Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 158 of 182
Found at i:48597020 original size:19 final size:19
Alignment explanation
Indices: 48596992--48597036 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
48596982 ATATTAAAAT
*
48596992 TAAT-TAATTTA-GAATAA
1 TAATATAATTTATGAAGAA
48597009 TATATATAATTTATGAAGAA
1 TA-ATATAATTTATGAAGAA
48597029 TAATATAA
1 TAATATAA
48597037 GAAAACATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 2 0.08
18 2 0.08
19 13 0.54
20 7 0.29
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (19 bp):
TAATATAATTTATGAAGAA
Found at i:48597140 original size:17 final size:17
Alignment explanation
Indices: 48597118--48597161 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
48597108 TAGTAAATAA
48597118 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
48597135 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
48597152 -ATATGTATAT
1 AAAATGTATAT
48597162 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:48597293 original size:3 final size:3
Alignment explanation
Indices: 48597285--48597320 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
48597275 GTATATATAG
* *
48597285 TAA TAA TAA TGA TAA TAA TAA CAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
48597321 CTTAATAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:48597665 original size:23 final size:22
Alignment explanation
Indices: 48597622--48597679 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
48597612 AAAGGGTATC
* *
48597622 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
48597643 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
48597666 TGCAAATCATATCT
1 TACAAATCATATCT
48597680 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.59
23 10 0.31
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:48597697 original size:21 final size:19
Alignment explanation
Indices: 48597635--48597705 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 19
48597625 AAATTAAATC
*
48597635 TCTAAGATTACAAAATCATA
1 TCTAAGATTGC-AAATCATA
48597655 TCTTCTAAGATTGCAAATCATA
1 ---TCTAAGATTGCAAATCATA
48597677 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCA-A-ATCATA
*
48597698 TGTAAGAT
1 TCTAAGAT
48597706 CATATCTAAG
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
19 12 0.27
20 1 0.02
21 13 0.30
22 8 0.18
23 10 0.23
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (19 bp):
TCTAAGATTGCAAATCATA
Found at i:48597861 original size:15 final size:14
Alignment explanation
Indices: 48597831--48597860 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
48597821 AGACTTAGAC
*
48597831 TTGGTTTTATTATT
1 TTGGGTTTATTATT
48597845 TTGGGTTTATTATT
1 TTGGGTTTATTATT
48597859 TT
1 TT
48597861 TTTGTGAGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.00, G:0.17, T:0.70
Consensus pattern (14 bp):
TTGGGTTTATTATT
Found at i:48599668 original size:10 final size:10
Alignment explanation
Indices: 48599653--48599707 Score: 51
Period size: 12 Copynumber: 5.3 Consensus size: 10
48599643 TTACTGTTTG
48599653 TTTATTTTAT
1 TTTATTTTAT
*
48599663 TTTATTTTAC
1 TTTATTTTAT
48599673 TTTA--TTAT
1 TTTATTTTAT
48599681 TATTAGTTTTAT
1 T-TTA-TTTTAT
48599693 ATTTAGTTTTAT
1 -TTTA-TTTTAT
48599705 TTT
1 TTT
48599708 TATTATCTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
8 4 0.11
9 3 0.08
10 13 0.34
11 3 0.08
12 14 0.37
13 1 0.03
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.73
Consensus pattern (10 bp):
TTTATTTTAT
Found at i:48599685 original size:6 final size:5
Alignment explanation
Indices: 48599653--48599707 Score: 51
Period size: 5 Copynumber: 10.6 Consensus size: 5
48599643 TTACTGTTTG
*
48599653 TTTAT TTTAT TTTAT TTTAC TTTA- -TTAT TATTAGT TTTAT ATTTAGT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T-TTA-T TTTAT -TTTA-T
48599700 TTTAT TTT
1 TTTAT TTT
48599708 TATTATCTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
3 3 0.07
5 23 0.53
6 14 0.33
7 3 0.07
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.73
Consensus pattern (5 bp):
TTTAT
Found at i:48599711 original size:30 final size:30
Alignment explanation
Indices: 48599657--48599713 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
48599647 TGTTTGTTTA
48599657 TTTTATTTTATTTTACTTTATTATTATTAG
1 TTTTATTTTATTTTACTTTATTATTATTAG
48599687 TTTTATATTTAGTTTTA-TTT-TTATTAT
1 TTTTAT-TTTA-TTTTACTTTATTATTAT
48599714 CTTTAGTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
30 13 0.52
31 7 0.28
32 5 0.20
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.72
Consensus pattern (30 bp):
TTTTATTTTATTTTACTTTATTATTATTAG
Found at i:48600359 original size:31 final size:31
Alignment explanation
Indices: 48600321--48600382 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
48600311 CTTCAACATG
48600321 TTATGTCGTAGTGGGATGAGTTGTGTACTGT
1 TTATGTCGTAGTGGGATGAGTTGTGTACTGT
48600352 TTATGTCGTAGTGGGATGAGTTGTGTACTGT
1 TTATGTCGTAGTGGGATGAGTTGTGTACTGT
48600383 ATCGTTTAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.16, C:0.06, G:0.35, T:0.42
Consensus pattern (31 bp):
TTATGTCGTAGTGGGATGAGTTGTGTACTGT
Found at i:48601775 original size:30 final size:29
Alignment explanation
Indices: 48601741--48601797 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
48601731 CTAGACTCTT
48601741 CCACAAAGGCTGAACACACAGCCATGTGAG
1 CCACAAAGGCTG-ACACACAGCCATGTGAG
** *
48601771 CCACATGGGCTGTCACACAGCCATGTG
1 CCACAAAGGCTGACACACAGCCATGTG
48601798 CCAAATCGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.30, C:0.32, G:0.25, T:0.14
Consensus pattern (29 bp):
CCACAAAGGCTGACACACAGCCATGTGAG
Found at i:48609787 original size:5 final size:6
Alignment explanation
Indices: 48609773--48609797 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
48609763 TTTCAAAACA
48609773 TTTTAT TTTTAT TTTTAT TTTTAT T
1 TTTTAT TTTTAT TTTTAT TTTTAT T
48609798 CCGGAAGCTT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:48610315 original size:20 final size:20
Alignment explanation
Indices: 48610279--48610316 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48610269 AACCTGATGC
48610279 AATGCAATATACAAATATGA
1 AATGCAATATACAAATATGA
*
48610299 AATGCTATA-ACATAATAT
1 AATGCAATATACA-AATAT
48610317 CATGCATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.29
Consensus pattern (20 bp):
AATGCAATATACAAATATGA
Found at i:48614472 original size:50 final size:50
Alignment explanation
Indices: 48614348--48614541 Score: 178
Period size: 50 Copynumber: 3.9 Consensus size: 50
48614338 AATAATAACA
* * * ** * * *
48614348 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATATTTCTTGTAC--
1 TGCCAATGCCATATCCCAGACATGATCTTACATGGGACCTCTCATAT-CGG
* * **
48614397 TGCCAATGCCATAT-CCAGATATGATCATACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATATCCCAGACATGATCTTACATGGGACCTCTCATATCGG
* *** * *
48614446 TGCCCATGCCATATCCCAGACATGATCTTATGGGGGACCTCTCATCTTGG
1 TGCCAATGCCATATCCCAGACATGATCTTACATGGGACCTCTCATATCGG
* *
48614496 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 TGCCAATGCCATATCCCAGACATGATCTTACATGGGACCTCTCATA
48614542 ATCTCACTGA
Statistics
Matches: 115, Mismatches: 27, Indels: 5
0.78 0.18 0.03
Matches are distributed among these distances:
47 1 0.01
48 24 0.21
49 25 0.22
50 65 0.57
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATATCCCAGACATGATCTTACATGGGACCTCTCATATCGG
Found at i:48621803 original size:28 final size:29
Alignment explanation
Indices: 48621766--48621823 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
48621756 GATACGGGCC
*
48621766 TTTCCCTACTCT-GGGGGGCACCGTCCCT
1 TTTCCCTACTATCGGGGGGCACCGTCCCT
*
48621794 TTTCCCTACTATCGGGTGGCACCGTCCCT
1 TTTCCCTACTATCGGGGGGCACCGTCCCT
48621823 T
1 T
48621824 CTGCGGGAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.09, C:0.38, G:0.22, T:0.31
Consensus pattern (29 bp):
TTTCCCTACTATCGGGGGGCACCGTCCCT
Found at i:48623254 original size:50 final size:50
Alignment explanation
Indices: 48623138--48623331 Score: 203
Period size: 50 Copynumber: 3.9 Consensus size: 50
48623128 ATAATAACAA
* * * ** * **
48623138 GCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA--TGTTTTGTGTACT
1 GCCAATGCCATGTCCCAGACATGGTCTTACAAGGGACCTCTCATAT-TGGT
* * * **
48623187 GCCAATGCCATATCCCAGATATGGTCATACAAGGGAGTTCTCATATTGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACAAGGGACCTCTCATATTGGT
* ** *
48623237 GCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATTTTGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACAAGGGACCTCTCATATTGGT
*
48623287 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 GCCAATGCCATGTCCCAGACATGGTCTTACAAGGGACCTCTCATA
48623332 ATCTCAATGA
Statistics
Matches: 119, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
49 31 0.26
50 84 0.71
51 4 0.03
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (50 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACAAGGGACCTCTCATATTGGT
Found at i:48633637 original size:29 final size:30
Alignment explanation
Indices: 48633589--48633655 Score: 102
Period size: 29 Copynumber: 2.3 Consensus size: 30
48633579 ACCAAAAAAA
48633589 GCCGATTTTTTTCAAAATTTACCGAAATGG
1 GCCGATTTTTTTCAAAATTTACCGAAATGG
**
48633619 GCCGATTTTTTT-ATTATTTACCGAAATGG
1 GCCGATTTTTTTCAAAATTTACCGAAATGG
48633648 GCC-ATTTT
1 GCCGATTTT
48633656 CTGGGAAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 5 0.14
29 18 0.51
30 12 0.34
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.42
Consensus pattern (30 bp):
GCCGATTTTTTTCAAAATTTACCGAAATGG
Found at i:48633940 original size:22 final size:22
Alignment explanation
Indices: 48633912--48633962 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
48633902 CTCTCTAATC
*
48633912 CTCTCAATTTCCTTCTAAAATT
1 CTCTCAATTTCCTTCCAAAATT
48633934 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
48633956 CTCTCAA
1 CTCTCAA
48633963 ATCCATATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.27, C:0.31, G:0.00, T:0.41
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:48635123 original size:7 final size:7
Alignment explanation
Indices: 48635111--48635135 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
48635101 AGTCGATTGA
48635111 TATTTAG
1 TATTTAG
48635118 TATTTAG
1 TATTTAG
48635125 TATTTAG
1 TATTTAG
48635132 TATT
1 TATT
48635136 ATGTATAAAA
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:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:48636251 original size:25 final size:25
Alignment explanation
Indices: 48636223--48636291 Score: 102
Period size: 25 Copynumber: 2.7 Consensus size: 25
48636213 TTTAAATTTA
48636223 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
* *
48636248 TTATTTAATATAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
*
48636273 TCCATTTGATGTAATAAAA
1 T-TATTTGATGTAATAAAA
48636292 ATCCTAATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
25 24 0.63
26 14 0.37
ACGTcount: A:0.46, C:0.03, G:0.12, T:0.39
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:48636310 original size:18 final size:18
Alignment explanation
Indices: 48636287--48636335 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
48636277 TTTGATGTAA
* * *
48636287 TAAAAATCCTAATTTATT
1 TAAAAACCCTAACTTAAT
48636305 TAAAAACCCTAACTTAAT
1 TAAAAACCCTAACTTAAT
*
48636323 TAAAAACCGTAAC
1 TAAAAACCCTAAC
48636336 CCTAACCTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (18 bp):
TAAAAACCCTAACTTAAT
Found at i:48636378 original size:35 final size:34
Alignment explanation
Indices: 48636327--48636398 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 34
48636317 CTTAATTAAA
* *
48636327 AACCGTAACCCTAACCTATTTTAATTAAAAACCCT
1 AACCCTAACCCTAACCTAATTTAATT-AAAACCCT
48636362 AACCCTAACCCTAACCTAATTTAATTAAAACCCT
1 AACCCTAACCCTAACCTAATTTAATTAAAACCCT
48636396 AAC
1 AAC
48636399 TTAATTAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
34 11 0.31
35 24 0.69
ACGTcount: A:0.42, C:0.31, G:0.01, T:0.26
Consensus pattern (34 bp):
AACCCTAACCCTAACCTAATTTAATTAAAACCCT
Found at i:48636396 original size:17 final size:18
Alignment explanation
Indices: 48636376--48636416 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
48636366 CTAACCCTAA
*
48636376 CCTAATTTAATTAA-AAC
1 CCTAACTTAATTAAGAAC
48636393 CCTAACTTAATTAAGAAC
1 CCTAACTTAATTAAGAAC
48636411 CCTAAC
1 CCTAAC
48636417 CCTAACCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.29
Consensus pattern (18 bp):
CCTAACTTAATTAAGAAC
Found at i:48636402 original size:81 final size:82
Alignment explanation
Indices: 48636294--48636479 Score: 269
Period size: 81 Copynumber: 2.3 Consensus size: 82
48636284 TAATAAAAAT
* * **
48636294 CCTAATTTATTTAAAAACCCTAACTTAATTAAAAACCGTAACCCTAACCTATTTTAATTAAAAAC
1 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAAC
48636359 CCTAACCCTAACCCTAA
66 CCTAACCCTAACCCTAA
*
48636376 CCTAATTTAATT-AAAACCCTAACTTAATTAAGAACCCTAACCCTAACCTAACTTAATT--AAA-
1 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAAC
48636437 ---AACCCTAACCCTAA
66 CCTAACCCTAACCCTAA
48636451 CCTAATTTAATTAAAAACCCTAACATTAA
1 CCTAATTTAATTAAAAACCCTAAC-TTAA
48636480 CTTGAAAGAA
Statistics
Matches: 97, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
75 26 0.27
76 11 0.11
77 4 0.04
79 3 0.03
81 42 0.43
82 11 0.11
ACGTcount: A:0.44, C:0.26, G:0.01, T:0.28
Consensus pattern (82 bp):
CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAAC
CCTAACCCTAACCCTAA
Found at i:48636435 original size:29 final size:29
Alignment explanation
Indices: 48636393--48636474 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
48636383 TAATTAAAAC
*
48636393 CCTAACTTAATTAAGAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
48636422 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
48636451 CCTAATTTAATTAAAAACCCTAAC
1 CCTAACTTAATTAAAAACCCTAAC
48636475 ATTAACTTGA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.44, C:0.29, G:0.01, T:0.26
Consensus pattern (29 bp):
CCTAACTTAATTAAAAACCCTAACCCTAA
Found at i:48636480 original size:29 final size:29
Alignment explanation
Indices: 48636312--48636474 Score: 107
Period size: 29 Copynumber: 5.8 Consensus size: 29
48636302 ATTTAAAAAC
*
48636312 CCTAACTTAATTAAAAACCGTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
**
48636341 CCTATTTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* *
48636370 CCCTAACCTAATTTAATTAA----AACCCTAA
1 -CCTAACTTAA-TTAA-AAACCCTAACCCTAA
* * *
48636398 CTTAA-TTAA-GAACCCTAACCCTAA------
1 CCTAACTTAATTAA---AAACCCTAACCCTAA
48636422 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
48636451 CCTAATTTAATTAAAAACCCTAAC
1 CCTAACTTAATTAAAAACCCTAAC
48636475 ATTAACTTGA
Statistics
Matches: 102, Mismatches: 15, Indels: 34
0.68 0.10 0.23
Matches are distributed among these distances:
23 8 0.08
24 6 0.06
25 4 0.04
26 8 0.08
27 4 0.04
28 8 0.08
29 49 0.48
30 9 0.09
31 4 0.04
32 2 0.02
ACGTcount: A:0.44, C:0.28, G:0.01, T:0.27
Consensus pattern (29 bp):
CCTAACTTAATTAAAAACCCTAACCCTAA
Found at i:48636652 original size:25 final size:25
Alignment explanation
Indices: 48636624--48636692 Score: 102
Period size: 25 Copynumber: 2.7 Consensus size: 25
48636614 TTTAAATTTA
48636624 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
* *
48636649 TTATTTAATATAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
*
48636674 TCCATTTGATGTAATAAAA
1 T-TATTTGATGTAATAAAA
48636693 ATCCTAATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
25 24 0.63
26 14 0.37
ACGTcount: A:0.46, C:0.03, G:0.12, T:0.39
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:48636711 original size:18 final size:18
Alignment explanation
Indices: 48636688--48636736 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
48636678 TTTGATGTAA
* * *
48636688 TAAAAATCCTAATTTATT
1 TAAAAACCCTAACTTAAT
48636706 TAAAAACCCTAACTTAAT
1 TAAAAACCCTAACTTAAT
*
48636724 TAAAAACCGTAAC
1 TAAAAACCCTAAC
48636737 CCTAACCTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (18 bp):
TAAAAACCCTAACTTAAT
Found at i:48636779 original size:35 final size:34
Alignment explanation
Indices: 48636728--48636799 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 34
48636718 CTTAATTAAA
* *
48636728 AACCGTAACCCTAACCTATTTTAATTAAAAACCCT
1 AACCCTAACCCTAACCTAATTTAATT-AAAACCCT
48636763 AACCCTAACCCTAACCTAATTTAATTAAAACCCT
1 AACCCTAACCCTAACCTAATTTAATTAAAACCCT
48636797 AAC
1 AAC
48636800 TTAATTAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
34 11 0.31
35 24 0.69
ACGTcount: A:0.42, C:0.31, G:0.01, T:0.26
Consensus pattern (34 bp):
AACCCTAACCCTAACCTAATTTAATTAAAACCCT
Found at i:48636797 original size:17 final size:18
Alignment explanation
Indices: 48636777--48636817 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
48636767 CTAACCCTAA
*
48636777 CCTAATTTAATTAA-AAC
1 CCTAACTTAATTAAGAAC
48636794 CCTAACTTAATTAAGAAC
1 CCTAACTTAATTAAGAAC
48636812 CCTAAC
1 CCTAAC
48636818 CCTAACCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.29
Consensus pattern (18 bp):
CCTAACTTAATTAAGAAC
Found at i:48636813 original size:52 final size:48
Alignment explanation
Indices: 48636748--48636893 Score: 215
Period size: 47 Copynumber: 3.0 Consensus size: 48
48636738 CTAACCTATT
*
48636748 TTAATTAAAAACCCTAACCCTAACCCTAACCTAATTTAATTAAAACCCTAAC
1 TTAATTAAAAACCCTAACCCTAA-CCTAACTTAATTT-A--AAAACCCTAAC
* *
48636800 TTAATTAAGAACCCTAACCCTAACCTAACTTAA-TTAAAAACCCTAAT
1 TTAATTAAAAACCCTAACCCTAACCTAACTTAATTTAAAAACCCTAAC
48636847 TTAATTAAAAACCCTAACCCTAACCTAACTTAA-TTAAAAACCCTAAC
1 TTAATTAAAAACCCTAACCCTAACCTAACTTAATTTAAAAACCCTAAC
48636894 CCTAATCCTA
Statistics
Matches: 89, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
47 55 0.62
49 1 0.01
50 2 0.02
51 9 0.10
52 22 0.25
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.27
Consensus pattern (48 bp):
TTAATTAAAAACCCTAACCCTAACCTAACTTAATTTAAAAACCCTAAC
Found at i:48636814 original size:18 final size:17
Alignment explanation
Indices: 48636777--48637327 Score: 74
Period size: 18 Copynumber: 34.4 Consensus size: 17
48636767 CTAACCCTAA
*
48636777 CCTAATTTAATTAAAAC
1 CCTAACTTAATTAAAAC
48636794 CCTAACTTAATTAAGAAC
1 CCTAACTTAATTAA-AAC
**
48636812 CCTAAC---CCT--AA-
1 CCTAACTTAATTAAAAC
48636823 CCTAACTTAATTAAAAAC
1 CCTAACTTAATT-AAAAC
*
48636841 CCTAATTTAATTAAAAAC
1 CCTAACTTAATT-AAAAC
**
48636859 CCTAAC---CCT--AA-
1 CCTAACTTAATTAAAAC
48636870 CCTAACTTAATTAAAAAC
1 CCTAACTTAATT-AAAAC
* ***
48636888 CCTAACCCTAATCCTAA-
1 CCTAA-CTTAATTAAAAC
*
48636905 CCTAAATTAATTAAAAAC
1 CCTAACTTAATT-AAAAC
**
48636923 CCTAAC---CCT--AA-
1 CCTAACTTAATTAAAAC
*
48636934 CCTAATTTAATTAAAAAC
1 CCTAACTTAATT-AAAAC
*
48636952 CCTAAC---CTT-AAA-
1 CCTAACTTAATTAAAAC
*
48636964 -CTAAATTAATTAAAAC
1 CCTAACTTAATTAAAAC
*
48636980 CCTAACTTGATTAAAAAC
1 CCTAACTTAATT-AAAAC
* ****
48636998 CCTAACCCTAACCCTAA-
1 CCTAA-CTTAATTAAAAC
*
48637015 CCTAATTTAATTAAAAAC
1 CCTAACTTAATT-AAAAC
*
48637033 CCTAAC---CTT-AAA-
1 CCTAACTTAATTAAAAC
*
48637045 -CTAAATTAATTAAAAC
1 CCTAACTTAATTAAAAC
*
48637061 CCTAACTTGATTAAAAAC
1 CCTAACTTAATT-AAAAC
* ****
48637079 CCTAACCCTAACCCTAA-
1 CCTAA-CTTAATTAAAAC
*
48637096 CCTAATTTAATTAAAAAC
1 CCTAACTTAATT-AAAAC
*
48637114 CCTAAC---CTT-AAA-
1 CCTAACTTAATTAAAAC
*
48637126 -CTAAATTAATTAAAAC
1 CCTAACTTAATTAAAAC
*
48637142 CCTAACTTGATTAAAAAC
1 CCTAACTTAATT-AAAAC
* ****
48637160 CCTAACCCTAACCCTAA-
1 CCTAA-CTTAATTAAAAC
*
48637177 CCTAATTTAATTAAAAAC
1 CCTAACTTAATT-AAAAC
*
48637195 CCTAAC---CTT-AAA-
1 CCTAACTTAATTAAAAC
*
48637207 -CTAAATTAATTAAAAC
1 CCTAACTTAATTAAAAC
*
48637223 CCTAACTTGATTAAAAAC
1 CCTAACTTAATT-AAAAC
* ****
48637241 CCTAACCCTAACCCTAA-
1 CCTAA-CTTAATTAAAAC
*
48637258 CCTAATTTAATTAAAAAC
1 CCTAACTTAATT-AAAAC
*
48637276 CCTAAC---CTT-AAA-
1 CCTAACTTAATTAAAAC
*
48637288 -CTAAATTAATTAAAAC
1 CCTAACTTAATTAAAAC
*
48637304 CCTAACTTGATTAAAAAC
1 CCTAACTTAATT-AAAAC
48637322 CCTAAC
1 CCTAAC
48637328 CCTAACCCTA
Statistics
Matches: 358, Mismatches: 104, Indels: 143
0.59 0.17 0.24
Matches are distributed among these distances:
11 37 0.10
12 6 0.02
13 15 0.04
14 13 0.04
15 28 0.08
16 16 0.04
17 99 0.28
18 127 0.35
19 17 0.05
ACGTcount: A:0.46, C:0.26, G:0.01, T:0.27
Consensus pattern (17 bp):
CCTAACTTAATTAAAAC
Found at i:48636836 original size:29 final size:28
Alignment explanation
Indices: 48636794--48636985 Score: 130
Period size: 29 Copynumber: 6.8 Consensus size: 28
48636784 TAATTAAAAC
*
48636794 CCTAACTTAATTAAGAACCCTAACCCTAA
1 CCTAA-TTAATTAAAAACCCTAACCCTAA
**
48636823 CCTAACTTAATTAAAAACCCTAA-TTTAA
1 CCTAA-TTAATTAAAAACCCTAACCCTAA
* *****
48636851 -TTAA--AAACCCTAACCCTAA-CCTAA
1 CCTAATTAATTAAAAACCCTAACCCTAA
* *
48636875 CTTAATTAA--AAACCCTAACCCTAATCCTAA
1 CCTAATTAATTAAA----AACCCTAACCCTAA
48636905 CCTAAATTAATTAAAAACCCTAACCCTAA
1 CCT-AATTAATTAAAAACCCTAACCCTAA
*
48636934 CCTAATTTAATTAAAAACCCTAACCTTAA
1 CCTAA-TTAATTAAAAACCCTAACCCTAA
*
48636963 ACTAAATTAATT-AAAACCCTAAC
1 CCT-AATTAATTAAAAACCCTAAC
48636986 TTGATTAAAA
Statistics
Matches: 132, Mismatches: 18, Indels: 27
0.75 0.10 0.15
Matches are distributed among these distances:
24 13 0.10
25 4 0.03
27 5 0.04
28 16 0.12
29 76 0.58
30 9 0.07
31 6 0.05
33 3 0.02
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.27
Consensus pattern (28 bp):
CCTAATTAATTAAAAACCCTAACCCTAA
Found at i:48636844 original size:401 final size:401
Alignment explanation
Indices: 48636084--48636845 Score: 1497
Period size: 401 Copynumber: 1.9 Consensus size: 401
48636074 GTCGAATCAG
* *
48636084 AAGAACCACAATCACCACCGGAGGAAGAACAACCGCCGCCGAAAGCTAGATGAAAGAGGAACCCA
1 AAGAACAACAACCACCACCGGAGGAAGAACAACCGCCGCCGAAAGCTAGATGAAAGAGGAACCCA
48636149 GTGCGTAACCGTCGACGGCCGCCATGTGGAACCGAATCCCCCGGGCATAGACATGATTGCCGTAT
66 GTGCGTAACCGTCGACGGCCGCCATGTGGAACCGAATCCCCCGGGCATAGACATGATTGCCGTAT
48636214 TTAAATTTATTATTTGATGTAATAAAATAGAAGTTTATTTAATATAATAAAATAGAAGTTCCATT
131 TTAAATTTATTATTTGATGTAATAAAATAGAAGTTTATTTAATATAATAAAATAGAAGTTCCATT
48636279 TGATGTAATAAAAATCCTAATTTATTTAAAAACCCTAACTTAATTAAAAACCGTAACCCTAACCT
196 TGATGTAATAAAAATCCTAATTTATTTAAAAACCCTAACTTAATTAAAAACCGTAACCCTAACCT
48636344 ATTTTAATTAAAAACCCTAACCCTAACCCTAACCTAATTTAATTAAAACCCTAACTTAATTAAGA
261 ATTTTAATTAAAAACCCTAACCCTAACCCTAACCTAATTTAATTAAAACCCTAACTTAATTAAGA
48636409 ACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA
326 ACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA
48636474 CATTAACTTGA
391 CATTAACTTGA
*
48636485 AAGAACAACAACCACCCCCGGAGGAAGAACAACCGCCGCCGAAAGCTAGATGAAAGAGGAACCCA
1 AAGAACAACAACCACCACCGGAGGAAGAACAACCGCCGCCGAAAGCTAGATGAAAGAGGAACCCA
48636550 GTGCGTAACCGTCGACGGCCGCCATGTGGAACCGAATCCCCCGGGCATAGACATGATTGCCGTAT
66 GTGCGTAACCGTCGACGGCCGCCATGTGGAACCGAATCCCCCGGGCATAGACATGATTGCCGTAT
48636615 TTAAATTTATTATTTGATGTAATAAAATAGAAGTTTATTTAATATAATAAAATAGAAGTTCCATT
131 TTAAATTTATTATTTGATGTAATAAAATAGAAGTTTATTTAATATAATAAAATAGAAGTTCCATT
48636680 TGATGTAATAAAAATCCTAATTTATTTAAAAACCCTAACTTAATTAAAAACCGTAACCCTAACCT
196 TGATGTAATAAAAATCCTAATTTATTTAAAAACCCTAACTTAATTAAAAACCGTAACCCTAACCT
48636745 ATTTTAATTAAAAACCCTAACCCTAACCCTAACCTAATTTAATTAAAACCCTAACTTAATTAAGA
261 ATTTTAATTAAAAACCCTAACCCTAACCCTAACCTAATTTAATTAAAACCCTAACTTAATTAAGA
48636810 ACCCTAACCCTAACCTAACTTAATTAAAAACCCTAA
326 ACCCTAACCCTAACCTAACTTAATTAAAAACCCTAA
48636846 TTTAATTAAA
Statistics
Matches: 358, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
401 358 1.00
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (401 bp):
AAGAACAACAACCACCACCGGAGGAAGAACAACCGCCGCCGAAAGCTAGATGAAAGAGGAACCCA
GTGCGTAACCGTCGACGGCCGCCATGTGGAACCGAATCCCCCGGGCATAGACATGATTGCCGTAT
TTAAATTTATTATTTGATGTAATAAAATAGAAGTTTATTTAATATAATAAAATAGAAGTTCCATT
TGATGTAATAAAAATCCTAATTTATTTAAAAACCCTAACTTAATTAAAAACCGTAACCCTAACCT
ATTTTAATTAAAAACCCTAACCCTAACCCTAACCTAATTTAATTAAAACCCTAACTTAATTAAGA
ACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA
CATTAACTTGA
Found at i:48636860 original size:47 final size:47
Alignment explanation
Indices: 48636763--48637021 Score: 229
Period size: 47 Copynumber: 5.6 Consensus size: 47
48636753 TAAAAACCCT
* *
48636763 AACCCTAACCCTAACCTAATTTAATT-AAAACCCTAACTTAATTAAG
1 AACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACTTAATTAAA
*
48636809 AACCCTAACCCTAACCTAACTTAATTAAAAACCCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACTTAATTAAA
*
48636856 AACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAA-T---
1 AACCCTAACCCTAACCTAACTTAATTAAAAACCCTAA-CTTAATTAAA
**
48636900 ---CCTAA-CCTAAATTAA-TTAA--AAACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAA----AACCCTAA-C----TTAATTAAA
* * * *
48636949 AACCCTAACCTTAAACTAAATTAATT-AAAACCCTAACTTGATTAAA
1 AACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACTTAATTAAA
*
48636995 AACCCTAACCCTAACCCTAACCTAATT
1 AACCCTAACCCTAA-CCTAACTTAATT
48637022 TAATTAAAAA
Statistics
Matches: 176, Mismatches: 15, Indels: 43
0.75 0.06 0.18
Matches are distributed among these distances:
37 3 0.02
39 4 0.02
40 8 0.05
41 15 0.09
45 3 0.02
46 47 0.27
47 65 0.37
48 3 0.02
50 1 0.01
51 8 0.05
52 5 0.03
53 8 0.05
54 4 0.02
55 2 0.01
ACGTcount: A:0.45, C:0.28, G:0.01, T:0.27
Consensus pattern (47 bp):
AACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACTTAATTAAA
Found at i:48636896 original size:35 final size:33
Alignment explanation
Indices: 48636841--48636985 Score: 154
Period size: 29 Copynumber: 4.7 Consensus size: 33
48636831 AATTAAAAAC
48636841 CCTAATTTAATTAAAAACCCTAACCCTAACCTAA
1 CCTAA-TTAATTAAAAACCCTAACCCTAACCTAA
48636875 -C---TTAATTAAAAACCCTAACCCTAATCCTAA
1 CCTAATTAATTAAAAACCCTAACCCTAA-CCTAA
48636905 CCTAAATTAATTAAAAACCCTAACCCTAACCTAA
1 CCT-AATTAATTAAAAACCCTAACCCTAACCTAA
* *
48636939 --T--TTAATTAAAAACCCTAACCTTAAACT-A
1 CCTAATTAATTAAAAACCCTAACCCTAACCTAA
48636967 ---AATTAATT-AAAACCCTAAC
1 CCTAATTAATTAAAAACCCTAAC
48636986 TTGATTAAAA
Statistics
Matches: 101, Mismatches: 2, Indels: 22
0.81 0.02 0.18
Matches are distributed among these distances:
28 12 0.12
29 53 0.52
30 5 0.05
31 1 0.01
32 1 0.01
33 1 0.01
34 5 0.05
35 23 0.23
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (33 bp):
CCTAATTAATTAAAAACCCTAACCCTAACCTAA
Found at i:48636924 original size:58 final size:55
Alignment explanation
Indices: 48636841--48638604 Score: 1508
Period size: 58 Copynumber: 30.8 Consensus size: 55
48636831 AATTAAAAAC
*
48636841 CCTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAA--C-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
*
48636899 TCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTTAA
1 -CCTAA--T---TTAATTAAAAA--C-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
* * * *
48636963 ACTAAATTAATT---AA-AACCCTAACTTGA-TTAA--AAACCCTAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACAACCCTAACCTAATTTAATTAAA----AACCCTAACCCTAA
* * * * *
48637015 CCTAATTTAATTAAAAACCCTAACCTTAAACTAAATTAATT-AAAACCCTAA-CTTGA
1 CCTAATTTAATTAAAAA--C-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
* * * ** *
48637071 -TTAA--AAACCCT-AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTTAA
1 CCTAATTTAA--TTAAAAAC-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
* * * *
48637125 ACTAAATTAATT---AA-AACCCTAACTTGA-TTAA--AAACCCTAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACAACCCTAACCTAATTTAATTAAA----AACCCTAACCCTAA
* * * * *
48637177 CCTAATTTAATTAAAAACCCTAACCTTAAACTAAATTAATT-AAAACCCTAA-CTTGA
1 CCTAATTTAATTAAAAA--C-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
* * * ** *
48637233 -TTAA--AAACCCT-AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTTAA
1 CCTAATTTAA--TTAAAAAC-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
* * * *
48637287 ACTAAATTAATT---AA-AACCCTAACTTGA-TTAA--AAACCCTAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACAACCCTAACCTAATTTAATTAAA----AACCCTAACCCTAA
* * **
48637339 CCTAATTTAATTAAAAACCCTAACCCTAACCTGACTTAATTAAAAAATCTAACCCTAA
1 CCTAATTTAATTAAAAA--C-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
* * *
48637397 CCCTAACCTAAATTAATTAAA-AACCCTAA-C----TTAATTAAAAACCTTAACCCTAA
1 -CCTAA-TTTAATTAA--AAACAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
* * **
48637450 CCTAATTTAATTAAAAACCCTAACCCTAACCTGACTTAATTAAAAAATCTAACCCTAA
1 CCTAATTTAATTAAAAA--C-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
* * *
48637508 CCCTAACCTAAATTAATTAAA-AACCCTAA-C----TTAATTAAAAACCTTAACCCTAA
1 -CCTAA-TTTAATTAA--AAACAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
* * **
48637561 CCTAATTTAATTAAAAACCCTAACCCTAACCTGACTTAATTAAAAAATCTAACCCTAA
1 CCTAATTTAATTAAAAA--C-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
* * *
48637619 CCCTAACCTAAATTAATTAAA-AACCCTAA-C----TTAATTAAAAACCTTAACCCTAA
1 -CCTAA-TTTAATTAA--AAACAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
*
48637672 CCTAATTTAATTAAAAACCCTAACCCTAACCTGACTCTAACCTAACTTAATTAAAATCCCTAACC
1 CCTAATTTAATTAAAAA--C-AACCCT-A----AC-CTAA--T---TTAATTAAAAACCCTAACC
48637737 CTAA
52 CTAA
* *
48637741 CCCTAACCTAACTT-ATTAAAAACCCTAACCCTAACCTAATTTAATGAAAAAATCCTAACCCTAA
1 -CCTAA--T---TTAATTAAAAA--C-AACCCTAACCTAATTTAAT-TAAAAACCCTAACCCTAA
*
48637805 CCTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAA--C-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
48637863 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAA--C-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
48637921 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAA--C-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
48637979 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAA--C-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
48638037 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAA--C-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
48638095 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAA--C-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
48638153 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAA--C-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
48638211 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAA--C-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
48638269 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAA--C-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
48638327 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAA--C-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
48638385 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAA--C-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
48638443 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAA--C-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
48638501 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAA--C-AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
48638559 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAA
1 CCTAATTTAATTAAAAA--C-AACCCTAACCTAATTTAATTAAAAA
48638605 TCTTAACTTA
Statistics
Matches: 1488, Mismatches: 98, Indels: 239
0.82 0.05 0.13
Matches are distributed among these distances:
48 9 0.01
49 9 0.01
50 12 0.01
51 54 0.04
52 122 0.08
53 106 0.07
54 15 0.01
55 24 0.02
56 6 0.00
57 23 0.02
58 842 0.57
59 80 0.05
60 34 0.02
61 6 0.00
62 12 0.01
63 14 0.01
64 65 0.04
66 1 0.00
68 4 0.00
69 23 0.02
70 5 0.00
72 1 0.00
73 1 0.00
74 18 0.01
75 2 0.00
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.27
Consensus pattern (55 bp):
CCTAATTTAATTAAAAACAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
Found at i:48637038 original size:29 final size:28
Alignment explanation
Indices: 48637001--48638603 Score: 943
Period size: 29 Copynumber: 56.1 Consensus size: 28
48636991 TAAAAACCCT
* *
48637001 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
*
48637030 AACCCTAACCTTAAACTAAATTAATTAA
1 AACCCTAACCCTAAACTAAATTAATTAA
** * ****
48637058 AACCCTAA--CTTGATTAAA--AACCCT
1 AACCCTAACCCTAAACTAAATTAATTAA
* *
48637082 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
*
48637111 AACCCTAACCTTAAACTAAATTAATTAA
1 AACCCTAACCCTAAACTAAATTAATTAA
** * ****
48637139 AACCCTAA--CTTGATTAAA--AACCCT
1 AACCCTAACCCTAAACTAAATTAATTAA
* *
48637163 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
*
48637192 AACCCTAACCTTAAACTAAATTAATTAA
1 AACCCTAACCCTAAACTAAATTAATTAA
** * ****
48637220 AACCCTAA--CTTGATTAAA--AACCCT
1 AACCCTAACCCTAAACTAAATTAATTAA
* *
48637244 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
*
48637273 AACCCTAACCTTAAACTAAATTAATTAA
1 AACCCTAACCCTAAACTAAATTAATTAA
** * ****
48637301 AACCCTAA--CTTGATTAAA--AACCCT
1 AACCCTAACCCTAAACTAAATTAATTAA
* *
48637325 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* **
48637354 AACCCTAACCCTAACCTGACTTAATTAAAAAA
1 AACCCTAACCCTAA----ACTAAATTAATTAA
*
48637386 TCTAACCCTAACCCTAACCTAAATTAATT-A
1 ---AACCCTAACCCTAAACTAAATTAATTAA
*
48637416 AA----AACCCT-AACTTAATTAA--AA
1 AACCCTAACCCTAAACTAAATTAATTAA
* * *
48637437 -ACCTTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* **
48637465 AACCCTAACCCTAACCTGACTTAATTAAAAAA
1 AACCCTAACCCTAA----ACTAAATTAATTAA
*
48637497 TCTAACCCTAACCCTAACCTAAATTAATT-A
1 ---AACCCTAACCCTAAACTAAATTAATTAA
*
48637527 AA----AACCCT-AACTTAATTAA--AA
1 AACCCTAACCCTAAACTAAATTAATTAA
* * *
48637548 -ACCTTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* **
48637576 AACCCTAACCCTAACCTGACTTAATTAAAAAA
1 AACCCTAACCCTAA----ACTAAATTAATTAA
*
48637608 TCTAACCCTAACCCTAACCTAAATTAATT-A
1 ---AACCCTAACCCTAAACTAAATTAATTAA
*
48637638 AA----AACCCT-AACTTAATTAA--AA
1 AACCCTAACCCTAAACTAAATTAATTAA
* * *
48637659 -ACCTTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* * * *
48637687 AACCCTAACCCTAACCTGACTCTAACCTAA
1 AACCCTAACCCTAAACTAAAT-TAA-TTAA
**** * ** *
48637717 CTTAATTAAAATCCCTAACCCTAACCCTAACCTAA
1 ---AACCCTAA-CCCTAA-ACTAA-ATTAA-TTAA
***** * *
48637752 CTTATTAAAAACCCTAACCCTAACCTAATTTAATGAAAA
1 ---AACCCTAACCCT-A----AA-CTAAATTAAT--TAA
* * *
48637791 AATCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* *
48637820 AACCCTAACCCTAACCTAACTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* *
48637849 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* *
48637878 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* *
48637907 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* *
48637936 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* *
48637965 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* *
48637994 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* *
48638023 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* *
48638052 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* *
48638081 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* *
48638110 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* *
48638139 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* *
48638168 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* *
48638197 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* *
48638226 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* *
48638255 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* *
48638284 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* *
48638313 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* *
48638342 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* *
48638371 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* *
48638400 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* *
48638429 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* *
48638458 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* *
48638487 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* *
48638516 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* *
48638545 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAAACTAAATTAATT-AA
* *
48638574 AACCCTAACCCTAACCTAATTTAATTAA
1 AACCCTAACCCTAAACTAAATTAATTAA
48638602 AA
1 AA
48638604 ATCTTAACTT
Statistics
Matches: 1336, Mismatches: 150, Indels: 177
0.80 0.09 0.11
Matches are distributed among these distances:
20 3 0.00
21 3 0.00
22 27 0.02
23 18 0.01
24 58 0.04
25 24 0.02
26 44 0.03
27 6 0.00
28 58 0.04
29 926 0.69
30 18 0.01
31 26 0.02
32 6 0.00
33 25 0.02
34 10 0.01
35 65 0.05
36 9 0.01
38 3 0.00
39 7 0.01
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.27
Consensus pattern (28 bp):
AACCCTAACCCTAAACTAAATTAATTAA
Found at i:48637430 original size:18 final size:18
Alignment explanation
Indices: 48637403--48637444 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
48637393 CTAACCCTAA
*
48637403 CCTAAATTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
48637421 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
*
48637439 CTTAAC
1 CCTAAC
48637445 CCTAACCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (18 bp):
CCTAACTTAATTAAAAAC
Found at i:48637541 original size:18 final size:18
Alignment explanation
Indices: 48637514--48637555 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
48637504 CTAACCCTAA
*
48637514 CCTAAATTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
48637532 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
*
48637550 CTTAAC
1 CCTAAC
48637556 CCTAACCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (18 bp):
CCTAACTTAATTAAAAAC
Found at i:48637652 original size:18 final size:18
Alignment explanation
Indices: 48637625--48637666 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
48637615 CTAACCCTAA
*
48637625 CCTAAATTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
48637643 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
*
48637661 CTTAAC
1 CCTAAC
48637667 CCTAACCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (18 bp):
CCTAACTTAATTAAAAAC
Found at i:48638611 original size:29 final size:29
Alignment explanation
Indices: 48637767--48638604 Score: 1640
Period size: 29 Copynumber: 28.9 Consensus size: 29
48637757 TAAAAACCCT
* *
48637767 AACCCTAACCTAATTTAATGAAAAAATCCT
1 AACCCTAACCTAATTTAAT-TAAAAACCCT
48637797 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
48637826 AACCCTAACCTAACTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
48637855 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
48637884 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
48637913 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
48637942 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
48637971 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
48638000 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
48638029 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
48638058 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
48638087 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
48638116 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
48638145 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
48638174 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
48638203 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
48638232 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
48638261 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
48638290 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
48638319 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
48638348 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
48638377 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
48638406 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
48638435 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
48638464 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
48638493 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
48638522 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
48638551 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
48638580 AACCCTAACCTAATTTAATTAAAAA
1 AACCCTAACCTAATTTAATTAAAAA
48638605 TCTTAACTTA
Statistics
Matches: 804, Mismatches: 4, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
29 785 0.98
30 19 0.02
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.27
Consensus pattern (29 bp):
AACCCTAACCTAATTTAATTAAAAACCCT
Found at i:48638629 original size:18 final size:18
Alignment explanation
Indices: 48638588--48638629 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
48638578 CTAACCCTAA
* *
48638588 CCTAATTTAATTAAAAAT
1 CCTAACTTAATTAAAAAC
*
48638606 CTTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
48638624 CCTAAC
1 CCTAAC
48638630 ACTAACCTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (18 bp):
CCTAACTTAATTAAAAAC
Found at i:48638639 original size:87 final size:86
Alignment explanation
Indices: 48637325--48638604 Score: 1793
Period size: 87 Copynumber: 14.7 Consensus size: 86
48637315 TAAAAACCCT
* * **
48637325 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTGACTTAATTAAAAAATCTA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
*
48637390 ACCCTAACCCTAACCTAAATTAATTA
66 ACCCTAA-CCTAA--TTAATTAA--A
*
48637416 AA----AACCCTAA-C----TTAATTAAAAACCTTAACCCTAACCTAATTTAATTAAAAACCCTA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
*
48637472 ACCCTAACCTGACTTAATTAAA
66 ACCCTAACCT-AATTAATTAAA
** * *
48637494 AAATCTAACCCTAACCCTAACCTAAATTAATTAAA----AACCCTAA-C----TTAATTAAAAAC
1 AACCCTAACCCTAA-CCTAA-TTTAATTAA--AAACCCTAACCCTAACCTAATTTAATTAAAAAC
*
48637550 CTTAACCCTAACCTAATTTAATTAAA
62 CCTAACCCTAACCTAA-TTAATTAAA
* * ** * *
48637576 AACCCTAACCCTAACCTGACTTAATTAAAAAATCTAACCCTAACCCTAACCTAAATTAATTAAA-
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA-CCTAA-TTTAATTAA--AAAC
48637640 ---AACCCTAA-C---TTAATTAAA
62 CCTAACCCTAACCTAATTAATTAAA
*
48637658 AACCTTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTGACTCTAACCTAACTTAAT
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCT-A----AC-CTAA--T---TTAAT
* *
48637723 TAAAATCCCTAACCCTAACCCTAACCTAACTTATTAAA
55 TAAAAACCCTAACCCTAA-CCTAA--T---TAATTAAA
* *
48637761 AACCCTAACCCTAACCTAATTTAATGAAAAAATCCTAACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCCTAACCTAATTTAAT-TAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
48637826 AACCCTAACCTAACTTAATTAAA
65 AACCCTAACCTAA-TTAATTAAA
48637849 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
48637914 ACCCTAACCTAATTTAATTAAA
66 ACCCTAACCTAA-TTAATTAAA
48637936 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
48638001 ACCCTAACCTAATTTAATTAAA
66 ACCCTAACCTAA-TTAATTAAA
48638023 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
48638088 ACCCTAACCTAATTTAATTAAA
66 ACCCTAACCTAA-TTAATTAAA
48638110 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
48638175 ACCCTAACCTAATTTAATTAAA
66 ACCCTAACCTAA-TTAATTAAA
48638197 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
48638262 ACCCTAACCTAATTTAATTAAA
66 ACCCTAACCTAA-TTAATTAAA
48638284 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
48638349 ACCCTAACCTAATTTAATTAAA
66 ACCCTAACCTAA-TTAATTAAA
48638371 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
48638436 ACCCTAACCTAATTTAATTAAA
66 ACCCTAACCTAA-TTAATTAAA
48638458 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
48638523 ACCCTAACCTAATTTAATTAAA
66 ACCCTAACCTAA-TTAATTAAA
48638545 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAA
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAA
48638605 TCTTAACTTA
Statistics
Matches: 1104, Mismatches: 32, Indels: 110
0.89 0.03 0.09
Matches are distributed among these distances:
78 6 0.01
80 15 0.01
81 8 0.01
82 155 0.14
83 1 0.00
84 2 0.00
86 4 0.00
87 757 0.69
88 33 0.03
89 16 0.01
91 17 0.02
92 5 0.00
93 30 0.03
95 1 0.00
96 1 0.00
98 4 0.00
99 2 0.00
100 1 0.00
103 32 0.03
104 14 0.01
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.27
Consensus pattern (86 bp):
AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTA
ACCCTAACCTAATTAATTAAA
Found at i:48638697 original size:55 final size:55
Alignment explanation
Indices: 48638637--48638828 Score: 375
Period size: 55 Copynumber: 3.5 Consensus size: 55
48638627 AACACTAACC
48638637 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTGTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTGTTGGACTTAA
48638692 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTGTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTGTTGGACTTAA
*
48638747 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTGTTGGACTTAA
48638802 TAATTTTACATAATTTGATAATTTTAC
1 TAATTTTACATAATTTGATAATTTTAC
48638829 CTAATTTAAT
Statistics
Matches: 136, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
55 136 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (55 bp):
TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTGTTGGACTTAA
Found at i:48638824 original size:18 final size:18
Alignment explanation
Indices: 48638801--48638835 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
48638791 TTTGGACTTA
48638801 ATAATTTTACATAATTTG
1 ATAATTTTACATAATTTG
*
48638819 ATAATTTTACCTAATTT
1 ATAATTTTACATAATTT
48638836 AATTAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (18 bp):
ATAATTTTACATAATTTG
Found at i:48642379 original size:124 final size:124
Alignment explanation
Indices: 48642030--48642365 Score: 618
Period size: 124 Copynumber: 2.7 Consensus size: 124
48642020 CCCAAACTTG
48642030 CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
48642095 TAGAGGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
66 TAGAGGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
48642154 CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* *
48642219 TAGAGGGGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTTATTTCTTACATGAC
66 TAGAGGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
* *
48642278 CTACTGTAGCAAAATCGCGTCTACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* *
48642343 TAGAAGTGATTTTATACTATTTG
66 TAGAGGCGATTTTATACTATTTG
48642366 ACCAAAAATG
Statistics
Matches: 206, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
124 206 1.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (124 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAGGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
Found at i:48646079 original size:9 final size:9
Alignment explanation
Indices: 48646065--48646090 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
48646055 TTTATTTTTA
48646065 AAAATATTT
1 AAAATATTT
48646074 AAAATATTT
1 AAAATATTT
48646083 AAAATATT
1 AAAATATT
48646091 AATATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AAAATATTT
Found at i:48646219 original size:31 final size:30
Alignment explanation
Indices: 48646157--48646222 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 30
48646147 TTTAGTCATA
48646157 TAATAAATTATTAATATAAATTATTATTTT
1 TAATAAATTATTAATATAAATTATTATTTT
48646187 TAATAAATTATTTAATATTTAAATT-TTA-TTT
1 TAATAAATTA-TTAATA--TAAATTATTATTTT
48646218 TAATA
1 TAATA
48646223 GTAAATTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
30 10 0.30
31 14 0.42
32 3 0.09
33 6 0.18
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (30 bp):
TAATAAATTATTAATATAAATTATTATTTT
Found at i:48646732 original size:15 final size:16
Alignment explanation
Indices: 48646676--48646754 Score: 76
Period size: 15 Copynumber: 5.1 Consensus size: 16
48646666 AAATCTAAGT
48646676 ATAAGAATAATAAATAAA
1 ATAA-AATAATAAAT-AA
*
48646694 ATAAAATAA-AAATTA
1 ATAAAATAATAAATAA
*
48646709 GTAAAATAA-AAATAA
1 ATAAAATAATAAATAA
*
48646724 ATAATATAATAAAT-A
1 ATAAAATAATAAATAA
*
48646739 ATAATA-AATAAATAA
1 ATAAAATAATAAATAA
48646754 A
1 A
48646755 ATAGAAGGGG
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
14 7 0.13
15 30 0.56
16 8 0.15
17 5 0.09
18 4 0.07
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (16 bp):
ATAAAATAATAAATAA
Found at i:48646736 original size:18 final size:17
Alignment explanation
Indices: 48646676--48646755 Score: 56
Period size: 18 Copynumber: 4.4 Consensus size: 17
48646666 AAATCTAAGT
*
48646676 ATAAGAATAATAAATAA
1 ATAAAAATAATAAATAA
*
48646693 A-ATAAAATAAAAATTAGTAAA
1 ATA-AAAATAATAA--A-T-AA
48646714 ATAAAAATAA-ATAATATA
1 ATAAAAATAATA-AATA-A
48646732 ATAAATAATAATAAATAA
1 ATAAA-AATAATAAATAA
48646750 ATAAAA
1 ATAAAA
48646756 TAGAAGGGGT
Statistics
Matches: 51, Mismatches: 2, Indels: 20
0.70 0.03 0.27
Matches are distributed among these distances:
16 1 0.02
17 11 0.22
18 13 0.25
19 11 0.22
20 3 0.06
21 11 0.22
22 1 0.02
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (17 bp):
ATAAAAATAATAAATAA
Found at i:48646744 original size:22 final size:23
Alignment explanation
Indices: 48646712--48646757 Score: 51
Period size: 22 Copynumber: 2.0 Consensus size: 23
48646702 AAAATTAGTA
* *
48646712 AAATAA-AAATAAATAATATAAT
1 AAATAATAAATAAATAAAAAAAT
48646734 AAATAAT-AATAAATAAATAAAAT
1 AAATAATAAATAAATAAA-AAAAT
48646757 A
1 A
48646758 GAAGGGGTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (23 bp):
AAATAATAAATAAATAAAAAAAT
Found at i:48650505 original size:51 final size:51
Alignment explanation
Indices: 48650447--48650622 Score: 212
Period size: 51 Copynumber: 3.5 Consensus size: 51
48650437 TTTGAGGGTT
* * * *
48650447 TTCACATAGTACCACTCATGTTACTATTATCATTCGATACACGTAGTAGCC
1 TTCACATAGTACTACACATGTGACTATTATCTTTCGATACACGTAGTAGCC
* * * * *
48650498 TTCACATAGTACTACACACGTGACTA-AAGCTTTTCGGTACACATAGTAGCC
1 TTCACATAGTACTACACATGTGACTATTATC-TTTCGATACACGTAGTAGCC
* *
48650549 TTCACTTAGTACTACACATGTGACCATTAT-TTATCGATACACGTAGTAGCC
1 TTCACATAGTACTACACATGTGACTATTATCTT-TCGATACACGTAGTAGCC
*
48650600 TTCACATAATACTACACATGTGA
1 TTCACATAGTACTACACATGTGA
48650623 TCATCGATAC
Statistics
Matches: 104, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
50 4 0.04
51 99 0.95
52 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.31
Consensus pattern (51 bp):
TTCACATAGTACTACACATGTGACTATTATCTTTCGATACACGTAGTAGCC
Found at i:48658127 original size:50 final size:49
Alignment explanation
Indices: 48658067--48658258 Score: 208
Period size: 51 Copynumber: 3.8 Consensus size: 49
48658057 TATCATTCGA
*
48658067 TACACGTAGTAGCCTTTACATAGTACTACACACGTGATCAAGTTTTACAG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTAC-G
* *
48658117 TCCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTAC-G
* * * * * *
48658168 TATACATAGTAGCCTTCACTTAGTACTACACATGTGAAC-ATTATTTATCG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTA-CG
* *
48658218 ATACACGTAGTACCCTTCACATAGTACTACACACATGATCA
1 -TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCA
48658259 TCGATACTTT
Statistics
Matches: 117, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
48 1 0.01
49 4 0.03
50 37 0.32
51 71 0.61
52 4 0.03
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (49 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACG
Found at i:48665875 original size:51 final size:50
Alignment explanation
Indices: 48665809--48665995 Score: 182
Period size: 51 Copynumber: 3.7 Consensus size: 50
48665799 TTGGTTCACA
** *
48665809 TAGTAGCCTGTACATAGTACTACACATGTGACCATTACCATCCGATACACG
1 TAGTAGCCTACACATAGTACTACACACGTGACCA-TACCATCCGATACACG
* * * * *
48665860 TAGTACCCTACACATAGTACTACACACGTGATCGAAACTATCCAGTATGCA--
1 TAGTAGCCTACACATAGTACTACACACGTGA-CCATACCATCC-G-ATACACG
* * * * * *
48665911 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTTCGGTACACG
1 TAGTAGCCTACACATAGTACTACACACGTGACCATACCA-TCCGATACACG
48665961 TAGTAGCCTACACATAGTACTACACACGTGACCAT
1 TAGTAGCCTACACATAGTACTACACACGTGACCAT
48665996 CACTTTCACT
Statistics
Matches: 107, Mismatches: 22, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
48 3 0.03
49 3 0.03
50 33 0.31
51 61 0.57
52 3 0.03
53 4 0.04
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTACACATAGTACTACACACGTGACCATACCATCCGATACACG
Found at i:48665984 original size:101 final size:101
Alignment explanation
Indices: 48665807--48665991 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
48665797 GTTTGGTTCA
* *
48665807 CATAGTAGCCTGTACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTACCCTACA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTACCCTACA
48665872 CATAGTACTACACACGTGATCGAAACTATCCAGTATG
65 CATAGTACTACACACGTGATCGAAACTATCCAGTATG
* * * *
48665909 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTTCGGTACACGTAGTAGCCTACA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTACCCTACA
48665973 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
48665992 CCATCACTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.51
102 33 0.43
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTACCCTACAC
ATAGTACTACACACGTGATCGAAACTATCCAGTATG
Found at i:48671513 original size:27 final size:27
Alignment explanation
Indices: 48671483--48671560 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
48671473 ACTTAACTTT
48671483 TAAACCATAAACCTAAACTCAAAACAC
1 TAAACCATAAACCTAAACTCAAAACAC
* * * *
48671510 TAAACCTTAAGCATTAAAGTC-AAACAC
1 TAAACCATAAAC-CTAAACTCAAAACAC
*
48671537 TAAACCCTAAATCCTAAAC-CAAAA
1 TAAACCATAAA-CCTAAACTCAAAA
48671561 TGCCAAATTC
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
26 1 0.03
27 32 0.80
28 7 0.17
ACGTcount: A:0.53, C:0.27, G:0.03, T:0.18
Consensus pattern (27 bp):
TAAACCATAAACCTAAACTCAAAACAC
Found at i:48671591 original size:14 final size:14
Alignment explanation
Indices: 48671568--48671597 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
48671558 AAATGCCAAA
*
48671568 TTCAAGGTTTTGGG
1 TTCAAAGTTTTGGG
48671582 TTCAAAGTTTTGGG
1 TTCAAAGTTTTGGG
48671596 TT
1 TT
48671598 TTCGGTTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.07, G:0.30, T:0.47
Consensus pattern (14 bp):
TTCAAAGTTTTGGG
Found at i:48671657 original size:26 final size:26
Alignment explanation
Indices: 48671628--48671682 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
48671618 CGAGGTTTGA
*
48671628 GTTTGGGTTCGAATTCAC-AGTTCAAG
1 GTTTGAGTTCGAATTCACGA-TTCAAG
* *
48671654 GTTTGAGTTTGAGTTCACGATTCAAG
1 GTTTGAGTTCGAATTCACGATTCAAG
48671680 GTT
1 GTT
48671683 CAATGTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.22, C:0.13, G:0.27, T:0.38
Consensus pattern (26 bp):
GTTTGAGTTCGAATTCACGATTCAAG
Found at i:48672172 original size:19 final size:19
Alignment explanation
Indices: 48672148--48672220 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
48672138 AATCTTCAAG
48672148 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
48672167 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
48672186 AATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
48672205 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
48672221 AGATATGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:48672246 original size:22 final size:21
Alignment explanation
Indices: 48672148--48672246 Score: 93
Period size: 19 Copynumber: 4.9 Consensus size: 21
48672138 AATCTTCAAG
*
48672148 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
48672167 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
48672186 AATATGTAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
48672205 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
48672227 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
48672247 TTAATTTGTA
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
19 47 0.67
22 12 0.17
23 11 0.16
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.38
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:48682019 original size:17 final size:18
Alignment explanation
Indices: 48681997--48682030 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
48681987 CTCAACAACC
48681997 AAAGGTATTGTC-CCTGG
1 AAAGGTATTGTCTCCTGG
*
48682014 AAAGGTTTTGTCTCCTG
1 AAAGGTATTGTCTCCTG
48682031 TGCTCTGTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (18 bp):
AAAGGTATTGTCTCCTGG
Found at i:48692569 original size:27 final size:25
Alignment explanation
Indices: 48692531--48692700 Score: 124
Period size: 27 Copynumber: 6.4 Consensus size: 25
48692521 TGCAAGTTGA
*
48692531 GTTCGCCAGTTGGTTTGGCGAGCTGGT
1 GTTCGCCAGTTGG-TT-GCGAACTGGT
* * *
48692558 GTTCGCCAGTTGAGTTGTGAATTAGGG
1 GTTCGCCAGTTG-GTTGCGAACT-GGT
* * *
48692585 GTTCACTAGTTAAGTTGCGAACTGGT
1 GTTCGCCAGTT-GGTTGCGAACTGGT
* * *
48692611 GTTCGCCATTTGGTTTGGCGAGCTAGT
1 GTTCGCCAGTTGG-TT-GCGAACTGGT
** *
48692638 GTTCGCCAGTTGAGTTATGAACTGAT
1 GTTCGCCAGTTG-GTTGCGAACTGGT
*
48692664 GGTTCGCTAGTTGAGTTGCGAACTGGT
1 -GTTCGCCAGTTG-GTTGCGAACTGGT
48692691 GTTCGCCAGT
1 GTTCGCCAGT
48692701 CAAAAAGTCA
Statistics
Matches: 109, Mismatches: 27, Indels: 15
0.72 0.18 0.10
Matches are distributed among these distances:
25 1 0.01
26 30 0.28
27 76 0.70
28 2 0.02
ACGTcount: A:0.16, C:0.16, G:0.34, T:0.34
Consensus pattern (25 bp):
GTTCGCCAGTTGGTTGCGAACTGGT
Found at i:48692668 original size:80 final size:80
Alignment explanation
Indices: 48692531--48692700 Score: 261
Period size: 80 Copynumber: 2.1 Consensus size: 80
48692521 TGCAAGTTGA
* * *
48692531 GTTCGCCAGTTGGTTTGGCGAGCTGGTGTTCGCCAGTTGAGTTGTGAATTAGGGGTTCACTAGTT
1 GTTCGCCAGTTGGTTTGGCGAGCTAGTGTTCGCCAGTTGAGTTATGAATGAGGGGTTCACTAGTT
48692596 AAGTTGCGAACTGGT
66 AAGTTGCGAACTGGT
* * *
48692611 GTTCGCCATTTGGTTTGGCGAGCTAGTGTTCGCCAGTTGAGTTATGAACTGA-TGGTTCGCTAGT
1 GTTCGCCAGTTGGTTTGGCGAGCTAGTGTTCGCCAGTTGAGTTATGAA-TGAGGGGTTCACTAGT
*
48692675 TGAGTTGCGAACTGGT
65 TAAGTTGCGAACTGGT
48692691 GTTCGCCAGT
1 GTTCGCCAGT
48692701 CAAAAAGTCA
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
80 79 0.98
81 2 0.02
ACGTcount: A:0.16, C:0.16, G:0.34, T:0.34
Consensus pattern (80 bp):
GTTCGCCAGTTGGTTTGGCGAGCTAGTGTTCGCCAGTTGAGTTATGAATGAGGGGTTCACTAGTT
AAGTTGCGAACTGGT
Found at i:48709155 original size:45 final size:44
Alignment explanation
Indices: 48709096--48709255 Score: 145
Period size: 45 Copynumber: 3.7 Consensus size: 44
48709086 TCAGTTTTAA
* *
48709096 TCTGCCCCACTGCAACTTCAGGGAGATAAGATTTGCCAT-CTTCAG
1 TCTGCCTCACTGCAACTTCAGGGAGATAAGACTTG-CATACTT-AG
*
48709141 TCTGCCTCACTGCAACTTCA-GGAGGATAAGACTTGCGTACTTAG
1 TCTGCCTCACTGCAACTTCAGGGA-GATAAGACTTGCATACTTAG
* * * * *
48709185 TCT-ACTCCACTGCAACTTCAGAGAGATAAGACTAG-AT--GTAA
1 TCTGCCT-CACTGCAACTTCAGGGAGATAAGACTTGCATACTTAG
* *
48709226 TCTG-ATCTCTGCAACTTCAGGGAGATAAGA
1 TCTGCCTCACTGCAACTTCAGGGAGATAAGA
48709256 TCCAAGGTTT
Statistics
Matches: 98, Mismatches: 12, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
40 22 0.22
41 6 0.06
43 3 0.03
44 33 0.34
45 34 0.35
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (44 bp):
TCTGCCTCACTGCAACTTCAGGGAGATAAGACTTGCATACTTAG
Found at i:48709251 original size:40 final size:42
Alignment explanation
Indices: 48708968--48709385 Score: 235
Period size: 44 Copynumber: 9.8 Consensus size: 42
48708958 CCACCCTTAG
* **
48708968 TCTGCTCCACTACAACTTCAGGGAGATAAGACTA-GATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGGATGTAA
* * * * * * *
48709009 TCTACT-CTCTGTAACTTCAGAGAGATAAGATCCAAGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA--CTAGGATGTAA
* * * * *
48709052 TCTGCTCCACTGCAACCTT-AGGGAGATAGGATTATCAGTTTTAA
1 TCTGCTCCACTGCAA-CTTCAGGGAGATAAGACTA--GGATGTAA
* * * * * *
48709096 TCTGCCCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG-GAT-GT-AA
* *
48709141 TCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCGTACT-TAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTAG-G-A-TGTAA
* *
48709185 TCTACTCCACTGCAACTTCAGAGAGATAAGACTA-GATGTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGGATGTAA
* * * * *
48709226 TCTGAT-CTCTGCAACTTCAGGGAGATAAGATCCAAGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA--CTAGGATGTAA
* * * * * *
48709269 TCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTA--GGATGTAA
**
48709313 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTA-GATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGGATGTAA
* * **
48709354 TCTGCT-CTCTACAACTTCAAAGAGATAAGACT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT
48709386 TGTGATTTTA
Statistics
Matches: 295, Mismatches: 58, Indels: 49
0.73 0.14 0.12
Matches are distributed among these distances:
40 65 0.22
41 21 0.07
42 7 0.02
43 21 0.07
44 142 0.48
45 37 0.13
46 1 0.00
47 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (42 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGGATGTAA
Found at i:48709395 original size:128 final size:123
Alignment explanation
Indices: 48709189--48709432 Score: 303
Period size: 128 Copynumber: 1.9 Consensus size: 123
48709179 ACTTAGTCTA
* * **
48709189 CTCCACTGCAACTTCAGAGAGATAAGACTAGATGTAATCTGATCTCTGCAACTTCAGGGAGATAA
1 CTCCACTGCAACTTCAGAGAGATAAGACTAGATGCAATCTGATCTCTACAACTTCAAAGAGATAA
48709254 GATCCAAGGTTTTAATCCGCTCCACTACAACTT-CAGGGAGATAGGATTATCGGCTTTAATCTG
66 GA-CCAAGGTTTTAAT----T-CACTACAACTTCCAGGGAGATAGGATTATCGGCTTTAATCTG
* * *
48709317 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTACAACTTCAAAGAGATAA
1 CTCCACTGCAACTTCAGAGAGATAAGACTAGATGCAATCTGATCTCTACAACTTCAAAGAGATAA
** * *
48709382 GA-CTTGTGATTTTAATTCGCTGCAACTTCCAGGGAGATAGGATTATCGGCT
66 GACCAAG-G-TTTTAATTCACTACAACTTCCAGGGAGATAGGATTATCGGCT
48709433 ACGGATTTGT
Statistics
Matches: 102, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
123 9 0.09
124 23 0.23
126 2 0.02
127 1 0.01
128 67 0.66
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (123 bp):
CTCCACTGCAACTTCAGAGAGATAAGACTAGATGCAATCTGATCTCTACAACTTCAAAGAGATAA
GACCAAGGTTTTAATTCACTACAACTTCCAGGGAGATAGGATTATCGGCTTTAATCTG
Found at i:48717583 original size:24 final size:24
Alignment explanation
Indices: 48717555--48717600 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
48717545 ATCATTTTTT
* *
48717555 GCTGCTCATTCATTTGCTTTTGAA
1 GCTGCTCATGCATTTCCTTTTGAA
*
48717579 GCTGCTCCTGCATTTCCTTTTG
1 GCTGCTCATGCATTTCCTTTTG
48717601 GGACTGTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.46
Consensus pattern (24 bp):
GCTGCTCATGCATTTCCTTTTGAA
Found at i:48726166 original size:44 final size:45
Alignment explanation
Indices: 48726102--48726204 Score: 129
Period size: 44 Copynumber: 2.3 Consensus size: 45
48726092 ATTTCATGAT
* * *
48726102 TCGCCATAAAGGTAATACAGAATAC-ACCACAAAGGCTAAACAGAA
1 TCGCCACAAAGGCAAAACAGAAT-CTACCACAAAGGCTAAACAGAA
* *
48726147 T-GCCACAAAGGCAAAACAGAATCTGCCACAAAGGCTAAATAGAA
1 TCGCCACAAAGGCAAAACAGAATCTACCACAAAGGCTAAACAGAA
48726191 TGCGCCACAAAGGC
1 T-CGCCACAAAGGC
48726205 CAAGTAGAAC
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 37 0.74
45 1 0.02
46 11 0.22
ACGTcount: A:0.46, C:0.24, G:0.18, T:0.12
Consensus pattern (45 bp):
TCGCCACAAAGGCAAAACAGAATCTACCACAAAGGCTAAACAGAA
Found at i:48726219 original size:21 final size:22
Alignment explanation
Indices: 48726102--48726226 Score: 121
Period size: 23 Copynumber: 5.6 Consensus size: 22
48726092 ATTTCATGAT
*
48726102 TCGCCATAAAGG-TAATACAGAA
1 TCGCCACAAAGGCTAA-ACAGAA
*
48726124 TACACCACAAAGGCTAAACAGAA
1 T-CGCCACAAAGGCTAAACAGAA
*
48726147 T-GCCACAAAGGCAAAACAGAA
1 TCGCCACAAAGGCTAAACAGAA
*
48726168 TCTGCCACAAAGGCTAAATAGAA
1 TC-GCCACAAAGGCTAAACAGAA
* **
48726191 TGCGCCACAAAGGCCAAGTAGAA
1 T-CGCCACAAAGGCTAAACAGAA
*
48726214 -CGCCACCAAGGCT
1 TCGCCACAAAGGCT
48726227 TAGTGTTGAT
Statistics
Matches: 88, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
21 30 0.34
22 1 0.01
23 53 0.60
24 4 0.05
ACGTcount: A:0.44, C:0.26, G:0.19, T:0.11
Consensus pattern (22 bp):
TCGCCACAAAGGCTAAACAGAA
Found at i:48727109 original size:24 final size:24
Alignment explanation
Indices: 48727082--48727129 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
48727072 AAGAGAACAT
48727082 TTAATTTTAAAAAGAAGAACTAGA
1 TTAATTTTAAAAAGAAGAACTAGA
48727106 TTAATTTTAAAAAGAAGAACTAGA
1 TTAATTTTAAAAAGAAGAACTAGA
48727130 AAGTAGTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.29
Consensus pattern (24 bp):
TTAATTTTAAAAAGAAGAACTAGA
Found at i:48739626 original size:29 final size:29
Alignment explanation
Indices: 48739570--48739626 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
48739560 ATCAGTTAAG
* *
48739570 TAAGGCTAGGATTTTATCAAAGATAGATC
1 TAAGGCTAGGATATTATCAAAGAAAGATC
*
48739599 TAAGGTCTA-GATATTATCAAATAAAGAT
1 TAAGG-CTAGGATATTATCAAAGAAAGAT
48739627 TAAAGGTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 21 0.88
30 3 0.12
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.32
Consensus pattern (29 bp):
TAAGGCTAGGATATTATCAAAGAAAGATC
Found at i:48741119 original size:46 final size:46
Alignment explanation
Indices: 48741015--48741120 Score: 131
Period size: 46 Copynumber: 2.3 Consensus size: 46
48741005 GAAATGGGAT
* *
48741015 AAGCTCGAAACCTATTCTTGTATTCTCGAGTCCGCAACATATGCAA
1 AAGCTCGAAACCTATTCTTATATTCTCGAGTCAGCAACATATGCAA
* * * * * *
48741061 GATCTTGGAACCTATTCTTATTTTCTTGAGTCAGCAACATATGCAA
1 AAGCTCGAAACCTATTCTTATATTCTCGAGTCAGCAACATATGCAA
*
48741107 AAGCTCAAAACCTA
1 AAGCTCGAAACCTA
48741121 GGCAAAAGTC
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (46 bp):
AAGCTCGAAACCTATTCTTATATTCTCGAGTCAGCAACATATGCAA
Found at i:48741480 original size:15 final size:15
Alignment explanation
Indices: 48741460--48741490 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
48741450 ACTAACCTTC
48741460 AAATTCATGCTTATA
1 AAATTCATGCTTATA
48741475 AAATTCATGCTTATA
1 AAATTCATGCTTATA
48741490 A
1 A
48741491 TCTTTTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (15 bp):
AAATTCATGCTTATA
Found at i:48743251 original size:3 final size:3
Alignment explanation
Indices: 48743238--48743273 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
48743228 TCTACATGAC
48743238 ATT ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
48743274 ACATTTACCA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:48751578 original size:31 final size:31
Alignment explanation
Indices: 48751542--48751611 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
48751532 TTCAAAATGG
*
48751542 TCAAATAAGAGCCA-AATCTTCTTGAAAGTGC
1 TCAAATAAGAGACACAA-CTTCTTGAAAGTGC
* * *
48751573 TCAAATAA-AGACACGACTTTTTGAAATTGC
1 TCAAATAAGAGACACAACTTCTTGAAAGTGC
48751603 TCAAATAAG
1 TCAAATAAG
48751612 GGCTTCTCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 24 0.73
31 9 0.27
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.27
Consensus pattern (31 bp):
TCAAATAAGAGACACAACTTCTTGAAAGTGC
Found at i:48759771 original size:26 final size:26
Alignment explanation
Indices: 48759733--48759807 Score: 62
Period size: 26 Copynumber: 2.9 Consensus size: 26
48759723 GAGCCAAACC
**
48759733 AACAACCGTAGCTCACCAGGCCCACT
1 AACAACCCCAGCTCACCAGGCCCACT
** *
48759759 GGCAACCCCAGCT-ATCCAAGCCCACT
1 AACAACCCCAGCTCA-CCAGGCCCACT
** *
48759785 AATGACCCCAACTCACCAGGCCC
1 AACAACCCCAGCTCACCAGGCCC
48759808 CAAACTCCTA
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
25 1 0.03
26 34 0.94
27 1 0.03
ACGTcount: A:0.29, C:0.45, G:0.15, T:0.11
Consensus pattern (26 bp):
AACAACCCCAGCTCACCAGGCCCACT
Found at i:48765315 original size:20 final size:19
Alignment explanation
Indices: 48765287--48765324 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
48765277 GCTCTCCATC
48765287 TCAAAATTTTTTTCCACTTT
1 TCAAAATTTTTTT-CACTTT
*
48765307 TCAACATTTTTTTCACTT
1 TCAAAATTTTTTTCACTT
48765325 AAATCCCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.55
Consensus pattern (19 bp):
TCAAAATTTTTTTCACTTT
Found at i:48771155 original size:17 final size:16
Alignment explanation
Indices: 48771114--48771162 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
48771104 GAATATTTTT
48771114 ATAGATTATTAATTTG
1 ATAGATTATTAATTTG
* *
48771130 AGAAAATTAGTTAATTTG
1 A-TAGATTA-TTAATTTG
48771148 ATAGATTAATTAATT
1 ATAGATT-ATTAATT
48771163 AAGGGATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
16 1 0.04
17 15 0.58
18 10 0.38
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (16 bp):
ATAGATTATTAATTTG
Found at i:48773432 original size:104 final size:104
Alignment explanation
Indices: 48773316--48773909 Score: 744
Period size: 104 Copynumber: 5.7 Consensus size: 104
48773306 CAGCTAACGA
* * *
48773316 TTATTTGAGTTAGTTGATTTAATATCGCAACTCCAAACAGCTTGCTGACCTACGTTCACAGCTGA
1 TTATTTGAGTTAGTTGATTTAAGATCGCAACTCCTAACAGCTCGCTGACCTACGTTCACAGCTGA
48773381 TATTATTAAGGTTAGCTAATTTAAGATCGCAACCTAAGT
66 TATTATTAAGGTTAGCTAATTTAAGATCGCAACCTAAGT
* * ** * *
48773420 TTATTTTAGTTAGTTGATTTAAGATCGCAACT-CTGAACAGATTACTAACCTACGTTCACAGCCG
1 TTATTTGAGTTAGTTGATTTAAGATCGCAACTCCT-AACAGCTCGCTGACCTACGTTCACAGCTG
*
48773484 ATATTATTAAGGTTAGCTGATTTAAGATCGCAACCTAAGT
65 ATATTATTAAGGTTAGCTAATTTAAGATCGCAACCTAAGT
* * * * * * *
48773524 TTATTTGAGTTAGTTGATTTAATATCGTAACTCCGAACAGCTCACTAACCTTCGTTCACAGTTGA
1 TTATTTGAGTTAGTTGATTTAAGATCGCAACTCCTAACAGCTCGCTGACCTACGTTCACAGCTGA
* **
48773589 TATTATTAAGGTTAGCTTATTTAAGATTTCAACCTAAGT
66 TATTATTAAGGTTAGCTAATTTAAGATCGCAACCTAAGT
* * * * * *
48773628 TTTTTTGAGTTAGCTAATTTAATATCGCAAATCCTAACAGCTCGTTGACCTACGTTCACAGCTGA
1 TTATTTGAGTTAGTTGATTTAAGATCGCAACTCCTAACAGCTCGCTGACCTACGTTCACAGCTGA
48773693 TATTATTAAGGTTAGCTAATTTAAGATCAG-AACCTAAGT
66 TATTATTAAGGTTAGCTAATTTAAGATC-GCAACCTAAGT
* * * **
48773732 TTATTTGAGTTTGTTGATTTAAGATTC-CAACTCCTAACAACTCGCTGACCTATGTTCACAATTG
1 TTATTTGAGTTAGTTGATTTAAGA-TCGCAACTCCTAACAGCTCGCTGACCTACGTTCACAGCTG
* * * *
48773796 ATATTATTCAGTTTAGCTGATTTAATATCGCAACCTAAGT
65 ATATTATTAAGGTTAGCTAATTTAAGATCGCAACCTAAGT
* * * * * * * *
48773836 TTATTTGAGTTCGCTAATTTAAGATCACAACTCCTAACAGTTCGTTGATCTACGATCACAGCTGA
1 TTATTTGAGTTAGTTGATTTAAGATCGCAACTCCTAACAGCTCGCTGACCTACGTTCACAGCTGA
*
48773901 TATTTTTAA
66 TATTATTAA
48773910 AGTTTCCTCG
Statistics
Matches: 422, Mismatches: 62, Indels: 12
0.85 0.12 0.02
Matches are distributed among these distances:
103 4 0.01
104 415 0.98
105 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (104 bp):
TTATTTGAGTTAGTTGATTTAAGATCGCAACTCCTAACAGCTCGCTGACCTACGTTCACAGCTGA
TATTATTAAGGTTAGCTAATTTAAGATCGCAACCTAAGT
Found at i:48784098 original size:21 final size:21
Alignment explanation
Indices: 48784068--48784107 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
48784058 GAGTGAAAAT
*
48784068 ACCTTCGATGTCACGACACTA
1 ACCTTCGATGTCACAACACTA
*
48784089 ACCTTTGATGTCACAACAC
1 ACCTTCGATGTCACAACAC
48784108 CGGACTCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.33, G:0.12, T:0.25
Consensus pattern (21 bp):
ACCTTCGATGTCACAACACTA
Found at i:48793272 original size:46 final size:46
Alignment explanation
Indices: 48793203--48793366 Score: 235
Period size: 46 Copynumber: 3.6 Consensus size: 46
48793193 TTTGAGTACT
* *
48793203 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAACTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
* * *
48793249 TTTGATCAAGTAACAAAGTGATAACTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
* *
48793295 TCTGATCAAGTGACAAAGTGATAAGTGACAGC-CTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
*
48793340 TCTGATC-AGGGAC-AAGTGATAAGTGAT
1 TCTGATCAAGTGACAAAGTGATAAGTGAT
48793367 CATATATAAG
Statistics
Matches: 106, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
43 13 0.12
44 5 0.05
45 19 0.18
46 69 0.65
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
Found at i:48795964 original size:58 final size:55
Alignment explanation
Indices: 48795840--48796009 Score: 173
Period size: 57 Copynumber: 3.0 Consensus size: 55
48795830 CCATATAAAT
* * * **
48795840 AAGACTTTGTGGCTATCTTTGTTAAAGGAAGACTTTGTGGCGATCTCTGCTATAAGG
1 AAGACTTTGTGGCTATCTATGTTAAAGGAAG-CTTTGTGGCTATCTCTGTTA-AAAA
* *
48795897 AAGACTTTGTGGCGATCTATGTTATAAGGAAGCCTTAGTGGCTATCTCTGTTAAAAA
1 AAGACTTTGTGGCTATCTATGTTA-AAGGAAG-CTTTGTGGCTATCTCTGTTAAAAA
* *
48795954 AATG-CATTTGTGGCTATCTCA-GTTAAATGGATGCTTTGTGGCTATCTTTGTTAAAA
1 AA-GAC-TTTGTGGCTATCT-ATGTTAAA-GGAAGCTTTGTGGCTATCTCTGTTAAAA
48796010 TGATGCTTAC
Statistics
Matches: 96, Mismatches: 12, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
57 50 0.52
58 45 0.47
59 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (55 bp):
AAGACTTTGTGGCTATCTATGTTAAAGGAAGCTTTGTGGCTATCTCTGTTAAAAA
Found at i:48796011 original size:29 final size:29
Alignment explanation
Indices: 48795840--48796009 Score: 168
Period size: 29 Copynumber: 5.9 Consensus size: 29
48795830 CCATATAAAT
*
48795840 AAGACTTTGTGGCTATCTTTGTT-AAAGG
1 AAGACTTTGTGGCTATCTCTGTTAAAAGG
* * *
48795868 AAGACTTTGTGGCGATCTCTGCTATAAGG
1 AAGACTTTGTGGCTATCTCTGTTAAAAGG
* * *
48795897 AAGACTTTGTGGCGATCTATGTTATAAGG
1 AAGACTTTGTGGCTATCTCTGTTAAAAGG
* * *
48795926 AAGCCTTAGTGGCTATCTCTGTTAAAA-A
1 AAGACTTTGTGGCTATCTCTGTTAAAAGG
* *
48795954 AATG-CATTTGTGGCTATCTCAGTTAAATGG
1 AA-GAC-TTTGTGGCTATCTCTGTTAAAAGG
* *
48795984 ATG-CTTTGTGGCTATCTTTGTTAAAA
1 AAGACTTTGTGGCTATCTCTGTTAAAA
48796010 TGATGCTTAC
Statistics
Matches: 118, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
28 42 0.36
29 75 0.64
30 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (29 bp):
AAGACTTTGTGGCTATCTCTGTTAAAAGG
Found at i:48804801 original size:6 final size:6
Alignment explanation
Indices: 48804790--48804816 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
48804780 GATTGGTTTA
48804790 ATTTTG ATTTTG ATTTTG ATTTTG ATT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATT
48804817 AAGATATATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.15, T:0.67
Consensus pattern (6 bp):
ATTTTG
Found at i:48809338 original size:9 final size:9
Alignment explanation
Indices: 48809319--48809348 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
48809309 AACTAAATTT
48809319 TAAAG-GTA
1 TAAAGTGTA
48809327 TAAAGTGTA
1 TAAAGTGTA
48809336 TAAAGTGTA
1 TAAAGTGTA
48809345 TAAA
1 TAAA
48809349 ATATTAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.24
9 16 0.76
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (9 bp):
TAAAGTGTA
Found at i:48814408 original size:6 final size:6
Alignment explanation
Indices: 48814399--48814435 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
48814389 ATTATAAATG
* *
48814399 TTTTTG TTTTTG TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T
48814436 ATTTCTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.11, C:0.00, G:0.05, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:48815195 original size:18 final size:18
Alignment explanation
Indices: 48815172--48815207 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
48815162 TTACTATTTT
*
48815172 ATATTTTTCATGAATTAA
1 ATATTTATCATGAATTAA
*
48815190 ATATTTATGATGAATTAA
1 ATATTTATCATGAATTAA
48815208 CTTAATTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (18 bp):
ATATTTATCATGAATTAA
Found at i:48818318 original size:150 final size:149
Alignment explanation
Indices: 48818055--48818334 Score: 348
Period size: 150 Copynumber: 1.9 Consensus size: 149
48818045 GATAATAACA
* *
48818055 TGCCAAAGCCATATCCCAGACATGGTCTTACATGAGATGTTTCCTGTACTGCCAATGCCATATCC
1 TGCCAAAGCCATATCCCAGACATGGTCTTACATGAGATCTTTCCTGTACTGCCAACGCCATATCC
* * ** * * **
48818120 CAGATATGGTCTTACATGGGAGTTCTCATATTGGTGCCCATGCCATGTCCCAGACATGGTCTTAC
66 CAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACACCATGTCCCAGACATGGTCTTAC
48818185 GGGGGACCTCTCATCTTAG
131 GGGGGACCTCTCATCTTAG
* * ** * *
48818204 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTTAT-CT-TGGTGCCAACGTCATG
1 TGCCAAAGCCATATCCCAGACATGGTCTTACATGAGA--TCTT-TCCTGTACTGCCAACGCCATA
* * *
48818267 TCCTAAACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAACACCATGTCCCAGACATGGTCT
63 TCCCAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACACCATGTCCCAGACATGGTCT
48818332 TAC
128 TAC
48818335 ATGGTATCTC
Statistics
Matches: 109, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
149 35 0.32
150 68 0.62
151 5 0.05
152 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (149 bp):
TGCCAAAGCCATATCCCAGACATGGTCTTACATGAGATCTTTCCTGTACTGCCAACGCCATATCC
CAAACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACACCATGTCCCAGACATGGTCTTAC
GGGGGACCTCTCATCTTAG
Found at i:48818346 original size:50 final size:50
Alignment explanation
Indices: 48818055--48818338 Score: 304
Period size: 50 Copynumber: 5.7 Consensus size: 50
48818045 GATAATAACA
* * * * **
48818055 TGCCAAAGCCATATCCCAGACATGGTCTTACATGAGA--TGTT-TCCTGTAC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTAT-CT-TGG
* * * ** * *
48818104 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTTGG
* * ** * *
48818154 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTTGG
*
48818204 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTTATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTTGG
* * * *
48818254 TGCCAACGTCATGTCCTAAACATGGTCTTACATGGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTTGG
*
48818304 TGCCAACACCATGTCCCAGACATGGTCTTACATGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGG
48818339 TATCTCTTTA
Statistics
Matches: 199, Mismatches: 33, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
49 34 0.17
50 161 0.81
51 3 0.02
52 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTTGG
Found at i:48823051 original size:6 final size:6
Alignment explanation
Indices: 48823040--48823067 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
48823030 ATATTTTTTT
48823040 ATATTA ATATTA ATATTA ATATTA ATAT
1 ATATTA ATATTA ATATTA ATATTA ATAT
48823068 ATTTTTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATATTA
Found at i:48824832 original size:68 final size:67
Alignment explanation
Indices: 48824713--48825009 Score: 274
Period size: 68 Copynumber: 4.4 Consensus size: 67
48824703 AAATTTAATG
* * * * *
48824713 TGTATGACCATAGCTTGGCTATAGTAACAAAAGGAGTCTACCAGGATGTTAAACATGAGTTCCTA
1 TGTAAGACCATAGCTCGGCTATGGCAAC-AAAGGAGTCTACCAAGATGTTAAACATGAGTTCCTA
48824778 CTA
65 CTA
* * * * * *
48824781 TGTAAGACCATAGCTTGGCAATGGCAACAAATGGAGTCTGCTAAGACGTTAAACATGGGTTCCTA
1 TGTAAGACCATAGCTCGGCTATGGCAACAAA-GGAGTCTACCAAGATGTTAAACATGAGTTCCTA
*
48824846 CTG
65 CTA
* * ** * *
48824849 TGTAAAACCATAGCTCGGTTATGGCAACAAAGGGAGTCTATTAGGATGTTAAACAT-AGGTTCTT
1 TGTAAGACCATAGCTCGGCTATGGCAACAAA-GGAGTCTACCAAGATGTTAAACATGA-GTTCCT
* *
48824913 ATTG
64 ACTA
* * * * *
48824917 TGTAAGACCATAACTCGACTATGGCAACAAAGAGAGT-TCGCCAAGATGTTAAACATGGGTTCAT
1 TGTAAGACCATAGCTCGGCTATGGCAACAAAG-GAGTCT-ACCAAGATGTTAAACATGAGTTCCT
48824981 ACTA
64 ACTA
* * *
48824985 TATAAGAACATAGCTCGGATATGGC
1 TGTAAGACCATAGCTCGGCTATGGC
48825010 GTCAGGTAAA
Statistics
Matches: 185, Mismatches: 39, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
67 5 0.03
68 180 0.97
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.27
Consensus pattern (67 bp):
TGTAAGACCATAGCTCGGCTATGGCAACAAAGGAGTCTACCAAGATGTTAAACATGAGTTCCTAC
TA
Found at i:48824968 original size:136 final size:137
Alignment explanation
Indices: 48824719--48825009 Score: 340
Period size: 136 Copynumber: 2.1 Consensus size: 137
48824709 AATGTGTATG
* * * *
48824719 ACCATAGCTTGGCTATAGTAACAAAAGGAGTCTACCAGGATGTTAAACATGAGTTCCTACTATGT
1 ACCATAGCTCGGATATGGCAACAAAAGGAGTCTACCAGGATGTTAAACATGAGTTCCTACTATGT
* * * * * *
48824784 AAGACCATAGCTTGGCAATGGCAACAAATGGAGTCTGCTAAGACGTTAAACATGGGTTCCTACTG
66 AAGACCATAACTCGACAATGGCAACAAATGGAGTCTGCCAAGACGTTAAACATGGGTTCATACTA
*
48824849 TGTAA-A
131 TATAAGA
* * ** * * *
48824855 ACCATAGCTCGGTTATGGCAACAAAGGGAGTCTATTAGGATGTTAAACAT-AGGTTCTTATTGTG
1 ACCATAGCTCGGATATGGCAACAAAAGGAGTCTACCAGGATGTTAAACATGA-GTTCCTACTATG
* *
48824919 TAAGACCATAACTCGACTATGGCAACAAA-GAGAGT-TCGCCAAGATGTTAAACATGGGTTCATA
65 TAAGACCATAACTCGACAATGGCAACAAATG-GAGTCT-GCCAAGACGTTAAACATGGGTTCATA
48824982 CTATATAAGA
128 CTATATAAGA
48824992 A-CATAGCTCGGATATGGC
1 ACCATAGCTCGGATATGGC
48825010 GTCAGGTAAA
Statistics
Matches: 131, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
135 3 0.02
136 126 0.96
137 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (137 bp):
ACCATAGCTCGGATATGGCAACAAAAGGAGTCTACCAGGATGTTAAACATGAGTTCCTACTATGT
AAGACCATAACTCGACAATGGCAACAAATGGAGTCTGCCAAGACGTTAAACATGGGTTCATACTA
TATAAGA
Found at i:48834079 original size:5 final size:5
Alignment explanation
Indices: 48834064--48834094 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
48834054 AATAAATAAA
*
48834064 AGAAG AAAAG AGAAG AGAAG AGAAG AGAAG A
1 AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG A
48834095 TATAAGAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (5 bp):
AGAAG
Found at i:48837993 original size:21 final size:21
Alignment explanation
Indices: 48837956--48837998 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
48837946 TTAGGTTTTA
*
48837956 TGGCTCAACACAGGTTG-ATG
1 TGGCTCAACAAAGGTTGCATG
48837976 TGGCTCAACATAAGGTTGCATG
1 TGGCTCAACA-AAGGTTGCATG
48837998 T
1 T
48837999 TGTAACACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
21 6 0.30
22 4 0.20
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (21 bp):
TGGCTCAACAAAGGTTGCATG
Found at i:48850387 original size:16 final size:16
Alignment explanation
Indices: 48850368--48850421 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
48850358 TATTTCACAA
48850368 AGCATGATTATCACCC
1 AGCATGATTATCACCC
* * **
48850384 AGCATTATCTATGACAA
1 AGCATGAT-TATCACCC
48850401 AGCATGATTATCACCC
1 AGCATGATTATCACCC
48850417 AGCAT
1 AGCAT
48850422 TATCTATGTA
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
16 17 0.59
17 12 0.41
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (16 bp):
AGCATGATTATCACCC
Found at i:48850406 original size:33 final size:33
Alignment explanation
Indices: 48850364--48850429 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
48850354 CAAATATTTC
48850364 ACAAAGCATGATTATCACCCAGCATTATCTATG
1 ACAAAGCATGATTATCACCCAGCATTATCTATG
48850397 ACAAAGCATGATTATCACCCAGCATTATCTATG
1 ACAAAGCATGATTATCACCCAGCATTATCTATG
48850430 TACCAAAATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.27
Consensus pattern (33 bp):
ACAAAGCATGATTATCACCCAGCATTATCTATG
Found at i:48852261 original size:67 final size:69
Alignment explanation
Indices: 48852137--48852264 Score: 163
Period size: 70 Copynumber: 1.9 Consensus size: 69
48852127 TCTGAATAAG
* * ** *
48852137 AAAGGTAAAATATGTCGTTTTGATAAATGTTTACCTTTTCTAAAGTTAAAAGTCAAAACCATTAA
1 AAAGGTAAAATACGTCATTTTGATAAATGTTTACCTCATCTAAAGTTAAAAGACAAAACCATTAA
48852202 GTTA
66 GTTA
* *
48852206 AAAGGTAAAACTACGTTATTTTTATAAATGTTTA-CTCAT-TAAA-TTAAAAGACAAAACCA
1 AAAGGTAAAA-TACGTCATTTTGATAAATGTTTACCTCATCTAAAGTTAAAAGACAAAACCA
48852265 CTATATTGTT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
67 15 0.29
68 4 0.08
69 13 0.25
70 19 0.37
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (69 bp):
AAAGGTAAAATACGTCATTTTGATAAATGTTTACCTCATCTAAAGTTAAAAGACAAAACCATTAA
GTTA
Found at i:48854739 original size:23 final size:23
Alignment explanation
Indices: 48854709--48854810 Score: 114
Period size: 23 Copynumber: 4.4 Consensus size: 23
48854699 ATAGAACTTC
* *
48854709 CCACAAAGACATTGTAGGATACA
1 CCACAAAGACATTGCAGAATACA
* *
48854732 CCACAAAGGCATTGCAGAATACG
1 CCACAAAGACATTGCAGAATACA
* *
48854755 CCACATAGGCATTGCAGAATACA
1 CCACAAAGACATTGCAGAATACA
* * *
48854778 CCACAAAGACATTACAGTATACG
1 CCACAAAGACATTGCAGAATACA
*
48854801 TCACAAAGAC
1 CCACAAAGAC
48854811 TCCATCGAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.42, C:0.25, G:0.17, T:0.16
Consensus pattern (23 bp):
CCACAAAGACATTGCAGAATACA
Found at i:48854777 original size:46 final size:46
Alignment explanation
Indices: 48854709--48854810 Score: 132
Period size: 46 Copynumber: 2.2 Consensus size: 46
48854699 ATAGAACTTC
* * * *
48854709 CCACAAAGACATTGTAGGATACACCACAAAGGCATTGCAGAATACG
1 CCACAAAGACATTGCAGAATACACCACAAAGACATTACAGAATACG
* * *
48854755 CCACATAGGCATTGCAGAATACACCACAAAGACATTACAGTATACG
1 CCACAAAGACATTGCAGAATACACCACAAAGACATTACAGAATACG
*
48854801 TCACAAAGAC
1 CCACAAAGAC
48854811 TCCATCGAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.42, C:0.25, G:0.17, T:0.16
Consensus pattern (46 bp):
CCACAAAGACATTGCAGAATACACCACAAAGACATTACAGAATACG
Found at i:48854854 original size:23 final size:23
Alignment explanation
Indices: 48854828--48855072 Score: 94
Period size: 23 Copynumber: 10.7 Consensus size: 23
48854818 AATATGTCGT
*
48854828 AAAGGCTTCATAGATTATGCTAC
1 AAAGGCTTCATAGATTATGCCAC
* * * ** * *
48854851 AAAGGCTCCAAAGAATACACTAT
1 AAAGGCTTCATAGATTATGCCAC
* *
48854874 AAAGGCTTCATAAATTAAGCCAC
1 AAAGGCTTCATAGATTATGCCAC
* * * * ** * *
48854897 AAAGGCTCCACAAAATACACTAT
1 AAAGGCTTCATAGATTATGCCAC
* *
48854920 AAAGGCTTAATAGGTTATGCCAC
1 AAAGGCTTCATAGATTATGCCAC
* * * *
48854943 AAAGGCTCCACAGAATATGCCAT
1 AAAGGCTTCATAGATTATGCCAC
* * *
48854966 AAAGGCATAATAGATTATGCCAA
1 AAAGGCTTCATAGATTATGCCAC
* * * * * *
48854989 AAAGGCTCCACATAATACGCCAT
1 AAAGGCTTCATAGATTATGCCAC
** * * *
48855012 AAAGGAATCATAAATTTTTCCAC
1 AAAGGCTTCATAGATTATGCCAC
* * * * *
48855035 AAAGGCTCCATAAAATGTGCCAT
1 AAAGGCTTCATAGATTATGCCAC
*
48855058 AAAGGCATCATAGAT
1 AAAGGCTTCATAGAT
48855073 AACCTATAAC
Statistics
Matches: 150, Mismatches: 72, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
23 150 1.00
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (23 bp):
AAAGGCTTCATAGATTATGCCAC
Found at i:48855000 original size:46 final size:46
Alignment explanation
Indices: 48854827--48855072 Score: 258
Period size: 46 Copynumber: 5.3 Consensus size: 46
48854817 GAATATGTCG
* * * * *
48854827 TAAAGGCTTCATAGATTATGCTACAAAGGCTCCAAAGAATACACTA
1 TAAAGGCATCATAGATTATGCCACAAAGGCTCCACAGAATACGCCA
* * * * * *
48854873 TAAAGGCTTCATAAATTAAGCCACAAAGGCTCCACAAAATACACTA
1 TAAAGGCATCATAGATTATGCCACAAAGGCTCCACAGAATACGCCA
* * * *
48854919 TAAAGGCTTAATAGGTTATGCCACAAAGGCTCCACAGAATATGCCA
1 TAAAGGCATCATAGATTATGCCACAAAGGCTCCACAGAATACGCCA
* * *
48854965 TAAAGGCATAATAGATTATGCCAAAAAGGCTCCACATAATACGCCA
1 TAAAGGCATCATAGATTATGCCACAAAGGCTCCACAGAATACGCCA
* * * * * * **
48855011 TAAAGGAATCATAAATTTTTCCACAAAGGCTCCATAAAATGTGCCA
1 TAAAGGCATCATAGATTATGCCACAAAGGCTCCACAGAATACGCCA
48855057 TAAAGGCATCATAGAT
1 TAAAGGCATCATAGAT
48855073 AACCTATAAC
Statistics
Matches: 170, Mismatches: 30, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 170 1.00
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (46 bp):
TAAAGGCATCATAGATTATGCCACAAAGGCTCCACAGAATACGCCA
Found at i:48856545 original size:29 final size:29
Alignment explanation
Indices: 48856373--48856576 Score: 153
Period size: 29 Copynumber: 7.0 Consensus size: 29
48856363 ACGACGTATC
* * *
48856373 GACGCCCATCGAATATAAAAAGGGATAGT
1 GACGACCATCGAATATGAAAAGGGATGGT
** ** * *
48856402 TTCGATTATC-AACTGTGAAAAGGGATGAT
1 GACGACCATCGAA-TATGAAAAGGGATGGT
48856431 GACGACCATC-AACTATGAAAAGGGATGGT
1 GACGACCATCGAA-TATGAAAAGGGATGGT
* *
48856460 GACGACCATCAAATATGAAAAGAGG-TAGT
1 GACGACCATCGAATATGAAAAG-GGATGGT
** * *
48856489 TTCGACTATCGACTATGAAAAGGGATGGT
1 GACGACCATCGAATATGAAAAGGGATGGT
* *
48856518 GACAACCATCGAATATGAAAATGGATGGT
1 GACGACCATCGAATATGAAAAGGGATGGT
*** * *
48856547 TTTGACCATCGATTAAAGAAAAGGGATGGT
1 GACGACCATCGAAT-ATGAAAAGGGATGGT
48856577 TTCGATCATC
Statistics
Matches: 135, Mismatches: 35, Indels: 9
0.75 0.20 0.05
Matches are distributed among these distances:
28 4 0.03
29 114 0.84
30 17 0.13
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (29 bp):
GACGACCATCGAATATGAAAAGGGATGGT
Found at i:48856556 original size:87 final size:87
Alignment explanation
Indices: 48856373--48856546 Score: 235
Period size: 87 Copynumber: 2.0 Consensus size: 87
48856363 ACGACGTATC
* * * * *
48856373 GACGCCCATCGAATATAAAAAGGGATAGTTTCGATTATCAACTGTGAAAAGGGATGATGACGACC
1 GACGACCATCAAATATAAAAAGGGATAGTTTCGACTATCAACTATGAAAAGGGATGATGACAACC
48856438 ATCAACTATGAAAAGGGATGGT
66 ATCAACTATGAAAAGGGATGGT
* * *
48856460 GACGACCATCAAATATGAAAAGAGG-TAGTTTCGACTATCGACTATGAAAAGGGATGGTGACAAC
1 GACGACCATCAAATATAAAAAG-GGATAGTTTCGACTATCAACTATGAAAAGGGATGATGACAAC
*
48856524 CATCGAA-TATGAAAATGGATGGT
65 CATC-AACTATGAAAAGGGATGGT
48856547 TTTGACCATC
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
87 72 0.95
88 4 0.05
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (87 bp):
GACGACCATCAAATATAAAAAGGGATAGTTTCGACTATCAACTATGAAAAGGGATGATGACAACC
ATCAACTATGAAAAGGGATGGT
Found at i:48856558 original size:58 final size:58
Alignment explanation
Indices: 48856433--48856576 Score: 182
Period size: 58 Copynumber: 2.5 Consensus size: 58
48856423 GGGATGATGA
* * *
48856433 CGACCATCAACTATGAAAAGGGATGGTGACGACCATCAAATATGAAAAGAGGTAGTTT
1 CGACCATCGACTATGAAAAGGGATGGTGACAACCATCAAATATGAAAAGAGATAGTTT
* * *
48856491 CGACTATCGACTATGAAAAGGGATGGTGACAACCATCGAATATGAAAATG-GATGGTTT
1 CGACCATCGACTATGAAAAGGGATGGTGACAACCATCAAATATGAAAA-GAGATAGTTT
* * *
48856549 TGACCATCGATTAAAGAAAAGGGATGGT
1 CGACCATCGACT-ATGAAAAGGGATGGT
48856577 TTCGATCATC
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
58 59 0.80
59 15 0.20
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (58 bp):
CGACCATCGACTATGAAAAGGGATGGTGACAACCATCAAATATGAAAAGAGATAGTTT
Found at i:48872571 original size:12 final size:12
Alignment explanation
Indices: 48872554--48872579 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48872544 TAAAATACTT
48872554 ACCAATCATGAG
1 ACCAATCATGAG
48872566 ACCAATCATGAG
1 ACCAATCATGAG
48872578 AC
1 AC
48872580 AAGTACCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.27, G:0.15, T:0.15
Consensus pattern (12 bp):
ACCAATCATGAG
Found at i:48872802 original size:24 final size:24
Alignment explanation
Indices: 48872768--48872820 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
48872758 TAGTTTCACG
48872768 TAAAC-ACATGGAAACACATCAAT
1 TAAACAACATGGAAACACATCAAT
*
48872791 TAAACAACATGGACACACATCAAT
1 TAAACAACATGGAAACACATCAAT
48872815 TAAACA
1 TAAACA
48872821 TGAATTTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 5 0.18
24 23 0.82
ACGTcount: A:0.53, C:0.23, G:0.08, T:0.17
Consensus pattern (24 bp):
TAAACAACATGGAAACACATCAAT
Found at i:48874232 original size:29 final size:30
Alignment explanation
Indices: 48874163--48874234 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 30
48874153 AATTTTTAAA
* *
48874163 TTATACATGAACTTTAATGTATTGTACAAT
1 TTATACATGAAATTTAATGTATGGTACAAT
*
48874193 TTGATAGATGAAATTTAAT-T-TGGTACAAT
1 TT-ATACATGAAATTTAATGTATGGTACAAT
48874222 TATATACATGAAA
1 T-TATACATGAAA
48874235 CTCTGATTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 18 0.50
30 4 0.11
31 14 0.39
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (30 bp):
TTATACATGAAATTTAATGTATGGTACAAT
Found at i:48874282 original size:31 final size:31
Alignment explanation
Indices: 48874224--48874282 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
48874214 GGTACAATTA
* *
48874224 TATACATGAAACTCTGATTGTGTTTCAAGTG
1 TATACATGAAACTCTAATTGTGATTCAAGTG
* *
48874255 TATACATGAAACTTTAATTTTGATTCAA
1 TATACATGAAACTCTAATTGTGATTCAA
48874283 TCATACACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.41
Consensus pattern (31 bp):
TATACATGAAACTCTAATTGTGATTCAAGTG
Found at i:48875385 original size:23 final size:24
Alignment explanation
Indices: 48875350--48875395 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 24
48875340 GTCACCACCC
48875350 TTTTTTTAATAAAAT-TTAATTTTTA
1 TTTTTTT-ATAAAATATT-ATTTTTA
48875375 TTTTTTT-TAAAATATTATTTT
1 TTTTTTTATAAAATATTATTTT
48875396 ATTAGTGGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.55
24 2 0.10
25 7 0.35
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
TTTTTTTATAAAATATTATTTTTA
Found at i:48875799 original size:25 final size:26
Alignment explanation
Indices: 48875753--48875801 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
48875743 GTTTTTAATT
*
48875753 TATTTTAAAGTTATTTTGTTAGTTAC
1 TATTATAAAGTTATTTTGTTAGTTAC
48875779 TATTATAAA-TTA-TTTGTTTAGTT
1 TATTATAAAGTTATTTTG-TTAGTT
48875802 TAATGTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 9 0.43
26 8 0.38
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.59
Consensus pattern (26 bp):
TATTATAAAGTTATTTTGTTAGTTAC
Found at i:48882283 original size:112 final size:110
Alignment explanation
Indices: 48882084--48882396 Score: 443
Period size: 110 Copynumber: 2.8 Consensus size: 110
48882074 TGAAATAAAT
* * * * * *
48882084 AAAAAACAAAATAAAATTACATT-ATAACATATCACATTATACATTAAACT-AA-ACAAATAATT
1 AAAAAAC-AAA-AAAATTACATTAATAAAAAATCACAATAAACACTAAACTAAACACAAACAATT
48882146 TATAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTTA
64 TATAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTTA
* * * * *
48882193 AAAAACACAAAAAAATTTATATTTATAACAAGTCACAATAAATACTAAACTAAACACAAACAATT
1 AAAAA-ACAAAAAAA-TTACATTAATAAAAAATCACAATAAACACTAAACTAAACACAAACAATT
*
48882258 TATAACCTAATCATAAATTACTAACAAAATAACTTTCAAATAATTTA
64 TATAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTTA
* *
48882305 AAAGAGCAAAAAAATTACATTAATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTA
1 AAAAAACAAAAAAATTACATTAATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTA
48882370 TAACCTAATCATAAATTACTAACAAAA
66 TAACCTAATCATAAATTACTAACAAAA
48882397 ATCTTTGTAC
Statistics
Matches: 183, Mismatches: 16, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
108 4 0.02
109 14 0.08
110 96 0.52
111 10 0.05
112 59 0.32
ACGTcount: A:0.58, C:0.15, G:0.01, T:0.27
Consensus pattern (110 bp):
AAAAAACAAAAAAATTACATTAATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTA
TAACCTAATCATAAATTACTAACAAAATAACTTTAAAATAATTTA
Found at i:48890852 original size:14 final size:17
Alignment explanation
Indices: 48890821--48890857 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
48890811 ATTATAAAGG
48890821 ATATTATTAAATTAATT
1 ATATTATTAAATTAATT
48890838 ATATTA-TAAA-T-ATT
1 ATATTATTAAATTAATT
48890852 ATATTA
1 ATATTA
48890858 AGAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
16 4 0.20
17 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTATTAAATTAATT
Found at i:48891033 original size:14 final size:14
Alignment explanation
Indices: 48891007--48891057 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
48890997 GAAAACAAAA
48891007 GAAATAAAATAAAG
1 GAAATAAAATAAAG
*
48891021 GAAATAAAGTAAAG
1 GAAATAAAATAAAG
* * *
48891035 TAAGTTAAAATAAAA
1 GAA-ATAAAATAAAG
48891050 G-AATAAAA
1 GAAATAAAA
48891058 GAAACAAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 5 0.17
14 16 0.55
15 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.18
Consensus pattern (14 bp):
GAAATAAAATAAAG
Found at i:48891068 original size:17 final size:16
Alignment explanation
Indices: 48891046--48891079 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
48891036 AAGTTAAAAT
48891046 AAAAGAATAAAAGAAAC
1 AAAAGAA-AAAAGAAAC
*
48891063 AAAAGAAGAAAGAAAC
1 AAAAGAAAAAAGAAAC
48891079 A
1 A
48891080 GAATAGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAC
Found at i:48892233 original size:37 final size:39
Alignment explanation
Indices: 48892174--48892269 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
48892164 CGGATAGATT
* * * *
48892174 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
48892211 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
48892250 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
48892270 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:48901885 original size:14 final size:17
Alignment explanation
Indices: 48901854--48901890 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
48901844 ATTATAAAGG
48901854 ATATTATTAAATTAATT
1 ATATTATTAAATTAATT
48901871 ATATTA-TAAA-T-ATT
1 ATATTATTAAATTAATT
48901885 ATATTA
1 ATATTA
48901891 AGAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
16 4 0.20
17 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTATTAAATTAATT
Found at i:48902066 original size:14 final size:14
Alignment explanation
Indices: 48902040--48902090 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
48902030 GAAAACAAAA
48902040 GAAATAAAATAAAG
1 GAAATAAAATAAAG
*
48902054 GAAATAAAGTAAAG
1 GAAATAAAATAAAG
* * *
48902068 TAAGTTAAAATAAAA
1 GAA-ATAAAATAAAG
48902083 G-AATAAAA
1 GAAATAAAA
48902091 GAAACAAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 5 0.17
14 16 0.55
15 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.18
Consensus pattern (14 bp):
GAAATAAAATAAAG
Found at i:48902101 original size:17 final size:16
Alignment explanation
Indices: 48902079--48902112 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
48902069 AAGTTAAAAT
48902079 AAAAGAATAAAAGAAAC
1 AAAAGAA-AAAAGAAAC
*
48902096 AAAAGAAGAAAGAAAC
1 AAAAGAAAAAAGAAAC
48902112 A
1 A
48902113 GAATAGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAAGAAAC
Found at i:48902765 original size:37 final size:39
Alignment explanation
Indices: 48902706--48902801 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
48902696 CGGATAGATT
* * * *
48902706 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
48902743 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
48902782 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
48902802 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Done.