Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 57 of 182
Found at i:17594038 original size:19 final size:19
Alignment explanation
Indices: 17594000--17594039 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
17593990 AAAATATCAT
*
17594000 ATTAATTTTAATTGATTTG
1 ATTAATTTTAATTGAATTG
* *
17594019 ATTAATTTTATTTTAATTG
1 ATTAATTTTAATTGAATTG
17594038 AT
1 AT
17594040 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (19 bp):
ATTAATTTTAATTGAATTG
Found at i:17596242 original size:17 final size:17
Alignment explanation
Indices: 17596220--17596271 Score: 62
Period size: 12 Copynumber: 3.4 Consensus size: 17
17596210 GAAATAAAAC
17596220 AAAAACTAAATTGAATG
1 AAAAACTAAATTGAATG
17596237 AAAAAC----TT-AATG
1 AAAAACTAAATTGAATG
17596249 AAAAACTAAATTGAAT-
1 AAAAACTAAATTGAATG
17596265 AAAAACT
1 AAAAACT
17596272 GAATAGATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 11
0.73 0.00 0.27
Matches are distributed among these distances:
12 10 0.33
13 2 0.07
16 9 0.30
17 9 0.30
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (17 bp):
AAAAACTAAATTGAATG
Found at i:17596283 original size:28 final size:29
Alignment explanation
Indices: 17596220--17596275 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
17596210 GAAATAAAAC
*
17596220 AAAAACTAAATTGAATGAAAAACTTAATG
1 AAAAACTAAATTGAATGAAAAACTGAATG
17596249 AAAAACTAAATTGAAT-AAAAACTGAAT
1 AAAAACTAAATTGAATGAAAAACTGAAT
17596276 AGATAACTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 10 0.38
29 16 0.62
ACGTcount: A:0.61, C:0.07, G:0.09, T:0.23
Consensus pattern (29 bp):
AAAAACTAAATTGAATGAAAAACTGAATG
Found at i:17599663 original size:14 final size:15
Alignment explanation
Indices: 17599614--17599665 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
17599604 ATAAAATATA
17599614 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
17599629 TATTAAATATATTAT
1 AATTAAATATATTAT
17599644 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
17599657 AATTTAATA
1 AATTAAATA
17599666 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:17599774 original size:120 final size:120
Alignment explanation
Indices: 17599561--17599790 Score: 390
Period size: 120 Copynumber: 1.9 Consensus size: 120
17599551 NNNNNNNNNN
* *
17599561 AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATTAACATAAT
1 AATATTCTTATATGAATTTACTCAAATCATAATATATGATACCATAAAAGATAAATTAACATAAT
*
17599626 TATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATT
66 TAATATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATT
*
17599681 AATATTCTTATATGAATTTACTCAAATCATAATATATGATACCATAAAAGATAATTTGAA-ATAA
1 AATATTCTTATATGAATTTACTCAAATCATAATATATGATACCATAAAAGATAAATT-AACATAA
* *
17599745 TTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
65 TTAATATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
17599791 TAAAATAATT
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
120 101 0.98
121 2 0.02
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.42
Consensus pattern (120 bp):
AATATTCTTATATGAATTTACTCAAATCATAATATATGATACCATAAAAGATAAATTAACATAAT
TAATATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATT
Found at i:17599860 original size:26 final size:28
Alignment explanation
Indices: 17599831--17599891 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
17599821 CATGAATTTG
*
17599831 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
17599857 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
17599885 TAAAATT
1 TATAATT
17599892 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:17605144 original size:27 final size:26
Alignment explanation
Indices: 17605113--17605175 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
17605103 AAAAAGAAAT
17605113 ATTTAAAAATA-TATATAT-ACAAAACA
1 ATTTAAAAATACTATATATGA-AAAA-A
* *
17605139 ATTTTAAAATACTATGTATGAAAAAA
1 ATTTAAAAATACTATATATGAAAAAA
17605165 ATTTAAAAATA
1 ATTTAAAAATA
17605176 AGTAATATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 21 0.66
27 10 0.31
28 1 0.03
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (26 bp):
ATTTAAAAATACTATATATGAAAAAA
Found at i:17609991 original size:19 final size:18
Alignment explanation
Indices: 17609969--17610007 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
17609959 TTTTAAATTT
17609969 TTTTATATATTCTTTAGAC
1 TTTTATATATT-TTTAGAC
* *
17609988 TTTTTTATATTTTTTGAC
1 TTTTATATATTTTTAGAC
17610006 TT
1 TT
17610008 GTAAAGTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.21, C:0.08, G:0.05, T:0.67
Consensus pattern (18 bp):
TTTTATATATTTTTAGAC
Found at i:17609991 original size:21 final size:20
Alignment explanation
Indices: 17609950--17610002 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
17609940 GATTTAGGGG
*
17609950 TTTT-TATATTTTTAAATTT
1 TTTTATATATTTTTAAACTT
*
17609969 TTTTATATATTCTTTAGACTT
1 TTTTATATATT-TTTAAACTT
17609990 TTTTATAT-TTTTT
1 TTTTATATATTTTT
17610003 GACTTGTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 7 0.23
20 8 0.27
21 15 0.50
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTTATATATTTTTAAACTT
Found at i:17624970 original size:51 final size:50
Alignment explanation
Indices: 17624894--17624995 Score: 177
Period size: 51 Copynumber: 2.0 Consensus size: 50
17624884 TGTAGTTATA
*
17624894 TGGGCTTTGTAAATGAAGGGAAAGAGTACTTTGATTCCCTGACCAATGTT
1 TGGGCTTTGTAAATGAAAGGAAAGAGTACTTTGATTCCCTGACCAATGTT
*
17624944 NTGGGCTTTTTAAATGAAAGGAAAGAGTACTTTGATTCCCTGACCAATGTT
1 -TGGGCTTTGTAAATGAAAGGAAAGAGTACTTTGATTCCCTGACCAATGTT
17624995 T
1 T
17624996 TTGGAATAGT
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
50 1 0.02
51 48 0.98
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.33
Consensus pattern (50 bp):
TGGGCTTTGTAAATGAAAGGAAAGAGTACTTTGATTCCCTGACCAATGTT
Found at i:17627710 original size:26 final size:26
Alignment explanation
Indices: 17627681--17627759 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 26
17627671 GATAATCCTA
17627681 AATTACTAATAAATTAATTTTAAAAT
1 AATTACTAATAAATTAATTTTAAAAT
*
17627707 AATTAC-ATATAACA-TAATATT---A-
1 AATTACTA-ATAA-ATTAATTTTAAAAT
*
17627729 AATTACTAACAAATTAATTTTAAAAT
1 AATTACTAATAAATTAATTTTAAAAT
17627755 AATTA
1 AATTA
17627760 TAAAAAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
21 1 0.02
22 15 0.36
23 2 0.05
25 2 0.05
26 21 0.50
27 1 0.02
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.39
Consensus pattern (26 bp):
AATTACTAATAAATTAATTTTAAAAT
Found at i:17627724 original size:48 final size:48
Alignment explanation
Indices: 17627666--17627759 Score: 152
Period size: 48 Copynumber: 2.0 Consensus size: 48
17627656 CACAATAATT
* * *
17627666 TATAAGATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTACA
1 TATAACATAATACTAAATTACTAACAAATTAATTTTAAAATAATTACA
*
17627714 TATAACATAATATTAAATTACTAACAAATTAATTTTAAAATAATTA
1 TATAACATAATACTAAATTACTAACAAATTAATTTTAAAATAATTA
17627760 TAAAAAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.53, C:0.07, G:0.01, T:0.38
Consensus pattern (48 bp):
TATAACATAATACTAAATTACTAACAAATTAATTTTAAAATAATTACA
Found at i:17629824 original size:45 final size:44
Alignment explanation
Indices: 17629687--17629826 Score: 113
Period size: 45 Copynumber: 3.2 Consensus size: 44
17629677 ACAGATCAGT
17629687 GAAGATAGCAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATC
1 GAAGATAGCAGATCTTG-CTTCCTACATTGACAGCGAAGCAGATC
* * * * * * *** * * * *
17629732 GAGGACACCAG-CCTTACCTCCATTGGTTG-CAGTGGAGCAGGTT
1 GAAGATAGCAGATCTTGCTTCC-TACATTGACAGCGAAGCAGATC
*
17629775 GAAGATAGCAGATCTTGCATTCCTACATTGACAGCAAAGCAGATC
1 GAAGATAGCAGATCTTGC-TTCCTACATTGACAGCGAAGCAGATC
17629820 GAAGATA
1 GAAGATA
17629827 CCAATTTTAT
Statistics
Matches: 64, Mismatches: 27, Indels: 8
0.65 0.27 0.08
Matches are distributed among these distances:
43 22 0.34
44 15 0.23
45 27 0.42
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.22
Consensus pattern (44 bp):
GAAGATAGCAGATCTTGCTTCCTACATTGACAGCGAAGCAGATC
Found at i:17629852 original size:88 final size:88
Alignment explanation
Indices: 17629686--17629855 Score: 232
Period size: 88 Copynumber: 1.9 Consensus size: 88
17629676 AACAGATCAG
* * * *
17629686 TGAAGATAGCAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAGGACACCAGCCTTACCT
1 TGAAGATAGCAGATCTTGCATTCCTACATTGACAGCAAAGCAGATCGAAGACACCAACCTTACCT
* **
17629751 CCATTGGTTGCAGTGGAGCAGGT
66 CCATGGGCAGCAGTGGAGCAGGT
* ** *
17629774 TGAAGATAGCAGATCTTGCATTCCTACATTGACAGCAAAGCAGATCGAAGATACCAATTTTATCT
1 TGAAGATAGCAGATCTTGCATTCCTACATTGACAGCAAAGCAGATCGAAGACACCAACCTTACCT
*
17629839 CCCTGGGCAGCAGTGGA
66 CCATGGGCAGCAGTGGA
17629856 ATAGATTGAA
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
88 70 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (88 bp):
TGAAGATAGCAGATCTTGCATTCCTACATTGACAGCAAAGCAGATCGAAGACACCAACCTTACCT
CCATGGGCAGCAGTGGAGCAGGT
Found at i:17629887 original size:44 final size:45
Alignment explanation
Indices: 17629837--17629954 Score: 141
Period size: 44 Copynumber: 2.6 Consensus size: 45
17629827 CCAATTTTAT
* * *
17629837 CTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTGAGTCCT-AT
1 CTCCCTGGGCAGCAGTGGAATAGATTGAAGATGGTGAATCCTAAA
* * *
17629881 TTCCCTGGTCAGCAGTGGAATATG-TTGAAGATGGTGAATTCTAAA
1 CTCCCTGGGCAGCAGTGGAATA-GATTGAAGATGGTGAATCCTAAA
* *
17629926 CTCCCTGGGCAGCAATGGAATATATTGAA
1 CTCCCTGGGCAGCAGTGGAATAGATTGAA
17629955 AATTACAGAT
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
44 35 0.57
45 26 0.43
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (45 bp):
CTCCCTGGGCAGCAGTGGAATAGATTGAAGATGGTGAATCCTAAA
Found at i:17630085 original size:88 final size:88
Alignment explanation
Indices: 17629983--17630181 Score: 251
Period size: 88 Copynumber: 2.3 Consensus size: 88
17629973 CCTAAGCAGT
** * * * *
17629983 AGTGAAGCAGATCGAAGATTTCAGCCTTGCCTCTCTGGTTTGCAGTAGAGTAGGTTGAAA-ATAG
1 AGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGCAGCAGAGCAGGTT-AAAGATAG
* * *
17630047 TAGATCTTGCCTTTC-T-ATACTGAC
65 CAGATCTTGCATTCCTTCATA--GAC
*
17630071 AGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCAGAGCAGGTTAAAGATAGC
1 AGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGCAGCAGAGCAGGTTAAAGATAGC
17630136 AGATCTTGCATTCCTTCATAGAC
66 AGATCTTGCATTCCTTCATAGAC
*
17630159 AGCGAAGCAGATCGAAGATACCA
1 AGTGAAGCAGATCGAAGATACCA
17630182 ATTCTATCTC
Statistics
Matches: 96, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
87 3 0.03
88 89 0.93
89 1 0.01
90 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.25
Consensus pattern (88 bp):
AGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGCAGCAGAGCAGGTTAAAGATAGC
AGATCTTGCATTCCTTCATAGAC
Found at i:17630220 original size:88 final size:87
Alignment explanation
Indices: 17629686--17630220 Score: 191
Period size: 88 Copynumber: 6.1 Consensus size: 87
17629676 AACAGATCAG
* * * * * *
17629686 TGAAGATAGCAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAGGACACCAGCCTTACCT
1 TGAAGATAGCAGATCTTGCATTCCTTCATAGACAGCGAAGCAGATCGAAGATACCAGCC-TATCT
* * ** ** *
17629751 CCATTGGTTGCAGTGGAGCAGGT
65 CCCTGGGCAGCAGTGGAATAGAT
* * * ***
17629774 TGAAGATAGCAGATCTTGCATTCCTACATTGACAGCAAAGCAGATCGAAGATACCAATTTTATCT
1 TGAAGATAGCAGATCTTGCATTCCTTCATAGACAGCGAAGCAGATCGAAGATACC-AGCCTATCT
17629839 CCCTGGGCAGCAGTGGAATAGAT
65 CCCTGGGCAGCAGTGGAATAGAT
* * * * ** * * * *** **
17629862 TGAAGATTG-TGAGTCCT--ATTTCCCTGGTCAG-CAGTGGAA-TATG-TTGAAGATGGTGAATT
1 TGAAGATAGCAGA-TCTTGCA-TTCCTTCAT-AGACAG-CGAAGCA-GATCGAAGAT--ACCAGC
* * *
17629921 CTAAACTCCCTGGGCAGCAATGGAATATAT
59 CT-ATCTCCCTGGGCAGCAGTGGAATAGAT
* * * * **
17629951 TGAAAATTA-CAGATCTT--ATCTCCCT-A-AGCAGTAGTGAAGCAGATCGAAGATTTCAGCCT-
1 TGAAGA-TAGCAGATCTTGCAT-TCCTTCATAG-A-CAGCGAAGCAGATCGAAGATACCAGCCTA
* *** * * *
17630010 TGCCTCTCTGGTTTGCAGTAGAGTAGGT
62 T--CTCCCTGGGCAGCAGTGGAATAGAT
* * * * * *
17630038 TGAAAATAGTAGATCTTGCCTTTC-T-ATACTGACAGTGAAGCAGATCGAAGACACCAGCCT-TG
1 TGAAGATAGCAGATCTTGCATTCCTTCATA--GACAGCGAAGCAGATCGAAGATACCAGCCTAT-
** ** ** *
17630100 CCTCCCTGGGTTGCAGCAGAGCAGGT
63 -CTCCCTGGGCAGCAGTGGAATAGAT
* **
17630126 TAAAGATAGCAGATCTTGCATTCCTTCATAGACAGCGAAGCAGATCGAAGATACCAATTCTATCT
1 TGAAGATAGCAGATCTTGCATTCCTTCATAGACAGCGAAGCAGATCGAAGATACC-AGCCTATCT
17630191 CCCTGGGCAGCAGTGGAATAGAT
65 CCCTGGGCAGCAGTGGAATAGAT
17630214 TGAAGAT
1 TGAAGAT
17630221 TGTGAGTCCT
Statistics
Matches: 333, Mismatches: 85, Indels: 58
0.70 0.18 0.12
Matches are distributed among these distances:
86 5 0.02
87 53 0.16
88 212 0.64
89 55 0.17
90 8 0.02
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (87 bp):
TGAAGATAGCAGATCTTGCATTCCTTCATAGACAGCGAAGCAGATCGAAGATACCAGCCTATCTC
CCTGGGCAGCAGTGGAATAGAT
Found at i:17630239 original size:44 final size:44
Alignment explanation
Indices: 17630185--17630562 Score: 260
Period size: 44 Copynumber: 8.6 Consensus size: 44
17630175 GATACCAATT
* *
17630185 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTGAGTC
1 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATGGTGAATC
* * * * * *
17630229 CTATTTCCCTGGTCAGTAGTGGAATAGGTTGAAGACGGTGAATT
1 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATGGTGAATC
* * * *
17630273 CTATCGCCTTGGGCAGCAGTGGAATAGATTGAAGATTGTGAGTC
1 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATGGTGAATC
* * * * *
17630317 CTATTTCCCTGGTCAGTAGTGGAATAGGTTGAAGATGGTGAATT
1 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATGGTGAATC
* * ***
17630361 CTATCTCCTTGGGCAGCAGTGGAATAGATTGAAAAT-CACAGATC
1 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATGGTGA-ATC
* ** * ** ** * *
17630405 TTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGAATC
1 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATGGTGAATC
* ** * * * **** *
17630449 TTATCTTCCCCAGG-AGTAG-GGAAGCAGATTTAAGCCACT-AGTC
1 CTATC-TCCCTGGGCAGCAGTGGAA-TAGATTGAAGATGGTGAATC
* * *
17630492 CTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATC
1 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATGGTGAATC
* * *
17630536 TTATCTCTCTGGTCAGCAGTGGAATAG
1 CTATCTCCCTGGGCAGCAGTGGAATAG
17630563 GTTAAAAATC
Statistics
Matches: 251, Mismatches: 76, Indels: 14
0.74 0.22 0.04
Matches are distributed among these distances:
42 5 0.02
43 23 0.09
44 216 0.86
45 7 0.03
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (44 bp):
CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATGGTGAATC
Found at i:17630275 original size:88 final size:88
Alignment explanation
Indices: 17630181--17630393 Score: 399
Period size: 88 Copynumber: 2.4 Consensus size: 88
17630171 CGAAGATACC
*
17630181 AATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTGAGTCCTATTTCCCTGGTCAGT
1 AATTCTATCTCCTTGGGCAGCAGTGGAATAGATTGAAGATTGTGAGTCCTATTTCCCTGGTCAGT
17630246 AGTGGAATAGGTTGAAGACGGTG
66 AGTGGAATAGGTTGAAGACGGTG
*
17630269 AATTCTATCGCCTTGGGCAGCAGTGGAATAGATTGAAGATTGTGAGTCCTATTTCCCTGGTCAGT
1 AATTCTATCTCCTTGGGCAGCAGTGGAATAGATTGAAGATTGTGAGTCCTATTTCCCTGGTCAGT
*
17630334 AGTGGAATAGGTTGAAGATGGTG
66 AGTGGAATAGGTTGAAGACGGTG
17630357 AATTCTATCTCCTTGGGCAGCAGTGGAATAGATTGAA
1 AATTCTATCTCCTTGGGCAGCAGTGGAATAGATTGAA
17630394 AATCACAGAT
Statistics
Matches: 121, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 121 1.00
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (88 bp):
AATTCTATCTCCTTGGGCAGCAGTGGAATAGATTGAAGATTGTGAGTCCTATTTCCCTGGTCAGT
AGTGGAATAGGTTGAAGACGGTG
Found at i:17630414 original size:88 final size:88
Alignment explanation
Indices: 17630181--17630588 Score: 341
Period size: 88 Copynumber: 4.6 Consensus size: 88
17630171 CGAAGATACC
* * *** *
17630181 AATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGAT-TGTGAGTCCTATTTCCCTGGTCAG
1 AATTCTATCTCCTTGGGCAGCAGTGGAATAGATTGAAAATCACAGA-TCCTATCTCCCTGGTCAG
17630245 TAGTGGAATAGGTTGAAGACGGTG
65 TAGTGGAATAGGTTGAAGACGGTG
* * *** *
17630269 AATTCTATCGCCTTGGGCAGCAGTGGAATAGATTGAAGAT-TGTGAGTCCTATTTCCCTGGTCAG
1 AATTCTATCTCCTTGGGCAGCAGTGGAATAGATTGAAAATCACAGA-TCCTATCTCCCTGGTCAG
*
17630333 TAGTGGAATAGGTTGAAGATGGTG
65 TAGTGGAATAGGTTGAAGACGGTG
* *
17630357 AATTCTATCTCCTTGGGCAGCAGTGGAATAGATTGAAAATCACAGATCTTATCTCCCTAAG-CAG
1 AATTCTATCTCCTTGGGCAGCAGTGGAATAGATTGAAAATCACAGATCCTATCTCCCT-GGTCAG
** * ** *
17630421 TAGTGGAGCAGATCAAAGACGGCG
65 TAGTGGAATAGGTTGAAGACGGTG
*** * * * **
17630445 AA-TCTTATCTTCCCCAGG-AGTAG-GGAAGCAGATT-TAAGCCACTAG-TCCTATCTCCCTGGT
1 AATTC-TATC-TCCTTGGGCAGCAGTGGAA-TAGATTGAAAATCAC-AGATCCTATCTCCCTGGT
* **
17630505 CAGCAGTGGAATAGGTTGAAGATTGTG
62 CAGTAGTGGAATAGGTTGAAGACGGTG
* * * *
17630532 AA-TCTTATCT-CTCTGGTCAGCAGTGGAATAGGTTAAAAATCACAGATCTTATCTCCC
1 AATTC-TATCTCCT-TGGGCAGCAGTGGAATAGATTGAAAATCACAGATCCTATCTCCC
17630589 AGACGGTGCA
Statistics
Matches: 260, Mismatches: 48, Indels: 24
0.78 0.14 0.07
Matches are distributed among these distances:
85 1 0.00
86 3 0.01
87 59 0.23
88 189 0.73
89 8 0.03
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.28
Consensus pattern (88 bp):
AATTCTATCTCCTTGGGCAGCAGTGGAATAGATTGAAAATCACAGATCCTATCTCCCTGGTCAGT
AGTGGAATAGGTTGAAGACGGTG
Found at i:17630581 original size:44 final size:44
Alignment explanation
Indices: 17630493--17630588 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 44
17630483 CCACTAGTCC
* * ***
17630493 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCT
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTAAAAATACAGAATCT
*
17630537 TATCTCTCTGGTCAGCAGTGGAATAGGTTAAAAATCACAG-ATCT
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTAAAAAT-ACAGAATCT
17630581 TATCTCCC
1 TATCTCCC
17630589 AGACGGTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 43 0.98
45 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (44 bp):
TATCTCCCTGGTCAGCAGTGGAATAGGTTAAAAATACAGAATCT
Found at i:17630671 original size:50 final size:50
Alignment explanation
Indices: 17630606--17631285 Score: 463
Period size: 50 Copynumber: 13.6 Consensus size: 50
17630596 GCAGTGGAAT
* * *
17630606 AGATTGAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGTAGTTAAAA
1 AGATTAAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * ** * ** *
17630656 AGATTAAAGCTACAACAGCGAATCTTACTTCCCATG-CGGTGTAGTGGAAC
1 AGATTAAAGCCACAACGGCGAATCTTACTTCCC-CGACATTGCAGTTAAAA
* * **
17630706 AGATTAAAGCCACAGCGGTGAATCTTGTTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* ** * * ** *
17630756 AGATTAAAGCTACAACAACGAATCTTACTTCCCAGGCGA-TGCAGTGGAAT
1 AGATTAAAGCCACAACGGCGAATCTTACTTCCCCGAC-ATTGCAGTTAAAA
** *
17630806 AGATTAAAGCCACAATAGCGAATCTTACTTCGCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * * * ** * * ** *
17630856 AAATTAAAGCTACAACAGCGAATCTTACTTTCCAGGCGGTGTAATGGAAC
1 AGATTAAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * *
17630906 AGATTAAAGCCACAATGGCTAATCTTGCTTCCTCGACATTGCAGTTGAAA
1 AGATTAAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * ** * ** *
17630956 AGATTAAAGCTACAACAGTGAATCTTACTTCCCAGACGGTGCGGTGGAAC
1 AGATTAAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * *
17631006 AGACTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * ** * ** *
17631056 ATATTAAAGCTACAACAGTGAATCTTACTT--CCGAGGTGGTGTAGTGGAAC
1 AGATTAAAGCCACAACGGCGAATCTTACTTCCCCGACAT--TGCAGTTAAAA
* * * * *
17631106 AGATTGAAGCCACAATGGCGAATCATGCTTCCCCGACATTGCAATTAAAA
1 AGATTAAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * * ** * *
17631156 AGATTGAATCTACAACGGCTAATCTTACATCCTAGGCGA-TGCAG-TAGAAC
1 AGATTAAAGCCACAACGGCGAATCTTACTTCCCCGAC-ATTGCAGTTA-AAA
* * *
17631206 AGATTAAAGCCACAACGGCAAATCTTGCTTCCCCAACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * *
17631256 AGATTGAAGCTACAATGACGAATCTTACTT
1 AGATTAAAGCCACAACGGCGAATCTTACTT
17631286 TCCAAAAGTT
Statistics
Matches: 465, Mismatches: 153, Indels: 24
0.72 0.24 0.04
Matches are distributed among these distances:
48 5 0.01
49 5 0.01
50 445 0.96
51 5 0.01
52 5 0.01
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.24
Consensus pattern (50 bp):
AGATTAAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAGTTAAAA
Found at i:17630752 original size:100 final size:100
Alignment explanation
Indices: 17630577--17631285 Score: 936
Period size: 100 Copynumber: 7.1 Consensus size: 100
17630567 AAAATCACAG
* * *
17630577 ATCTTA-TCTCCCAGACGGTGCAGTGGAATAGATTGAAGCCACAACGGCGAATCTTGCTTCCCCG
1 ATCTTACT-TCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCG
*
17630641 ACATTGTAGTTAAAAAGATTAAAGCTACAACAGCGA
65 ACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
* * * * *
17630677 ATCTTACTTCCCATGCGGTGTAGTGGAACAGATTAAAGCCACAGCGGTGAATCTTGTTTCCCCGA
1 ATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGA
*
17630742 CATTGCAGTTAAAAAGATTAAAGCTACAACAACGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
* * ** * *
17630777 ATCTTACTTCCCAGGCGATGCAGTGGAATAGATTAAAGCCACAATAGCGAATCTTACTTCGCCGA
1 ATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGA
*
17630842 CATTGCAGTTAAAAAAATTAAAGCTACAACAGCGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
* * * * * *
17630877 ATCTTACTTTCCAGGCGGTGTAATGGAACAGATTAAAGCCACAATGGCTAATCTTGCTTCCTCGA
1 ATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGA
* *
17630942 CATTGCAGTTGAAAAGATTAAAGCTACAACAGTGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
* * * *
17630977 ATCTTACTTCCCAGACGGTGCGGTGGAACAGACTAAAGCCACAACGGTGAATCTTGCTTCCCCGA
1 ATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGA
* *
17631042 CATTGCAGTTAAAAATATTAAAGCTACAACAGTGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
* * * * * *
17631077 ATCTTACTTCCGAGGTGGTGTAGTGGAACAGATTGAAGCCACAATGGCGAATCATGCTTCCCCGA
1 ATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGA
* * * * *
17631142 CATTGCAATTAAAAAGATTGAATCTACAACGGCTA
66 CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
* * * * * *
17631177 ATCTTACATCCTAGGCGATGCAGTAGAACAGATTAAAGCCACAACGGCAAATCTTGCTTCCCCAA
1 ATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGA
* *
17631242 CATTGCAGTTAAAAAGATTGAAGCTACAA-TGACGA
66 CATTGCAGTTAAAAAGATTAAAGCTACAACAG-CGA
17631277 ATCTTACTT
1 ATCTTACTT
17631286 TCCAAAAGTT
Statistics
Matches: 526, Mismatches: 81, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
99 1 0.00
100 524 1.00
101 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (100 bp):
ATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGA
CATTGCAGTTAAAAAGATTAAAGCTACAACAGCGA
Found at i:17632037 original size:99 final size:99
Alignment explanation
Indices: 17631614--17632013 Score: 791
Period size: 99 Copynumber: 4.0 Consensus size: 99
17631604 GGCCTAAAAT
17631614 AGCCCAACCCAAATTTCCTAATACTCAACCTAGTCAGCCCAATACACCACCTAATTACATACCAG
1 AGCCCAACCCAAATTTCCTAATACTCAACCTAGTCAGCCCAATACACCACCTAATTACATACCAG
17631679 AAATTAAATAACCAAACCTAAAATACATTACCCA
66 AAATTAAATAACCAAACCTAAAATACATTACCCA
17631713 AGCCCAACCCAAATTTCCTAATACTCAACCTAGTCAGCCCAATACACCACCTAATTACATACCAG
1 AGCCCAACCCAAATTTCCTAATACTCAACCTAGTCAGCCCAATACACCACCTAATTACATACCAG
17631778 AAATTAAATAACCAAACCTAAAATACATTACCCA
66 AAATTAAATAACCAAACCTAAAATACATTACCCA
17631812 AGCCCAACCCAAATTTCCTAATACTCAACCTAGTCAGCCCAATACACCACCTAATTACATACCAG
1 AGCCCAACCCAAATTTCCTAATACTCAACCTAGTCAGCCCAATACACCACCTAATTACATACCAG
17631877 AAATTAAATAACCAAACCTAAAATACATTACCCA
66 AAATTAAATAACCAAACCTAAAATACATTACCCA
17631911 AGCCCAACCCAAATTTCCTAATACTCAACCTAGTCAGCCCAATACACCACCTAATTACATACCAG
1 AGCCCAACCCAAATTTCCTAATACTCAACCTAGTCAGCCCAATACACCACCTAATTACATACCAG
*
17631976 AAATTAAATAACCAAACCCAAAATACATTACCCA
66 AAATTAAATAACCAAACCTAAAATACATTACCCA
17632010 AGCC
1 AGCC
17632014 TAAACCCGAA
Statistics
Matches: 300, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 300 1.00
ACGTcount: A:0.43, C:0.33, G:0.04, T:0.20
Consensus pattern (99 bp):
AGCCCAACCCAAATTTCCTAATACTCAACCTAGTCAGCCCAATACACCACCTAATTACATACCAG
AAATTAAATAACCAAACCTAAAATACATTACCCA
Found at i:17637311 original size:52 final size:52
Alignment explanation
Indices: 17637240--17637495 Score: 494
Period size: 52 Copynumber: 4.9 Consensus size: 52
17637230 ATCAAGTGAC
17637240 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
17637292 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
17637344 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
17637396 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
17637448 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
17637496 AGTGATAAGT
Statistics
Matches: 202, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 202 1.00
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (52 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
Found at i:17637516 original size:37 final size:37
Alignment explanation
Indices: 17637469--17637578 Score: 170
Period size: 37 Copynumber: 3.0 Consensus size: 37
17637459 TGATAGCTTC
*
17637469 GGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
* *
17637506 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
*
17637543 GGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
17637578 G
1 G
17637579 ATCATACGTA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.25
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
Found at i:17638839 original size:18 final size:18
Alignment explanation
Indices: 17638813--17638861 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
17638803 AATTTAATTA
* *
17638813 ATTTGTTTATTTTTCTTT
1 ATTTATTTATTTTTCGTT
17638831 ATTTATTTA-TTTTCGTT
1 ATTTATTTATTTTTCGTT
*
17638848 GTTTATTTATTTTT
1 ATTTATTTATTTTT
17638862 ATTGTTCTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.14, C:0.04, G:0.06, T:0.76
Consensus pattern (18 bp):
ATTTATTTATTTTTCGTT
Found at i:17638866 original size:17 final size:17
Alignment explanation
Indices: 17638818--17638867 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
17638808 AATTAATTTG
* *
17638818 TTTATTTTTCTTTATTTA
1 TTTATTTTT-ATTGTTTA
**
17638836 TTTATTTTCGTTGTTTA
1 TTTATTTTTATTGTTTA
17638853 TTTATTTTTATTGTT
1 TTTATTTTTATTGTT
17638868 CTTAATCTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 19 0.70
18 8 0.30
ACGTcount: A:0.14, C:0.04, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTATTTTTATTGTTTA
Found at i:17640887 original size:29 final size:26
Alignment explanation
Indices: 17640855--17640912 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 26
17640845 AAATTTGTAG
*
17640855 AAAATTACCAAAAACTATTAAAAATAATA
1 AAAATTACCAAAAA-TA-AAAAAAT-ATA
17640884 AAAATTACCAAAAATAAAAAAATATA
1 AAAATTACCAAAAATAAAAAAATATA
17640910 AAA
1 AAA
17640913 TTTGTGGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 6 0.21
27 6 0.21
28 2 0.07
29 14 0.50
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.21
Consensus pattern (26 bp):
AAAATTACCAAAAATAAAAAAATATA
Found at i:17641312 original size:3 final size:3
Alignment explanation
Indices: 17641304--17641332 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
17641294 TGAAAATTTG
17641304 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
17641333 TTGTTAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:17642556 original size:3 final size:3
Alignment explanation
Indices: 17642548--17642585 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
17642538 TTAAATCAGT
17642548 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
17642586 TGTATATGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:17643435 original size:2 final size:2
Alignment explanation
Indices: 17643428--17643452 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17643418 ACACATCCAA
17643428 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
17643453 GATTGCTTTG
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:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:17646274 original size:2 final size:2
Alignment explanation
Indices: 17646267--17646292 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17646257 TGGAGATTTT
17646267 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
17646293 GAGGGACGTG
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:17646580 original size:23 final size:22
Alignment explanation
Indices: 17646532--17646581 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
17646522 TTTTTTATTT
* *
17646532 TTATTTTTAAAAATTTATTTAT
1 TTATTTTTAAAAATTTATTCAC
17646554 TTATTTTT-AAAATTTAGATTCAC
1 TTATTTTTAAAAATTT--ATTCAC
17646577 TTATT
1 TTATT
17646582 AACACTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.29
22 8 0.33
23 9 0.38
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (22 bp):
TTATTTTTAAAAATTTATTCAC
Found at i:17654878 original size:13 final size:13
Alignment explanation
Indices: 17654862--17654887 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17654852 ATATGTTTCA
17654862 TGATTGTTTTGGT
1 TGATTGTTTTGGT
17654875 TGATTGTTTTGGT
1 TGATTGTTTTGGT
17654888 ACAGATCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.31, T:0.62
Consensus pattern (13 bp):
TGATTGTTTTGGT
Found at i:17656437 original size:20 final size:20
Alignment explanation
Indices: 17656403--17656448 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
17656393 ACTAATCTAG
** *
17656403 CTTAATTAAGTTAATCATGT
1 CTTAATTAACATAATCATCT
*
17656423 CTTAATTAACATAATTATCT
1 CTTAATTAACATAATCATCT
17656443 CTTAAT
1 CTTAAT
17656449 CATATATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.13, G:0.04, T:0.46
Consensus pattern (20 bp):
CTTAATTAACATAATCATCT
Found at i:17657434 original size:23 final size:24
Alignment explanation
Indices: 17657385--17657437 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
17657375 ATTTTACAAA
* *
17657385 TTTTAATTTTTTATATAATTTTGT
1 TTTTAATTTTTTATATAATTGTAT
* *
17657409 TTTTACTTTTTTA-ATTATTGTAT
1 TTTTAATTTTTTATATAATTGTAT
17657432 TTTTAA
1 TTTTAA
17657438 AATGATACAG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.70
Consensus pattern (24 bp):
TTTTAATTTTTTATATAATTGTAT
Found at i:17659016 original size:4 final size:4
Alignment explanation
Indices: 17659007--17659031 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
17658997 AATGGGCATG
17659007 TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA T
17659032 GAACACCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:17659217 original size:38 final size:36
Alignment explanation
Indices: 17659143--17659218 Score: 100
Period size: 38 Copynumber: 2.1 Consensus size: 36
17659133 AAATATGTAT
*
17659143 ATGTAGATATATATAGATGTATATGTAAGTTGTAAA
1 ATGTAGATATATATAGATGTATATGTAAGTTATAAA
*
17659179 ATGTAGGATAATATATATATGTATATGTGAA-TTATAAA
1 ATGTA-GAT-ATATATAGATGTATATGT-AAGTTATAAA
17659217 AT
1 AT
17659219 ATAAAATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 5 0.14
37 3 0.09
38 25 0.71
39 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.39
Consensus pattern (36 bp):
ATGTAGATATATATAGATGTATATGTAAGTTATAAA
Found at i:17660711 original size:23 final size:25
Alignment explanation
Indices: 17660684--17660730 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
17660674 TCGTTTTTCA
17660684 ATTTTCT-AAAAT-AATAAAAAATC
1 ATTTTCTCAAAATAAATAAAAAATC
17660707 ATTTTCTCAAAATAAAATAAAAAA
1 ATTTTCTCAAAAT-AAATAAAAAA
17660731 AAATATTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 5 0.24
26 9 0.43
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.32
Consensus pattern (25 bp):
ATTTTCTCAAAATAAATAAAAAATC
Found at i:17660745 original size:26 final size:28
Alignment explanation
Indices: 17660690--17660747 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 28
17660680 TTCAATTTTC
*
17660690 TAAAATAATAAAAAATCATTTTCTCAAAA
1 TAAAATAATAAAAAA-CATATTCTCAAAA
17660719 TAAAATAA-AAAAAA-ATATT-TCAGAAA
1 TAAAATAATAAAAAACATATTCTCA-AAA
17660745 TAA
1 TAA
17660748 GAAGCAAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 3 0.11
26 10 0.37
28 6 0.22
29 8 0.30
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.28
Consensus pattern (28 bp):
TAAAATAATAAAAAACATATTCTCAAAA
Found at i:17663948 original size:21 final size:21
Alignment explanation
Indices: 17663922--17663978 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
17663912 TTTGCTGATC
17663922 AGGCACTATATGTGTCATATT
1 AGGCACTATATGTGTCATATT
* * * *
17663943 AGGCACCACATGTGTCGTTTT
1 AGGCACTATATGTGTCATATT
*
17663964 AGGCACTTTATGTGT
1 AGGCACTATATGTGT
17663979 TGTATACTGC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.37
Consensus pattern (21 bp):
AGGCACTATATGTGTCATATT
Found at i:17664494 original size:78 final size:78
Alignment explanation
Indices: 17664365--17664520 Score: 276
Period size: 78 Copynumber: 2.0 Consensus size: 78
17664355 GTTATATAGT
* * *
17664365 TTGAATTATGGTAATACCACTGAGTATGAAATACTCAGCGTACAGTTGTTTCCGTGTGTAGGTCA
1 TTGAATTATGGTAATACCACTGAGTAAGAAATACTCAGCGTACAGTTGTTTCCGTGCGCAGGTCA
17664430 GTAGAAATCAAAG
66 GTAGAAATCAAAG
*
17664443 TTGAATTATGGTAATACCACTGAGTAAGAAATACTCAGCGTACGGTTGTTTCCGTGCGCAGGTCA
1 TTGAATTATGGTAATACCACTGAGTAAGAAATACTCAGCGTACAGTTGTTTCCGTGCGCAGGTCA
17664508 GTAGAAATCAAAG
66 GTAGAAATCAAAG
17664521 GTCCCAGTTC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (78 bp):
TTGAATTATGGTAATACCACTGAGTAAGAAATACTCAGCGTACAGTTGTTTCCGTGCGCAGGTCA
GTAGAAATCAAAG
Found at i:17672320 original size:29 final size:29
Alignment explanation
Indices: 17672277--17672449 Score: 247
Period size: 29 Copynumber: 6.0 Consensus size: 29
17672267 CACAAAGACT
17672277 TGGTGGACTCATACATGTGGATTCATACC
1 TGGTGGACTCATACATGTGGATTCATACC
* * * *
17672306 GGGTGAACTTATACATGTGGATTCATACT
1 TGGTGGACTCATACATGTGGATTCATACC
17672335 TGGTGGACTCATACATGTGGATTCATACC
1 TGGTGGACTCATACATGTGGATTCATACC
*
17672364 TGGTGGACTCATACATGTGGATTCATACT
1 TGGTGGACTCATACATGTGGATTCATACC
* * **
17672393 TGGTGGACTAATACATGTAGATTCATAAT
1 TGGTGGACTCATACATGTGGATTCATACC
* *
17672422 TAGTGGACTCATACATGAGGATTCATAC
1 TGGTGGACTCATACATGTGGATTCATAC
17672450 TCATACATAA
Statistics
Matches: 127, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 127 1.00
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (29 bp):
TGGTGGACTCATACATGTGGATTCATACC
Found at i:17672428 original size:87 final size:87
Alignment explanation
Indices: 17672277--17672449 Score: 274
Period size: 87 Copynumber: 2.0 Consensus size: 87
17672267 CACAAAGACT
* * * *
17672277 TGGTGGACTCATACATGTGGATTCATACCGGGTGAACTTATACATGTGGATTCATACTTGGTGGA
1 TGGTGGACTCATACATGTGGATTCATACCGGGTGAACTAATACATGTAGATTCATAATTAGTGGA
*
17672342 CTCATACATGTGGATTCATACC
66 CTCATACATGAGGATTCATACC
** *
17672364 TGGTGGACTCATACATGTGGATTCATACTTGGTGGACTAATACATGTAGATTCATAATTAGTGGA
1 TGGTGGACTCATACATGTGGATTCATACCGGGTGAACTAATACATGTAGATTCATAATTAGTGGA
17672429 CTCATACATGAGGATTCATAC
66 CTCATACATGAGGATTCATAC
17672450 TCATACATAA
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 78 1.00
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (87 bp):
TGGTGGACTCATACATGTGGATTCATACCGGGTGAACTAATACATGTAGATTCATAATTAGTGGA
CTCATACATGAGGATTCATACC
Found at i:17672453 original size:20 final size:20
Alignment explanation
Indices: 17672428--17672470 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
17672418 TAATTAGTGG
*
17672428 ACTCATACATGAGGATTCAT
1 ACTCATACATAAGGATTCAT
17672448 ACTCATACATAAGGATTCAT
1 ACTCATACATAAGGATTCAT
17672468 ACT
1 ACT
17672471 TACAATTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (20 bp):
ACTCATACATAAGGATTCAT
Found at i:17672517 original size:28 final size:28
Alignment explanation
Indices: 17672486--17672914 Score: 315
Period size: 28 Copynumber: 15.1 Consensus size: 28
17672476 TTAGTTTCTG
*
17672486 CGGACTCTTACTTGAAAGATAGTCCCTA
1 CGGACTCTTGCTTGAAAGATAGTCCCTA
17672514 CGGACTCTTG-TGTGAAAGATAGTCCCTA
1 CGGACTCTTGCT-TGAAAGATAGTCCCTA
* * *
17672542 CGAACTCTTGCTTGAAAGATAGTCCTTG
1 CGGACTCTTGCTTGAAAGATAGTCCCTA
* * *** *
17672570 CAGACTCTTGCATGAAAGATAGTTATTG
1 CGGACTCTTGCTTGAAAGATAGTCCCTA
* *
17672598 CAGACTCTTGCTTGAAAGATAATCCCTA
1 CGGACTCTTGCTTGAAAGATAGTCCCTA
* * * * *
17672626 CGGGCTCTTGCATGAAACAGAGTCCCTG
1 CGGACTCTTGCTTGAAAGATAGTCCCTA
* * * * * * *
17672654 TGAACTTTTGCATGAAAAATAGTCTCTG
1 CGGACTCTTGCTTGAAAGATAGTCCCTA
* * *
17672682 TGAACTCTTGCTTAAAAGATAAAGATAGTCCCTG
1 CGGACTCTTGCTT----G--AAAGATAGTCCCTA
* * * *
17672716 CGGGCTCTTGCATGAAAGATAATCCTTA
1 CGGACTCTTGCTTGAAAGATAGTCCCTA
* * *
17672744 CGGACTCTTGCTTGAAAGATAATCCATG
1 CGGACTCTTGCTTGAAAGATAGTCCCTA
* * *
17672772 TGGACTTTTGCATT-AAAGATAGTCTCTA
1 CGGACTCTTGC-TTGAAAGATAGTCCCTA
* *
17672800 TGGACTCTTGCTTGAAAGATAGTCCCTG
1 CGGACTCTTGCTTGAAAGATAGTCCCTA
** * *
17672828 CAAAATCTTGCATGAAAGATAGTCCCTA
1 CGGACTCTTGCTTGAAAGATAGTCCCTA
*
17672856 CCGACTCTTG-TATGAAAGATAGTCCCTA
1 CGGACTCTTGCT-TGAAAGATAGTCCCTA
** * * *
17672884 CAAATTTTTGCTTGAAAGATAGTCCATA
1 CGGACTCTTGCTTGAAAGATAGTCCCTA
17672912 CGG
1 CGG
17672915 GCTGTCATAA
Statistics
Matches: 319, Mismatches: 70, Indels: 24
0.77 0.17 0.06
Matches are distributed among these distances:
27 3 0.01
28 289 0.91
29 4 0.01
30 1 0.00
32 1 0.00
34 21 0.07
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (28 bp):
CGGACTCTTGCTTGAAAGATAGTCCCTA
Found at i:17672790 original size:90 final size:90
Alignment explanation
Indices: 17672612--17672792 Score: 195
Period size: 90 Copynumber: 2.0 Consensus size: 90
17672602 CTCTTGCTTG
* ** * *
17672612 AAAGATAATCCCTACGGGCTCTTGCATGAAACAGAGTCCCTGTGAACTTTTGCATGAAAAATAGT
1 AAAGATAATCCCTACGGGCTCTTGCATGAAACAGAATCCCTACGAACTCTTGCATGAAAAATAAT
17672677 CTCTGTGAACTCTTGCTTAAAAGAT
66 CTCTGTGAACTCTTGCTTAAAAGAT
* * * * * * * *
17672702 AAAGATAGTCCCTGCGGGCTCTTGCATGAAAGATAATCCTTACGGACTCTTGCTTGAAAGATAAT
1 AAAGATAATCCCTACGGGCTCTTGCATGAAACAGAATCCCTACGAACTCTTGCATGAAAAATAAT
* *
17672767 C-CATGTGGACTTTTGCATT-AAAGAT
66 CTC-TGTGAACTCTTGC-TTAAAAGAT
17672792 A
1 A
17672793 GTCTCTATGG
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
89 1 0.01
90 71 0.96
91 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.29
Consensus pattern (90 bp):
AAAGATAATCCCTACGGGCTCTTGCATGAAACAGAATCCCTACGAACTCTTGCATGAAAAATAAT
CTCTGTGAACTCTTGCTTAAAAGAT
Found at i:17675573 original size:184 final size:184
Alignment explanation
Indices: 17675264--17675631 Score: 700
Period size: 184 Copynumber: 2.0 Consensus size: 184
17675254 AAAGGATAAA
17675264 ATTGTTTAAAATTTCAGATTTTGACCTAAATAGAATTTTTTTTATATAGATAACACCCAAAATAA
1 ATTGTTTAAAATTTCAGATTTTGACCTAAATAGAATTTTTTTTATATAGATAACACCCAAAATAA
*
17675329 TTACAGTATTATTTCAAAATCATCATGCATAAAACGACTATCTATCCTTAATTGATCAAGAATAT
66 TTACAGTATTATTTCAAAATCATCATGCATAAAACAACTATCTATCCTTAATTGATCAAGAATAT
* *
17675394 CTTCCGGGGGTTCTTGGAAAACTATTGGGATGTCAGGGTATGCTTTCATCCTCC
131 CTTCCGGGGGTTATTGGAAAACTATTGGGATGTAAGGGTATGCTTTCATCCTCC
17675448 ATTGTTTAAAATTTCAGATTTTGACCTAAATAGAATTTTTTTTATATAGATAACACCCAAAATAA
1 ATTGTTTAAAATTTCAGATTTTGACCTAAATAGAATTTTTTTTATATAGATAACACCCAAAATAA
17675513 TTACAGTATTATTTCAAAATCATCATGCATAAAACAACTATCTATCCTTAATTGATCAAGAATAT
66 TTACAGTATTATTTCAAAATCATCATGCATAAAACAACTATCTATCCTTAATTGATCAAGAATAT
*
17675578 CTTCCGGGGGTTATTGGAAAACTCTTGGGATGTAAGGGTATGCTTTCATCCTCC
131 CTTCCGGGGGTTATTGGAAAACTATTGGGATGTAAGGGTATGCTTTCATCCTCC
17675632 TTGCCAACAT
Statistics
Matches: 180, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
184 180 1.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.36
Consensus pattern (184 bp):
ATTGTTTAAAATTTCAGATTTTGACCTAAATAGAATTTTTTTTATATAGATAACACCCAAAATAA
TTACAGTATTATTTCAAAATCATCATGCATAAAACAACTATCTATCCTTAATTGATCAAGAATAT
CTTCCGGGGGTTATTGGAAAACTATTGGGATGTAAGGGTATGCTTTCATCCTCC
Found at i:17676269 original size:9 final size:10
Alignment explanation
Indices: 17676236--17676277 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
17676226 ATCAATATAA
*
17676236 ATAAATTATT
1 ATAAATAATT
17676246 ATAAATAATT
1 ATAAATAATT
*
17676256 ATAAATCA-T
1 ATAAATAATT
17676265 ATAAATAAATT
1 ATAAAT-AATT
17676276 AT
1 AT
17676278 TATAATTAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
9 7 0.26
10 17 0.63
11 3 0.11
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (10 bp):
ATAAATAATT
Found at i:17677261 original size:27 final size:27
Alignment explanation
Indices: 17677224--17677279 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
17677214 GTATGTTTTA
*
17677224 TTATGTATGAACTTGACTGTGGGAAAT
1 TTATGTATGAACTTGACTATGGGAAAT
17677251 TTATGTATGAACTTGACTATGGGAAAT
1 TTATGTATGAACTTGACTATGGGAAAT
17677278 TT
1 TT
17677280 CTTTTTTTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.39
Consensus pattern (27 bp):
TTATGTATGAACTTGACTATGGGAAAT
Found at i:17679360 original size:84 final size:84
Alignment explanation
Indices: 17679217--17679385 Score: 302
Period size: 84 Copynumber: 2.0 Consensus size: 84
17679207 AACACTGGTG
* *
17679217 CCAAGGCAGATGTATTTCACATGCTATCTGGTATGTGGAAAACACCTACAGAGATGTGCTTTATG
1 CCAAGGCAGATGTATTTCACATGCTATATGGTATGTGGAAAACACCTACAGAGAGGTGCTTTATG
17679282 TGGTTGGGAGGATTTCGTT
66 TGGTTGGGAGGATTTCGTT
* *
17679301 CCAAGGCAGATGTATTTCACATGCTATATGGTATGTGGAAAACACCTGCAGAGAGGTGCTTTTTG
1 CCAAGGCAGATGTATTTCACATGCTATATGGTATGTGGAAAACACCTACAGAGAGGTGCTTTATG
17679366 TGGTTGGGAGGATTTCGTT
66 TGGTTGGGAGGATTTCGTT
17679385 C
1 C
17679386 ATCTGAACTT
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 81 1.00
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.32
Consensus pattern (84 bp):
CCAAGGCAGATGTATTTCACATGCTATATGGTATGTGGAAAACACCTACAGAGAGGTGCTTTATG
TGGTTGGGAGGATTTCGTT
Found at i:17682376 original size:16 final size:16
Alignment explanation
Indices: 17682351--17682392 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
17682341 ACAATTGAAT
17682351 TATT-AATTACAACTC
1 TATTCAATTACAACTC
*
17682366 TATTCAATTACAGCTC
1 TATTCAATTACAACTC
*
17682382 TATTCCATTAC
1 TATTCAATTAC
17682393 CGTGAACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.40
Consensus pattern (16 bp):
TATTCAATTACAACTC
Found at i:17692793 original size:52 final size:52
Alignment explanation
Indices: 17692715--17692816 Score: 168
Period size: 52 Copynumber: 2.0 Consensus size: 52
17692705 GGAAACAATA
* *
17692715 GCCACGACGAGGGCTTTGAGCACAAGAATAGAATAGCTCGAGGGAGAGCTGG
1 GCCACGACGAGGGCTTTGAGCACAAGAATAGAAGAGCTCCAGGGAGAGCTGG
* *
17692767 GCCACGACGAGTGCTTTGAGCACAAGAATAGAGGAGCTCCAGGGAGAGCT
1 GCCACGACGAGGGCTTTGAGCACAAGAATAGAAGAGCTCCAGGGAGAGCT
17692817 AGCCTTGTGT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.30, C:0.21, G:0.35, T:0.14
Consensus pattern (52 bp):
GCCACGACGAGGGCTTTGAGCACAAGAATAGAAGAGCTCCAGGGAGAGCTGG
Found at i:17695409 original size:20 final size:21
Alignment explanation
Indices: 17695373--17695411 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
17695363 ATTCTTTGTG
*
17695373 TCTTTCTTCTTTTTCTTCTCA
1 TCTTTCTTCTTTATCTTCTCA
17695394 TCTTTC-TCTTTATCTTCT
1 TCTTTCTTCTTTATCTTCT
17695412 TCTCCCTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.05, C:0.28, G:0.00, T:0.67
Consensus pattern (21 bp):
TCTTTCTTCTTTATCTTCTCA
Found at i:17696325 original size:3 final size:3
Alignment explanation
Indices: 17696312--17696374 Score: 62
Period size: 3 Copynumber: 22.0 Consensus size: 3
17696302 TCCATTTTTC
* *
17696312 TCT TAT TCT TCT TCT TC- TCT TCT TCT AT-T TCT TC- TCT TAT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT -TCT TCT TCT TCT TCT TCT
*
17696355 TCT TTT TC- TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT
17696375 ACTGCTCAGG
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
2 7 0.14
3 41 0.84
4 1 0.02
ACGTcount: A:0.05, C:0.29, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:17696331 original size:17 final size:17
Alignment explanation
Indices: 17696309--17696374 Score: 89
Period size: 17 Copynumber: 3.9 Consensus size: 17
17696299 CCTTCCATTT
17696309 TTCTCTTATTCTTCTTC
1 TTCTCTTATTCTTCTTC
*
17696326 TTCTCTTCTTCTAT-TTC
1 TTCTCTTATTCT-TCTTC
*
17696343 TTCTCTTATTCTTCTTT
1 TTCTCTTATTCTTCTTC
*
17696360 TTCTCTTCTTCTTCT
1 TTCTCTTATTCTTCT
17696375 ACTGCTCAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
16 1 0.02
17 41 0.95
18 1 0.02
ACGTcount: A:0.05, C:0.29, G:0.00, T:0.67
Consensus pattern (17 bp):
TTCTCTTATTCTTCTTC
Found at i:17696332 original size:11 final size:11
Alignment explanation
Indices: 17696318--17696374 Score: 62
Period size: 11 Copynumber: 5.1 Consensus size: 11
17696308 TTTCTCTTAT
17696318 TCTTCTTCTTC
1 TCTTCTTCTTC
*
17696329 TCTTCTTCTATT
1 TCTTCTTCT-TC
*
17696341 TCTTC-TCTTAT
1 TCTTCTTCTT-C
*
17696352 TCTTCTTTTTC
1 TCTTCTTCTTC
17696363 TCTTCTTCTTC
1 TCTTCTTCTTC
17696374 T
1 T
17696375 ACTGCTCAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
10 1 0.03
11 29 0.74
12 9 0.23
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.67
Consensus pattern (11 bp):
TCTTCTTCTTC
Found at i:17696343 original size:20 final size:21
Alignment explanation
Indices: 17696320--17696374 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
17696310 TCTCTTATTC
17696320 TTCTTCTTC-TCTTCTTCTAT
1 TTCTTCTTCTTCTTCTTCTAT
* *
17696340 TTCTTC-TCTTATTCTTCTTT
1 TTCTTCTTCTTCTTCTTCTAT
17696360 TTC-TCTTCTTCTTCT
1 TTCTTCTTCTTCTTCT
17696375 ACTGCTCAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 4 0.13
20 26 0.87
ACGTcount: A:0.04, C:0.29, G:0.00, T:0.67
Consensus pattern (21 bp):
TTCTTCTTCTTCTTCTTCTAT
Found at i:17696348 original size:34 final size:33
Alignment explanation
Indices: 17696300--17696371 Score: 117
Period size: 34 Copynumber: 2.2 Consensus size: 33
17696290 TACGAAGCTC
*
17696300 CTTCCATTTTTCTCTTATTCTTCTTCTTCTCTT
1 CTTCTATTTTTCTCTTATTCTTCTTCTTCTCTT
*
17696333 CTTCTATTTCTTCTCTTATTCTTCTTTTTCTCTT
1 CTTCTATTT-TTCTCTTATTCTTCTTCTTCTCTT
17696367 CTTCT
1 CTTCT
17696372 TCTACTGCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 8 0.22
34 28 0.78
ACGTcount: A:0.06, C:0.29, G:0.00, T:0.65
Consensus pattern (33 bp):
CTTCTATTTTTCTCTTATTCTTCTTCTTCTCTT
Found at i:17699429 original size:25 final size:25
Alignment explanation
Indices: 17699401--17699457 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
17699391 AGATTTTTTT
17699401 TATAAAAATAAATTTAAAAATA-TAA
1 TATAAAAATAAA-TTAAAAATATTAA
* *
17699426 TATATCAAATACATTAAAAATATTAA
1 TATA-AAAATAAATTAAAAATATTAA
*
17699452 AATAAA
1 TATAAA
17699458 TATTTCCTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
25 14 0.54
26 12 0.46
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.32
Consensus pattern (25 bp):
TATAAAAATAAATTAAAAATATTAA
Found at i:17699673 original size:22 final size:22
Alignment explanation
Indices: 17699648--17699704 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
17699638 ATATCCAAAC
*
17699648 AATAACAATAAAATAATAGCAA
1 AATAACAACAAAATAATAGCAA
* **
17699670 AATAGCAACAAAATTGTAGCAA
1 AATAACAACAAAATAATAGCAA
* *
17699692 AACAACAAGAAAA
1 AATAACAACAAAA
17699705 CAGCTCTTAT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.65, C:0.12, G:0.09, T:0.14
Consensus pattern (22 bp):
AATAACAACAAAATAATAGCAA
Found at i:17718854 original size:14 final size:14
Alignment explanation
Indices: 17718837--17718901 Score: 67
Period size: 14 Copynumber: 4.6 Consensus size: 14
17718827 TAAACCTTAC
17718837 CCTTAAACCATAAT
1 CCTTAAACCATAAT
*
17718851 CCTTAATCCATAAT
1 CCTTAAACCATAAT
* *
17718865 CCCTAATCCATAAT
1 CCTTAAACCATAAT
* * *
17718879 CCCTAAATCTATACT
1 CCTTAAA-CCATAAT
17718894 CCTTAAAC
1 CCTTAAAC
17718902 TTTAAAATAG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
14 33 0.75
15 11 0.25
ACGTcount: A:0.37, C:0.32, G:0.00, T:0.31
Consensus pattern (14 bp):
CCTTAAACCATAAT
Found at i:17718859 original size:7 final size:7
Alignment explanation
Indices: 17718844--17718880 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
17718834 TACCCTTAAA
17718844 CCATAAT
1 CCATAAT
*
17718851 CCTTAAT
1 CCATAAT
17718858 CCATAAT
1 CCATAAT
*
17718865 CCCTAAT
1 CCATAAT
17718872 CCATAAT
1 CCATAAT
17718879 CC
1 CC
17718881 CTAAATCTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.30
Consensus pattern (7 bp):
CCATAAT
Found at i:17719076 original size:8 final size:8
Alignment explanation
Indices: 17719065--17719093 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
17719055 CTAACTCGAC
17719065 CCCTAAAT
1 CCCTAAAT
17719073 CCCTAAA-
1 CCCTAAAT
17719080 CCCTAAAT
1 CCCTAAAT
17719088 CCCTAA
1 CCCTAA
17719094 CTCTTAACCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.21
Consensus pattern (8 bp):
CCCTAAAT
Found at i:17719085 original size:15 final size:15
Alignment explanation
Indices: 17719065--17719093 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17719055 CTAACTCGAC
17719065 CCCTAAATCCCTAAA
1 CCCTAAATCCCTAAA
17719080 CCCTAAATCCCTAA
1 CCCTAAATCCCTAA
17719094 CTCTTAACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.21
Consensus pattern (15 bp):
CCCTAAATCCCTAAA
Found at i:17719125 original size:22 final size:22
Alignment explanation
Indices: 17719099--17719150 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
17719089 CCTAACTCTT
17719099 AACCCTTAACGTC-TAACCCCTA
1 AACCCTTAAC-TCTTAACCCCTA
* *
17719121 AACCCCTAACTCTTAACCCTTA
1 AACCCTTAACTCTTAACCCCTA
17719143 AA-CCTTAA
1 AACCCTTAA
17719151 ATCCCGACCC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.35, C:0.38, G:0.02, T:0.25
Consensus pattern (22 bp):
AACCCTTAACTCTTAACCCCTA
Found at i:17719128 original size:36 final size:36
Alignment explanation
Indices: 17719075--17719143 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
17719065 CCCTAAATCC
*
17719075 CTAAACCCTAAATCCCTAACTCTTAACCCTTAACGT
1 CTAAACCCTAAACCCCTAACTCTTAACCCTTAACGT
*
17719111 CTAACCCCTAAACCCCTAACTCTTAACCCTTAA
1 CTAAACCCTAAACCCCTAACTCTTAACCCTTAA
17719144 ACCTTAAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.33, C:0.39, G:0.01, T:0.26
Consensus pattern (36 bp):
CTAAACCCTAAACCCCTAACTCTTAACCCTTAACGT
Found at i:17719175 original size:20 final size:21
Alignment explanation
Indices: 17719136--17719175 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17719126 CTAACTCTTA
*
17719136 ACCCTTAAACCTTAAATCCCG
1 ACCCTTAAACCATAAATCCCG
17719157 ACCCTTAAACCAT-AATCCC
1 ACCCTTAAACCATAAATCCC
17719176 TAAATCCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.35, C:0.40, G:0.03, T:0.23
Consensus pattern (21 bp):
ACCCTTAAACCATAAATCCCG
Found at i:17719235 original size:301 final size:297
Alignment explanation
Indices: 17718671--17719267 Score: 787
Period size: 301 Copynumber: 2.0 Consensus size: 297
17718661 TCAATATATT
17718671 AAATTTATTATTATCTCTTTTAAAATTATATAAGAACATATTTAAAATATAAATTAAAAAACTAA
1 AAATTTATTATTATCTCTTTTAAAATTATATAAGAACATATTTAAAATATAAATTAAAAAACTAA
* * * * * *
17718736 TTAATCTAAACCCAAAACCCTAACCTAACCTCTAAGGCCTAAACCTTAAGTCCTTAACTCTTAAC
66 TTAATCTAAAACCAAAACCCTAACCTAACCCCTAAGCCCTAAACCCTAAATCCCTAACTCTTAAC
* ** * *
17718801 CCCAAAATGTCTAACCCCTAAACCTTTAAACCTTACCCTTAAACCATAATCCTTAATCCATAATC
131 CCCAAAACGTCTAACCCCTAAACCCCTAAACCTTACCCTTAAACC---AT-CTAAATCCACAATC
* * * * *
17718866 CCTAATCCATAATCCCTAAATCTATACTCCTTAAACTTTAAAATAGTAACTCCTAAACCAGCCTT
192 CCTAAACCATAATCCCTAAATCCATACTCCCTAAACCTTAAAATAGTAACTCCTAAACCAACCTT
17718931 AAATCTTAAATTAATCATATACCCTAAACTAAACCCTAAAC
257 AAATCTTAAATTAATCATATACCCTAAACTAAACCCTAAAC
*
17718972 AAATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAA-TAA
1 AAATTTATTATTATCTCTTTTAAAATTATATAAGAACATATTTAAAATATAAATTAAAAAACTAA
* * *
17719036 TTAATCTAAAACTAAAACCCTAA-CTCGACCCCTAAATCCCTAAACCCTAAATCCCTAACTCTTA
66 TTAATCTAAAACCAAAACCCTAACCT-AACCCCT-AAGCCCTAAACCCTAAATCCCTAACTCTTA
** *
17719100 A-CCCTTAACGTCTAACCCCTAAACCCCT-AACTCTTAACCCTTAAACC-T-TAAATCC-CGA-C
129 ACCCCAAAACGTCTAACCCCTAAACCCCTAAAC-CTT-ACCCTTAAACCATCTAAATCCACAATC
* ** *
17719159 CCTTAAACCATAATCCCTAAATCCATACTCCCTAATCCTTAAAATAGTAACTCCTAAACTGACTT
192 CC-TAAACCATAATCCCTAAATCCATACTCCCTAAACCTTAAAATAGTAACTCCTAAACCAACCT
*
17719224 TAAATCTTAAATAAATCATATACCCTAAACTAAAAACCCTAAAC
256 TAAATCTTAAATTAATCATATACCCTAAACT--AAACCCTAAAC
17719268 TATAGTGATA
Statistics
Matches: 261, Mismatches: 28, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
293 3 0.01
294 84 0.32
295 6 0.02
296 11 0.04
297 1 0.00
299 5 0.02
300 54 0.21
301 97 0.37
ACGTcount: A:0.42, C:0.26, G:0.02, T:0.30
Consensus pattern (297 bp):
AAATTTATTATTATCTCTTTTAAAATTATATAAGAACATATTTAAAATATAAATTAAAAAACTAA
TTAATCTAAAACCAAAACCCTAACCTAACCCCTAAGCCCTAAACCCTAAATCCCTAACTCTTAAC
CCCAAAACGTCTAACCCCTAAACCCCTAAACCTTACCCTTAAACCATCTAAATCCACAATCCCTA
AACCATAATCCCTAAATCCATACTCCCTAAACCTTAAAATAGTAACTCCTAAACCAACCTTAAAT
CTTAAATTAATCATATACCCTAAACTAAACCCTAAAC
Found at i:17728772 original size:20 final size:21
Alignment explanation
Indices: 17728735--17728773 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
17728725 AAGTTTTTTA
* *
17728735 TTTTATTTTTAATTAATAACT
1 TTTTATTTATAATAAATAACT
17728756 TTTTATTTAT-ATAAATAA
1 TTTTATTTATAATAAATAA
17728774 ATTAATAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTTATTTATAATAAATAACT
Found at i:17735203 original size:30 final size:31
Alignment explanation
Indices: 17735164--17735223 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
17735154 AGAGGTGGGA
* *
17735164 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAAGGGAAAAG
*
17735195 TGGG-AGGGAGTAAAAATTTTAAGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAAGGGAAAA
17735224 TAAAATGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.37, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAAGGGAAAAG
Found at i:17735979 original size:17 final size:18
Alignment explanation
Indices: 17735957--17735993 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
17735947 TTATCGTACA
17735957 ATCATAA-ATATTAA-AAC
1 ATCATAACAT-TTAATAAC
17735974 ATCATAACATTTAATAAC
1 ATCATAACATTTAATAAC
17735992 AT
1 AT
17735994 AAATATATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (18 bp):
ATCATAACATTTAATAAC
Found at i:17738773 original size:54 final size:54
Alignment explanation
Indices: 17738694--17738818 Score: 139
Period size: 55 Copynumber: 2.3 Consensus size: 54
17738684 ATTTTAAAAT
17738694 AAATAATATGTAAAAAGAAATTTC-AAATAAACAATATACAAAATAGTCTTAAGA
1 AAATAATATGTAAAAAGAAATTTCAAAATAAACAATATACAAAATAGT-TTAAGA
* * * * *
17738748 AAATGATATGTATAAAA-ACAA-TTCAAAATAAATAATATATATAATAGTTTAAAA
1 AAATAATATGTA-AAAAGA-AATTTCAAAATAAACAATATACAAAATAGTTTAAGA
*
17738802 TAAATAATATATAAAAA
1 -AAATAATATGTAAAAA
17738819 ATTTAAAATG
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
54 24 0.40
55 36 0.60
ACGTcount: A:0.61, C:0.05, G:0.06, T:0.29
Consensus pattern (54 bp):
AAATAATATGTAAAAAGAAATTTCAAAATAAACAATATACAAAATAGTTTAAGA
Found at i:17738808 original size:26 final size:25
Alignment explanation
Indices: 17738546--17738936 Score: 199
Period size: 26 Copynumber: 15.2 Consensus size: 25
17738536 AAACGAAACA
* * **
17738546 AAATAATATATAGAATAATTTGAGGT
1 AAATAATATATA-AAAAATTTAAAAT
* * *
17738572 AAATAATATA-AAACAATTCAAAGT
1 AAATAATATATAAAAAATTTAAAAT
**
17738596 AAATAATATGCAACACAAA-TTAAAAT
1 AAATAATATATAA-A-AAATTTAAAAT
* *
17738622 AAATAACATACAAAGCAAA-TTAAAAT
1 AAATAATATATAAA--AAATTTAAAAT
* * *
17738648 AAATAACATAGAAGACAATTTAAAAT
1 AAATAATATATAA-AAAATTTAAAAT
*
17738674 -AAT--T-TAT-AAAATTTTAAAAT
1 AAATAATATATAAAAAATTTAAAAT
* *
17738694 AAATAATATGTAAAAAGAAATTTCAAAT
1 AAATAATA--TATAAA-AAATTTAAAAT
* * * *
17738722 AAACAATATACAAAATAGTCTTAAGA-
1 AAATAATATATAAAA-AAT-TTAAAAT
* *
17738748 AAATGATATGTATAAAAACAATTCAAAAT
1 AAAT-A-ATATAT-AAAA-AATTTAAAAT
* *
17738777 AAATAATATATATAATAGTTTAAAAT
1 AAATAATATATA-AAAAATTTAAAAT
17738803 AAATAATATATAAAAAATTTAAAAT
1 AAATAATATATAAAAAATTTAAAAT
** * * *
17738828 GGATAATAGTTTAATATAGTTTAAAAT
1 AAATAATA-TATAA-AAAATTTAAAAT
* * * *
17738855 ACATAATATGTGAAAAACTTAAAAT
1 AAATAATATATAAAAAATTTAAAAT
17738880 AAATAATA-ATAAAACAATTTAAAAT
1 AAATAATATATAAAA-AATTTAAAAT
* * *
17738905 GAATAATGTATAAAAAGGTTTAAAAT
1 AAATAATATATAAAAA-ATTTAAAAT
17738931 AAATAA
1 AAATAA
17738937 ATAATTTTCA
Statistics
Matches: 282, Mismatches: 57, Indels: 52
0.72 0.15 0.13
Matches are distributed among these distances:
20 10 0.04
21 4 0.01
22 2 0.01
23 1 0.00
24 22 0.08
25 59 0.21
26 116 0.41
27 33 0.12
28 25 0.09
29 10 0.04
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.29
Consensus pattern (25 bp):
AAATAATATATAAAAAATTTAAAAT
Found at i:17740178 original size:21 final size:19
Alignment explanation
Indices: 17740141--17740179 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 19
17740131 CTATGGACTG
17740141 TTTATTTTTTATTTTGGGT
1 TTTATTTTTTATTTTGGGT
17740160 TTTATTTATTTAGTTTTGGG
1 TTTATTT-TTTA-TTTTGGG
17740180 CTCGGGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 4 0.22
21 7 0.39
ACGTcount: A:0.13, C:0.00, G:0.18, T:0.69
Consensus pattern (19 bp):
TTTATTTTTTATTTTGGGT
Found at i:17741247 original size:25 final size:25
Alignment explanation
Indices: 17741219--17741305 Score: 81
Period size: 25 Copynumber: 3.5 Consensus size: 25
17741209 TGGCTTGTAT
*
17741219 GAGCTTCCCGATAATTGGCTCGCAA
1 GAGCTTCCCGATAATTGGCTCGAAA
* *
17741244 GAGCTTCCTGTTACA-TGGCTC-AAA
1 GAGCTTCCCGATA-ATTGGCTCGAAA
* *
17741268 TGAACTTCCCG-TTATATGGCTCGAAA
1 -GAGCTTCCCGATAAT-TGGCTCGAAA
17741294 GAGCTTCCCGAT
1 GAGCTTCCCGAT
17741306 TACATGATTG
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
23 1 0.02
24 3 0.06
25 40 0.82
26 5 0.10
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (25 bp):
GAGCTTCCCGATAATTGGCTCGAAA
Found at i:17749431 original size:24 final size:25
Alignment explanation
Indices: 17749404--17749465 Score: 92
Period size: 24 Copynumber: 2.6 Consensus size: 25
17749394 GATCTATGAT
17749404 TGCATTTGTTTTC-GAATCTGAATA
1 TGCATTTGTTTTCTGAATCTGAATA
*
17749428 TGCATTTG-TTTCTGAATCTGAGTA
1 TGCATTTGTTTTCTGAATCTGAATA
*
17749452 TGCATTTGTATTCT
1 TGCATTTGTTTTCT
17749466 ATTATGAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 4 0.12
24 26 0.76
25 4 0.12
ACGTcount: A:0.21, C:0.13, G:0.18, T:0.48
Consensus pattern (25 bp):
TGCATTTGTTTTCTGAATCTGAATA
Found at i:17751584 original size:29 final size:27
Alignment explanation
Indices: 17751523--17751584 Score: 63
Period size: 29 Copynumber: 2.2 Consensus size: 27
17751513 ATACGGACTA
*
17751523 AAATAATAATTTATTACATTTTAAACT
1 AAATAATAATTTATAACATTTTAAACT
*
17751550 ATAATAATAAATTTA-AACATTATTGAAATT
1 A-AATAAT-AATTTATAACATT-TT-AAACT
17751580 AAATA
1 AAATA
17751585 CTATAAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
27 1 0.03
28 11 0.38
29 12 0.41
30 5 0.17
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (27 bp):
AAATAATAATTTATAACATTTTAAACT
Found at i:17755507 original size:61 final size:60
Alignment explanation
Indices: 17755412--17755540 Score: 168
Period size: 61 Copynumber: 2.1 Consensus size: 60
17755402 AGTCTTTATG
* * *
17755412 GCAAAACTCTAGACAAGAAAGCCTTTGTAGTGAGTACTGAATGTTAAAGAACGCTTTTGTA
1 GCAAAACTCTAGACAAGAAAGCCTTTGCAGTGAGTACTG-ATATTAAAGAACGCCTTTGTA
* * * * *
17755473 GCAAAGCTCTAGACAGGAAAGCCTTTGCGGTGAGTACTGATATTAAGGAACGCCTTTGTG
1 GCAAAACTCTAGACAAGAAAGCCTTTGCAGTGAGTACTGATATTAAAGAACGCCTTTGTA
*
17755533 GAAAAACT
1 GCAAAACT
17755541 TAAAAAATGT
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
60 23 0.40
61 35 0.60
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (60 bp):
GCAAAACTCTAGACAAGAAAGCCTTTGCAGTGAGTACTGATATTAAAGAACGCCTTTGTA
Found at i:17756280 original size:43 final size:44
Alignment explanation
Indices: 17756231--17756436 Score: 271
Period size: 43 Copynumber: 4.8 Consensus size: 44
17756221 GCACTGAAAA
*
17756231 AAACGCCGCTAAAGACCAAAACCTTTAGCGGCGCTTTTTTC-AC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTTCTAC
* *
17756274 AAACGCCGTTAAAGACCAAGACCTTTAGCGGCGC-TTTTACTAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTTCTAC
* *
17756317 AAACGCCGCTAAAGACCAAGACCTTTAGTGGCGC-TTTTCCTA-
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTTCTAC
* * *
17756359 AAAAGCCGCTAAAGACCAAGACCTTTAGCAGCGCTTTTATC-AC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTTCTAC
* **
17756402 AAACGTCGCTAAAGAATAA-ACCTTTAGCGGCGCTT
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTT
17756437 CTCACAAAAA
Statistics
Matches: 144, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
42 52 0.36
43 92 0.64
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.23
Consensus pattern (44 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTTCTAC
Found at i:17756406 original size:85 final size:85
Alignment explanation
Indices: 17756231--17756445 Score: 287
Period size: 85 Copynumber: 2.5 Consensus size: 85
17756221 GCACTGAAAA
* * *
17756231 AAACGCCGCTAAAGACCAAAACCTTTAGCGGCGCTTTTTTCACAAACGCCGTTAAAGACCAAGAC
1 AAACGCCGCTAAAGACC-AAACCTTTAGCGGCGCTTTTCTCACAAAAGCCGCTAAAGACCAAGAC
*
17756296 CTTTAGCGGCGCTTTTACTAC
65 CTTTAGCAGCGCTTTTACTAC
*
17756317 AAACGCCGCTAAAGACCAAGACCTTTAGTGGCGCTTTTC-CTA-AAAAGCCGCTAAAGACCAAGA
1 AAACGCCGCTAAAGACCAA-ACCTTTAGCGGCGCTTTTCTC-ACAAAAGCCGCTAAAGACCAAGA
17756380 CCTTTAGCAGCGCTTTTA-TCAC
64 CCTTTAGCAGCGCTTTTACT-AC
* **
17756402 AAACGTCGCTAAAGAATAAACCTTTAGCGGCGC--TTCTCACAAAA
1 AAACGCCGCTAAAGACCAAACCTTTAGCGGCGCTTTTCTCACAAAA
17756446 ACGCTGCTAA
Statistics
Matches: 115, Mismatches: 9, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
82 4 0.03
83 5 0.04
84 14 0.12
85 57 0.50
86 35 0.30
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (85 bp):
AAACGCCGCTAAAGACCAAACCTTTAGCGGCGCTTTTCTCACAAAAGCCGCTAAAGACCAAGACC
TTTAGCAGCGCTTTTACTAC
Found at i:17756448 original size:42 final size:42
Alignment explanation
Indices: 17756229--17756469 Score: 247
Period size: 43 Copynumber: 5.7 Consensus size: 42
17756219 AAGCACTGAA
* * *
17756229 AAAAACGCCGCTAAAGACCAAAACCTTTAGCGGCGCTTTTTTC
1 AAAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGC-TTTTAC
* * *
17756272 ACAAACGCCGTTAAAGACCAAGACCTTTAGCGGCGCTTTTAC
1 AAAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTAC
* * * *
17756314 TACAAACGCCGCTAAAGACCAAGACCTTTAGTGGCGCTTTTCC
1 -AAAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTAC
* *
17756357 TAAAAA-GCCGCTAAAGACCAAGACCTTTAGCAGCGCTTTTATC
1 -AAAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTA-C
* * * *
17756400 ACAAACGTCGCTAAAGAATAA-ACCTTTAGCGGCGCTTCTCAC
1 AAAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTT-TTAC
*
17756442 AAAAACGCTGCTAAA-AACATA-ACCTTTA
1 AAAAACGCCGCTAAAGAACA-AGACCTTTA
17756470 AAAATATATA
Statistics
Matches: 172, Mismatches: 21, Indels: 11
0.84 0.10 0.05
Matches are distributed among these distances:
41 3 0.02
42 77 0.45
43 92 0.53
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.22
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTAC
Found at i:17756522 original size:5 final size:5
Alignment explanation
Indices: 17756512--17756537 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
17756502 TTATTATAAA
17756512 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
17756538 TTAAATTTGA
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:17761606 original size:15 final size:14
Alignment explanation
Indices: 17761565--17761608 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
17761555 ACTAGTTAAT
*
17761565 CTAAACCTTAAACC
1 CTAAAACTTAAACC
*
17761579 AT-AAACTTAAACC
1 CTAAAACTTAAACC
17761592 CTAAAACTATAAACC
1 CTAAAACT-TAAACC
17761607 CT
1 CT
17761609 TAACATGCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 11 0.44
14 6 0.24
15 8 0.32
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.23
Consensus pattern (14 bp):
CTAAAACTTAAACC
Found at i:17761680 original size:15 final size:15
Alignment explanation
Indices: 17761653--17761690 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
17761643 GCCTTTTAAA
17761653 CCATAAA-CCATAAC
1 CCATAAACCCATAAC
* *
17761667 CCCTAAACCCATAAT
1 CCATAAACCCATAAC
17761682 CCATAAACC
1 CCATAAACC
17761691 TTAAAATGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.16
Consensus pattern (15 bp):
CCATAAACCCATAAC
Found at i:17761695 original size:22 final size:21
Alignment explanation
Indices: 17761648--17761753 Score: 63
Period size: 21 Copynumber: 5.0 Consensus size: 21
17761638 CCCCAGCCTT
*
17761648 TTAAACCATAAACCATAACCC
1 TTAAACCATAAACCATAAACC
* *
17761669 CTAAACCCATAATCCATAAACC
1 TTAAA-CCATAAACCATAAACC
*** *
17761691 TTAAAATGGTAACACC-TAAACT
1 TT-AAACCATAA-ACCATAAACC
*
17761713 TTAAACTC-TAAACCATATACC
1 TTAAAC-CATAAACCATAAACC
* * *
17761734 CTAAACCAAAAACCCTAAAC
1 TTAAACCATAAACCATAAAC
17761754 TATAGTGATA
Statistics
Matches: 62, Mismatches: 17, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
20 4 0.06
21 28 0.45
22 25 0.40
23 5 0.08
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.21
Consensus pattern (21 bp):
TTAAACCATAAACCATAAACC
Found at i:17761737 original size:14 final size:14
Alignment explanation
Indices: 17761715--17761753 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
17761705 CCTAAACTTT
* *
17761715 AAACTCTAAACCAT
1 AAACCCTAAACCAA
*
17761729 ATACCCTAAACCAA
1 AAACCCTAAACCAA
17761743 AAACCCTAAAC
1 AAACCCTAAAC
17761754 TATAGTGATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.15
Consensus pattern (14 bp):
AAACCCTAAACCAA
Found at i:17762174 original size:73 final size:73
Alignment explanation
Indices: 17761959--17762162 Score: 336
Period size: 73 Copynumber: 2.8 Consensus size: 73
17761949 TAAAAACGCC
**
17761959 GCTAAATCCCTGAAAGCTCACAAAACGGCACCGTTTTGGCTTAGGTTTTTTGCGGCGCCTCCTCA
1 GCTAAATCCCCCAAAGCTCACAAAACGGCACCGTTTTGGCTTAGGTTTTTTGCGGCGCCTCCTCA
17762024 AAAACATT
66 AAAACATT
*
17762032 GCTAAATCCCCCAAAGCTCACAAAACGGCACCGGTTTGGCTTAGGTTTTTTGCGGCGCCTCCTCA
1 GCTAAATCCCCCAAAGCTCACAAAACGGCACCGTTTTGGCTTAGGTTTTTTGCGGCGCCTCCTCA
17762097 AAAACATT
66 AAAACATT
* ** * *
17762105 GCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTAAGTTCTTTGCGGCGC
1 GCTAAATCCCCCAAAGCTCACAAAACGGCACCGTTTTGGCTTAGGTTTTTTGCGGCGC
17762163 TTTCTTGAAA
Statistics
Matches: 122, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 122 1.00
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (73 bp):
GCTAAATCCCCCAAAGCTCACAAAACGGCACCGTTTTGGCTTAGGTTTTTTGCGGCGCCTCCTCA
AAAACATT
Found at i:17762290 original size:113 final size:114
Alignment explanation
Indices: 17762083--17762337 Score: 320
Period size: 113 Copynumber: 2.2 Consensus size: 114
17762073 TAGGTTTTTT
* **
17762083 GCGGCGC-CTCCTCAAAAACATTGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTT
1 GCGGCGCTTTCCT-AAAAACACCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTT
* ** *
17762147 AAGTTCTTTGCGGCGCTTTCTTGAAAACGCCACTAAAGCTCTAAGCATTA
65 AAGTTCTTTGCGGCGCTTCCTCAAAAACGCCACTAAAGCCCTAAGCATTA
* * * *
17762197 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAC-AAACGGA-GTTGTTTTGGCTT
1 GCGGCGCTTTCCTAAAAACACCGCTAAATCCCCCAAAGCTCACAAAAC-GACGTCGTTTTGGCTT
* * *
17762260 -AGATTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
65 AAG-TTCTTTGCGGCGCTTCCTCAAAAACGCCACTAAAGCCCTAAGCATTA
*
17762310 GTGGCGCTTTCCTAAAAACACCGCTAAA
1 GCGGCGCTTTCCTAAAAACACCGCTAAA
17762338 GCCCTGAGCA
Statistics
Matches: 121, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
112 2 0.02
113 81 0.67
114 35 0.29
115 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (114 bp):
GCGGCGCTTTCCTAAAAACACCGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTA
AGTTCTTTGCGGCGCTTCCTCAAAAACGCCACTAAAGCCCTAAGCATTA
Found at i:17762316 original size:41 final size:41
Alignment explanation
Indices: 17762271--17762378 Score: 191
Period size: 41 Copynumber: 2.6 Consensus size: 41
17762261 GATTTTTTGC
*
17762271 GGCGC-TTCCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGT
1 GGCGCTTTCCT-AAAAACACCGCTAAAGCCCTGAGCATTAGT
17762312 GGCGCTTTCCTAAAAACACCGCTAAAGCCCTGAGCATTAGT
1 GGCGCTTTCCTAAAAACACCGCTAAAGCCCTGAGCATTAGT
17762353 GGCGCTTTCCTAAAAACACCGCTAAA
1 GGCGCTTTCCTAAAAACACCGCTAAA
17762379 TCCCCGAAAG
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
41 60 0.92
42 5 0.08
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (41 bp):
GGCGCTTTCCTAAAAACACCGCTAAAGCCCTGAGCATTAGT
Found at i:17762448 original size:73 final size:72
Alignment explanation
Indices: 17762359--17762524 Score: 242
Period size: 73 Copynumber: 2.3 Consensus size: 72
17762349 TAGTGGCGCT
* * * *
17762359 TTCCTAAAAACACCGCTAAATCCCCGAAAGCTTACAAAACGGCATCGTTTTGGCTTAGGTTTTTT
1 TTCCTAAAAACGCCGCTAAATCCCCCAAAGCTTACAAAACGACATCGTTTTGGCTTAGGTTATTT
17762424 ACGACGC
66 ACGACGC
*
17762431 TTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTTACAAAACGACGTCGTTTTGGCTTAGGTTATT
1 TTCCT-AAAAACGCCGCTAAATCCCCCAAAGCTTACAAAACGACATCGTTTTGGCTTAGGTTATT
* *
17762496 TGCGGCGC
65 TACGACGC
*
17762504 TTTCTTAAAAACGCCGCTAAA
1 -TTCCTAAAAACGCCGCTAAA
17762525 GCCCTGAGCA
Statistics
Matches: 84, Mismatches: 8, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
72 5 0.06
73 75 0.89
74 4 0.05
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (72 bp):
TTCCTAAAAACGCCGCTAAATCCCCCAAAGCTTACAAAACGACATCGTTTTGGCTTAGGTTATTT
ACGACGC
Found at i:17762627 original size:187 final size:187
Alignment explanation
Indices: 17762312--17762711 Score: 620
Period size: 187 Copynumber: 2.1 Consensus size: 187
17762302 GAGCATTAGT
* * * *
17762312 GGCGCTTTCCTAAAAACACCGCTAAAGCCCTGAGCATTAGTGGCGCTTTCCTAAAAACACCGCTA
1 GGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTTCCTAAAAACACCGCTA
* * *
17762377 AATCCCCGAAAGCTTACAAAACGGCATCGTTTTGGCTTAGGTTTTTTACGACGCTTCCTCAAAAA
66 AATCCCCAAAAGCTCACAAAACGGCATCGTTTTGGCTTAGATTTTTTACGACGCTTCCTCAAAAA
* *
17762442 CGCCGCTAAATCCCCCAAAGCTTACAAAACGACGTCGTTTTGGCTTAGGTTATTTGC
131 CGCAGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTAGGTTATTTGC
* * *
17762499 GGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTTGCGACGCTTTCTTAAAAACGCCGCTA
1 GGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTTCCTAAAAACACCGCTA
* ** * * *
17762564 AATCCCCAAAAGCTCATAAAACGGTGTTGTTTTGGCTTAGATTTTTTGCGGCGCTTCCTCAAAAA
66 AATCCCCAAAAGCTCACAAAACGGCATCGTTTTGGCTTAGATTTTTTACGACGCTTCCTCAAAAA
*
17762629 CGCAGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTAGGTTCTTTGC
131 CGCAGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTAGGTTATTTGC
*
17762686 GCCGCTTTCTTAAAAACGCCGCTAAA
1 GGCGCTTTCTTAAAAACGCCGCTAAA
17762712 TCCCCGAAAG
Statistics
Matches: 193, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
187 193 1.00
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (187 bp):
GGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTTCCTAAAAACACCGCTA
AATCCCCAAAAGCTCACAAAACGGCATCGTTTTGGCTTAGATTTTTTACGACGCTTCCTCAAAAA
CGCAGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGCTTAGGTTATTTGC
Found at i:17762628 original size:73 final size:73
Alignment explanation
Indices: 17762535--17762930 Score: 522
Period size: 73 Copynumber: 5.4 Consensus size: 73
17762525 GCCCTGAGCA
* * * * *
17762535 TTTGCGACGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCATAAAACGGTGTTGTTTTGGC
1 TTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGGCGTCGTTTTGGC
*
17762600 TTAGATTT
66 TTAGGTTT
* * * *
17762608 TTTGCGGCGCTTCCTCAAAAACGCAGCTAAATCCCCCAAAGCTCACAAAACGACGTCGTTTTGGC
1 TTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGGCGTCGTTTTGGC
*
17762673 TTAGGTTC
66 TTAGGTTT
* * *
17762681 TTTGCGCCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTTGTTTTGGC
1 TTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGGCGTCGTTTTGGC
17762746 TTAGGTTT
66 TTAGGTTT
* * * * *
17762754 TTTGCGGCGTTTTCTTAAAAACGCCGTTAAATCCTCGAAAGCTTACAAAACGGCGTCGTTTTGGC
1 TTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGGCGTCGTTTTGGC
17762819 TTAGGTTT
66 TTAGGTTT
* * * * * ** **
17762827 TTTACGGTGCCTCCTCAAAAATACCGCTAAATCCCCCAAAGCTCACAAAACAACGTCGTTTTGGC
1 TTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGGCGTCGTTTTGGC
* *
17762892 TTAAGTTC
66 TTAGGTTT
17762900 TTTGCGGCGCTTTCTTAAAAACGCCGCTAAA
1 TTTGCGGCGCTTTCTTAAAAACGCCGCTAAA
17762931 GCTTATTGTT
Statistics
Matches: 275, Mismatches: 48, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
73 275 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (73 bp):
TTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCCAAAGCTCACAAAACGGCGTCGTTTTGGC
TTAGGTTT
Found at i:17762628 original size:114 final size:114
Alignment explanation
Indices: 17762425--17762638 Score: 311
Period size: 114 Copynumber: 1.9 Consensus size: 114
17762415 AGGTTTTTTA
* *
17762425 CGACGCTTCCTCAAAAACGCCGCTAAATCCCCCAAAGCTTACAAAACGACGTCGTTTTGGCTTAG
1 CGACGCTTCCTCAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGACGTCGTTTTGGCTTAG
* * * *
17762490 GTTATTTGCGGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCATTTG
66 ATTATTTGCGGCGCTTCCTCAAAAACGCAGCTAAAGCCCTGAGCATTTG
* * * ** *
17762539 CGACGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCATAAAACGGTGTTGTTTTGGCTTAG
1 CGACGCTTCCTCAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGACGTCGTTTTGGCTTAG
*
17762604 ATTTTTTGCGGCGCTTCCTCAAAAACGCAGCTAAA
66 ATTATTTGCGGCGCTTCCTCAAAAACGCAGCTAAA
17762639 TCCCCCAAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
114 87 1.00
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (114 bp):
CGACGCTTCCTCAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGACGTCGTTTTGGCTTAG
ATTATTTGCGGCGCTTCCTCAAAAACGCAGCTAAAGCCCTGAGCATTTG
Found at i:17762924 original size:219 final size:219
Alignment explanation
Indices: 17762535--17762930 Score: 621
Period size: 219 Copynumber: 1.8 Consensus size: 219
17762525 GCCCTGAGCA
* * *
17762535 TTTGCGACGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCATAAAACGGTGTTGTTTTGGC
1 TTTGCGACGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTTTGGC
* * * *
17762600 TTAGATTTTTTGCGGCGCTTCCTCAAAAACGCAGCTAAATCCCCCAAAGCTCACAAAACGACGTC
66 TTAGATTTTTTACGGCGCCTCCTCAAAAACACAGCTAAATCCCCCAAAGCTCACAAAACAACGTC
*
17762665 GTTTTGGCTTAGGTTCTTTGCGCCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAA
131 GTTTTGGCTTAAGTTCTTTGCGCCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAA
17762730 ACGGCGTTGTTTTGGCTTAGGTTT
196 ACGGCGTTGTTTTGGCTTAGGTTT
* * * * * *
17762754 TTTGCGGCGTTTTCTTAAAAACGCCGTTAAATCCTCGAAAGCTTACAAAACGGCGTCGTTTTGGC
1 TTTGCGACGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTTTGGC
* * * *
17762819 TTAGGTTTTTTACGGTGCCTCCTCAAAAATACCGCTAAATCCCCCAAAGCTCACAAAACAACGTC
66 TTAGATTTTTTACGGCGCCTCCTCAAAAACACAGCTAAATCCCCCAAAGCTCACAAAACAACGTC
*
17762884 GTTTTGGCTTAAGTTCTTTGCGGCGCTTTCTTAAAAACGCCGCTAAA
131 GTTTTGGCTTAAGTTCTTTGCGCCGCTTTCTTAAAAACGCCGCTAAA
17762931 GCTTATTGTT
Statistics
Matches: 158, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
219 158 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (219 bp):
TTTGCGACGCTTTCTTAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTTTGGC
TTAGATTTTTTACGGCGCCTCCTCAAAAACACAGCTAAATCCCCCAAAGCTCACAAAACAACGTC
GTTTTGGCTTAAGTTCTTTGCGCCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAA
ACGGCGTTGTTTTGGCTTAGGTTT
Found at i:17766510 original size:14 final size:14
Alignment explanation
Indices: 17766491--17766529 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
17766481 TTGTTTCACT
17766491 GAAAATGACTTCCG
1 GAAAATGACTTCCG
* **
17766505 GAAAATGATTTTTG
1 GAAAATGACTTCCG
17766519 GAAAATGACTT
1 GAAAATGACTT
17766530 ACTTTTCTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (14 bp):
GAAAATGACTTCCG
Found at i:17767297 original size:21 final size:24
Alignment explanation
Indices: 17767252--17767297 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
17767242 TATGATATGC
*
17767252 AATCTTAGAAGATATTGATTTTGT
1 AATCTTAGAAGATATTGAATTTGT
17767276 AATCTTAG-AGAT-TT-AATTTGT
1 AATCTTAGAAGATATTGAATTTGT
17767297 A
1 A
17767298 GATACCCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 2 0.10
23 4 0.19
24 8 0.38
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (24 bp):
AATCTTAGAAGATATTGAATTTGT
Found at i:17768668 original size:266 final size:267
Alignment explanation
Indices: 17768183--17768716 Score: 971
Period size: 266 Copynumber: 2.0 Consensus size: 267
17768173 TTTATTTTAT
17768183 ACTCTTTGTTTTAAATTCATTGGTCTTTGATTATTGATGCTAGTATTTAAATAATTGCCATTATG
1 ACTCTTTGTTTTAAATTCATTGGTCTTTGATTATTGATGCTAGTATTTAAATAATTGCCATTATG
*
17768248 TGTTTTATAAATTGTTTATTTGTATTTTCATATTGCCCTTTTTTTTATCAAAGTTTTTACGCATC
66 TGTTTTATAAATTGTTTATTTGTATTTTCATATTGCCCTTTTTTTTATCAAAGTTTTTACACATC
*
17768313 GTTTTAATATTGCATCAATTTTCCCCAATTTTAAAATAGAAAAATTTTAAAAATAAGGCAATATT
131 GTTTTAATATTGCATCAATTTTCCCCAATTTTAAAACAGAAAAATTTTAAAAATAAGGCAATATT
*
17768378 CGGTACTTTGGAGCTTTGAGAAAATCGTGCTCTAACTTACTGGGTTTCGATTTTTTTGATCAAAA
196 CGGTACTTTGGAGCTTTGAGAAAATCATGCTCTAACTTACTGGGTTTCGATTTTTTTGATCAAAA
17768443 TAACCGA
261 TAACCGA
* *
17768450 ACTCTTTGTTTTAAATTCATTGGTTTTTTATTATTGATGCTAGTATTTAAATAATTGCCATTATG
1 ACTCTTTGTTTTAAATTCATTGGTCTTTGATTATTGATGCTAGTATTTAAATAATTGCCATTATG
*
17768515 TGTTTTATAAATTGTTTATTTGTATTTTCATATTGCCC-TTTTTTTATCAAATTTTTTACACATC
66 TGTTTTATAAATTGTTTATTTGTATTTTCATATTGCCCTTTTTTTTATCAAAGTTTTTACACATC
* *
17768579 GTTTTAATATTGCATCAATTTTCCCTAATTTTAAAACAGAAAACTTTTAAAAATAAGGCAATATT
131 GTTTTAATATTGCATCAATTTTCCCCAATTTTAAAACAGAAAAATTTTAAAAATAAGGCAATATT
* *
17768644 CGGTACTTTGGAGCTTTGAGAAAATCATGTTCTAACTTACTGGGTTTCGATTTTTTTGATCCAAA
196 CGGTACTTTGGAGCTTTGAGAAAATCATGCTCTAACTTACTGGGTTTCGATTTTTTTGATCAAAA
17768709 TAACCGA
261 TAACCGA
17768716 A
1 A
17768717 TATCCTTTTT
Statistics
Matches: 257, Mismatches: 10, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
266 156 0.61
267 101 0.39
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.46
Consensus pattern (267 bp):
ACTCTTTGTTTTAAATTCATTGGTCTTTGATTATTGATGCTAGTATTTAAATAATTGCCATTATG
TGTTTTATAAATTGTTTATTTGTATTTTCATATTGCCCTTTTTTTTATCAAAGTTTTTACACATC
GTTTTAATATTGCATCAATTTTCCCCAATTTTAAAACAGAAAAATTTTAAAAATAAGGCAATATT
CGGTACTTTGGAGCTTTGAGAAAATCATGCTCTAACTTACTGGGTTTCGATTTTTTTGATCAAAA
TAACCGA
Found at i:17775127 original size:45 final size:45
Alignment explanation
Indices: 17775018--17775140 Score: 126
Period size: 45 Copynumber: 2.7 Consensus size: 45
17775008 ATTAAAGTTA
* * *
17775018 CAAGTCTTATCTCCCTAAAGTTGTAGTAGAGCAGACTGAAGAAAG
1 CAAGTCTAATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGAAAG
* * * *
17775063 CAAGTCTTATC-CCCTTGAAGTTGTAGTGGGGTAGACTGAAG-ATG
1 CAAGTCTAATCTCCC-TGAAGTTGTAGTGGAGCAGACTGAAGAAAG
*
17775107 ACGAA-TCTAATCTCCCTGAAGTTGCAGTGGAGCA
1 -C-AAGTCTAATCTCCCTGAAGTTGTAGTGGAGCA
17775141 AATTAAAGCC
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
44 5 0.08
45 55 0.85
46 5 0.08
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (45 bp):
CAAGTCTAATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGAAAG
Found at i:17775237 original size:44 final size:43
Alignment explanation
Indices: 17774981--17775249 Score: 163
Period size: 44 Copynumber: 6.1 Consensus size: 43
17774971 CCACAAATCC
* * *
17774981 TATCTCTCTGAGGTTGCAGTGGAGCGGATTAAAGTTACA-AGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGC-AATTAAAGTTACATA-TCT
* * * * * **
17775025 TATCTCCCTAAAGTTGTAGTAGAGCAGACTGAAGAAAGCA-AGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCA-ATTAAAGTTA-CATA-TCT
* * * * * *
17775070 TATC-CCCTTGAAGTTGTAGTGGGGTAGACTGAAGATGACGA-ATCT
1 TATCTCCC-TGAAGTTGCAGTGGAGCA-ATTAAAG-TTAC-ATATCT
* ** *
17775115 AATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCA-ATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGC-AATTAAAGTTACAT-ATCT
* *
17775159 TATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTACATATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCA-ATTAAAGTTACATATCT
*
17775203 TATCTCCCTGAAGTTGCAGTGGAGCGAATAAAAGTTACA-AGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGC-AATTAAAGTTACATA-TCT
17775247 TAT
1 TAT
17775250 TGAAGAAAGC
Statistics
Matches: 178, Mismatches: 34, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 106 0.60
45 62 0.35
46 7 0.04
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAATTAAAGTTACATATCT
Found at i:17775598 original size:181 final size:179
Alignment explanation
Indices: 17775260--17775661 Score: 431
Period size: 181 Copynumber: 2.2 Consensus size: 179
17775250 TGAAGAAAGC
* * * *
17775260 AAGTCTTATC-CCTCTGAAGTTGCAGTGCG-GCAAACTGAAGATAACGAATCTTATTTTCCTGAA
1 AAGTCTTATCTCC-CTGAAGTTGCAGTG-GAGCAGACTGAAGATAACAAATCTCATTTCCCTGAA
* * * * * *
17775323 GCTACAGTGGAATAGATTAAAGCTATAAATCACATATTTTATCTCTCTGAAGTTGCAGTAGAGTA
64 GCTACAGTGGAAAAGATCAAAGCTATAAATCAAAAATCTTATCTCTCTGAAGTTGCAATAGAGTA
* * * * *
17775388 GATCATCGCAAATCTTGTCTCCTTGAAGTTGCAGTGGAAC-GGATTG-AAGT
129 GATCATCGCAAACCTTATCTCCTTGAAGTTACAGAGGAACAGG-TTGAAAAT
* * * *
17775438 GAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAATATATCAAATCTCGTTTCCCTGAAG
1 -AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAATCTCATTTCCCTGAAG
* *
17775503 ATTGCAGTGGAAAAGATCAAAGCTATAAATCATAAAATCTTATCTCTCTGAAGTTGCAATAGAGT
65 -CTACAGTGGAAAAGATCAAAGCTATAAATCA-AAAATCTTATCTCTCTGAAGTTGCAATAGAGT
* *
17775568 A-ATTCA-CATCAAACCTTATCT-CTCTGAAGTTACAGAGGAGCAGGTTGAAAAT
128 AGA-TCATC-GCAAACCTTATCTCCT-TGAAGTTACAGAGGAACAGGTTGAAAAT
* *
17775620 ACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
1 A--AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
17775662 CTACTAGTCC
Statistics
Matches: 185, Mismatches: 27, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
178 1 0.01
179 51 0.28
180 33 0.18
181 60 0.32
182 5 0.03
183 35 0.19
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (179 bp):
AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAATCTCATTTCCCTGAAGC
TACAGTGGAAAAGATCAAAGCTATAAATCAAAAATCTTATCTCTCTGAAGTTGCAATAGAGTAGA
TCATCGCAAACCTTATCTCCTTGAAGTTACAGAGGAACAGGTTGAAAAT
Found at i:17775652 original size:44 final size:44
Alignment explanation
Indices: 17775538--17775705 Score: 157
Period size: 44 Copynumber: 3.9 Consensus size: 44
17775528 TAAATCATAA
* * * * * *
17775538 AATCTTATCTCTCTGAAGTTGCAATAGAGTA-ATT-CACAT-CA
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAAATACC
* * * *
17775579 AACCTTATCTCTCTGAAGTTACAGAGGAGCAGGTTGAAAATACC
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAAATACC
* ** *
17775623 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAAATACC
* *
17775667 AGTCCTATCTCTCTGAAGTTGCAGTGGAGC-GATT-AAAAT
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAAAT
17775706 GATGATTCCT
Statistics
Matches: 101, Mismatches: 23, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
41 25 0.25
42 5 0.05
43 7 0.07
44 64 0.63
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAAATACC
Found at i:17775961 original size:44 final size:44
Alignment explanation
Indices: 17775824--17775962 Score: 120
Period size: 44 Copynumber: 3.1 Consensus size: 44
17775814 TTGGCAGCGA
* * * **
17775824 AGCAAATCAAAGACACCAGCCTTGCCTCCTTGAGTTTGCAGTGG
1 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTTGCAGCAG
* * ** * * * *
17775868 AGCAGA-CTGAAGATAACATATCTTGTCTTCCTGTA-TTGGCAGCAA
1 AGCAGATC-GAAGACACCA-GCCTTGCCTCCCTG-AGTTTGCAGCAG
17775913 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTTGCAGCAG
1 AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTTGCAGCAG
17775957 AGCAGA
1 AGCAGA
17775963 CTAAAAATAG
Statistics
Matches: 69, Mismatches: 21, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
43 2 0.03
44 36 0.52
45 29 0.42
46 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (44 bp):
AGCAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTTGCAGCAG
Found at i:17776065 original size:89 final size:88
Alignment explanation
Indices: 17775774--17776077 Score: 362
Period size: 89 Copynumber: 3.4 Consensus size: 88
17775764 CTAAAGTTAA
* * * * *
17775774 AGTGGAGCAGGCTGACA-ATAGTAAATCTTATCTTCCTGTATTGGCAGCGAAGCAAATC-AAAGA
1 AGTGGAGCAGACTGA-AGATAGTAGATCTTGTCTTCCTGTATTGGCAGCAAAGCAGATCGAAA-A
17775837 CACCAGCCTTGCCTCCTTGAGTTTGC
64 CACCAGCCTTGCCTCC-TGAGTTTGC
** * *
17775863 AGTGGAGCAGACTGAAGATAACATATCTTGTCTTCCTGTATTGGCAGCAAAGCAGATCGAAGACA
1 AGTGGAGCAGACTGAAGATAGTAGATCTTGTCTTCCTGTATTGGCAGCAAAGCAGATCGAAAACA
17775928 CCAGCCTTGCCTCCCTGAGTTTGC
66 CCAGCCTTGCCT-CCTGAGTTTGC
** * * * *
17775952 AGCAGAGCAGACTAAAAATAGTAGATCTTGTCTTCCTGTACTGGCAGTAAAGCAGATCGAAAACA
1 AGTGGAGCAGACTGAAGATAGTAGATCTTGTCTTCCTGTATTGGCAGCAAAGCAGATCGAAAACA
17776017 CCAGCCTTGCCTCTCTGAGTTTGC
66 CCAGCCTTGCCTC-CTGAGTTTGC
* ** *
17776041 AGTGGAGTAGGTTGAAGATTGTAGATCATT-TCTTCCT
1 AGTGGAGCAGACTGAAGATAGTAGATC-TTGTCTTCCT
17776078 AAGAAGTAGT
Statistics
Matches: 184, Mismatches: 26, Indels: 10
0.84 0.12 0.05
Matches are distributed among these distances:
88 2 0.01
89 176 0.96
90 6 0.03
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (88 bp):
AGTGGAGCAGACTGAAGATAGTAGATCTTGTCTTCCTGTATTGGCAGCAAAGCAGATCGAAAACA
CCAGCCTTGCCTCCTGAGTTTGC
Found at i:17776205 original size:44 final size:44
Alignment explanation
Indices: 17776155--17776354 Score: 153
Period size: 44 Copynumber: 4.6 Consensus size: 44
17776145 AGCCACCAGC
*
17776155 CCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTAAAT
1 CCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATCGTAAAT
* * *
17776199 CTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CG-ACGAAT
1 CCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATCGTA--AAT
* * * * * *** *
17776243 CTTATCTTCCC-GAG-A-TAGTAGGAAG-CGGATTTAAG-CCACCAGT
1 CCTATC-TCCCTAAGCAGTAGT-GG-AGTAGG-TTGAAGATCGTAAAT
* *
17776286 CCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGTATAT
1 CCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATCGTAAAT
*
17776330 CCTGTCTCCCTAAGCAGTAGTGGAG
1 CCTATCTCCCTAAGCAGTAGTGGAG
17776355 CAGATCAAAG
Statistics
Matches: 120, Mismatches: 23, Indels: 26
0.71 0.14 0.15
Matches are distributed among these distances:
42 9 0.08
43 21 0.17
44 82 0.68
45 8 0.07
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (44 bp):
CCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATCGTAAAT
Found at i:17776338 original size:131 final size:131
Alignment explanation
Indices: 17776041--17776428 Score: 571
Period size: 131 Copynumber: 2.9 Consensus size: 131
17776031 CTGAGTTTGC
* * * * * * *
17776041 AGTGGAGTAGGTTGAAGATTGTAGATCATTTCTTCCTAAGAAGTAGTGTAGTATATCAAAGACGG
1 AGTGGAGTAGGTTGAAGATTGTAAATCATATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGG
*
17776106 CGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGCCCTATCTCCCTAAGCA
66 CGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAG-CCTATCTCCCTAAGCA
17776171 GT
130 GT
* ** *
17776173 AGTGGAGTAGGTTGAAGATTGTAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGA
1 AGTGGAGTAGGTTGAAGATTGTAAATCATATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGG
* *
17776238 CGAATCTTATCTTCCCGAGATAGTA-GGAAGCGGATTTAAGCCACCAGTCCTATCTCCCTAAGCA
66 CGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAG-CCTATCTCCCTAAGCA
17776302 GT
130 GT
* * *
17776304 AGTGGAGTAGGTTGAAGATTGTATATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGG
1 AGTGGAGTAGGTTGAAGATTGTAAATCATATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGG
* *
17776369 CGACTCTTATCTTCCCGAGGTAGTAGGGAAGCAAATTTAAGCCACCAGCCTTATCTCCCT
66 CGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGCC-TATCTCCCT
17776429 GAAGTTGCAG
Statistics
Matches: 229, Mismatches: 25, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
131 123 0.54
132 106 0.46
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (131 bp):
AGTGGAGTAGGTTGAAGATTGTAAATCATATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGG
CGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGCCTATCTCCCTAAGCAG
T
Found at i:17776913 original size:17 final size:19
Alignment explanation
Indices: 17776872--17776913 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
17776862 AATCTTCAAG
* *
17776872 GATATGCAATCTTAAGTAT
1 GATATGCAATATTAAGTAA
17776891 GATATGCAATATT-AG-AA
1 GATATGCAATATTAAGTAA
17776908 GATATG
1 GATATG
17776914 ATTTCGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 7 0.33
18 2 0.10
19 12 0.57
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.33
Consensus pattern (19 bp):
GATATGCAATATTAAGTAA
Found at i:17779764 original size:21 final size:18
Alignment explanation
Indices: 17779734--17779773 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
17779724 ATGATTTTTG
17779734 GAAAATTGATTAATTTTCTA
1 GAAAATTGA-T-ATTTTCTA
17779754 GAAAACTTGATATTTTCTA
1 GAAAA-TTGATATTTTCTA
17779773 G
1 G
17779774 TATTTGAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.47
20 6 0.32
21 4 0.21
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.42
Consensus pattern (18 bp):
GAAAATTGATATTTTCTA
Found at i:17780711 original size:16 final size:17
Alignment explanation
Indices: 17780690--17780728 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
17780680 ACAAGTACTC
*
17780690 ATATTTA-TATTATAAA
1 ATATTTATTATTAAAAA
17780706 ATATTTATTATTAAAAA
1 ATATTTATTATTAAAAA
17780723 ATATTT
1 ATATTT
17780729 TCTTTTCCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTTATTATTAAAAA
Found at i:17785455 original size:110 final size:110
Alignment explanation
Indices: 17785279--17785498 Score: 318
Period size: 110 Copynumber: 2.0 Consensus size: 110
17785269 GGACACGCGG
* * *
17785279 TCGTGTCTCAGCCAGTGTCTATACCTGTGTAACTCTCTGGCTTGGATCACACAGCCGAACTACAC
1 TCGTGTCCCAGCCAGTGTCTATACCTGTGTAACTCTCTGACTTGGATCACACAGCCGAACCACAC
* * * *
17785344 GCCCGTGTGCTAGA-TCGTATGCCCTTTCGAAATGGCCTCACACGC
66 GCCCATGTGCCAGACT-GTATACCCTTTCAAAATGGCCTCACACGC
* *
17785389 TCGTGTCCCAGCC-GATGTTTATACCTGTGTAACTCTCTGACTTGGGTCACACAGCCGAACCACA
1 TCGTGTCCCAGCCAG-TGTCTATACCTGTGTAACTCTCTGACTTGGATCACACAGCCGAACCACA
*
17785453 CGCCCATGTGCCAGACTGTGTACCCTTTCAAAATGGCCTCACACGC
65 CGCCCATGTGCCAGACTGTATACCCTTTCAAAATGGCCTCACACGC
17785499 CCGTATGCTA
Statistics
Matches: 98, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
109 1 0.01
110 96 0.98
111 1 0.01
ACGTcount: A:0.21, C:0.33, G:0.21, T:0.25
Consensus pattern (110 bp):
TCGTGTCCCAGCCAGTGTCTATACCTGTGTAACTCTCTGACTTGGATCACACAGCCGAACCACAC
GCCCATGTGCCAGACTGTATACCCTTTCAAAATGGCCTCACACGC
Found at i:17786348 original size:41 final size:40
Alignment explanation
Indices: 17786250--17786361 Score: 142
Period size: 37 Copynumber: 2.8 Consensus size: 40
17786240 TCGGATACTT
*
17786250 CGAAGTAGTAAATTGACACCCAGTGTCTCATC-AGTTAAAC
1 CGAAGTA-TAAATTGACACCCAGTGTCTCATCGAGATAAAC
*
17786290 CGAAG--TAAATTGACACCCAGTGCCTCATCGA-ATAAATC
1 CGAAGTATAAATTGACACCCAGTGTCTCATCGAGATAAA-C
*
17786328 TGAAGTAATAAATTGACACCCAGTGTCTCATCGA
1 CGAAGT-ATAAATTGACACCCAGTGTCTCATCGA
17786362 CTCGAAGAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
37 27 0.43
38 6 0.10
40 5 0.08
41 25 0.40
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (40 bp):
CGAAGTATAAATTGACACCCAGTGTCTCATCGAGATAAAC
Found at i:17786798 original size:19 final size:19
Alignment explanation
Indices: 17786774--17786813 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
17786764 TACAACACAA
17786774 TTCAATTTCATACT-AATAT
1 TTCAATTT-ATACTCAATAT
*
17786793 TTCAATTTTTACTCAATAT
1 TTCAATTTATACTCAATAT
17786812 TT
1 TT
17786814 GCCTAAATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.53
Consensus pattern (19 bp):
TTCAATTTATACTCAATAT
Found at i:17790094 original size:22 final size:22
Alignment explanation
Indices: 17790066--17790115 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
17790056 GTACAGGTTC
17790066 AGCACTTCAGTGATCTCTACTT
1 AGCACTTCAGTGATCTCTACTT
* **
17790088 AGCACTTCAGTGTTCTCTGTTT
1 AGCACTTCAGTGATCTCTACTT
17790110 AGCACT
1 AGCACT
17790116 ACGATGCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.20, C:0.26, G:0.16, T:0.38
Consensus pattern (22 bp):
AGCACTTCAGTGATCTCTACTT
Found at i:17793454 original size:14 final size:14
Alignment explanation
Indices: 17793435--17793464 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17793425 AATTCAAGAG
17793435 TATGTAAGTATATA
1 TATGTAAGTATATA
*
17793449 TATGTATGTATATA
1 TATGTAAGTATATA
17793463 TA
1 TA
17793465 ATAATAAAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (14 bp):
TATGTAAGTATATA
Found at i:17793603 original size:3 final size:3
Alignment explanation
Indices: 17793531--17793588 Score: 62
Period size: 3 Copynumber: 19.0 Consensus size: 3
17793521 AAAATAAAAC
* * * * *
17793531 TAA TAG TAA TAAA TAG TAA TAA TAG TAA TAA TAA TAA CAA TAA CAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
17793577 TAA TAA TAA TAA
1 TAA TAA TAA TAA
17793589 ATGTAATGAT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:17795202 original size:25 final size:25
Alignment explanation
Indices: 17795122--17795459 Score: 90
Period size: 25 Copynumber: 13.5 Consensus size: 25
17795112 GTGACACACC
* *
17795122 ACAGCTCTCTTGAGCTTCCCGATAT
1 ACAGCTCTCATGAGCTTCCCAATAT
*** * *
17795147 TTGGCTCGCAAGAGCTTCCCAATAT
1 ACAGCTCTCATGAGCTTCCCAATAT
17795172 ACAGCTCAT-ATGAGCTTCCCAAGTA-
1 ACAGCTC-TCATGAGCTTCCCAA-TAT
* * *
17795197 ATAGCTCTCTTGAGCTTCCCGATACT
1 ACAGCTCTCATGAGCTTCCCAATA-T
** * *
17795223 -TGGCTCTCATGAGCTTTCTAAT-T
1 ACAGCTCTCATGAGCTTCCCAATAT
* **
17795246 AATAGCTCTTTTGAGCTTCCC--TAT
1 -ACAGCTCTCATGAGCTTCCCAATAT
* * *
17795270 ACTTTGCTTTCATGAGCTTCCCGAT-T
1 AC--AGCTCTCATGAGCTTCCCAATAT
* * * *
17795296 AATAGCTCTCTTGAGCTTCTCGATACT
1 -ACAGCTCTCATGAGCTTCCCAATA-T
**
17795323 -TTGCTCTCATGAGCTTCCCAATTAAT
1 ACAGCTCTCATGAGCTTCCCAA-T-AT
** *
17795349 A-A-CTCTTTTGAGCTTCCCGATACT
1 ACAGCTCTCATGAGCTTCCCAATA-T
** *
17795373 -TGGCTCTCATGAGCTTCCCGAT-T
1 ACAGCTCTCATGAGCTTCCCAATAT
* * * * *
17795396 AATAGCTCTCTTAAGCTTCCCGATAA
1 -ACAGCTCTCATGAGCTTCCCAATAT
** *
17795422 ATGGCT-TGCATGAGCTTCCCGATAT
1 ACAGCTCT-CATGAGCTTCCCAATAT
* *
17795447 ACAACTCACATGA
1 ACAGCTCTCATGA
17795460 ACTGCCTGTT
Statistics
Matches: 229, Mismatches: 58, Indels: 52
0.68 0.17 0.15
Matches are distributed among these distances:
23 5 0.02
24 7 0.03
25 208 0.91
26 5 0.02
27 4 0.02
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (25 bp):
ACAGCTCTCATGAGCTTCCCAATAT
Found at i:17795444 original size:50 final size:50
Alignment explanation
Indices: 17795181--17795441 Score: 362
Period size: 50 Copynumber: 5.2 Consensus size: 50
17795171 TACAGCTCAT
*
17795181 ATGAGCTTCCCAAGTAATAGCTCTCTTGAGCTTCCCGATACTTGGCTCTC
1 ATGAGCTTCCCAATTAATAGCTCTCTTGAGCTTCCCGATACTTGGCTCTC
* * * * * *
17795231 ATGAGCTTTCTAATTAATAGCTCTTTTGAGCTTCCCTATACTTTGCTTTC
1 ATGAGCTTCCCAATTAATAGCTCTCTTGAGCTTCCCGATACTTGGCTCTC
* * *
17795281 ATGAGCTTCCCGATTAATAGCTCTCTTGAGCTTCTCGATACTTTGCTCTC
1 ATGAGCTTCCCAATTAATAGCTCTCTTGAGCTTCCCGATACTTGGCTCTC
* *
17795331 ATGAGCTTCCCAATTAATAACTCTTTTGAGCTTCCCGATACTTGGCTCTC
1 ATGAGCTTCCCAATTAATAGCTCTCTTGAGCTTCCCGATACTTGGCTCTC
* * **
17795381 ATGAGCTTCCCGATTAATAGCTCTCTTAAGCTTCCCGATAAATGGCT-TGC
1 ATGAGCTTCCCAATTAATAGCTCTCTTGAGCTTCCCGATACTTGGCTCT-C
17795431 ATGAGCTTCCC
1 ATGAGCTTCCC
17795442 GATATACAAC
Statistics
Matches: 185, Mismatches: 25, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
49 1 0.01
50 184 0.99
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.36
Consensus pattern (50 bp):
ATGAGCTTCCCAATTAATAGCTCTCTTGAGCTTCCCGATACTTGGCTCTC
Found at i:17799188 original size:101 final size:102
Alignment explanation
Indices: 17799073--17799257 Score: 302
Period size: 101 Copynumber: 1.8 Consensus size: 102
17799063 AAAGTGATGG
*
17799073 TCACGTGTGTAGTACTATTTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTCACATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGTAGT
17799136 ACTATGTGCAGGCTACTATGCTTACCGGATAGCTTTGA
65 ACTATGTGCAGGCTACTATGCTTACCGGATAGCTTTGA
* * * *
17799174 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAGATAGTGATGGTCACATTTGTAGTG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
17799239 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
17799258 TGAACTGGTA
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
101 39 0.51
102 34 0.44
103 4 0.05
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCTTACCGGATAGCTTTGA
Found at i:17799190 original size:51 final size:50
Alignment explanation
Indices: 17799070--17799255 Score: 205
Period size: 51 Copynumber: 3.7 Consensus size: 50
17799060 TTGAAAGTGA
* * *
17799070 TGGTCACGTGTGTAGTACTATTTGCAGGCTACTACGTGTACCAGA-ATGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATA-GTT
* * *
17799120 AGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCT-TACCGGATAGCTT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACG-TGTACCAGATAG-TT
* * * * *
17799171 TGATCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAGATAGTGA
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGT-T
* *
17799222 TGGTCACATTTGTAGTGCTATGTGCAGGCTACTA
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTA
17799256 TGTGAACTGG
Statistics
Matches: 112, Mismatches: 19, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
50 41 0.37
51 71 0.63
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (50 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTT
Done.