066950 AAAATTCCATTTTTAACCTCGATTCCATCA
1 AAAATTCCATTTTTAACCCCGATTTCATCA
* *
48066980 AAAATCACCA-TTTT-ACCCCTAAACTTTC--C-
1 AAAAT-TCCATTTTTAACCCC--GA-TTTCATCA
*
48067009 AAAATTTCATTTTTAACCCCGATTTCATCA
1 AAAATTCCATTTTTAACCCCGATTTCATCA
48067039 AAAATTACCATTTT
1 AAAATT-CCATTTT
48067053 ACTTTCAAAC
Statistics
Matches: 55, Mismatches: 8, Indels: 19
0.67 0.10 0.23
Matches are distributed among these distances:
27 4 0.07
28 3 0.05
29 14 0.25
30 21 0.38
31 10 0.18
32 3 0.05
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.37
Consensus pattern (30 bp):
AAAATTCCATTTTTAACCCCGATTTCATCA
Found at i:48067175 original size:29 final size:29
Alignment explanation
Indices: 48067075--48067175 Score: 73
Period size: 30 Copynumber: 3.4 Consensus size: 29
48067065 TCCAAAACCC
* *
48067075 CATTTTTAGCCTCGATTTCACCAAAAATTA
1 CATTTTTACCCT-AATTTCACCAAAAATTA
** * *
48067105 CCGTTTTACCCGCAAACTTT--CC-AAAATTT
1 CATTTTTA-CC-CTAA-TTTCACCAAAAATTA
*
48067134 CATTTTTGGCCCTAATTTCACCAAAAATTA
1 CATTTTT-ACCCTAATTTCACCAAAAATTA
48067164 CATTTTTACCCT
1 CATTTTTACCCT
48067176 CAGAAGTCAA
Statistics
Matches: 52, Mismatches: 12, Indels: 15
0.66 0.15 0.19
Matches are distributed among these distances:
27 3 0.06
28 3 0.06
29 19 0.37
30 21 0.40
31 2 0.04
32 4 0.08
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.38
Consensus pattern (29 bp):
CATTTTTACCCTAATTTCACCAAAAATTA
Found at i:48076436 original size:21 final size:22
Alignment explanation
Indices: 48076412--48076454 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
48076402 ATAATTAAAT
48076412 AAGTTGTAA-TTAATAGGTGAA
1 AAGTTGTAACTTAATAGGTGAA
*
48076433 AAGTTGTAACTTAATCGGTGAA
1 AAGTTGTAACTTAATAGGTGAA
48076455 TAGATAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.33
Consensus pattern (22 bp):
AAGTTGTAACTTAATAGGTGAA
Found at i:48077550 original size:18 final size:19
Alignment explanation
Indices: 48077516--48077551 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
48077506 TACAAAATAA
*
48077516 TCAAAATAATTTTTAAAAT
1 TCAAAATAATTTATAAAAT
48077535 TCAAAAT-ATTTATAAAA
1 TCAAAATAATTTATAAAA
48077552 GTTCTAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (19 bp):
TCAAAATAATTTATAAAAT
Found at i:48091602 original size:30 final size:30
Alignment explanation
Indices: 48091553--48091617 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
48091543 TAGTTTATAT
* *
48091553 TTTTATAATTTTTAAATGATTAAATTAAAA
1 TTTTATAATTTTTAAATGATAAAAGTAAAA
* *
48091583 TTTTATAA-TTTTAGGATGATAAAAGTATAA
1 TTTTATAATTTTTA-AATGATAAAAGTAAAA
48091613 TTTTA
1 TTTTA
48091618 CATTTATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 5 0.17
30 25 0.83
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (30 bp):
TTTTATAATTTTTAAATGATAAAAGTAAAA
Found at i:48093012 original size:27 final size:26
Alignment explanation
Indices: 48092967--48093021 Score: 92
Period size: 27 Copynumber: 2.1 Consensus size: 26
48092957 TTTAAAAAAA
48092967 AAGATGAGAAAAAGTGGTAGTGGATG
1 AAGATGAGAAAAAGTGGTAGTGGATG
*
48092993 AAGATGAGGAATAAGTGGTAGTGGATG
1 AAGATGA-GAAAAAGTGGTAGTGGATG
48093020 AA
1 AA
48093022 AAAGGAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (26 bp):
AAGATGAGAAAAAGTGGTAGTGGATG
Found at i:48093935 original size:27 final size:26
Alignment explanation
Indices: 48093901--48093951 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
48093891 TTCATTTTCA
*
48093901 TTTTTTAATATTTTTGTAAATTTAAT
1 TTTTTTAATATTTTTCTAAATTTAAT
* *
48093927 TTTTATTAATTTTTTTCTAATTTTA
1 TTTT-TTAATATTTTTCTAAATTTA
48093952 TTCTGCTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.19
27 17 0.81
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (26 bp):
TTTTTTAATATTTTTCTAAATTTAAT
Found at i:48094896 original size:54 final size:54
Alignment explanation
Indices: 48094809--48095016 Score: 249
Period size: 54 Copynumber: 3.8 Consensus size: 54
48094799 GTTATCTTAG
* *
48094809 GCCTATGATCACAAGCTGAATGGAAAGAGA-TTTTGAGTTGAAGGACTTGCCTGT
1 GCCTGTGATCACAAGATGAATGGAAAGA-ATTTTTGAGTTGAAGGACTTGCCTGT
* * * *
48094863 GCCTGTGATCACAAGATAAATGGAAA-AATATTTTGAGGTGAAGGATTTACCTGTT
1 GCCTGTGATCACAAGATGAATGGAAAGAAT-TTTTGAGTTGAAGGACTTGCCTG-T
* * * * * * *
48094918 GCCTGTGATCACAAGGTGAATGGAAAGAGTCTCTGACTTGCAGGAGTTGCCTGT
1 GCCTGTGATCACAAGATGAATGGAAAGAATTTTTGAGTTGAAGGACTTGCCTGT
*
48094972 GCCTGTGATCACAAGATGAATGGAAAGAATTCTTGAGTTGAAGGA
1 GCCTGTGATCACAAGATGAATGGAAAGAATTTTTGAGTTGAAGGA
48095017 TTCATCCTCA
Statistics
Matches: 127, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
52 1 0.01
53 1 0.01
54 82 0.65
55 41 0.32
56 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (54 bp):
GCCTGTGATCACAAGATGAATGGAAAGAATTTTTGAGTTGAAGGACTTGCCTGT
Found at i:48094945 original size:109 final size:109
Alignment explanation
Indices: 48094809--48095018 Score: 307
Period size: 109 Copynumber: 1.9 Consensus size: 109
48094799 GTTATCTTAG
* *
48094809 GCCTATGATCACAAGCTGAATGGAAAGAGAT-TTTGAGTTGAAGGACTTGCCTGTGCCTGTGATC
1 GCCTATGATCACAAGCTGAATGGAAAGAG-TCTCTGACTTGAAGGACTTGCCTGTGCCTGTGATC
*
48094873 ACAAGATAAATGGAAA-AATATTTTGAGGTGAAGGATTTACCTGTT
65 ACAAGATAAATGGAAAGAAT-TCTTGAGGTGAAGGATTTACCTGTT
* * * *
48094918 GCCTGTGATCACAAGGTGAATGGAAAGAGTCTCTGACTTGCAGGAGTTGCCTGTGCCTGTGATCA
1 GCCTATGATCACAAGCTGAATGGAAAGAGTCTCTGACTTGAAGGACTTGCCTGTGCCTGTGATCA
* *
48094983 CAAGATGAATGGAAAGAATTCTTGAGTTGAAGGATT
66 CAAGATAAATGGAAAGAATTCTTGAGGTGAAGGATT
48095019 CATCCTCATT
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
108 1 0.01
109 86 0.96
110 3 0.03
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (109 bp):
GCCTATGATCACAAGCTGAATGGAAAGAGTCTCTGACTTGAAGGACTTGCCTGTGCCTGTGATCA
CAAGATAAATGGAAAGAATTCTTGAGGTGAAGGATTTACCTGTT
Found at i:48100676 original size:21 final size:23
Alignment explanation
Indices: 48100652--48100697 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
48100642 CCTCATCAAA
48100652 TAAAATTTGTTATATT-TA-AAT
1 TAAAATTTGTTATATTGTACAAT
* *
48100673 TAAAGTTTTTTATATTGTACAAT
1 TAAAATTTGTTATATTGTACAAT
48100696 TA
1 TA
48100698 GAGGGTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 2 0.10
23 5 0.24
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (23 bp):
TAAAATTTGTTATATTGTACAAT
Found at i:48105295 original size:18 final size:18
Alignment explanation
Indices: 48105269--48105303 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48105259 TTACTATTAT
*
48105269 TATTAATTTTTTTTGATA
1 TATTAATTTTGTTTGATA
*
48105287 TATTTATTTTGTTTGAT
1 TATTAATTTTGTTTGAT
48105304 TTGCCTCAGC
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:0.23, C:0.00, G:0.09, T:0.69
Consensus pattern (18 bp):
TATTAATTTTGTTTGATA
Found at i:48106059 original size:6 final size:6
Alignment explanation
Indices: 48106048--48106072 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
48106038 ATTAAGGATC
48106048 TTAATT TTAATT TTAATT TTAATT T
1 TTAATT TTAATT TTAATT TTAATT T
48106073 ATCGAAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTAATT
Found at i:48107500 original size:2 final size:2
Alignment explanation
Indices: 48107493--48107519 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
48107483 CTTACATACA
48107493 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
48107520 GAGAGAGAGA
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:48111204 original size:184 final size:183
Alignment explanation
Indices: 48110432--48111299 Score: 1512
Period size: 181 Copynumber: 4.7 Consensus size: 183
48110422 ACAAAATATA
*
48110432 TTAGAGAGTCATTAAAATGCTCAATAATACAAAAGAAATAAAAAAGAGGGTTATTAAAATAAAAA
1 TTAGAGAGTCATTAAAATGCTCAATAATCCAAAAGAAA-AAAAAAGAGGGTTATTAAAATAAAAA
* *
48110497 TGAAGTGCATAAAGTCACAAAATGGATTGCTAACAAGAGAAGAATTGGAAATCATATCACTATAA
65 TGAAGTGCATAAAGTCACAAAATGGATTGTTAATAAGAGAAGAATTGGAAATCATATCACTATAA
*
48110562 C-AAAGTTGTGTATAATGACCACGGTATGTAGCTGAGTGTTAGACAATAATACT
130 CAAAAGTTGTGTATAATGACCACGGTACGTAGCTGAGTGTTAGACAATAATACT
*
48110615 TTAGAGAATCATTAAAATGCTCAATAATCCAAAAGAAAAAAAAA-AGGGTTATTAAAATAAAAAT
1 TTAGAGAGTCATTAAAATGCTCAATAATCCAAAAGAAAAAAAAAGAGGGTTATTAAAATAAAAAT
* *
48110679 GAAGTGCATAAAGTCACAAAATGGATTGTTAACAAGAGAAGAATAGGAAATCATATCACTATAAC
66 GAAGTGCATAAAGTCACAAAATGGATTGTTAATAAGAGAAGAATTGGAAATCATATCACTATAAC
*
48110744 -AAAGTTGTGTATAATGACCACGGTATGTAGCTGAGTGTTAGACAATAATACT
131 AAAAGTTGTGTATAATGACCACGGTACGTAGCTGAGTGTTAGACAATAATACT
48110796 TTAGAGAGTCATTAAAATGCTCAATAATCCAAAAGAAAAAAAAA-AGGGTTATTAAAATAAAAAT
1 TTAGAGAGTCATTAAAATGCTCAATAATCCAAAAGAAAAAAAAAGAGGGTTATTAAAATAAAAAT
*
48110860 GAAGTGCATAAAGTCACAAAATGGATTGTTAATAAGAGAAGAACTGGAAATCATATCACTATAAC
66 GAAGTGCATAAAGTCACAAAATGGATTGTTAATAAGAGAAGAATTGGAAATCATATCACTATAAC
*
48110925 AAAAGTTGTGTATAATGACCACGGTACGTAGCTGAGTGCTAGACAATAATACT
131 AAAAGTTGTGTATAATGACCACGGTACGTAGCTGAGTGTTAGACAATAATACT
* *
48110978 TTAGAGAGGCATTAAAATGCTCAATAATCCAAAAGAAAAAAAAAAGAAGGTTATTAAAATAAAAA
1 TTAGAGAGTCATTAAAATGCTCAATAATCCAAAAG-AAAAAAAAAGAGGGTTATTAAAATAAAAA
* *
48111043 TGAAGTGCATAAAGTCACAAAATGGATTGTTAATAAGAGAAGAATTAGAAATCATATCGCTATTA
65 TGAAGTGCATAAAGTCACAAAATGGATTGTTAATAAGAGAAGAATTGGAAATCATATCACTA-TA
*
48111108 ACAAAAGTTGTGTATAATGACCA-GAGTACATAGCTGAGTGTTAGACAATAATACT
129 ACAAAAGTTGTGTATAATGACCACG-GTACGTAGCTGAGTGTTAGACAATAATACT
*
48111163 TTAGAGAGTCATTAAAATGCTCAATAATCCAAAAGAAAAAAAAAGAGAGTTATTAAAATAAAAAT
1 TTAGAGAGTCATTAAAATGCTCAATAATCCAAAAGAAAAAAAAAGAGGGTTATTAAAATAAAAAT
*
48111228 GAAGCGCATAAAGTCACAAAATGGATTGTTAATAAGAGAAGAATTGGAAATCATATCACTATAAC
66 GAAGTGCATAAAGTCACAAAATGGATTGTTAATAAGAGAAGAATTGGAAATCATATCACTATAAC
48111293 AAAAGTT
131 AAAAGTT
48111300 ATATGGTACG
Statistics
Matches: 657, Mismatches: 23, Indels: 10
0.95 0.03 0.01
Matches are distributed among these distances:
181 260 0.40
182 90 0.14
183 56 0.09
184 164 0.25
185 87 0.13
ACGTcount: A:0.48, C:0.10, G:0.17, T:0.25
Consensus pattern (183 bp):
TTAGAGAGTCATTAAAATGCTCAATAATCCAAAAGAAAAAAAAAGAGGGTTATTAAAATAAAAAT
GAAGTGCATAAAGTCACAAAATGGATTGTTAATAAGAGAAGAATTGGAAATCATATCACTATAAC
AAAAGTTGTGTATAATGACCACGGTACGTAGCTGAGTGTTAGACAATAATACT
Found at i:48114222 original size:25 final size:25
Alignment explanation
Indices: 48114178--48114231 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
48114168 AAAGTAAAAG
* * *
48114178 AATTAATTTAAATTATAAAATATTT
1 AATTAAATTAAATTATAAAAAATTC
48114203 AATTAAATTAAATTGA-AAAAAATTC
1 AATTAAATTAAATT-ATAAAAAATTC
48114228 AATT
1 AATT
48114232 TTTTACACTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (25 bp):
AATTAAATTAAATTATAAAAAATTC
Found at i:48115451 original size:22 final size:24
Alignment explanation
Indices: 48115426--48115470 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
48115416 ATTACATTTA
*
48115426 TATT-TTT-TTTAGGAGTCCAATT
1 TATTGTTTATTTAGGACTCCAATT
48115448 TATTGTTTAGTTTAGGACTCCAA
1 TATTGTTTA-TTTAGGACTCCAA
48115471 AAATATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 3 0.16
25 12 0.63
ACGTcount: A:0.24, C:0.11, G:0.16, T:0.49
Consensus pattern (24 bp):
TATTGTTTATTTAGGACTCCAATT
Found at i:48117242 original size:18 final size:18
Alignment explanation
Indices: 48117202--48117244 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
48117192 GTTCAAGGTG
48117202 TAATTAATTTAAAATTTT
1 TAATTAATTTAAAATTTT
* *
48117220 CAATTAA-TTAAATTTATT
1 TAATTAATTTAAAATT-TT
48117238 TAATTAA
1 TAATTAA
48117245 AAACTTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTAATTTAAAATTTT
Found at i:48119352 original size:462 final size:462
Alignment explanation
Indices: 48118797--48120649 Score: 3688
Period size: 462 Copynumber: 4.0 Consensus size: 462
48118787 ATTCAACAAA
48118797 AATTGAAAATGGTCACAACTTGTTCAGAATTTCTAAGTTTTCTGTTTTAAGTAAACTACTTTGGG
1 AATTGAAAATGGTCACAACTTGTTCAGAATTTCTAAGTTTTCTGTTTTAAGTAAACTACTTTGGG
48118862 AGCTTAGTTCTTGTAAGAAAGAACTCAATTTGGCTAGAAAAACAAACCAATAGAAAGATCACATT
66 AGCTTAGTTCTTGTAAGAAAGAACTCAATTTGGCTAGAAAAACAAACCAATAGAAAGATCACATT
48118927 TCATACAGCATAAATCATTTAAAATTCGACTAGAATGAAAAACAATAAAAGGTTTTAAAAAATCT
131 TCATACAGCATAAATCATTTAAAATTCGACTAGAATGAAAAACAATAAAAGGTTTTAAAAAATCT
48118992 TAAGTTTAGTTATCCAAAACTCTTGAAAGCTTTAAGGTTGGGGTTTCGAATTAGATTTTAATTTA
196 TAAGTTTAGTTATCCAAAACTCTTGAAAGCTTTAAGGTTGGGGTTTCGAATTAGATTTTAATTTA
48119057 GGGTATTGATTTTAATGTTAATTTGGGGTTTTAATATTGAGTTCAGTTTGGAGTTTCATTTCCAA
261 GGGTATTGATTTTAATGTTAATTTGGGGTTTTAATATTGAGTTCAGTTTGGAGTTTCATTTCCAA
48119122 GATGTTTCAGTTGTGTGAGGTTAATTAAAGAAGTGTGATAATTCTATAATTTTATAATATATATA
326 GATGTTTCAGTTGTGTGAGGTTAATTAAAGAAGTGTGATAATTCTATAATTTTATAATATATATA
48119187 AATATAAAGGTTCAACAATGAATTTTGAAAATTAAGTTAATATATATAACCTCCCGTGTATTCAA
391 AATATAAAGGTTCAACAATGAATTTTGAAAATTAAGTTAATATATATAACCTCCCGTGTATTCAA
48119252 AATGTTG
456 AATGTTG
48119259 AATTGAAAATGGTCACAACTTGTTCAGAATTTCTAAGTTTTCTGTTTTAAGTAAACTACTTTGGG
1 AATTGAAAATGGTCACAACTTGTTCAGAATTTCTAAGTTTTCTGTTTTAAGTAAACTACTTTGGG
48119324 AGCTTAGTTCTTGTAAGAAAGAACTCAATTTGGCTAGAAAAACAAACCAATAGAAAGATCACATT
66 AGCTTAGTTCTTGTAAGAAAGAACTCAATTTGGCTAGAAAAACAAACCAATAGAAAGATCACATT
48119389 TCATACAGCATAAATCATTTAAAATTCGACTAGAATGAAAAACAATAAAAGGTTTTAAAAAATCT
131 TCATACAGCATAAATCATTTAAAATTCGACTAGAATGAAAAACAATAAAAGGTTTTAAAAAATCT
48119454 TAAGTTTAGTTATCCAAAACTCTTGAAAGCTTTAAGGTTGGGGTTTCGAATTAGATTTTAATTTA
196 TAAGTTTAGTTATCCAAAACTCTTGAAAGCTTTAAGGTTGGGGTTTCGAATTAGATTTTAATTTA
48119519 GGGTATTGATTTTAATGTTAATTTGGGGTTTTAATATTGAGTTCAGTTTGGAGTTTCATTTCCAA
261 GGGTATTGATTTTAATGTTAATTTGGGGTTTTAATATTGAGTTCAGTTTGGAGTTTCATTTCCAA
48119584 GATGTTTCAGTTGTGTGAGGTTAATTAAAGAAGTGTGATAATTCTATAATTTTATAATATATATA
326 GATGTTTCAGTTGTGTGAGGTTAATTAAAGAAGTGTGATAATTCTATAATTTTATAATATATATA
48119649 AATATAAAGGTTCAACAATGAATTTTGAAAATTAAGTTAATATATATAACCTCCCGTGTATTCAA
391 AATATAAAGGTTCAACAATGAATTTTGAAAATTAAGTTAATATATATAACCTCCCGTGTATTCAA
48119714 AATGTTG
456 AATGTTG
48119721 AATTGAAAATGGTCACAACTTGTTCAGAATTTCTAAGTTTTCTGTTTTAAGTAAACTACTTTGGG
1 AATTGAAAATGGTCACAACTTGTTCAGAATTTCTAAGTTTTCTGTTTTAAGTAAACTACTTTGGG
48119786 AGCTTAGTTCTTGTAAGAAAGAACTCAATTTGGCTAGAAAAACAAACCAATAGAAAGATCACATT
66 AGCTTAGTTCTTGTAAGAAAGAACTCAATTTGGCTAGAAAAACAAACCAATAGAAAGATCACATT
48119851 TCATACAGCATAAATCATTTAAAATTCGACTAGAATGAAAAACAATAAAAGGTTTTAAAAAATCT
131 TCATACAGCATAAATCATTTAAAATTCGACTAGAATGAAAAACAATAAAAGGTTTTAAAAAATCT
48119916 TAAGTTTAGTTATCCAAAACTCTTGAAAGCTTTAAGGTTGGGGTTTCGAATTAGATTTTAATTTA
196 TAAGTTTAGTTATCCAAAACTCTTGAAAGCTTTAAGGTTGGGGTTTCGAATTAGATTTTAATTTA
48119981 GGGTATTGATTTTAATGTTAATTTGGGGTTTTAATATTGAGTTCAGTTTGGAGTTTCATTTCCAA
261 GGGTATTGATTTTAATGTTAATTTGGGGTTTTAATATTGAGTTCAGTTTGGAGTTTCATTTCCAA
48120046 GATGTTTCAGTTGTGTGAGGTTAATTAAAGAAGTGTGATAATTCTATAATTTTATAATATATATA
326 GATGTTTCAGTTGTGTGAGGTTAATTAAAGAAGTGTGATAATTCTATAATTTTATAATATATATA
48120111 AATATAAAGGTTCAACAATGAATTTTGAAAATTAAGTTAATATATATAACCTCCCGTGTATTCAA
391 AATATAAAGGTTCAACAATGAATTTTGAAAATTAAGTTAATATATATAACCTCCCGTGTATTCAA
48120176 AATGTTG
456 AATGTTG
48120183 AATTGAAAATGGTCACAACTTGTTCAGAATTTCTAAGTTTTCTGTTTTAAGTAAACTACTTTGGG
1 AATTGAAAATGGTCACAACTTGTTCAGAATTTCTAAGTTTTCTGTTTTAAGTAAACTACTTTGGG
48120248 AGCTTAGTTCTTGTAAGAAAGAACTCAATTTGGCTAGAAAAACAAACCAATAGAAAGATCACATT
66 AGCTTAGTTCTTGTAAGAAAGAACTCAATTTGGCTAGAAAAACAAACCAATAGAAAGATCACATT
48120313 TCATACAGCATAAATCATTTAAAATTCGACTAGAATGAAAAACAATAAAAGGTTTTAAAAAATCT
131 TCATACAGCATAAATCATTTAAAATTCGACTAGAATGAAAAACAATAAAAGGTTTTAAAAAATCT
48120378 TAAGTTTAGTTATCCAAAACTCTTGAAAGCTTTAAGGTTGGGGTTTCGAATTAGATTTTAATTTA
196 TAAGTTTAGTTATCCAAAACTCTTGAAAGCTTTAAGGTTGGGGTTTCGAATTAGATTTTAATTTA
48120443 GGGTATTGATTTTAATGTTAATTTGGGGTTTTAATATTGAGTTCAGTTTGGAGTTTCATTTCCAA
261 GGGTATTGATTTTAATGTTAATTTGGGGTTTTAATATTGAGTTCAGTTTGGAGTTTCATTTCCAA
48120508 GATGTTTCAGTTGTGTGAGGTTAATTAAAGAAGTGTGATAATTCTATAATTTTATAATATATATA
326 GATGTTTCAGTTGTGTGAGGTTAATTAAAGAAGTGTGATAATTCTATAATTTTATAATATATATA
48120573 AATATAAAGGTTCAACAATGAATTTTGAAAATTAAGTTAATATATATAACCTCCCGTGTATTCAA
391 AATATAAAGGTTCAACAATGAATTTTGAAAATTAAGTTAATATATATAACCTCCCGTGTATTCAA
*
48120638 AATTTATG
456 AATGT-TG
48120646 AATT
1 AATT
48120650 TTCATGACTT
Statistics
Matches: 1389, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
462 1383 1.00
463 6 0.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (462 bp):
AATTGAAAATGGTCACAACTTGTTCAGAATTTCTAAGTTTTCTGTTTTAAGTAAACTACTTTGGG
AGCTTAGTTCTTGTAAGAAAGAACTCAATTTGGCTAGAAAAACAAACCAATAGAAAGATCACATT
TCATACAGCATAAATCATTTAAAATTCGACTAGAATGAAAAACAATAAAAGGTTTTAAAAAATCT
TAAGTTTAGTTATCCAAAACTCTTGAAAGCTTTAAGGTTGGGGTTTCGAATTAGATTTTAATTTA
GGGTATTGATTTTAATGTTAATTTGGGGTTTTAATATTGAGTTCAGTTTGGAGTTTCATTTCCAA
GATGTTTCAGTTGTGTGAGGTTAATTAAAGAAGTGTGATAATTCTATAATTTTATAATATATATA
AATATAAAGGTTCAACAATGAATTTTGAAAATTAAGTTAATATATATAACCTCCCGTGTATTCAA
AATGTTG
Found at i:48122959 original size:20 final size:21
Alignment explanation
Indices: 48122934--48122979 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
48122924 TTACCTCTCA
* *
48122934 TTTTCCACTGGTTTGGTTT-G
1 TTTTCCACTGATTTGATTTGG
48122954 TTTTCCACTGATTTGATTTGG
1 TTTTCCACTGATTTGATTTGG
48122975 TTTTC
1 TTTTC
48122980 TCTAGCAAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.09, C:0.15, G:0.20, T:0.57
Consensus pattern (21 bp):
TTTTCCACTGATTTGATTTGG
Found at i:48128963 original size:30 final size:31
Alignment explanation
Indices: 48128924--48128982 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
48128914 AAGTGTCAAC
*
48128924 TTAAGAAAAAATGTAAAATTTAGATACCAAA
1 TTAAGAAAAAATGTAAAATTTAAATACCAAA
* *
48128955 TTAA-AAAAAGTGTCAAATTTAAATACCA
1 TTAAGAAAAAATGTAAAATTTAAATACCA
48128983 TACTAAGCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.27
Consensus pattern (31 bp):
TTAAGAAAAAATGTAAAATTTAAATACCAAA
Found at i:48130761 original size:22 final size:22
Alignment explanation
Indices: 48130730--48130789 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
48130720 CGTGTCTTAT
**
48130730 TAAATATTATAAAAATGTTCATAA
1 TAAAT-TTATAAAAAAATTC-TAA
48130754 -AAATTTATAAAAAAATTCTAA
1 TAAATTTATAAAAAAATTCTAA
48130775 TAAA-TTATAAAAAAA
1 TAAATTTATAAAAAAA
48130790 CAACTTATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
21 14 0.42
22 15 0.45
23 4 0.12
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (22 bp):
TAAATTTATAAAAAAATTCTAA
Found at i:48130765 original size:10 final size:10
Alignment explanation
Indices: 48130731--48130823 Score: 51
Period size: 11 Copynumber: 8.4 Consensus size: 10
48130721 GTGTCTTATT
48130731 AAATATTATAA
1 AAAT-TTATAA
48130742 AAATGTTCATAA
1 AAAT-TT-ATAA
48130754 AAATTTATAAA
1 AAATTTAT-AA
* *
48130765 AAAATTCTAA
1 AAATTTATAA
*
48130775 TAAATTATAAAAAA
1 -AAATT-T--ATAA
*
48130789 ACAACTTATAA
1 A-AATTTATAA
* *
48130800 ACATTCATAA
1 AAATTTATAA
48130810 AAATTTATAA
1 AAATTTATAA
48130820 AAAT
1 AAAT
48130824 ATAAAAACTT
Statistics
Matches: 62, Mismatches: 13, Indels: 15
0.69 0.14 0.17
Matches are distributed among these distances:
10 22 0.35
11 24 0.39
12 9 0.15
13 2 0.03
14 5 0.08
ACGTcount: A:0.60, C:0.06, G:0.01, T:0.32
Consensus pattern (10 bp):
AAATTTATAA
Found at i:48130782 original size:21 final size:21
Alignment explanation
Indices: 48130730--48130789 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
48130720 CGTGTCTTAT
* **
48130730 TAAATATTATAAAAATGTTCA
1 TAAAAATTATAAAAAAATTCA
48130751 TAAAAATTTATAAAAAAATTC-
1 TAAAAA-TTATAAAAAAATTCA
48130772 TAATAAATTATAAAAAAA
1 TAA-AAATTATAAAAAAA
48130790 CAACTTATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 19 0.56
22 15 0.44
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (21 bp):
TAAAAATTATAAAAAAATTCA
Found at i:48133242 original size:11 final size:10
Alignment explanation
Indices: 48133230--48133283 Score: 54
Period size: 12 Copynumber: 5.0 Consensus size: 10
48133220 CTTATTAAAT
48133230 ATTATAAAAA
1 ATTATAAAAA
48133240 TATTCATAAAAA
1 -ATT-ATAAAAA
48133252 ATTTATAAAAAA
1 A-TTAT-AAAAA
* *
48133264 ATTCTAATAA
1 ATTATAAAAA
48133274 ATTATAAAAA
1 ATTATAAAAA
48133284 CAAAACATAC
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
10 12 0.33
11 9 0.25
12 15 0.42
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (10 bp):
ATTATAAAAA
Found at i:48133275 original size:22 final size:23
Alignment explanation
Indices: 48133225--48133283 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
48133215 CATCTCTTAT
*
48133225 TAAATATTATAAAAATATTCATAA
1 TAAAT-TTATAAAAAAATTCATAA
*
48133249 AAAATTTATAAAAAAATTC-TAA
1 TAAATTTATAAAAAAATTCATAA
48133271 TAAA-TTATAAAAA
1 TAAATTTATAAAAA
48133284 CAAAACATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 9 0.28
22 6 0.19
23 13 0.41
24 4 0.12
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (23 bp):
TAAATTTATAAAAAAATTCATAA
Found at i:48133894 original size:10 final size:9
Alignment explanation
Indices: 48133881--48133945 Score: 51
Period size: 10 Copynumber: 6.8 Consensus size: 9
48133871 ATTTTGAAAT
48133881 TTTTTATAA
1 TTTTTATAA
*
48133890 GTTTTATAA
1 TTTTTATAA
*
48133899 TTATTGATAA
1 TT-TTTATAA
48133909 -TTTTATATA
1 TTTTTATA-A
48133918 TGTTTTATAA
1 T-TTTTATAA
*
48133928 TTTATTAGAAA
1 TTT-TTA-TAA
48133939 TTTTTAT
1 TTTTTAT
48133946 CATATATATA
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
8 5 0.11
9 13 0.30
10 14 0.32
11 12 0.27
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:48133900 original size:19 final size:18
Alignment explanation
Indices: 48133878--48133930 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
48133868 CTTATTTTGA
48133878 AATTTTTTATAAGTTTTAT
1 AATTTTTTATAA-TTTTAT
* *
48133897 AATTATTGATAATTTTAT
1 AATTTTTTATAATTTTAT
*
48133915 ATATGTTTTATAATTT
1 A-ATTTTTTATAATTT
48133931 ATTAGAAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 7 0.25
19 21 0.75
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (18 bp):
AATTTTTTATAATTTTAT
Found at i:48133910 original size:29 final size:29
Alignment explanation
Indices: 48133874--48133943 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
48133864 ACAACTTATT
48133874 TTGAAATTTTTTATAAGTTTTATAA-TTA
1 TTGAAATTTTTTATAAGTTTTATAATTTA
* *
48133902 TTGATAATTTTATATATGTTTTATAATTTA
1 TTGA-AATTTTTTATAAGTTTTATAATTTA
48133932 TTAGAAATTTTT
1 TT-GAAATTTTT
48133944 ATCATATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 4 0.11
29 19 0.53
30 11 0.31
31 2 0.06
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (29 bp):
TTGAAATTTTTTATAAGTTTTATAATTTA
Found at i:48138838 original size:30 final size:31
Alignment explanation
Indices: 48138777--48138844 Score: 88
Period size: 30 Copynumber: 2.2 Consensus size: 31
48138767 AAATTTTTAG
48138777 TTTGGCCTCTGTATGATAGTGAAATCTTCAC
1 TTTGGCCTCTGTATGATAGTGAAATCTTCAC
*
48138808 TTTGGCCT-TGTACT-ATAGTTGAATTC-TCAC
1 TTTGGCCTCTGTA-TGATAG-TGAAATCTTCAC
48138838 TTTGGCC
1 TTTGGCC
48138845 CCTCATGTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
30 19 0.56
31 15 0.44
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.41
Consensus pattern (31 bp):
TTTGGCCTCTGTATGATAGTGAAATCTTCAC
Found at i:48141399 original size:12 final size:12
Alignment explanation
Indices: 48141382--48141408 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
48141372 TAACTAATAT
48141382 CATGTTAGAACA
1 CATGTTAGAACA
48141394 CATGTTAGAACA
1 CATGTTAGAACA
48141406 CAT
1 CAT
48141409 AAATTTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.26
Consensus pattern (12 bp):
CATGTTAGAACA
Found at i:48141609 original size:18 final size:17
Alignment explanation
Indices: 48141588--48141631 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
48141578 TTTTTAAATA
48141588 TATAAATTTTGGAATTTT
1 TATAAATTTTGG-ATTTT
*
48141606 TATAAATATTTTGATTTT
1 TATAAAT-TTTGGATTTT
*
48141624 TTTAAATT
1 TATAAATT
48141632 ATTTTGTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 18 0.78
19 4 0.17
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (17 bp):
TATAAATTTTGGATTTT
Found at i:48141616 original size:20 final size:20
Alignment explanation
Indices: 48141593--48141642 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 20
48141583 AAATATATAA
48141593 ATTTTGGAATTTTTATAAA-T
1 ATTTTGG-ATTTTTATAAATT
*
48141613 ATTTT-GATTTTTTTAAATT
1 ATTTTGGATTTTTATAAATT
*
48141632 ATTTTGTATTT
1 ATTTTGGATTT
48141643 ATTTTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 10 0.38
19 7 0.27
20 9 0.35
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (20 bp):
ATTTTGGATTTTTATAAATT
Found at i:48141634 original size:19 final size:19
Alignment explanation
Indices: 48141601--48141647 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 19
48141591 AAATTTTGGA
*
48141601 ATTTTTATAAATATTTTG-
1 ATTTTTTTAAATATTTTGT
48141619 ATTTTTTTAAATTATTTTGT
1 ATTTTTTTAAA-TATTTTGT
48141639 ATTTATTTT
1 ATTT-TTTT
48141648 TTAATTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 10 0.40
19 7 0.28
20 4 0.16
21 4 0.16
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (19 bp):
ATTTTTTTAAATATTTTGT
Found at i:48143436 original size:33 final size:32
Alignment explanation
Indices: 48143392--48143457 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
48143382 ATTTTCAATT
*
48143392 AATAAAATAATTAAATAAATAAAAAATAAAAA
1 AATAAAATAATTAAACAAATAAAAAATAAAAA
* * *
48143424 AATAAAAGTAATTTAACATATAAAATATAAAAA
1 AATAAAA-TAATTAAACAAATAAAAAATAAAAA
48143457 A
1 A
48143458 TATCATATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 7 0.24
33 22 0.76
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (32 bp):
AATAAAATAATTAAACAAATAAAAAATAAAAA
Found at i:48150536 original size:15 final size:15
Alignment explanation
Indices: 48150512--48150542 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48150502 ATTTAATAAT
48150512 TTTATAAATTTTTTA
1 TTTATAAATTTTTTA
*
48150527 TTTATTAATTTTTTA
1 TTTATAAATTTTTTA
48150542 T
1 T
48150543 ATAATTATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTATAAATTTTTTA
Found at i:48155938 original size:13 final size:13
Alignment explanation
Indices: 48155922--48155991 Score: 50
Period size: 13 Copynumber: 5.2 Consensus size: 13
48155912 CAAAAAAAAA
48155922 TTTTAAAATATAT
1 TTTTAAAATATAT
**
48155935 TTTTAATTTATAT
1 TTTTAAAATATAT
** *
48155948 TTTTATTATTTAT
1 TTTTAAAATATAT
* * *
48155961 TTGTACCAAAAATAA
1 TTTTA--AAATATAT
48155976 TTTTAAAATATAT
1 TTTTAAAATATAT
48155989 TTT
1 TTT
48155992 GAATTTAAAT
Statistics
Matches: 41, Mismatches: 14, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
13 34 0.83
15 7 0.17
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (13 bp):
TTTTAAAATATAT
Found at i:48162031 original size:2 final size:2
Alignment explanation
Indices: 48162020--48162050 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
48162010 TTAAGGGGAC
48162020 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
48162051 AAGGAGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:48163020 original size:12 final size:12
Alignment explanation
Indices: 48163003--48163038 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
48162993 ATTTAATTAC
48163003 AATAAATTAAAT
1 AATAAATTAAAT
48163015 AATAAAATTAAAT
1 AAT-AAATTAAAT
*
48163028 AATAATTTAAA
1 AATAAATTAAA
48163039 GAAATTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AATAAATTAAAT
Found at i:48166686 original size:2 final size:2
Alignment explanation
Indices: 48166679--48166704 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
48166669 CATACTTGTT
48166679 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
48166705 GCCTGCAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:48169635 original size:30 final size:29
Alignment explanation
Indices: 48169612--48169804 Score: 228
Period size: 29 Copynumber: 6.7 Consensus size: 29
48169602 GTTTCAAGGT
* * *
48169612 TAAAAATGGATTTTTTGGAAGTTTGGGGG
1 TAAAAATGTAATTTTTGGAAGTTTAGGGG
* * *
48169641 CAAAAATATAATTTTTGGAAGTTTTAGGGT
1 TAAAAATGTAATTTTTGGAAG-TTTAGGGG
* *
48169671 TAAAAATGTAATTTTTAGAAGTTTGGGGG
1 TAAAAATGTAATTTTTGGAAGTTTAGGGG
*
48169700 TAAAAATGTAATTTTTGGAAGTTCAGGGG
1 TAAAAATGTAATTTTTGGAAGTTTAGGGG
*
48169729 -CAAAATGTAATTTTTGGAAGTTTCA-GGG
1 TAAAAATGTAATTTTTGGAAGTTT-AGGGG
* * * *
48169757 TCAAAATGGAATTTTTAGAAATTTAGGGG
1 TAAAAATGTAATTTTTGGAAGTTTAGGGG
48169786 TAAAAATGTAATTTTTGGA
1 TAAAAATGTAATTTTTGGA
48169805 CAATTTAAGA
Statistics
Matches: 138, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
28 25 0.18
29 89 0.64
30 24 0.17
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.37
Consensus pattern (29 bp):
TAAAAATGTAATTTTTGGAAGTTTAGGGG
Found at i:48169664 original size:59 final size:59
Alignment explanation
Indices: 48169601--48169722 Score: 181
Period size: 59 Copynumber: 2.1 Consensus size: 59
48169591 AATTCTTAAT
* *
48169601 AGTTTCAAGGTTAAAAATGGATTTTTTGGAAGTTTGGGGGCAAAAATATAATTTTTGGA
1 AGTTTCAAGGTTAAAAATGGAATTTTTAGAAGTTTGGGGGCAAAAATATAATTTTTGGA
* * * * *
48169660 AGTTTTAGGGTTAAAAATGTAATTTTTAGAAGTTTGGGGGTAAAAATGTAATTTTTGGA
1 AGTTTCAAGGTTAAAAATGGAATTTTTAGAAGTTTGGGGGCAAAAATATAATTTTTGGA
48169719 AGTT
1 AGTT
48169723 CAGGGGCAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.34, C:0.02, G:0.25, T:0.39
Consensus pattern (59 bp):
AGTTTCAAGGTTAAAAATGGAATTTTTAGAAGTTTGGGGGCAAAAATATAATTTTTGGA
Found at i:48169763 original size:57 final size:56
Alignment explanation
Indices: 48169613--48169804 Score: 213
Period size: 57 Copynumber: 3.3 Consensus size: 56
48169603 TTTCAAGGTT
* * * * *
48169613 AAAAATGGATTTTTTGGAAGTTTGGGGGCAAAAATATAATTTTTGGAAGTTTTAGGGTT
1 AAAAATGTAATTTTTGGAAGTTTGGGGTC-AAAATGTAATTTTTGGAAG-TTTAGGG-G
* * *
48169672 AAAAATGTAATTTTTAGAAGTTTGGGGGTAAAAATGTAATTTTTGGAAGTTCAGGGG
1 AAAAATGTAATTTTTGGAAGTTT-GGGGTCAAAATGTAATTTTTGGAAGTTTAGGGG
* * * * *
48169729 CAAAATGTAATTTTTGGAAGTTTCAGGGTCAAAATGGAATTTTTAGAAATTTAGGGG
1 AAAAATGTAATTTTTGGAAGTTT-GGGGTCAAAATGTAATTTTTGGAAGTTTAGGGG
48169786 TAAAAATGTAATTTTTGGA
1 -AAAAATGTAATTTTTGGA
48169805 CAATTTAAGA
Statistics
Matches: 113, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
57 48 0.42
58 23 0.20
59 38 0.34
60 4 0.04
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.37
Consensus pattern (56 bp):
AAAAATGTAATTTTTGGAAGTTTGGGGTCAAAATGTAATTTTTGGAAGTTTAGGGG
Found at i:48170991 original size:19 final size:19
Alignment explanation
Indices: 48170939--48170991 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
48170929 ATTAAATATT
48170939 AATA-TTATTATTATT-AA
1 AATATTTATTATTATTAAA
*
48170956 AATATTTATTATCATTAAA
1 AATATTTATTATTATTAAA
*
48170975 AATATTTATCATTATTA
1 AATATTTATTATTATTA
48170992 TTATCATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
17 4 0.13
18 10 0.32
19 17 0.55
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (19 bp):
AATATTTATTATTATTAAA
Found at i:48171796 original size:27 final size:27
Alignment explanation
Indices: 48171743--48171803 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
48171733 TGATTTTAAG
* * **
48171743 TTTAAAACTATTTTAAATGTATTTAAA
1 TTTAAAACAAATTTAAATGTAAATAAA
*
48171770 TTTAAAACAAATTTAAATTTAAATAAA
1 TTTAAAACAAATTTAAATGTAAATAAA
48171797 TTTAAAA
1 TTTAAAA
48171804 AGTTCAAACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (27 bp):
TTTAAAACAAATTTAAATGTAAATAAA
Found at i:48171799 original size:16 final size:17
Alignment explanation
Indices: 48171763--48171802 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
48171753 TTTTAAATGT
48171763 ATTTAAATTTAAAACAA
1 ATTTAAATTTAAAACAA
*
48171780 ATTTAAATTT-AAATAA
1 ATTTAAATTTAAAACAA
48171796 ATTTAAA
1 ATTTAAA
48171803 AAGTTCAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTTAAATTTAAAACAA
Found at i:48173734 original size:13 final size:13
Alignment explanation
Indices: 48173716--48173740 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48173706 TAATTACAAT
48173716 AAATTAAATAATG
1 AAATTAAATAATG
48173729 AAATTAAATAAT
1 AAATTAAATAAT
48173741 AATTTAAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTAAATAATG
Found at i:48176868 original size:21 final size:21
Alignment explanation
Indices: 48176842--48176881 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
48176832 AAACCAATAA
48176842 AAAAATTCACTAAAATTTGTT
1 AAAAATTCACTAAAATTTGTT
48176863 AAAAATTCACTAAAATTTG
1 AAAAATTCACTAAAATTTG
48176882 AGTCAACAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAAATTCACTAAAATTTGTT
Found at i:48178596 original size:22 final size:22
Alignment explanation
Indices: 48178568--48178689 Score: 181
Period size: 22 Copynumber: 5.4 Consensus size: 22
48178558 GTGCTGGGGA
*
48178568 AACAGAAACACACACAGTGCTG
1 AACAGAAGCACACACAGTGCTG
*
48178590 AACAGAAGCACACACAGTGTTG
1 AACAGAAGCACACACAGTGCTG
*
48178612 AACAGAAGCACACATAGTGCTGGG
1 AACAGAAGCACACACAGTGCT--G
*
48178636 TAACAGAAGCACACATAGTGCTG
1 -AACAGAAGCACACACAGTGCTG
48178659 AACAGAAGCACACACAGTGCTG
1 AACAGAAGCACACACAGTGCTG
48178681 AACAGAAGC
1 AACAGAAGC
48178690 GCGCTAGCGT
Statistics
Matches: 92, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
22 69 0.75
23 1 0.01
24 1 0.01
25 21 0.23
ACGTcount: A:0.42, C:0.24, G:0.23, T:0.11
Consensus pattern (22 bp):
AACAGAAGCACACACAGTGCTG
Found at i:48178596 original size:47 final size:44
Alignment explanation
Indices: 48178568--48178689 Score: 181
Period size: 47 Copynumber: 2.7 Consensus size: 44
48178558 GTGCTGGGGA
* *
48178568 AACAGAAACACACACAGTGCTGAACAGAAGCACACACAGTGTTG
1 AACAGAAGCACACACAGTGCTGAACAGAAGCACACACAGTGCTG
* *
48178612 AACAGAAGCACACATAGTGCTGGGTAACAGAAGCACACATAGTGCTG
1 AACAGAAGCACACACAGTGCT--G-AACAGAAGCACACACAGTGCTG
48178659 AACAGAAGCACACACAGTGCTGAACAGAAGC
1 AACAGAAGCACACACAGTGCTGAACAGAAGC
48178690 GCGCTAGCGT
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
44 28 0.40
45 1 0.01
46 1 0.01
47 40 0.57
ACGTcount: A:0.42, C:0.24, G:0.23, T:0.11
Consensus pattern (44 bp):
AACAGAAGCACACACAGTGCTGAACAGAAGCACACACAGTGCTG
Found at i:48178641 original size:69 final size:69
Alignment explanation
Indices: 48178543--48178689 Score: 224
Period size: 69 Copynumber: 2.1 Consensus size: 69
48178533 TGAAGTACTT
* *
48178543 AACAGAAGCGCATAAGTGCTGGGGAAACAGAAACACACACAGTGCTGAACAGAAGCACACACAGT
1 AACAGAAGCACACAAGTGCTGGGGAAACAGAAACACACACAGTGCTGAACAGAAGCACACACAGT
*
48178608 GTTG
66 GCTG
* * *
48178612 AACAGAAGCACACATAGTGCT-GGGTAACAGAAGCACACATAGTGCTGAACAGAAGCACACACAG
1 AACAGAAGCACACA-AGTGCTGGGGAAACAGAAACACACACAGTGCTGAACAGAAGCACACACAG
48178676 TGCTG
65 TGCTG
48178681 AACAGAAGC
1 AACAGAAGC
48178690 GCGCTAGCGT
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
69 65 0.92
70 6 0.08
ACGTcount: A:0.41, C:0.22, G:0.25, T:0.12
Consensus pattern (69 bp):
AACAGAAGCACACAAGTGCTGGGGAAACAGAAACACACACAGTGCTGAACAGAAGCACACACAGT
GCTG
Found at i:48181382 original size:10 final size:10
Alignment explanation
Indices: 48181363--48181445 Score: 68
Period size: 10 Copynumber: 8.4 Consensus size: 10
48181353 TGTGGCACAT
48181363 TTTTTATATAA
1 TTTTT-TATAA
48181374 TTTTTTATAA
1 TTTTTTATAA
*
48181384 -TTTTAATAA
1 TTTTTTATAA
*
48181393 -ATTTTA-AA
1 TTTTTTATAA
48181401 TATTTTTAT-A
1 T-TTTTTATAA
48181411 -TTTTTATTAA
1 TTTTTTA-TAA
*
48181421 TATTTTATAA
1 TTTTTTATAA
48181431 TTTTTTATAA
1 TTTTTTATAA
48181441 CTTTT
1 -TTTT
48181446 ATTGATTTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
8 8 0.14
9 13 0.22
10 24 0.41
11 14 0.24
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTTTTATAA
Done.