Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 64 of 205
Found at i:19190324 original size:12 final size:12
Alignment explanation
Indices: 19190307--19190357 Score: 59
Period size: 12 Copynumber: 4.1 Consensus size: 12
19190297 GAAAAAAATG
19190307 AAATAAATAATA
1 AAATAAATAATA
*
19190319 AAATAAATAAAA
1 AAATAAATAATA
19190331 AAATGATAATAATA
1 AAAT-A-AATAATA
19190345 ATAAT-AATAATA
1 A-AATAAATAATA
19190357 A
1 A
19190358 TGACAAACAG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
12 23 0.68
13 1 0.03
14 7 0.21
15 3 0.09
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (12 bp):
AAATAAATAATA
Found at i:19190608 original size:20 final size:19
Alignment explanation
Indices: 19190553--19190602 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
19190543 AAATGACCAA
19190553 AAAAAT-AAAAATA--AAC
1 AAAAATAAAAAATATGAAC
*
19190569 CAAAATAAAAAATATGAAC
1 AAAAATAAAAAATATGAAC
19190588 AAAAATAAAGAAATA
1 AAAAATAAA-AAATA
19190603 ATAACAGCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 5 0.18
17 7 0.25
19 11 0.39
20 5 0.18
ACGTcount: A:0.76, C:0.06, G:0.04, T:0.14
Consensus pattern (19 bp):
AAAAATAAAAAATATGAAC
Found at i:19192169 original size:44 final size:44
Alignment explanation
Indices: 19192081--19192520 Score: 273
Period size: 44 Copynumber: 9.8 Consensus size: 44
19192071 GATCCGTTTT
* ** * * ** *
19192081 AATCCGCTCCACTGTGACTTCAGGAAAATAAGATTAATAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTC
* ** *
19192125 AATCTCCTTAACTGTAACTTCAGGGAGATAAGATTGGTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTC
* *
19192169 AA-CATGCTCCACTGCAACTTCAGGGAGATAAGGTTGGTTGTCTTC
1 AATC-TGCTCCACTGCAACTTCAGGGAGATAAGATTGG-TATCTTC
* * *
19192214 AGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTTATGGTAGACTT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-----T-TGGTA-TCTTC
* * * * * * ** *
19192264 AATCCGAC-CTACTGTAACTTCCGAGG-TATAGGATTCATCAT-TTT
1 AATCTG-CTCCACTGCAACTTCAG-GGAGATAAGATTGGT-ATCTTC
* * * *
19192308 AATCCGCTCTACTGCAACTTCAGGGAGATAGGACTTGGTAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGGTATCTTC
* * * * * *
19192353 AATCTACTCCACTGCAACTTCAAGAAGATAAGATTGATTTATTTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTG--GTATCTTC
* * *
19192399 AATCTGCACCACTG-TACTTCAAGGAGATAAGATTGGTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTC
* * ** *
19192442 AACCTGCTCCACTGCAACTTCAGGGAGATAAGGTCT-GTGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TGGTATCTTC
* *
19192486 AATATGCTCCACCGCAACTTCAGGGAGATAAGATT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
19192521 TGTAGTCTGT
Statistics
Matches: 306, Mismatches: 68, Indels: 45
0.73 0.16 0.11
Matches are distributed among these distances:
43 24 0.08
44 146 0.48
45 88 0.29
46 17 0.06
50 22 0.07
51 9 0.03
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTC
Found at i:19192232 original size:45 final size:44
Alignment explanation
Indices: 19192140--19192520 Score: 168
Period size: 45 Copynumber: 8.5 Consensus size: 44
19192130 CCTTAACTGT
*
19192140 AACTTCAGGGAGATAAGATTGGTATCTTCAACATGCTCCACTGC
1 AACTTCAGGGAGATAAGATTGGTATCTTCAACATGCTCCACTAC
* * *
19192184 AACTTCAGGGAGATAAGGTTGGTTGTCTTCAGTC-TGCTCCACTAC
1 AACTTCAGGGAGATAAGATTGG-TATCTTCA-ACATGCTCCACTAC
* ** * **
19192229 AACTTCAGGGAGATAAGACTTGTTATGGT-AGACTTAATCCGACCTAC
1 AACTTCAGGGAGATAAGA-TTGGTATCTTCA-ACATGCTCC-A-CTAC
* * * ** * * * *
19192276 TGTAACTTCCGAGG-TATAGGATTCATCAT-TTTAATC-CGCTCTACTGC
1 ---AACTTCAG-GGAGATAAGATTGGT-ATCTTCAA-CATGCTCCACTAC
* * * *
19192323 AACTTCAGGGAGATAGGACTTGGTAACTTCAATC-TACTCCACTGC
1 AACTTCAGGGAGATAAGA-TTGGTATCTTCAA-CATGCTCCACTAC
* * * * * * *
19192368 AACTTCAAGAAGATAAGATTGATTTATTTTTAATC-TGCACCACT-G
1 AACTTCAGGGAGATAAGATTG--GTATCTTCAA-CATGCTCCACTAC
* * * *
19192413 TACTTCAAGGAGATAAGATTGGTATCTTCAACCTGCTCCACTGC
1 AACTTCAGGGAGATAAGATTGGTATCTTCAACATGCTCCACTAC
* ** * * **
19192457 AACTTCAGGGAGATAAGGTCT-GTGGCTTTAATATGCTCCACCGC
1 AACTTCAGGGAGATAAGAT-TGGTATCTTCAACATGCTCCACTAC
19192501 AACTTCAGGGAGATAAGATT
1 AACTTCAGGGAGATAAGATT
19192521 TGTAGTCTGT
Statistics
Matches: 257, Mismatches: 59, Indels: 43
0.72 0.16 0.12
Matches are distributed among these distances:
42 1 0.00
43 18 0.07
44 92 0.36
45 93 0.36
46 20 0.08
47 7 0.03
48 1 0.00
49 7 0.03
50 16 0.06
51 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (44 bp):
AACTTCAGGGAGATAAGATTGGTATCTTCAACATGCTCCACTAC
Found at i:19192245 original size:89 final size:89
Alignment explanation
Indices: 19192135--19192520 Score: 293
Period size: 89 Copynumber: 4.3 Consensus size: 89
19192125 AATCTCCTTA
*
19192135 ACTGTAACTTCAGGGAGATAAGATTGGTATCTTCAACATGCTCCACTGCAACTTCAGGGAGATAA
1 ACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACATGCTCCACTGCAACTTCAGGGAGATAA
* * *
19192200 GGTTGGTTGTCTTCAGTCTGCTCC
66 GGTTGGTTATCTTTAATCTGCTCC
* * ** * * * *
19192224 ACTACAACTTCAGGGAGATAAGACTTGTTATGGT-AGACTTAATCCGACCTACTGTAACTTC--C
1 ACTGCAACTTCAGGGAGATAAGA-TTGGTATCTTCA-AC---ATGC-TCC-ACTGCAACTTCAGG
* ** * * *
19192286 GAGGTATAGGATTCATCAT-TTTAATCCGCTCT
59 GAGATA-AGG-TTGGTTATCTTTAATCTGCTCC
* * * * *
19192318 ACTGCAACTTCAGGGAGATAGGACTTGGTAACTTCAATC-TACTCCACTGCAACTTCAAGAAGAT
1 ACTGCAACTTCAGGGAGATAAGA-TTGGTATCTTCAA-CATGCTCCACTGCAACTTCAGGGAGAT
* * * *
19192382 AAGATTGATTTATTTTTAATCTGCACC
64 AAGGTTG-GTTATCTTTAATCTGCTCC
* * *
19192409 ACTG-TACTTCAAGGAGATAAGATTGGTATCTTCAACCTGCTCCACTGCAACTTCAGGGAGATAA
1 ACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACATGCTCCACTGCAACTTCAGGGAGATAA
** *
19192473 GGTCT-G-TGGCTTTAATATGCTCC
66 GGT-TGGTTATCTTTAATCTGCTCC
*
19192496 ACCGCAACTTCAGGGAGATAAGATT
1 ACTGCAACTTCAGGGAGATAAGATT
19192521 TGTAGTCTGT
Statistics
Matches: 225, Mismatches: 54, Indels: 37
0.71 0.17 0.12
Matches are distributed among these distances:
87 15 0.07
88 19 0.08
89 72 0.32
90 32 0.14
91 20 0.09
93 8 0.04
94 43 0.19
95 16 0.07
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.30
Consensus pattern (89 bp):
ACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACATGCTCCACTGCAACTTCAGGGAGATAA
GGTTGGTTATCTTTAATCTGCTCC
Found at i:19192670 original size:51 final size:52
Alignment explanation
Indices: 19192539--19192682 Score: 155
Period size: 52 Copynumber: 2.8 Consensus size: 52
19192529 GTCTTCAATC
* * * * *
19192539 GAAAACAAGATTCGTTGTCTTCAGCTTTAATCTGCTCCGCTGCAATGCCAGG
1 GAAAACAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACGCCAAG
* * * * * *
19192591 GAAAACAAGATTCGCTACCTTTATCTTTAATTTGTTCCACTGTAACGCCAAG
1 GAAAACAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACGCCAAG
* * *
19192643 G-AAATAGGATTCGCTGCCTTCAGCTTTAATCCGCTCCACT
1 GAAAACAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACT
19192683 TCAGCTTTAA
Statistics
Matches: 73, Mismatches: 19, Indels: 1
0.78 0.20 0.01
Matches are distributed among these distances:
51 31 0.42
52 42 0.58
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (52 bp):
GAAAACAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACGCCAAG
Found at i:19192701 original size:21 final size:21
Alignment explanation
Indices: 19192660--19192703 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
19192650 GATTCGCTGC
*
19192660 CTTCAGCTTTAATCCGCTCCA
1 CTTCAGCTTTAATCCACTCCA
* *
19192681 CTTCAGCTTTAATCTATTCCA
1 CTTCAGCTTTAATCCACTCCA
19192702 CT
1 CT
19192704 ACAATGCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.34, G:0.07, T:0.39
Consensus pattern (21 bp):
CTTCAGCTTTAATCCACTCCA
Found at i:19193114 original size:88 final size:88
Alignment explanation
Indices: 19192942--19193140 Score: 236
Period size: 88 Copynumber: 2.3 Consensus size: 88
19192932 CTGCTTAGGG
* * * * * * **
19192942 AGACAGGATCTGCAATCTTCAACCTCCTCCACTGCTGCTCAAGGAGATAAGGTTGATTTTTTTTA
1 AGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAAGGAGATAAGGCTGATGTTTTCAA
*** *
19193007 TCTGCTTCACTGTTAGTACAGTA
66 TCTGCTTCACTACCAGTACAGGA
* * * * *
19193030 AGACAAGATTTATAATCTTTAACCTACTCCACTACTGCTTAGGGAGATAAGGCTGATGTTTTCAA
1 AGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAAGGAGATAAGGCTGATGTTTTCAA
*
19193095 TCTGCTTCACTACCGGTACAGGA
66 TCTGCTTCACTACCAGTACAGGA
19193118 AGACAAGATCTACAATCTTCAAC
1 AGACAAGATCTACAATCTTCAAC
19193141 AATCCATTCC
Statistics
Matches: 90, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
88 90 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (88 bp):
AGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAAGGAGATAAGGCTGATGTTTTCAA
TCTGCTTCACTACCAGTACAGGA
Found at i:19193475 original size:24 final size:24
Alignment explanation
Indices: 19193443--19193500 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
19193433 AGATTGCCCT
*
19193443 CACTGTAATCTTCAGGGTTCAATC
1 CACTGTAATCTTCAAGGTTCAATC
*
19193467 CACTGTAATCTTTAAGGTTCAATC
1 CACTGTAATCTTCAAGGTTCAATC
19193491 CACTTGTAAT
1 CAC-TGTAAT
19193501 TTTGGGACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 25 0.81
25 6 0.19
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (24 bp):
CACTGTAATCTTCAAGGTTCAATC
Found at i:19194162 original size:108 final size:109
Alignment explanation
Indices: 19193973--19194195 Score: 304
Period size: 108 Copynumber: 2.1 Consensus size: 109
19193963 GAAAAATGCT
* * *
19193973 TGAAAATGATTATCACAATGGACGAGATGAAATTTTATTGAGAAAAAAGCTCGAAATAAATAAAT
1 TGAAAAAGATTATCACAATGGACAAGATGAAATTTTATTGAGAAAAAAGCTCGAAATAAACAAAT
* * *
19194038 AAATCAAGATAGCAAATTTTGCTGAGATAC-GAGATGAATAAGA
66 AAATCAAGATAGCAAATTTTGCTAAGATACAAAAATGAATAAGA
* * ** ** *
19194081 TGAAAAAGATTATCACAATGGATAAGATGGAATTTTATTGAGAGCAAAGCTTTAAATGAACAAAT
1 TGAAAAAGATTATCACAATGGACAAGATGAAATTTTATTGAGAAAAAAGCTCGAAATAAACAAAT
* *
19194146 TAATCAAGATAGCAAATTTTTCTAAGATACAAAAATGAATAAGA
66 AAATCAAGATAGCAAATTTTGCTAAGATACAAAAATGAATAAGA
19194190 TGAAAA
1 TGAAAA
19194196 CAAGTGTCCT
Statistics
Matches: 99, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
108 82 0.83
109 17 0.17
ACGTcount: A:0.49, C:0.08, G:0.17, T:0.26
Consensus pattern (109 bp):
TGAAAAAGATTATCACAATGGACAAGATGAAATTTTATTGAGAAAAAAGCTCGAAATAAACAAAT
AAATCAAGATAGCAAATTTTGCTAAGATACAAAAATGAATAAGA
Found at i:19199521 original size:3 final size:3
Alignment explanation
Indices: 19199488--19199556 Score: 95
Period size: 3 Copynumber: 23.0 Consensus size: 3
19199478 AAATGAAATA
* * *
19199488 AAT AAT AA- AAT AAAT AAC AAA AAT GAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
19199533 AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT
19199557 GACAAACAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
2 2 0.03
3 54 0.92
4 3 0.05
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:19199834 original size:23 final size:19
Alignment explanation
Indices: 19199775--19199824 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
19199765 AAATGACCGA
19199775 AAAAAT-AAAAATA--AAC
1 AAAAATAAAAAATATGAAC
*
19199791 CAAAATAAAAAATATGAAC
1 AAAAATAAAAAATATGAAC
19199810 AAAAATAAAGAAATA
1 AAAAATAAA-AAATA
19199825 ATAGCAACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 5 0.18
17 7 0.25
19 11 0.39
20 5 0.18
ACGTcount: A:0.76, C:0.06, G:0.04, T:0.14
Consensus pattern (19 bp):
AAAAATAAAAAATATGAAC
Found at i:19201089 original size:16 final size:16
Alignment explanation
Indices: 19201065--19201101 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
19201055 ATTTATCAGG
*
19201065 CCTGCGGCAGGCCTGA
1 CCTGTGGCAGGCCTGA
19201081 CCTGTGGCAGGCCTGA
1 CCTGTGGCAGGCCTGA
19201097 CCTGT
1 CCTGT
19201102 CCTTTCATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.11, C:0.35, G:0.35, T:0.19
Consensus pattern (16 bp):
CCTGTGGCAGGCCTGA
Found at i:19201130 original size:5 final size:5
Alignment explanation
Indices: 19201120--19201176 Score: 69
Period size: 5 Copynumber: 10.6 Consensus size: 5
19201110 CTTCTTCTTT
*
19201120 TTTCA TTTCA TTTCTA TTTCCA TTTCA TTTCA TTTCA TTTCCA TATCCA
1 TTTCA TTTCA TTTC-A TTT-CA TTTCA TTTCA TTTCA TTT-CA T-TTCA
19201169 TTTCA TTT
1 TTTCA TTT
19201177 AAATTATCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
5 30 0.65
6 14 0.30
7 2 0.04
ACGTcount: A:0.19, C:0.23, G:0.00, T:0.58
Consensus pattern (5 bp):
TTTCA
Found at i:19201147 original size:22 final size:21
Alignment explanation
Indices: 19201120--19201176 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 21
19201110 CTTCTTCTTT
19201120 TTTCATTTCATTTCTATTTCCA
1 TTTCATTTCATTTC-ATTTCCA
19201142 TTTCATTTCATTTCATTTCCA
1 TTTCATTTCATTTCATTTCCA
*
19201163 TATCCATTTCATTT
1 T-TTCATTTCATTT
19201177 AAATTATCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
21 8 0.24
22 25 0.76
ACGTcount: A:0.19, C:0.23, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTCATTTCATTTCATTTCCA
Found at i:19201150 original size:27 final size:27
Alignment explanation
Indices: 19201120--19201176 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
19201110 CTTCTTCTTT
* *
19201120 TTTCATTTCATTTCTATTTCCATTTCA
1 TTTCATTTCATTTCCATATCCATTTCA
19201147 TTTCATTTCATTTCCATATCCATTTCA
1 TTTCATTTCATTTCCATATCCATTTCA
19201174 TTT
1 TTT
19201177 AAATTATCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.19, C:0.23, G:0.00, T:0.58
Consensus pattern (27 bp):
TTTCATTTCATTTCCATATCCATTTCA
Found at i:19201196 original size:49 final size:48
Alignment explanation
Indices: 19201167--19201493 Score: 432
Period size: 49 Copynumber: 6.8 Consensus size: 48
19201157 TTTCCATATC
*
19201167 CATTTCATTTAAATTATCTTTTTTTTTCATTTAAATTTAATTTTTT-T
1 CATTTCATTTAAATTATCTTTTTTTTCCATTTAAATTTAATTTTTTCT
* * *
19201214 AATTTCATTTAAATTAT-GTTTCTTTCCATTTAAATTTAATTTTTTTTCT
1 CATTTCATTTAAATTATCTTTTTTTTCCATTTAAATTTAA--TTTTTTCT
*
19201263 CATTTAATTTAAATTATC-TTTTTTTCCATTTAAATTTAATTTTTTCT
1 CATTTCATTTAAATTATCTTTTTTTTCCATTTAAATTTAATTTTTTCT
19201310 CATTTCATTTAAATTATCTCTTTTTTTCCATTTAAATTTAATTTTTTCT
1 CATTTCATTTAAATTATCT-TTTTTTTCCATTTAAATTTAATTTTTTCT
* * *
19201359 CATTTCATTTAAATTGTC-CTTTTTTCCATTTAAATTTTATTTTTTTCT
1 CATTTCATTTAAATTATCTTTTTTTTCCATTTAAA-TTTAATTTTTTCT
* * *
19201407 CATTTCATTTAAATTATC-TTTCTTTCCATTTTAATTTACTTTTTTTTCT
1 CATTTCATTTAAATTATCTTTTTTTTCCATTTAAATTTA--ATTTTTTCT
* * *
19201456 CATTTCATTTAAATTATC-TTTCTTGCCATTTTAATTTA
1 CATTTCATTTAAATTATCTTTTTTTTCCATTTAAATTTA
19201494 CGTTTTTTTT
Statistics
Matches: 255, Mismatches: 16, Indels: 16
0.89 0.06 0.06
Matches are distributed among these distances:
46 19 0.07
47 60 0.24
48 48 0.19
49 128 0.50
ACGTcount: A:0.24, C:0.13, G:0.01, T:0.62
Consensus pattern (48 bp):
CATTTCATTTAAATTATCTTTTTTTTCCATTTAAATTTAATTTTTTCT
Found at i:19201278 original size:96 final size:96
Alignment explanation
Indices: 19201167--19201493 Score: 480
Period size: 96 Copynumber: 3.4 Consensus size: 96
19201157 TTTCCATATC
* *
19201167 CATTTCATTTAAATTATCTTTTTTTTTCATTTAAATTTAATTTTTT-TAATTTCATTTAAATTAT
1 CATTTCATTTAAATTATC-TTTTTTTCCATTTAAATTTAATTTTTTCTCATTTCATTTAAATTAT
*
19201231 GTTTCTTTCCATTTAAATTTAATTTTTTTTCT
65 CTTTCTTTCCATTTAAATTTAATTTTTTTTCT
*
19201263 CATTTAATTTAAATTATCTTTTTTTCCATTTAAATTTAATTTTTTCTCATTTCATTTAAATTATC
1 CATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTAATTTTTTCTCATTTCATTTAAATTA--
*
19201328 TCTTTTTTTCCATTTAAATTTAA--TTTTTTCT
64 TCTTTCTTTCCATTTAAATTTAATTTTTTTTCT
* * *
19201359 CATTTCATTTAAATTGTCCTTTTTTCCATTTAAATTTTATTTTTTTCTCATTTCATTTAAATTAT
1 CATTTCATTTAAATTATCTTTTTTTCCATTTAAA-TTTAATTTTTTCTCATTTCATTTAAATTAT
* *
19201424 CTTTCTTTCCATTTTAATTTACTTTTTTTTCT
65 CTTTCTTTCCATTTAAATTTAATTTTTTTTCT
* * *
19201456 CATTTCATTTAAATTATCTTTCTTGCCATTTTAATTTA
1 CATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTA
19201494 CGTTTTTTTT
Statistics
Matches: 208, Mismatches: 17, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
95 46 0.22
96 76 0.37
97 65 0.31
98 21 0.10
ACGTcount: A:0.24, C:0.13, G:0.01, T:0.62
Consensus pattern (96 bp):
CATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTAATTTTTTCTCATTTCATTTAAATTATC
TTTCTTTCCATTTAAATTTAATTTTTTTTCT
Found at i:19201416 original size:21 final size:21
Alignment explanation
Indices: 19201330--19201465 Score: 60
Period size: 23 Copynumber: 5.9 Consensus size: 21
19201320 AAATTATCTC
* *
19201330 TTTTTTTC-CATTTAAATTTA
1 TTTTTTTCTCATTTCATTTTA
* *
19201350 ATTTTTTCTCATTTCATTTAAA
1 TTTTTTTCTCATTTCATTT-TA
* *
19201372 TTGTCCTTTTTTCCATTTAAATTTTA
1 TT-T--TTTTCT-CATTT-CATTTTA
19201398 TTTTTTTCTCATTTCATTTAAATTA
1 TTTTTTTCTCATTTCA-TT---TTA
* *
19201423 TCTTTCTTTC-CATTTTAATTTA
1 T-TTT-TTTCTCATTTCATTTTA
19201445 CTTTTTTTTCTCATTTCATTT
1 --TTTTTTTCTCATTTCATTT
19201466 AAATTATCTT
Statistics
Matches: 86, Mismatches: 14, Indels: 29
0.67 0.11 0.22
Matches are distributed among these distances:
20 7 0.08
21 9 0.10
22 16 0.19
23 17 0.20
24 1 0.01
25 11 0.13
26 17 0.20
27 8 0.09
ACGTcount: A:0.21, C:0.15, G:0.01, T:0.64
Consensus pattern (21 bp):
TTTTTTTCTCATTTCATTTTA
Found at i:19201465 original size:22 final size:22
Alignment explanation
Indices: 19201185--19201467 Score: 100
Period size: 22 Copynumber: 12.0 Consensus size: 22
19201175 TTAAATTATC
*
19201185 TTTTTTTT-TCATTTAAATTTAA
1 TTTTTTTTCTCATTT-CATTTAA
* * *
19201207 TTTTTTTAATTTCATTTAAATT-A
1 TTTTTTT--TCTCATTTCATTTAA
* *
19201230 TGTTTCTTTC-CATTTAAATTTAA
1 T-TTTTTTTCTCATTT-CATTTAA
*
19201253 TTTTTTTTCTCATTTAATTTAAA
1 TTTTTTTTCTCATTTCATTT-AA
* *
19201276 TTATCTTTTTTTCCATTTAAATTTAA
1 TT-T-TTTTTCT-CATTT-CATTTAA
19201302 --TTTTTTCTCATTTCATTTAAA
1 TTTTTTTTCTCATTTCATTT-AA
* *
19201323 TTATCTCTTTTTTTCCATTTAAATTTAA
1 -T-T-T-TTTTTCT-CATTT-CATTTAA
19201351 --TTTTTTCTCATTTCATTTAAA
1 TTTTTTTTCTCATTTCATTT-AA
* *
19201372 TTGTCCTTTTT-TCCATTTAAATTTTA
1 TT-T--TTTTTCT-CATTT-CATTTAA
19201398 -TTTTTTTCTCATTTCATTTAAA
1 TTTTTTTTCTCATTTCATTT-AA
* *
19201420 TTATCTTTCTT-TCCATTTTAATTTAC
1 TT-T-TTT-TTCT-CA-TTTCATTTAA
19201446 TTTTTTTTCTCATTTCATTTAA
1 TTTTTTTTCTCATTTCATTTAA
19201468 ATTATCTTTC
Statistics
Matches: 203, Mismatches: 20, Indels: 76
0.68 0.07 0.25
Matches are distributed among these distances:
20 8 0.04
21 23 0.11
22 55 0.27
23 21 0.10
24 18 0.09
25 19 0.09
26 26 0.13
27 22 0.11
28 7 0.03
29 4 0.02
ACGTcount: A:0.24, C:0.12, G:0.01, T:0.63
Consensus pattern (22 bp):
TTTTTTTTCTCATTTCATTTAA
Found at i:19201489 original size:22 final size:22
Alignment explanation
Indices: 19201414--19201489 Score: 64
Period size: 22 Copynumber: 3.2 Consensus size: 22
19201404 TCTCATTTCA
19201414 TTTAAATTATCTTTCTTTCCAT
1 TTTAAATTATCTTTCTTTCCAT
* *
19201436 TTTAATTTA-CTTTTTTTTCTCATTT
1 TTTAAATTATC-TTTCTTTC-CA--T
*
19201461 CATTTAAATTATCTTTCTTGCCAT
1 --TTTAAATTATCTTTCTTTCCAT
19201485 TTTAA
1 TTTAA
19201490 TTTACGTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
21 1 0.02
22 20 0.48
23 2 0.05
24 1 0.02
25 1 0.02
26 2 0.05
27 14 0.33
28 1 0.02
ACGTcount: A:0.22, C:0.16, G:0.01, T:0.61
Consensus pattern (22 bp):
TTTAAATTATCTTTCTTTCCAT
Found at i:19201492 original size:27 final size:26
Alignment explanation
Indices: 19201220--19201493 Score: 125
Period size: 27 Copynumber: 11.2 Consensus size: 26
19201210 TTTTAATTTC
* *
19201220 ATTTAAATTATGTTTCTTTCCATTTAA
1 ATTTAAATTATCTTTC-TTCCATTTTA
19201247 ATTT-AATT-T-TTT-TTCTCA-TTTA
1 ATTTAAATTATCTTTCTTC-CATTTTA
* *
19201269 ATTTAAATTATCTTTTTTTCCATTTAA
1 ATTTAAATTATC-TTTCTTCCATTTTA
*
19201296 ATTT-AATT-T-TTTC-T-CA-TTTC
1 ATTTAAATTATCTTTCTTCCATTTTA
* *
19201316 ATTTAAATTATCTCTTTTTTTCCATTTAA
1 ATTTAAATTA--TC-TTTCTTCCATTTTA
*
19201345 ATTT-AATT-T-TTTC-T-CA-TTTC
1 ATTTAAATTATCTTTCTTCCATTTTA
* * *
19201365 ATTTAAATTGTCCTTTTTTCCATTTAA
1 ATTTAAATTAT-CTTTCTTCCATTTTA
* * *
19201392 ATTT-TATT-TTTTTC-T-CA-TTTC
1 ATTTAAATTATCTTTCTTCCATTTTA
19201413 ATTTAAATTATCTTTCTTTCCATTTTA
1 ATTTAAATTATCTTTC-TTCCATTTTA
* *
19201440 ATTT-ACTT-T-TTT-TTCTCA-TTTC
1 ATTTAAATTATCTTTCTTC-CATTTTA
19201462 ATTTAAATTATCTTTCTTGCCATTTTA
1 ATTTAAATTATCTTTCTT-CCATTTTA
19201489 ATTTA
1 ATTTA
19201494 CGTTTTTTTT
Statistics
Matches: 185, Mismatches: 26, Indels: 72
0.65 0.09 0.25
Matches are distributed among these distances:
20 12 0.06
21 18 0.10
22 28 0.15
23 23 0.12
24 15 0.08
25 10 0.05
26 30 0.16
27 37 0.20
28 6 0.03
29 6 0.03
ACGTcount: A:0.24, C:0.14, G:0.01, T:0.61
Consensus pattern (26 bp):
ATTTAAATTATCTTTCTTCCATTTTA
Found at i:19201504 original size:27 final size:25
Alignment explanation
Indices: 19201425--19201504 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 25
19201415 TTAAATTATC
19201425 TTTCTTTCCATTTTAATTTACTTTTT
1 TTTC-TTCCATTTTAATTTACTTTTT
* * * *
19201451 TTTC-T-CA-TTTCATTTAAATTATC
1 TTTCTTCCATTTTAATTT-ACTTTTT
19201474 TTTCTTGCCATTTTAATTTACGTTTTT
1 TTTCTT-CCATTTTAATTTAC-TTTTT
19201501 TTTC
1 TTTC
19201505 ATATTAATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 11
0.68 0.14 0.19
Matches are distributed among these distances:
22 7 0.17
23 10 0.25
24 2 0.05
26 7 0.17
27 14 0.35
ACGTcount: A:0.17, C:0.16, G:0.03, T:0.64
Consensus pattern (25 bp):
TTTCTTCCATTTTAATTTACTTTTT
Found at i:19201567 original size:22 final size:22
Alignment explanation
Indices: 19201542--19201611 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
19201532 ATTTCATTTA
19201542 ATGTGTTTTAAATTAAATATGT
1 ATGTGTTTTAAATTAAATATGT
* * **
19201564 ATGTATATTGTATTATAAT-T-T
1 ATGTGTTTTAAATTA-AATATGT
*
19201585 AATGTGTTTTAAAATAAATATGT
1 -ATGTGTTTTAAATTAAATATGT
19201608 ATGT
1 ATGT
19201612 ATATTGTATT
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
21 4 0.11
22 27 0.77
23 4 0.11
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (22 bp):
ATGTGTTTTAAATTAAATATGT
Found at i:19201589 original size:44 final size:44
Alignment explanation
Indices: 19201537--19201688 Score: 261
Period size: 44 Copynumber: 3.5 Consensus size: 44
19201527 AATTTATTTC
19201537 ATTTAATGTGTTTTAAATTAAATATGTATGTATATTGTATTATA
1 ATTTAATGTGTTTTAAATTAAATATGTATGTATATTGTATTATA
*
19201581 ATTTAATGTGTTTTAAAATAAATATGTATGTATATTGTATTATA
1 ATTTAATGTGTTTTAAATTAAATATGTATGTATATTGTATTATA
*
19201625 ATTTAATGT-TCTTTAAATTAAATATGCATGTATATTGTATTATA
1 ATTTAATGTGT-TTTAAATTAAATATGTATGTATATTGTATTATA
*
19201669 ATTTAACGTGTTTTAAATTA
1 ATTTAATGTGTTTTAAATTA
19201689 GGAATAAGAA
Statistics
Matches: 102, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
43 1 0.01
44 100 0.98
45 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.11, T:0.51
Consensus pattern (44 bp):
ATTTAATGTGTTTTAAATTAAATATGTATGTATATTGTATTATA
Found at i:19205056 original size:61 final size:63
Alignment explanation
Indices: 19204940--19205075 Score: 197
Period size: 61 Copynumber: 2.2 Consensus size: 63
19204930 ATTGACACTG
*
19204940 GTGCTGGCCATCAGCGTCCCAAAGTAAAAGAAAAATTGACTTGGGACCCAAAAAATGTACTTA
1 GTGCCGGCCATCAGCGTCCCAAAGTAAAAGAAAAATTGACTTGGGACCCAAAAAATGTACTTA
* * * *
19205003 GTGTCGGCCATCAGTGTCCCAAAGT-AAA-AAAAATTG-CGTTGGGACCCGAAAAATGTACTTG
1 GTGCCGGCCATCAGCGTCCCAAAGTAAAAGAAAAATTGAC-TTGGGACCCAAAAAATGTACTTA
19205064 GTGCCGGCCATC
1 GTGCCGGCCATC
19205076 TATTGGCCAG
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
60 1 0.02
61 40 0.61
62 3 0.05
63 22 0.33
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (63 bp):
GTGCCGGCCATCAGCGTCCCAAAGTAAAAGAAAAATTGACTTGGGACCCAAAAAATGTACTTA
Found at i:19206239 original size:22 final size:22
Alignment explanation
Indices: 19206214--19206263 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
19206204 TTTGATTCAC
*
19206214 TATTGTTTTCTTTTGTCTCTGG
1 TATTATTTTCTTTTGTCTCTGG
*
19206236 TATTATTTTCTTTTGTTTCTGG
1 TATTATTTTCTTTTGTCTCTGG
19206258 TATTAT
1 TATTAT
19206264 ATTGAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.10, C:0.10, G:0.14, T:0.66
Consensus pattern (22 bp):
TATTATTTTCTTTTGTCTCTGG
Found at i:19211739 original size:29 final size:30
Alignment explanation
Indices: 19211702--19211760 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
19211692 TATAAGATTA
*
19211702 AATTTATC-AAT-TTAATAGTAAAAGGACT
1 AATTTATCAAATCTTAATAATAAAAGGACT
*
19211730 AATTTGATCAAATCTTTATAATAAAAGGACT
1 AATTT-ATCAAATCTTAATAATAAAAGGACT
19211761 TTATGGGGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 5 0.19
29 3 0.12
30 3 0.12
31 15 0.58
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (30 bp):
AATTTATCAAATCTTAATAATAAAAGGACT
Found at i:19213051 original size:20 final size:20
Alignment explanation
Indices: 19213023--19213061 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19213013 CTCTAATATA
19213023 TTTAAATTTAAAATTTAATC
1 TTTAAATTTAAAATTTAATC
* * *
19213043 TTTATATTTTAATTTTAAT
1 TTTAAATTTAAAATTTAAT
19213062 ATAAATTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTAAATTTAAAATTTAATC
Found at i:19213590 original size:3 final size:3
Alignment explanation
Indices: 19213582--19213621 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
19213572 AGGTATAGGT
19213582 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
19213622 CATCATCATC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:19218324 original size:14 final size:14
Alignment explanation
Indices: 19218301--19218330 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19218291 ATTATTAGCA
*
19218301 TATTCGAAAGTTTT
1 TATTCAAAAGTTTT
19218315 TATTCAAAAGTTTT
1 TATTCAAAAGTTTT
19218329 TA
1 TA
19218331 GTTAAATTAT
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:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (14 bp):
TATTCAAAAGTTTT
Found at i:19223890 original size:68 final size:68
Alignment explanation
Indices: 19223781--19223912 Score: 246
Period size: 68 Copynumber: 1.9 Consensus size: 68
19223771 CTGGCGCTCC
19223781 TCCGCCTTAGCACCGCCGCGTGCGGTTGCCGGCGACTCAAAATCGGATCTTTTTTATCCTTTTTC
1 TCCGCCTTAGCACCGCCGCGTGCGGTTGCCGGCGACTCAAAATCGGATCTTTTTTATCCTTTTTC
19223846 TCT
66 TCT
* *
19223849 TCCGCCTTAGCACCGCCGTGTGCGGTTGCCGGCTACTCAAAATCGGATCTTTTTTATCCTTTTT
1 TCCGCCTTAGCACCGCCGCGTGCGGTTGCCGGCGACTCAAAATCGGATCTTTTTTATCCTTTTT
19223913 TGAAGCCGGG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 62 1.00
ACGTcount: A:0.14, C:0.31, G:0.20, T:0.35
Consensus pattern (68 bp):
TCCGCCTTAGCACCGCCGCGTGCGGTTGCCGGCGACTCAAAATCGGATCTTTTTTATCCTTTTTC
TCT
Found at i:19232675 original size:41 final size:40
Alignment explanation
Indices: 19232618--19232764 Score: 154
Period size: 41 Copynumber: 3.6 Consensus size: 40
19232608 NNNNNNNTAC
*
19232618 CTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTTTACGT
1 CTAGCAGGCTTAATGCCGGTGAA-TAATTCAGACTTTAAGT
* *
19232659 CTAGCAGGCTTAATGCCGGTG-ATACATTTCAGACTATATGT
1 CTAGCAGGCTTAATGCCGGTGAATA-A-TTCAGACTTTAAGT
* * * *
19232700 CTAGCAGGC-TAAGTGCCGGTGTACTAAATCAGGCTTTAAGC
1 CTAGCAGGCTTAA-TGCCGGTG-AATAATTCAGACTTTAAGT
* *
19232741 CTAGCAGGCTAAATGCCAGTGAAT
1 CTAGCAGGCTTAATGCCGGTGAAT
19232765 CTGTTTAAAT
Statistics
Matches: 89, Mismatches: 11, Indels: 13
0.79 0.10 0.12
Matches are distributed among these distances:
39 2 0.02
40 7 0.08
41 75 0.84
42 3 0.03
43 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (40 bp):
CTAGCAGGCTTAATGCCGGTGAATAATTCAGACTTTAAGT
Found at i:19233473 original size:17 final size:17
Alignment explanation
Indices: 19233440--19233474 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
19233430 GATTAAAAGG
19233440 TTATAATATTTATATAT
1 TTATAATATTTATATAT
19233457 TTATATATATTTA-ATAT
1 TTATA-ATATTTATATAT
19233474 T
1 T
19233475 GCTGTAGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATAATATTTATATAT
Found at i:19234345 original size:99 final size:99
Alignment explanation
Indices: 19234175--19234709 Score: 571
Period size: 99 Copynumber: 5.4 Consensus size: 99
19234165 GCCGAGGAAA
* * * * * * * ** * *
19234175 TAAGATTCGACGTTGCGGCTTCAATC-TTTAGTTGTAATATCGGGAAAGCAAGATTCGCCATCGT
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAGTGAGATTCGCCTTTGT
*
19234239 AGCTTCAATCTGTTCCGCTGCATCACCTGAGAAG
66 AGCTTCAATCTGTTCCGCTGCATCGCCTGAGAAG
* *
19234273 TAAGATTCCCCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAGCGAGATTCGCCTTTGT
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAGTGAGATTCGCCTTTGT
* *
19234338 AGCTTCAATCTGTTCCACTGTAAT-G-CT-AGGAAAG
66 AGCTTCAATCTGTTCCGCTG-CATCGCCTGA-G-AAG
* *
19234372 TAAGATTTGCCGTTGTGGCCTCAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTG
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTT-AATTGCAATGTCGGGGAAGTGAGATTCGCCTTTG
*
19234437 TAGCTTCAATCTGTTCCGTTGCATCGCCTGA-AAG
65 TAGCTTCAATCTGTTCCGCTGCATCGCCTGAGAAG
* * * * * * *
19234471 TAAGATTCGCCGTTGTGGCTTCGATCCTTTAAACTGCAATGTCAGGGAAGTAAGATCCG-CTGTT
1 TAAGATTCGCCGTTGTGGCCTCAAT-CTTTTAATTGCAATGTCGGGGAAGTGAGATTCGCCT-TT
* * * * *
19234535 GTAGCTTCAATTTGTTCCACTACAACGCCTGGGAAG
64 GTAGCTTCAATCTGTTCCGCTGCATCGCCTGAGAAG
* * * ** *
19234571 TAAGATCCGCCGTTGTGGCTTCAATCTTTTGATTGCAATGTTAGGGAAGTGAGATCCG-CTGTTG
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAGTGAGATTCGCCT-TTG
* * *
19234635 TAGCTTCAATCTATTCCGCTGCACCGCTTGAGAAAG
65 TAGCTTCAATCTGTTCCGCTGCATCGCCTGAG-AAG
*
19234671 TAAGATTCGTCGTTGTGGCCTCAATCTTTTAAATTGCAA
1 TAAGATTCGCCGTTGTGGCCTCAATCTTTT-AATTGCAA
19234710 ACTATGGTTA
Statistics
Matches: 370, Mismatches: 54, Indels: 23
0.83 0.12 0.05
Matches are distributed among these distances:
97 1 0.00
98 26 0.07
99 219 0.59
100 114 0.31
101 9 0.02
102 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (99 bp):
TAAGATTCGCCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAGTGAGATTCGCCTTTGT
AGCTTCAATCTGTTCCGCTGCATCGCCTGAGAAG
Found at i:19234434 original size:50 final size:50
Alignment explanation
Indices: 19234269--19234709 Score: 293
Period size: 50 Copynumber: 8.9 Consensus size: 50
19234259 CATCACCTGA
* * *
19234269 GAAGTAAGATTCCCCGTTGTGGCCTCAATCTTTT-AATTGCAATGTCGGG
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAGG
** * * * * * *
19234318 GAAGCGAGATTCGCCTTTGTAGCTTCAATCTGTTCCACTGTAATG-CTAGG
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTC-AGG
* * * * *
19234368 AAAGTAAGATTTGCCGTTGTGGCCTCAATCTTTTGAATTGCAATGTCGGG
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAGG
* * * ** **
19234418 GAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGTTGC-ATCG-CCTG
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTCAATTGCAAT-GTCAGG
* * * * *
19234467 AAAGTAAGATTCGCCGTTGTGGCTTCGATCCTTTAAACTGCAATGTCAGG
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAGG
* * * * * * * * *
19234517 GAAGTAAGATCCGCTGTTGTAGCTTCAAT-TTGTTCCACTACAACGCCTGG
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTT-TTCAATTGCAATGTCAGG
* * *
19234567 GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTT-GATTGCAATGTTAGG
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAGG
* * * * * *** ** *
19234616 GAAGTGAGATCCGCTGTTGTAGCTTCAATCTATTCCGCTGCACCG-CTTGAG
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTC-AG-G
* * * *
19234667 AAAGTAAGATTCGTCGTTGTGGCCTCAATCTTTTAAATTGCAA
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTCAATTGCAA
19234710 ACTATGGTTA
Statistics
Matches: 289, Mismatches: 92, Indels: 20
0.72 0.23 0.05
Matches are distributed among these distances:
49 103 0.36
50 152 0.53
51 34 0.12
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (50 bp):
GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAGG
Found at i:19234446 original size:149 final size:148
Alignment explanation
Indices: 19234269--19234709 Score: 388
Period size: 149 Copynumber: 3.0 Consensus size: 148
19234259 CATCACCTGA
* * * *
19234269 GAAGTAAGATTCCCCGTTGTGGCCTCAATCTTTTAATTGCAATGTCGGGGAAGCGAGATTCGCCT
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAATTGCAATGTCAGGGAAGTGAGATTCGCCT
* *
19234334 TTGTAGCTTCAATCTGTTCCACTGTAATGCTAGGAAAGTAAGATTTGCCGTTGTGGCCTCAATCT
66 TTGTAGCTTCAATCT-TTCCACTGCAATGCTAGGAAAGTAAGATTCGCCGTTGTGGCCTCAATCT
* * *
19234399 TTTGAATTGCAATGTCGGG
130 TTTAAATTGCAACGCCGGG
* * *** ** * *
19234418 GAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGTTGC-ATCG-CCTGAAAGTAAGATTCGC
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCT-TTTAATTGCAAT-GTCAGGGAAGTGAGATTCGC
* * * ** * * * * *
19234481 CGTTGTGGCTTCGATCCTTTAAACTGCAATG-TCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAA
64 CTTTGTAGCTTCAAT-CTTTCCACTGCAATGCT-AGGAAAGTAAGATTCGCCGTTGTGGCCTCAA
** * * *
19234545 T-TTGTTCCACTACAACGCCTGG
127 TCTT-TTAAATTGCAACGCCGGG
* * * *
19234567 GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTGATTGCAATGTTAGGGAAGTGAGATCCG-CT
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAATTGCAATGTCAGGGAAGTGAGATTCGCCT
* ** * *
19234631 GTTGTAGCTTCAATCTATTCCGCTGCACCGCTTGAGAAAGTAAGATTCGTCGTTGTGGCCTCAAT
66 -TTGTAGCTTCAATCT-TTCCACTGCAATGCTAG-GAAAGTAAGATTCGCCGTTGTGGCCTCAAT
19234696 CTTTTAAATTGCAA
128 CTTTTAAATTGCAA
19234710 ACTATGGTTA
Statistics
Matches: 218, Mismatches: 62, Indels: 23
0.72 0.20 0.08
Matches are distributed among these distances:
148 13 0.06
149 162 0.74
150 41 0.19
151 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (148 bp):
GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAATTGCAATGTCAGGGAAGTGAGATTCGCCT
TTGTAGCTTCAATCTTTCCACTGCAATGCTAGGAAAGTAAGATTCGCCGTTGTGGCCTCAATCTT
TTAAATTGCAACGCCGGG
Found at i:19247229 original size:39 final size:43
Alignment explanation
Indices: 19247148--19247231 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
19247138 GAATCATAAA
*
19247148 ATGTAAAGAATATATATAAGATATATTTTGAAAGTATAAAGTAT
1 ATGTAAAGAATATATATAAGATATATTATGAAAG-ATAAAGTAT
* *
19247192 ATGT-AAGTATATATATAAG-TAT-TTATGAAA-ATGAAGTAT
1 ATGTAAAGAATATATATAAGATATATTATGAAAGATAAAGTAT
19247231 A
1 A
19247232 GACATGTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
39 9 0.24
41 7 0.19
42 3 0.08
43 14 0.38
44 4 0.11
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (43 bp):
ATGTAAAGAATATATATAAGATATATTATGAAAGATAAAGTAT
Found at i:19249522 original size:203 final size:201
Alignment explanation
Indices: 19249173--19249579 Score: 708
Period size: 203 Copynumber: 2.0 Consensus size: 201
19249163 AATAATCATT
19249173 TTATGCAAATATCAAAATCAATATTCAAAAGCTAAATAAATTTATTACCAAAGAATTTTTAAAAG
1 TTATGCAAATATCAAAATCAATATTCAAAAGCTAAATAAATTTATTACCAAAGAATTTTTAAAAG
* *
19249238 ATACTTCAAGATAAAAAGATCCTATGTATAAAAGTTCTAAAATATATTACGTATGCAAGTTCAGA
66 ATACTTCAAGATAAAAAGATCCTATGTATAAAAGTTCTAAAATAAAGTACGTATGCAAGTTCAGA
* *
19249303 ATAGATTTGAAATAAAATAATCATTGAATAGTTGAATTTGAAATATATTCGAAGCGAATTTCATA
131 ATAGACTTGAAATAAAATAACCATTGAATAGTTGAATTTGAAATATATTCGAAGCGAATTTCATA
19249368 CATATA
196 CATATA
19249374 TNTATGCAAATATCAAAATCAATATTCAAAAGCTAAATAAATTTATTACCAAA-AATTTTTAAAA
1 T-TATGCAAATATCAAAATCAATATTCAAAAGCTAAATAAATTTATTACCAAAGAATTTTTAAAA
* *
19249438 GATACTTCAAGATAAAAAAGGATCTTATGTATAAAAGTTCTAAAATAAAGTACGTATGCAAGTTT
65 GATACTTCAAGAT-AAAAA-GATCCTATGTATAAAAGTTCTAAAATAAAGTACGTATGCAAGTTC
* *
19249503 AGAATAGACTTGAAATAAAATAACCATTGAATAGTTGAATTTGAAATATGTTTGAAGCGAATTTC
128 AGAATAGACTTGAAATAAAATAACCATTGAATAGTTGAATTTGAAATATATTCGAAGCGAATTTC
19249568 ATACATATA
193 ATACATATA
19249577 TTA
1 TTA
19249580 ATTTAATAAA
Statistics
Matches: 195, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
201 25 0.13
202 58 0.30
203 112 0.57
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.33
Consensus pattern (201 bp):
TTATGCAAATATCAAAATCAATATTCAAAAGCTAAATAAATTTATTACCAAAGAATTTTTAAAAG
ATACTTCAAGATAAAAAGATCCTATGTATAAAAGTTCTAAAATAAAGTACGTATGCAAGTTCAGA
ATAGACTTGAAATAAAATAACCATTGAATAGTTGAATTTGAAATATATTCGAAGCGAATTTCATA
CATATA
Found at i:19251222 original size:15 final size:15
Alignment explanation
Indices: 19251198--19251227 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19251188 TTTGGGCTTG
*
19251198 AATTTTGGGTTTAAT
1 AATTTGGGGTTTAAT
19251213 AATTTGGGGTTTAAT
1 AATTTGGGGTTTAAT
19251228 GGGTCTAAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (15 bp):
AATTTGGGGTTTAAT
Found at i:19253244 original size:9 final size:9
Alignment explanation
Indices: 19253230--19253260 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
19253220 GTTAAACGAA
19253230 TCGAGTTAT
1 TCGAGTTAT
*
19253239 TCGAGTTAA
1 TCGAGTTAT
19253248 TCGAGTTAT
1 TCGAGTTAT
19253257 TCGA
1 TCGA
19253261 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:19253333 original size:9 final size:9
Alignment explanation
Indices: 19253314--19253350 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
19253304 TGAGTTTTCG
*
19253314 AATTTGAAT
1 AATTCGAAT
*
19253323 AACTCGAAT
1 AATTCGAAT
19253332 AATTCGAAT
1 AATTCGAAT
19253341 AATTCGAAT
1 AATTCGAAT
19253350 A
1 A
19253351 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:19256844 original size:48 final size:48
Alignment explanation
Indices: 19256792--19257015 Score: 315
Period size: 48 Copynumber: 4.6 Consensus size: 48
19256782 TGTACCTCAT
19256792 TTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATTTAAC
1 TTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATTTAAC
* *
19256840 TTATATTAAAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATTTAAT
1 TTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATTTAAC
* * *
19256888 TTATATTATAGAGTTTGTTCCAAGTTTTAATGTTGTAATTTATTTAAC
1 TTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATTTAAC
* * *
19256936 TTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGCAAT-TAATCTAAT
1 TTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGT-ATTTAAC
** * *
19256984 TTATGACCACAAAATTTGTTCCGAGTTTTAAT
1 TTAT-ATTACAAAGTTTGTTCCAAGTTTTAAT
19257016 ATTGCAATTA
Statistics
Matches: 159, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
47 1 0.01
48 135 0.85
49 23 0.14
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.48
Consensus pattern (48 bp):
TTATATTACAAAGTTTGTTCCAAGTTTTAATGTTGTAATGTATTTAAC
Found at i:19257489 original size:12 final size:12
Alignment explanation
Indices: 19257468--19257504 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
19257458 GTGACCGCTT
*
19257468 GGGCTATAGCTC
1 GGGCTCTAGCTC
19257480 GGGCTCTAGCTC
1 GGGCTCTAGCTC
*
19257492 AGGCTCTAGCTC
1 GGGCTCTAGCTC
19257504 G
1 G
19257505 TATGCCCCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.14, C:0.30, G:0.32, T:0.24
Consensus pattern (12 bp):
GGGCTCTAGCTC
Found at i:19259135 original size:25 final size:25
Alignment explanation
Indices: 19259078--19259135 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
19259068 AAAGCTCATC
* *
19259078 CGAGCTAAATAACAGGAAGCTTATG
1 CGAGCTGAATAACAGGAAGATTATG
*
19259103 TGAGCTGAATAACAGGAA-ATTCATG
1 CGAGCTGAATAACAGGAAGATT-ATG
*
19259128 CGATCTGA
1 CGAGCTGA
19259136 GTATCGGGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 2 0.07
25 25 0.93
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (25 bp):
CGAGCTGAATAACAGGAAGATTATG
Found at i:19259335 original size:18 final size:18
Alignment explanation
Indices: 19259312--19259348 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
19259302 ACCATTCACA
19259312 AAAAAAAATCAATTTAAC
1 AAAAAAAATCAATTTAAC
19259330 AAAAAAAATCAATTTAAC
1 AAAAAAAATCAATTTAAC
19259348 A
1 A
19259349 CATATAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAAAAAATCAATTTAAC
Found at i:19264365 original size:21 final size:20
Alignment explanation
Indices: 19264327--19264365 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
19264317 GGAAATTTAA
*
19264327 GAAAAGAAAATGACTAAACT
1 GAAAAGAAAATAACTAAACT
*
19264347 GAAAAGAGAAATAATTAAA
1 GAAAAGA-AAATAACTAAA
19264366 GATGATAAAA
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:0.64, C:0.05, G:0.15, T:0.15
Consensus pattern (20 bp):
GAAAAGAAAATAACTAAACT
Found at i:19268998 original size:16 final size:16
Alignment explanation
Indices: 19268935--19269006 Score: 53
Period size: 16 Copynumber: 4.5 Consensus size: 16
19268925 AATAACATGT
19268935 CAAATAAATTACATAA
1 CAAATAAATTACATAA
19268951 -AAATAAATCTA-ATAAA
1 CAAATAAAT-TACAT-AA
* *
19268967 CCTAAA-ACA-CACATAA
1 -C-AAATAAATTACATAA
19268983 CAAATAAATTACATAA
1 CAAATAAATTACATAA
*
19268999 AAAATAAA
1 CAAATAAA
19269007 ACATTCTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 16
0.67 0.08 0.25
Matches are distributed among these distances:
14 3 0.07
15 13 0.30
16 20 0.47
17 2 0.05
18 2 0.05
19 3 0.07
ACGTcount: A:0.65, C:0.14, G:0.00, T:0.21
Consensus pattern (16 bp):
CAAATAAATTACATAA
Found at i:19269385 original size:3 final size:3
Alignment explanation
Indices: 19269379--19270222 Score: 1672
Period size: 3 Copynumber: 281.7 Consensus size: 3
19269369 CTCCTCCTCC
19269379 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19269427 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19269475 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19269523 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19269571 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19269619 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19269667 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19269715 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19269763 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19269811 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19269859 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19269907 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19269955 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19270003 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19270051 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19270099 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19270147 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
19270195 TTT TCT TCT TCT TCT TCT TC- TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
19270223 AAATTTCATT
Statistics
Matches: 838, Mismatches: 2, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
2 2 0.00
3 836 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:19273523 original size:533 final size:533
Alignment explanation
Indices: 19272517--19273583 Score: 2134
Period size: 533 Copynumber: 2.0 Consensus size: 533
19272507 ATACCATAAG
19272517 CTAGATTATATGCATATCATCTTCTAAGCTTTGCCATTCATATTTGCATTACTATATACCACAAC
1 CTAGATTATATGCATATCATCTTCTAAGCTTTGCCATTCATATTTGCATTACTATATACCACAAC
19272582 TTTGCAAACAACCAGTCCAGTCCAATTGTTTTTGTTTTGTTTTATTTCAATAAGATTTCTCTTTT
66 TTTGCAAACAACCAGTCCAGTCCAATTGTTTTTGTTTTGTTTTATTTCAATAAGATTTCTCTTTT
19272647 AATTTTTTTTCCATTGTTTATGAGTAGTTAGATTTAAATTAGCTTTAGGAAGATAATTAATTCAA
131 AATTTTTTTTCCATTGTTTATGAGTAGTTAGATTTAAATTAGCTTTAGGAAGATAATTAATTCAA
19272712 TGTTTGCATCATGAGACTTGAATTCATACTTATATTTTTCATTTTGGTATTCGTTAATTCTCTAA
196 TGTTTGCATCATGAGACTTGAATTCATACTTATATTTTTCATTTTGGTATTCGTTAATTCTCTAA
19272777 TTATGAGATAAATTCAATCATCTCACAACGTTATTTTAGCATCAAATTGAAAAGAGCGCCTATCA
261 TTATGAGATAAATTCAATCATCTCACAACGTTATTTTAGCATCAAATTGAAAAGAGCGCCTATCA
19272842 TTTCAATGTTGGACAACATACAATTGGTGAATTGATATGATCCATAATTATCGTATTTTTTTCAC
326 TTTCAATGTTGGACAACATACAATTGGTGAATTGATATGATCCATAATTATCGTATTTTTTTCAC
19272907 TAAAAAATAAATTGATGTGACCAATTGAGTAAGTGGTTGGATCTATCAAAGGAGTTAACAATCAA
391 TAAAAAATAAATTGATGTGACCAATTGAGTAAGTGGTTGGATCTATCAAAGGAGTTAACAATCAA
19272972 GTTTAAACAATTCGTATAGTTGAGGTCGTTGATTTGAGTCGGGTTCTTCTAGTTCGCAAGGTTGT
456 GTTTAAACAATTCGTATAGTTGAGGTCGTTGATTTGAGTCGGGTTCTTCTAGTTCGCAAGGTTGT
19273037 CAAGGAATTAAAT
521 CAAGGAATTAAAT
19273050 CTAGATTATATGCATATCATCTTCTAAGCTTTGCCATTCATATTTGCATTACTATATACCACAAC
1 CTAGATTATATGCATATCATCTTCTAAGCTTTGCCATTCATATTTGCATTACTATATACCACAAC
19273115 TTTGCAAACAACCAGTCCAGTCCAATTGTTTTTGTTTTGTTTTATTTCAATAAGATTTCTCTTTT
66 TTTGCAAACAACCAGTCCAGTCCAATTGTTTTTGTTTTGTTTTATTTCAATAAGATTTCTCTTTT
19273180 AATTTTTTTTCCATTGTTTATGAGTAGTTAGATTTAAATTAGCTTTAGGAAGATAATTAATTCAA
131 AATTTTTTTTCCATTGTTTATGAGTAGTTAGATTTAAATTAGCTTTAGGAAGATAATTAATTCAA
19273245 TGTTTGCATCATGAGACTTGAATTCATACTTATATTTTTCATTTTGGTATTCGTTAATTCTCTAA
196 TGTTTGCATCATGAGACTTGAATTCATACTTATATTTTTCATTTTGGTATTCGTTAATTCTCTAA
19273310 TTATGAGATAAATTCAATCATCTCACAACGTTATTTTAGCATCAAATTGAAAAGAGCGCCTATCA
261 TTATGAGATAAATTCAATCATCTCACAACGTTATTTTAGCATCAAATTGAAAAGAGCGCCTATCA
19273375 TTTCAATGTTGGACAACATACAATTGGTGAATTGATATGATCCATAATTATCGTATTTTTTTCAC
326 TTTCAATGTTGGACAACATACAATTGGTGAATTGATATGATCCATAATTATCGTATTTTTTTCAC
19273440 TAAAAAATAAATTGATGTGACCAATTGAGTAAGTGGTTGGATCTATCAAAGGAGTTAACAATCAA
391 TAAAAAATAAATTGATGTGACCAATTGAGTAAGTGGTTGGATCTATCAAAGGAGTTAACAATCAA
19273505 GTTTAAACAATTCGTATAGTTGAGGTCGTTGATTTGAGTCGGGTTCTTCTAGTTCGCAAGGTTGT
456 GTTTAAACAATTCGTATAGTTGAGGTCGTTGATTTGAGTCGGGTTCTTCTAGTTCGCAAGGTTGT
19273570 CAAGGAATTAAAT
521 CAAGGAATTAAAT
19273583 C
1 C
19273584 ATGGATGTTG
Statistics
Matches: 534, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
533 534 1.00
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (533 bp):
CTAGATTATATGCATATCATCTTCTAAGCTTTGCCATTCATATTTGCATTACTATATACCACAAC
TTTGCAAACAACCAGTCCAGTCCAATTGTTTTTGTTTTGTTTTATTTCAATAAGATTTCTCTTTT
AATTTTTTTTCCATTGTTTATGAGTAGTTAGATTTAAATTAGCTTTAGGAAGATAATTAATTCAA
TGTTTGCATCATGAGACTTGAATTCATACTTATATTTTTCATTTTGGTATTCGTTAATTCTCTAA
TTATGAGATAAATTCAATCATCTCACAACGTTATTTTAGCATCAAATTGAAAAGAGCGCCTATCA
TTTCAATGTTGGACAACATACAATTGGTGAATTGATATGATCCATAATTATCGTATTTTTTTCAC
TAAAAAATAAATTGATGTGACCAATTGAGTAAGTGGTTGGATCTATCAAAGGAGTTAACAATCAA
GTTTAAACAATTCGTATAGTTGAGGTCGTTGATTTGAGTCGGGTTCTTCTAGTTCGCAAGGTTGT
CAAGGAATTAAAT
Found at i:19277940 original size:125 final size:125
Alignment explanation
Indices: 19277715--19277985 Score: 361
Period size: 125 Copynumber: 2.2 Consensus size: 125
19277705 TAAGGCCAAA
* *
19277715 TAGGAACTACTGTAGAAAAACAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTACTGACAATGT
1 TAGGAACTACTGTAGAAAAACAGCGTCCACATGGGAGCTTTTTTCATCAATTTTACTGACAATGC
*
19277780 ATCCTGCTTGAAGCATTTTTGACACCATTTGTTCAGAATCGTCTTCTCAAAATTATTTTT
66 ATCCTGCTTGAAGCATTTTTGACACCATTTGTTCAGAACCGTCTTCTCAAAATTATTTTT
* * * * *
19277840 TAGGAACTACTATAGAAAAAGAGCGTCCATATGGGAGCTTTTTTCAGT-AATTTTGCTGACAGTG
1 TAGGAACTACTGTAGAAAAACAGCGTCCACATGGGAGCTTTTTTCA-TCAATTTTACTGACAATG
**
19277904 CATCCTGCTTGAAGTGC-TTTTT-ACATTATCTT-TTCAGAACCGTCTTCTCAAAATTATTTTT
65 CATCCTGCTTGAA--GCATTTTTGACACCAT-TTGTTCAGAACCGTCTTCTCAAAATTATTTTT
**
19277965 TCAAAAACTACTGTAGAAAAA
1 T-AGGAACTACTGTAGAAAAA
19277986 AACAAAAGTT
Statistics
Matches: 128, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
125 102 0.80
126 24 0.19
127 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (125 bp):
TAGGAACTACTGTAGAAAAACAGCGTCCACATGGGAGCTTTTTTCATCAATTTTACTGACAATGC
ATCCTGCTTGAAGCATTTTTGACACCATTTGTTCAGAACCGTCTTCTCAAAATTATTTTT
Found at i:19278102 original size:34 final size:32
Alignment explanation
Indices: 19278045--19278162 Score: 143
Period size: 34 Copynumber: 3.6 Consensus size: 32
19278035 AAATTTATTT
19278045 TTTTTTAAAAA--CTAAACCATAATTTAATTAA
1 TTTTTTAAAAACCCTAAACC-TAATTTAATTAA
*
19278076 TTTTCTTAAAAACCCTAATCCTTAATTTAATTAA
1 TTTT-TTAAAAACCCTAAACC-TAATTTAATTAA
*
19278110 TTTATTT-AAAACCCAAAAACCTAATTTAATTAA
1 TTT-TTTAAAAACCC-TAAACCTAATTTAATTAA
19278143 TTTTTTAAAAAACCCTAAAC
1 TTTTTT-AAAAACCCTAAAC
19278163 TTACCAAAAA
Statistics
Matches: 75, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
31 4 0.05
32 10 0.13
33 26 0.35
34 34 0.45
35 1 0.01
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (32 bp):
TTTTTTAAAAACCCTAAACCTAATTTAATTAA
Found at i:19281265 original size:42 final size:41
Alignment explanation
Indices: 19281127--19281358 Score: 225
Period size: 43 Copynumber: 5.5 Consensus size: 41
19281117 CTCGATGGAT
* * * * *
19281127 TCAGCACTTAGCAACCACC-TTAAATTCAGTGATACAGGAAA
1 TCAGCACATAGCAACC-CCTTTACATTCAATGATACGGGGAA
* *
19281168 TCAGCACATAGCAACCCCTTTCACAATCAAGGATACGGTGGAA
1 TCAGCACATAGCAACCCCTTT-ACATTCAATGATACGG-GGAA
* *
19281211 TCAGCACCTAGCAACCACCTTTATATTCAATGATACGGGGAA
1 TCAGCACATAGCAACC-CCTTTACATTCAATGATACGGGGAA
* *
19281253 TCAGCACATAGCAACCCCTTTCACAATCAAAGATA-GGGTGAAA
1 TCAGCACATAGCAACCCCTTT-ACATTCAATGATACGGG-G-AA
* * **
19281296 TCAGCACATAGCAACCACCTTTAGATTCAATAATTTGGGGAA
1 TCAGCACATAGCAACC-CCTTTACATTCAATGATACGGGGAA
* *
19281338 TCAACACTTAGCAACCCCTTT
1 TCAGCACATAGCAACCCCTTT
19281359 TTATTCCATG
Statistics
Matches: 160, Mismatches: 22, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
40 2 0.01
41 30 0.19
42 57 0.36
43 58 0.36
44 13 0.08
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (41 bp):
TCAGCACATAGCAACCCCTTTACATTCAATGATACGGGGAA
Found at i:19281269 original size:85 final size:85
Alignment explanation
Indices: 19281122--19281358 Score: 323
Period size: 85 Copynumber: 2.8 Consensus size: 85
19281112 CGTTACTCGA
* * * * *
19281122 TGGATTCAGCACTTAGCAACCACC-TTAAATTCAGTGATACAGGAAATCAGCACATAGCAACCCC
1 TGGAATCAGCACATAGCAACCACCTTTAAATTCAATGATACGGGGAATCAGCACATAGCAACCCC
*
19281186 TTTCACAATCAAGGATACGG
66 TTTCACAATCAAAGATACGG
* *
19281206 TGGAATCAGCACCTAGCAACCACCTTTATATTCAATGATACGGGGAATCAGCACATAGCAACCCC
1 TGGAATCAGCACATAGCAACCACCTTTAAATTCAATGATACGGGGAATCAGCACATAGCAACCCC
*
19281271 TTTCACAATCAAAGATAGGG
66 TTTCACAATCAAAGATACGG
* * * ** * *
19281291 TGAAATCAGCACATAGCAACCACCTTTAGATTCAATAATTTGGGGAATCAACACTTAGCAACCCC
1 TGGAATCAGCACATAGCAACCACCTTTAAATTCAATGATACGGGGAATCAGCACATAGCAACCCC
19281356 TTT
66 TTT
19281359 TTATTCCATG
Statistics
Matches: 136, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
84 22 0.16
85 114 0.84
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (85 bp):
TGGAATCAGCACATAGCAACCACCTTTAAATTCAATGATACGGGGAATCAGCACATAGCAACCCC
TTTCACAATCAAAGATACGG
Found at i:19284245 original size:44 final size:44
Alignment explanation
Indices: 19284150--19284445 Score: 292
Period size: 44 Copynumber: 6.7 Consensus size: 44
19284140 TTTAATCCAT
* * ** * *
19284150 TCCACTGTAACTTCAGGGAGATAGGAT-AGTGTCTTCGATCTGC
1 TCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGC
* * *
19284193 TCCGCTGTAATCTCAGGGAGATGAGATCTCTGGCTTCAATCTGC
1 TCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGC
* * *** *
19284237 TCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTTGGTCTGT
1 TCCACTGTAACCTCAGGGAGATAAGATCT---CTGGCTTCAATCTGC
* *
19284283 TCCACTGTAATCTCAGGGAGATGAGATCTCTGGCTTCAATCTGC
1 TCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGC
* * *** *
19284327 TCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTTGGTCTGT
1 TCCACTGTAACCTCAGGGAGATAAGATCT---CTGGCTTCAATCTGC
* *
19284373 TCCACTGTAATCTCAGGGAGATGAGATCTCTGGCTTCAATCTGC
1 TCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGC
19284417 TCCACTGTAACCTCAGGGAGATAAGATCT
1 TCCACTGTAACCTCAGGGAGATAAGATCT
19284446 GAAATTCTTT
Statistics
Matches: 200, Mismatches: 44, Indels: 17
0.77 0.17 0.07
Matches are distributed among these distances:
43 24 0.12
44 106 0.53
46 68 0.34
47 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (44 bp):
TCCACTGTAACCTCAGGGAGATAAGATCTCTGGCTTCAATCTGC
Found at i:19284300 original size:46 final size:46
Alignment explanation
Indices: 19284232--19284488 Score: 292
Period size: 46 Copynumber: 5.7 Consensus size: 46
19284222 CTGGCTTCAA
19284232 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGG
1 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGG
* * * * * ***
19284278 TCTGTTCCACTGTAATCTCAGGGAGATGAGATCT---CTGGCTTCAA
1 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTTGG
19284322 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGG
1 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGG
* * * * * ***
19284368 TCTGTTCCACTGTAATCTCAGGGAGATGAGATCT---CTGGCTTCAA
1 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTTGG
19284412 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGG
1 TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGG
* *
19284458 TCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 TCTGCTCCACTGTAACCTCAGGGAGATAAGA
19284489 CCTGTATTAT
Statistics
Matches: 169, Mismatches: 34, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
43 2 0.01
44 68 0.40
46 97 0.57
47 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (46 bp):
TCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGG
Found at i:19284308 original size:90 final size:90
Alignment explanation
Indices: 19284188--19284484 Score: 576
Period size: 90 Copynumber: 3.3 Consensus size: 90
19284178 GTGTCTTCGA
* *
19284188 TCTGCTCCGCTGTAATCTCAGGGAGATGAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAG
1 TCTGTTCCACTGTAATCTCAGGGAGATGAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAG
19284253 GGAGATAAGATCTGAAATTCTTTGG
66 GGAGATAAGATCTGAAATTCTTTGG
19284278 TCTGTTCCACTGTAATCTCAGGGAGATGAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAG
1 TCTGTTCCACTGTAATCTCAGGGAGATGAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAG
19284343 GGAGATAAGATCTGAAATTCTTTGG
66 GGAGATAAGATCTGAAATTCTTTGG
19284368 TCTGTTCCACTGTAATCTCAGGGAGATGAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAG
1 TCTGTTCCACTGTAATCTCAGGGAGATGAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAG
19284433 GGAGATAAGATCTGAAATTCTTTGG
66 GGAGATAAGATCTGAAATTCTTTGG
19284458 TCTGTTCCACTGTAATCTCAGGGAGAT
1 TCTGTTCCACTGTAATCTCAGGGAGAT
19284485 AAGACCTGTA
Statistics
Matches: 205, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 205 1.00
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (90 bp):
TCTGTTCCACTGTAATCTCAGGGAGATGAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAG
GGAGATAAGATCTGAAATTCTTTGG
Found at i:19293140 original size:37 final size:36
Alignment explanation
Indices: 19293098--19293171 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 36
19293088 CTAAGAAGCC
19293098 AAGCTAACTCTCGGCCCCTGTCGGACTCTAACTCAT
1 AAGCTAACTCTCGGCCCCTGTCGGACTCTAACTCAT
19293134 ANAGCTAACTCTCGGCCCCTGTCGGACTCTAACTCAT
1 A-AGCTAACTCTCGGCCCCTGTCGGACTCTAACTCAT
19293171 A
1 A
19293172 CTTCAAACTT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 1 0.03
37 36 0.97
ACGTcount: A:0.23, C:0.35, G:0.16, T:0.24
Consensus pattern (36 bp):
AAGCTAACTCTCGGCCCCTGTCGGACTCTAACTCAT
Found at i:19297417 original size:3 final size:3
Alignment explanation
Indices: 19297371--19297405 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
19297361 AACATAAACA
19297371 AAT AAGT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
19297406 ACAAAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:19299173 original size:46 final size:45
Alignment explanation
Indices: 19299054--19299351 Score: 221
Period size: 46 Copynumber: 6.8 Consensus size: 45
19299044 TAGGATAGTG
* * * *
19299054 TCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATGAGATCT--CT
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* ** *
19299097 GGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AAT
* * *
19299144 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG-A-
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* * * *
19299187 --TGTGATCTTCTCTACTGTAA-CTTCAGAGAGAT---A-C-G-AT
1 TCTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * * * * * *
19299224 CCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-T-ACT
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
*
19299267 ATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AAT
* *
19299314 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGA
19299352 CCTGTATTAT
Statistics
Matches: 197, Mismatches: 39, Indels: 34
0.73 0.14 0.13
Matches are distributed among these distances:
36 2 0.01
37 1 0.01
38 1 0.01
39 22 0.11
40 2 0.01
41 24 0.12
42 1 0.01
43 1 0.01
44 69 0.35
45 1 0.01
46 70 0.36
47 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (45 bp):
TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
Found at i:19299300 original size:44 final size:44
Alignment explanation
Indices: 19299023--19299351 Score: 202
Period size: 44 Copynumber: 7.6 Consensus size: 44
19299013 TTTAATCCAT
* * * *
19299023 TCCACTGTAA-CTTCAGGGAGATAGGA-TAGTGTCTTCGATCTGC
1 TCCACTGTAATC-TCAGGGAGATAAGATTACTATCTTTGATCTGC
* * ** **
19299066 TCCGCTGTAATCTCAGGGAGATGAGATCT-CTGGCTTCAATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGAT-TACTATCTTTGATCTGC
* * * *
19299110 TCCACTGTAACCTCAGGGAGATAAGATCTGA-AATTCTTTGGTCTGT
1 TCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-TCTTTGATCTGC
* * *
19299156 TCCACTGTAATCTCAGGGAGATAAGA--CCTGA--TGTGATCTTC
1 TCCACTGTAATCTCAGGGAGATAAGATTACT-ATCTTTGATCTGC
* * * * *
19299197 TCTACTGTAA-CTTCAGAGAGATACGA-T-C---CTTTAATCCGC
1 TCCACTGTAATC-TCAGGGAGATAAGATTACTATCTTTGATCTGC
* * *
19299236 TCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGC
1 TCCACTGTAATCTCAGGGAGATAAGATTACTATCTTTGATCTGC
* * * *
19299280 TCCGCTGTAATCTCAGGGAGATAAGATCTGA-AATTCTTTGGTCTGT
1 TCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-TCTTTGATCTGC
19299326 TCCACTGTAATCTCAGGGAGATAAGA
1 TCCACTGTAATCTCAGGGAGATAAGA
19299352 CCTGTATTAT
Statistics
Matches: 221, Mismatches: 45, Indels: 37
0.73 0.15 0.12
Matches are distributed among these distances:
39 25 0.11
40 3 0.01
41 29 0.13
43 21 0.10
44 72 0.33
45 3 0.01
46 68 0.31
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (44 bp):
TCCACTGTAATCTCAGGGAGATAAGATTACTATCTTTGATCTGC
Found at i:19308358 original size:31 final size:31
Alignment explanation
Indices: 19308323--19308386 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
19308313 TTCAACTCCG
* **
19308323 TCTTCTCGTCTTGGCGCTCTAGTAGACTCTT
1 TCTTCTCGTCTTGACAATCTAGTAGACTCTT
*
19308354 TCTTCTCGTCTTGACAATCTAGTAGCCTCTT
1 TCTTCTCGTCTTGACAATCTAGTAGACTCTT
19308385 TC
1 TC
19308387 CCAAGGCGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.12, C:0.30, G:0.16, T:0.42
Consensus pattern (31 bp):
TCTTCTCGTCTTGACAATCTAGTAGACTCTT
Found at i:19315486 original size:19 final size:19
Alignment explanation
Indices: 19315462--19315516 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
19315452 AGTTAATAAA
*
19315462 AAATTTGATTTCGGTGGAC
1 AAATTTAATTTCGGTGGAC
19315481 AAATTTAATTAT-GGTGGAC
1 AAATTTAATT-TCGGTGGAC
* *
19315500 AAATTTTATTACGGTGG
1 AAATTTAATTTCGGTGG
19315517 GTGACAGTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 30 0.97
20 1 0.03
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.38
Consensus pattern (19 bp):
AAATTTAATTTCGGTGGAC
Found at i:19316177 original size:27 final size:28
Alignment explanation
Indices: 19316111--19316177 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
19316101 TCAGGTTATA
*
19316111 TTTTAGTCACTTATGTTTGAAATGTTAAG
1 TTTTAGTCACTTATGTGTG-AATGTTAAG
*
19316140 TTTTAGTCACTTATGTGTG-TTG-TAACG
1 TTTTAGTCACTTATGTGTGAATGTTAA-G
19316167 TTTTAGTCACT
1 TTTTAGTCACT
19316178 GAGCTGTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 3 0.09
27 14 0.40
29 18 0.51
ACGTcount: A:0.22, C:0.10, G:0.18, T:0.49
Consensus pattern (28 bp):
TTTTAGTCACTTATGTGTGAATGTTAAG
Found at i:19318893 original size:21 final size:21
Alignment explanation
Indices: 19318867--19318908 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
19318857 TGTTGATGAA
19318867 GAAATATTAATATTAGCTTGG
1 GAAATATTAATATTAGCTTGG
19318888 GAAATATTAATATTAGCTTGG
1 GAAATATTAATATTAGCTTGG
19318909 TTACAATGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (21 bp):
GAAATATTAATATTAGCTTGG
Found at i:19319890 original size:528 final size:526
Alignment explanation
Indices: 19318890--19320093 Score: 1829
Period size: 528 Copynumber: 2.3 Consensus size: 526
19318880 TAGCTTGGGA
* *
19318890 AATATTAATATTAGCTTGGTTACAATGAGTCTTTCGTCCACCTTCTCCATATTTTCACTTCGAAA
1 AATATTAATATTAGCTTGGCTACAATGAGTCTTTCGTCCACCTTCTCCATATTTCCACTTCGAAA
*
19318955 TAACATTGTTACAACCAAATATTCCTTCAAATTGTCCTTCGAAAAAGATTGACCTATACACGTAT
66 TAACATTGTTACAACCAAATATTCCTTCAAATT-TCCTTCGAAATAGATTGACCTATACACGTAT
* *
19319020 TGCATTTGTGATTCCCCCTCAAAGTTATTTATAATTTTGGCATCAATCCTGGTAGCAAAACAAGA
130 TGCATTTGCGATTCCCCCTCAAAGTTATTTATAAATTTGGCATCAATCCTGGTAGCAAAACAAGA
* *
19319085 ATTTCAAAAGCTCAATATTCTAGACACATCATTGCTTAAAAGGGTAAGGCTAATTTCAAGTCTGT
195 ATTTCAAAAGCCCAATATTCTAGACACATCATTGCTTAAAAGGGTAAGGCTAATTTCAAGTCTAT
* * *
19319150 AATAATATAACTAAATGATTTAAAAGAAAACCATTCATATATGTGCCGAAACTTGTTAGAGAAAG
260 AATAATATAACTAAATGATTCAAAAGAAAACCATTCACATATGTGCCGAAACCTGTTAGAGAAAG
** * *
19319215 CAGCAAAGGCTACCAAAAGGTATAAGCAATGTCAAAGTGAAGTACCAATGGCAGCTTTGAGAACA
325 CAAAAAAGGCTACCAAAAGGTATAAGCAATGTCAAAGTGAAGTACCAATAGCAGCCTTGAGAACA
*
19319280 AGACTAGGGACATCACAACGCTTTGTATTTGAAGAAATATCAAGACTATTTGTATCAAACCAAAG
390 AGACTAGGGACATCACAACGCTTTGTATTTGAAGAAATATCAAGACAATTTGTATCAAACCAAAG
*
19319345 GTAAACATAACTGGGATTCGACACTTGAGGTAGGCATCAACTTTTTCTTGAAATATCAGGCTGTT
455 GTAAACATAACTGGGATTCGACACTTGAGGTAGGCAT-AACCTTTTCTTGAAATATCAGGCTGTT
19319410 GATGAAGC
519 GATGAAGC
* * * * *
19319418 AATATTAATATTAGCTTAGCTAAAAAGAGT-TCTTCGTCCACCTTCTCCCTATTTCCACTACGAA
1 AATATTAATATTAGCTTGGCTACAATGAGTCT-TTCGTCCACCTTCTCCATATTTCCACTTCGAA
* *
19319482 ATAACATTGTTACAACCAAATATTCTTTCAAATTACCTTTCGAAATAGATTGACCTATACACGTA
65 ATAACATTGTTACAACCAAATATTCCTTCAAATTTCC-TTCGAAATAGATTGACCTATACACGTA
* * * *
19319547 TTGCATTTACGATTCCCCCTCAAAGTTATTTATAAATTTGGCTTCAATCCTGGTAGCAAGATAAG
129 TTGCATTTGCGATTCCCCCTCAAAGTTATTTATAAATTTGGCATCAATCCTGGTAGCAAAACAAG
* * *
19319612 AATTTCAAAAGCCCAATGTTCTAGATACATCATTGCTTAAGAA-GGTAAGGTTAATTTCAAGTCT
194 AATTTCAAAAGCCCAATATTCTAGACACATCATTGCTTAA-AAGGGTAAGGCTAATTTCAAGTCT
* * *
19319676 ATAATAATATAAAC-AAATGATTCAAAAGAAAACCCTTCCCATATGTGCCGAAACCTGTTCGAGA
258 ATAATAATAT-AACTAAATGATTCAAAAGAAAACCATTCACATATGTGCCGAAACCTGTTAGAGA
* * * *
19319740 AAGCAAAAAATGCTACCAAAAGGTATAAGGAATGTCAAAGTGAAGTGCTAATAGCAGCCTTGAGA
322 AAGCAAAAAAGGCTACCAAAAGGTATAAGCAATGTCAAAGTGAAGTACCAATAGCAGCCTTGAGA
* * * *
19319805 ACAAGACTAGGGGCATCGCAACGCTTTGTATTTGAAGAAATATCAAGGCAATTTGTATCAAATCA
387 ACAAGACTAGGGACATCACAACGCTTTGTATTTGAAGAAATATCAAGACAATTTGTATCAAACCA
* * * **
19319870 AAGGTAAACATAATTGGGATTTGACATTTGAGGTAGGCATTGCCTTTTCTTGAAATATCAGGCTG
452 AAGGTAAACATAACTGGGATTCGACACTTGAGGTAGGCATAACCTTTTCTTGAAATATCAGGCTG
19319935 TTGATGAAGC
517 TTGATGAAGC
* * *
19319945 AATATTAATATTAGCTTGGCCACAATGAGTCTTTCGTCCACCTTCTCCATATTTCCTCTTCCAAA
1 AATATTAATATTAGCTTGGCTACAATGAGTCTTTCGTCCACCTTCTCCATATTTCCACTTCGAAA
* * * * *
19320010 TAGCATTGTTACAACCAAATATTCCTTCAATTTTTCCTTCAAAATAGATTGACCTATACATGTAC
66 TAACATTGTTACAACCAAATATTCCTTCAA-ATTTCCTTCGAAATAGATTGACCTATACACGTAT
*
19320075 TACATTTGCGATTCCCCCT
130 TGCATTTGCGATTCCCCCT
19320094 TAAGGCTTGG
Statistics
Matches: 607, Mismatches: 63, Indels: 13
0.89 0.09 0.02
Matches are distributed among these distances:
527 160 0.26
528 442 0.73
529 5 0.01
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (526 bp):
AATATTAATATTAGCTTGGCTACAATGAGTCTTTCGTCCACCTTCTCCATATTTCCACTTCGAAA
TAACATTGTTACAACCAAATATTCCTTCAAATTTCCTTCGAAATAGATTGACCTATACACGTATT
GCATTTGCGATTCCCCCTCAAAGTTATTTATAAATTTGGCATCAATCCTGGTAGCAAAACAAGAA
TTTCAAAAGCCCAATATTCTAGACACATCATTGCTTAAAAGGGTAAGGCTAATTTCAAGTCTATA
ATAATATAACTAAATGATTCAAAAGAAAACCATTCACATATGTGCCGAAACCTGTTAGAGAAAGC
AAAAAAGGCTACCAAAAGGTATAAGCAATGTCAAAGTGAAGTACCAATAGCAGCCTTGAGAACAA
GACTAGGGACATCACAACGCTTTGTATTTGAAGAAATATCAAGACAATTTGTATCAAACCAAAGG
TAAACATAACTGGGATTCGACACTTGAGGTAGGCATAACCTTTTCTTGAAATATCAGGCTGTTGA
TGAAGC
Found at i:19328509 original size:20 final size:21
Alignment explanation
Indices: 19328486--19328524 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
19328476 AAAATTTCAA
*
19328486 TTTAACCTAAAA-TATTTATT
1 TTTAACCAAAAATTATTTATT
*
19328506 TTTACCCAAAAATTATTTA
1 TTTAACCAAAAATTATTTA
19328525 AAACCATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (21 bp):
TTTAACCAAAAATTATTTATT
Found at i:19331140 original size:3 final size:3
Alignment explanation
Indices: 19331132--19331261 Score: 118
Period size: 3 Copynumber: 43.7 Consensus size: 3
19331122 GTTACACAAA
* * * *
19331132 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG ATG ATG ATG ATG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* * * * * *
19331180 ATG ATG AAT AAG AAG AAG AGG AAG AAG AA- AAG AGG GAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* * * * *
19331227 AGG AAA AAG AGG AAA AAG AAG AAG ATG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
19331262 CAACAAAAAG
Statistics
Matches: 106, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
2 2 0.02
3 104 0.98
ACGTcount: A:0.60, C:0.00, G:0.34, T:0.06
Consensus pattern (3 bp):
AAG
Found at i:19332219 original size:258 final size:258
Alignment explanation
Indices: 19331726--19332243 Score: 638
Period size: 258 Copynumber: 2.0 Consensus size: 258
19331716 TAGCCGATCA
* * * *
19331726 TCATCCCTATTAAAGACAAGTTTCAATAGAGGTTTTCTTAGATATTCAAAGCTTTTCATTCATCG
1 TCATCCATATTAAAGACAAGTTTCAATAGAGGTTCTCTTAGATATTCAAACCTTATCATTCATCG
* *
19331791 AAGTTTAAAAATGGAACTTTCAAAGGGTTGAGATAACACTTTCTCTTCCAATTAAGGAGTGAATT
66 AAGTTTAAAAATGGAACTTTCAAAGGGTTGAGATAACACTTTCTATTCCAATTAAGGAATGAATT
* *
19331856 TGAATCCCATCTCTAACAAAATCTACAACTTGTATTTGAGAAGAAGAAGTAAAAGCTCAGAATCT
131 TGAATCCCATCTATAACAAAATCTACAACTTGTATTTGAGAAGAAGAAGTAAAAACTCAGAATCT
* * * *
19331921 ATTTCTTGGTCAAACTATTTGAGAACTGGAAACTGATCATCACCCCTAA-CTAAATCTCTCCAT
196 ATTTCTTGGACAAACTAGTTGAGAACTAGAAACCGATCATCACCCCTAATC-AAATCTCTCCAT
* * * * *
19331984 TCATCCATATTAGAGACATGTTTCAATAGAGGGTTCTCTTGGATTTTTAAACCTTATCATTCATC
1 TCATCCATATTAAAGACAAGTTTCAATAGA-GGTTCTCTTAGATATTCAAACCTTATCATTCATC
* * * * * *
19332049 --AGATTTAGAGATTGG-ATTTCTCAAAGGGTTGAGGTAAC-CTTTTCTATTTCAATTGAGGAAT
65 GAAG-TTTA-AAAATGGAACTT-TCAAAGGGTTGAGATAACAC-TTTCTATTCCAATTAAGGAAT
* * *
19332110 GAATTTG-ATTCCATCTATAATAAAATCTGCAACTTGTATTTGAGAAGAAGAAG-AAACAACTCA
126 GAATTTGAATCCCATCTATAACAAAATCTACAACTTGTATTTGAGAAGAAGAAGTAAA-AACTCA
* * * *
19332173 GAATCTATTTCTTGGACAAACTGGTTGAG-ACTTAGCAGCCGATCATCATCCCTAATCAAATCTC
190 GAATCTATTTCTTGGACAAACTAGTTGAGAAC-TAGAAACCGATCATCACCCCTAATCAAATCTC
19332237 TCCAT
254 TCCAT
19332242 TC
1 TC
19332244 CTTCCTACTA
Statistics
Matches: 222, Mismatches: 30, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
257 7 0.03
258 140 0.63
259 75 0.34
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (258 bp):
TCATCCATATTAAAGACAAGTTTCAATAGAGGTTCTCTTAGATATTCAAACCTTATCATTCATCG
AAGTTTAAAAATGGAACTTTCAAAGGGTTGAGATAACACTTTCTATTCCAATTAAGGAATGAATT
TGAATCCCATCTATAACAAAATCTACAACTTGTATTTGAGAAGAAGAAGTAAAAACTCAGAATCT
ATTTCTTGGACAAACTAGTTGAGAACTAGAAACCGATCATCACCCCTAATCAAATCTCTCCAT
Found at i:19333216 original size:258 final size:257
Alignment explanation
Indices: 19332348--19333231 Score: 693
Period size: 258 Copynumber: 3.4 Consensus size: 257
19332338 TTTTTTAGAA
* * * *
19332348 CTTCAAAGCTTT-CTATTCACCGGAGTTGGAAATT-AGATTTCTCAAAAGGTTGAGATAACCCTT
1 CTTCAAAACTTTAC-ATTCACCGAAGTTGGAAATTGA-ATTTTTCAAAGGGTTGAGATAACCCTT
* * ** * * * *
19332411 TTTCATTCAATTAAGGAGTGAATTTGATTCAATCTCCAAA-AAAA-CTGTAGTC-TGTATTTGAA
64 TCTCTTTTGATT-AGGAGTGAATTTGATTCAATCT-CAAACAAAATCTGCA-ACATGTATTAGAG
* ** * * * * ** * * * * *
19332473 GAGAAGAAGTATTAGTTCAAAATATATTTCTTAGTCAAACTGGTTGAGACCTCATAG-CTGATCA
126 GAGAATAAGTAGCAGCTCATAATCTATTTCTTGGAAAAACTGGTTAAGACTTGACAGTC-GCTCA
* * * * * * * * * *
19332537 TC-TTCCCTAATTAAATCTCTCAATTTATCCCTATTTGAGAC-AAGTTTCAATAGAGGGTTTGCT
190 TCAATCCCT-ATAAAATCTCTCCATTCATCCCTATTAGAGACGAA-ATTCAACAAAGAGTTTTCT
**
19332600 TAAAT
253 TGTAT
* * * * *
19332605 -TATCAAAGA-TTTCCATTCACTGGAGTTGGAAATTGAATTTCTT-AAAGAGTTGAGATAACCTT
1 CT-TCAAA-ACTTTACATTCACCGAAGTTGGAAATTGAATTT-TTCAAAGGGTTGAGATAACCCT
* ** * * * * * **
19332667 TTGTCTTTTGAGGGAGGAGTGAATTTGATTCTATCACCAACAAGATTTGCAACATGTATTTTAGG
63 TTCTCTTTTGA-TTAGGAGTGAATTTGATTCAATCTCAAACAAAATCTGCAACATGTATTAGAGG
** * * *
19332732 AGAATAAGTAGCAGCTCATAATCTATTTCTTGGTTAAGCTGGTTGAGACTTGGCAGTCGCTCATC
127 AGAATAAGTAGCAGCTCATAATCTATTTCTTGGAAAAACTGGTTAAGACTTGACAGTCGCTCATC
* * * * * * *** *
19332797 ATTCCGTATTAAATCTCTCTATTCATCCCTATTAGATATGGGGTTCAAGAAAGAGTTTTCTTGTA
192 AATCCCTATAAAATCTCTCCATTCATCCCTATTAGAGACGAAATTCAACAAAGAGTTTTCTTGTA
19332862 T
257 T
* * * * * * *
19332863 CTTCAAAAGTTTCCATTCACCGGAGTTGGTAATTGAATTTCTCAAAAGATTGAGATAACCCTTTC
1 CTTCAAAACTTTACATTCACCGAAGTTGGAAATTGAATTTTTCAAAGGGTTGAGATAACCCTTTC
* * *
19332928 T-TTTTCGATTGAGGAGTCAATTTGATTCAATCTCTAACAAAATCTGCAACTTGTATTAGAGGAG
66 TCTTTT-GATT-AGGAGTGAATTTGATTCAATCTCAAACAAAATCTGCAACATGTATTAGAGGAG
* *
19332992 AATAAGTAGCAGCTCA-AACTCTATTTCTTGGAAAAATTGGTTAAGACTTGACAGTCGGTCAT-A
129 AATAAGTAGCAGCTCATAA-TCTATTTCTTGGAAAAACTGGTTAAGACTTGACAGTCGCTCATCA
* *
19333055 ATCCCTAGTAAAATCTCTCCATTCATCCCTATTAGAGACGAAATTCGACAAAGGGTGTTT-TTAG
193 ATCCCTA-TAAAATCTCTCCATTCATCCCTATTAGAGACGAAATTCAACAAAGAGT-TTTCTT-G
19333119 -AT
255 TAT
* * *
19333121 CTTCAAAACTTTACATTCATCGAAGTTGGAAAATGGATTTTTCAAAGGGTTGAGATAACCCTTTC
1 CTTCAAAACTTTACATTCACCGAAGTTGGAAATTGAATTTTTCAAAGGGTTGAGATAACCCTTTC
* * *
19333186 TCTTTTGATTATGGTGTGAATTTTATTCAATCTCAAATAAAATCTG
66 TCTTTTGATTA-GGAGTGAATTTGATTCAATCTCAAACAAAATCTG
19333232 TGTAACCTCT
Statistics
Matches: 501, Mismatches: 103, Indels: 45
0.77 0.16 0.07
Matches are distributed among these distances:
256 4 0.01
257 93 0.19
258 389 0.78
259 15 0.03
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.35
Consensus pattern (257 bp):
CTTCAAAACTTTACATTCACCGAAGTTGGAAATTGAATTTTTCAAAGGGTTGAGATAACCCTTTC
TCTTTTGATTAGGAGTGAATTTGATTCAATCTCAAACAAAATCTGCAACATGTATTAGAGGAGAA
TAAGTAGCAGCTCATAATCTATTTCTTGGAAAAACTGGTTAAGACTTGACAGTCGCTCATCAATC
CCTATAAAATCTCTCCATTCATCCCTATTAGAGACGAAATTCAACAAAGAGTTTTCTTGTAT
Found at i:19335126 original size:22 final size:22
Alignment explanation
Indices: 19335101--19335144 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
19335091 TTATGAGTTC
19335101 AAACCAATCATTGAAATTATAA
1 AAACCAATCATTGAAATTATAA
19335123 AAACCAATCATTGAAATTATAA
1 AAACCAATCATTGAAATTATAA
19335145 CTATTTTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.14, G:0.05, T:0.27
Consensus pattern (22 bp):
AAACCAATCATTGAAATTATAA
Found at i:19337221 original size:257 final size:259
Alignment explanation
Indices: 19336726--19337231 Score: 618
Period size: 258 Copynumber: 2.0 Consensus size: 259
19336716 CATCACCAGT
* * ** *
19336726 AAAATCTGCAACTTGTATTTTACGAGAAGAAGTAGCAGCTCAAAATCTATTTCTTTGTCAAGTTA
1 AAAATCTGCAACTTGTATTTTACGAGAAGAAGTAGCAGCTCAAAATCTATTTCATGGAAAAATTA
* * *
19336791 GTGCAGACTTGGTAGCCGATTATCATTCCAAATTAAATCTCTCCATTCACCTTTATTAGAGATGG
66 GTGCAGACTTGGTAGCCGATCATCATCCCAAATTAAATCTCTCCATTCACCTCTATTAGAGATGG
* * * * * *
19336856 GTTTCAACATAGGGTTTTCCTTGATCTTTAAAGCTTTCGATTCACCAGAGTTGGAAATCAGATTT
131 GTTTCAACATAGGGTTATCCTTGATCTTCAAAGCTTTCCATTCACCAGAGTTAGAAAACAAATTT
* *
19336921 CTTAAAGGTTTGAGATAACCCTTCCTCTTTCAATTGAGGAGTGAAATT-GATTTTATCTCCAAAA
196 CTTAAAGGGTTAAGATAACCCTTCCTCTTTCAATTGAGGAGTG-AATTGGATTTTATCTCCAAAA
* * *
19336985 AAAAT-TGCAATTTGTATTTTAGGAGAAGAAGTAGCCA-CTCAGAATCTATTTCATGGAAAAATT
1 AAAATCTGCAACTTGTATTTTACGAGAAGAAGTAG-CAGCTCAAAATCTATTTCATGGAAAAATT
* * * *
19337048 GGTTG-AGACCTT-GTAGTCGATCATCATCCCTAATTAAATCTCTTCATTCATCC-CTATTAGAG
65 AG-TGCAGA-CTTGGTAGCCGATCATCATCCCAAATTAAATCTCTCCATTCA-CCTCTATTAGAG
* *
19337110 ATGTG-TTCAACATAGGGTTAT-CTTGGATCTTCAAAGCTTTCCATTCACCTGAGTTAGAAAACA
127 ATGGGTTTCAACATAGGGTTATCCTT-GATCTTCAAAGCTTTCCATTCACCAGAGTTAGAAAACA
* * *
19337173 AATTT-TTCAAAGGGTTAAGATAA-CTTATTCTCTTTCGATTGAGGAGTGAATTGGATTTT
191 AATTTCTT-AAAGGGTTAAGATAACCCT-TCCTCTTTCAATTGAGGAGTGAATTGGATTTT
19337232 TTTTGGATCT
Statistics
Matches: 211, Mismatches: 28, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
256 11 0.05
257 90 0.43
258 96 0.45
259 14 0.07
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (259 bp):
AAAATCTGCAACTTGTATTTTACGAGAAGAAGTAGCAGCTCAAAATCTATTTCATGGAAAAATTA
GTGCAGACTTGGTAGCCGATCATCATCCCAAATTAAATCTCTCCATTCACCTCTATTAGAGATGG
GTTTCAACATAGGGTTATCCTTGATCTTCAAAGCTTTCCATTCACCAGAGTTAGAAAACAAATTT
CTTAAAGGGTTAAGATAACCCTTCCTCTTTCAATTGAGGAGTGAATTGGATTTTATCTCCAAAA
Found at i:19337308 original size:102 final size:102
Alignment explanation
Indices: 19337132--19337331 Score: 267
Period size: 102 Copynumber: 2.0 Consensus size: 102
19337122 TAGGGTTATC
**
19337132 TTGGATCTTCAAAGCTTTCCATTCACCTGAGTTAGAAAACAAATTTTTCAAAGGGTTAAGATAAC
1 TTGGATCTTCAAAGCTTTCCATTCACCAAAGTTAGAAAACAAATTTTTCAAAGGGTTAAGATAAC
*
19337197 TTATTCTCTTTCGATTGAGGAGTGAATTGGATTTTTT
66 CTATTCTCTTTCGATTGAGGAGTGAATTGGATTTTTT
* * ** * * * *
19337234 TTGGATCTTTAAAGCTTTCTATTCACCAAAGTTCTAAAACAAATTTTTTAAAGTGTTGAGATGAC
1 TTGGATCTTCAAAGCTTTCCATTCACCAAAGTTAGAAAACAAATTTTTCAAAGGGTTAAGAT-AA
* *
19337299 CCT-TTCTCTTTCGATTTAGGAGTGAATTTGATT
65 CCTATTCTCTTTCGATTGAGGAGTGAATTGGATT
19337332 CCATCTCCAA
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
102 81 0.96
103 3 0.04
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.41
Consensus pattern (102 bp):
TTGGATCTTCAAAGCTTTCCATTCACCAAAGTTAGAAAACAAATTTTTCAAAGGGTTAAGATAAC
CTATTCTCTTTCGATTGAGGAGTGAATTGGATTTTTT
Found at i:19337565 original size:359 final size:359
Alignment explanation
Indices: 19336878--19337589 Score: 887
Period size: 359 Copynumber: 2.0 Consensus size: 359
19336868 GGTTTTCCTT
* * * *
19336878 GATCTTTAAAGCTTTCGATTCACCAGAGTTGGAAATCAGATTTCTTAAAGGTTTGAGATAACCCT
1 GATCTTTAAAGCTTTCGATTCACCAAAGTTCGAAAACAAATTTCTTAAAGGTTTGAGATAACCCT
** * * *
19336943 TCCTCTTTCAATTGAGGAGTGAAATTGATTTTATCTCCAAAAAAAATTGCAATTTGTATTTTAGG
66 TCCTCTTTCAATTGAGGAGTGAAATTGATTCCATCTCCAAAAAAAATTGCAAGTTGTATATGAGG
* *
19337008 AGAAGAAGTAGCCACTCAGAATCTATTTCATGGAAAAATTGGTTGAGACCTTGTAGTCGATCATC
131 AGAAGAAGTAGCCACTCAGAATCTATTTCATGGAAAAATTGGTTGAGACCTTGCAGCCGATCATC
* * *
19337073 ATCCCTAATTAAATCTCTTCATTCATCCCTATTAGAGATGTGTTCAACATAGGGTTATCTTGGAT
196 ATCCCTAATTAAATCTCTACATTCATCCCCATTAGAGATGTGTTCAACAGAGGGTTATCTTGGAT
* * * * * *
19337138 CTTCAAAGCTTTCCATTCACCTGAGTTAGAAAACAAATTTTTCAAAGGGTTAAGATAACTTATTC
261 ATTCAAACCTTTCCATTCACCAGAGTTAGAAAACAAATTTCTCAAAAGGTTAAGATAAATTATTC
* *
19337203 TCTTTCGATTGAGGAGTGAATTGGATTTTTTTTG
326 TCTTTCGATTGAGAAATGAATTGGATTTTTTTTG
* * * *
19337237 GATCTTTAAAGCTTTCTATTCACCAAAGTTCTAAAACAAATTTTTTAAA-GTGTTGAGATGACCC
1 GATCTTTAAAGCTTTCGATTCACCAAAGTTCGAAAACAAATTTCTTAAAGGT-TTGAGATAACCC
* * * * * *
19337301 TTTCTCTTTCGATTTAGGAGTGAATTTGATTCCATCTCC-AATAAAATCTGCTAGTTGTATATGA
65 TTCCTCTTTCAATTGAGGAGTGAAATTGATTCCATCTCCAAAAAAAAT-TGCAAGTTGTATATGA
* * ** * *
19337365 GGAGAAGAAGTAGCCGCTCAGAATCTATTTC-TTGTCAACTTGGTTTAGA-CTTGGCAGCCGATC
129 GGAGAAGAAGTAGCCACTCAGAATCTATTTCATGGAAAAATTGGTTGAGACCTT-GCAGCCGATC
*
19337428 ATCATCCCTAATTAAATCTCTACATTCATCCCCATTAGAGACTG-GTTTCAAGAGAGGGTTATCT
193 ATCATCCCTAATTAAATCTCTACATTCATCCCCATTAGAGA-TGTG-TTCAACAGAGGGTTATCT
* * * * * * *
19337492 TTGATATTCAAACCTTTCCATTCACGAGATTTGGAAATCAGATTTCTCAAAAGGTTGAGATAAAA
256 TGGATATTCAAACCTTTCCATTCACCAGAGTTAGAAAACAAATTTCTCAAAAGGTTAAGAT-AAA
** *
19337557 TT-TTCTCTTTTTATTGAGAAATGAATTTGATTT
320 TTATTCTCTTTCGATTGAGAAATGAATTGGATTT
19337590 CATCACCAAC
Statistics
Matches: 298, Mismatches: 49, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
357 3 0.01
358 70 0.23
359 221 0.74
360 4 0.01
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (359 bp):
GATCTTTAAAGCTTTCGATTCACCAAAGTTCGAAAACAAATTTCTTAAAGGTTTGAGATAACCCT
TCCTCTTTCAATTGAGGAGTGAAATTGATTCCATCTCCAAAAAAAATTGCAAGTTGTATATGAGG
AGAAGAAGTAGCCACTCAGAATCTATTTCATGGAAAAATTGGTTGAGACCTTGCAGCCGATCATC
ATCCCTAATTAAATCTCTACATTCATCCCCATTAGAGATGTGTTCAACAGAGGGTTATCTTGGAT
ATTCAAACCTTTCCATTCACCAGAGTTAGAAAACAAATTTCTCAAAAGGTTAAGATAAATTATTC
TCTTTCGATTGAGAAATGAATTGGATTTTTTTTG
Found at i:19337844 original size:256 final size:252
Alignment explanation
Indices: 19337276--19338348 Score: 933
Period size: 256 Copynumber: 4.2 Consensus size: 252
19337266 TCTAAAACAA
* * * * * * *
19337276 ATTTTTTAAAGTGTTGAGATGACCCTTTCTCTTTCGATTTAGGAGTGAATTTGATTCCATCTCCA
1 ATTTCTTAAAGGGTTAAGATAACCTTTTCTCTTTCGATTAAGGAGTGAATTTGATTTCATCTCCA
* * * * ** **
19337341 ATAAAATCTGCTAGTTGTATATGAGGAGAAGAAGTAGCCGCTCAGAATCTATTTCTTGTCAACTT
66 ACAAAATCTGCAACTTGTATTTGAGGAGAAGAAGTAGAAGCTCAGAATCTATTTCTTGAAAAC-T
* *
19337406 GGTTTAGACTTGGCAGCCGATCATCATCCCTAATTAAATCTCTACATTCATCCCCATTAGAGACT
130 GGTTGAGACTTGGCAGCCGATCATCATCCCTAATTAAATCTCT-CATTCATCCCTATTAGAGA-T
* * * * * **
19337471 GGTTTCAAGAGAGGGTTATCTTTGATATTCAAACCTTTCCATTCACGAGATTTGGAAATCAG
193 GG-TTCAACAGAGGGTT-TCTTGGATCTTCAAACCTTTCCATTCACCAGAGTTGGAAATTGG
* * * ** ** * * * *
19337533 ATTTCTCAAAAGGTTGAGATAAAATTTTCTCTTTTTATTGAGAAATGAATTTGATTTCATCACCA
1 ATTTCTTAAAGGGTTAAGATAACCTTTTCTCTTTCGATTAAGGAGTGAATTTGATTTCATCTCCA
* *
19337598 ACAAAAT-TCGCAACTTGTATTTGAGGGGAAGAAGTAGAAGCTTC-GAATCTATTTGTATGAAAA
66 ACAAAATCT-GCAACTTGTATTTGAGGAGAAGAAGTAGAAGC-TCAGAATCTATTTCT-TGAAAA
* * * * * *
19337661 TCTAGTTGAGACTTGACCGCCGATCATCATCCTTAATTAAATCTATCTATTTATCCCTATTAGAG
128 -CTGGTTGAGACTTGGCAGCCGATCATCATCCCTAATTAAATCTCTC-ATTCATCCCTATTAGAG
* *
19337726 ATGGGTATAAACAGAGGG-TTCTTGGATCTTCAAATCTTTCCATTCACCAGAGTTGGAAATTGG
191 AT-GGT-TCAACAGAGGGTTTCTTGGATCTTCAAACCTTTCCATTCACCAGAGTTGGAAATTGG
*
19337789 ATTTCTTAAAGGGTTAAGATAACCTTTTCTCTTTCTATTAAGGAGTGAATTTGATTTCATCTCCA
1 ATTTCTTAAAGGGTTAAGATAACCTTTTCTCTTTCGATTAAGGAGTGAATTTGATTTCATCTCCA
* * *
19337854 ACAAAATCTGTAACTTGTATTTGAGGAGAAGAAGTAGCTA-CTCAAAATCTATTTCTTGGAAAAA
66 ACAAAATCTGCAACTTGTATTTGAGGAGAAGAAGTAG-AAGCTCAGAATCTATTTCTT-G-AAAA
* *
19337918 CTGGTTGAGACTTGGTAGCCGACCATCATCCCTAATTAAATCTCTCAATTCATCCCTATTAGAGA
128 CTGGTTGAGACTTGGCAGCCGATCATCATCCCTAATTAAATCTCTC-ATTCATCCCTATTAGAGA
** * * * * * * *
19337983 CAAGTTCAACATAGGGTTTTTTGGATCTTCAAAGCTTTGCATTCAACCA-AGTTGGACAGTGA
192 -TGGTTCAACAGAGGGTTTCTTGGATCTTCAAACCTTTCCATTC-ACCAGAGTTGGAAATTGG
* * * *
19338045 ATTT-TTCTAAGGGTTATGATAACCTTTTCTCTTTCGATTAAGGAGTAAACTTGA-TTCTATCTC
1 ATTTCTT-AAAGGGTTAAGATAACCTTTTCTCTTTCGATTAAGGAGTGAATTTGATTTC-ATCTC
* * ** ** * * *
19338108 CAACAAAGTCTGCAACTTGTATTTGTGGAGAAGAAGCGGCTGCTCATAATTTATTTCTGGTAAAA
64 CAACAAAATCTGCAACTTGTATTTGAGGAGAAGAAGTAGAAGCTCAGAATCTATTTCTTG-AAAA
* * * * * * * * * *
19338173 CAGTTTAAGACTTGGCAGCCTATCA-CTATCCCTTATTTAATCTCTTCATTCATCACTACTACAT
128 CTGGTTGAGACTTGGCAGCCGATCATC-ATCCCTAATTAAATCTC-TCATTCATCCCTATTAGAG
* * * * * * *** **
19338237 ATGGGTTTCAACATAGGGTTTTCTTCGG-TTTTCAAAGCATTCAATTTATTGGAGTTGGAAATCA
191 AT-GG-TTCAACAGAGGG-TTTCTT-GGATCTTCAAACCTTTCCATTCACCAGAGTTGGAAATTG
19338301 G
252 G
* * * * *
19338302 ATTTCGTAAAAGGTTGAA-ATAACCCTTTCTCTTTTGATTGAGGAGTG
1 ATTTCTTAAAGGGTT-AAGATAACCTTTTCTCTTTCGATTAAGGAGTG
19338349 TAACGTGGTT
Statistics
Matches: 661, Mismatches: 128, Indels: 54
0.78 0.15 0.06
Matches are distributed among these distances:
254 1 0.00
255 71 0.11
256 344 0.52
257 169 0.26
258 75 0.11
259 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (252 bp):
ATTTCTTAAAGGGTTAAGATAACCTTTTCTCTTTCGATTAAGGAGTGAATTTGATTTCATCTCCA
ACAAAATCTGCAACTTGTATTTGAGGAGAAGAAGTAGAAGCTCAGAATCTATTTCTTGAAAACTG
GTTGAGACTTGGCAGCCGATCATCATCCCTAATTAAATCTCTCATTCATCCCTATTAGAGATGGT
TCAACAGAGGGTTTCTTGGATCTTCAAACCTTTCCATTCACCAGAGTTGGAAATTGG
Found at i:19338295 original size:513 final size:513
Alignment explanation
Indices: 19337234--19338348 Score: 1084
Period size: 513 Copynumber: 2.2 Consensus size: 513
19337224 TGGATTTTTT
* * * * ** * * * * * *
19337234 TTGGATCTTTAAAGCTTTCTATTCACCAAAGTTCTAAAACAAATTTTTTAAAGTGTTGAGATGAC
1 TTGGATCTTCAAAGCATTCAATTCACCAGAGTTGGAAATCAGATTTCTTAAAGGGTTAAGATAAC
* * * *
19337299 CCTTTCTCTTTCGATTTAGGAGTGAATTTGATTCCATCTCCAATAAAATCTGCTAGTTGTATATG
66 CCTTTCTCTTTCTATTAAGGAGTGAATTTGATTCCATCTCCAACAAAATCTGCTACTTGTATATG
* * ** * *
19337364 AGGAGAAGAAGTAGCCGCTCAGAATCTATTTCTTGTCAACTTGGTTTAGACTTGGCAGCCGATCA
131 AGGAGAAGAAGTAGCCACTCAAAATCTATTTCTTGAAAACTTGGTTGAGACTTGGCAGCCGACCA
** *
19337429 TCATCCCTAATTAAATCTCTACATTCATCCCCATTAGAGACTGGTTTCAAGAGAGGGTTATCTTT
196 TCATCCCTAATTAAATCTCTACATTCATCCCCATTAGAGACAAGTTTCAACAGAGGGTTATCTTT
* *
19337494 GATATTCAAACCTTTCCATTCACGAGATTTGGAAATCAGATTTCTCAAAAGGTTGAGATAAAATT
261 GATATTCAAACCTTTCCATTCACCAGAGTTGGAAATCAGATTTCTCAAAAGGTTGAGATAAAATT
** * * *
19337559 TTCTCTTTTTATTGAGAAATGAATTTGATTTCATCACCAACAAAATTCGCAACTTGTATTTGAGG
326 TTCTCTTTCGATTAAGAAATAAACTTGATTTCATCACCAACAAAATTCGCAACTTGTATTTGAGG
* * * * *
19337624 GGAAGAAGTAGAAGCTTCGAATCTATTTGTATGAAAATCTAGTTGAGACTTGACCGCCGATCATC
391 AGAAGAAGCAGAAGCTTCGAATCTATTTCTATGAAAATCTAGTTAAGACTTGACAGCCGATCATC
* * * *
19337689 ATCCTTAATTAAATCTATCTATTTATCCCTATTAGAGATGGGTATAAACAGAGGGTTC
456 ATCCTTAATTAAATCTATCTATTCATCACTACTACAGATGGGTATAAACAGAGGGTTC
* * * **
19337747 TTGGATCTTCAAATCTTTCCATTCACCAGAGTTGGAAATTGGATTTCTTAAAGGGTTAAGATAAC
1 TTGGATCTTCAAAGCATTCAATTCACCAGAGTTGGAAATCAGATTTCTTAAAGGGTTAAGATAAC
* * *
19337812 CTTTTCTCTTTCTATTAAGGAGTGAATTTGATTTCATCTCCAACAAAATCTG-TAACTTGTATTT
66 CCTTTCTCTTTCTATTAAGGAGTGAATTTGATTCCATCTCCAACAAAATCTGCT-ACTTGTATAT
* *
19337876 GAGGAGAAGAAGTAGCTACTCAAAATCTATTTCTTGGAAAAAC-TGGTTGAGACTTGGTAGCCGA
130 GAGGAGAAGAAGTAGCCACTCAAAATCTATTTCTT-G-AAAACTTGGTTGAGACTTGGCAGCCGA
* *
19337940 CCATCATCCCTAATTAAATCTCT-CAATTCATCCCTATTAGAGACAAG-TTCAACATAGGGTT-T
193 CCATCATCCCTAATTAAATCTCTAC-ATTCATCCCCATTAGAGACAAGTTTCAACAGAGGGTTAT
* * * * * * * *
19338002 -TTTGGATCTTCAAAGCTTTGCATTCAACCA-AGTTGGACAGTGA-ATTTTTCTAAGGGTT-ATG
257 CTTT-GATATTCAAACCTTTCCATTC-ACCAGAGTTGGA-AATCAGATTTCTCAAAAGGTTGA-G
** * * * *
19338063 ATAACCTTTTCTCTTTCGATTAAGGAGTAAACTTGA-TTCTATCTCCAAC-AAAGTCTGCAACTT
318 ATAAAATTTTCTCTTTCGATTAAGAAATAAACTTGATTTC-ATCACCAACAAAATTC-GCAACTT
* * ** * * *
19338126 GTATTTGTGGAGAAGAAGCGGCTGC-TCATAATTTATTTCT-GGTAAAA-C-AGTTTAAGACTTG
381 GTATTTGAGGAGAAGAAGCAGAAGCTTC-GAATCTATTTCTATG-AAAATCTAG-TTAAGACTTG
* * * * * * *
19338187 GCAGCCTATCA-CTATCCCTT-ATTTAATCTCT-TCATTCATCACTACTACATATGGGTTTCAAC
443 ACAGCCGATCATC-AT-CCTTAATTAAATCTATCT-ATTCATCACTACTACAGATGGGTATAAAC
*
19338249 ATAGGGTTTTC
505 AGAGGG--TTC
* * *** * *
19338260 TTCGG-TTTTCAAAGCATTCAATTTATTGGAGTTGGAAATCAGATTTCGTAAAAGGTTGAA-ATA
1 TT-GGATCTTCAAAGCATTCAATTCACCAGAGTTGGAAATCAGATTTCTTAAAGGGTT-AAGATA
*
19338323 ACCCTTTCTCTTT-TGATTGAGGAGTG
64 ACCCTTTCTCTTTCT-ATTAAGGAGTG
19338349 TAACGTGGTT
Statistics
Matches: 488, Mismatches: 93, Indels: 42
0.78 0.15 0.07
Matches are distributed among these distances:
510 4 0.01
511 71 0.15
512 118 0.24
513 227 0.47
514 65 0.13
515 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (513 bp):
TTGGATCTTCAAAGCATTCAATTCACCAGAGTTGGAAATCAGATTTCTTAAAGGGTTAAGATAAC
CCTTTCTCTTTCTATTAAGGAGTGAATTTGATTCCATCTCCAACAAAATCTGCTACTTGTATATG
AGGAGAAGAAGTAGCCACTCAAAATCTATTTCTTGAAAACTTGGTTGAGACTTGGCAGCCGACCA
TCATCCCTAATTAAATCTCTACATTCATCCCCATTAGAGACAAGTTTCAACAGAGGGTTATCTTT
GATATTCAAACCTTTCCATTCACCAGAGTTGGAAATCAGATTTCTCAAAAGGTTGAGATAAAATT
TTCTCTTTCGATTAAGAAATAAACTTGATTTCATCACCAACAAAATTCGCAACTTGTATTTGAGG
AGAAGAAGCAGAAGCTTCGAATCTATTTCTATGAAAATCTAGTTAAGACTTGACAGCCGATCATC
ATCCTTAATTAAATCTATCTATTCATCACTACTACAGATGGGTATAAACAGAGGGTTC
Found at i:19342207 original size:9 final size:9
Alignment explanation
Indices: 19342193--19342227 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
19342183 TAAATATATT
19342193 TTAAAAAAA
1 TTAAAAAAA
19342202 TTAAAAAAA
1 TTAAAAAAA
19342211 TTTAAAAAAA
1 -TTAAAAAAA
19342221 -TAAAAAA
1 TTAAAAAA
19342228 CAAATTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 7 0.28
9 9 0.36
10 9 0.36
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:19342208 original size:10 final size:10
Alignment explanation
Indices: 19342195--19342237 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
19342185 AATATATTTT
19342195 AAAAAAATT-
1 AAAAAAATTA
*
19342204 AAAAAAATTT
1 AAAAAAATTA
*
19342214 AAAAAAATAA
1 AAAAAAATTA
19342224 AAAACAAATTA
1 AAAA-AAATTA
19342235 AAA
1 AAA
19342238 TATACATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 9 0.31
10 12 0.41
11 8 0.28
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (10 bp):
AAAAAAATTA
Found at i:19342216 original size:19 final size:18
Alignment explanation
Indices: 19342192--19342227 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
19342182 TTAAATATAT
19342192 TTTAAAAAAATTAAAAAAA
1 TTTAAAAAAA-TAAAAAAA
19342211 TTTAAAAAAATAAAAAA
1 TTTAAAAAAATAAAAAA
19342228 CAAATTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (18 bp):
TTTAAAAAAATAAAAAAA
Found at i:19342250 original size:13 final size:13
Alignment explanation
Indices: 19342232--19342266 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
19342222 AAAAAACAAA
19342232 TTAAAATATACAT
1 TTAAAATATACAT
19342245 TTAAAATATACAT
1 TTAAAATATACAT
19342258 TTAAAATAT
1 TTAAAATAT
19342267 TATAAAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (13 bp):
TTAAAATATACAT
Found at i:19342351 original size:21 final size:21
Alignment explanation
Indices: 19342327--19342442 Score: 130
Period size: 21 Copynumber: 5.4 Consensus size: 21
19342317 GTTTTATTTA
19342327 TTAAAAAATATATTTAAAATT
1 TTAAAAAATATATTTAAAATT
19342348 TT-AAAAATAATATTT-AAATT
1 TTAAAAAAT-ATATTTAAAATT
19342368 TTAAAAAATA-ATTTTAAAATT
1 TTAAAAAATATA-TTTAAAATT
19342389 TTAAAAAATAATATTATAAAACTT
1 TTAAAAAAT-ATATT-TAAAA-TT
* * *
19342413 TTCAAATATACATTTAAAATT
1 TTAAAAAATATATTTAAAATT
19342434 TTATAAAAA
1 TTA-AAAAA
19342443 AATAAATAAA
Statistics
Matches: 81, Mismatches: 5, Indels: 17
0.79 0.05 0.17
Matches are distributed among these distances:
19 1 0.01
20 17 0.21
21 32 0.40
22 12 0.15
23 10 0.12
24 9 0.11
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (21 bp):
TTAAAAAATATATTTAAAATT
Found at i:19342436 original size:45 final size:41
Alignment explanation
Indices: 19342327--19342446 Score: 145
Period size: 45 Copynumber: 2.8 Consensus size: 41
19342317 GTTTTATTTA
19342327 TTAAAAAATATATTTAAAATTTT-AAAAATAATATTTAAATT
1 TTAAAAAATA-ATTTAAAATTTTAAAAAATAATATTTAAATT
19342368 TTAAAAAATAATTTTAAAATTTTAAAAAATAATATTATAAAACTT
1 TTAAAAAATAA-TTTAAAATTTTAAAAAATAATATT-T-AAA-TT
* *
19342413 TTCAAATATACATTTAAAATTTTATAAAAA-AATA
1 TTAAAAAATA-ATTTAAAATTTTA-AAAAATAATA
19342447 AATAAATAAA
Statistics
Matches: 70, Mismatches: 2, Indels: 10
0.85 0.02 0.12
Matches are distributed among these distances:
40 1 0.01
41 21 0.30
42 12 0.17
43 1 0.01
44 3 0.04
45 26 0.37
46 6 0.09
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (41 bp):
TTAAAAAATAATTTAAAATTTTAAAAAATAATATTTAAATT
Found at i:19344150 original size:22 final size:22
Alignment explanation
Indices: 19344106--19344151 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
19344096 ATAACACTAC
*
19344106 CCCTAAAAATTAAAAATTCTAA
1 CCCTAAAAATTAAAAATCCTAA
*
19344128 CCCTAAAAATTTAAAA-CCATAA
1 CCCTAAAAATTAAAAATCC-TAA
19344150 CC
1 CC
19344152 TTAGAAGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (22 bp):
CCCTAAAAATTAAAAATCCTAA
Found at i:19344896 original size:6 final size:6
Alignment explanation
Indices: 19344863--19344895 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
19344853 TTTTAATTCA
*
19344863 ATTAGT ATTAGT ATTAGT ATTAGT ATTGGT ATT
1 ATTAGT ATTAGT ATTAGT ATTAGT ATTAGT ATT
19344896 GTTGTTAGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (6 bp):
ATTAGT
Found at i:19349061 original size:21 final size:21
Alignment explanation
Indices: 19349035--19349075 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19349025 ATCTGCTCAA
* *
19349035 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
19349056 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
19349076 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:19354163 original size:16 final size:16
Alignment explanation
Indices: 19354142--19354210 Score: 58
Period size: 16 Copynumber: 4.6 Consensus size: 16
19354132 TGTATGTATA
19354142 ATATTTTTAAAAGAAT
1 ATATTTTTAAAAGAAT
* *
19354158 ATATTTTT-AGATAAT
1 ATATTTTTAAAAGAAT
* *
19354173 A-A-ATTT--AAGTAT
1 ATATTTTTAAAAGAAT
19354185 AATATTTTTAAAAGAAT
1 -ATATTTTTAAAAGAAT
19354202 ATATTTTTA
1 ATATTTTTA
19354211 GATAATAAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
12 3 0.08
13 4 0.10
14 2 0.05
15 9 0.22
16 17 0.43
17 5 0.12
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (16 bp):
ATATTTTTAAAAGAAT
Found at i:19354173 original size:15 final size:15
Alignment explanation
Indices: 19354139--19354222 Score: 66
Period size: 15 Copynumber: 5.7 Consensus size: 15
19354129 ATATGTATGT
*
19354139 ATAATAT-TTTTAAA
1 ATAATATATTTTAAG
* *
19354153 AGAATATATTTTTAG
1 ATAATATATTTTAAG
*
19354168 ATAATA-AATTTAAG
1 ATAATATATTTTAAG
*
19354182 TATAATAT-TTTTAAA
1 -ATAATATATTTTAAG
* *
19354197 AGAATATATTTTTAG
1 ATAATATATTTTAAG
*
19354212 ATAATAAATTT
1 ATAATATATTT
19354223 AAAATAATTC
Statistics
Matches: 53, Mismatches: 13, Indels: 7
0.73 0.18 0.10
Matches are distributed among these distances:
14 18 0.34
15 35 0.66
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (15 bp):
ATAATATATTTTAAG
Found at i:19354187 original size:44 final size:44
Alignment explanation
Indices: 19354137--19354224 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
19354127 TTATATGTAT
19354137 GTATAATATTTTTAAAAGAATATATTTTTAGATAATAAATTTAA
1 GTATAATATTTTTAAAAGAATATATTTTTAGATAATAAATTTAA
19354181 GTATAATATTTTTAAAAGAATATATTTTTAGATAATAAATTTAA
1 GTATAATATTTTTAAAAGAATATATTTTTAGATAATAAATTTAA
19354225 AATAATTCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (44 bp):
GTATAATATTTTTAAAAGAATATATTTTTAGATAATAAATTTAA
Found at i:19354284 original size:12 final size:12
Alignment explanation
Indices: 19354267--19354306 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
19354257 CGTTTCAGAT
19354267 AAATAATTTTAA
1 AAATAATTTTAA
19354279 AAATAATTTATAA
1 AAATAATTT-TAA
19354292 ATAATAATTTTAA
1 A-AATAATTTTAA
19354305 AA
1 AA
19354307 TTTTAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 10 0.38
13 8 0.31
14 8 0.31
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATAATTTTAA
Found at i:19354307 original size:14 final size:14
Alignment explanation
Indices: 19354268--19354307 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
19354258 GTTTCAGATA
19354268 AATAATTTT-AAA-
1 AATAATTTTAAAAT
19354280 AATAA-TTTATAAAT
1 AATAATTTTA-AAAT
19354294 AATAATTTTAAAAT
1 AATAATTTTAAAAT
19354308 TTTAAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
11 3 0.12
12 5 0.21
13 3 0.12
14 9 0.38
15 4 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AATAATTTTAAAAT
Found at i:19354835 original size:30 final size:32
Alignment explanation
Indices: 19354785--19354844 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
19354775 AAACTTTTTA
* *
19354785 TTTTCCCTCAAAATTTTTAC-TCCCTCCCACT
1 TTTTCCCTAAAAACTTTTACTTCCCTCCCACT
*
19354816 TTTTCCC-AAAAACTTTTACTTCTCTCCCA
1 TTTTCCCTAAAAACTTTTACTTCCCTCCCA
19354845 TCTCCTCCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.22, C:0.37, G:0.00, T:0.42
Consensus pattern (32 bp):
TTTTCCCTAAAAACTTTTACTTCCCTCCCACT
Found at i:19360048 original size:27 final size:27
Alignment explanation
Indices: 19360010--19360069 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
19360000 TCAAGTTACT
19360010 TAGGACAATCCTAGAAGTCCTCAGCAG
1 TAGGACAATCCTAGAAGTCCTCAGCAG
19360037 TAGGACAATCCTAGAAGTCCTCAGCAG
1 TAGGACAATCCTAGAAGTCCTCAGCAG
19360064 TAGGAC
1 TAGGAC
19360070 TTATCACAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.18
Consensus pattern (27 bp):
TAGGACAATCCTAGAAGTCCTCAGCAG
Found at i:19362218 original size:14 final size:14
Alignment explanation
Indices: 19362201--19362228 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19362191 AAAATGAAAG
19362201 TTAAAAGAAAATAA
1 TTAAAAGAAAATAA
19362215 TTAAAAGAAAATAA
1 TTAAAAGAAAATAA
19362229 AATAAAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (14 bp):
TTAAAAGAAAATAA
Found at i:19362551 original size:53 final size:53
Alignment explanation
Indices: 19362433--19362534 Score: 195
Period size: 53 Copynumber: 1.9 Consensus size: 53
19362423 TACATAAATG
*
19362433 ATTATTTATGTAATTTATTTTAAAAAATTTAAACATCCAATGGTAATATAATT
1 ATTATTTATTTAATTTATTTTAAAAAATTTAAACATCCAATGGTAATATAATT
19362486 ATTATTTATTTAATTTATTTTAAAAAATTTAAACATCCAATGGTAATAT
1 ATTATTTATTTAATTTATTTTAAAAAATTTAAACATCCAATGGTAATAT
19362535 GGACATATAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (53 bp):
ATTATTTATTTAATTTATTTTAAAAAATTTAAACATCCAATGGTAATATAATT
Found at i:19363707 original size:75 final size:75
Alignment explanation
Indices: 19363584--19363730 Score: 240
Period size: 75 Copynumber: 2.0 Consensus size: 75
19363574 GCATCGAACG
* *
19363584 AGCGATCGAGCGCTTTACGATTTGGTATGCGCGAATTTTCCAGTTTTAATTCAACTCTTGAAAAT
1 AGCGATCGAGCGCTTTACAATTTGGTACGCGCGAATTTTCCAGTTTTAATTCAACTCTTGAAAAT
19363649 CCTACTAGAA
66 CCTACTAGAA
* * **
19363659 AGCGATCGAGCGTTTTACAATTTGGTACGCGCGATTTTTCCAGTTTTAATTTGACTCTTGAAAAT
1 AGCGATCGAGCGCTTTACAATTTGGTACGCGCGAATTTTCCAGTTTTAATTCAACTCTTGAAAAT
19363724 CCTACTA
66 CCTACTA
19363731 TAAATTAAGA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 66 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (75 bp):
AGCGATCGAGCGCTTTACAATTTGGTACGCGCGAATTTTCCAGTTTTAATTCAACTCTTGAAAAT
CCTACTAGAA
Found at i:19370186 original size:18 final size:18
Alignment explanation
Indices: 19370165--19370209 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
19370155 ACCAATATGT
* * *
19370165 GGCCCAATACCATTCTTC
1 GGCCCAATACCACTATTA
*
19370183 GGCCCAACACCACTATTA
1 GGCCCAATACCACTATTA
19370201 GGCCCAATA
1 GGCCCAATA
19370210 GTACCATCAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.38, G:0.13, T:0.20
Consensus pattern (18 bp):
GGCCCAATACCACTATTA
Found at i:19370395 original size:18 final size:17
Alignment explanation
Indices: 19370372--19370417 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
19370362 AGCATACCAC
*
19370372 TTTTGACCACAATCATAA
1 TTTTGACCACAA-AATAA
19370390 TTTTGACCAGCAAAATAA
1 TTTTGACCA-CAAAATAA
*
19370408 TTCTGACCAC
1 TTTTGACCAC
19370418 TTCCATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 21 0.84
19 3 0.12
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (17 bp):
TTTTGACCACAAAATAA
Found at i:19370449 original size:21 final size:21
Alignment explanation
Indices: 19370400--19370459 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
19370390 TTTTGACCAG
* *
19370400 CAAAATAATTCTGACCACTTC
1 CAAAATAATTTTGACCATTTC
** *
19370421 CATTATAATTTTGACCATTTT
1 CAAAATAATTTTGACCATTTC
19370442 CAAAATAATTTTGACCAT
1 CAAAATAATTTTGACCAT
19370460 GGTTAGAGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.38
Consensus pattern (21 bp):
CAAAATAATTTTGACCATTTC
Found at i:19371688 original size:22 final size:22
Alignment explanation
Indices: 19371639--19371691 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
19371629 AACTTGTCCT
* *
19371639 CATCACGACGTTGAGAGCTTGG
1 CATCACGACATTGAGAGCTTGA
** *
19371661 TGTCACGATATTGAGAGCTTGA
1 CATCACGACATTGAGAGCTTGA
19371683 CATCACGAC
1 CATCACGAC
19371692 GCCATTGTCT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (22 bp):
CATCACGACATTGAGAGCTTGA
Found at i:19387909 original size:15 final size:15
Alignment explanation
Indices: 19387889--19387919 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
19387879 CCAACCTTCA
19387889 AATTTTACCTCAATT
1 AATTTTACCTCAATT
19387904 AATTTTACCTCAATT
1 AATTTTACCTCAATT
19387919 A
1 A
19387920 TACATAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTTACCTCAATT
Found at i:19390180 original size:11 final size:11
Alignment explanation
Indices: 19390164--19390190 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
19390154 TAGAAATTAG
19390164 TTTGTGAAACT
1 TTTGTGAAACT
19390175 TTTGTGAAACT
1 TTTGTGAAACT
19390186 TTTGT
1 TTTGT
19390191 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:19391729 original size:93 final size:93
Alignment explanation
Indices: 19391597--19391811 Score: 308
Period size: 93 Copynumber: 2.3 Consensus size: 93
19391587 TTGATTTTAG
* *
19391597 TAAATTCATATAAGAACA-TTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATT
1 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATT
* * *
19391660 ATATTTAATATTAATTATTTTAAATTGTA
65 ATATGTAATAATAATTATTTTAAATTATA
* *
19391689 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
19391754 TATGTAATAATAATTATTTTAAATTATA
66 TATGTAATAATAATTATTTTAAATTATA
* *
19391782 CAAATTCATATAAGATAATTTATTAGTTAT
1 TAAATTCATATAAGAAAATTT-TTA-TTAT
19391812 AATTATTTTA
Statistics
Matches: 110, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
92 17 0.15
93 84 0.76
94 5 0.05
95 4 0.04
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.47
Consensus pattern (93 bp):
TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
TATGTAATAATAATTATTTTAAATTATA
Found at i:19391779 original size:26 final size:28
Alignment explanation
Indices: 19391721--19391781 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
19391711 TATTATCAAG
* *
19391721 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
19391749 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
19391775 AATTATA
1 AATTATA
19391782 CAAATTCATA
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:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:19391968 original size:18 final size:17
Alignment explanation
Indices: 19391942--19391976 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
19391932 GATTATTAGA
*
19391942 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
19391959 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
19391977 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:19392088 original size:144 final size:146
Alignment explanation
Indices: 19391933--19392201 Score: 463
Period size: 144 Copynumber: 1.8 Consensus size: 146
19391923 AAGAATATTG
* *
19391933 ATTATTAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAA
1 ATTATTAGAATTTTAATAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAAA
19391998 TATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAA-AATAATTTACCA
66 TATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTACCA
19392060 AAACAAATTTCTGCTA
131 AAACAAATTTCTGCTA
19392076 ATTATTAAGAATTTTAATAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAA
1 ATTATT-AGAATTTTAATAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAA
*
19392141 ATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
65 ATATGATTAAATTATTTATTATTGATAAT--ATAATCTTATTAAAATTTAAATAACAATAA
19392202 CAATAATCAT
Statistics
Matches: 117, Mismatches: 3, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
143 6 0.05
144 81 0.69
145 2 0.02
148 23 0.20
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (146 bp):
ATTATTAGAATTTTAATAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAAA
TATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTACCA
AAACAAATTTCTGCTA
Found at i:19392106 original size:17 final size:18
Alignment explanation
Indices: 19392086--19392120 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
19392076 ATTATTAAGA
*
19392086 ATTTTAA-TAAATTATAT
1 ATTTTAATTAAAATATAT
19392103 ATTTTAATTAAAATATAT
1 ATTTTAATTAAAATATAT
19392121 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTTAATTAAAATATAT
Found at i:19392331 original size:44 final size:45
Alignment explanation
Indices: 19392282--19392376 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
19392272 TTACACCTCT
* *
19392282 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
19392326 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
19392371 ATTACA
1 ATTACA
19392377 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:19392376 original size:16 final size:16
Alignment explanation
Indices: 19392355--19392387 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
19392345 TTGATTTGCT
*
19392355 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
19392371 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
19392387 A
1 A
19392388 ATCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:19392397 original size:21 final size:21
Alignment explanation
Indices: 19392368--19392410 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
19392358 ACACCTCTAT
*
19392368 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
19392389 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
19392410 T
1 T
19392411 ACAGCGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:19394904 original size:3 final size:3
Alignment explanation
Indices: 19394896--19394945 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
19394886 CACATAGTCT
*
19394896 TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
19394944 TT
1 TT
19394946 TTACTCACAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:19396939 original size:138 final size:138
Alignment explanation
Indices: 19396712--19396982 Score: 404
Period size: 138 Copynumber: 2.0 Consensus size: 138
19396702 TAAATACTCA
* *
19396712 ATCATAGTCCACTCATTGTCTTTAATTGTAGCCTTTTGCAACTAGTCTTACTTTGTATTTCTCCA
1 ATCATAGTCCACTCATTGTCTTTAATTGAAGCCCTTTGCAACTAGTCTTACTTTGTATTTCTCCA
* *
19396777 ATTTTCCTTCTTTGTTAGTATTTGTCTTGTACA-CTCATTTGACTTCAATTGGACTATGTCCTTC
66 ATTTTCCTTCTTTGTTAGTATTTGTCTTGTACATC-CATTTGACTCCAATTGGACAATGTCCTTC
19396841 TAGTCCTTC
130 TAGTCCTTC
* *
19396850 ATCATAGTCCACTC-TATGTCTTTACTTGAAGCCCTTTGCAA-TCAGTCTTGCTTTGTATTTCTC
1 ATCATAGTCCACTCAT-TGTCTTTAATTGAAGCCCTTTGCAACT-AGTCTTACTTTGTATTTCTC
* * * *
19396913 CACTTTTCCTTTTTTGTTGGTCTTTGTCTTGTACATCCATTTGACTCCAATTGGACAATGTCCTT
64 CAATTTTCCTTCTTTGTTAGTATTTGTCTTGTACATCCATTTGACTCCAATTGGACAATGTCCTT
19396978 CTAGT
129 CTAGT
19396983 AAACTTGTTA
Statistics
Matches: 120, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
137 2 0.02
138 117 0.98
139 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.13, T:0.46
Consensus pattern (138 bp):
ATCATAGTCCACTCATTGTCTTTAATTGAAGCCCTTTGCAACTAGTCTTACTTTGTATTTCTCCA
ATTTTCCTTCTTTGTTAGTATTTGTCTTGTACATCCATTTGACTCCAATTGGACAATGTCCTTCT
AGTCCTTC
Found at i:19397995 original size:37 final size:36
Alignment explanation
Indices: 19397954--19398024 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 36
19397944 AAAAACATTT
* * *
19397954 TCTTTAACGTTTTTTCTTTTTCTTCTTTTTCTTTTCC
1 TCTTTAACATTTCTTCTCTTT-TTCTTTTTCTTTTCC
*
19397991 TCTTTCACATTTCTTCTCTTTTTCTTTTTCTTTT
1 TCTTTAACATTTCTTCTCTTTTTCTTTTTCTTTT
19398025 TGTTCATTGC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 13 0.43
37 17 0.57
ACGTcount: A:0.06, C:0.23, G:0.01, T:0.70
Consensus pattern (36 bp):
TCTTTAACATTTCTTCTCTTTTTCTTTTTCTTTTCC
Found at i:19398021 original size:14 final size:14
Alignment explanation
Indices: 19397964--19398025 Score: 63
Period size: 15 Copynumber: 4.3 Consensus size: 14
19397954 TCTTTAACGT
19397964 TTTTTCTTTTTCTTC
1 TTTTTCTTTTTC-TC
*
19397979 TTTTTCTTTTCCTC
1 TTTTTCTTTTTCTC
**
19397993 TTTCACATTTCTTCTC
1 TTTTTC-TTT-TTCTC
19398009 TTTTTCTTTTTCT-
1 TTTTTCTTTTTCTC
19398022 TTTT
1 TTTT
19398026 GTTCATTGCG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
13 4 0.10
14 10 0.26
15 17 0.44
16 8 0.21
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTCTTTTTCTC
Found at i:19405009 original size:71 final size:64
Alignment explanation
Indices: 19404924--19405084 Score: 171
Period size: 65 Copynumber: 2.4 Consensus size: 64
19404914 GAATGTATGA
* * *
19404924 TACAAGTTTATTGAGCTGAACTTAATATTATGAATTTCATATATACATATATATATGGTTTGAAT
1 TACAAGTTTCTTGAGCTGAACTTAAT-GTATGAATTT--TATATAC--ATATA-A-GGTTCGAAT
19404989 A-TAGGT
59 ATTA-GT
*
19404995 TACAAGTTTCTTGAGCTGAATTTTAATGTATGAATTTTATATACATATAAGGTTCGAATATTAGT
1 TACAAGTTTCTTGAGCTGAA-CTTAATGTATGAATTTTATATACATATAAGGTTCGAATATTAGT
* * *
19405060 TACAAATTCCTTGAGCTGAAGTTAA
1 TACAAGTTTCTTGAGCTGAACTTAA
19405085 AGTCGTGAAT
Statistics
Matches: 81, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
64 4 0.05
65 29 0.36
66 3 0.04
67 5 0.06
69 7 0.09
71 28 0.35
72 5 0.06
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (64 bp):
TACAAGTTTCTTGAGCTGAACTTAATGTATGAATTTTATATACATATAAGGTTCGAATATTAGT
Found at i:19405293 original size:41 final size:41
Alignment explanation
Indices: 19405243--19405339 Score: 140
Period size: 41 Copynumber: 2.4 Consensus size: 41
19405233 GGCTTTGTGC
* *
19405243 CTAGCAGGCTTAATGCCAGTGAAATATTTCAAACTTTACTT
1 CTAGCAGGCTTAATGCCAGTGAAATATTTCAAACCTTACGT
* * *
19405284 CTAGTAGGCTTAATGCCGGTGAAATATTTCAGACCTTACGT
1 CTAGCAGGCTTAATGCCAGTGAAATATTTCAAACCTTACGT
*
19405325 CTAGCAGGTTTAATG
1 CTAGCAGGCTTAATG
19405340 TAGGTGTATT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.33
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCAGTGAAATATTTCAAACCTTACGT
Found at i:19407389 original size:330 final size:330
Alignment explanation
Indices: 19406788--19407447 Score: 1320
Period size: 330 Copynumber: 2.0 Consensus size: 330
19406778 GTGAATTGTT
19406788 TGAATTCTTGAATTCTAATGAATGTTTGTTCTGAGTTGTGTTATGTTCGGTAATGCCTCGTAACC
1 TGAATTCTTGAATTCTAATGAATGTTTGTTCTGAGTTGTGTTATGTTCGGTAATGCCTCGTAACC
19406853 TTAATCGGGCGATGGATACAGGTTAAAGGTGTTACACTTTGGATGAGAGGCAACAAAGCACAAAT
66 TTAATCGGGCGATGGATACAGGTTAAAGGTGTTACACTTTGGATGAGAGGCAACAAAGCACAAAT
19406918 GAGCCAACACTAACAAAGATCTCCTACTCTATTGTTTTTTAAGTATATCTTAATTAAATTTTATA
131 GAGCCAACACTAACAAAGATCTCCTACTCTATTGTTTTTTAAGTATATCTTAATTAAATTTTATA
19406983 AATTAGTAATAGCAAAATATAAATGTTTATTAAATACAATTATAATTAAATCATAATTTCTTGCA
196 AATTAGTAATAGCAAAATATAAATGTTTATTAAATACAATTATAATTAAATCATAATTTCTTGCA
19407048 CAAATCTAAATAAAATTTTAAAAAATTACACATTAATTCAAAATCTTTTCATATATATATATATT
261 CAAATCTAAATAAAATTTTAAAAAATTACACATTAATTCAAAATCTTTTCATATATATATATATT
19407113 TAAAA
326 TAAAA
19407118 TGAATTCTTGAATTCTAATGAATGTTTGTTCTGAGTTGTGTTATGTTCGGTAATGCCTCGTAACC
1 TGAATTCTTGAATTCTAATGAATGTTTGTTCTGAGTTGTGTTATGTTCGGTAATGCCTCGTAACC
19407183 TTAATCGGGCGATGGATACAGGTTAAAGGTGTTACACTTTGGATGAGAGGCAACAAAGCACAAAT
66 TTAATCGGGCGATGGATACAGGTTAAAGGTGTTACACTTTGGATGAGAGGCAACAAAGCACAAAT
19407248 GAGCCAACACTAACAAAGATCTCCTACTCTATTGTTTTTTAAGTATATCTTAATTAAATTTTATA
131 GAGCCAACACTAACAAAGATCTCCTACTCTATTGTTTTTTAAGTATATCTTAATTAAATTTTATA
19407313 AATTAGTAATAGCAAAATATAAATGTTTATTAAATACAATTATAATTAAATCATAATTTCTTGCA
196 AATTAGTAATAGCAAAATATAAATGTTTATTAAATACAATTATAATTAAATCATAATTTCTTGCA
19407378 CAAATCTAAATAAAATTTTAAAAAATTACACATTAATTCAAAATCTTTTCATATATATATATATT
261 CAAATCTAAATAAAATTTTAAAAAATTACACATTAATTCAAAATCTTTTCATATATATATATATT
19407443 TAAAA
326 TAAAA
19407448 CTCATATATA
Statistics
Matches: 330, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
330 330 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.37
Consensus pattern (330 bp):
TGAATTCTTGAATTCTAATGAATGTTTGTTCTGAGTTGTGTTATGTTCGGTAATGCCTCGTAACC
TTAATCGGGCGATGGATACAGGTTAAAGGTGTTACACTTTGGATGAGAGGCAACAAAGCACAAAT
GAGCCAACACTAACAAAGATCTCCTACTCTATTGTTTTTTAAGTATATCTTAATTAAATTTTATA
AATTAGTAATAGCAAAATATAAATGTTTATTAAATACAATTATAATTAAATCATAATTTCTTGCA
CAAATCTAAATAAAATTTTAAAAAATTACACATTAATTCAAAATCTTTTCATATATATATATATT
TAAAA
Found at i:19407717 original size:49 final size:49
Alignment explanation
Indices: 19407638--19407735 Score: 151
Period size: 49 Copynumber: 2.0 Consensus size: 49
19407628 CAATATGAGA
* *
19407638 ATGACAAATTAGATATTTTCTCCTAGTTTTTAGCATTTTTAGTTAAATT
1 ATGACAAATCAGATATTTTCTCCTAATTTTTAGCATTTTTAGTTAAATT
* * *
19407687 ATGACAAATCAGATATTTTTTCTTAATTTTTAGTATTTTTAGTTAAATT
1 ATGACAAATCAGATATTTTCTCCTAATTTTTAGCATTTTTAGTTAAATT
19407736 TGAATTTTTC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.51
Consensus pattern (49 bp):
ATGACAAATCAGATATTTTCTCCTAATTTTTAGCATTTTTAGTTAAATT
Found at i:19410215 original size:15 final size:16
Alignment explanation
Indices: 19410195--19410234 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
19410185 TTGCTGCTGG
19410195 GCTGGGCTGCCT-GCT
1 GCTGGGCTGCCTGGCT
19410210 GCTGGGCTG-CTGGCT
1 GCTGGGCTGCCTGGCT
*
19410225 GATGGGCTGC
1 GCTGGGCTGC
19410235 TAGCTGTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 2 0.09
15 20 0.91
ACGTcount: A:0.03, C:0.28, G:0.45, T:0.25
Consensus pattern (16 bp):
GCTGGGCTGCCTGGCT
Found at i:19410235 original size:15 final size:14
Alignment explanation
Indices: 19410197--19410246 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
19410187 GCTGCTGGGC
*
19410197 TGGGCTGCCTGCTGC
1 TGGGCTG-CTGCTGA
19410212 TGGGCTGCTGGCTGA
1 TGGGCTGCT-GCTGA
*
19410227 TGGGCTGCTAGCTGT
1 TGGGCTGCT-GCTGA
19410242 TGGGC
1 TGGGC
19410247 CAAGTGCTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
14 2 0.06
15 29 0.94
ACGTcount: A:0.04, C:0.24, G:0.44, T:0.28
Consensus pattern (14 bp):
TGGGCTGCTGCTGA
Found at i:19411052 original size:30 final size:30
Alignment explanation
Indices: 19410884--19411042 Score: 171
Period size: 29 Copynumber: 5.4 Consensus size: 30
19410874 ACTTTGGTGC
* *
19410884 CAAAGTGTAATTTTTGGAAAATTT-AGGGT
1 CAAAATGTAATTTTAGGAAAATTTAAGGGT
* * * * *
19410913 TAAAATATAGTTTTAAG-AAGTTTAAGGGT
1 CAAAATGTAATTTTAGGAAAATTTAAGGGT
* * *
19410942 CAAAATATAATTTTAGGAAATTTTAAAGGT
1 CAAAATGTAATTTTAGGAAAATTTAAGGGT
* *
19410972 CAAAATGTGATTTTAGGAAAGTTTAAGGGT
1 CAAAATGTAATTTTAGGAAAATTTAAGGGT
* *
19411002 TAAAA-GTAATTTTAGGAAAATTTAGGGGT
1 CAAAATGTAATTTTAGGAAAATTTAAGGGT
19411031 CAAAATGTAATT
1 CAAAATGTAATT
19411043 ATAAAAAAAT
Statistics
Matches: 106, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
28 5 0.05
29 55 0.52
30 46 0.43
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.36
Consensus pattern (30 bp):
CAAAATGTAATTTTAGGAAAATTTAAGGGT
Done.