Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, whole genome shotgun sequence
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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 81 of 91
Found at i:13631896 original size:19 final size:19
Alignment explanation
Indices: 13631869--13631906 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
13631859 CCAGATTCCG
13631869 GTTGAATTTGTCAACGAAA
1 GTTGAATTTGTCAACGAAA
* *
13631888 GTTGCATTTTTCAACGAAA
1 GTTGAATTTGTCAACGAAA
13631907 ATTTCAGCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (19 bp):
GTTGAATTTGTCAACGAAA
Found at i:13632013 original size:19 final size:20
Alignment explanation
Indices: 13631989--13632027 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
13631979 TTCAGTGAAC
13631989 TTTCGATGAAAAA-CCCAGA
1 TTTCGATGAAAAATCCCAGA
13632008 TTTCGATGAAAAATCCCAGA
1 TTTCGATGAAAAATCCCAGA
13632028 ATCCAGTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (20 bp):
TTTCGATGAAAAATCCCAGA
Found at i:13632460 original size:11 final size:11
Alignment explanation
Indices: 13632446--13632502 Score: 57
Period size: 11 Copynumber: 5.4 Consensus size: 11
13632436 TTAATATTCT
13632446 TTTTATCTTTA
1 TTTTATCTTTA
*
13632457 TTTTATTTTTA
1 TTTTATCTTTA
*
13632468 TTTT-TGTTTTA
1 TTTTAT-CTTTA
*
13632479 CTTT-TCTTTA
1 TTTTATCTTTA
13632489 TTTTAT-TTTA
1 TTTTATCTTTA
13632499 TTTT
1 TTTT
13632503 TTTATTTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
10 16 0.40
11 24 0.60
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTTATCTTTA
Found at i:13632463 original size:5 final size:5
Alignment explanation
Indices: 13632446--13632540 Score: 72
Period size: 5 Copynumber: 18.4 Consensus size: 5
13632436 TTAATATTCT
* *
13632446 TTTTA TCTTTA TTTTA TTTTTA TTTTTG TTTTA CTTTT- CTTTA TTTTA
1 TTTTA T-TTTA TTTTA -TTTTA -TTTTA TTTTA -TTTTA TTTTA TTTTA
*
13632494 TTTTA -TTT- TTTTA TTTT- TATTTA TTTTCA CTTTTA TTTTG TTTTA
1 TTTTA TTTTA TTTTA TTTTA T-TTTA TTTT-A -TTTTA TTTTA TTTTA
13632539 TT
1 TT
13632541 ATTCTATTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 20
0.74 0.06 0.20
Matches are distributed among these distances:
4 10 0.14
5 38 0.51
6 22 0.30
7 4 0.05
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:13632466 original size:6 final size:6
Alignment explanation
Indices: 13632445--13632532 Score: 58
Period size: 6 Copynumber: 14.7 Consensus size: 6
13632435 TTTAATATTC
* * *
13632445 TTTTTA TCTTTA -TTTTA TTTTTA TTTTT- GTTTTA CTTTTCTT TATTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA T-TTTTA
* * *
13632494 TTTTATT TTTTTA TTTTTA --TTTA TTTTCA CTTTTA TTTT
1 TTTT-TA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
13632533 GTTTTATTAT
Statistics
Matches: 62, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
4 4 0.06
5 8 0.13
6 35 0.56
7 11 0.18
8 4 0.06
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:13632492 original size:32 final size:30
Alignment explanation
Indices: 13632451--13632538 Score: 108
Period size: 28 Copynumber: 2.9 Consensus size: 30
13632441 ATTCTTTTTA
13632451 TCTTTATTTTATTTTTATTTTTGTTTTACTTT
1 TCTTTATTTTA-TTTTA-TTTTGTTTTACTTT
*
13632483 TCTTTATTTTATTTTA-TTT-TTTTATTTT
1 TCTTTATTTTATTTTATTTTGTTTTACTTT
*
13632511 TATTTATTTTCACTTTTATTTTGTTTTA
1 TCTTTATTTT-A-TTTTATTTTGTTTTA
13632539 TTATTCTATT
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
28 17 0.34
29 4 0.08
30 5 0.10
31 8 0.16
32 16 0.32
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (30 bp):
TCTTTATTTTATTTTATTTTGTTTTACTTT
Found at i:13632638 original size:58 final size:59
Alignment explanation
Indices: 13632567--13632724 Score: 230
Period size: 58 Copynumber: 2.7 Consensus size: 59
13632557 ATAAAAATAA
*
13632567 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTC-
1 AAAAAAA-ATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTCT
* *
13632625 AAAAAAAAGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCT
1 AAAAAAAA-TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTCT
* * *
13632685 AAAGAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTC
1 AAAAAAAATTTTTGGGGAAAAGTTGAAAGTATCAATTTTC
13632725 ACTACACAAA
Statistics
Matches: 90, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
57 1 0.01
58 46 0.51
59 37 0.41
60 6 0.07
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.35
Consensus pattern (59 bp):
AAAAAAAATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAGTTTCT
Found at i:13636041 original size:10 final size:10
Alignment explanation
Indices: 13635981--13636035 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
13635971 GACCCGACTC
13635981 ATATA-AAAT
1 ATATATAAAT
*
13635990 ATATATAATT
1 ATATATAAAT
*
13636000 GAAATATTATAAT
1 -ATATA-TA-AAT
13636013 -TATATAAAT
1 ATATATAAAT
13636022 ATATATAAAT
1 ATATATAAAT
13636032 ATAT
1 ATAT
13636036 GAAAATTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
9 8 0.22
10 18 0.49
11 7 0.19
12 2 0.05
13 2 0.05
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (10 bp):
ATATATAAAT
Found at i:13636496 original size:21 final size:22
Alignment explanation
Indices: 13636459--13636500 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
13636449 TATAAATGTG
13636459 AATTTCATACAAAATTTTTATA
1 AATTTCATACAAAATTTTTATA
*
13636481 AATTTCATA-TAAATTTTTAT
1 AATTTCATACAAAATTTTTAT
13636501 TATAACTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (22 bp):
AATTTCATACAAAATTTTTATA
Found at i:13639714 original size:18 final size:18
Alignment explanation
Indices: 13639668--13639721 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
13639658 ACTAATAATT
* *
13639668 AAAAATATTAAAAATGCTA
1 AAAAATAATAAAAAT-TTA
*
13639687 AAATAATAATAATAATTTA
1 AAA-AATAATAAAAATTTA
13639706 AAAAATAATAAAAATT
1 AAAAATAATAAAAATT
13639722 GAATATTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 12 0.40
19 8 0.27
20 10 0.33
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
AAAAATAATAAAAATTTA
Found at i:13640120 original size:28 final size:29
Alignment explanation
Indices: 13640048--13640342 Score: 238
Period size: 29 Copynumber: 10.3 Consensus size: 29
13640038 CTAAATTTCA
* **
13640048 AAACCCTAAAATC-AAACCCCAAACACCCC
1 AAACCCTAAAATCAAAACTCCAAAC-CTTC
*
13640077 AAACCCTAAAAT-GAAACTCCAAACCTTC
1 AAACCCTAAAATCAAAACTCCAAACCTTC
* *
13640105 AAACCCTAAAA-CGAAAC-CTCAAACCTTT
1 AAACCCTAAAATCAAAACTC-CAAACCTTC
* *
13640133 AAACCTTAAAATTAAAACTCCAAACCTTC
1 AAACCCTAAAATCAAAACTCCAAACCTTC
* *
13640162 AAACCCTAAAATCAAAAC-CTTAAACCCTAC
1 AAACCCTAAAATCAAAACTC-CAAA-CCTTC
** * *
13640192 AAA-CCTTCAATCAAAACTTCAAAGC-TC
1 AAACCCTAAAATCAAAACTCCAAACCTTC
*
13640219 AAACCTTAAAAGT-AAAACTCCAAACCTTC
1 AAACCCTAAAA-TCAAAACTCCAAACCTTC
* * *
13640248 AAACCCTAAAAT-TAAA-TCGTAAATCCTTT
1 AAACCCTAAAATCAAAACTC-CAAA-CCTTC
* *
13640277 AAACCCTAAAATCAAAACTTCAAATC-TC
1 AAACCCTAAAATCAAAACTCCAAACCTTC
*
13640305 AAACCCTAAAATCAAAAC-CTCAAATC-TC
1 AAACCCTAAAATCAAAACTC-CAAACCTTC
13640333 AAACCCTAAA
1 AAACCCTAAA
13640343 CCCCAAAATC
Statistics
Matches: 217, Mismatches: 33, Indels: 33
0.77 0.12 0.12
Matches are distributed among these distances:
27 7 0.03
28 97 0.45
29 98 0.45
30 14 0.06
31 1 0.00
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.19
Consensus pattern (29 bp):
AAACCCTAAAATCAAAACTCCAAACCTTC
Found at i:13640181 original size:22 final size:22
Alignment explanation
Indices: 13640145--13640195 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
13640135 ACCTTAAAAT
*
13640145 TAAAACTCCAAACCTTCAAACCC
1 TAAAACTCAAAACCTT-AAACCC
13640168 TAAAA-TCAAAACCTTAAACCC
1 TAAAACTCAAAACCTTAAACCC
13640189 TACAAAC
1 TA-AAAC
13640196 CTTCAATCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 8 0.32
22 12 0.48
23 5 0.20
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.18
Consensus pattern (22 bp):
TAAAACTCAAAACCTTAAACCC
Found at i:13640226 original size:86 final size:86
Alignment explanation
Indices: 13640076--13640342 Score: 276
Period size: 86 Copynumber: 3.1 Consensus size: 86
13640066 CCAAACACCC
* * * * * * *
13640076 CAAACCCTAAAATGAAACTC-CAAA-CCTTCAAACCCTAAAA-CGAAACCTCAAACCTTTAAACC
1 CAAACCCTAAAATAAAAC-CGTAAACCCTACAAACCCTAAAATCAAAACTTCAAAGC-TCAAACC
13640138 TTAAAATTAAAACTCCAAACCTT
64 TTAAAATTAAAACTCCAAACCTT
* **
13640161 CAAACCCTAAAATCAAAACCTTAAACCCTACAAA-CCTTCAATCAAAACTTCAAAGCTCAAACCT
1 CAAACCCTAAAAT-AAAACCGTAAACCCTACAAACCCTAAAATCAAAACTTCAAAGCTCAAACCT
*
13640225 TAAAAGTAAAACTCCAAACCTT
65 TAAAATTAAAACTCCAAACCTT
* * * ** * *
13640247 CAAACCCTAAAATTAAATCGTAAATCCTTTAAACCCTAAAATCAAAACTTCAAATCTCAAACCCT
1 CAAACCCTAAAATAAAACCGTAAACCCTACAAACCCTAAAATCAAAACTTCAAAGCTCAAACCTT
* *
13640312 AAAATCAAAAC-CTCAAATC-T
66 AAAATTAAAACTC-CAAACCTT
13640332 CAAACCCTAAA
1 CAAACCCTAAA
13640343 CCCCAAAATC
Statistics
Matches: 153, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
85 41 0.27
86 94 0.61
87 18 0.12
ACGTcount: A:0.48, C:0.30, G:0.02, T:0.21
Consensus pattern (86 bp):
CAAACCCTAAAATAAAACCGTAAACCCTACAAACCCTAAAATCAAAACTTCAAAGCTCAAACCTT
AAAATTAAAACTCCAAACCTT
Found at i:13640361 original size:28 final size:28
Alignment explanation
Indices: 13640302--13640399 Score: 74
Period size: 28 Copynumber: 3.5 Consensus size: 28
13640292 AACTTCAAAT
** * *
13640302 CTCAAACCCTAAA-ATCAAAACCTCAAAT
1 CTCAAACCCTAAACCCCAAAATCT-AAAA
13640330 CTCAAACCCTAAACCCCAAAATCTAAAA
1 CTCAAACCCTAAACCCCAAAATCTAAAA
* * *
13640358 CTCAAAAACCT-AACCCTAAAATCCAAAA
1 CTC-AAACCCTAAACCCCAAAATCTAAAA
* *
13640386 TGTCAAACCTTAAA
1 -CTCAAACCCTAAA
13640400 ATCCAAAAAC
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
28 39 0.70
29 17 0.30
ACGTcount: A:0.50, C:0.32, G:0.01, T:0.17
Consensus pattern (28 bp):
CTCAAACCCTAAACCCCAAAATCTAAAA
Found at i:13640363 original size:14 final size:14
Alignment explanation
Indices: 13640281--13640370 Score: 67
Period size: 14 Copynumber: 6.4 Consensus size: 14
13640271 TCCTTTAAAC
13640281 CCTAAAA-TCAAAA
1 CCTAAAACTCAAAA
* * *
13640294 CTTCAAATCTCAAAC
1 CCT-AAAACTCAAAA
13640309 CCTAAAA-TCAAAA
1 CCTAAAACTCAAAA
* *
13640322 CCTCAAATCTCAAAC
1 CCT-AAAACTCAAAA
* *
13640337 CCTAAACCCCAAAA
1 CCTAAAACTCAAAA
*
13640351 TCTAAAACTCAAAAA
1 CCTAAAACTC-AAAA
13640366 CCTAA
1 CCTAA
13640371 CCCTAAAATC
Statistics
Matches: 57, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
13 10 0.18
14 24 0.42
15 23 0.40
ACGTcount: A:0.51, C:0.31, G:0.00, T:0.18
Consensus pattern (14 bp):
CCTAAAACTCAAAA
Found at i:13643802 original size:18 final size:17
Alignment explanation
Indices: 13643777--13643824 Score: 71
Period size: 18 Copynumber: 2.8 Consensus size: 17
13643767 TTTTTTACAT
13643777 ATTATTTTTTTCAAAAC
1 ATTATTTTTTTCAAAAC
13643794 AATT-TTTTTATTCAAAAC
1 -ATTATTTTT-TTCAAAAC
13643812 ATTATTTTTTTCA
1 ATTATTTTTTTCA
13643825 CTATGTCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTATTTTTTTCAAAAC
Found at i:13644628 original size:17 final size:17
Alignment explanation
Indices: 13644606--13644640 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
13644596 AGCATTTTTC
13644606 TCTTCTC-TATTTTCTTA
1 TCTTCTCAT-TTTTCTTA
13644623 TCTTCTCATTTTTCTTA
1 TCTTCTCATTTTTCTTA
13644640 T
1 T
13644641 TAATTTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.94
18 1 0.06
ACGTcount: A:0.11, C:0.23, G:0.00, T:0.66
Consensus pattern (17 bp):
TCTTCTCATTTTTCTTA
Found at i:13644688 original size:60 final size:60
Alignment explanation
Indices: 13644588--13644709 Score: 181
Period size: 60 Copynumber: 2.0 Consensus size: 60
13644578 AGAAAATGAA
* * * * *
13644588 GAAGCTCTAGCATTTTTCTCTTCTCTATTTTCTTATCTTCTCATTTTTCTTATTAATTTT
1 GAAGCTCTAGCAATTTTCTCTTCTCTATTTTCTCACCTTCTCAATTTTCTCATTAATTTT
* *
13644648 GAAGCTCTAGTAATTTTCTCTTCTCTGTTTTCTCACCTTCTCAATTTTCTCATTAATTTT
1 GAAGCTCTAGCAATTTTCTCTTCTCTATTTTCTCACCTTCTCAATTTTCTCATTAATTTT
13644708 GA
1 GA
13644710 TAAAAAAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.18, C:0.21, G:0.07, T:0.54
Consensus pattern (60 bp):
GAAGCTCTAGCAATTTTCTCTTCTCTATTTTCTCACCTTCTCAATTTTCTCATTAATTTT
Found at i:13653137 original size:15 final size:15
Alignment explanation
Indices: 13653119--13653170 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
13653109 ATAGGCATAC
13653119 CAGACATACCTTCTT
1 CAGACATACCTTCTT
* *
13653134 CAGACATAGGCATAC--
1 CAGACATA--CCTTCTT
13653149 CAGACATACCTTCTT
1 CAGACATACCTTCTT
13653164 CAGACAT
1 CAGACAT
13653171 CTTCAAACAC
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
13 3 0.10
15 23 0.79
17 3 0.10
ACGTcount: A:0.33, C:0.31, G:0.12, T:0.25
Consensus pattern (15 bp):
CAGACATACCTTCTT
Found at i:13653144 original size:30 final size:30
Alignment explanation
Indices: 13653108--13653170 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
13653098 CAAACTTAGG
13653108 CATAGGCATACCAGACATACCTTCTTCAGA
1 CATAGGCATACCAGACATACCTTCTTCAGA
13653138 CATAGGCATACCAGACATACCTTCTTCAGA
1 CATAGGCATACCAGACATACCTTCTTCAGA
13653168 CAT
1 CAT
13653171 CTTCAAACAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.33, C:0.30, G:0.13, T:0.24
Consensus pattern (30 bp):
CATAGGCATACCAGACATACCTTCTTCAGA
Found at i:13657578 original size:21 final size:21
Alignment explanation
Indices: 13657528--13657578 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
13657518 CTCGACTCAA
*
13657528 ATAT-AATATATATAATTAAAT
1 ATATAAAT-TATATAAGTAAAT
*
13657549 ATTAT-AATTATATAAGTATAT
1 A-TATAAATTATATAAGTAAAT
13657570 ATATAAATT
1 ATATAAATT
13657579 TTTATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 3 0.12
21 17 0.65
22 6 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
ATATAAATTATATAAGTAAAT
Found at i:13658197 original size:8 final size:8
Alignment explanation
Indices: 13658180--13658229 Score: 66
Period size: 8 Copynumber: 6.4 Consensus size: 8
13658170 AAATATTTTT
13658180 TAAA-ATA
1 TAAATATA
13658187 TAAATATA
1 TAAATATA
*
13658195 TAAACATA
1 TAAATATA
*
13658203 TAATTATA
1 TAAATATA
13658211 TAAATATA
1 TAAATATA
*
13658219 TAAATAAA
1 TAAATATA
13658227 TAA
1 TAA
13658230 TTAAAAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
7 4 0.11
8 33 0.89
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (8 bp):
TAAATATA
Found at i:13658216 original size:24 final size:24
Alignment explanation
Indices: 13658184--13658232 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
13658174 ATTTTTTAAA
*
13658184 ATATAAATATATAAACATATAATT
1 ATATAAATATATAAACAAATAATT
*
13658208 ATATAAATATATAAATAAATAATT
1 ATATAAATATATAAACAAATAATT
13658232 A
1 A
13658233 AAAATAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
ATATAAATATATAAACAAATAATT
Found at i:13659755 original size:18 final size:18
Alignment explanation
Indices: 13659732--13659820 Score: 92
Period size: 21 Copynumber: 4.8 Consensus size: 18
13659722 AATTTTACTT
13659732 ATAAATAATATTATATTA
1 ATAAATAATATTATATTA
13659750 ATAAATAATATTATTATATTA
1 ATAAAT-A-A-TATTATATTA
* *
13659771 ATAAATAATATTCTAATA
1 ATAAATAATATTATATTA
* *
13659789 TATTAATAATATTACA--A
1 -ATAAATAATATTATATTA
13659806 ATAAATAATATTATA
1 ATAAATAATATTATA
13659821 ATATATAATA
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
16 13 0.22
17 1 0.02
18 14 0.23
19 14 0.23
20 2 0.03
21 16 0.27
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
ATAAATAATATTATATTA
Found at i:13659798 original size:19 final size:18
Alignment explanation
Indices: 13659774--13659831 Score: 68
Period size: 16 Copynumber: 3.3 Consensus size: 18
13659764 TATATTAATA
13659774 AATAATATTCTAATATATT
1 AATAATATTCTAATATA-T
13659793 AATAATATTAC-AA-ATA-
1 AATAATATT-CTAATATAT
*
13659809 AATAATATTATAATATAT
1 AATAATATTCTAATATAT
13659827 AATAA
1 AATAA
13659832 ACAATATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
16 11 0.32
17 3 0.09
18 8 0.24
19 11 0.32
20 1 0.03
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (18 bp):
AATAATATTCTAATATAT
Found at i:13659812 original size:16 final size:17
Alignment explanation
Indices: 13659732--13659830 Score: 64
Period size: 18 Copynumber: 5.6 Consensus size: 17
13659722 AATTTTACTT
13659732 ATAAATAATATTA-TATTA
1 ATAAATAATATTACTA--A
*
13659750 ATAAATAATATTATTATATTA
1 ATAAATAATATTA--CTA--A
13659771 ATAAATAATATT-CTAA
1 ATAAATAATATTACTAA
13659787 TATATTAATAATATTAC-AA
1 -ATA--AATAATATTACTAA
13659806 ATAAATAATATTA-T-A
1 ATAAATAATATTACTAA
*
13659821 ATATATAATA
1 ATAAATAATA
13659831 AACAATATAA
Statistics
Matches: 71, Mismatches: 2, Indels: 19
0.77 0.02 0.21
Matches are distributed among these distances:
15 10 0.14
16 11 0.15
17 3 0.04
18 18 0.25
19 11 0.15
20 1 0.01
21 17 0.24
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (17 bp):
ATAAATAATATTACTAA
Found at i:13659901 original size:14 final size:15
Alignment explanation
Indices: 13659885--13659943 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
13659875 ATTAACATAA
13659885 TATTTTAATATTAATAT
1 TATTTTAATATT-A-AT
*
13659902 TATTATTAAAATATAAT
1 TATT-TTAATAT-TAAT
*
13659919 TATTTTTATATTAAT
1 TATTTTAATATTAAT
*
13659934 AATTTTAATA
1 TATTTTAATA
13659944 ATAAATAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
15 12 0.34
16 5 0.14
17 10 0.29
18 7 0.20
19 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTTTAATATTAAT
Found at i:13659952 original size:34 final size:34
Alignment explanation
Indices: 13659881--13659953 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
13659871 TTTTATTAAC
*
13659881 ATAA-TATTTTAATATTAATATTATTATTAAAAT
1 ATAATTATTTTAATATTAATATTATTAATAAAAT
*
13659914 ATAATTATTTTTATATTAATAATT-TTAATAATAA-
1 ATAATTATTTTAATATTAAT-ATTATTAATAA-AAT
13659948 ATAATT
1 ATAATT
13659954 TCAATATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
33 4 0.11
34 26 0.74
35 5 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (34 bp):
ATAATTATTTTAATATTAATATTATTAATAAAAT
Found at i:13659965 original size:26 final size:26
Alignment explanation
Indices: 13659931--13659994 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
13659921 TTTTTATATT
13659931 AATA-ATTTTAATAATAAATAATTTC
1 AATATATTTTAATAATAAATAATTTC
*
13659956 AATATATTTTAATAATAAATAATTTT
1 AATATATTTTAATAATAAATAATTTC
*
13659982 TA-ATATTTTAATA
1 AATATATTTTAATA
13659995 GTTATATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 15 0.42
26 21 0.58
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (26 bp):
AATATATTTTAATAATAAATAATTTC
Found at i:13659986 original size:10 final size:9
Alignment explanation
Indices: 13659929--13659994 Score: 52
Period size: 9 Copynumber: 7.7 Consensus size: 9
13659919 TATTTTTATA
13659929 TTAATAATT
1 TTAATAATT
13659938 TTAATAA--
1 TTAATAATT
*
13659945 TAAATAATT
1 TTAATAATT
*
13659954 TCAATATATT
1 TTAATA-ATT
13659964 TTAATAA--
1 TTAATAATT
*
13659971 TAAATAATTT
1 TTAATAA-TT
13659981 TTAAT-ATT
1 TTAATAATT
13659989 TTAATA
1 TTAATA
13659995 GTTATATTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
7 12 0.27
8 7 0.16
9 14 0.31
10 12 0.27
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (9 bp):
TTAATAATT
Found at i:13660148 original size:15 final size:14
Alignment explanation
Indices: 13660117--13660147 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
13660107 TGTAAATATA
13660117 TTTCAAAAATAATT
1 TTTCAAAAATAATT
13660131 TTTCAAAAATAATT
1 TTTCAAAAATAATT
13660145 TTT
1 TTT
13660148 TTCGAAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (14 bp):
TTTCAAAAATAATT
Found at i:13665092 original size:57 final size:57
Alignment explanation
Indices: 13665012--13665817 Score: 949
Period size: 59 Copynumber: 13.6 Consensus size: 57
13665002 TTTTTTGTAG
*
13665012 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTTTAA
* * **
13665069 GGAAAATTGATACCTTCAACTTTTCCCTAAAAATATTTTTTGAAAATTTCGATTTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTT--ATTTTTAA
* *** * *
13665128 GGAAAATTGATACTTTCAACTTTT-CCT-CAAACCCTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTTTAA
* *
13665183 GGGAAAATT-ATACTTTCAAC-TTTCCCTTAAAAATATTTTTTTTTTGAAATTTTATTTCTTGA
1 -GGAAAATTGATACTTTCAACTTTTCCC-TAAAAATA---TTTTTTGGAAA-TTTATTT-TTAA
* * *
13665245 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTTG-AATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA----TTTTTTGGAAATTTATTTTTAA
* *
13665305 GGAAAA-TGATACTTTCAACTTTTCCCCAAAAATATTCTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-T-TTTTTGGAAATTTATTTTTAA
*
13665363 GGAAAATTGATACTTCCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTTATTTTTTCTTTTA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTGGAAA-TTTA-----T-TTTTA
13665428 A
57 A
* * *
13665429 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAATTTATTTATGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAATTTATTTTTAA
* *
13665487 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTTTAA
* *
13665544 GGAAAATTGATCCTTTCAACTTTTCCCTAAAAAAATTTTTTTTGGAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT--AAAAATATTTTTTGGAAATTTA----T-TTTTAA
* *
13665608 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAAATTTATTCTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTTTAA
* * *
13665665 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTGAAATTTATTTATGA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAA-ATATTTTTTGGAAATTTATTTTTAA
* *
13665724 GGAAAATTGATACTTTCAACTTTTCACCCAAAAATATTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTC-CCTAAAAATATTTTTTGGAAATTTATTTTTAA
*
13665782 AGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT
13665818 ATATTTTTTG
Statistics
Matches: 659, Mismatches: 55, Indels: 70
0.84 0.07 0.09
Matches are distributed among these distances:
54 3 0.00
55 18 0.03
56 11 0.02
57 159 0.24
58 110 0.17
59 163 0.25
60 25 0.04
61 22 0.03
62 43 0.07
63 18 0.03
64 36 0.05
65 12 0.02
66 39 0.06
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTTTAA
Found at i:13665875 original size:9 final size:9
Alignment explanation
Indices: 13665861--13665890 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
13665851 AAAATAGAAT
13665861 AATAAATAA
1 AATAAATAA
13665870 AATAAATAAA
1 AATAAAT-AA
13665880 AATAAATAA
1 AATAAATAA
13665889 AA
1 AA
13665891 AGAATATTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AATAAATAA
Found at i:13665883 original size:10 final size:10
Alignment explanation
Indices: 13665861--13665891 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
13665851 AAAATAGAAT
13665861 AATAAAT-AA
1 AATAAATAAA
13665870 AATAAATAAA
1 AATAAATAAA
13665880 AATAAATAAA
1 AATAAATAAA
13665890 AA
1 AA
13665892 GAATATTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.33
10 14 0.67
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
AATAAATAAA
Found at i:13666084 original size:5 final size:5
Alignment explanation
Indices: 13666074--13666099 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
13666064 CGGCTTGGTA
13666074 GCTCG GCTCG GCTCG GCTCG GCTCG G
1 GCTCG GCTCG GCTCG GCTCG GCTCG G
13666100 AGGGGGGCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.38, G:0.42, T:0.19
Consensus pattern (5 bp):
GCTCG
Found at i:13666550 original size:26 final size:24
Alignment explanation
Indices: 13666511--13666564 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
13666501 AATCTGGAAA
*
13666511 TTTCCCAGAAATTTCCAGAAAAAAT
1 TTTCCCAAAAATTTCCA-AAAAAAT
* *
13666536 TTTCGCCAAAAATTTCTAAAAAATT
1 TTTC-CCAAAAATTTCCAAAAAAAT
13666561 TTTC
1 TTTC
13666565 TCACTCTCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.35
Consensus pattern (24 bp):
TTTCCCAAAAATTTCCAAAAAAAT
Found at i:13666953 original size:17 final size:18
Alignment explanation
Indices: 13666931--13666964 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13666921 TAGATAAGTA
*
13666931 AAAATACAAAA-ATAAAT
1 AAAATAAAAAAGATAAAT
13666948 AAAATAAAAAAGATAAA
1 AAAATAAAAAAGATAAA
13666965 AATATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (18 bp):
AAAATAAAAAAGATAAAT
Found at i:13667008 original size:16 final size:16
Alignment explanation
Indices: 13666989--13667093 Score: 60
Period size: 16 Copynumber: 6.6 Consensus size: 16
13666979 TATTAGTAAT
13666989 AATACATAAATAATAA
1 AATACATAAATAATAA
*
13667005 AATACACATAAATATTAA
1 AAT--ACATAAATAATAA
* *
13667023 CAAAAAATAAATAA-ATA
1 -AATACATAAATAATA-A
* * *
13667040 AATATATACAT-ATATT
1 AATACATAAATAATA-A
13667056 AATACAT-AATAAT--
1 AATACATAAATAATAA
*
13667069 AATA-ATAAATAATAC
1 AATACATAAATAATAA
13667084 AATACATAAA
1 AATACATAAA
13667094 ATACAAAAGA
Statistics
Matches: 69, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
12 2 0.03
13 10 0.14
15 7 0.10
16 27 0.39
17 9 0.13
18 12 0.17
19 2 0.03
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.28
Consensus pattern (16 bp):
AATACATAAATAATAA
Found at i:13667067 original size:35 final size:34
Alignment explanation
Indices: 13666964--13667084 Score: 97
Period size: 35 Copynumber: 3.4 Consensus size: 34
13666954 AAAAAGATAA
* *
13666964 AAATATATATATACATATTAGTAATAATACATAAAT
1 AAATAAATATATACATA-TATTAATAATA-ATAAAT
* * *
13667000 -AATAAA-ATACACATAAATATTAACAAAAAATAAAT
1 AAATAAATATATACAT--ATATTAA-TAATAATAAAT
13667035 AAATAAATATATACATATATTAATACATAAT-AAT
1 AAATAAATATATACATATATTAATA-ATAATAAAT
13667069 AATAATAAATA-ATACA
1 -A-AATAAATATATACA
13667085 ATACATAAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
34 11 0.16
35 33 0.48
36 18 0.26
37 7 0.10
ACGTcount: A:0.62, C:0.07, G:0.01, T:0.31
Consensus pattern (34 bp):
AAATAAATATATACATATATTAATAATAATAAAT
Found at i:13667325 original size:23 final size:23
Alignment explanation
Indices: 13667295--13667338 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
13667285 TTTTTGTTTT
13667295 TTTTTGTTTTTTTGCTTTTTTGC
1 TTTTTGTTTTTTTGCTTTTTTGC
*
13667318 TTTTTGTTTTTTTGTTTTTTT
1 TTTTTGTTTTTTTGCTTTTTT
13667339 TTATTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.00, C:0.05, G:0.11, T:0.84
Consensus pattern (23 bp):
TTTTTGTTTTTTTGCTTTTTTGC
Found at i:13667339 original size:9 final size:8
Alignment explanation
Indices: 13667275--13667338 Score: 76
Period size: 8 Copynumber: 7.9 Consensus size: 8
13667265 CAACTCAACA
*
13667275 TTTTTTGG
1 TTTTTTTG
13667283 TTTTTTTG
1 TTTTTTTG
13667291 TTTTTTTTTG
1 --TTTTTTTG
13667301 TTTTTTTG
1 TTTTTTTG
*
13667309 CTTTTTTG
1 TTTTTTTG
*
13667317 -CTTTTTG
1 TTTTTTTG
13667324 TTTTTTTG
1 TTTTTTTG
13667332 TTTTTTT
1 TTTTTTT
13667339 TTATTTTTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
7 6 0.12
8 35 0.71
10 8 0.16
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.84
Consensus pattern (8 bp):
TTTTTTTG
Found at i:13667347 original size:33 final size:33
Alignment explanation
Indices: 13667285--13667347 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
13667275 TTTTTTGGTT
*
13667285 TTTTTGTTTTTTTTTGTTTTTTTGCTTTTTTGC
1 TTTTTGTTTTTTTTTGTTTTTTTACTTTTTTGC
13667318 TTTTTGTTTTTTTGTT-TTTTTTTA-TTTTTT
1 TTTTTGTTTTTTT-TTGTTTTTTTACTTTTTT
13667348 ACCAAAGCTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 6 0.21
33 20 0.71
34 2 0.07
ACGTcount: A:0.02, C:0.03, G:0.10, T:0.86
Consensus pattern (33 bp):
TTTTTGTTTTTTTTTGTTTTTTTACTTTTTTGC
Found at i:13667450 original size:42 final size:41
Alignment explanation
Indices: 13667354--13667498 Score: 227
Period size: 41 Copynumber: 3.5 Consensus size: 41
13667344 TTTTACCAAA
* * *
13667354 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-GAAA-GTAAATT
13667397 GCTCCTCTAAACAGAGGCACCACGACTTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGGAAAGTAAATT
*
13667439 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
13667480 GCTCCTCTAAACAGAGGCA
1 GCTCCTCTAAACAGAGGCA
13667499 ACGAACTTGG
Statistics
Matches: 96, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
41 33 0.34
42 31 0.32
43 28 0.29
44 4 0.04
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
Found at i:13670684 original size:129 final size:128
Alignment explanation
Indices: 13670511--13670856 Score: 367
Period size: 129 Copynumber: 2.7 Consensus size: 128
13670501 TATTTCAGTA
* *
13670511 TATATTAT-TTAACATTTAATAAGTAATTTAAT-TGGACTATTATAGTGAA-TTTCAAACAAAAT
1 TATATTATGTTAAAATTTAATATGTAATTTAATATGG--TATTATAGT-AATTTTCAAACAAAAT
* *
13670573 TTCACATGTCAAATTTTTATGAAGTAA-CGACAAGGGTATTTTAATAATTTAATATATACTTAAT
63 ATCACATGTCAAATTTTTATGAAGTAATCG-CAAGGATATTTTAATAATTTAATATATACTTAAT
13670637 TT
127 TT
* *
13670639 TATATTATGTTAAAATTTCATATGTAATTTAATAGTGGTATTATAGTAATTTTCAAATAAAATAT
1 TATATTATGTTAAAATTTAATATGTAATTTAATA-TGGTATTATAGTAATTTTCAAACAAAATAT
* * ** * * * * **
13670704 CACATGTCAAATTTTCATAAACCAATTGTAATGATATTTTAATAATTTAATATGTGGTTAATTT
65 CACATGTCAAATTTTTATGAAGTAATCGCAAGGATATTTTAATAATTTAATATATACTTAATTT
* * * ** * * *
13670768 TATATTATGTTAAAAATTAATATATAATTCAATAAAAGTATTATAATAATTTTGAAACAAAATGT
1 TATATTATGTTAAAATTTAATATGTAATTTAAT-ATGGTATTATAGTAATTTTCAAACAAAATAT
* * *
13670833 CACATGTTAACTTCTTATGAAGTA
65 CACATGTCAAATTTTTATGAAGTA
13670857 CTCATAAAAG
Statistics
Matches: 179, Mismatches: 33, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
128 10 0.06
129 164 0.92
130 2 0.01
131 3 0.02
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (128 bp):
TATATTATGTTAAAATTTAATATGTAATTTAATATGGTATTATAGTAATTTTCAAACAAAATATC
ACATGTCAAATTTTTATGAAGTAATCGCAAGGATATTTTAATAATTTAATATATACTTAATTT
Found at i:13671733 original size:55 final size:54
Alignment explanation
Indices: 13671673--13671850 Score: 176
Period size: 51 Copynumber: 3.4 Consensus size: 54
13671663 ATAAAATGAG
* *
13671673 TATTTTTGTAATTATGGTACGAAGGCATTATAGTAAATAATTATAAGAGAATAGT
1 TATTTTTGTAATTATGGTATGAAGGCATTATAGTAAATAATTATAAGAGAA-AGA
* *
13671728 TATTTTCT-TAATTATGGTATGAAGACA-TA-A-T-AATCAATT-TAAGAGAAAAA
1 TATTTT-TGTAATTATGGTATGAAGGCATTATAGTAAAT-AATTATAAGAGAAAGA
* * * *
13671778 TATTTTTGTAATTATGATATG-GGGTATTATAGTAAATAATTATAA-A-AAAGG
1 TATTTTTGTAATTATGGTATGAAGGCATTATAGTAAATAATTATAAGAGAAAGA
* *
13671829 TATTTTTATAATTATAGTATGA
1 TATTTTTGTAATTATGGTATGA
13671851 GGGTAAAATA
Statistics
Matches: 101, Mismatches: 13, Indels: 21
0.75 0.10 0.16
Matches are distributed among these distances:
49 3 0.03
50 21 0.21
51 33 0.33
52 11 0.11
53 7 0.07
54 2 0.02
55 23 0.23
56 1 0.01
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.40
Consensus pattern (54 bp):
TATTTTTGTAATTATGGTATGAAGGCATTATAGTAAATAATTATAAGAGAAAGA
Found at i:13671790 original size:50 final size:55
Alignment explanation
Indices: 13671673--13671822 Score: 154
Period size: 55 Copynumber: 2.8 Consensus size: 55
13671663 ATAAAATGAG
* * **
13671673 TATTTTTGTAATTATGGTACGAAGGCATTATAGTAAATAATTATAAGAGAATAGT
1 TATTTTTGTAATTATGGTATGAAGACATTATAGTAAATAATTATAAGAGAATAAA
13671728 TATTTTCT-TAATTATGGTATGAAGACA-TA-A-T-AATCAATT-TAAGAGAA-AAA
1 TATTTT-TGTAATTATGGTATGAAGACATTATAGTAAAT-AATTATAAGAGAATAAA
* * **
13671778 TATTTTTGTAATTATGATATG-GGGTATTATAGTAAATAATTATAA
1 TATTTTTGTAATTATGGTATGAAGACATTATAGTAAATAATTATAA
13671823 AAAAGGTATT
Statistics
Matches: 79, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
49 3 0.04
50 21 0.27
51 12 0.15
52 10 0.13
53 7 0.09
54 2 0.03
55 23 0.29
56 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.40
Consensus pattern (55 bp):
TATTTTTGTAATTATGGTATGAAGACATTATAGTAAATAATTATAAGAGAATAAA
Found at i:13671866 original size:101 final size:105
Alignment explanation
Indices: 13671673--13671869 Score: 251
Period size: 101 Copynumber: 1.9 Consensus size: 105
13671663 ATAAAATGAG
* *
13671673 TATTTTTGTAATTATGGTACGAAGGCATTATAGTAAATAATTATAAGAGAATAGTTATTTTCTTA
1 TATTTTTGTAATTATGATACGAAGGCATTATAGTAAATAATTATAAGAGAATAGGTATTTTCTTA
* *
13671738 ATTATGGTATGAAGACATAATAATCAATTTAAGAGAAAAA
66 ATTATAGTATGAAGACAAAATAATCAATTTAAGAGAAAAA
* * *
13671778 TATTTTTGTAATTATGATATG-GGGTATTATAGTAAATAATTATAA-A-AA-AGGTATTTT-TAT
1 TATTTTTGTAATTATGATACGAAGGCATTATAGTAAATAATTATAAGAGAATAGGTATTTTCT-T
* ** *
13671838 AATTATAGTATGAGGGTAAAATAGTCAATTTA
65 AATTATAGTATGAAGACAAAATAATCAATTTA
13671870 GTCATGTGTC
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
100 1 0.01
101 35 0.44
102 2 0.03
103 1 0.01
104 22 0.28
105 19 0.24
ACGTcount: A:0.42, C:0.03, G:0.16, T:0.40
Consensus pattern (105 bp):
TATTTTTGTAATTATGATACGAAGGCATTATAGTAAATAATTATAAGAGAATAGGTATTTTCTTA
ATTATAGTATGAAGACAAAATAATCAATTTAAGAGAAAAA
Found at i:13695778 original size:10 final size:11
Alignment explanation
Indices: 13695762--13695790 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
13695752 TATAAGATTT
13695762 TACTATATCTA
1 TACTATATCTA
13695773 TA-TATATCTA
1 TACTATATCTA
13695783 TACTATAT
1 TACTATAT
13695791 TAAAAACTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (11 bp):
TACTATATCTA
Found at i:13696065 original size:23 final size:25
Alignment explanation
Indices: 13696008--13696068 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 25
13695998 TATATATTTT
*
13696008 AAAAATTATTTATTTGAATTTAAATG
1 AAAATTTATTT-TTTGAATTTAAATG
* *
13696034 CAAATTTATTTTTTG-TTTTAAA-G
1 AAAATTTATTTTTTGAATTTAAATG
13696057 AAAATTTATTTT
1 AAAATTTATTTT
13696069 GCTTTCAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
23 12 0.39
24 6 0.19
25 4 0.13
26 9 0.29
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (25 bp):
AAAATTTATTTTTTGAATTTAAATG
Found at i:13704427 original size:16 final size:16
Alignment explanation
Indices: 13704386--13704432 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
13704376 GTTATTATTA
13704386 TTTTA-TGCTTATTTC
1 TTTTATTGCTTATTTC
13704401 -TTT-TT--TTATTTC
1 TTTTATTGCTTATTTC
13704413 TTTTATTGCTTATTTC
1 TTTTATTGCTTATTTC
13704429 TTTT
1 TTTT
13704433 TCCTTTTCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
12 7 0.26
13 3 0.11
14 6 0.22
16 11 0.41
ACGTcount: A:0.11, C:0.11, G:0.04, T:0.74
Consensus pattern (16 bp):
TTTTATTGCTTATTTC
Found at i:13704440 original size:28 final size:28
Alignment explanation
Indices: 13704386--13704445 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 28
13704376 GTTATTATTA
*
13704386 TTTTATGCTTATTTCTTTTTTTATTT-C
1 TTTTATGCTTATTTCTTTTTCTATTTCC
13704413 TTTTATTGCTTATTTCTTTTTCCT-TTTCC
1 TTTTA-TGCTTATTTCTTTTT-CTATTTCC
13704442 TTTT
1 TTTT
13704446 TCGTTTTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 5 0.17
28 18 0.62
29 6 0.21
ACGTcount: A:0.08, C:0.15, G:0.03, T:0.73
Consensus pattern (28 bp):
TTTTATGCTTATTTCTTTTTCTATTTCC
Found at i:13706177 original size:17 final size:17
Alignment explanation
Indices: 13706149--13706194 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 17
13706139 TGTTATTTTA
13706149 TTTTTAATATTTTTTATG
1 TTTTTAA-ATTTTTTATG
*
13706167 TTTTTAAATTTTTTTTG
1 TTTTTAAATTTTTTATG
13706184 TTTTTAAATTT
1 TTTTTAAATTT
13706195 CAAATAAAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 20 0.74
18 7 0.26
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (17 bp):
TTTTTAAATTTTTTATG
Found at i:13706967 original size:23 final size:23
Alignment explanation
Indices: 13706937--13706994 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
13706927 TGGCAATTTG
13706937 AATAATAACTTGGAAAAGATATT
1 AATAATAACTTGGAAAAGATATT
13706960 AATAATAACTTGGAAAAGATATT
1 AATAATAACTTGGAAAAGATATT
13706983 AATAATAACTTG
1 AATAATAACTTG
13706995 TAGATGATGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.52, C:0.05, G:0.12, T:0.31
Consensus pattern (23 bp):
AATAATAACTTGGAAAAGATATT
Found at i:13715121 original size:2 final size:2
Alignment explanation
Indices: 13715114--13715139 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13715104 ATAATTTTAA
13715114 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
13715140 CCCATGCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13716287 original size:2 final size:2
Alignment explanation
Indices: 13716280--13716311 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
13716270 GACAAAACCT
*
13716280 TA TA TA TA TA TA TA TA TA TA TA TC TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13716312 GCATGAACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13723801 original size:25 final size:25
Alignment explanation
Indices: 13723751--13723811 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
13723741 GATTAAAAGT
*
13723751 AAATATCAAATTAATTAATAAATTTA
1 AAAT-TCAAATTAATTAAAAAATTTA
* *
13723777 TAATTTAAATT-ATTAAAAAATTTTA
1 AAATTCAAATTAATTAAAAAA-TTTA
13723802 AAATTCAAAT
1 AAATTCAAAT
13723812 ATTTAGTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 8 0.28
25 18 0.62
26 3 0.10
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (25 bp):
AAATTCAAATTAATTAAAAAATTTA
Found at i:13724063 original size:48 final size:50
Alignment explanation
Indices: 13723941--13724091 Score: 128
Period size: 52 Copynumber: 2.9 Consensus size: 50
13723931 ATTTTGCCTT
* * * * *
13723941 CATACCATAATTAAAAAATATCTTTTTCTTTTATAATTATTTACTATAATACTC
1 CATACCATAATTAAAAAAAAT-ATATTCTCTTATAATTAATTA-T-T-ATACTC
* * * *
13723995 CATATCATAATTATAGAAAAT-TCTTCTCTTA-AATTAATTATTATACTC
1 CATACCATAATTAAAAAAAATATATTCTCTTATAATTAATTATTATACTC
*
13724043 TCATACCATAA-TAAAAAAAATACATATTCTCTTATAATTATTTATTATA
1 -CATACCATAATTAAAAAAAAT--ATATTCTCTTATAATTAATTATTATA
13724092 ATATCCTCGT
Statistics
Matches: 80, Mismatches: 12, Indels: 12
0.77 0.12 0.12
Matches are distributed among these distances:
48 14 0.17
49 10 0.12
50 1 0.01
51 17 0.21
52 21 0.26
54 17 0.21
ACGTcount: A:0.42, C:0.14, G:0.01, T:0.44
Consensus pattern (50 bp):
CATACCATAATTAAAAAAAATATATTCTCTTATAATTAATTATTATACTC
Found at i:13724090 original size:55 final size:54
Alignment explanation
Indices: 13723940--13724119 Score: 144
Period size: 55 Copynumber: 3.4 Consensus size: 54
13723930 TATTTTGCCT
* * * *
13723940 TCATACCATAAT-TAAAAAATATCTTTTTCTTTTATAATTATTTACTATAATACTC
1 TCATACCATAATAAAAAAAATA-C-TATTCTCTTATAATTATTTATTATAATACTC
* * * * *
13723995 -CATATCATAATTATAGAAAAT--TCTTCTCTTA-AATTA---ATTATTATACTC
1 TCATACCATAA-TAAAAAAAATACTATTCTCTTATAATTATTTATTATAATACTC
13724043 TCATACCATAATAAAAAAAATACATATTCTCTTATAATTATTTATTATAATA-TCC
1 TCATACCATAATAAAAAAAATAC-TATTCTCTTATAATTATTTATTATAATACT-C
* * *
13724098 TCGTACCATAATTATAAAAATA
1 TCATACCATAATAAAAAAAATA
13724120 TTCTTTTTAT
Statistics
Matches: 100, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
48 18 0.18
49 9 0.09
51 14 0.14
52 13 0.13
54 10 0.10
55 29 0.29
56 7 0.07
ACGTcount: A:0.42, C:0.14, G:0.01, T:0.42
Consensus pattern (54 bp):
TCATACCATAATAAAAAAAATACTATTCTCTTATAATTATTTATTATAATACTC
Found at i:13724234 original size:58 final size:61
Alignment explanation
Indices: 13724135--13724265 Score: 166
Period size: 58 Copynumber: 2.2 Consensus size: 61
13724125 TTTATTATTA
* *
13724135 AATTACAAAAATATCAATTCTCTTATTATTGACTCAAATTATTATAATAC-CTTCCTGA-CAT
1 AATTACAAAAATATCAATTCTCTCATAATTGACTCAAATTATTATAATACTCTTCC--ACCAT
*
13724196 AATTATAAAAATA-C-ATT-TCTCATAATTGA-TCAAAATTATTATAATACTCTTCCACCAT
1 AATTACAAAAATATCAATTCTCTCATAATTGACTC-AAATTATTATAATACTCTTCCACCAT
13724254 AATTACAAAAAT
1 AATTACAAAAAT
13724266 GTTTTTATGA
Statistics
Matches: 63, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
57 3 0.05
58 39 0.62
59 8 0.13
60 1 0.02
61 12 0.19
ACGTcount: A:0.44, C:0.17, G:0.02, T:0.37
Consensus pattern (61 bp):
AATTACAAAAATATCAATTCTCTCATAATTGACTCAAATTATTATAATACTCTTCCACCAT
Found at i:13724830 original size:129 final size:126
Alignment explanation
Indices: 13724640--13724967 Score: 347
Period size: 129 Copynumber: 2.5 Consensus size: 126
13724630 TAAGAAGTTA
* * *
13724640 ACATGTGGAATTTTGTTTCAAAATTACTATAACACATCTATTAAATTATATATTAATTTTTAACA
1 ACATGT-GAATTTTGTTT-AAAATTACTATAATACAT-TATTAAATTACATATTAAATTTTAACA
* * * *
13724705 TAACATAAAATTAA-TCACATATTAAAGTATTAAAATATCATAACAATTGGTTTATAAAAATTTG
63 TAACATAAAATTAACT-ACATACTAAAGTACTAAAATACCATAACAATTGGTTAATAAAAATTTG
* *
13724769 ACATGTGATATTTTATTTAAAAATTACTATAATATCATTATTAAATTACATATGAAATTTTAACA
1 ACATGTGA-ATTTTGTTT-AAAATTACTATAATA-CATTATTAAATTACATATTAAATTTTAACA
* * * * ** **
13724834 TTATATAAAATTAACTACATACTAAATTACTAAAATACCTTGGCCGTTGGTTAATAAAAATTTG
63 TAACATAAAATTAACTACATACTAAAGTACTAAAATACCATAACAATTGGTTAATAAAAATTTG
* ** * *
13724898 ACATGTGAAATTTTGTTTTAAATTCACTATAATAACCCTATTAAATT-CTTATTAAATATTAA-A
1 ACATGTG-AATTTTGTTTAAAATT-ACTATAAT-ACATTATTAAATTACATATTAAATTTTAACA
13724961 TAACATA
63 TAACATA
13724968 TTAAAATAAT
Statistics
Matches: 166, Mismatches: 27, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
127 6 0.04
128 19 0.11
129 135 0.81
130 6 0.04
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (126 bp):
ACATGTGAATTTTGTTTAAAATTACTATAATACATTATTAAATTACATATTAAATTTTAACATAA
CATAAAATTAACTACATACTAAAGTACTAAAATACCATAACAATTGGTTAATAAAAATTTG
Found at i:13726632 original size:39 final size:39
Alignment explanation
Indices: 13726566--13726640 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
13726556 GATTTGATCC
13726566 ATTTTTTACAAAAATAACAATACCTTACGAAA-AGAGGCT
1 ATTTTTTACAAAAATAACAATACCTTAC-AAATAGAGGCT
* *
13726605 ATTTTTTACAAATATAAC-ATTCTCTTACAAATAGAG
1 ATTTTTTACAAAAATAACAATAC-CTTACAAATAGAG
13726641 TTGTGCATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
38 6 0.19
39 26 0.81
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (39 bp):
ATTTTTTACAAAAATAACAATACCTTACAAATAGAGGCT
Found at i:13726857 original size:24 final size:24
Alignment explanation
Indices: 13726813--13726859 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
13726803 TAATTTTATT
* *
13726813 AAATTTATTTATAATTTTTTTTAA
1 AAATTTAATTATAATTATTTTTAA
13726837 AAATTTAAATTAT-ATTATTTTTA
1 AAATTT-AATTATAATTATTTTTA
13726860 TATCTTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
AAATTTAATTATAATTATTTTTAA
Found at i:13735329 original size:2 final size:2
Alignment explanation
Indices: 13735322--13735346 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13735312 TAGATATGAC
13735322 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
13735347 TCATAGAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13735414 original size:7 final size:7
Alignment explanation
Indices: 13735394--13735424 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
13735384 AACTAAATTT
13735394 AAATAAA
1 AAATAAA
13735401 AATATAAA
1 AA-ATAAA
13735409 AAATAAA
1 AAATAAA
13735416 AAATAAA
1 AAATAAA
13735423 AA
1 AA
13735425 CTATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
AAATAAA
Found at i:13735414 original size:15 final size:14
Alignment explanation
Indices: 13735394--13735424 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
13735384 AACTAAATTT
13735394 AAATAAAAATATAAA
1 AAATAAAAA-ATAAA
13735409 AAATAAAAAATAAA
1 AAATAAAAAATAAA
13735423 AA
1 AA
13735425 CTATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (14 bp):
AAATAAAAAATAAA
Found at i:13735508 original size:89 final size:88
Alignment explanation
Indices: 13735338--13735506 Score: 252
Period size: 89 Copynumber: 1.9 Consensus size: 88
13735328 TATATATATA
*
13735338 TATATATATTCATAGAACCTTTTGGTTTTTTTTTCCACATTGATCCAACTAAATTTAAATAAAAA
1 TATATATATTCATAGAAACTTTTGGTTTTTTTTTCCACATTGATCCAACTAAATTTAAATAAAAA
13735403 TATAAAAAATAAAAAATAAAAAC
66 TATAAAAAATAAAAAATAAAAAC
* * *
13735426 TATATATATTCATAGAAATTTTTGGTTTTTTTTTTCTACATTGATTCC-ACTAAATTTAAATAAT
1 TATATATATTCATAGAAACTTTTGG-TTTTTTTTTCCACATTGA-TCCAACTAAATTTAAATAAA
**
13735490 AATA-AAAATTTAAAAAA
64 AATATAAAAAATAAAAAA
13735507 ATTTCTCTAT
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
88 34 0.47
89 36 0.49
90 3 0.04
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (88 bp):
TATATATATTCATAGAAACTTTTGGTTTTTTTTTCCACATTGATCCAACTAAATTTAAATAAAAA
TATAAAAAATAAAAAATAAAAAC
Found at i:13738164 original size:28 final size:29
Alignment explanation
Indices: 13738131--13738185 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
13738121 AAGAATAGGA
**
13738131 TTAAAATATTTT-ATGTAATATTTAAATT
1 TTAAAATATTTTAATAAAATATTTAAATT
13738159 TTAAAATATTTTAATAAAATATTTAAA
1 TTAAAATATTTTAATAAAATATTTAAA
13738186 ATTATAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (29 bp):
TTAAAATATTTTAATAAAATATTTAAATT
Found at i:13740880 original size:20 final size:21
Alignment explanation
Indices: 13740855--13740906 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
13740845 AGGGTGCAAT
*
13740855 AATGGATCTTTAT-TTTGTGC
1 AATGGATCTTTATGTTTGTAC
* *
13740875 AATGGAACTTTTATGTTTGTAT
1 AATGGATC-TTTATGTTTGTAC
13740897 AATGGATCTT
1 AATGGATCTT
13740907 CTTGAATGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 7 0.27
21 7 0.27
22 12 0.46
ACGTcount: A:0.25, C:0.08, G:0.19, T:0.48
Consensus pattern (21 bp):
AATGGATCTTTATGTTTGTAC
Found at i:13743055 original size:1 final size:1
Alignment explanation
Indices: 13743049--13743075 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
13743039 AAGCCTTGTG
13743049 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
13743076 ATATTTGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:13747533 original size:2 final size:2
Alignment explanation
Indices: 13747526--13747557 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
13747516 TATCAAAGGC
*
13747526 AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13747558 GTCGTTTACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:13751915 original size:2 final size:2
Alignment explanation
Indices: 13751908--13751933 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13751898 AAGTATACAA
13751908 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
13751934 TCCAACTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13754938 original size:15 final size:15
Alignment explanation
Indices: 13754918--13754955 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
13754908 AACCAATTTG
13754918 AATTGTAATTAATTA
1 AATTGTAATTAATTA
13754933 AATTGTAATTAATTA
1 AATTGTAATTAATTA
*
13754948 AATAGTAA
1 AATTGTAA
13754956 ATTGAAGGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (15 bp):
AATTGTAATTAATTA
Found at i:13758295 original size:23 final size:23
Alignment explanation
Indices: 13758262--13758311 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
13758252 CTTTATGAGG
13758262 AATGATAATGAAATCTTCATGGC
1 AATGATAATGAAATCTTCATGGC
*
13758285 AATGATGATGAAATCTTCATGGC
1 AATGATAATGAAATCTTCATGGC
13758308 AATG
1 AATG
13758312 CTGAAATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (23 bp):
AATGATAATGAAATCTTCATGGC
Found at i:13758679 original size:22 final size:22
Alignment explanation
Indices: 13758651--13758693 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
13758641 CAAGCAGAGA
13758651 AGAACTTATTTTCCACAAAACC
1 AGAACTTATTTTCCACAAAACC
13758673 AGAACTTATTTTCCACAAAAC
1 AGAACTTATTTTCCACAAAAC
13758694 TAAAACCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.26, G:0.05, T:0.28
Consensus pattern (22 bp):
AGAACTTATTTTCCACAAAACC
Found at i:13763020 original size:13 final size:12
Alignment explanation
Indices: 13762970--13763045 Score: 50
Period size: 11 Copynumber: 6.2 Consensus size: 12
13762960 CTAATTTACT
*
13762970 TATTTCAATTAA
1 TATTTTAATTAA
*
13762982 -ATTTGTTATTAA
1 TATTT-TAATTAA
* *
13762994 AATGTTAA-TAA
1 TATTTTAATTAA
13763005 TATTTTATATTAA
1 TATTTTA-ATTAA
13763018 TATTTTAAAATTAA
1 TATTTT--AATTAA
*
13763032 -AATTTAATTAA
1 TATTTTAATTAA
13763043 TAT
1 TAT
13763046 ATATTATTTA
Statistics
Matches: 49, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
11 18 0.37
12 9 0.18
13 16 0.33
14 5 0.10
15 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (12 bp):
TATTTTAATTAA
Found at i:13770888 original size:25 final size:25
Alignment explanation
Indices: 13770838--13770898 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
13770828 GATTAAAAGT
*
13770838 AAATATCAAATTAATTAATAAATTTA
1 AAAT-TCAAATTAATTAAAAAATTTA
* *
13770864 TAATTTAAATT-ATTAAAAAATTTTA
1 AAATTCAAATTAATTAAAAAA-TTTA
13770889 AAATTCAAAT
1 AAATTCAAAT
13770899 ATTTAGTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 8 0.28
25 18 0.62
26 3 0.10
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (25 bp):
AAATTCAAATTAATTAAAAAATTTA
Found at i:13771206 original size:55 final size:53
Alignment explanation
Indices: 13771027--13771207 Score: 149
Period size: 52 Copynumber: 3.4 Consensus size: 53
13771017 TATTTTGCCT
* ** * *
13771027 TCATACCATAATTA-AAAAATATCTTTTCCTTTTATAATTATTTACTATAATA-C
1 TCATATCATAATTATAAAAATA-CACTT-CTCTTATAATTATTTATTATAATATC
* ** * *
13771080 TCCATATCATAATTATAGAAATATTCTTCTCTTA-AATTAATTATTAT-A-CTC
1 T-CATATCATAATTATAAAAATACACTTCTCTTATAATTATTTATTATAATATC
*
13771131 TCATATCATAA-TAAAGAAAATACACATTCTCTTATAATTATTTATTATAATATCC
1 TCATATCATAATTATA-AAAATACAC-TTCTCTTATAATTATTTATTATAATAT-C
* *
13771186 TCGTACCATAATTATAAAAATA
1 TCATATCATAATTATAAAAATA
13771208 TTCTTTTTAT
Statistics
Matches: 101, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
49 3 0.03
50 16 0.16
51 11 0.11
52 23 0.23
53 7 0.07
54 16 0.16
55 22 0.22
56 3 0.03
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.42
Consensus pattern (53 bp):
TCATATCATAATTATAAAAATACACTTCTCTTATAATTATTTATTATAATATC
Found at i:13771288 original size:25 final size:23
Alignment explanation
Indices: 13771255--13771319 Score: 60
Period size: 25 Copynumber: 2.7 Consensus size: 23
13771245 TTATTATTGA
* * *
13771255 CTCAT-ATTATTATAATACCTTT
1 CTCATAATTATAAAAATACATTT
13771277 CTGACATAATTATAAAAATACATTT
1 CT--CATAATTATAAAAATACATTT
*
13771302 CTCATAATTGATCAAAAT
1 CTCATAATT-ATAAAAAT
13771320 TACTATAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
22 2 0.06
23 7 0.20
24 10 0.29
25 16 0.46
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (23 bp):
CTCATAATTATAAAAATACATTT
Found at i:13771981 original size:129 final size:129
Alignment explanation
Indices: 13771728--13772006 Score: 339
Period size: 129 Copynumber: 2.2 Consensus size: 129
13771718 TAAGAAGTTA
* * * *
13771728 ACATGTGGTATTTTGTTTAAAAATTACTATAACACATCTATTAAATTATATATTAATTTTTAACA
1 ACATGTGATATTTTGTTTAAAAATTACTATAACACATCTATTAAATTACATATGAAATTTTAACA
* * * *
13771793 TAACATAAAATTAATCACATATTAAAGTATTAAAATATCATTACAATTGGTTTACAAAAATTTG
66 TAACATAAAATTAATCACATACTAAAGTACTAAAATATCATTACAATTGCTTAACAAAAATTTG
* *
13771857 ACATGTGATATTTTATTTAAAAATTACTATAATATCAT-TATTAAATTACATATGAAATTTTAAC
1 ACATGTGATATTTTGTTTAAAAATTACTATAACA-CATCTATTAAATTACATATGAAATTTTAAC
* * * * * ** *
13771921 ATCATATAAAATTAA-CTACATACTAAATTACTAAAATA-CCTTGGCCGTTGCTTAATAAAAATT
65 ATAACATAAAATTAATC-ACATACTAAAGTACTAAAATATCATT-ACAATTGCTTAACAAAAATT
13771984 TG
128 TG
*
13771986 ACATGTGAAATTTTGTTTAAA
1 ACATGTGATATTTTGTTTAAA
13772007 TCACTATAAT
Statistics
Matches: 127, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
128 4 0.03
129 120 0.94
130 3 0.02
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (129 bp):
ACATGTGATATTTTGTTTAAAAATTACTATAACACATCTATTAAATTACATATGAAATTTTAACA
TAACATAAAATTAATCACATACTAAAGTACTAAAATATCATTACAATTGCTTAACAAAAATTTG
Found at i:13773726 original size:39 final size:39
Alignment explanation
Indices: 13773660--13773734 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 39
13773650 GATTTGATCC
13773660 ATTTTTTACAAAAATAACAACACCTTACGAAA-AGAGGCT
1 ATTTTTTACAAAAATAACAACACCTTAC-AAATAGAGGCT
* * *
13773699 ATTTTTTACAAATATAACATTC-TCTTACAAATAGAG
1 ATTTTTTACAAAAATAACA-ACACCTTACAAATAGAG
13773735 TTGTGCATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
38 3 0.10
39 27 0.87
40 1 0.03
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (39 bp):
ATTTTTTACAAAAATAACAACACCTTACAAATAGAGGCT
Found at i:13779409 original size:14 final size:15
Alignment explanation
Indices: 13779345--13779412 Score: 61
Period size: 15 Copynumber: 4.6 Consensus size: 15
13779335 TTAAAAAAAA
13779345 TATTTTTTA-AAGTAT
1 TATTTTTTATAA-TAT
* *
13779360 TATTATTTATCATAT
1 TATTTTTTATAATAT
**
13779375 TATTCAATT-TAATAT
1 TATT-TTTTATAATAT
13779390 TATTTTTTATAATA-
1 TATTTTTTATAATAT
13779404 TATTTTTTA
1 TATTTTTTA
13779413 AGAAAATCTC
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
14 11 0.25
15 29 0.66
16 4 0.09
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (15 bp):
TATTTTTTATAATAT
Found at i:13779412 original size:27 final size:28
Alignment explanation
Indices: 13779344--13779414 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 28
13779334 ATTAAAAAAA
*
13779344 ATATTTTTTAAAGTATTATTATTTATCAT
1 ATATTTTTT-AAGTATTATTATTTATAAT
* *
13779373 ATTATTCAATTTAA-TATTATTTTTTATAAT
1 A-TATT--TTTTAAGTATTATTATTTATAAT
13779403 ATATTTTTTAAG
1 ATATTTTTTAAG
13779415 AAAATCTCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
27 5 0.15
29 5 0.15
30 19 0.56
31 2 0.06
32 3 0.09
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (28 bp):
ATATTTTTTAAGTATTATTATTTATAAT
Found at i:13779579 original size:15 final size:15
Alignment explanation
Indices: 13779561--13779591 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13779551 TTTTTATTCA
*
13779561 TTTTTATTTTATATT
1 TTTTTATTTCATATT
13779576 TTTTTATTTCATATT
1 TTTTTATTTCATATT
13779591 T
1 T
13779592 ATCATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTATTTCATATT
Found at i:13782461 original size:12 final size:12
Alignment explanation
Indices: 13782444--13782468 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13782434 CCTTCCTTTC
13782444 TATTTTGATTTT
1 TATTTTGATTTT
13782456 TATTTTGATTTT
1 TATTTTGATTTT
13782468 T
1 T
13782469 CTTTAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (12 bp):
TATTTTGATTTT
Found at i:13785902 original size:7 final size:7
Alignment explanation
Indices: 13785892--13785923 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
13785882 AATTTTTGAA
*
13785892 AAAAAAA
1 AAAAAAG
13785899 AAAAAAG
1 AAAAAAG
13785906 AAAAAAG
1 AAAAAAG
13785913 AAAAAAG
1 AAAAAAG
13785920 AAAA
1 AAAA
13785924 GACACCACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:13785918 original size:19 final size:18
Alignment explanation
Indices: 13785890--13785925 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
13785880 GTAATTTTTG
13785890 AAAAAAAAAAAAAAAGAA
1 AAAAAAAAAAAAAAAGAA
*
13785908 AAAAGAAAAAAGAAAAGA
1 AAAA-AAAAAAAAAAAGA
13785926 CACCACAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAAAAAAGAA
Found at i:13786363 original size:21 final size:21
Alignment explanation
Indices: 13786339--13786380 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13786329 GAAAGATGAT
13786339 GAAAAAAGAAAAAAAAAGAAA
1 GAAAAAAGAAAAAAAAAGAAA
* * *
13786360 GAAAGAAGAAAGAAAATGAAA
1 GAAAAAAGAAAAAAAAAGAAA
13786381 AAAGATTGAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (21 bp):
GAAAAAAGAAAAAAAAAGAAA
Found at i:13786368 original size:11 final size:11
Alignment explanation
Indices: 13786339--13786375 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
13786329 GAAAGATGAT
13786339 GAAAAAAGAAA
1 GAAAAAAGAAA
13786350 -AAAAAAGAAA
1 GAAAAAAGAAA
*
13786360 GAAAGAAGAAA
1 GAAAAAAGAAA
13786371 GAAAA
1 GAAAA
13786376 TGAAAAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
GAAAAAAGAAA
Found at i:13786369 original size:38 final size:38
Alignment explanation
Indices: 13786310--13786385 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
13786300 AACAATGAAT
* **
13786310 AAAAAAATGAAAAAAAAAAGAAAGATGATGAAAAAAGA
1 AAAAAAAAGAAAAAAAAAAGAAAGAAAATGAAAAAAGA
* *
13786348 AAAAAAAAGAAAGAAAGAAGAAAGAAAATGAAAAAAGA
1 AAAAAAAAGAAAAAAAAAAGAAAGAAAATGAAAAAAGA
13786386 TTGAGATTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (38 bp):
AAAAAAAAGAAAAAAAAAAGAAAGAAAATGAAAAAAGA
Found at i:13786381 original size:31 final size:28
Alignment explanation
Indices: 13786311--13786383 Score: 85
Period size: 27 Copynumber: 2.5 Consensus size: 28
13786301 ACAATGAATA
* *
13786311 AAAAAATGAAAAAAAAAAGAAAGATGATG
1 AAAAAATG-AAAAAAAAAGAAAGAAGAAG
13786340 AAAAAA-GAAAAAAAAAGAAAGAAAGAAG
1 AAAAAATGAAAAAAAAAGAAAG-AAGAAG
13786368 AAAGAAAATGAAAAAA
1 -AA-AAAATGAAAAAA
13786384 GATTGAGATT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
27 14 0.37
28 5 0.13
29 8 0.21
30 4 0.11
31 7 0.18
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.05
Consensus pattern (28 bp):
AAAAAATGAAAAAAAAAGAAAGAAGAAG
Found at i:13786385 original size:28 final size:30
Alignment explanation
Indices: 13786311--13786383 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
13786301 ACAATGAATA
*
13786311 AAAAAATG-AAAAAAA-AAAGAAAGATGATG
1 AAAAAATGAAAAAAAAGAAAGAAAGAAGA-G
13786340 AAAAAA-GAAAAAAAAAGAAAGAAAGAAGA-
1 AAAAAATG-AAAAAAAAGAAAGAAAGAAGAG
13786369 AAGAAAATGAAAAAA
1 AA-AAAATGAAAAAA
13786384 GATTGAGATT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
28 1 0.03
29 8 0.21
30 17 0.45
31 12 0.32
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.05
Consensus pattern (30 bp):
AAAAAATGAAAAAAAAGAAAGAAAGAAGAG
Found at i:13787651 original size:42 final size:41
Alignment explanation
Indices: 13787570--13788158 Score: 805
Period size: 42 Copynumber: 14.1 Consensus size: 41
13787560 GATTGTCAAA
13787570 GAGCAATTTACTTT-CAAAGTTCGT--TGCCTCTGTTTAGAG
1 GAGCAATTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAG
* * *
13787609 GAGCAATTTACATTTCAAAAGTCGTGGTACCTCTGTTGAGAG
1 GAGCAATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
13787651 GAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
13787692 GAGCAATTTACTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTCC-AAAGTCGTGGTGCCTCTGTTTAGAG
* * *
13787734 GAGCAATTTACATACATTTCAAAAGTCGTGGTACCTCTGTTGAGAG
1 GAGCAA-TT---TAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
13787780 GAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
13787821 GAGCAATTTACTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTCC-AAAGTCGTGGTGCCTCTGTTTAGAG
*
13787863 GAGCAATTTAATTTCCCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTT-CCAAAGTCGTGGTGCCTCTGTTTAGAG
* * *
13787905 AAGCAATTTACTTTTCAAAGTTCGT--CGCCTCTGTTTAGAG
1 GAGCAATTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAG
*
13787945 GAGCAATTTACTTTCCAAAAGTTGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTCC-AAAGTCGTGGTGCCTCTGTTTAGAG
* *
13787987 GAGCAATTTAATTTCTCAAAGTCGTTGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTC-CAAAGTCGTGGTGCCTCTGTTTAGAG
*
13788029 GAGCAATTTAATTTCCCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTACTTT-CCAAAGTCGTGGTGCCTCTGTTTAGAG
13788071 GAGCAATTTTACTTTCCAAAGTTCGT--TGCCTCTGTTTAGAG
1 GAGCAA-TTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAG
* * * *
13788112 GAGCAATTTATTTTGTTCAAAGTCGTTGAGCCTCTGTTTAGAG
1 GAGCAATTTA-CTT-TCCAAAGTCGTGGTGCCTCTGTTTAGAG
13788155 GAGC
1 GAGC
13788159 TTGGGTAAAA
Statistics
Matches: 497, Mismatches: 29, Indels: 44
0.87 0.05 0.08
Matches are distributed among these distances:
39 11 0.02
40 42 0.08
41 126 0.25
42 245 0.49
43 35 0.07
45 2 0.00
46 32 0.06
47 4 0.01
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (41 bp):
GAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
Found at i:13788192 original size:19 final size:18
Alignment explanation
Indices: 13788164--13788217 Score: 72
Period size: 19 Copynumber: 2.9 Consensus size: 18
13788154 GGAGCTTGGG
13788164 TAAAAAAAAACAAAAACA
1 TAAAAAAAAACAAAAACA
*
13788182 TAAACAAAAAAAAAAAACA
1 TAAA-AAAAAACAAAAACA
*
13788201 CAAAAAAAAAACAAAAA
1 -TAAAAAAAAACAAAAA
13788218 TAACAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 4 0.13
19 24 0.77
20 3 0.10
ACGTcount: A:0.85, C:0.11, G:0.00, T:0.04
Consensus pattern (18 bp):
TAAAAAAAAACAAAAACA
Found at i:13788192 original size:20 final size:20
Alignment explanation
Indices: 13788167--13788228 Score: 80
Period size: 18 Copynumber: 3.4 Consensus size: 20
13788157 GCTTGGGTAA
13788167 AAAAAAACAAAAACATAAAC
1 AAAAAAACAAAAACATAAAC
*
13788187 AAAAAAA-AAAAACACAAA-
1 AAAAAAACAAAAACATAAAC
13788205 AAAAAAAC-AAAA-AT-AAC
1 AAAAAAACAAAAACATAAAC
13788222 AAAAAAA
1 AAAAAAA
13788229 GTTGCCTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
16 2 0.05
17 8 0.21
18 11 0.29
19 10 0.26
20 7 0.18
ACGTcount: A:0.85, C:0.11, G:0.00, T:0.03
Consensus pattern (20 bp):
AAAAAAACAAAAACATAAAC
Found at i:13788205 original size:11 final size:11
Alignment explanation
Indices: 13788191--13788228 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
13788181 ATAAACAAAA
13788191 AAAAAAAACAC
1 AAAAAAAACAC
*
13788202 AAAAAAAAAAC
1 AAAAAAAACAC
*
13788213 AAAAATAACA-
1 AAAAAAAACAC
13788223 AAAAAA
1 AAAAAA
13788229 GTTGCCTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
10 5 0.22
11 18 0.78
ACGTcount: A:0.87, C:0.11, G:0.00, T:0.03
Consensus pattern (11 bp):
AAAAAAAACAC
Found at i:13788334 original size:15 final size:15
Alignment explanation
Indices: 13788316--13788354 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
13788306 TTTTTTTATT
13788316 AAAGAAAAAAAAGAA
1 AAAGAAAAAAAAGAA
*
13788331 AAAGAAAAAAATGAA
1 AAAGAAAAAAAAGAA
13788346 AAA-AAAAAA
1 AAAGAAAAAA
13788355 TCTAGTTGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (15 bp):
AAAGAAAAAAAAGAA
Found at i:13788525 original size:15 final size:15
Alignment explanation
Indices: 13788507--13788537 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13788497 TTTTTATTCA
*
13788507 TTTTTATTTTATATT
1 TTTTTATTTCATATT
13788522 TTTTTATTTCATATT
1 TTTTTATTTCATATT
13788537 T
1 T
13788538 ATCATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTATTTCATATT
Found at i:13791408 original size:12 final size:12
Alignment explanation
Indices: 13791391--13791415 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13791381 CCTTCCTTTC
13791391 TATTTTGATTTT
1 TATTTTGATTTT
13791403 TATTTTGATTTT
1 TATTTTGATTTT
13791415 T
1 T
13791416 CTTTAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (12 bp):
TATTTTGATTTT
Found at i:13792371 original size:11 final size:11
Alignment explanation
Indices: 13792355--13792392 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
13792345 GTTATAATTA
13792355 AAATTTATATG
1 AAATTTATATG
*
13792366 AAATTTATA-A
1 AAATTTATATG
13792376 AAATTTTATATG
1 AAA-TTTATATG
13792388 AAATT
1 AAATT
13792393 CACATTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 3 0.13
11 17 0.74
12 3 0.13
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (11 bp):
AAATTTATATG
Found at i:13796057 original size:24 final size:24
Alignment explanation
Indices: 13795985--13796057 Score: 60
Period size: 24 Copynumber: 3.0 Consensus size: 24
13795975 TACTTATTTC
* *
13795985 AATTAAATTTGTTATTAAAATGTTAA
1 AATTAAATTT-TAATTAAAAT-ATAA
* *
13796011 AA--ATATTTTATATTAATATTATAA
1 AATTAAATTTTA-ATTAA-AATATAA
13796035 AATTAAATTTTAATTAAAATATA
1 AATTAAATTTTAATTAAAATATA
13796058 TTATTTATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
23 1 0.03
24 20 0.54
25 7 0.19
26 9 0.24
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.47
Consensus pattern (24 bp):
AATTAAATTTTAATTAAAATATAA
Found at i:13798664 original size:513 final size:513
Alignment explanation
Indices: 13797697--13798722 Score: 1971
Period size: 513 Copynumber: 2.0 Consensus size: 513
13797687 ATTCATGATA
13797697 AACTTGCTTTATCTTTCTTTTACGTTCAAATCAATTGTTGTTTTAGAAAAAGGTGTTGCATATCA
1 AACTTGCTTTATCTTTCTTTTACGTTCAAATCAATTGTTGTTTTAGAAAAAGGTGTTGCATATCA
13797762 TTTGCTTTAATATGAACTATTAATTATTCATTGGCATTGAATAGGATTGAATAATTTGACAAATT
66 TTTGCTTTAATATGAACTATTAATTATTCATTGGCATTGAATAGGATTGAATAATTTGACAAATT
13797827 TGAAGAACTTGGATTTAAGCAGAAATAGAATTGAAAGCTTTCAACCATCAAAGCAAGGTATAAAT
131 TGAAGAACTTGGATTTAAGCAGAAATAGAATTGAAAGCTTTCAACCATCAAAGCAAGGTATAAAT
*
13797892 ATATATTTCAATTCACTTAATTAAGTTCTTATTTATGTGATCAATGCATAAAATTTCCGATTAAC
196 ATATATTTCAATTCACTTAATTAAGTTCTTATTTACGTGATCAATGCATAAAATTTCCGATTAAC
13797957 AATGGCATATAATAGAAATATTCTTCTACAGGAAAGGAGATGCAACTAAGGATGACCAATTTGGA
261 AATGGCATATAATAGAAATATTCTTCTACAGGAAAGGAGATGCAACTAAGGATGACCAATTTGGA
*
13798022 GGTTCTTGATTTAAGTAGTAATCTCTTCAAGAACGACACTTTTGCCTTCCTTTCTGGCCTTCCAA
326 GGTTCTTGATTTAAGTAGTAATCTCTTCAAGAACGACACTTTTGCATTCCTTTCTGGCCTTCCAA
*
13798087 GTCTAAAGTCTCTGAATATGGGGGACAACCAATTGCAAGGCTCAATAGATATTGAAGGTAAAGCT
391 GTCTAAAGTCCCTGAATATGGGGGACAACCAATTGCAAGGCTCAATAGATATTGAAGGTAAAGCT
* * * *
13798152 ATTACAGCTTTTTTTTTTTTTTAATTCTGTTTTTGAACCTTTTTGCTCATCAAATAGG
456 ATTACAGCTTCTTCTTTTTTTTAATTCTGTTTTAGAACCTTTTTGCTCATAAAATAGG
13798210 AACTTGCTTTATCTTTCTTTTACGTTCAAATCAATTGTTGTTTTAGAAAAAGGTGTTGCATATCA
1 AACTTGCTTTATCTTTCTTTTACGTTCAAATCAATTGTTGTTTTAGAAAAAGGTGTTGCATATCA
13798275 TTTGCTTTAATATGAACTATTAATTATTCATTGGCATTGAATAGGATTGAATAATTTGACAAATT
66 TTTGCTTTAATATGAACTATTAATTATTCATTGGCATTGAATAGGATTGAATAATTTGACAAATT
13798340 TGAAGAACTTGGATTTAAGCAGAAATAGAATTGAAAGCTTTCAACCATCAAAGCAAGGTATAAAT
131 TGAAGAACTTGGATTTAAGCAGAAATAGAATTGAAAGCTTTCAACCATCAAAGCAAGGTATAAAT
13798405 ATATATTTCAATTCACTTAATTAAGTTCTTATTTACGTGATCAATGCATAAAATTTCCGATTAAC
196 ATATATTTCAATTCACTTAATTAAGTTCTTATTTACGTGATCAATGCATAAAATTTCCGATTAAC
13798470 AATGGCATATAATAGAAATATTCTTCTACAGGAAAGGAGATGCAACTAAGGATGACCAATTTGGA
261 AATGGCATATAATAGAAATATTCTTCTACAGGAAAGGAGATGCAACTAAGGATGACCAATTTGGA
13798535 GGTTCTTGATTTAAGTAGTAATCTCTTCAAGAACGACACTTTTGCATTCCTTTCTGGCCTTCCAA
326 GGTTCTTGATTTAAGTAGTAATCTCTTCAAGAACGACACTTTTGCATTCCTTTCTGGCCTTCCAA
* *
13798600 GTCTAGAGTCCCTGAATATGGGGGAGAACCAATTGCAAGGCTCAATAGATATTGAAGGTAAAGCT
391 GTCTAAAGTCCCTGAATATGGGGGACAACCAATTGCAAGGCTCAATAGATATTGAAGGTAAAGCT
13798665 ATTACAGCTTCTTCTTTTTTTTAATTCTGTTTTAGAACCTTTTTGCTCATAAAATAGG
456 ATTACAGCTTCTTCTTTTTTTTAATTCTGTTTTAGAACCTTTTTGCTCATAAAATAGG
13798723 TAAAATCTCA
Statistics
Matches: 504, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
513 504 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (513 bp):
AACTTGCTTTATCTTTCTTTTACGTTCAAATCAATTGTTGTTTTAGAAAAAGGTGTTGCATATCA
TTTGCTTTAATATGAACTATTAATTATTCATTGGCATTGAATAGGATTGAATAATTTGACAAATT
TGAAGAACTTGGATTTAAGCAGAAATAGAATTGAAAGCTTTCAACCATCAAAGCAAGGTATAAAT
ATATATTTCAATTCACTTAATTAAGTTCTTATTTACGTGATCAATGCATAAAATTTCCGATTAAC
AATGGCATATAATAGAAATATTCTTCTACAGGAAAGGAGATGCAACTAAGGATGACCAATTTGGA
GGTTCTTGATTTAAGTAGTAATCTCTTCAAGAACGACACTTTTGCATTCCTTTCTGGCCTTCCAA
GTCTAAAGTCCCTGAATATGGGGGACAACCAATTGCAAGGCTCAATAGATATTGAAGGTAAAGCT
ATTACAGCTTCTTCTTTTTTTTAATTCTGTTTTAGAACCTTTTTGCTCATAAAATAGG
Found at i:13808733 original size:2 final size:2
Alignment explanation
Indices: 13808726--13808751 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13808716 GATGTTTTCA
13808726 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
13808752 GCAAAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13808933 original size:4 final size:4
Alignment explanation
Indices: 13808924--13809053 Score: 77
Period size: 4 Copynumber: 30.8 Consensus size: 4
13808914 TTTTATGTAT
* * * *
13808924 TTTA TTTA TTTA -TTA TTACTA TGTA TTAA TATC TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TT--TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * *
13808973 TTTA TTTA TTTA TTAATA TTTA TATGTA TTTTA TTTA TATA GTTA TATA
1 TTTA TTTA TTTA TT--TA TTTA T-T-TA -TTTA TTTA TTTA TTTA TTTA
*
13809022 TTTA -TTA TTATA TTATAA TTTA TGTA -TTA TTT
1 TTTA TTTA TT-TA TT-T-A TTTA TTTA TTTA TTT
13809054 TTTTCTTGTA
Statistics
Matches: 98, Mismatches: 16, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
3 8 0.08
4 66 0.67
5 10 0.10
6 13 0.13
7 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (4 bp):
TTTA
Found at i:13809052 original size:45 final size:44
Alignment explanation
Indices: 13808925--13809053 Score: 120
Period size: 41 Copynumber: 2.9 Consensus size: 44
13808915 TTTATGTATT
* * *
13808925 TTATTTATTTATTATTACTATGTATTAATATCTTTATTTATTTATTTAT
1 TTATTTATTTATTATTA-TAT-TA-TAATAT-ATTA-TTATTTATATAG
* *
13808974 TTATTTATTTATTAATAT-TTAT-ATGTATT-TTATTTATATAG
1 TTATTTATTTATTATTATATTATAATATATTATTATTTATATAG
* *
13809015 TTATATATTTATTATTATATTATAATTTATGTATTATTT
1 TTATTTATTTATTATTATATTATAATATAT-TATTATTT
13809054 TTTTCTTGTA
Statistics
Matches: 68, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
41 26 0.38
42 4 0.06
43 7 0.10
44 4 0.06
45 7 0.10
46 2 0.03
47 1 0.01
48 1 0.01
49 16 0.24
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (44 bp):
TTATTTATTTATTATTATATTATAATATATTATTATTTATATAG
Found at i:13809068 original size:16 final size:16
Alignment explanation
Indices: 13809044--13809074 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13809034 TTATAATTTA
*
13809044 TGTATTATTTTTTTCT
1 TGTAATATTTTTTTCT
13809060 TGTAATATTTTTTTC
1 TGTAATATTTTTTTC
13809075 AGATTTTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.06, G:0.06, T:0.71
Consensus pattern (16 bp):
TGTAATATTTTTTTCT
Found at i:13809910 original size:18 final size:18
Alignment explanation
Indices: 13809874--13809911 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
13809864 TGTCCCCCTT
*
13809874 CGAGCCGAGCTTCCGAGC
1 CGAGCCGAGCTTCCAAGC
*
13809892 CGAGCCGAGCTTTCAAGC
1 CGAGCCGAGCTTCCAAGC
13809910 CG
1 CG
13809912 CTCTCCCAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.37, G:0.32, T:0.13
Consensus pattern (18 bp):
CGAGCCGAGCTTCCAAGC
Found at i:13810049 original size:6 final size:6
Alignment explanation
Indices: 13810028--13810101 Score: 57
Period size: 6 Copynumber: 12.7 Consensus size: 6
13810018 TTTAATATTC
* *
13810028 TTTTTA TCTTTA -TTTTA TTTTTA TTTTTTA TTTTT- CTTTT- TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA
* * *
13810074 TTTTT- TTATTTA TGTTCA CTTTTA TTTT
1 TTTTTA TT-TTTA TTTTTA TTTTTA TTTT
13810102 GTTTTATTAT
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
5 14 0.26
6 32 0.60
7 7 0.13
ACGTcount: A:0.14, C:0.05, G:0.01, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:13810054 original size:23 final size:23
Alignment explanation
Indices: 13810028--13810101 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
13810018 TTTAATATTC
*
13810028 TTTTTATCTTTATTTTATTTTTA
1 TTTTTATATTTATTTTATTTTTA
* *
13810051 TTTTT-TATTTTTCTTTTTTTTTA
1 TTTTTATATTTAT-TTTATTTTTA
* * *
13810074 TTTTTTTATTTATGTTCACTTTTA
1 TTTTTATATTTAT-TTTATTTTTA
13810098 TTTT
1 TTTT
13810102 GTTTTATTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
22 5 0.12
23 19 0.46
24 17 0.41
ACGTcount: A:0.14, C:0.05, G:0.01, T:0.80
Consensus pattern (23 bp):
TTTTTATATTTATTTTATTTTTA
Found at i:13810067 original size:11 final size:11
Alignment explanation
Indices: 13810029--13810106 Score: 59
Period size: 11 Copynumber: 6.8 Consensus size: 11
13810019 TTAATATTCT
*
13810029 TTTTATCTTTA
1 TTTTATTTTTA
13810040 TTTTATTTTTA
1 TTTTATTTTTA
*
13810051 TTTTTTATTTTTC
1 --TTTTATTTTTA
13810064 TTTT-TTTTTA
1 TTTTATTTTTA
*
13810074 TTTTTTTATTTA
1 TTTTATT-TTTA
* *
13810086 TGTTCACTTTTA
1 T-TTTATTTTTA
*
13810098 TTTTGTTTT
1 TTTTATTTT
13810107 ATTATTCTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
10 9 0.17
11 21 0.40
12 10 0.19
13 13 0.25
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:13810067 original size:24 final size:24
Alignment explanation
Indices: 13810023--13810084 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 24
13810013 GTTTATTTAA
*
13810023 TATTCTTTTTATCTTTATTTTATTTT
1 TATT-TTTTTATTTTTATTTT-TTTT
*
13810049 TA-TTTTTTATTTTTCTTTTTTTT
1 TATTTTTTTATTTTTATTTTTTTT
13810072 TATTTTTTTATTT
1 TATTTTTTTATTT
13810085 ATGTTCACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 6 0.18
24 24 0.73
25 1 0.03
26 2 0.06
ACGTcount: A:0.13, C:0.05, G:0.00, T:0.82
Consensus pattern (24 bp):
TATTTTTTTATTTTTATTTTTTTT
Found at i:13810095 original size:29 final size:28
Alignment explanation
Indices: 13810036--13810118 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 28
13810026 TCTTTTTATC
* **
13810036 TTTATTTTATTTTTATTTTTTATTTTTCT
1 TTTATTTTATTTTT-TTATTTATTTCACT
*
13810065 TTTTTTTTATTTTTTTATTTATGTTCACT
1 TTTATTTTATTTTTTTATTTAT-TTCACT
* *
13810094 TTTATTTTGTTTTATTATTCTATTT
1 TTTATTTTATTTTTTTATT-TATTT
13810119 TCTTTAAATA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
28 7 0.16
29 35 0.78
30 3 0.07
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.78
Consensus pattern (28 bp):
TTTATTTTATTTTTTTATTTATTTCACT
Found at i:13810499 original size:56 final size:55
Alignment explanation
Indices: 13810136--13810748 Score: 831
Period size: 58 Copynumber: 10.7 Consensus size: 55
13810126 ATAAAAATAA
*
13810136 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAATTTTC
1 AAAAAAA-ATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTC
** * *
13810194 AAAAAAGGTTTTTGAGGAAAAGTTGAAAGTTTCAATTTTCCTTGAAAATCAAAGTTTCC
1 AAAAAAAATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTT-C
13810253 AAAAAAAATAATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCC
1 --AAAAAA-AATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT-C
13810313 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
1 AAAAAAA-ATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTC
* * * *
13810371 AAAAAAAGGGGTTTTTGAGAAAAGATTAAAAGTATCAATTTTCCTTGAAAATCAAAATTTC
1 AAAAAAA---ATTTTTGGGAAAAG-TTGAAAGTATCAATTTTCCTTAAAAAT--AAATTTC
*
13810432 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
1 AAAAAAAATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
*
13810488 AAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAATTTC
1 AAAAAAAATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTC
*
13810545 AAAAAAAATATTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
1 AAAAAAAAT-TTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
13810601 -AAAAAAATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA-AAATTTC
1 AAAAAAAATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
13810654 AAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT--ATTTC
1 -AAAAAAA-ATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
*
13810709 -AAAAAATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCT
1 AAAAAAAATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCT
13810749 GCACAAAACA
Statistics
Matches: 510, Mismatches: 24, Indels: 48
0.88 0.04 0.08
Matches are distributed among these distances:
52 33 0.06
53 13 0.03
54 37 0.07
55 20 0.04
56 100 0.20
57 88 0.17
58 102 0.20
59 21 0.04
60 35 0.07
61 23 0.05
62 37 0.07
63 1 0.00
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (55 bp):
AAAAAAAATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
Found at i:13810787 original size:6 final size:6
Alignment explanation
Indices: 13810772--13810804 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
13810762 TTTTCCTTCC
13810772 TTTT-A TTTTGA TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
13810805 TAAATAATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.73
Consensus pattern (6 bp):
TTTTGA
Found at i:13814660 original size:30 final size:30
Alignment explanation
Indices: 13814624--13814711 Score: 80
Period size: 25 Copynumber: 3.0 Consensus size: 30
13814614 ATCAACAATG
13814624 GATGAAAAATGAAAAAAAAGAAAAAAAGAT
1 GATGAAAAATGAAAAAAAAGAAAAAAAGAT
13814654 GATG---AA--AAAAAAAAGAAAAAAAGAAT
1 GATGAAAAATGAAAAAAAAGAAAAAAAG-AT
* *
13814680 GAATGAGAAAATG-AGAAAATGAAAAAAGAGAT
1 G-ATGA-AAAATGAAAAAAAAGAAAAAA-AGAT
13814712 TCAAATTGAA
Statistics
Matches: 47, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
25 17 0.36
26 3 0.06
27 5 0.11
30 4 0.09
31 2 0.04
32 14 0.30
33 2 0.04
ACGTcount: A:0.70, C:0.00, G:0.19, T:0.10
Consensus pattern (30 bp):
GATGAAAAATGAAAAAAAAGAAAAAAAGAT
Found at i:13814681 original size:26 final size:26
Alignment explanation
Indices: 13814635--13814690 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 26
13814625 ATGAAAAATG
13814635 AAAAAAAAGAAAAAAAGATG-ATGAA
1 AAAAAAAAGAAAAAAAGATGAATGAA
*
13814660 AAAAAAAAGAAAAAAAGAATGAATGAG
1 AAAAAAAAGAAAAAAAG-ATGAATGAA
13814687 AAAA
1 AAAA
13814691 TGAGAAAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 17 0.61
26 3 0.11
27 8 0.29
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (26 bp):
AAAAAAAAGAAAAAAAGATGAATGAA
Found at i:13816069 original size:43 final size:42
Alignment explanation
Indices: 13815948--13816165 Score: 262
Period size: 43 Copynumber: 5.1 Consensus size: 42
13815938 ATGATTGTCA
13815948 AGGAGCAATTTACTTTTCCAAAGTTTCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAG--TCGTGGTGCCTCTGTTTAG
* * *
13815990 AGGGGCAATTTA-TTTTTCAAAGTCGTAGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* *
13816031 AGGAGCAATTTACTTTCCCAAAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCC-AAAGTCGTGGTGCCTCTGTTTAG
* * *
13816074 AGGAGTAATTTACTTTCCCAAAAGTCGTGGTGCCTTTGTTTAG
1 AGGAGCAATTTACTTTTCC-AAAGTCGTGGTGCCTCTGTTTAG
* * * *
13816117 AGGAGCAATTTATTTTGTTCAAAGTCGTTGAGCCTCTGTTTAG
1 AGGAGCAATTTACTTT-TCCAAAGTCGTGGTGCCTCTGTTTAG
13816160 AGGAGC
1 AGGAGC
13816166 TTTGGTAAAA
Statistics
Matches: 154, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
39 4 0.03
41 33 0.21
42 15 0.10
43 101 0.66
44 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (42 bp):
AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:13816178 original size:1 final size:1
Alignment explanation
Indices: 13816172--13816232 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
13816162 GAGCTTTGGT
* * * ** * * *
13816172 AAAAAAAAAAAAACAAAAACAAAAACAAAAGCACAAAAAAAAATAAAAAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13816233 TGAAAATATT
Statistics
Matches: 45, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.87, C:0.10, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:13816183 original size:6 final size:6
Alignment explanation
Indices: 13816174--13816232 Score: 66
Period size: 6 Copynumber: 9.8 Consensus size: 6
13816164 GCTTTGGTAA
* * * *
13816174 AAAAAA AAAAAC AAAAAC AAAAAC AAAAGC ACAAAA- AAAAAT AAAAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC A-AAAAC AAAAAC AAAAAC
13816222 AAAAAC AAAAA
1 AAAAAC AAAAA
13816233 TGAAAATATT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
5 4 0.09
6 39 0.85
7 3 0.07
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.02
Consensus pattern (6 bp):
AAAAAC
Found at i:13816450 original size:4 final size:4
Alignment explanation
Indices: 13816441--13816543 Score: 66
Period size: 4 Copynumber: 24.5 Consensus size: 4
13816431 TTTTATGTAT
* * * *
13816441 TTTA TTTA TTTA -TTA TTACTA TGTA TTAA TATC TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TT--TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * *
13816490 TTTA TTT- TTTA TTAATA TTTA TATGTA TTTTA TTTA TATA GTTA TATA
1 TTTA TTTA TTTA TT--TA TTTA T-T-TA -TTTA TTTA TTTA TTTA TTTA
13816538 TTTA TT
1 TTTA TT
13816544 GTTATATTAT
Statistics
Matches: 76, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
3 6 0.08
4 56 0.74
5 3 0.04
6 10 0.13
7 1 0.01
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:13816539 original size:21 final size:21
Alignment explanation
Indices: 13816469--13816540 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
13816459 CTATGTATTA
*
13816469 ATATCTTTATTTATTTATTTAT
1 ATAT-TTTATTTATATATTTAT
* *
13816491 TTATTTTTTATTA-ATATTTAT
1 ATATTTTAT-TTATATATTTAT
*
13816512 ATGTATTTTATTTATATAGTTAT
1 A--TATTTTATTTATATATTTAT
13816535 ATATTT
1 ATATTT
13816541 ATTGTTATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
21 16 0.40
22 9 0.22
23 15 0.38
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (21 bp):
ATATTTTATTTATATATTTAT
Done.