Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 185 of 208
Found at i:56570497 original size:13 final size:14
Alignment explanation
Indices: 56570474--56570502 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
56570464 TGGCAGGAAA
56570474 TGTTGTATTATAAT
1 TGTTGTATTATAAT
56570488 TGTT-TATTATAAT
1 TGTTGTATTATAAT
56570501 TG
1 TG
56570503 ATAGTGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (14 bp):
TGTTGTATTATAAT
Found at i:56575117 original size:19 final size:17
Alignment explanation
Indices: 56575093--56575131 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
56575083 TATGGGTCTG
*
56575093 ATTTTAAATTGGTATTTAA
1 ATTTTAAAAT-GT-TTTAA
56575112 ATTTTAAAATGTTTTAA
1 ATTTTAAAATGTTTTAA
56575129 ATT
1 ATT
56575132 AGTCCTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 2 0.11
19 9 0.47
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (17 bp):
ATTTTAAAATGTTTTAA
Found at i:56587267 original size:17 final size:16
Alignment explanation
Indices: 56587237--56587280 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
56587227 GCATTTAATT
56587237 AATTTTTTAAAATTTA
1 AATTTTTTAAAATTTA
*
56587253 AATTTTTTAATAATTTT
1 AATTTTTTAA-AATTTA
56587270 AA-TTTTTAAAA
1 AATTTTTTAAAA
56587281 GTAATTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 2 0.08
16 17 0.65
17 7 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
AATTTTTTAAAATTTA
Found at i:56588112 original size:110 final size:110
Alignment explanation
Indices: 56587768--56588372 Score: 998
Period size: 110 Copynumber: 5.4 Consensus size: 110
56587758 AAGGATATTT
* **
56587768 GGCACGTTTTCTTGAATTTCCCAAACGCAAAACATTGCCTTATTTTGAATTTTTTCCTTAAAAGG
1 GGCACGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATTTT-AA-AGTTT--TTAAAAGG
*
56587833 ATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAG
62 ATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAG
** *
56587882 GGCACGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATTTTGAATTTTTTCCTTAAAATG
1 GGCACGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATTTT-AA-AGTTT--TTAAAAGG
*
56587947 ATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAG
62 ATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAG
*
56587996 GACACGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATTTTAAAGTTTTTAAAAGGATAT
1 GGCACGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATTTTAAAGTTTTTAAAAGGATAT
* *
56588061 TTAGCCATTAGGTTGAACGAAAAAAATCGACACCCAGCACCTTAG
66 TTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAG
56588106 GGCACGTTTTCTCGAATTTCCC-AACGCAAAACATTGCCTTATTTTAAAG-TTTTAAAAGGATAT
1 GGCACGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATTTTAAAGTTTTTAAAAGGATAT
56588169 TTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAG
66 TTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAG
* *
56588214 GGCACGTTTTCTTGAATTTCCCAAACGCAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATAT
1 GGCACGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATTTTAAAGTTTTTAAAAGGATAT
*
56588279 TTAGCCATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAG
66 TTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAG
56588324 GGCACGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATTTTAAA
1 GGCACGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATTTTAAA
56588373 AATTTTATTT
Statistics
Matches: 473, Mismatches: 16, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
108 78 0.16
109 53 0.11
110 180 0.38
112 3 0.01
113 2 0.00
114 157 0.33
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (110 bp):
GGCACGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATTTTAAAGTTTTTAAAAGGATAT
TTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAG
Found at i:56588242 original size:218 final size:220
Alignment explanation
Indices: 56587768--56588372 Score: 1007
Period size: 218 Copynumber: 2.7 Consensus size: 220
56587758 AAGGATATTT
**
56587768 GGCACGTTTTCTTGAATTTCCCAAACGCAAAACATTGCCTTATTTTGAATTTTTTCCTTAAAAGG
1 GGCACGTTTTCTTGAATTTCCCAAACGCAAAACATTGCCTTATTTT-AA-AATTT--TTAAAAGG
*
56587833 ATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAA
62 ATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAA
** *
56587898 TTTCCCAAACGCAAAACATTGCCTTATTTTGAATTTTTTCCTTAAAATGATATTTAGCCATTTGG
127 TTTCCCAAACGCAAAACATTGCCTTATTTT-AA--AGTT-CTTAAAAGGATATTTAGCCATTTGG
*
56587963 TTGAATGAGAAAAATCGACACCCAGCACCTTAG
188 TTGAACGAGAAAAATCGACACCCAGCACCTTAG
* * *
56587996 GACACGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATTTTAAAGTTTTTAAAAGGATAT
1 GGCACGTTTTCTTGAATTTCCCAAACGCAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATAT
* *
56588061 TTAGCCATTAGGTTGAACGAAAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTC
66 TTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTC
56588126 CC-AACGCAAAACATTGCCTTATTTTAAAGTT-TTAAAAGGATATTTAGCCATTTGGTTGAACGA
131 CCAAACGCAAAACATTGCCTTATTTTAAAGTTCTTAAAAGGATATTTAGCCATTTGGTTGAACGA
56588189 GAAAAATCGACACCCAGCACCTTAG
196 GAAAAATCGACACCCAGCACCTTAG
56588214 GGCACGTTTTCTTGAATTTCCCAAACGCAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATAT
1 GGCACGTTTTCTTGAATTTCCCAAACGCAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATAT
*
56588279 TTAGCCATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTC
66 TTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTC
56588344 CCAAACGCAAAACATTGCCTTATTTTAAA
131 CCAAACGCAAAACATTGCCTTATTTTAAA
56588373 AATTTTATTT
Statistics
Matches: 359, Mismatches: 17, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
218 181 0.50
219 26 0.07
220 2 0.01
222 2 0.01
223 23 0.06
224 76 0.21
226 3 0.01
227 2 0.01
228 44 0.12
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (220 bp):
GGCACGTTTTCTTGAATTTCCCAAACGCAAAACATTGCCTTATTTTAAAATTTTTAAAAGGATAT
TTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTC
CCAAACGCAAAACATTGCCTTATTTTAAAGTTCTTAAAAGGATATTTAGCCATTTGGTTGAACGA
GAAAAATCGACACCCAGCACCTTAG
Found at i:56588505 original size:17 final size:17
Alignment explanation
Indices: 56588485--56588527 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
56588475 ATATATAATG
*
56588485 AAAAG-AAATCAACAAAT
1 AAAAGTAAAT-AAAAAAT
56588502 AAAAGTAAATAAAAAAT
1 AAAAGTAAATAAAAAAT
*
56588519 AAAATTAAA
1 AAAAGTAAA
56588528 ATACTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.16
Consensus pattern (17 bp):
AAAAGTAAATAAAAAAT
Found at i:56588863 original size:3 final size:3
Alignment explanation
Indices: 56588855--56588894 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
56588845 AAGAACAATT
56588855 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AGTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
56588895 TTACAAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:56590041 original size:20 final size:20
Alignment explanation
Indices: 56589997--56590035 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
56589987 GACGGCGCAA
56589997 GTGGCGTGGTCGACGTGACT
1 GTGGCGTGGTCGACGTGACT
56590017 GTGGCGGTGG-CGACGTGAC
1 GTGGC-GTGGTCGACGTGAC
56590036 GTTGGCAGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.10, C:0.21, G:0.49, T:0.21
Consensus pattern (20 bp):
GTGGCGTGGTCGACGTGACT
Found at i:56592148 original size:58 final size:58
Alignment explanation
Indices: 56591997--56592163 Score: 156
Period size: 58 Copynumber: 2.9 Consensus size: 58
56591987 TTATGAAGAT
** *** * * * *
56591997 GATATGTCTCACCTCTGCCGAGAGCTTGAAGGGTTCACAA-AGGGACTCAAATAATGAA
1 GATATGTCTCACCTCTATCGAGAGCACAAAGGGTTCA-AAGAGGGGCCCGAATAATAAA
* * * *
56592055 GATATGCCTCACCTCCATTGACAGCACAAAGGGTTCAAAGAGGGGCCCGAATAATAAA
1 GATATGTCTCACCTCTATCGAGAGCACAAAGGGTTCAAAGAGGGGCCCGAATAATAAA
* * ** *
56592113 GATATGTCTCACCTCTATCGAGAGCCCAAAAGGTTCATGGATGGGCCCGAA
1 GATATGTCTCACCTCTATCGAGAGCACAAAGGGTTCAAAGAGGGGCCCGAA
56592164 ATGAAGATAA
Statistics
Matches: 86, Mismatches: 22, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
57 2 0.02
58 84 0.98
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (58 bp):
GATATGTCTCACCTCTATCGAGAGCACAAAGGGTTCAAAGAGGGGCCCGAATAATAAA
Found at i:56592573 original size:100 final size:98
Alignment explanation
Indices: 56592304--56592625 Score: 272
Period size: 100 Copynumber: 3.2 Consensus size: 98
56592294 TGCACAAGGA
* * * *
56592304 AGGCTTATAGAAGGTGGTAATAATGACTTTGCTCCTAGACGCAT-GAGAGAAGACTTACGAAAGA
1 AGGCTTATAGAAGGTGGTAATAATGACTCTACTCCTAGACGCATGGAGGGAAG-CTTATGAAAGA
*
56592368 TTGTAATAGATGTCATGCTCCCAAACGCATGGGGG
65 TAGTAATA-ATGTCATGCTCCCAAACGCATGGGGG
* * * * * * * * * *
56592403 ATGCTCACAAAAAGTGGTAATAATG-GTCTTACTCCTAGACACATGG-GAGGAGGCTTATGGAAT
1 AGGCTTATAGAAGGTGGTAATAATGACTC-TACTCCTAGACGCATGGAG-GGAAGCTTATGAAAG
* *
56592466 TTAGTAATAATGATCTTGCTCCCAAACGCATGGGGGG
64 ATAGTAATAATG-TCATGCTCCCAAACGCAT-GGGGG
* * * * *
56592503 AGGCTTATAGAAGGTAGTAATAAAGACTCTACTACTAGACGCATGGAGGGAAGCTTATAAAAGGT
1 AGGCTTATAGAAGGTGGTAATAATGACTCTACTCCTAGACGCATGGAGGGAAGCTTATGAAAGAT
* * * * ** *
56592568 GGTAATAATGGTCCTGCTCCTAGACATATAGGGGA
66 AGTAATAAT-GTCATGCTCCCAAACGCAT-GGGGG
**
56592603 AGGCTTATAGAATATGGTAATAA
1 AGGCTTATAGAAGGTGGTAATAA
56592626 AGGCCCTGCT
Statistics
Matches: 172, Mismatches: 43, Indels: 15
0.75 0.19 0.07
Matches are distributed among these distances:
98 4 0.02
99 65 0.38
100 99 0.58
101 4 0.02
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (98 bp):
AGGCTTATAGAAGGTGGTAATAATGACTCTACTCCTAGACGCATGGAGGGAAGCTTATGAAAGAT
AGTAATAATGTCATGCTCCCAAACGCATGGGGG
Found at i:56592591 original size:50 final size:49
Alignment explanation
Indices: 56592301--56592702 Score: 191
Period size: 50 Copynumber: 8.1 Consensus size: 49
56592291 AAATGCACAA
* * *
56592301 GGAAGGCTTATAGAAGGTGGTAATAAT-GACTTTGCTCCTAGACGCATGAG
1 GGAA-GCTTATAGAAGGTGGTAATAATGGTC-CTGCTCCTAGACGCATGGG
* * * * * * *
56592351 AGAAGACTTA-CGAAAGATTGTAATAGAT-GTCATGCTCCCAAACGCATGGG
1 GGAAG-CTTATAG-AAGGTGGTAATA-ATGGTCCTGCTCCTAGACGCATGGG
* * * * * * * *
56592401 GGATGCTCACAAAAAGTGGTAATAATGGTCTTACTCCTAGACACATGGG
1 GGAAGCTTATAGAAGGTGGTAATAATGGTCCTGCTCCTAGACGCATGGG
* * ** * * * * *
56592450 AGGAGGCTTATGGAATTTAGTAATAATGATCTTGCTCCCAAACGCATGGGG
1 -GGAAGCTTATAGAAGGTGGTAATAATGGTCCTGCTCCTAGACGCAT-GGG
* * * * * *
56592501 GGAGGCTTATAGAAGGTAGTAATAA-AGACTCTACTACTAGACGCATGGAG
1 GGAAGCTTATAGAAGGTGGTAATAATGGTC-CTGCTCCTAGACGCATGG-G
* ** *
56592551 GGAAGCTTATAAAAGGTGGTAATAATGGTCCTGCTCCTAGACATATAGG
1 GGAAGCTTATAGAAGGTGGTAATAATGGTCCTGCTCCTAGACGCATGGG
** * * * * **
56592600 GGAAGGCTTATAGAATATGGTAATAAAGGCCCTGCTCCAAGACACATAAAG
1 GGAA-GCTTATAGAAGGTGGTAATAATGGTCCTGCTCCTAGACGCAT-GGG
* * * * * * * * *
56592651 AGAAACTTATCGAAAGTGGTAATAATAGCCCTACTCCCAGACACATGGG
1 GGAAGCTTATAGAAGGTGGTAATAATGGTCCTGCTCCTAGACGCATGGG
56592700 GGA
1 GGA
56592703 GCCTTACAGA
Statistics
Matches: 264, Mismatches: 76, Indels: 25
0.72 0.21 0.07
Matches are distributed among these distances:
48 2 0.01
49 42 0.16
50 206 0.78
51 14 0.05
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (49 bp):
GGAAGCTTATAGAAGGTGGTAATAATGGTCCTGCTCCTAGACGCATGGG
Found at i:56594409 original size:26 final size:25
Alignment explanation
Indices: 56594370--56594435 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 25
56594360 AACACTCAAA
56594370 TCTTAAACAA-ACTTTTCAAAAATACT
1 TCTTAAA-AACACTTTTC-AAAATACT
* *
56594396 TCTTAAAATCACTTTTTCAAAATATT
1 TCTTAAAAACAC-TTTTCAAAATACT
*
56594422 TTTTAAAAACACTT
1 TCTTAAAAACACTT
56594436 CTAAAAGGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
25 3 0.09
26 26 0.76
27 5 0.15
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.41
Consensus pattern (25 bp):
TCTTAAAAACACTTTTCAAAATACT
Found at i:56600289 original size:89 final size:89
Alignment explanation
Indices: 56600136--56600695 Score: 772
Period size: 89 Copynumber: 6.3 Consensus size: 89
56600126 TTAGGGAGAT
* * *
56600136 AAGATCT-GTAATCTTCGATCTACTTCACTCCAGTACATGAAGACAAGATCTGCTTTT-TCCGAT
1 AAGATCTGGT-ATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG-TTTTCTTCGAT
*
56600199 CTACTTCACCACCAGTATGGGAAGAT
64 CTACTTCACCACCAGTATGGGAAGAC
* * *
56600225 AAGATCTGCTATCTTTGATCTACTTCACGCCAGTACATGAAGATAAGATCTGTTTTCTTTGATCT
1 AAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
* * *
56600290 GCTTCGCCACCAGTATGGGAAGGC
66 ACTTCACCACCAGTATGGGAAGAC
* * *
56600314 AAGATCTGGTATCTCTGATCTACTTCACGCCAGTACCTGAAGACAAGATCTGTTTTCTTTGATCT
1 AAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
* ** *
56600379 GCTTTGCCACCAGTATGGGAAGGC
66 ACTTCACCACCAGTATGGGAAGAC
* *
56600403 AAGATCTGGTATCTCTGATCTACTTCATGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
1 AAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
*
56600468 AC-TCTACCACCAGTATGGGGAGAC
66 ACTTC-ACCACCAGTATGGGAAGAC
*
56600492 AAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAAATCTGCTTTT-TTCGATC
1 AAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG-TTTTCTTCGATC
56600556 TACTTCACCACCAGTATGGGAAGAC
65 TACTTCACCACCAGTATGGGAAGAC
* *
56600581 AAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTTTTTCAATC
1 AAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG-TTTTCTTCGATC
* *
56600646 TGCTCCACCACCAGTATTGGG-AGAC
65 TACTTCACCACCAGTA-TGGGAAGAC
* * *
56600671 AAGATCT-GTATATTCGATCCACTTC
1 AAGATCTGGTATCTTTGATCTACTTC
56600696 GCTACCAATA
Statistics
Matches: 429, Mismatches: 35, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
88 5 0.01
89 382 0.89
90 38 0.09
91 4 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (89 bp):
AAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCT
ACTTCACCACCAGTATGGGAAGAC
Found at i:56605489 original size:20 final size:21
Alignment explanation
Indices: 56605449--56605489 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
56605439 TTCATACACG
*
56605449 GTATGAATACTTTCTAACTCC
1 GTATGAATACTTTCCAACTCC
*
56605470 GTATTAATAC-TTCCAACTCC
1 GTATGAATACTTTCCAACTCC
56605490 TAGCATTCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.37
Consensus pattern (21 bp):
GTATGAATACTTTCCAACTCC
Found at i:56609596 original size:50 final size:50
Alignment explanation
Indices: 56609482--56609730 Score: 311
Period size: 50 Copynumber: 4.8 Consensus size: 50
56609472 GATAATAACA
* * **
56609482 TGCCAAAGCCATGTCCCAGACATGGTCTTTCATGGGATGTTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* *
56609533 TGCCCATGCCATGTCCCAGACATGGTCTTATA-GAGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG-GGACCTCTCATCTCGG
* *
56609583 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
56609633 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATC-T-CGG
*
56609688 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
56609731 TTACCCAAAT
Statistics
Matches: 172, Mismatches: 18, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
50 96 0.56
51 32 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:56609661 original size:100 final size:104
Alignment explanation
Indices: 56609481--56609730 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 104
56609471 TGATAATAAC
* **
56609481 ATGCCAAAGCCATGTCCCAGACATGGTCTTTCATGGGATGTTCTCATCTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
* *
56609546 TCCCAGACATGGTCTTATAGAGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGAGGACCTCTCAATCTTAAGG
* *
56609583 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
*
56609647 CCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
66 CCCAGACATGGTCTTACAGAGGACCTCTCA--ATCTTAAGG
* *
56609688 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
56609731 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
100 51 0.39
101 35 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGAGGACCTCTCAATCTTAAGG
Found at i:56609846 original size:13 final size:13
Alignment explanation
Indices: 56609825--56609856 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
56609815 GATTGGATCA
*
56609825 TCATCAAATAAAT
1 TCATAAAATAAAT
56609838 TCATAAAATAAAT
1 TCATAAAATAAAT
56609851 TCATAA
1 TCATAA
56609857 TTACTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:56617710 original size:31 final size:29
Alignment explanation
Indices: 56617675--56617751 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
56617665 TTAATAGCTT
*
56617675 AGTGACTAAAATGTTACAACACGATAACATA
1 AGTGACTAAAATGTAACAACAC-A-AACATA
* * ***
56617706 AGTGACAAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACAACACAAACATA
56617735 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
56617752 CTAAGGTAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 21 0.55
30 1 0.03
31 16 0.42
ACGTcount: A:0.49, C:0.16, G:0.13, T:0.22
Consensus pattern (29 bp):
AGTGACTAAAATGTAACAACACAAACATA
Found at i:56624262 original size:11 final size:10
Alignment explanation
Indices: 56624229--56624337 Score: 60
Period size: 10 Copynumber: 11.0 Consensus size: 10
56624219 TCATATGGAA
56624229 AAAAAATTA-
1 AAAAAATTAT
*
56624238 AAAATATT-T
1 AAAAAATTAT
* *
56624247 TAAAAATTGT
1 AAAAAATTAT
56624257 AAAAAATTAT
1 AAAAAATTAT
*
56624267 AAAAAAAATAT
1 -AAAAAATTAT
* * *
56624278 TAGAAATTCT
1 AAAAAATTAT
*
56624288 AAAAGATTAT
1 AAAAAATTAT
* *
56624298 AAAAATTTTT
1 AAAAAATTAT
** *
56624308 AAAATTTTTT
1 AAAAAATTAT
*
56624318 AAAAAAATAT
1 AAAAAATTAT
*
56624328 TAAAAATTAT
1 AAAAAATTAT
56624338 TGTATCTTGA
Statistics
Matches: 73, Mismatches: 24, Indels: 5
0.72 0.24 0.05
Matches are distributed among these distances:
9 13 0.18
10 51 0.70
11 9 0.12
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.36
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:56624272 original size:31 final size:30
Alignment explanation
Indices: 56624228--56624334 Score: 92
Period size: 31 Copynumber: 3.5 Consensus size: 30
56624218 ATCATATGGA
* *
56624228 AAAAAAAT-TAAAAATATTTTAAAAATTGT
1 AAAAAATTATAAAAATATTTTAAAAATTCT
* * *
56624257 AAAAAATTATAAAAAAAATATTAGAAATTCT
1 AAAAAATTAT-AAAAATATTTTAAAAATTCT
* * *
56624288 AAAAGATTATAAAAAT-TTTTAAAATTTTTT
1 AAAAAATTATAAAAATATTTTAAAA-ATTCT
*
56624318 AAAAAAATATTAAAAAT
1 AAAAAATTA-TAAAAAT
56624335 TATTGTATCT
Statistics
Matches: 61, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
29 13 0.21
30 16 0.26
31 32 0.52
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAAAATTATAAAAATATTTTAAAAATTCT
Found at i:56626336 original size:17 final size:16
Alignment explanation
Indices: 56626305--56626344 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
56626295 ATAAAGAATG
* *
56626305 AATTTTCAGATTTTTT
1 AATTTTTAGAATTTTT
56626321 ATATTTTTAGAATTTTT
1 A-ATTTTTAGAATTTTT
56626338 AATTTTT
1 AATTTTT
56626345 TTTTAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.65
Consensus pattern (16 bp):
AATTTTTAGAATTTTT
Found at i:56631543 original size:61 final size:59
Alignment explanation
Indices: 56631432--56631590 Score: 188
Period size: 61 Copynumber: 2.8 Consensus size: 59
56631422 AGTCACGTAG
* * * *
56631432 GAATCAAATTGCTAAAAGATA-A--TATCCCATAATAATATCTTATGATATCTCATTA-
1 GAATCAAATTGCTAAAAGATATATCTATCCCATAATAATACCCTATAACATCTCATTAT
*
56631487 GAAATCAAATTGCTAAGAGATAGTATCTCATCCCATAATAATACCCTATAACATCTCATTAT
1 G-AATCAAATTGCTAAAAGATA-TATCT-ATCCCATAATAATACCCTATAACATCTCATTAT
*
56631549 GAATCAAATTGCTAAAAGATA-A--TATCCCATAATAATATCCTA
1 GAATCAAATTGCTAAAAGATATATCTATCCCATAATAATACCCTA
56631591 ACAGGCATAA
Statistics
Matches: 90, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
55 1 0.01
56 37 0.41
57 1 0.01
58 1 0.01
59 1 0.01
60 1 0.01
61 47 0.52
62 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (59 bp):
GAATCAAATTGCTAAAAGATATATCTATCCCATAATAATACCCTATAACATCTCATTAT
Found at i:56631908 original size:2 final size:2
Alignment explanation
Indices: 56631901--56631932 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
56631891 ATCCATTCTT
56631901 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
56631933 GTCATAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:56632243 original size:17 final size:17
Alignment explanation
Indices: 56632217--56632254 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
56632207 AAATATGAAT
56632217 AAAT-AAATCTAGACTA
1 AAATAAAATCTAGACTA
*
56632233 AAATAAAATCTAGATTA
1 AAATAAAATCTAGACTA
56632250 AAATA
1 AAATA
56632255 TGCATTCGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.61, C:0.08, G:0.05, T:0.26
Consensus pattern (17 bp):
AAATAAAATCTAGACTA
Found at i:56635697 original size:11 final size:11
Alignment explanation
Indices: 56635681--56635705 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
56635671 AACAGGGGTG
56635681 GCACGATATCA
1 GCACGATATCA
56635692 GCACGATATCA
1 GCACGATATCA
56635703 GCA
1 GCA
56635706 GTCAGCACGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.28, G:0.20, T:0.16
Consensus pattern (11 bp):
GCACGATATCA
Found at i:56637429 original size:16 final size:15
Alignment explanation
Indices: 56637405--56637434 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
56637395 AAATTAAGTT
56637405 AATATTAAAGATTAA
1 AATATTAAAGATTAA
56637420 AATATGTAAAGATTA
1 AATAT-TAAAGATTA
56637435 TAAAAACATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (15 bp):
AATATTAAAGATTAA
Found at i:56644226 original size:19 final size:19
Alignment explanation
Indices: 56644198--56644234 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
56644188 TTCCTTTAGA
* *
56644198 AGGAAGAGAAAATAGGCTT
1 AGGAAAAGAAAACAGGCTT
56644217 AGGAAAAGAAAACAGGCT
1 AGGAAAAGAAAACAGGCT
56644235 AAGACTCCGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.08, G:0.30, T:0.11
Consensus pattern (19 bp):
AGGAAAAGAAAACAGGCTT
Found at i:56648827 original size:41 final size:40
Alignment explanation
Indices: 56648781--56648896 Score: 112
Period size: 41 Copynumber: 3.0 Consensus size: 40
56648771 GACTTCGAGT
*
56648781 TGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAAT
1 TGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAAC
* * * * * *
56648821 TCGATGAGGCACTGGGTG-CCA-CT-TTACTTTGGTTTAGC
1 T-GATGAGACACTGGGTGTCAATTTATTACTTCGGATTAAC
* * *
56648859 TGATGAGATACTGAGTGTCAATTTATTACTTCGAATTA
1 TGATGAGACACTGGGTGTCAATTTATTACTTCGGATTA
56648897 TCCGATAAGG
Statistics
Matches: 57, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
37 13 0.23
38 14 0.25
39 2 0.04
40 13 0.23
41 15 0.26
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (40 bp):
TGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAAC
Found at i:56649780 original size:41 final size:42
Alignment explanation
Indices: 56649717--56649796 Score: 110
Period size: 41 Copynumber: 1.9 Consensus size: 42
56649707 ATTTTGAGTC
*
56649717 CACACGGCCAGACACACGGGCGTGTGA-TTGGACCGTGTGAGA
1 CACACGGCCAGACACACAGGCGTGTGATTTGG-CCGTGTGAGA
* *
56649759 CACACGGCTA-ACACATAGGCGTGTGATTTGGCCGTGTG
1 CACACGGCCAGACACACAGGCGTGTGATTTGGCCGTGTG
56649797 TCCCCTGCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
41 21 0.62
42 13 0.38
ACGTcount: A:0.23, C:0.25, G:0.34, T:0.19
Consensus pattern (42 bp):
CACACGGCCAGACACACAGGCGTGTGATTTGGCCGTGTGAGA
Found at i:56651380 original size:23 final size:22
Alignment explanation
Indices: 56651354--56651411 Score: 75
Period size: 23 Copynumber: 2.7 Consensus size: 22
56651344 ACCCTAGCCC
56651354 ATTTATATTATTTTAATATATAT
1 ATTTATATTATTTTAATATA-AT
*
56651377 ATTTATATTATTTT-ATTTAAT
1 ATTTATATTATTTTAATATAAT
*
56651398 ATTTA-ATAATTTTA
1 ATTTATATTATTTTA
56651412 TTTATTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 7 0.22
21 7 0.22
22 4 0.12
23 14 0.44
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTTATATTATTTTAATATAAT
Found at i:56651391 original size:10 final size:10
Alignment explanation
Indices: 56651355--56651417 Score: 51
Period size: 10 Copynumber: 6.1 Consensus size: 10
56651345 CCCTAGCCCA
56651355 TTTATATTAT
1 TTTATATTAT
56651365 TTTAATATATAT
1 TTT-ATAT-TAT
56651377 ATTTATATTAT
1 -TTTATATTAT
56651388 TTTAT-TTAAT
1 TTTATATT-AT
*
56651398 ATTTA-ATAAT
1 -TTTATATTAT
56651408 TTTAT-TTAT
1 TTTATATTAT
56651417 T
1 T
56651418 AAATTTTTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
9 10 0.23
10 12 0.27
11 12 0.27
12 7 0.16
13 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTATATTAT
Found at i:56652428 original size:20 final size:20
Alignment explanation
Indices: 56652403--56652442 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
56652393 CTTATGTGTA
*
56652403 TATATAGATGT-AATTATATG
1 TATATACATGTGAA-TATATG
56652423 TATATACATGTGAATATATG
1 TATATACATGTGAATATATG
56652443 CAGGGCCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.40, C:0.03, G:0.15, T:0.42
Consensus pattern (20 bp):
TATATACATGTGAATATATG
Found at i:56664344 original size:59 final size:56
Alignment explanation
Indices: 56664273--56664405 Score: 144
Period size: 58 Copynumber: 2.3 Consensus size: 56
56664263 GAACATAATG
* * *
56664273 AATAGAAATGGAGAAATGAAAAACATTCAAGAAATGAGTATGGTTTTCTCCAGAATGAA
1 AATAAAAATGGAGAAATGAAAAA-ATT-AAGAAATGAATATGGTTTTCTCAAG-ATGAA
* ** *
56664332 AATAAAAATGGAGAATATGAAATAATTTGGAAATGAATATGGTTTTCTCAAGATGGA
1 AATAAAAATGGAGAA-ATGAAAAAATTAAGAAATGAATATGGTTTTCTCAAGATGAA
*
56664389 AATGAAAAT-GA-AAATGA
1 AATAAAAATGGAGAAATGA
56664406 GAAATGAATT
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
54 4 0.06
55 2 0.03
56 2 0.03
57 12 0.18
58 21 0.32
59 17 0.26
60 7 0.11
ACGTcount: A:0.49, C:0.05, G:0.20, T:0.26
Consensus pattern (56 bp):
AATAAAAATGGAGAAATGAAAAAATTAAGAAATGAATATGGTTTTCTCAAGATGAA
Found at i:56666106 original size:21 final size:21
Alignment explanation
Indices: 56666082--56666240 Score: 117
Period size: 21 Copynumber: 7.6 Consensus size: 21
56666072 AAAGCCTAAA
*
56666082 AGCTGAACAGAAGCTCATGAG
1 AGCTGAACAGAAGCTCATAAG
* * *
56666103 AGCTAAATAGAAAC-CTATAAG
1 AGCTGAACAGAAGCTC-ATAAG
* * *
56666124 GGTTGAACAGAAGCTCGTAAG
1 AGCTGAACAGAAGCTCATAAG
* * *
56666145 AGCTAAACAGAAACTCTTAAG
1 AGCTGAACAGAAGCTCATAAG
*
56666166 AGTTGAACAGAAGCTCGA-AAG
1 AGCTGAACAGAAGCTC-ATAAG
*
56666187 AGCTGAAC-GAAAACTCATAAG
1 AGCTGAACAG-AAGCTCATAAG
* * **
56666208 AGTTAAACAGAAGCTTGTAAG
1 AGCTGAACAGAAGCTCATAAG
*
56666229 AGCCGAACAGAA
1 AGCTGAACAGAA
56666241 AGTAAAACAC
Statistics
Matches: 103, Mismatches: 29, Indels: 12
0.72 0.20 0.08
Matches are distributed among these distances:
20 3 0.03
21 98 0.95
22 2 0.02
ACGTcount: A:0.44, C:0.16, G:0.23, T:0.16
Consensus pattern (21 bp):
AGCTGAACAGAAGCTCATAAG
Found at i:56666147 original size:42 final size:41
Alignment explanation
Indices: 56666085--56666231 Score: 170
Period size: 42 Copynumber: 3.5 Consensus size: 41
56666075 GCCTAAAAGC
* * *
56666085 TGAACAGAAGCTCATGAGAGCTAAATAGAAACCTATAAGGGT
1 TGAACAGAAGCTCGTAAGAGCTAAA-AGAAACCTATAAGAGT
56666127 TGAACAGAAGCTCGTAAGAGCTAAACAGAAACTCT-TAAGAGT
1 TGAACAGAAGCTCGTAAGAGCTAAA-AGAAAC-CTATAAGAGT
* * * *
56666169 TGAACAGAAGCTCGAAAGAGCTGAACGAAAACTCATAAGAGT
1 TGAACAGAAGCTCGTAAGAGCTAAAAGAAACCT-ATAAGAGT
* *
56666211 TAAACAGAAGCTTGTAAGAGC
1 TGAACAGAAGCTCGTAAGAGC
56666232 CGAACAGAAA
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
40 2 0.02
41 4 0.04
42 83 0.91
43 2 0.02
ACGTcount: A:0.44, C:0.16, G:0.23, T:0.18
Consensus pattern (41 bp):
TGAACAGAAGCTCGTAAGAGCTAAAAGAAACCTATAAGAGT
Found at i:56666228 original size:84 final size:84
Alignment explanation
Indices: 56666085--56666241 Score: 201
Period size: 84 Copynumber: 1.9 Consensus size: 84
56666075 GCCTAAAAGC
* * * * *
56666085 TGAACAGAAGCTCATGAGAGCTAAATAGAAACCTATAAGGGTTGAACAGAAGCTCGTAAGAGCTA
1 TGAACAGAAGCTCATAAGAGCTAAATAGAAAACTATAAGAGTTAAACAGAAGCTCGTAAGAGCCA
56666150 AACAGAAACTCTTAAGAGT
66 AACAGAAACTCTTAAGAGT
* * *
56666169 TGAACAGAAGCTCGA-AAGAGCTGAA-CGAAAACTCATAAGAGTTAAACAGAAGCTTGTAAGAGC
1 TGAACAGAAGCTC-ATAAGAGCTAAATAGAAAACT-ATAAGAGTTAAACAGAAGCTCGTAAGAGC
*
56666232 CGAACAGAAA
64 CAAACAGAAA
56666242 GTAAAACACG
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
83 6 0.10
84 55 0.89
85 1 0.02
ACGTcount: A:0.45, C:0.16, G:0.23, T:0.17
Consensus pattern (84 bp):
TGAACAGAAGCTCATAAGAGCTAAATAGAAAACTATAAGAGTTAAACAGAAGCTCGTAAGAGCCA
AACAGAAACTCTTAAGAGT
Found at i:56667432 original size:12 final size:12
Alignment explanation
Indices: 56667415--56667447 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
56667405 GACACTTAGT
56667415 AAATATTTATAA
1 AAATATTTATAA
56667427 AAATATTTATAA
1 AAATATTTATAA
56667439 AAATATTTA
1 AAATATTTA
56667448 CGGTTCAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
AAATATTTATAA
Found at i:56670158 original size:51 final size:47
Alignment explanation
Indices: 56670095--56670207 Score: 124
Period size: 45 Copynumber: 2.3 Consensus size: 47
56670085 ACAGTATACA
*
56670095 GTAATCAGTAACGGTAGCAGTAACAGTATTCAACACACAAAGTGCTGAATC
1 GTAA-CAGTAAC-GTAG--GTAACAGTATTCAACACACAAAGTGCCGAATC
*
56670146 TGTAACAGTAAC---GGTAACAGTATTCGACACACAAAGTGCCGAATC
1 -GTAACAGTAACGTAGGTAACAGTATTCAACACACAAAGTGCCGAATC
56670191 GATAACAGTAACAGTAG
1 G-TAACAGTAAC-GTAG
56670208 TCGGCACATA
Statistics
Matches: 54, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
44 1 0.02
45 40 0.74
47 1 0.02
49 1 0.02
51 7 0.13
52 4 0.07
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.20
Consensus pattern (47 bp):
GTAACAGTAACGTAGGTAACAGTATTCAACACACAAAGTGCCGAATC
Found at i:56670163 original size:45 final size:45
Alignment explanation
Indices: 56670114--56670202 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
56670104 AACGGTAGCA
*
56670114 GTAACAGTATTCAACACACAAAGTGCTGAATCTG-TAACAGTAACG
1 GTAACAGTATTCAACACACAAAGTGCCGAATC-GATAACAGTAACG
*
56670159 GTAACAGTATTCGACACACAAAGTGCCGAATCGATAACAGTAAC
1 GTAACAGTATTCAACACACAAAGTGCCGAATCGATAACAGTAAC
56670203 AGTAGTCGGC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 1 0.02
45 40 0.98
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.20
Consensus pattern (45 bp):
GTAACAGTATTCAACACACAAAGTGCCGAATCGATAACAGTAACG
Found at i:56670202 original size:39 final size:42
Alignment explanation
Indices: 56670112--56670228 Score: 116
Period size: 45 Copynumber: 2.8 Consensus size: 42
56670102 GTAACGGTAG
* *
56670112 CAGTAACAGTATTCAACACACAAAGTGCTGAATCTGTAACAGTAA
1 CAGTAACAGTATTCGACACACAAAGTGCCGAATCTG--A-AGTAA
*
56670157 CGGTAACAGTATTCGACACACAAAGTGCCGAATC-G-A-TAA
1 CAGTAACAGTATTCGACACACAAAGTGCCGAATCTGAAGTAA
* * * *
56670196 CAGTAACAGTAGTCGGCACA-TAAGTGCCTAATC
1 CAGTAACAGTATTCGACACACAAAGTGCCGAATC
56670229 AGTAAGCCGG
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
38 11 0.17
39 20 0.31
40 1 0.02
44 1 0.02
45 31 0.48
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (42 bp):
CAGTAACAGTATTCGACACACAAAGTGCCGAATCTGAAGTAA
Found at i:56675652 original size:13 final size:13
Alignment explanation
Indices: 56675634--56675658 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56675624 AAACCAAAAA
56675634 ATTATTTAACAAT
1 ATTATTTAACAAT
56675647 ATTATTTAACAA
1 ATTATTTAACAA
56675659 ATTCAAGCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTATTTAACAAT
Found at i:56675822 original size:30 final size:30
Alignment explanation
Indices: 56675755--56675859 Score: 88
Period size: 30 Copynumber: 3.5 Consensus size: 30
56675745 GTAGTTTTTT
* * * * *
56675755 TTAAAATTTATAAAAAAAAT-TAAATATCA
1 TTAAAAATTATAAAAATAATAAAAAAATTA
* *
56675784 TTAAAAATTTTAAAAATTATAAAAAAATTA
1 TTAAAAATTATAAAAATAATAAAAAAATTA
* * *
56675814 TTAGAAATTATAAAAATAAT-TAAAAATTG
1 TTAAAAATTATAAAAATAATAAAAAAATTA
*
56675843 TAAAAAAATTATAAAAA
1 T-TAAAAATTATAAAAA
56675860 ATTACGATAC
Statistics
Matches: 60, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
29 24 0.40
30 36 0.60
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (30 bp):
TTAAAAATTATAAAAATAATAAAAAAATTA
Found at i:56675837 original size:40 final size:39
Alignment explanation
Indices: 56675755--56675859 Score: 117
Period size: 40 Copynumber: 2.7 Consensus size: 39
56675745 GTAGTTTTTT
* * *
56675755 TTAAAATTTATAAAAAAA--ATTAAATATCATTAAAAATT
1 TTAAAAATTATAAAAAAATTATTAAA-ATTATTAAAAATA
56675793 TTAAAAATTATAAAAAAATTATTAGAAATTA-TAAAAATAA
1 TTAAAAATTATAAAAAAATTATTA-AAATTATTAAAAAT-A
* *
56675833 TTAAAAATTGTAAAAAAATTATAAAAA
1 TTAAAAATTATAAAAAAATTATTAAAA
56675860 ATTACGATAC
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
38 17 0.29
39 10 0.17
40 29 0.50
41 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (39 bp):
TTAAAAATTATAAAAAAATTATTAAAATTATTAAAAATA
Found at i:56675858 original size:9 final size:9
Alignment explanation
Indices: 56675785--56675859 Score: 60
Period size: 9 Copynumber: 7.7 Consensus size: 9
56675775 TAAATATCAT
*
56675785 TAAAAATTT
1 TAAAAATTA
56675794 TAAAAATTA
1 TAAAAATTA
56675803 TAAAAAAATTA
1 T--AAAAATTA
*
56675814 TTAGAAATTA
1 -TAAAAATTA
*
56675824 TAAAAATAA
1 TAAAAATTA
56675833 TTAAAAATTGTA
1 -TAAAAA-T-TA
*
56675845 AAAAAATTA
1 TAAAAATTA
56675854 TAAAAA
1 TAAAAA
56675860 ATTACGATAC
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
9 23 0.43
10 14 0.26
11 14 0.26
12 2 0.04
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:56675862 original size:21 final size:20
Alignment explanation
Indices: 56675753--56675859 Score: 96
Period size: 19 Copynumber: 5.5 Consensus size: 20
56675743 CTGTAGTTTT
*
56675753 TTTTAAAATTTATAAAAAAA
1 TTTTAAAAATTATAAAAAAA
* * * *
56675773 -ATTAAATATCAT-TAAAAA
1 TTTTAAAAATTATAAAAAAA
56675791 TTTTAAAAATTATAAAAAAA
1 TTTTAAAAATTATAAAAAAA
*
56675811 TTATTAGAAATTATAAAAATAA
1 TT-TTAAAAATTATAAAAA-AA
*
56675833 --TTAAAAATTGTAAAAAAA
1 TTTTAAAAATTATAAAAAAA
*
56675851 TTATAAAAA
1 TTTTAAAAA
56675860 ATTACGATAC
Statistics
Matches: 68, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
18 7 0.10
19 31 0.46
20 13 0.19
21 15 0.22
22 2 0.03
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.35
Consensus pattern (20 bp):
TTTTAAAAATTATAAAAAAA
Found at i:56675863 original size:10 final size:10
Alignment explanation
Indices: 56675786--56675863 Score: 70
Period size: 10 Copynumber: 7.8 Consensus size: 10
56675776 AAATATCATT
*
56675786 AAAAATT-TT
1 AAAAATTATA
56675795 AAAAATTATAA
1 AAAAATTAT-A
*
56675806 AAAAATTATT
1 AAAAATTATA
*
56675816 AGAAATTAT-
1 AAAAATTATA
* *
56675825 AAAAATAATT
1 AAAAATTATA
*
56675835 AAAAATTGTAA
1 AAAAATTAT-A
56675846 AAAAATTATA
1 AAAAATTATA
56675856 AAAAATTA
1 AAAAATTA
56675864 CGATACCGTC
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
9 14 0.25
10 25 0.45
11 17 0.30
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (10 bp):
AAAAATTATA
Found at i:56677283 original size:13 final size:13
Alignment explanation
Indices: 56677265--56677291 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
56677255 TTATACTTTA
56677265 ATTACAATTATAT
1 ATTACAATTATAT
56677278 ATTACAATTATAT
1 ATTACAATTATAT
56677291 A
1 A
56677292 AGTTAAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTACAATTATAT
Found at i:56683314 original size:51 final size:50
Alignment explanation
Indices: 56683194--56683327 Score: 162
Period size: 50 Copynumber: 2.7 Consensus size: 50
56683184 AAAGTGATGG
* * *
56683194 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAATGATAGA
* * * * * *
56683244 TCGCATGTGTAGTACTATGTGTAGGCTACTATGCGTACCTG-ATAGTTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAAT-G-ATAGA
56683295 TCACGTGTGTAGTACTATGTGCAGGCTACTATG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATG
56683328 TGAATCGAAC
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
49 2 0.03
50 36 0.51
51 32 0.46
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAATGATAGA
Found at i:56686945 original size:9 final size:9
Alignment explanation
Indices: 56686933--56686958 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
56686923 AAAACAGTAA
56686933 AAAATGATG
1 AAAATGATG
56686942 AAAATGATG
1 AAAATGATG
56686951 AAAATGAT
1 AAAATGAT
56686959 AATGATAATA
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:0.19, T:0.23
Consensus pattern (9 bp):
AAAATGATG
Found at i:56686989 original size:12 final size:12
Alignment explanation
Indices: 56686974--56687005 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
56686964 TAATAACAAT
56686974 AATATTAACTGA
1 AATATTAACTGA
56686986 AATATTAACTGA
1 AATATTAACTGA
56686998 AATATTAA
1 AATATTAA
56687006 GGAAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (12 bp):
AATATTAACTGA
Found at i:56689190 original size:45 final size:45
Alignment explanation
Indices: 56688767--56689171 Score: 483
Period size: 45 Copynumber: 9.0 Consensus size: 45
56688757 GGGATTGGTG
* * * * * *
56688767 TCTTCGATCTGCTTCGCTGTCAGTACAGTAAGGCAAAATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * ** ** * * * * *
56688812 TCTTC-AGTCTGCTCCGCTGTAAACCCAGGGAGGCAAGGT-TGATG
1 TCTTCGA-TCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* *
56688856 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAATATATGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* *
56688901 TCTTCGATCTACTTTGCTGCCAATACAGAAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * * * *
56688946 ACTTCGATCTA-TATTGCTGCCAATATAGAAAGACAAGATCTGTTA
1 TCTTCGATCTACT-TCGCTGCCAATACAGGAAGACAAGATCTGCTA
* * *
56688991 ACTTCAATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
* *
56689036 TCTTCAATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
56689081 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
*
56689126 TCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
56689171 T
1 T
56689172 TTTCAACCTA
Statistics
Matches: 315, Mismatches: 40, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
44 32 0.10
45 282 0.90
46 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (45 bp):
TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
Found at i:56690664 original size:18 final size:17
Alignment explanation
Indices: 56690615--56690653 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
56690605 GAGTTTTCAA
*
56690615 CTCAATTCCCCTTTGGT
1 CTCAAATCCCCTTTGGT
56690632 CTCAAATCCCCTTTGGT
1 CTCAAATCCCCTTTGGT
56690649 CTCAA
1 CTCAA
56690654 GGTGCCCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.36, G:0.10, T:0.36
Consensus pattern (17 bp):
CTCAAATCCCCTTTGGT
Found at i:56701439 original size:12 final size:12
Alignment explanation
Indices: 56701424--56701463 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
56701414 AGTAAATAAA
56701424 TAAATAAAATAT
1 TAAATAAAATAT
*
56701436 TAAATGAAATAT
1 TAAATAAAATAT
*
56701448 TAAATAAAATAG
1 TAAATAAAATAT
56701460 TAAA
1 TAAA
56701464 AAATGATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (12 bp):
TAAATAAAATAT
Found at i:56717724 original size:278 final size:278
Alignment explanation
Indices: 56717227--56717787 Score: 1104
Period size: 278 Copynumber: 2.0 Consensus size: 278
56717217 TCTTATAATT
*
56717227 AATGACCATCCTAGCTTTTCCTCTTTTAATTTCAGCATGGTTTCTTACCATAAAAGCTAGACTGG
1 AATGACCATCCTAGCTTTTCCTCTTTTAATTTAAGCATGGTTTCTTACCATAAAAGCTAGACTGG
56717292 AATGAGGACTATTAGTTTTTTCTATTAATCCTTTTTCTAGAAGTTCATTTATTTGAACATCAAAT
66 AATGAGGACTATTAGTTTTTTCTATTAATCCTTTTTCTAGAAGTTCATTTATTTGAACATCAAAT
56717357 TCATCTATATCTTGTTTAGTATAGATTATAGGTTTAACCCTAATGATTTTATTAGGATTAATTAA
131 TCATCTATATCTTGTTTAGTATAGATTATAGGTTTAACCCTAATGATTTTATTAGGATTAATTAA
56717422 TTTTATTTCACAGTATCTTGGACTGTTTTTCCATAATTTTAATGGTTCTTCACTAAAATTATTTT
196 TTTTATTTCACAGTATCTTGGACTGTTTTTCCATAATTTTAATGGTTCTTCACTAAAATTATTTT
56717487 CAAGAATTTTAAACAACC
261 CAAGAATTTTAAACAACC
*
56717505 AATGACCATCCTAGCTTTTCCTCTTTTAATTTAAGCATGGTTTCTTACCATAAAAGCTGGACTGG
1 AATGACCATCCTAGCTTTTCCTCTTTTAATTTAAGCATGGTTTCTTACCATAAAAGCTAGACTGG
56717570 AATGAGGACTATTAGTTTTTTCTATTAATCCTTTTTCTAGAAGTTCATTTATTTGAACATCAAAT
66 AATGAGGACTATTAGTTTTTTCTATTAATCCTTTTTCTAGAAGTTCATTTATTTGAACATCAAAT
56717635 TCATCTATATCTTGTTTAGTATAGATTATAGGTTTAACCCTAATGATTTTATTAGGATTAATTAA
131 TCATCTATATCTTGTTTAGTATAGATTATAGGTTTAACCCTAATGATTTTATTAGGATTAATTAA
56717700 TTTTATTTCACAGTATCTTGGACTGTTTTTCCATAATTTTAATGGTTCTTCACTAAAATTATTTT
196 TTTTATTTCACAGTATCTTGGACTGTTTTTCCATAATTTTAATGGTTCTTCACTAAAATTATTTT
56717765 CAAGAATTTTAAACAACC
261 CAAGAATTTTAAACAACC
56717783 AATGA
1 AATGA
56717788 TTTGTTTCTA
Statistics
Matches: 281, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
278 281 1.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (278 bp):
AATGACCATCCTAGCTTTTCCTCTTTTAATTTAAGCATGGTTTCTTACCATAAAAGCTAGACTGG
AATGAGGACTATTAGTTTTTTCTATTAATCCTTTTTCTAGAAGTTCATTTATTTGAACATCAAAT
TCATCTATATCTTGTTTAGTATAGATTATAGGTTTAACCCTAATGATTTTATTAGGATTAATTAA
TTTTATTTCACAGTATCTTGGACTGTTTTTCCATAATTTTAATGGTTCTTCACTAAAATTATTTT
CAAGAATTTTAAACAACC
Found at i:56742467 original size:30 final size:29
Alignment explanation
Indices: 56742431--56742487 Score: 96
Period size: 29 Copynumber: 1.9 Consensus size: 29
56742421 CACTAACAAT
*
56742431 AGGTAAATATATCGCCCCATGAGACCCTGC
1 AGGTAAATATACCG-CCCATGAGACCCTGC
56742461 AGGTAAATATACCGCCCATGAGACCCT
1 AGGTAAATATACCGCCCATGAGACCCT
56742488 TAGTATCGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.19
Consensus pattern (29 bp):
AGGTAAATATACCGCCCATGAGACCCTGC
Found at i:56744787 original size:6 final size:6
Alignment explanation
Indices: 56744774--56744810 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
56744764 TTTCTTTTTC
56744774 TCTT-T TCTTGT TCTTGT TCTTGT TCTTGT TCTTGT TC
1 TCTTGT TCTTGT TCTTGT TCTTGT TCTTGT TCTTGT TC
56744811 CCCCCCCCCC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.00, C:0.19, G:0.14, T:0.68
Consensus pattern (6 bp):
TCTTGT
Found at i:56749625 original size:31 final size:31
Alignment explanation
Indices: 56749557--56749626 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
56749547 GAAAAGTTGA
* * *
56749557 AAAG-ATTTTAAAAGAAAACTTTTTATCTTG
1 AAAGAATTTTAAAAAAAAACTTCTTATCTTC
*
56749587 AATGAATTTTAAAAAAAAACGTTCTTAT-TTC
1 AAAGAATTTTAAAAAAAAAC-TTCTTATCTTC
56749618 AAAGAATTT
1 AAAGAATTT
56749627 AAACGTCACA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
30 3 0.09
31 24 0.73
32 6 0.18
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.39
Consensus pattern (31 bp):
AAAGAATTTTAAAAAAAAACTTCTTATCTTC
Found at i:56750625 original size:16 final size:16
Alignment explanation
Indices: 56750553--56750628 Score: 80
Period size: 16 Copynumber: 4.7 Consensus size: 16
56750543 TGAAAATATC
*
56750553 TATATATATGTAAAAA
1 TATATATATATAAAAA
* * *
56750569 TATGTATGTATATAAA
1 TATATATATATAAAAA
* *
56750585 TATATATAAAAATAAAA
1 TATATATATATA-AAAA
56750602 TATATATATATAAAAA
1 TATATATATATAAAAA
*
56750618 TATGTATATAT
1 TATATATATAT
56750629 TTATAATACT
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
16 34 0.72
17 13 0.28
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (16 bp):
TATATATATATAAAAA
Found at i:56750684 original size:24 final size:24
Alignment explanation
Indices: 56750657--56750705 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
56750647 AAAAAAAACG
* *
56750657 TGTACATATATTATAGAAAATGTA
1 TGTACATAAAATATAGAAAATGTA
*
56750681 TGTATATAAAATATAGAAAATGTA
1 TGTACATAAAATATAGAAAATGTA
56750705 T
1 T
56750706 ATGTATTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.12, T:0.37
Consensus pattern (24 bp):
TGTACATAAAATATAGAAAATGTA
Found at i:56750686 original size:20 final size:20
Alignment explanation
Indices: 56750657--56750715 Score: 55
Period size: 24 Copynumber: 2.8 Consensus size: 20
56750647 AAAAAAAACG
*
56750657 TGTACATATATTATAGAAAA
1 TGTATATATATTATAGAAAA
*
56750677 TGTATGTATATAAAATATAGAAAA
1 TGTA--TATAT--ATTATAGAAAA
*
56750701 TGTATATGTATTATA
1 TGTATATATATTATA
56750716 AAATATAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
20 9 0.29
22 8 0.26
24 14 0.45
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.39
Consensus pattern (20 bp):
TGTATATATATTATAGAAAA
Found at i:56750694 original size:27 final size:28
Alignment explanation
Indices: 56750664--56750717 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 28
56750654 ACGTGTACAT
56750664 ATATTATAGAAAATG-TATGTA-TATAA
1 ATATTATAGAAAATGATATGTATTATAA
56750690 A-A-TATAGAAAATGTATATGTATTATAA
1 ATATTATAGAAAATG-ATATGTATTATAA
56750717 A
1 A
56750718 ATATAAATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
24 11 0.44
25 1 0.04
26 7 0.28
27 6 0.24
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (28 bp):
ATATTATAGAAAATGATATGTATTATAA
Found at i:56750796 original size:3 final size:3
Alignment explanation
Indices: 56750788--56750851 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
56750778 ATACATGGCT
56750788 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
56750836 ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
56750852 GATCGATAGT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:56756674 original size:12 final size:12
Alignment explanation
Indices: 56756659--56756689 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
56756649 AATTCAAATT
*
56756659 TTATTTTTAGGA
1 TTATTATTAGGA
56756671 TTATTATTAGGA
1 TTATTATTAGGA
56756683 TTATTAT
1 TTATTAT
56756690 GATATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (12 bp):
TTATTATTAGGA
Found at i:56757830 original size:9 final size:9
Alignment explanation
Indices: 56757816--56757846 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
56757806 GTTAAACGAA
56757816 TCGAGTTAT
1 TCGAGTTAT
*
56757825 TCGAGTTAA
1 TCGAGTTAT
56757834 TCGAGTTAT
1 TCGAGTTAT
56757843 TCGA
1 TCGA
56757847 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:56758176 original size:30 final size:31
Alignment explanation
Indices: 56758140--56758199 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
56758130 AAAACTTTTA
56758140 TTTTCCCCAAAAAATTTTACTCCC-TCCCAC
1 TTTTCCCCAAAAAATTTTACTCCCTTCCCAC
* * *
56758170 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCAAAAAATTTTACTCCCTTCCCA
56758200 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.23, C:0.38, G:0.00, T:0.38
Consensus pattern (31 bp):
TTTTCCCCAAAAAATTTTACTCCCTTCCCAC
Found at i:56769789 original size:26 final size:26
Alignment explanation
Indices: 56769747--56769936 Score: 117
Period size: 26 Copynumber: 7.5 Consensus size: 26
56769737 ATCCTCTCTC
56769747 GAGCCATATAAT-AGGAAGCTCACAAA
1 GAGCCAT-TAATCAGGAAGCTCACAAA
*
56769773 GAGCCATTAATCGGGAAGCTCACAAA
1 GAGCCATTAATCAGGAAGCTCACAAA
* * *
56769799 GAACC-TT--TCAGGAAGCTTATC-CA
1 GAGCCATTAATCAGGAAGCTCA-CAAA
* *
56769822 G-GCTATATAAT-AGGAAGCTCACACA
1 GAGCCAT-TAATCAGGAAGCTCACAAA
* *
56769847 GAGCCA-TAATCAGGAAGTTCACATA
1 GAGCCATTAATCAGGAAGCTCACAAA
**** * *
56769872 GAAATTTTAATCAAGAAGCTCACGAA
1 GAGCCATTAATCAGGAAGCTCACAAA
* * * * *
56769898 GAGCCTTTAAACGGGAAACTCACGAA
1 GAGCCATTAATCAGGAAGCTCACAAA
*
56769924 GAGGCATTAATCA
1 GAGCCATTAATCA
56769937 AGAGTTGCGT
Statistics
Matches: 124, Mismatches: 30, Indels: 20
0.71 0.17 0.11
Matches are distributed among these distances:
22 1 0.01
23 13 0.10
24 7 0.06
25 32 0.26
26 71 0.57
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (26 bp):
GAGCCATTAATCAGGAAGCTCACAAA
Found at i:56769861 original size:25 final size:25
Alignment explanation
Indices: 56769754--56769869 Score: 82
Period size: 25 Copynumber: 4.7 Consensus size: 25
56769744 CTCGAGCCAT
56769754 ATAAT-AGGAAGCTCACAAAGAGCC
1 ATAATCAGGAAGCTCACAAAGAGCC
* *
56769778 ATTAATCGGGAAGCTCACAAAGAACC
1 A-TAATCAGGAAGCTCACAAAGAGCC
* * * *
56769804 -T-TTCAGGAAGCTTATC-CAG-GCTAT
1 ATAATCAGGAAGCTCA-CAAAGAGC--C
*
56769828 ATAAT-AGGAAGCTCACACAGAGCC
1 ATAATCAGGAAGCTCACAAAGAGCC
*
56769852 ATAATCAGGAAGTTCACA
1 ATAATCAGGAAGCTCACA
56769870 TAGAAATTTT
Statistics
Matches: 70, Mismatches: 12, Indels: 19
0.69 0.12 0.19
Matches are distributed among these distances:
22 1 0.01
23 12 0.17
24 9 0.13
25 28 0.40
26 20 0.29
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.19
Consensus pattern (25 bp):
ATAATCAGGAAGCTCACAAAGAGCC
Found at i:56770040 original size:65 final size:65
Alignment explanation
Indices: 56769936--56770070 Score: 216
Period size: 65 Copynumber: 2.1 Consensus size: 65
56769926 GGCATTAATC
* * * *
56769936 AAGAGTTGCGTTTGTGTCTGCAACATATGTAGGATCACAACCGATCATAAAACATGACACTCACA
1 AAGAGTTACATTTGTGTCCGCAACATATGCAGGATCACAACCGATCATAAAACATGACACTCACA
* *
56770001 AAGAGTTACATTTGTGTCCGCAATATATGCAGGATCACAACCGATCATAAAACATGACGCTCACA
1 AAGAGTTACATTTGTGTCCGCAACATATGCAGGATCACAACCGATCATAAAACATGACACTCACA
56770066 AAGAG
1 AAGAG
56770071 CTACGGTAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (65 bp):
AAGAGTTACATTTGTGTCCGCAACATATGCAGGATCACAACCGATCATAAAACATGACACTCACA
Found at i:56773394 original size:14 final size:15
Alignment explanation
Indices: 56773358--56773395 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
56773348 ATTTTAGGGG
56773358 TGTTAT-AAATAATGT
1 TGTTATGAAA-AATGT
56773373 TGTTATGAAAAATGT
1 TGTTATGAAAAATGT
56773388 T-TTATGAA
1 TGTTATGAA
56773396 TCTTTTTGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.32
15 12 0.55
16 3 0.14
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (15 bp):
TGTTATGAAAAATGT
Found at i:56784931 original size:3 final size:3
Alignment explanation
Indices: 56784925--56784950 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
56784915 AAAAAACCAA
56784925 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
56784951 CAACAGTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:56788681 original size:35 final size:35
Alignment explanation
Indices: 56788635--56788706 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
56788625 ACAGGCCCAG
56788635 GTTCCAATCCGGGGGACAATCCAACCAATCCTGTA
1 GTTCCAATCCGGGGGACAATCCAACCAATCCTGTA
56788670 GTTCCAATCCGGGGGACAATCCAACCAATCCTGTA
1 GTTCCAATCCGGGGGACAATCCAACCAATCCTGTA
56788705 GT
1 GT
56788707 AGTGTCTGAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.21
Consensus pattern (35 bp):
GTTCCAATCCGGGGGACAATCCAACCAATCCTGTA
Found at i:56789547 original size:45 final size:45
Alignment explanation
Indices: 56789483--56789573 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
56789473 ATATCTGAAG
56789483 AAAGAATTTTGGAAGGAAATTTATGAAGCATTTGCCCTTATGTAC
1 AAAGAATTTTGGAAGGAAATTTATGAAGCATTTGCCCTTATGTAC
56789528 AAAGAATTTTGGAAGGAAATTTATGAAGCATTTGCCCTTATGTAC
1 AAAGAATTTTGGAAGGAAATTTATGAAGCATTTGCCCTTATGTAC
56789573 A
1 A
56789574 TGGAAGTGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (45 bp):
AAAGAATTTTGGAAGGAAATTTATGAAGCATTTGCCCTTATGTAC
Found at i:56792397 original size:50 final size:50
Alignment explanation
Indices: 56792301--56792476 Score: 135
Period size: 50 Copynumber: 3.5 Consensus size: 50
56792291 GGGAATGAGA
* * * * * * **
56792301 TCCCACGTAGGACCATGTCTGGGACATGGCGTTGGCATCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAGAAC
* *
56792351 TCCCCCT-TAAGACCATGTCTGGGACATGGCATGGGCACCAATATGAGAAC
1 T-CCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAGAAC
* * * * **
56792401 TCCCATGTAAGACCATATCTGGGATATGACATTGGCAGTACAGA--A-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCA-AGATGAGAAC
* *
56792449 ATCCCATGTAAGACTATGCCTGGGACAT
1 -TCCCATGTAAGACCATGTCTGGGACAT
56792477 AGCTTTGGCA
Statistics
Matches: 100, Mismatches: 22, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
48 3 0.03
49 28 0.28
50 64 0.64
51 5 0.05
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATGAGAAC
Found at i:56794483 original size:44 final size:45
Alignment explanation
Indices: 56794423--56794531 Score: 130
Period size: 44 Copynumber: 2.4 Consensus size: 45
56794413 AGTCACAAAC
* * * *
56794423 CTTATCCCCCTGAAGTTGCAGTCGAGCAGGTTGAAGATA-CCAAT
1 CTTATCTCCCTGAAGTTGCAGTCGAACAGATTAAAGATAGCCAAT
* * * *
56794467 CTTATCTCCCTAAAGTTACAGTGGAACAGATTAAAGATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTCGAACAGATTAAAGATAGCCAAT
*
56794512 CTTATCTCTCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCA
56794532 ATGGAGCGGA
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
44 32 0.60
45 21 0.40
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.28
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTCGAACAGATTAAAGATAGCCAAT
Found at i:56794714 original size:44 final size:44
Alignment explanation
Indices: 56794663--56794806 Score: 144
Period size: 44 Copynumber: 3.2 Consensus size: 44
56794653 TATCTCATTG
*
56794663 AAGTTGCAGTGGAGTAAATTAAAGCCACAAACCTTATCTCCCTG
1 AAGTTGCAGTGGAGTAAATTAAAGCCACAAACCTTATCTCCCTA
* * * * * * * * *
56794707 CAGTTGCAGTAGAGTAAATTGAAGACAGCGAATCTTATTTTCTTA
1 AAGTTGCAGTGGAGTAAATTAAAGCCA-CAAACCTTATCTCCCTA
** * *
56794752 AAGTTGCAGTGGAACAAATTAAAGCTACAAGCCTTATCTCCCTA
1 AAGTTGCAGTGGAGTAAATTAAAGCCACAAACCTTATCTCCCTA
*
56794796 AAGTTACAGTG
1 AAGTTGCAGTG
56794807 AAGCAGGTTG
Statistics
Matches: 75, Mismatches: 24, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
44 44 0.59
45 31 0.41
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (44 bp):
AAGTTGCAGTGGAGTAAATTAAAGCCACAAACCTTATCTCCCTA
Found at i:56794818 original size:89 final size:89
Alignment explanation
Indices: 56794601--56794818 Score: 235
Period size: 89 Copynumber: 2.4 Consensus size: 89
56794591 TCTACCATAG
* * * * *
56794601 CAAGTCTTATTTCCCTAAAGTTGCAGTG-CGACAGATTGAACATAGCGAATCTTATCTCATTGAA
1 CAAGCCTTATCTCCCTAAAGTTGCAGTGAAG-CAGATTGAACACAGCGAATCTTATCTCATTAAA
**
56794665 GTTGCAGTGGAGTAAATTAAAGCCA
65 GTTGCAGTGGAACAAATTAAAGCCA
* ** * * * *
56794690 CAAACCTTATCTCCCTGCAGTTGCAGT-AGAGTAAATTGAAGACAGCGAATCTTATTTTC-TTAA
1 CAAGCCTTATCTCCCTAAAGTTGCAGTGA-AGCAGATTGAACACAGCGAATCTTA-TCTCATTAA
*
56794753 AGTTGCAGTGGAACAAATTAAAGCTA
64 AGTTGCAGTGGAACAAATTAAAGCCA
* *
56794779 CAAGCCTTATCTCCCTAAAGTTACAGTGAAGCAGGTTGAA
1 CAAGCCTTATCTCCCTAAAGTTGCAGTGAAGCAGATTGAA
56794819 ATTAAAAATC
Statistics
Matches: 103, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
89 98 0.95
90 5 0.05
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (89 bp):
CAAGCCTTATCTCCCTAAAGTTGCAGTGAAGCAGATTGAACACAGCGAATCTTATCTCATTAAAG
TTGCAGTGGAACAAATTAAAGCCA
Found at i:56794899 original size:44 final size:44
Alignment explanation
Indices: 56794752--56794900 Score: 129
Period size: 44 Copynumber: 3.4 Consensus size: 44
56794742 TATTTTCTTA
* * * * * *
56794752 AAGTTGCAGTGGAACAAATTAAAGCTACAAGCCTTATCTCCCTA
1 AAGTTACAGTGGAGCAGATTAAAGCTAAAAACCTTATCTCCCTG
* * * * **
56794796 AAGTTACAGTGAAGCAGGTTGAAA-TTAAAAATCTTATCTTTCTG
1 AAGTTACAGTGGAGCAGATT-AAAGCTAAAAACCTTATCTCCCTG
* * *
56794840 AAGTTACAGTAGAGCAGATTAAAGCTATAAACCTCATCTCCCTG
1 AAGTTACAGTGGAGCAGATTAAAGCTAAAAACCTTATCTCCCTG
**
56794884 AAGTTGTAGTGGAGCAG
1 AAGTTACAGTGGAGCAG
56794901 TTGCAGCGAA
Statistics
Matches: 79, Mismatches: 24, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
43 3 0.04
44 73 0.92
45 3 0.04
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (44 bp):
AAGTTACAGTGGAGCAGATTAAAGCTAAAAACCTTATCTCCCTG
Found at i:56795051 original size:44 final size:44
Alignment explanation
Indices: 56794987--56795086 Score: 110
Period size: 44 Copynumber: 2.3 Consensus size: 44
56794977 AAGTCTTATA
* * *
56794987 TCCCTGACGTTGTAGTGGAGCAGAATAAAACCACAAATCTCATC
1 TCCCTGAAGTTGCAGCGGAGCAGAATAAAACCACAAATCTCATC
* * * * * *
56795031 TCCCTGAAGTTGCAGCGGAGCAGATTGAAACTACAAGTCTTATT
1 TCCCTGAAGTTGCAGCGGAGCAGAATAAAACCACAAATCTCATC
*
56795075 TCTCTGAAGTTG
1 TCCCTGAAGTTG
56795087 TAGTGGAGTG
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (44 bp):
TCCCTGAAGTTGCAGCGGAGCAGAATAAAACCACAAATCTCATC
Found at i:56801267 original size:30 final size:31
Alignment explanation
Indices: 56801212--56801313 Score: 93
Period size: 29 Copynumber: 3.4 Consensus size: 31
56801202 GGCCTAACTT
*
56801212 AAATTTTCAAAAAATCTAGAGGGTTTAATGA
1 AAATTTTCAAAAAAACTAGAGGGTTTAATGA
* * * *
56801243 GAATTTTCAAAAAAAGTTGA-GGTTTAATTA
1 AAATTTTCAAAAAAACTAGAGGGTTTAATGA
** * *
56801273 AAATTTT-AAAAAATTTA-AGGGCTTAAAGA
1 AAATTTTCAAAAAAACTAGAGGGTTTAATGA
*
56801302 AAATTTCCAAAA
1 AAATTTTCAAAA
56801314 TATTTGGGAG
Statistics
Matches: 56, Mismatches: 13, Indels: 5
0.76 0.18 0.07
Matches are distributed among these distances:
28 1 0.02
29 20 0.36
30 19 0.34
31 16 0.29
ACGTcount: A:0.48, C:0.06, G:0.14, T:0.32
Consensus pattern (31 bp):
AAATTTTCAAAAAAACTAGAGGGTTTAATGA
Found at i:56801298 original size:29 final size:29
Alignment explanation
Indices: 56801212--56801357 Score: 78
Period size: 30 Copynumber: 4.7 Consensus size: 29
56801202 GGCCTAACTT
* *
56801212 AAATTTTCAAAAAATCTAGAGGGTTTAATGA
1 AAATTTT-AAAAAATTTA-AGGGCTTAATGA
* * * * *
56801243 GAATTTTCAAAAAAAGTTGA-GGTTTAATTA
1 AAATTTT--AAAAAATTTAAGGGCTTAATGA
*
56801273 AAATTTTAAAAAATTTAAGGGCTTAAAGA
1 AAATTTTAAAAAATTTAAGGGCTTAATGA
* * *
56801302 AAATTTCCAAAATATTTGGGAGGGACTTAATTGA
1 AAATTT-TAAAAAATTT--AAGGG-CTTAA-TGA
* *
56801336 AAATTTCAAAAACTTTTAAGGG
1 AAATTTTAAAAA-ATTTAAGGG
56801358 AATGATGAAA
Statistics
Matches: 88, Mismatches: 19, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
28 9 0.10
29 13 0.15
30 23 0.26
31 7 0.08
32 15 0.17
33 10 0.11
34 11 0.12
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (29 bp):
AAATTTTAAAAAATTTAAGGGCTTAATGA
Found at i:56806372 original size:41 final size:40
Alignment explanation
Indices: 56806235--56806375 Score: 110
Period size: 40 Copynumber: 3.6 Consensus size: 40
56806225 AACATACCAG
* * * * * *
56806235 TTTGACACCCAGTGCCTTATCGGATAATTCAAAGTAATAA
1 TTTGACACACAGTGTCTCATCGAATAAATCGAAGTAATAA
* *
56806275 TTTGACACATAGTGTCTCATCGACTAAATCGAAGT-A-AA
1 TTTGACACACAGTGTCTCATCGAATAAATCGAAGTAATAA
* * * * *
56806313 -TTGGCACTCAGTGCCTCATAC-AATATATTTGAAGTAATAA
1 TTTGACACACAGTGTCTCAT-CGAATA-AATCGAAGTAATAA
*
56806353 TTTGACACCCAGTGTCTCATCGA
1 TTTGACACACAGTGTCTCATCGA
56806376 CTAGAAGTCA
Statistics
Matches: 77, Mismatches: 18, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
37 18 0.23
38 10 0.13
39 2 0.03
40 30 0.39
41 17 0.22
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (40 bp):
TTTGACACACAGTGTCTCATCGAATAAATCGAAGTAATAA
Found at i:56807304 original size:5 final size:5
Alignment explanation
Indices: 56807294--56807370 Score: 154
Period size: 5 Copynumber: 15.4 Consensus size: 5
56807284 TTATTTGTTT
56807294 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
56807344 TAATA TAATA TAATA TAATA TAATA TA
1 TAATA TAATA TAATA TAATA TAATA TA
56807371 TACTTAATTC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 72 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:56819646 original size:7 final size:7
Alignment explanation
Indices: 56819634--56819673 Score: 64
Period size: 7 Copynumber: 5.7 Consensus size: 7
56819624 TCTTCTTCTG
56819634 TTTTTAT
1 TTTTTAT
56819641 TTTTTAT
1 TTTTTAT
56819648 TTTTTAT
1 TTTTTAT
56819655 TTTTT-T
1 TTTTTAT
56819661 ATTTTTAT
1 -TTTTTAT
56819669 TTTTT
1 TTTTT
56819674 TAAGTTATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 1 0.03
7 29 0.94
8 1 0.03
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:56823273 original size:72 final size:72
Alignment explanation
Indices: 56823156--56823300 Score: 290
Period size: 72 Copynumber: 2.0 Consensus size: 72
56823146 GTAGGTCTGA
56823156 TAGTTTGTTCATGACACCTGTGCAGCTAATAACACATTTCTGTAGTGTATATTTAGAAGTCAAAT
1 TAGTTTGTTCATGACACCTGTGCAGCTAATAACACATTTCTGTAGTGTATATTTAGAAGTCAAAT
56823221 ATATGCT
66 ATATGCT
56823228 TAGTTTGTTCATGACACCTGTGCAGCTAATAACACATTTCTGTAGTGTATATTTAGAAGTCAAAT
1 TAGTTTGTTCATGACACCTGTGCAGCTAATAACACATTTCTGTAGTGTATATTTAGAAGTCAAAT
56823293 ATATGCT
66 ATATGCT
56823300 T
1 T
56823301 TAAATTCTGT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (72 bp):
TAGTTTGTTCATGACACCTGTGCAGCTAATAACACATTTCTGTAGTGTATATTTAGAAGTCAAAT
ATATGCT
Found at i:56828624 original size:50 final size:50
Alignment explanation
Indices: 56828549--56828647 Score: 171
Period size: 50 Copynumber: 2.0 Consensus size: 50
56828539 TACACCAAAA
56828549 TACCTCTTATTCCTCTGCCTCCATATCACATACAAATATGCATTCCAAGT
1 TACCTCTTATTCCTCTGCCTCCATATCACATACAAATATGCATTCCAAGT
* * *
56828599 TACCTCTTGTTCCTCTGTCTCCATATCATATACAAATATGCATTCCAAG
1 TACCTCTTATTCCTCTGCCTCCATATCACATACAAATATGCATTCCAAG
56828648 AAAGCTTGAG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.27, C:0.30, G:0.07, T:0.35
Consensus pattern (50 bp):
TACCTCTTATTCCTCTGCCTCCATATCACATACAAATATGCATTCCAAGT
Found at i:56834824 original size:14 final size:14
Alignment explanation
Indices: 56834805--56834834 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
56834795 TGCTATTATT
56834805 TTTTTATAAAATTA
1 TTTTTATAAAATTA
56834819 TTTTTATAAAATTA
1 TTTTTATAAAATTA
56834833 TT
1 TT
56834835 ATTTTTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTTATAAAATTA
Found at i:56834835 original size:17 final size:17
Alignment explanation
Indices: 56834799--56834843 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
56834789 ATAATATGCT
56834799 ATTATT-TTTTTAT-AA
1 ATTATTATTTTTATAAA
56834814 A--ATTATTTTTATAAA
1 ATTATTATTTTTATAAA
56834829 ATTATTATTTTTATA
1 ATTATTATTTTTATA
56834844 TTTTTTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 3 0.12
14 7 0.27
15 4 0.15
17 12 0.46
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTATTATTTTTATAAA
Found at i:56837861 original size:19 final size:21
Alignment explanation
Indices: 56837834--56837886 Score: 56
Period size: 24 Copynumber: 2.5 Consensus size: 21
56837824 GTGAAAATCA
*
56837834 ATCATTTAAAT-AATCA-TAC
1 ATCAATTAAATCAATCATTAC
56837853 ATCAATTAAATGCAATCATTTTAC
1 ATCAATTAAAT-CAATCA--TTAC
56837877 ATCAATTAAA
1 ATCAATTAAA
56837887 CTTTTTCGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 10 0.36
21 5 0.18
24 13 0.46
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.36
Consensus pattern (21 bp):
ATCAATTAAATCAATCATTAC
Found at i:56838382 original size:18 final size:18
Alignment explanation
Indices: 56838359--56838402 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
56838349 AATTTTTATG
56838359 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGATA
56838377 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGATA
*
56838395 CTTGGGTT
1 ATTGGGTT
56838403 TGGATTGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGATA
Found at i:56846702 original size:22 final size:22
Alignment explanation
Indices: 56846674--56846717 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
56846664 ACACCAGAAC
*
56846674 AGGCCTTTAGCGGCGTTTTTTA
1 AGGCCTTTAGCGGCGCTTTTTA
*
56846696 AGGCCTTTAGGGGCGCTTTTTA
1 AGGCCTTTAGCGGCGCTTTTTA
56846718 GTGCCACTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.14, C:0.18, G:0.30, T:0.39
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTA
Found at i:56846888 original size:83 final size:83
Alignment explanation
Indices: 56846785--56847038 Score: 384
Period size: 83 Copynumber: 3.0 Consensus size: 83
56846775 TTTGCAGTGT
* * *
56846785 TTACAAAAATAAACGCCGCTAAAGGTCATGTTCTTTAGCAGCGCTTAGAAAAAACGCCGCTAAAG
1 TTAC-AAAA-AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTGAAG
56846850 ATCATGTTCTTTAGCGGCGC
64 ATCATGTTCTTTAGCGGCGC
**
56846870 TTACAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCCCAGAAAAAAACGCCGCTGAAGA
1 TTACAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG-AAAAAACGCCGCTGAAGA
*
56846935 TCATGTTCTTTAGCGACGC
65 TCATGTTCTTTAGCGGCGC
* *
56846954 TTA-GAAAAAACGCCGCTAAAGATAATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTGAAGA
1 TTACAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA-GAAAAAACGCCGCTGAAGA
*
56847018 TCATGTTCTTCAGCGGCGC
65 TCATGTTCTTTAGCGGCGC
56847037 TT
1 TT
56847039 TCTTCACAAA
Statistics
Matches: 155, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
83 108 0.70
84 43 0.28
85 4 0.03
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (83 bp):
TTACAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAACGCCGCTGAAGAT
CATGTTCTTTAGCGGCGC
Found at i:56846892 original size:42 final size:41
Alignment explanation
Indices: 56846789--56847038 Score: 356
Period size: 42 Copynumber: 6.0 Consensus size: 41
56846779 CAGTGTTTAC
* *
56846789 AAAAATAAACGCCGCTAAAGGTCATGTTCTTTAGCAGCGCTT
1 AAAAA-AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
*
56846831 AGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
1 AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
**
56846872 ACAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCCC
1 A-AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* *
56846914 AGAAAAAAACGCCGCTGAAGATCATGTTCTTTAGCGACGCTT
1 A-AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* *
56846956 AGAAAAAACGCCGCTAAAGATAATGTTCTTTAGCGGCGCTT
1 AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* * *
56846997 AGGAAAAAACGCCGCTGAAGATCATGTTCTTCAGCGGCGCTT
1 A-AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
56847039 TCTTCACAAA
Statistics
Matches: 188, Mismatches: 18, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
41 72 0.38
42 116 0.62
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (41 bp):
AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
Found at i:56846960 original size:125 final size:126
Alignment explanation
Indices: 56846790--56847036 Score: 408
Period size: 125 Copynumber: 2.0 Consensus size: 126
56846780 AGTGTTTACA
* *
56846790 AAAATAAACGCCGCTAAAGGTCATGTTCTTTAGCAGCGCTTAGAAAAAACGCCGCTAAAGATCAT
1 AAAATAAACGCCGCTAAAGATCATGTTCTTTAGCAGCGCTTAGAAAAAACGCCGCTAAAGATAAT
*
56846855 GTTCTTTAGCGGCGCTTACAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCCCAG
66 GTTCTTTAGCGGCGCTTACAAAAAAACGCCGCTAAAGATCATGTTCTTCAGCGGCGCCCAG
*
56846916 AAAA-AAACGCCGCTGAAGATCATGTTCTTTAGC-GACGCTTAGAAAAAACGCCGCTAAAGATAA
1 AAAATAAACGCCGCTAAAGATCATGTTCTTTAGCAG-CGCTTAGAAAAAACGCCGCTAAAGATAA
** *
56846979 TGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTGAAGATCATGTTCTTCAGCGGCGC
65 TGTTCTTTAGCGGCGCTTACAAAAAAACGCCGCTAAAGATCATGTTCTTCAGCGGCGC
56847037 TTTCTTCACA
Statistics
Matches: 113, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
124 1 0.01
125 108 0.96
126 4 0.04
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (126 bp):
AAAATAAACGCCGCTAAAGATCATGTTCTTTAGCAGCGCTTAGAAAAAACGCCGCTAAAGATAAT
GTTCTTTAGCGGCGCTTACAAAAAAACGCCGCTAAAGATCATGTTCTTCAGCGGCGCCCAG
Found at i:56847464 original size:21 final size:21
Alignment explanation
Indices: 56847440--56847490 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
56847430 TTCTTTTGAA
* *
56847440 CCTCTGCTTCTCTCGCTGTAG
1 CCTCTGCTTCCCTCGCTGCAG
* *
56847461 CCTCAGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCAG
56847482 CCTCTGCTT
1 CCTCTGCTT
56847491 TAAGTTGTAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.04, C:0.45, G:0.18, T:0.33
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:56851034 original size:9 final size:9
Alignment explanation
Indices: 56851020--56851302 Score: 110
Period size: 9 Copynumber: 31.4 Consensus size: 9
56851010 AGTATATATG
56851020 AGTTATGTA
1 AGTTATGTA
56851029 AGTTATGATA
1 AGTTATG-TA
* * *
56851039 TGATATAT-
1 AGTTATGTA
*
56851047 ATTTATGT-
1 AGTTATGTA
*
56851055 A-TTACGTA
1 AGTTATGTA
* *
56851063 AATTACGTA
1 AGTTATGTA
*
56851072 AATTATGTA
1 AGTTATGTA
56851081 AGTTATGTA
1 AGTTATGTA
* *
56851090 AGTAATAT-
1 AGTTATGTA
56851098 A-TTATGTA
1 AGTTATGTA
*
56851106 AGTTGTGTATA
1 AGTTATG--TA
*
56851117 ATGTAAT-TA
1 A-GTTATGTA
56851126 AGTTATGTA
1 AGTTATGTA
56851135 AGTTATGTATA
1 AGTTATG--TA
*
56851146 ATATTAAT-TA
1 A-GTT-ATGTA
56851156 A-TTATGTA
1 AGTTATGTA
56851164 AGTTATGTATA
1 AGTTATG--TA
*
56851175 ATATTAATGTA
1 A-GTT-ATGTA
56851186 AGTTATGT-
1 AGTTATGTA
56851194 A-TTATGTA
1 AGTTATGTA
*
56851202 AGTTATTTA
1 AGTTATGTA
56851211 AGTTATGTA
1 AGTTATGTA
*
56851220 AGTTGTGT-
1 AGTTATGTA
*
56851228 A-TTATGTG
1 AGTTATGTA
*
56851236 AGTTATGAA
1 AGTTATGTA
*
56851245 ATTTATGTA
1 AGTTATGTA
* * *
56851254 GGCTATAT-
1 AGTTATGTA
56851262 A-TTATGTA
1 AGTTATGTA
56851270 AGTTAT-TA
1 AGTTATGTA
*
56851278 TGTTATTATGTA
1 AG---TTATGTA
*
56851290 AGTTATGCA
1 AGTTATGTA
56851299 AGTT
1 AGTT
56851303 TAATTATATA
Statistics
Matches: 206, Mismatches: 39, Indels: 58
0.68 0.13 0.19
Matches are distributed among these distances:
7 26 0.13
8 25 0.12
9 113 0.55
10 11 0.05
11 16 0.08
12 10 0.05
13 5 0.02
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.46
Consensus pattern (9 bp):
AGTTATGTA
Found at i:56851101 original size:25 final size:25
Alignment explanation
Indices: 56851073--56851137 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
56851063 AATTACGTAA
56851073 ATTATGTAAGTTATGTAAGTAATAT
1 ATTATGTAAGTTATGTAAGTAATAT
* *
56851098 ATTATGTAAGTTGTGT-A-TAATGT
1 ATTATGTAAGTTATGTAAGTAATAT
56851121 A--AT-TAAGTTATGTAAGT
1 ATTATGTAAGTTATGTAAGT
56851138 TATGTATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
20 9 0.26
21 3 0.09
22 1 0.03
23 6 0.17
24 1 0.03
25 15 0.43
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (25 bp):
ATTATGTAAGTTATGTAAGTAATAT
Found at i:56851134 original size:29 final size:29
Alignment explanation
Indices: 56851134--56851234 Score: 86
Period size: 29 Copynumber: 3.6 Consensus size: 29
56851124 TAAGTTATGT
*
56851134 AAGTTATGTATAATATTAATTAA-TTATGT
1 AAGTTATGTATAAT-GTAATTAAGTTATGT
*
56851163 AAGTTATGTATAATATTAATGTAAGTTATGT
1 AAGTTATGTATAAT-GTAAT-TAAGTTATGT
* *
56851194 -A-TTATGTA-AGT-TATTTAAGTTATGT
1 AAGTTATGTATAATGTAATTAAGTTATGT
* *
56851219 AAGTTGTGTATTATGT
1 AAGTTATGTATAATGT
56851235 GAGTTATGAA
Statistics
Matches: 61, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
25 10 0.16
26 4 0.07
27 6 0.10
28 3 0.05
29 28 0.46
30 4 0.07
31 6 0.10
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (29 bp):
AAGTTATGTATAATGTAATTAAGTTATGT
Found at i:56851229 original size:34 final size:34
Alignment explanation
Indices: 56851156--56851296 Score: 131
Period size: 34 Copynumber: 4.0 Consensus size: 34
56851146 ATATTAATTA
56851156 ATTATGTAAGTTATGTATAATATTAATGTAAGTTATGT
1 ATTATGTAAGTTAT-T-TAA-ATT-ATGTAAGTTATGT
* *
56851194 ATTATGTAAGTTATTTAAGTTATGTAAGTTGTGT
1 ATTATGTAAGTTATTTAAATTATGTAAGTTATGT
* * * * *
56851228 ATTATGTGAGTTA-TGAAATTTATGTAGGCTATAT
1 ATTATGTAAGTTATTTAAA-TTATGTAAGTTATGT
**
56851262 ATTATGTAAGTTATTATGTTATTATGTAAGTTATG
1 ATTATGTAAGTTATT-T-AAATTATGTAAGTTATG
56851297 CAAGTTTAAT
Statistics
Matches: 83, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
33 3 0.04
34 47 0.57
35 3 0.04
36 14 0.17
37 2 0.02
38 14 0.17
ACGTcount: A:0.33, C:0.01, G:0.18, T:0.48
Consensus pattern (34 bp):
ATTATGTAAGTTATTTAAATTATGTAAGTTATGT
Found at i:56851398 original size:16 final size:15
Alignment explanation
Indices: 56851376--56851419 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
56851366 TTTTACTTAC
56851376 TTATATAATTAAG-T
1 TTATATAATTAAGTT
56851390 TTATAT-A-TAAGTT
1 TTATATAATTAAGTT
56851403 TCTATATAATTAAGTT
1 T-TATATAATTAAGTT
56851419 T
1 T
56851420 ATTTTACTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 4 0.15
13 3 0.12
14 11 0.42
15 1 0.04
16 7 0.27
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (15 bp):
TTATATAATTAAGTT
Found at i:56851401 original size:84 final size:84
Alignment explanation
Indices: 56851306--56851476 Score: 333
Period size: 84 Copynumber: 2.0 Consensus size: 84
56851296 GCAAGTTTAA
*
56851306 TTATATATAAGTTTCTATATAATTAAGTTTATTTTACTTACTTCATTATATAGTCATTTATTTTA
1 TTATATATAAGTTTCTATATAATTAAGTTTATTTTACTTACTTAATTATATAGTCATTTATTTTA
56851371 CTTACTTATATAATTAAGT
66 CTTACTTATATAATTAAGT
56851390 TTATATATAAGTTTCTATATAATTAAGTTTATTTTACTTACTTAATTATATAGTCATTTATTTTA
1 TTATATATAAGTTTCTATATAATTAAGTTTATTTTACTTACTTAATTATATAGTCATTTATTTTA
56851455 CTTACTTATATAATTAAGT
66 CTTACTTATATAATTAAGT
56851474 TTA
1 TTA
56851477 ATTTACTTAC
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 86 1.00
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.54
Consensus pattern (84 bp):
TTATATATAAGTTTCTATATAATTAAGTTTATTTTACTTACTTAATTATATAGTCATTTATTTTA
CTTACTTATATAATTAAGT
Found at i:56854208 original size:22 final size:21
Alignment explanation
Indices: 56854169--56854210 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
56854159 TTGTAAATTG
**
56854169 TAAACCCTAAACTGTAAACAT
1 TAAACCCTAAACCATAAACAT
56854190 TAAACCCGTAAACCATAAACA
1 TAAACCC-TAAACCATAAACA
56854211 CCAACCAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.50, C:0.26, G:0.05, T:0.19
Consensus pattern (21 bp):
TAAACCCTAAACCATAAACAT
Found at i:56854277 original size:14 final size:14
Alignment explanation
Indices: 56854258--56854293 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
56854248 CATAAACCTT
*
56854258 AAACCCTACATCTC
1 AAACCCTACATCCC
56854272 AAACCCTACATCCC
1 AAACCCTACATCCC
56854286 AAACCCTA
1 AAACCCTA
56854294 AACTCTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.39, C:0.44, G:0.00, T:0.17
Consensus pattern (14 bp):
AAACCCTACATCCC
Found at i:56854316 original size:150 final size:153
Alignment explanation
Indices: 56853964--56854317 Score: 403
Period size: 150 Copynumber: 2.3 Consensus size: 153
56853954 AACTTAAATT
* * * *
56853964 AAACCCTAATCCTTAAACCCTAAATTATAAACTATAACCCGTAAATCGTAAACCCTAAACTGTAA
1 AAACCCTAATCC-CAAACCCTAAACTCTAAACTATAACCC-TAAATTGTAAACCCTAAACTGTAA
*
56854029 ACAGTAAACTCATAAACTGCAAACACCAACCACCAACCACCAAACCTCAAAATCCAACCCCCAAT
64 ACAGTAAACCCATAAAC-GC-AACA-CAACCACCAACCACCAAACCTCAAAATCCAACCCCCAAT
56854094 ATACCATAAACCTTAAACCATAAATCCC
126 ATACCATAAACCTTAAACCATAAATCCC
* * * * ***
56854122 AAATCCTAAACACTAACCCTAAAC-CTTAAACTATAAATTGTAAATTGTAAACCCTAAACTGTAA
1 AAACCCTAATCCCAAACCCTAAACTC-TAAACTAT-AACCCTAAATTGTAAACCCTAAACTGTAA
* * * * *
56854186 ACATTAAACCCGTAAAC-C-ATA-AA-CACCAACCAGCAAACCTCAAAATCTAACCCCCAATATA
64 ACAGTAAACCCATAAACGCAACACAACCACCAACCACCAAACCTCAAAATCCAACCCCCAATATA
* * *
56854247 CCATAAACCTTAAACCCTACATCTC
129 CCATAAACCTTAAACCATAAATCCC
* *
56854272 AAACCCTACATCCCAAACCCTAAACTCTAAATTGTAACCCTAAATT
1 AAACCCTA-ATCCCAAACCCTAAACTCTAAACTATAACCCTAAATT
56854318 AACCATAATT
Statistics
Matches: 163, Mismatches: 29, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
150 73 0.45
151 21 0.13
152 1 0.01
153 2 0.01
155 1 0.01
157 54 0.33
158 11 0.07
ACGTcount: A:0.45, C:0.32, G:0.03, T:0.20
Consensus pattern (153 bp):
AAACCCTAATCCCAAACCCTAAACTCTAAACTATAACCCTAAATTGTAAACCCTAAACTGTAAAC
AGTAAACCCATAAACGCAACACAACCACCAACCACCAAACCTCAAAATCCAACCCCCAATATACC
ATAAACCTTAAACCATAAATCCC
Found at i:56854974 original size:72 final size:72
Alignment explanation
Indices: 56854729--56855159 Score: 453
Period size: 72 Copynumber: 6.0 Consensus size: 72
56854719 ATTGCGGTGT
* * * * * *
56854729 TTTTACAGAAGTGCCGCTAATGCCAGTACATCTGAAACCAAAACGATGCGTTTTGG-T-TTTTTT
1 TTTTACGGAAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGATGTGTTTTGGTTATTTTTT
56854792 GTGGCGC
66 GTGGCGC
* * * * *
56854799 TTTTACAGAAGCGCCGCTAATGCCACTACAGCTCATATCAAAACGATGCGTTTTGGTTTGTTTTT
1 TTTTACGGAAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGATGTGTTTTGG-TTATTTTT
*
56854864 TGTGGCGA
65 TGTGGCGC
* * * **
56854872 TTATACAGAAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGAAGTGTTTTGGTTATTCCTT
1 TTTTACGGAAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGATGTGTTTTGGTTATTTTTT
**
56854937 GCCGCGC
66 GTGGCGC
* * * *
56854944 TTTTATGGAAGCGCCGCTAATGCAACTACATCCCAAATCAAAACGATGTGTTTTGATTATTTTTT
1 TTTTACGGAAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGATGTGTTTTGGTTATTTTTT
* *
56855009 GCGACGC
66 GTGGCGC
** * * * * *
56855016 TTTTGTGGAATCGCCGCTAATGCCACAACA--TCAAATCAAATCGAAGTGTTTGGGTTATTTTTT
1 TTTTACGGAAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGATGTGTTTTGGTTA-TTTTT
*
56855079 TGTGGCGT
65 TGTGGCGC
* * *
56855087 TTTTACGGAATCGCCGCTAATGCTACTACATCTCAAATCAAAACGATGCG-TTTGG--ATTTTTA
1 TTTTACGGAAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGATGTGTTTTGGTTATTTTT-
*
56855149 TGCGGCGC
65 TGTGGCGC
56855157 TTT
1 TTT
56855160 ATCGAAAACG
Statistics
Matches: 303, Mismatches: 51, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
69 5 0.02
70 82 0.27
71 36 0.12
72 102 0.34
73 78 0.26
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.33
Consensus pattern (72 bp):
TTTTACGGAAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGATGTGTTTTGGTTATTTTTT
GTGGCGC
Found at i:56855007 original size:143 final size:144
Alignment explanation
Indices: 56854732--56855144 Score: 467
Period size: 143 Copynumber: 2.9 Consensus size: 144
56854722 GCGGTGTTTT
* * * * * *
56854732 TACAGAAGTGCCGCTAATGCCAGTACATCTGAAACCAAAACGATGCGTTTTGGTT-TTTTTGTGG
1 TACAGAAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGAAGTGTTTTGGTTATTTTTGTGG
* * * * *
56854796 CGCTTTTACAGAAGCGCCGCTAATGCCACTACAGCTCATATCAAAACGATGCGTTTTGGTTTG-T
66 CGCTTTTACGGAAGCGCCGCTAATGCAACTACATCTCAAATCAAAACGATGCGTTTT-GATTGAT
* *
56854860 TTTTTGTGGCGATTA
130 TTTTTGCGACGATTA
* **
56854875 TACAGAAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGAAGTGTTTTGGTTATTCCTTGCC
1 TACAGAAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGAAGTGTTTTGGTTATT-TTTGTG
* * *
56854940 GCGCTTTTATGGAAGCGCCGCTAATGCAACTACATCCCAAATCAAAACGATGTGTTTTGATT-AT
65 GCGCTTTTACGGAAGCGCCGCTAATGCAACTACATCTCAAATCAAAACGATGCGTTTTGATTGAT
* *
56855004 TTTTTGCGACGCTTT
130 TTTTTGCGACGATTA
*** * * * *
56855019 TGTGGAATCGCCGCTAATGCCACAACA--TCAAATCAAATCGAAGTGTTTGGGTTATTTTTTTGT
1 TACAGAAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGAAGTGTTTTGGTTA--TTTTTGT
* * * *
56855082 GGCGTTTTTACGGAATCGCCGCTAATGCTACTACATCTCAAATCAAAACGATGCGTTTGGATT
64 GGCGCTTTTACGGAAGCGCCGCTAATGCAACTACATCTCAAATCAAAACGATGCGTTTTGATT
56855145 TTTATGCGGC
Statistics
Matches: 227, Mismatches: 38, Indels: 10
0.83 0.14 0.04
Matches are distributed among these distances:
142 25 0.11
143 107 0.47
144 41 0.18
145 54 0.24
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.32
Consensus pattern (144 bp):
TACAGAAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGAAGTGTTTTGGTTATTTTTGTGG
CGCTTTTACGGAAGCGCCGCTAATGCAACTACATCTCAAATCAAAACGATGCGTTTTGATTGATT
TTTTGCGACGATTA
Found at i:56855117 original size:215 final size:214
Alignment explanation
Indices: 56854736--56855132 Score: 521
Period size: 215 Copynumber: 1.8 Consensus size: 214
56854726 TGTTTTTACA
* * * ** *
56854736 GAAGTGCCGCTAATGCCAGTACATCTGAAACCAAAACGATGCGTTTTGGTTTTTTTGTGGCGCTT
1 GAAGCGCCGCTAATGCAACTACATCCCAAACCAAAACGATGCGTTTTGATTTTTTTGTGGCGCTT
* * * *
56854801 TTACAGAAGCGCCGCTAATGCCACTACAGCTCATATCAAAACGATGCGTTTTGGTTTGTTTTTTG
66 TTACAGAAGCGCCGCTAATGCCACAACA-CTCAAATCAAAACGAAGCGTTTGGGTTTGTTTTTTG
56854866 TGGCGATTATACAGAAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGAAGTGTTTTGGTTA
130 TGGCGATTATACAGAAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGAAGTGTTTTGGTTA
56854931 TTCCTTGCCGCGCTTTTATG
195 TTCCTTGCCGCGCTTTTATG
* *
56854951 GAAGCGCCGCTAATGCAACTACATCCCAAATCAAAACGATGTGTTTTGATTATTTTT-TGCGACG
1 GAAGCGCCGCTAATGCAACTACATCCCAAACCAAAACGATGCGTTTTGATT-TTTTTGTG-G-CG
*** * * *
56855015 CTTTTGTGGAATCGCCGCTAATGCCACAACA-TCAAATCAAATCGAAGTGTTTGGGTTAT-TTTT
63 CTTTTACAGAAGCGCCGCTAATGCCACAACACTCAAATCAAAACGAAGCGTTTGGGTT-TGTTTT
* * * * *
56855078 TTGTGGCGTTTTTACGGAATCGCCGCTAATGCTACTACATCTCAAATCAAAACGA
127 TTGTGGCGATTATACAGAAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGA
56855133 TGCGTTTGGA
Statistics
Matches: 155, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
215 120 0.77
216 7 0.05
217 28 0.18
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (214 bp):
GAAGCGCCGCTAATGCAACTACATCCCAAACCAAAACGATGCGTTTTGATTTTTTTGTGGCGCTT
TTACAGAAGCGCCGCTAATGCCACAACACTCAAATCAAAACGAAGCGTTTGGGTTTGTTTTTTGT
GGCGATTATACAGAAGCGCCGCTAATGCCACTACATCTCAAATCAAAACGAAGTGTTTTGGTTAT
TCCTTGCCGCGCTTTTATG
Found at i:56855269 original size:41 final size:39
Alignment explanation
Indices: 56855224--56855314 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 39
56855214 GGTTTTTTGT
*
56855224 GGCGTTTTCTCCAGAATCGCCGCTAAAT-TCATATTATTAGC
1 GGCGTTTTCT-CAGAATCGCCGCT-AATCTC-TATTATTAGA
* * *
56855265 GGCGTTTACTTAGAATCGCCGCTAATGCTCTATTTTTAGA
1 GGCGTTTTCTCAGAATCGCCGCTAAT-CTCTATTATTAGA
56855305 GGCGTTTTCT
1 GGCGTTTTCT
56855315 TTGATTGGCC
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
39 3 0.07
40 29 0.67
41 11 0.26
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (39 bp):
GGCGTTTTCTCAGAATCGCCGCTAATCTCTATTATTAGA
Found at i:56855309 original size:40 final size:39
Alignment explanation
Indices: 56855236--56855342 Score: 108
Period size: 40 Copynumber: 2.7 Consensus size: 39
56855226 CGTTTTCTCC
* *
56855236 AGAATCGCCGCTAAAT-TCATATTATTAGCGGCGTTTACTT
1 AGAATCGCCGCT-AATCTC-TATTTTTAGAGGCGTTTACTT
*
56855276 AGAATCGCCGCTAATGCTCTATTTTTAGAGGCGTTTTCTT
1 AGAATCGCCGCTAAT-CTCTATTTTTAGAGGCGTTTACTT
* * * *
56855316 TGATTGGCCGCTAATACTCGATTTTTA
1 AGAATCGCCGCTAAT-CTCTATTTTTA
56855343 CCGGCGTCTG
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
39 3 0.05
40 52 0.91
41 2 0.04
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (39 bp):
AGAATCGCCGCTAATCTCTATTTTTAGAGGCGTTTACTT
Found at i:56856729 original size:15 final size:15
Alignment explanation
Indices: 56856709--56856755 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
56856699 AAACTTCAAA
56856709 AAAATATATAAATTG
1 AAAATATATAAATTG
56856724 AAAATA-A-AAA---
1 AAAATATATAAATTG
56856734 AAGAATATATAAATTG
1 AA-AATATATAAATTG
56856750 AAAATA
1 AAAATA
56856756 AAAATAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 12
0.68 0.00 0.32
Matches are distributed among these distances:
10 2 0.08
11 4 0.15
12 1 0.04
13 6 0.23
14 1 0.04
15 10 0.38
16 2 0.08
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (15 bp):
AAAATATATAAATTG
Found at i:56856735 original size:26 final size:26
Alignment explanation
Indices: 56856706--56856759 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
56856696 ATAAAACTTC
56856706 AAAAAAATATATAAATTGAAAATAAA
1 AAAAAAATATATAAATTGAAAATAAA
*
56856732 AAAAGAATATATAAATTGAAAATAAA
1 AAAAAAATATATAAATTGAAAATAAA
56856758 AA
1 AA
56856760 TAACAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (26 bp):
AAAAAAATATATAAATTGAAAATAAA
Found at i:56867875 original size:14 final size:14
Alignment explanation
Indices: 56867856--56867882 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
56867846 AAAAAATATA
56867856 AGAAAGAAAGAAAG
1 AGAAAGAAAGAAAG
56867870 AGAAAGAAAGAAA
1 AGAAAGAAAGAAA
56867883 AATTAAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AGAAAGAAAGAAAG
Found at i:56870697 original size:18 final size:19
Alignment explanation
Indices: 56870666--56870706 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
56870656 TATCATTCAC
*
56870666 TTTT-TTTTTCGGTTTT-A
1 TTTTATTTTTAGGTTTTAA
56870683 TTTTATTTTTAGGTTTTAA
1 TTTTATTTTTAGGTTTTAA
56870702 TTTTA
1 TTTTA
56870707 AAAGGTATGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.19
18 11 0.52
19 6 0.29
ACGTcount: A:0.15, C:0.02, G:0.10, T:0.73
Consensus pattern (19 bp):
TTTTATTTTTAGGTTTTAA
Found at i:56874296 original size:17 final size:16
Alignment explanation
Indices: 56874271--56874310 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
56874261 TTATTATTTT
56874271 AAATATATATAATATAA
1 AAATATATAT-ATATAA
* *
56874288 AATTATATATTTATAA
1 AAATATATATATATAA
56874304 AAATATA
1 AAATATA
56874311 AAATAAATAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATATATATATATAA
Found at i:56874309 original size:29 final size:29
Alignment explanation
Indices: 56874260--56874317 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
56874250 ATTTTAGGTT
*
56874260 ATTATTATTTTAAATATATATAATATAAA
1 ATTATTATTTTAAATATATATAAAATAAA
56874289 ATTATATATTTATAAA-A-ATATAAAATAAA
1 ATTAT-TATTT-TAAATATATATAAAATAAA
56874318 TACAATTACA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 16 0.62
30 6 0.23
31 4 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (29 bp):
ATTATTATTTTAAATATATATAAAATAAA
Found at i:56874399 original size:15 final size:16
Alignment explanation
Indices: 56874361--56874401 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
56874351 TTTGAAAACT
56874361 AAATTAAAA-AATATA
1 AAATTAAAATAATATA
*
56874376 ATATATAAAATAATA-A
1 AAAT-TAAAATAATATA
56874392 AAATTAAAAT
1 AAATTAAAAT
56874402 TTTAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 9 0.41
16 9 0.41
17 4 0.18
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATTAAAATAATATA
Found at i:56874419 original size:35 final size:40
Alignment explanation
Indices: 56874360--56874446 Score: 112
Period size: 35 Copynumber: 2.3 Consensus size: 40
56874350 TTTTGAAAAC
* * *
56874360 TAAATTAAAAAATATAATATATAAAATAA-TAAAAA-TTA
1 TAAATTTATAAATATAATATATAAAAGAACTAAAAATTTA
56874398 -AAATTT-TAAATA-AATATATAAAAGAACTAAAAATTTA
1 TAAATTTATAAATATAATATATAAAAGAACTAAAAATTTA
56874435 TAAATTTATAAA
1 TAAATTTATAAA
56874447 ATTTATAACT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
35 13 0.31
36 11 0.26
37 8 0.19
38 6 0.14
39 4 0.10
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (40 bp):
TAAATTTATAAATATAATATATAAAAGAACTAAAAATTTA
Found at i:56874591 original size:26 final size:26
Alignment explanation
Indices: 56874538--56874593 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
56874528 TTTATTAATT
*
56874538 TATATATTTTAAATTTTTGAAAAAAA
1 TATATATTTTAAATTTTTAAAAAAAA
56874564 TATAT-TTTTAAA-TTTTAAAATAATAA
1 TATATATTTTAAATTTTTAAAA-AA-AA
56874590 TATA
1 TATA
56874594 AATGGGTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 7 0.26
25 9 0.33
26 11 0.41
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (26 bp):
TATATATTTTAAATTTTTAAAAAAAA
Found at i:56880746 original size:10 final size:10
Alignment explanation
Indices: 56880728--56880761 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
56880718 AATTATTAAT
*
56880728 ATATTATATG
1 ATATTATATA
*
56880738 ATATGATATA
1 ATATTATATA
56880748 ATATTATATA
1 ATATTATATA
56880758 ATAT
1 ATAT
56880762 AGTAAGAGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (10 bp):
ATATTATATA
Found at i:56880762 original size:15 final size:15
Alignment explanation
Indices: 56880709--56880762 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
56880699 TCATTGATGC
56880709 ATAT-ATATAA-ATT
1 ATATAATATAATATT
*
56880722 AT-TAATATATTATATG
1 ATATAATATA--ATATT
*
56880738 ATATGATATAATATT
1 ATATAATATAATATT
56880753 ATATAATATA
1 ATATAATATA
56880763 GTAAGAGGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 1 0.03
13 7 0.22
15 14 0.44
16 4 0.12
17 6 0.19
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (15 bp):
ATATAATATAATATT
Found at i:56880928 original size:17 final size:18
Alignment explanation
Indices: 56880906--56880966 Score: 61
Period size: 20 Copynumber: 3.3 Consensus size: 18
56880896 TCATTGATGC
56880906 ATATATATAAACTAT-TA
1 ATATATATAAACTATATA
* *
56880923 ATATATTATATACTATATG
1 ATATA-TATAAACTATATA
*
56880942 ATATGATATAACATTATATA
1 ATAT-ATATAA-ACTATATA
56880962 ATATA
1 ATATA
56880967 GTAGGATGGC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
17 5 0.14
18 9 0.26
19 10 0.29
20 11 0.31
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (18 bp):
ATATATATAAACTATATA
Done.