Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 45 of 73
Found at i:10799747 original size:23 final size:23
Alignment explanation
Indices: 10799721--10799765 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
10799711 TACTTTAAAT
10799721 AAATT-AAACAACATACAATGATC
1 AAATTAAAACAAC-TACAATGATC
*
10799744 AAATTAAAACAACTATAATGAT
1 AAATTAAAACAACTACAATGAT
10799766 ATATATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.58, C:0.13, G:0.04, T:0.24
Consensus pattern (23 bp):
AAATTAAAACAACTACAATGATC
Found at i:10799885 original size:12 final size:12
Alignment explanation
Indices: 10799870--10799905 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
10799860 TATACTTTTA
10799870 TATATATATAAG
1 TATATATATAAG
*
10799882 TATATACATAAG
1 TATATATATAAG
*
10799894 TATATCTATAAG
1 TATATATATAAG
10799906 CGTATTTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (12 bp):
TATATATATAAG
Found at i:10805051 original size:14 final size:14
Alignment explanation
Indices: 10805032--10805060 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10805022 GTATAATAGA
10805032 GGAATCATATACTT
1 GGAATCATATACTT
10805046 GGAATCATATACTT
1 GGAATCATATACTT
10805060 G
1 G
10805061 TAAATGAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (14 bp):
GGAATCATATACTT
Found at i:10805155 original size:18 final size:18
Alignment explanation
Indices: 10805128--10805163 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10805118 ACTTGTGTAA
*
10805128 ATTTTGAGGATGAAATTT
1 ATTTTAAGGATGAAATTT
10805146 ATTTTAAGGATGAAATTT
1 ATTTTAAGGATGAAATTT
10805164 CTGTCATACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.19, T:0.44
Consensus pattern (18 bp):
ATTTTAAGGATGAAATTT
Found at i:10815845 original size:96 final size:96
Alignment explanation
Indices: 10815720--10815915 Score: 250
Period size: 96 Copynumber: 2.0 Consensus size: 96
10815710 ACCAATGATT
* * * * *
10815720 TACTAGTTTATGAACTATGTTTACATGAAATATGTTCTCTGGTTACCTATTTTCACTGTAAAATA
1 TACTAGTTTATAAACTATGGTTACATGAAATATGTTATCTGGTTACATATTTTCACTGGAAAATA
* *
10815785 TCA-CTGTTCCTGATTTATGGATCATGGAATC
66 TCATC-GATCCTGATTTATGGATCATGAAATC
* * * * *
10815816 TACTAGTTTATAAACTATGGTTACCTGAAATGTGTTATTTGGTTTCATGTTTTCACTGGAAAATA
1 TACTAGTTTATAAACTATGGTTACATGAAATATGTTATCTGGTTACATATTTTCACTGGAAAATA
* *
10815881 TGATCGATCCTGATTTATGGATCATGAAATT
66 TCATCGATCCTGATTTATGGATCATGAAATC
10815912 TACT
1 TACT
10815916 GGTTACTACT
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
96 84 0.99
97 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.42
Consensus pattern (96 bp):
TACTAGTTTATAAACTATGGTTACATGAAATATGTTATCTGGTTACATATTTTCACTGGAAAATA
TCATCGATCCTGATTTATGGATCATGAAATC
Found at i:10817978 original size:12 final size:12
Alignment explanation
Indices: 10817961--10817986 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10817951 CGAAGATCAT
10817961 TAATTTTCTATG
1 TAATTTTCTATG
10817973 TAATTTTCTATG
1 TAATTTTCTATG
10817985 TA
1 TA
10817987 TATTGGTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.58
Consensus pattern (12 bp):
TAATTTTCTATG
Found at i:10823940 original size:261 final size:257
Alignment explanation
Indices: 10823356--10823964 Score: 969
Period size: 261 Copynumber: 2.4 Consensus size: 257
10823346 TTCATATATC
10823356 GAATAAAAATATTTTTTTATTATTTCGGGT-C---GGGTTTCTAATTCATATATTCGGGTCGGGT
1 GAATAAAAATATTTTTTTATTATTTCGGGTCCGGTGGGTTTCTAATTCATATATTCGGGTCGGGT
* * *
10823417 CGGGTTAAACTTTATTCTGGTCGGGTCGGATCGGTTTTTTTAAGTGTGATATTCGGGTCGGGTCG
66 CGGGTGAAACTTTATTTTGGTCGGGTCGGATCGGTTTTTTTAAGTGTGATATTCGGGTCGGATCG
* *
10823482 AGTTCAGGTTTAGGGTGAAAAATACCCGACCCGAAAATATATATAATTTTACCTTATATATTTAG
131 AGTTCAGGTTTAGGGTGAAAAATACCCGACCCGAAAAAATAAATAATTTTACCTTATATATTTAG
*
10823547 GAATAATTACAATAATACCCCTCTATATATAATTTTTTTTCAATTAAGTCACTATTTTTATT
196 GAATAATTACAATAATACCCCTCTATATATAATTTTTTCTCAATTAAGTCACTATTTTTATT
* * *
10823609 GAATAAAAATATTTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGTTGGG
1 GAATAAAAATATTTTTTTATTATTTCGGGTCCGGT-GGGTTTCTAATTCATATATTCGGGTCGGG
* *
10823674 TCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGTTGTTTTTAAGTGTGATATTCGGTTCGGAT
65 TCGGGTGAAACTTTATTTTGGTCGGGTCGGATCGGTT-TTTTTAAGTGTGATATTCGGGTCGGAT
* *
10823739 CGGGTTCGGGTTTAGGGTGAAAAATACCCGACCCGACCCAAAAAATAAATAATTTTACCTTATAT
129 CGAGTTCAGGTTTAGGGTGAAAAATACCCGACCCG----AAAAAATAAATAATTTTACCTTATAT
* *
10823804 ATTTAGGAATAATTACAATAATACCCCTCTATATAT-ATTTTTTCT-ATTTAAGTCACTGTTTTT
190 ATTTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTCTCAATTAAGTCACTATTTTT
10823867 ATT
255 ATT
*
10823870 GAATAAAAATATTTTTTTATTATTTCGGGTCCGGTAGGGTTTCTAATTCATATATTCGGGTCGAG
1 GAATAAAAATATTTTTTTATTATTTCGGGTCCGGT-GGGTTTCTAATTCATATATTCGGGTCGGG
10823935 TCGGGTGAAACTTTATTTTGGTCGGGTCGG
65 TCGGGTGAAACTTTATTTTGGTCGGGTCGG
10823965 TCTCGGATGG
Statistics
Matches: 326, Mismatches: 20, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
253 30 0.09
258 61 0.19
259 58 0.18
261 109 0.33
262 8 0.02
263 60 0.18
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (257 bp):
GAATAAAAATATTTTTTTATTATTTCGGGTCCGGTGGGTTTCTAATTCATATATTCGGGTCGGGT
CGGGTGAAACTTTATTTTGGTCGGGTCGGATCGGTTTTTTTAAGTGTGATATTCGGGTCGGATCG
AGTTCAGGTTTAGGGTGAAAAATACCCGACCCGAAAAAATAAATAATTTTACCTTATATATTTAG
GAATAATTACAATAATACCCCTCTATATATAATTTTTTCTCAATTAAGTCACTATTTTTATT
Found at i:10824320 original size:44 final size:44
Alignment explanation
Indices: 10824266--10824391 Score: 207
Period size: 44 Copynumber: 2.9 Consensus size: 44
10824256 TCTGACATGT
* *
10824266 CTGCGAACCAAACAGAATATGAAATTGGATTCCAATTCAATTTC
1 CTGCCAACCAAACAGAATATGGAATTGGATTCCAATTCAATTTC
10824310 CTGCCAACCAAACAGAATATGGAATTGGATTCCAATTCAATTTC
1 CTGCCAACCAAACAGAATATGGAATTGGATTCCAATTCAATTTC
* * *
10824354 CTTCCAACCAAACAGAATATGGAATTAGATTTCAATTC
1 CTGCCAACCAAACAGAATATGGAATTGGATTCCAATTC
10824392 CTGACAGATT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 77 1.00
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (44 bp):
CTGCCAACCAAACAGAATATGGAATTGGATTCCAATTCAATTTC
Found at i:10824406 original size:17 final size:18
Alignment explanation
Indices: 10824380--10824427 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
10824370 ATATGGAATT
*
10824380 AGATTTCAATTCC-TGAC
1 AGATTTCAATTCCTTCAC
*
10824397 AGATTCCAATTCCTTCAC
1 AGATTTCAATTCCTTCAC
10824415 AGATTTCAATTCC
1 AGATTTCAATTCC
10824428 CTCATAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.35
Consensus pattern (18 bp):
AGATTTCAATTCCTTCAC
Found at i:10825685 original size:14 final size:13
Alignment explanation
Indices: 10825658--10825699 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
10825648 ATATTCAATA
10825658 AATAAATT-ATTT
1 AATAAATTAATTT
10825670 AATGAAATTAATTT
1 AAT-AAATTAATTT
*
10825684 AATAATTATAATTT
1 AATAAAT-TAATTT
10825698 AA
1 AA
10825700 ATTTATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 3 0.12
13 8 0.31
14 15 0.58
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (13 bp):
AATAAATTAATTT
Found at i:10826583 original size:2 final size:2
Alignment explanation
Indices: 10826574--10826649 Score: 145
Period size: 2 Copynumber: 38.5 Consensus size: 2
10826564 AAAAATTAAA
10826574 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10826615 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10826650 ATGATAAAAA
Statistics
Matches: 73, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 72 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10827165 original size:19 final size:19
Alignment explanation
Indices: 10827141--10827178 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
10827131 TTTATTTTTA
10827141 TTAAATAAAAATAATATTT
1 TTAAATAAAAATAATATTT
* *
10827160 TTAAATAAATATATTATTT
1 TTAAATAAAAATAATATTT
10827179 CGGGTCGGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTAAATAAAAATAATATTT
Found at i:10827743 original size:21 final size:21
Alignment explanation
Indices: 10827717--10827862 Score: 159
Period size: 21 Copynumber: 6.9 Consensus size: 21
10827707 AGGGTGTCAA
10827717 AGTGCATCCATGCACTCCTGC
1 AGTGCATCCATGCACTCCTGC
*
10827738 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACTCCTGC
*
10827759 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACTCCTGC
* * *
10827780 AGTGCATTCATGAACCCCTGC
1 AGTGCATCCATGCACTCCTGC
* *
10827801 AGTGAATCCATGCAACTGCC-AC
1 AGTGCATCCATGC-ACT-CCTGC
* * * *
10827823 TAGTGCATCCATGCATTGCAGG
1 -AGTGCATCCATGCACTCCTGC
10827845 AGTGCATCCATGCACTCC
1 AGTGCATCCATGCACTCC
10827863 ATTTCGAATG
Statistics
Matches: 106, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
21 87 0.82
22 5 0.05
23 14 0.13
ACGTcount: A:0.23, C:0.36, G:0.20, T:0.22
Consensus pattern (21 bp):
AGTGCATCCATGCACTCCTGC
Found at i:10830216 original size:12 final size:12
Alignment explanation
Indices: 10830199--10830236 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
10830189 GGGGGAGCTT
10830199 TGATTTTTCAAA
1 TGATTTTTCAAA
10830211 TGATTTTTCAAA
1 TGATTTTTCAAA
* *
10830223 TGAGTTTTAAAA
1 TGATTTTTCAAA
10830235 TG
1 TG
10830237 TCAAATTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.47
Consensus pattern (12 bp):
TGATTTTTCAAA
Found at i:10830416 original size:21 final size:21
Alignment explanation
Indices: 10830390--10830429 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10830380 AAACAATTGG
10830390 TAACAATTGATATCATTTTGT
1 TAACAATTGATATCATTTTGT
* *
10830411 TAACAATTGGTATCTTTTT
1 TAACAATTGATATCATTTT
10830430 CATTAAACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (21 bp):
TAACAATTGATATCATTTTGT
Found at i:10830677 original size:21 final size:21
Alignment explanation
Indices: 10830651--10830734 Score: 114
Period size: 21 Copynumber: 3.9 Consensus size: 21
10830641 AGGGTGTCAA
*
10830651 AGTGCATCCATGCACTCCTGT
1 AGTGCATCCATGCACTCCAGT
*
10830672 AGTGCATCCATGCAACTGCCACT
1 AGTGCATCCATGC-ACT-CCAGT
* *
10830695 AGTGCATCCATGCACTGCAGG
1 AGTGCATCCATGCACTCCAGT
10830716 AGTGCATCCATGCACTCCA
1 AGTGCATCCATGCACTCCA
10830735 TTTCGAATGC
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
21 33 0.60
22 6 0.11
23 16 0.29
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (21 bp):
AGTGCATCCATGCACTCCAGT
Found at i:10837877 original size:3 final size:3
Alignment explanation
Indices: 10837871--10837897 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
10837861 ATTATATACT
10837871 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
10837898 TTATTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10837902 original size:3 final size:3
Alignment explanation
Indices: 10837896--10837921 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10837886 ATAATAATAA
10837896 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
10837922 CTAATATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:10845299 original size:90 final size:90
Alignment explanation
Indices: 10845154--10845323 Score: 252
Period size: 90 Copynumber: 1.9 Consensus size: 90
10845144 TATATTATTA
* *
10845154 TATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAATAGCCCCGGCTTTATGGATA
1 TATATACAATAAAGATTGAGATGTCCCTCTAAAGCAATTGGTTAATAGCCCCGGCTTTATGGATA
*
10845219 A-TATTCAGCTAGCTTATTATACTAT
66 AGT-TTCAACTAGCTTATTATACTAT
* * * **
10845244 TATATGCAATAAAGATTTAGATGTCCCTCTAAATCAATTGGTTAATAGCTTCGGCTTTATGGATA
1 TATATACAATAAAGATTGAGATGTCCCTCTAAAGCAATTGGTTAATAGCCCCGGCTTTATGGATA
10845309 AGTTTCAACTAGCTT
66 AGTTTCAACTAGCTT
10845324 GATAAAGGTG
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
90 70 0.99
91 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.36
Consensus pattern (90 bp):
TATATACAATAAAGATTGAGATGTCCCTCTAAAGCAATTGGTTAATAGCCCCGGCTTTATGGATA
AGTTTCAACTAGCTTATTATACTAT
Found at i:10847940 original size:40 final size:40
Alignment explanation
Indices: 10847896--10848373 Score: 681
Period size: 40 Copynumber: 12.0 Consensus size: 40
10847886 ATTTCATTTG
* * *
10847896 ACTCAAGATTGTTTTTCTTTGAAAAAAAAGATTTTATCTC
1 ACTCAAGATTGTTTTTCCTTGAAACAGAAGATTTTATCTC
**
10847936 ACTCAAGATCATTTTTCCTTGAAACAGAAGATTTTATCTC
1 ACTCAAGATTGTTTTTCCTTGAAACAGAAGATTTTATCTC
*
10847976 ACTCAAGATTGTTTTTCCTTGAAACAAAAGATTTTATCTC
1 ACTCAAGATTGTTTTTCCTTGAAACAGAAGATTTTATCTC
*
10848016 ACTCAAGATTG-TTTTCCTTGAAAAAGAAGATTTTATCTC
1 ACTCAAGATTGTTTTTCCTTGAAACAGAAGATTTTATCTC
* *
10848055 ATTCAAGATTGTTTTTCCTTGAAACAGAATATTTTATCTC
1 ACTCAAGATTGTTTTTCCTTGAAACAGAAGATTTTATCTC
*
10848095 ACTCAAGATTGGTTTTCCTTGAAACAGAAGATTTTATCTC
1 ACTCAAGATTGTTTTTCCTTGAAACAGAAGATTTTATCTC
*
10848135 ACTCAAGATTGTTTTTCCTTGAAATAGAAGATTTTATCTC
1 ACTCAAGATTGTTTTTCCTTGAAACAGAAGATTTTATCTC
** **
10848175 ACTCAAGATTGTTTTTCCTTGAAATTGAAGGCTTTATCTC
1 ACTCAAGATTGTTTTTCCTTGAAACAGAAGATTTTATCTC
* *
10848215 ATTCAAGATTGTTTTTCCTTGAAACAAAAGATTTTATCTC
1 ACTCAAGATTGTTTTTCCTTGAAACAGAAGATTTTATCTC
10848255 ACTCAAGATTGTTTTTCCTTGAAACAGAAGATTTTATCTC
1 ACTCAAGATTGTTTTTCCTTGAAACAGAAGATTTTATCTC
** * * *
10848295 GTTCAAGATTGGTTTTCCTTGAAACAAAAGATTTTATGTC
1 ACTCAAGATTGTTTTTCCTTGAAACAGAAGATTTTATCTC
* ** * * * *
10848335 GCTTGAGATAG-TTTCCCTCGAAACAAAAGATTTTATCTC
1 ACTCAAGATTGTTTTTCCTTGAAACAGAAGATTTTATCTC
10848374 GCTTGAGATA
Statistics
Matches: 396, Mismatches: 41, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
39 61 0.15
40 335 0.85
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (40 bp):
ACTCAAGATTGTTTTTCCTTGAAACAGAAGATTTTATCTC
Found at i:10848423 original size:36 final size:37
Alignment explanation
Indices: 10848306--10848480 Score: 172
Period size: 39 Copynumber: 4.6 Consensus size: 37
10848296 TTCAAGATTG
* * * * *
10848306 GTTTTCCTTGAAACAAAAGATTTTATGTCGCTTGAGATA
1 GTTTCCCTTGAAAC-AAA-ATTTTGTCTCCCTTGAGACA
* * * *
10848345 GTTTCCCTCGAAACAAAAGATTTTATCTCGCTTGAGATA
1 GTTTCCCTTGAAAC-AAA-ATTTTGTCTCCCTTGAGACA
*
10848384 GTTTCCCTTGAAAC-AAATTTTGTCTCCCTTGCGACA
1 GTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACA
* *
10848420 GTTTCTCTTGAAACAAAACTTTGTCTCCCTTGAGACA
1 GTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACA
* *
10848457 GTTTCTCTTGAAACATAAACTTTG
1 GTTTCCCTTGAAACA-AAATTTTG
10848481 AAAACGTTTC
Statistics
Matches: 123, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
36 29 0.24
37 37 0.30
38 8 0.07
39 49 0.40
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.37
Consensus pattern (37 bp):
GTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACA
Found at i:10848457 original size:37 final size:37
Alignment explanation
Indices: 10848336--10848480 Score: 166
Period size: 37 Copynumber: 3.9 Consensus size: 37
10848326 TTTTATGTCG
* * * * *
10848336 CTTGAGATAGTTTCCCTCGAAACAAAAGATTTTATCTCG
1 CTTGAGACAGTTTCCCTTGAAAC-AAA-ACTTTGTCTCC
* *
10848375 CTTGAGATAGTTTCCCTTGAAAC-AAATTTTGTCTCC
1 CTTGAGACAGTTTCCCTTGAAACAAAACTTTGTCTCC
* *
10848411 CTTGCGACAGTTTCTCTTGAAACAAAACTTTGTCTCC
1 CTTGAGACAGTTTCCCTTGAAACAAAACTTTGTCTCC
*
10848448 CTTGAGACAGTTTCTCTTGAAACATAAACTTTG
1 CTTGAGACAGTTTCCCTTGAAACA-AAACTTTG
10848481 AAAACGTTTC
Statistics
Matches: 96, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
36 29 0.30
37 37 0.39
38 8 0.08
39 22 0.23
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (37 bp):
CTTGAGACAGTTTCCCTTGAAACAAAACTTTGTCTCC
Found at i:10848516 original size:21 final size:20
Alignment explanation
Indices: 10848491--10848553 Score: 64
Period size: 21 Copynumber: 3.3 Consensus size: 20
10848481 AAAACGTTTC
10848491 CCTTGAAACAAATTTTGTCT
1 CCTTGAAACAAATTTTGTCT
*
10848511 CTCTTGAGAC--A-TTT-TC-
1 C-CTTGAAACAAATTTTGTCT
10848527 CCTTGAAACAAATTTTGTCT
1 CCTTGAAACAAATTTTGTCT
10848547 CCCTTGA
1 -CCTTGA
10848554 GATAGTTTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 13
0.69 0.04 0.27
Matches are distributed among these distances:
15 7 0.21
16 1 0.03
17 3 0.09
18 6 0.18
19 3 0.09
20 1 0.03
21 13 0.38
ACGTcount: A:0.25, C:0.24, G:0.11, T:0.40
Consensus pattern (20 bp):
CCTTGAAACAAATTTTGTCT
Found at i:10848534 original size:36 final size:36
Alignment explanation
Indices: 10848486--10848644 Score: 161
Period size: 36 Copynumber: 4.6 Consensus size: 36
10848476 CTTTGAAAAC
*
10848486 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACA
* *
10848522 TTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATA
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACA
* **
10848558 GTTTCTCTTGAAACAAA-AAT-T-T---TTGAGAACA
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAG-ACA
* *
10848589 -TTTCCCTTGAAACGAGTTTTGTCTCCCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACA
* * *
10848624 GGTTCTCTTGAAACAAGTTTT
1 GTTTCCCTTGAAACAAATTTT
10848645 TGAGACAATT
Statistics
Matches: 99, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
30 18 0.18
31 3 0.03
32 1 0.01
33 2 0.02
34 1 0.01
35 4 0.04
36 70 0.71
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.39
Consensus pattern (36 bp):
GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACA
Found at i:10848583 original size:102 final size:101
Alignment explanation
Indices: 10848384--10848644 Score: 378
Period size: 102 Copynumber: 2.6 Consensus size: 101
10848374 GCTTGAGATA
* *
10848384 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGCGACAGTTTCTCTTGAAACAAAACTTTGTCTCCC
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AAATTTTGTCTCCC
*
10848449 TTGAGACAGTTTCTCTTGAAACATAAACTTTGAAAAC
65 TTGAGACAGTTTCTCTTGAAACAAAAACTTTGAAAAC
* * *
10848486 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACATTTTCCCTTGAAACAAATTTTGTCTCCCT
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCCCT
* * *
10848551 TGAGATAGTTTCTCTTGAAACAAAAATTTTTGAGAAC
66 TGAGACAGTTTCTCTTGAAACAAAAA-CTTTGAAAAC
* * * * *
10848588 ATTTCCCTTGAAACGAGTTTTGTCTCCCTTGAGACAGGTTCTCTTGAAACAAGTTTT
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTT
10848645 TGAGACAATT
Statistics
Matches: 141, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
101 38 0.27
102 103 0.73
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (101 bp):
GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCCCT
TGAGACAGTTTCTCTTGAAACAAAAACTTTGAAAAC
Found at i:10848593 original size:66 final size:63
Alignment explanation
Indices: 10848514--10848682 Score: 221
Period size: 66 Copynumber: 2.6 Consensus size: 63
10848504 TTTGTCTCTC
* *
10848514 TTGAGACATTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACAAAAATT
1 TTGAGACA-TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGGTTCTCTTGAAAC--AAATT
10848579 T
63 T
* * *
10848580 TTGAGAACATTTCCCTTGAAACGAGTTTTGTCTCCCTTGAGACAGGTTCTCTTGAAACAAGTTT
1 TTGAG-ACATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGGTTCTCTTGAAACAAATTT
* *
10848644 TTGAGACAATTTCTCTTGAAACAAAGTTGTGTCTCCCTT
1 TTGAGAC-ATTTCCCTTGAAACAAA-TTTTGTCTCCCTT
10848683 AAAATGGTTG
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
63 2 0.02
64 24 0.26
65 12 0.13
66 50 0.55
67 3 0.03
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (63 bp):
TTGAGACATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGGTTCTCTTGAAACAAATTT
Found at i:10848667 original size:15 final size:15
Alignment explanation
Indices: 10848615--10848667 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
10848605 TTTTGTCTCC
* *
10848615 CTTGAGACAGGTTCT
1 CTTGAAACAAGTTCT
10848630 CTTGAAACAAGTT-T
1 CTTGAAACAAGTTCT
* *
10848644 -TTGAGACAATTTCT
1 CTTGAAACAAGTTCT
10848658 CTTGAAACAA
1 CTTGAAACAA
10848668 AGTTGTGTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
13 10 0.32
14 2 0.06
15 19 0.61
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (15 bp):
CTTGAAACAAGTTCT
Found at i:10848798 original size:74 final size:73
Alignment explanation
Indices: 10848644--10848809 Score: 206
Period size: 74 Copynumber: 2.3 Consensus size: 73
10848634 AAACAAGTTT
*
10848644 TTGAGACAATTTCTCTTGAAACAAAGTTGTGTCTCCCTTAAAATGGTTGTTCTTAAAATCAACTA
1 TTGAGACAATTTCTCTTGAAACAAAGTTGTGTCTCCCTTAAAATGGTTGTTCTTAAAACCAACTA
10848709 CATCTCGC
66 CATCTCGC
* * * * * * *
10848717 TTAAGACAGTTTTCTCTTGAAACAAAGTTTTGTCTCCCTTGAGATGGTTTTTCTTAAAACCTACT
1 TTGAGACA-ATTTCTCTTGAAACAAAGTTGTGTCTCCCTTAAAATGGTTGTTCTTAAAACCAACT
* * *
10848782 TCTTCTTGC
65 ACATCTCGC
* *
10848791 TTGAGACAATCTCCCTTGA
1 TTGAGACAATTTCTCTTGA
10848810 GATAGTCTCG
Statistics
Matches: 77, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
73 15 0.19
74 62 0.81
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.39
Consensus pattern (73 bp):
TTGAGACAATTTCTCTTGAAACAAAGTTGTGTCTCCCTTAAAATGGTTGTTCTTAAAACCAACTA
CATCTCGC
Found at i:10848810 original size:15 final size:15
Alignment explanation
Indices: 10848790--10848830 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
10848780 CTTCTTCTTG
10848790 CTTGAGACAATCTCC
1 CTTGAGACAATCTCC
* * *
10848805 CTTGAGATAGTCTCG
1 CTTGAGACAATCTCC
10848820 CTTGAGACAAT
1 CTTGAGACAAT
10848831 TTTCATTTGA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (15 bp):
CTTGAGACAATCTCC
Found at i:10848936 original size:61 final size:61
Alignment explanation
Indices: 10848820--10848940 Score: 163
Period size: 61 Copynumber: 2.0 Consensus size: 61
10848810 GATAGTCTCG
** * * *
10848820 CTTGAGACAATTTTCATTTGAAACAAAATTTATCTCACTTGAGATGGTTTTTCTTAAAACC
1 CTTGAGACAATTTTCATTCAAAACAAAATTTATCTCACTCGAGATGGCTTCTCTTAAAACC
* *
10848881 CTTGAGACAATTTTCCTTCAAAATAAAATTTATCTCACTCGAGA-GAGCTTCTCTTAAAAC
1 CTTGAGACAATTTTCATTCAAAACAAAATTTATCTCACTCGAGATG-GCTTCTCTTAAAAC
10848941 AAGTTTCTTA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
60 1 0.02
61 51 0.98
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (61 bp):
CTTGAGACAATTTTCATTCAAAACAAAATTTATCTCACTCGAGATGGCTTCTCTTAAAACC
Found at i:10849416 original size:91 final size:90
Alignment explanation
Indices: 10849306--10849470 Score: 224
Period size: 91 Copynumber: 1.8 Consensus size: 90
10849296 GAATCAACAT
* * *
10849306 TTTCAGTGAAGAGTTCATAATGAGAAGAAATCT-TCCAACGATAGAGAAGAAGTTCATAATAAGA
1 TTTCAGTGAAGAGTTCATAATGAGAAGAAAT-TATCCAACAAGAGAGAAAAAGTTCATAATAAGA
10849370 AGAACTTGTTCGATCTCATATCAATG
65 AGAACTTGTTCGATCTCATATCAATG
* * * * *
10849396 TTTCTAGTGGAGAGTTCATAATGAGAAGAACTTATCCGACAAGGGAGAAAAAGTTCATAATGAGA
1 TTTC-AGTGAAGAGTTCATAATGAGAAGAAATTATCCAACAAGAGAGAAAAAGTTCATAATAAGA
*
10849461 AGAGCTTGTT
65 AGAACTTGTT
10849471 TGACATATCA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
90 5 0.08
91 59 0.92
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (90 bp):
TTTCAGTGAAGAGTTCATAATGAGAAGAAATTATCCAACAAGAGAGAAAAAGTTCATAATAAGAA
GAACTTGTTCGATCTCATATCAATG
Found at i:10849743 original size:91 final size:92
Alignment explanation
Indices: 10849629--10849803 Score: 298
Period size: 91 Copynumber: 1.9 Consensus size: 92
10849619 AAAGAGATGG
* *
10849629 ATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCC-AACGAGGAAGAAGAAGTTCA
1 ATCAACATTTCCAATGGAGAGTTCATAATGAAAAGAACTCATCCGAAAGAGGAAGAAGAAGTTCA
10849693 TAATGAGAAGAACTTGTTCAACTTCGC
66 TAATGAGAAGAACTTGTTCAACTTCGC
* *
10849720 ATCAACATTTTCAATGGAGAGTTCATAATGAAAAGAACTCATCCGAAAGAGGAAGAAGAAGTTCT
1 ATCAACATTTCCAATGGAGAGTTCATAATGAAAAGAACTCATCCGAAAGAGGAAGAAGAAGTTCA
*
10849785 TAATGAGAAGAGCTTGTTC
66 TAATGAGAAGAACTTGTTC
10849804 GACCTATCAC
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
91 42 0.54
92 36 0.46
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (92 bp):
ATCAACATTTCCAATGGAGAGTTCATAATGAAAAGAACTCATCCGAAAGAGGAAGAAGAAGTTCA
TAATGAGAAGAACTTGTTCAACTTCGC
Found at i:10849904 original size:332 final size:330
Alignment explanation
Indices: 10849298--10850046 Score: 1107
Period size: 332 Copynumber: 2.3 Consensus size: 330
10849288 CGCTTGAGGA
* *
10849298 ATCAACATTTTCAGTGAAGAGTTCATAATGAGAAGAAATCTTCCAACGATAGAGAAGAAGTTCAT
1 ATCAACATTTTCAGTGAAGAGTTCATAATGAGAAGAAATCATCCAACGAGAGAGAAGAAGTTCAT
* * * * *
10849363 AATAAGAAGAACTTGTTCGATCTCATATCAATGTTTCTAGTGGAGAGTTCATAATGAGAAGAACT
66 AATAAGAAGAACTTGTTCAATCGCATAACAATGTTTCTAATGGAGAGTTCATAATGAAAAGAACT
* *
10849428 TATCCGACAAGGGAGAAAAAGTTCATAATGAGAAGAGCTTGTTTGACATATCACTCGATTCACGA
131 CATCCGACAAGGGAGAAAAAGTTCATAATGAGAAGAGCTTGTTCGACATATCACTCGATTCACGA
* * *
10849493 CATTTTGAATCAGTGACACCTCACTTGAGGGATTGACATTTTCAGAAGAGTTCATAATGAGAAGA
196 CATTTCGAATCAGTGACACCTCACTTGAGGGATTGACATTTCCAAAAGAGTTCATAATGAGAAGA
* * *
10849558 ACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAAGTCCATCATAGAAAG
261 ACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAAGTCCACCACAGAAAA
10849623 AGATGG
326 AGAT-G
* * * *
10849629 ATCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAACGAG-GAAGAAGAAGTTCA
1 ATCAACATTTTCAGTGAAGAGTTCATAATGAGAAGAAATCATCCAACGAGAG-AGAAGAAGTTCA
*
10849693 TAATGAGAAGAACTTGTTCAACTTCGCATCAAC-AT-TTTC-AATGGAGAGTTCATAATGAAAAG
65 TAATAAGAAGAACTTGTTCAA--TCGCAT-AACAATGTTTCTAATGGAGAGTTCATAATGAAAAG
* * *
10849755 AACTCATCCGA-AAGAGGAAGAAGAAGTTCTTAATGAGAAGAGCTTGTTCGACCTATCACTCGAT
127 AACTCATCCGACAAG-GG-AGAAAAAGTTCATAATGAGAAGAGCTTGTTCGACATATCACTCGAT
* *
10849819 TCACGACATTTCGAATCAGTGACGCCTC-GTTCGAGGGATTGACATTTCCAAAAGAGTTCATAAT
190 TCACGACATTTCGAATCAGTGACACCTCACTT-GAGGGATTGACATTTCCAAAAGAGTTCATAAT
*
10849883 GAGAAGAACTCGTCTTAAAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAAGTCCACCA
254 GAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAAGTCCACCA
*
10849948 CAGAAAAAGGTG
319 CAGAAAAAGATG
* *
10849960 ACTCAACATTTTCAGTGAAGAGTTCATAATGAGAAGAATTCATCC-ACAAGAGAGAAGAAGTTCA
1 A-TCAACATTTTCAGTGAAGAGTTCATAATGAGAAGAAATCATCCAACGAGAGAGAAGAAGTTCA
10850024 TAATAAGAAGAACTTGTTCAATC
65 TAATAAGAAGAACTTGTTCAATC
10850047 CAACGTCGAA
Statistics
Matches: 376, Mismatches: 33, Indels: 20
0.88 0.08 0.05
Matches are distributed among these distances:
329 2 0.01
330 4 0.01
331 148 0.39
332 213 0.57
333 7 0.02
334 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (330 bp):
ATCAACATTTTCAGTGAAGAGTTCATAATGAGAAGAAATCATCCAACGAGAGAGAAGAAGTTCAT
AATAAGAAGAACTTGTTCAATCGCATAACAATGTTTCTAATGGAGAGTTCATAATGAAAAGAACT
CATCCGACAAGGGAGAAAAAGTTCATAATGAGAAGAGCTTGTTCGACATATCACTCGATTCACGA
CATTTCGAATCAGTGACACCTCACTTGAGGGATTGACATTTCCAAAAGAGTTCATAATGAGAAGA
ACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAAGTCCACCACAGAAAA
AGATG
Found at i:10852223 original size:2 final size:2
Alignment explanation
Indices: 10852216--10852241 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10852206 ATTTTTAATT
10852216 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
10852242 ATTTTTGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10854432 original size:32 final size:32
Alignment explanation
Indices: 10854339--10854463 Score: 144
Period size: 32 Copynumber: 3.9 Consensus size: 32
10854329 AACCTAAGGG
* * **
10854339 AGTATCTTAGGGCCTGAGAGCCTACCCAAGGG
1 AGTACCTTAGGGCCTTAGAGCCTACCCAAGAA
*
10854371 AGTA-CTTAGGGCCTAAGAGCCTACCCAAGAA
1 AGTACCTTAGGGCCTTAGAGCCTACCCAAGAA
*
10854402 AGTACCTTGGGGCCTTAGAGCCTACCCAAGAA
1 AGTACCTTAGGGCCTTAGAGCCTACCCAAGAA
* * * * *
10854434 AATGCCTTGGGGCCTTATAGCCTGCCCAAG
1 AGTACCTTAGGGCCTTAGAGCCTACCCAAG
10854464 GTCACCTTAG
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
31 28 0.34
32 55 0.66
ACGTcount: A:0.27, C:0.27, G:0.26, T:0.19
Consensus pattern (32 bp):
AGTACCTTAGGGCCTTAGAGCCTACCCAAGAA
Found at i:10858246 original size:23 final size:23
Alignment explanation
Indices: 10858228--10858312 Score: 100
Period size: 23 Copynumber: 3.7 Consensus size: 23
10858218 CTCGTATAAA
*
10858228 TGCACCGAGGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
10858251 TACACCGAAGTGCCAAGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* *
10858274 TGTACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
10858297 TACACC-ATAGTGCCAC
1 TGCACCGA-AGTGCCAC
10858313 ATAAAATGTC
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
22 1 0.02
23 50 0.98
ACGTcount: A:0.31, C:0.26, G:0.25, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:10858335 original size:22 final size:22
Alignment explanation
Indices: 10858309--10858350 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
10858299 CACCATAGTG
10858309 CCACATA-AAATGTCCATAAGGA
1 CCACATACAAAT-TCCATAAGGA
*
10858331 CCACATACAAATTCCTTAAG
1 CCACATACAAATTCCATAAG
10858351 AATCATATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.21
Consensus pattern (22 bp):
CCACATACAAATTCCATAAGGA
Found at i:10864998 original size:19 final size:19
Alignment explanation
Indices: 10864974--10865015 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
10864964 AATGCAATTT
10864974 ACATTACTATGCATATCAC
1 ACATTACTATGCATATCAC
10864993 ACATTACTATGCATATCAC
1 ACATTACTATGCATATCAC
10865012 ACAT
1 ACAT
10865016 AAGCTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (19 bp):
ACATTACTATGCATATCAC
Found at i:10865190 original size:23 final size:23
Alignment explanation
Indices: 10865136--10865195 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
10865126 CACCACAGCT
* * *
10865136 CGTATAAATGCACCGAGGTGCCA
1 CGTATAATTGTACCGAAGTGCCA
* *
10865159 CGTAGAATTGTACCGAAGTGTCA
1 CGTATAATTGTACCGAAGTGCCA
10865182 CGTATAATTGTACC
1 CGTATAATTGTACC
10865196 ATAGTAAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (23 bp):
CGTATAATTGTACCGAAGTGCCA
Found at i:10874220 original size:22 final size:22
Alignment explanation
Indices: 10874195--10874245 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
10874185 GAGTTGACCG
*
10874195 TTGATCAGTCAGACCATTGAA-T
1 TTGACCAGTCAGACCATT-AACT
* *
10874217 TTGACCGGTCTGACCATTAACT
1 TTGACCAGTCAGACCATTAACT
10874239 TTGACCA
1 TTGACCA
10874246 AAAAAGTCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (22 bp):
TTGACCAGTCAGACCATTAACT
Found at i:10882856 original size:21 final size:21
Alignment explanation
Indices: 10882830--10882909 Score: 72
Period size: 21 Copynumber: 3.7 Consensus size: 21
10882820 TTGTGCATAA
10882830 TGCATCGATACACTATGAAGG
1 TGCATCGATACACTATGAAGG
* *
10882851 TGCATCGATGTATCCCTATGAATG
1 TGCATCGA--TA-CACTATGAAGG
* *
10882875 TGCATCGATATA-TCATGAAGA
1 TGCATCGATACACT-ATGAAGG
*
10882896 TGCACCGATACACT
1 TGCATCGATACACT
10882910 CCTTGAATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
20 1 0.02
21 23 0.50
22 3 0.07
23 2 0.04
24 17 0.37
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (21 bp):
TGCATCGATACACTATGAAGG
Found at i:10882877 original size:24 final size:24
Alignment explanation
Indices: 10882842--10882888 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
10882832 CATCGATACA
*
10882842 CTATGAAGGTGCATCGATGTATCC
1 CTATGAAGGTGCATCGATATATCC
*
10882866 CTATGAATGTGCATCGATATATC
1 CTATGAAGGTGCATCGATATATC
10882889 ATGAAGATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (24 bp):
CTATGAAGGTGCATCGATATATCC
Found at i:10884332 original size:15 final size:16
Alignment explanation
Indices: 10884306--10884338 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
10884296 GATTTAACAA
10884306 AAGGGTGAGAAGTGTT
1 AAGGGTGAGAAGTGTT
10884322 AAGGG-GAGAAGTGTT
1 AAGGGTGAGAAGTGTT
10884337 AA
1 AA
10884339 AGTAAGGGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.36, C:0.00, G:0.42, T:0.21
Consensus pattern (16 bp):
AAGGGTGAGAAGTGTT
Found at i:10886549 original size:258 final size:256
Alignment explanation
Indices: 10886086--10886941 Score: 1171
Period size: 258 Copynumber: 3.3 Consensus size: 256
10886076 AGTCAGATCA
* * *
10886086 AATTT-GGAAATAGTTTACTGGGTAAGAAACATTGGTAATCGCTTTCTTGCTTTTTCAAAAATTT
1 AATTTGGGAAATAGTTTACTGGGTAAGAAACTTTGGTAATCACTTTCTTAC-TTTTCAAAAATTT
* * * * * *
10886150 CATTTTCGAAAAACA-TTAATTTAGAAACTTTGGAAATTGTTTTTTCATTTTTTTTCAAATTCAT
65 CATTTTCAAAAAAGATTTAAATGAGAAACTTTGGAAATCG--TTTTC--TTATTTTCAAATTCAT
* * * * ** * *
10886214 ATAAAAACATCCTACCCGAAGGTTTTACGGATGGCCTGAATGACTTATCATTTTTCTCGAAAGAC
126 GTGAAAACATCATACCCGAAGGTCTTACGGATGGCCCAAATGACTTATCATCTTGCTCGAAAGAC
* * *
10886279 TTACAAATGACCCGAAGGATTTAATCATTATGCTCGAAAGACTTACTGATAGCCCGAATGACTTA
191 TTACAAATGACCCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATAGCCCGAAGGACTTA
10886344 C
256 C
* * *
10886345 GAATTTGGGAAATAGTTTACTGGATAAGAAACTTTGGTAATCGCTTTCTTACTTTTCAAAATTTT
1 -AATTTGGGAAATAGTTTACTGGGTAAGAAACTTTGGTAATCACTTTCTTACTTTTCAAAAATTT
10886410 CATTTTCAAAAAAGATTTAAATGAGAAACTTTGGAAATCGTTTTCTTATTTTCATAATTCATGTG
65 CATTTTCAAAAAAGATTTAAATGAGAAACTTTGGAAATCGTTTTCTTATTTTCA-AATTCATGTG
* * *
10886475 ATAAA-ATCTTACCCGAATGTCTTACGGATGGCCCAAATGACTTATCATCTTGCTCAAAAGACTT
129 A-AAACATCATACCCGAAGGTCTTACGGATGGCCCAAATGACTTATCATCTTGCTCGAAAGACTT
* * * *
10886539 ACAGATGACCCAAAGGATTTAATCATCATGCTCAAAAGACTTACTGATTGTCCGAAGGACTTACC
193 ACAAATGACCCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATAGCCCGAAGGACTTA-C
* *
10886604 AATTTGAGAAATAGTTTACTGGGTAAGAAACTTTGGTAATCACTTTCTTACTTTTCAAAAAATTC
1 AATTTGGGAAATAGTTTACTGGGTAAGAAACTTTGGTAATCACTTTCTTACTTTTCAAAAATTTC
** *
10886669 ATTTTCAAAAAAGATTTAAATGAGAAACTTTGGAAATCACTTTCTCATTTTTCAAATTCATGTGA
66 ATTTTCAAAAAAGATTTAAATGAGAAACTTTGGAAATCGTTTTCTTA-TTTTCAAATTCATGTGA
* * * *
10886734 AAACATCATACTCGAAGGTCTTACAGATGGCCCGAAA-GACTTATCATCTTGCTTGAAAGACATA
130 AAACATCATACCCGAAGGTCTTACGGATGGCCC-AAATGACTTATCATCTTGCTCGAAAGACTTA
* * * *
10886798 CAAATGACCCAAAGGATTTAATCATCATGTTCGAAACACTTACTGATGGCCTGAAGGACTTAC
194 CAAATGACCCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATAGCCCGAAGGACTTAC
* *
10886861 AATTTGGGAAATAGTTTACTGGGTAAGAAACTTTGGTAATCACTTTCTTATTTTTCAACAATTTC
1 AATTTGGGAAATAGTTTACTGGGTAAGAAACTTTGGTAATCACTTTCTTACTTTTCAAAAATTTC
*
10886926 ATTTTCAGAAAAGATT
66 ATTTTCAAAAAAGATT
10886942 ATCACTTTTT
Statistics
Matches: 534, Mismatches: 54, Indels: 19
0.88 0.09 0.03
Matches are distributed among these distances:
257 88 0.16
258 335 0.63
259 18 0.03
260 30 0.06
261 63 0.12
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (256 bp):
AATTTGGGAAATAGTTTACTGGGTAAGAAACTTTGGTAATCACTTTCTTACTTTTCAAAAATTTC
ATTTTCAAAAAAGATTTAAATGAGAAACTTTGGAAATCGTTTTCTTATTTTCAAATTCATGTGAA
AACATCATACCCGAAGGTCTTACGGATGGCCCAAATGACTTATCATCTTGCTCGAAAGACTTACA
AATGACCCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATAGCCCGAAGGACTTAC
Found at i:10886597 original size:42 final size:42
Alignment explanation
Indices: 10886495--10886582 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
10886485 ACCCGAATGT
* * * * *
10886495 CTTACGGATGGCCCAAATGACTT-ATCATCTTGCTCAAAAGA
1 CTTACAGATGACCCAAAGGATTTAATCATCATGCTCAAAAGA
10886536 CTTACAGATGACCCAAAGGATTTAATCATCATGCTCAAAAGA
1 CTTACAGATGACCCAAAGGATTTAATCATCATGCTCAAAAGA
10886578 CTTAC
1 CTTAC
10886583 TGATTGTCCG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 19 0.46
42 22 0.54
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (42 bp):
CTTACAGATGACCCAAAGGATTTAATCATCATGCTCAAAAGA
Found at i:10893796 original size:17 final size:16
Alignment explanation
Indices: 10893755--10893797 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
10893745 AAATACATTT
10893755 TAAAATAATTTTAAGA
1 TAAAATAATTTTAAGA
10893771 -AAAATAATTTTAAAAGA
1 TAAAATAATTTT--AAGA
10893788 TAAAA-AATTT
1 TAAAATAATTT
10893798 GATCTACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 11 0.46
17 9 0.38
18 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (16 bp):
TAAAATAATTTTAAGA
Found at i:10895897 original size:3 final size:3
Alignment explanation
Indices: 10895891--10895941 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
10895881 ATTTATTATT
10895891 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10895938 TAA T
1 TAA T
10895942 TATCGGGACG
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:10896484 original size:25 final size:28
Alignment explanation
Indices: 10896435--10896491 Score: 84
Period size: 25 Copynumber: 2.1 Consensus size: 28
10896425 ATTAAATTTT
10896435 AAATTGTGCTTTTGTACAACACTTTTAA
1 AAATTGTGCTTTTGTACAACACTTTTAA
*
10896463 AAATT-TGC-TTT-TACGACACTTTTAA
1 AAATTGTGCTTTTGTACAACACTTTTAA
10896488 AAAT
1 AAAT
10896492 AGCTTTTCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 17 0.61
26 3 0.11
27 3 0.11
28 5 0.18
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (28 bp):
AAATTGTGCTTTTGTACAACACTTTTAA
Found at i:10902810 original size:56 final size:56
Alignment explanation
Indices: 10902724--10902830 Score: 189
Period size: 56 Copynumber: 1.9 Consensus size: 56
10902714 TGTAGAAATG
*
10902724 CAAGTACACATCTTTCTATAGATTCTGATGATGTTCATGGGCCAACTGGAACCTGA
1 CAAGTACACATCTTTCTATAGATTCTGATGATGTTCACGGGCCAACTGGAACCTGA
10902780 CAAGTACACATCTTTCTATAGGA-TCTGATGATGTTCACGGGCCAACTGGAA
1 CAAGTACACATCTTTCTATA-GATTCTGATGATGTTCACGGGCCAACTGGAA
10902831 TCTGGTATAG
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
56 47 0.96
57 2 0.04
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (56 bp):
CAAGTACACATCTTTCTATAGATTCTGATGATGTTCACGGGCCAACTGGAACCTGA
Found at i:10909532 original size:13 final size:13
Alignment explanation
Indices: 10909516--10909540 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10909506 CCGCCCGTTG
10909516 ACCCGACCCGACT
1 ACCCGACCCGACT
10909529 ACCCGACCCGAC
1 ACCCGACCCGAC
10909541 CTGTAATTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.56, G:0.16, T:0.04
Consensus pattern (13 bp):
ACCCGACCCGACT
Found at i:10910366 original size:197 final size:198
Alignment explanation
Indices: 10910029--10910427 Score: 737
Period size: 197 Copynumber: 2.0 Consensus size: 198
10910019 GACTCAAACC
* *
10910029 GAATACAGTTTAAGTGATAAATTAATTAAGACTTTATTGAATTACAAGTTCTGTGATTAGGTGAT
1 GAATACAATTTAAGTGATAAATTAATTAAGAC-TTATTGAATTACAAGTTATGTGATTAGGTGAT
*
10910094 AAATGAATCAGTCATGAATATGTAAATTATAATTTATCTCATTAAAGGTACTTGGAGGATAAATT
65 AAAGGAATCAGTCATGAATATGTAAATTATAATTTATCTCATTAAAGGTACTTGGAGGATAAATT
* *
10910159 ATGATAATACTTCGATTAGGTAAAATTACGAAAATACCCTTATGTTGTAAAAAGATAAGAATTGA
130 ATGATAATACTTCGATTAGGTAAAATTACAAAAATACCCTTATGTTGTAAAAAGACAAGAATTGA
10910224 CCCT
195 CCCT
10910228 GAATACAATTTAAGTGATAAATTAATTAAGAC-TATTGAATTACAAGTTATGTGATTAGGTGATA
1 GAATACAATTTAAGTGATAAATTAATTAAGACTTATTGAATTACAAGTTATGTGATTAGGTGATA
10910292 AAGGAATCAGTCATGAATATGTAAATTATAATTTATCTCATTAAAGGTACTTGGAGGATAAATTA
66 AAGGAATCAGTCATGAATATGTAAATTATAATTTATCTCATTAAAGGTACTTGGAGGATAAATTA
10910357 TGATAATACTTCGATTAGGTAAAATTACAAAAATACCCTTATGTTGTAAAAAGACAAGAATTGAC
131 TGATAATACTTCGATTAGGTAAAATTACAAAAATACCCTTATGTTGTAAAAAGACAAGAATTGAC
10910422 CCT
196 CCT
10910425 GAA
1 GAA
10910428 AGTTGGATAA
Statistics
Matches: 195, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
197 164 0.84
199 31 0.16
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (198 bp):
GAATACAATTTAAGTGATAAATTAATTAAGACTTATTGAATTACAAGTTATGTGATTAGGTGATA
AAGGAATCAGTCATGAATATGTAAATTATAATTTATCTCATTAAAGGTACTTGGAGGATAAATTA
TGATAATACTTCGATTAGGTAAAATTACAAAAATACCCTTATGTTGTAAAAAGACAAGAATTGAC
CCT
Found at i:10911986 original size:24 final size:24
Alignment explanation
Indices: 10911959--10912015 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
10911949 ATTTGAATTA
*
10911959 TGTTCTGATGCCTGACCTGGATTT
1 TGTTATGATGCCTGACCTGGATTT
** * *
10911983 TGTTATGATTTCTGATCTGGATTC
1 TGTTATGATGCCTGACCTGGATTT
*
10912007 TATTATGAT
1 TGTTATGAT
10912016 ATCTAATCTG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.18, C:0.14, G:0.21, T:0.47
Consensus pattern (24 bp):
TGTTATGATGCCTGACCTGGATTT
Found at i:10912024 original size:24 final size:24
Alignment explanation
Indices: 10911975--10912031 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
10911965 GATGCCTGAC
* * * *
10911975 CTGGATTTTGTTATGATTTCTGAT
1 CTGGATTCTATTATGATATCTAAT
10911999 CTGGATTCTATTATGATATCTAAT
1 CTGGATTCTATTATGATATCTAAT
*
10912023 CTGAATTCT
1 CTGGATTCT
10912032 GTTTTGATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.23, C:0.12, G:0.16, T:0.49
Consensus pattern (24 bp):
CTGGATTCTATTATGATATCTAAT
Found at i:10912039 original size:24 final size:24
Alignment explanation
Indices: 10911983--10912039 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
10911973 ACCTGGATTT
* * *
10911983 TGTTATGATTTCTGATCTGGATTC
1 TGTTATGATATCTAATCTGAATTC
*
10912007 TATTATGATATCTAATCTGAATTC
1 TGTTATGATATCTAATCTGAATTC
*
10912031 TGTTTTGAT
1 TGTTATGAT
10912040 TTCTGATATC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.23, C:0.11, G:0.16, T:0.51
Consensus pattern (24 bp):
TGTTATGATATCTAATCTGAATTC
Found at i:10916244 original size:24 final size:24
Alignment explanation
Indices: 10916217--10916287 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 24
10916207 AATTATTTTC
* *
10916217 TGATACCTGACCTGAATTCTGTTA
1 TGATATCTGATCTGAATTCTGTTA
* * * *
10916241 TGATTTATGATCTGGATTCTATTA
1 TGATATCTGATCTGAATTCTGTTA
*
10916265 TGATATCTGATCTAAATTCTGTT
1 TGATATCTGATCTGAATTCTGTT
10916288 TCGATTTCTG
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.45
Consensus pattern (24 bp):
TGATATCTGATCTGAATTCTGTTA
Found at i:10916297 original size:24 final size:24
Alignment explanation
Indices: 10916231--10916299 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
10916221 ACCTGACCTG
* *
10916231 AATTCTGTTATGATTTATGATCTG
1 AATTCTGTTATGATTTCTGATCTA
* * *
10916255 GATTCTATTATGATATCTGATCTA
1 AATTCTGTTATGATTTCTGATCTA
10916279 AATTCTGTT-TCGATTTCTGAT
1 AATTCTGTTAT-GATTTCTGAT
10916300 ATCTCCATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
23 1 0.03
24 35 0.97
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.49
Consensus pattern (24 bp):
AATTCTGTTATGATTTCTGATCTA
Found at i:10918466 original size:10 final size:10
Alignment explanation
Indices: 10918451--10918475 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
10918441 ATAATAATAA
10918451 ATAGTCATAC
1 ATAGTCATAC
10918461 ATAGTCATAC
1 ATAGTCATAC
10918471 ATAGT
1 ATAGT
10918476 AGATGTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (10 bp):
ATAGTCATAC
Found at i:10921957 original size:199 final size:199
Alignment explanation
Indices: 10921617--10921986 Score: 668
Period size: 199 Copynumber: 1.9 Consensus size: 199
10921607 TCGATATGGC
* * * * *
10921617 CTCTATTTAATTACAAGTTTTTTGATTAGGTGATAAATGAATCAGTCATGAATATGTAAATTATA
1 CTCTATTGAATTACAAGTTATGTGATTAGGCGATAAAGGAATCAGTCATGAATATGTAAATTATA
*
10921682 ATTTATCTCATTAAAGGTACTTGGAGGATAAATTATGATAATACTTCGATTAGGTAAAATTATGA
66 ATTTATCTCATTAAAGGTACTTGGAGGATAAATTATGATAATACTTCGATTAGGTAAAATTATAA
*
10921747 AAATACCCTTATGTTGTAAAAAGATAAGAATTGACCCTGAACACAATTTAAGTGATAAATTAATT
131 AAATACCCTTATGTTGTAAAAAGACAAGAATTGACCCTGAACACAATTTAAGTGATAAATTAATT
10921812 AAGA
196 AAGA
*
10921816 CTCTATTGAATTATAAGTTATGTGATTAGGCGATAAAGGAATCAGTCATGAATATGTAAATTATA
1 CTCTATTGAATTACAAGTTATGTGATTAGGCGATAAAGGAATCAGTCATGAATATGTAAATTATA
10921881 ATTTATCTCATTAAAGGTACTTGGAGGATAAATTATGATAATACTTCGATTAGGTAAAATTATAA
66 ATTTATCTCATTAAAGGTACTTGGAGGATAAATTATGATAATACTTCGATTAGGTAAAATTATAA
10921946 AAATACCCTTATGTTGTAAAAAGACAAGAATTGACCCTGAA
131 AAATACCCTTATGTTGTAAAAAGACAAGAATTGACCCTGAA
10921987 AGTTGGATAA
Statistics
Matches: 163, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
199 163 1.00
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (199 bp):
CTCTATTGAATTACAAGTTATGTGATTAGGCGATAAAGGAATCAGTCATGAATATGTAAATTATA
ATTTATCTCATTAAAGGTACTTGGAGGATAAATTATGATAATACTTCGATTAGGTAAAATTATAA
AAATACCCTTATGTTGTAAAAAGACAAGAATTGACCCTGAACACAATTTAAGTGATAAATTAATT
AAGA
Found at i:10923034 original size:24 final size:24
Alignment explanation
Indices: 10922997--10923068 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 24
10922987 GATGCTAGAC
* *
10922997 CTGAATTTTGTTATGATTTTTGAT
1 CTGAATTCTATTATGATTTTTGAT
* * * *
10923021 CTGGATTCTATTATGATATCTAAT
1 CTGAATTCTATTATGATTTTTGAT
* *
10923045 CTGAATTCTGTTTTGATTTTTGAT
1 CTGAATTCTATTATGATTTTTGAT
10923069 ATCTCTGTTT
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.22, C:0.08, G:0.15, T:0.54
Consensus pattern (24 bp):
CTGAATTCTATTATGATTTTTGAT
Found at i:10927204 original size:24 final size:24
Alignment explanation
Indices: 10927152--10927205 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
10927142 ACATGACCAG
* * * *
10927152 AATTCTGTTCTGATTTATGATTTG
1 AATTCTGTTATGATATATGATCTA
*
10927176 GATTCTGTTATGATATATGATCTA
1 AATTCTGTTATGATATATGATCTA
10927200 AATTCT
1 AATTCT
10927206 ATTTTGATTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.50
Consensus pattern (24 bp):
AATTCTGTTATGATATATGATCTA
Found at i:10929560 original size:5 final size:5
Alignment explanation
Indices: 10929545--10929578 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
10929535 GTCCGTCCGT
* *
10929545 CTCGT CTCGG CACGG CTCGG CTCGG CTCGG CTCG
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCG
10929579 TGGTCGTGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.03, C:0.41, G:0.35, T:0.21
Consensus pattern (5 bp):
CTCGG
Found at i:10935483 original size:6 final size:6
Alignment explanation
Indices: 10935472--10935520 Score: 89
Period size: 6 Copynumber: 8.2 Consensus size: 6
10935462 TCAGCTCGGC
*
10935472 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCATGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
10935520 T
1 T
10935521 AATATGTGTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.02, C:0.16, G:0.47, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:10935820 original size:22 final size:22
Alignment explanation
Indices: 10935795--10935849 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
10935785 TCAGGAGTTA
* *
10935795 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
10935817 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
10935839 CGGGAGTTATA
1 CAGGAGTTATA
10935850 ACAGCTGCAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:10941421 original size:5 final size:5
Alignment explanation
Indices: 10941411--10941450 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
10941401 GCACGGTACA
* *
10941411 GCTCG GCTCG GCTCG GCTCG GCTCG GCTCA GCTCG ACTCG
1 GCTCG GCTCG GCTCG GCTCG GCTCG GCTCG GCTCG GCTCG
10941451 TGGTCGTGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.05, C:0.40, G:0.35, T:0.20
Consensus pattern (5 bp):
GCTCG
Found at i:10941429 original size:15 final size:15
Alignment explanation
Indices: 10941382--10941450 Score: 77
Period size: 15 Copynumber: 4.6 Consensus size: 15
10941372 GTCCGTCCGT
* *
10941382 CTCGTCTCGTCTCAG
1 CTCGGCTCGGCTCAG
*
10941397 CTCGGCACGG-TACAG
1 CTCGGCTCGGCT-CAG
*
10941412 CTCGGCTCGGCTCGG
1 CTCGGCTCGGCTCAG
10941427 CTCGGCTCGGCTCAG
1 CTCGGCTCGGCTCAG
*
10941442 CTCGACTCG
1 CTCGGCTCG
10941451 TGGTCGTGGT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
14 1 0.02
15 43 0.96
16 1 0.02
ACGTcount: A:0.09, C:0.39, G:0.30, T:0.22
Consensus pattern (15 bp):
CTCGGCTCGGCTCAG
Found at i:10941459 original size:6 final size:6
Alignment explanation
Indices: 10941448--10941496 Score: 89
Period size: 6 Copynumber: 8.2 Consensus size: 6
10941438 TCAGCTCGAC
*
10941448 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCATGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
10941496 T
1 T
10941497 AATAGTGTCT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.02, C:0.16, G:0.47, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:10946824 original size:2 final size:2
Alignment explanation
Indices: 10946817--10946873 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
10946807 ATATTGTTTG
10946817 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10946859 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
10946874 CTATTATAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10947279 original size:57 final size:55
Alignment explanation
Indices: 10947225--10947401 Score: 187
Period size: 57 Copynumber: 3.1 Consensus size: 55
10947215 GTCAATTTTT
*
10947225 TTTCTTGGAAATCTTG-ATCGATT-TCATCTTGTAAAAAAAATAAATTGTTAAATTTA
1 TTTCTTGG-AATCTTGTAT-GATTAT-ATCTTGTAAAAAAAATAAATTGTTGAATTTA
* * * * * *
10947281 TTTTCATAGAATCTTGTATGATTATGTTTTGTAAAAGAAACTAAATTGTTGGATTTA
1 -TTTCTTGGAATCTTGTATGATTATATCTTGTAAAA-AAAATAAATTGTTGAATTTA
** *
10947338 TTTCTTGGGAATCAAGTATGATTATATCTTGTATAAAGAAATAAATTGTTGAATTTA
1 TTTCTT-GGAATCTTGTATGATTATATCTTGTA-AAAAAAATAAATTGTTGAATTTA
10947395 TTTCTTG
1 TTTCTTG
10947402 AAAGCCTCAA
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
56 26 0.26
57 70 0.71
58 3 0.03
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (55 bp):
TTTCTTGGAATCTTGTATGATTATATCTTGTAAAAAAAATAAATTGTTGAATTTA
Found at i:10949958 original size:83 final size:83
Alignment explanation
Indices: 10949862--10950024 Score: 256
Period size: 83 Copynumber: 2.0 Consensus size: 83
10949852 TGATATATTT
* *
10949862 GTTTAATATTTTAAATTTAAAATATATTATTATATGTTTAAATTTAGTTATTAAAAGATATATGA
1 GTTTAATATTTTAAATTTAAAAGATATTATTATATATTTAAATTTAGTTATTAAAAGAT-TATGA
10949927 -TTGGAGTAAAACTCTTAG
65 GTTGGAGTAAAACTCTTAG
* * * *
10949945 GTTTAATATTTTAAATTTAAAAGATATTATTATCTATTTAAATTTAGTTTTTAAAAGATTTTTAG
1 GTTTAATATTTTAAATTTAAAAGATATTATTATATATTTAAATTTAGTTATTAAAAGATTATGAG
10950010 TTGGAGTAAAACTCT
66 TTGGAGTAAAACTCT
10950025 CTTGAAATTC
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
82 3 0.04
83 70 0.96
ACGTcount: A:0.39, C:0.03, G:0.10, T:0.47
Consensus pattern (83 bp):
GTTTAATATTTTAAATTTAAAAGATATTATTATATATTTAAATTTAGTTATTAAAAGATTATGAG
TTGGAGTAAAACTCTTAG
Found at i:10953233 original size:17 final size:17
Alignment explanation
Indices: 10953211--10953254 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
10953201 ATGCTAAGTA
10953211 AGAAATGTAAAGATAAG
1 AGAAATGTAAAGATAAG
10953228 AGAAATGTAAAGATAAG
1 AGAAATGTAAAGATAAG
10953245 AGAAATGTAA
1 AGAAATGTAA
10953255 GGAATGAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.23, T:0.18
Consensus pattern (17 bp):
AGAAATGTAAAGATAAG
Found at i:10954730 original size:13 final size:13
Alignment explanation
Indices: 10954712--10954759 Score: 96
Period size: 13 Copynumber: 3.7 Consensus size: 13
10954702 TGCATCATAA
10954712 ATTTATGACACAC
1 ATTTATGACACAC
10954725 ATTTATGACACAC
1 ATTTATGACACAC
10954738 ATTTATGACACAC
1 ATTTATGACACAC
10954751 ATTTATGAC
1 ATTTATGAC
10954760 GTGCATTTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (13 bp):
ATTTATGACACAC
Found at i:10954766 original size:13 final size:13
Alignment explanation
Indices: 10954750--10954779 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
10954740 TTATGACACA
10954750 CATTTATGACGTG
1 CATTTATGACGTG
*
10954763 CATTTATGACGTT
1 CATTTATGACGTG
10954776 CATT
1 CATT
10954780 GAGCGTCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (13 bp):
CATTTATGACGTG
Found at i:10954873 original size:85 final size:85
Alignment explanation
Indices: 10954751--10954916 Score: 201
Period size: 85 Copynumber: 2.0 Consensus size: 85
10954741 TATGACACAC
** * * * ** *
10954751 ATTTATGACGTGCATTTATGACGTTCATTGAGCGTCATTGAAGCCCCCGTCA-TAAATTAAGATG
1 ATTTATGACACGCATGTATGACGTTCATTGAGCGTCATTGAAGCACACACCATTAAA-AAAGATG
*
10954815 ACACACATTTGTGTGTCATAA
65 ACACACATTCGTGTGTCATAA
* *
10954836 ATTTATGACACGCATGTATGAC-TTACATTGCGTGTCATTGAAGCACACACCATTAAAAAAGATG
1 ATTTATGACACGCATGTATGACGTT-CATTGAGCGTCATTGAAGCACACACCATTAAAAAAGATG
10954900 ACACACATTCGTGTGTC
65 ACACACATTCGTGTGTC
10954917 GTGATTGTAT
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
84 2 0.03
85 62 0.91
86 4 0.06
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (85 bp):
ATTTATGACACGCATGTATGACGTTCATTGAGCGTCATTGAAGCACACACCATTAAAAAAGATGA
CACACATTCGTGTGTCATAA
Found at i:10954949 original size:2 final size:2
Alignment explanation
Indices: 10954942--10954966 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10954932 AAATTATTGT
10954942 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
10954967 TGTAGATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10960146 original size:20 final size:20
Alignment explanation
Indices: 10960123--10960160 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10960113 ATCGATACAA
*
10960123 ATCCCTTGATATTGATATTG
1 ATCCCTTGATATCGATATTG
*
10960143 ATCCCTTGGTATCGATAT
1 ATCCCTTGATATCGATAT
10960161 CGAGGGTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (20 bp):
ATCCCTTGATATCGATATTG
Found at i:10960246 original size:61 final size:61
Alignment explanation
Indices: 10960137--10960255 Score: 134
Period size: 61 Copynumber: 2.0 Consensus size: 61
10960127 CTTGATATTG
* * * * *
10960137 ATATTGATCCCTTGGTATCGATATCGAGGGTTGTGGTATTGATGCTAGACACTTAGTACTA
1 ATATTGATCCATTGGTATCAATATCGAGGATTATGGTATTGATACTAGACACTTAGTACTA
* **
10960198 ATATTGATCCATTGGTATCAATAAT-GAGGATTATTGT-TTCGATACTAGATGCTTAGTA
1 ATATTGATCCATTGGTATCAAT-ATCGAGGATTATGGTATT-GATACTAGACACTTAGTA
10960256 TCAATACCGA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
60 2 0.04
61 44 0.92
62 2 0.04
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.38
Consensus pattern (61 bp):
ATATTGATCCATTGGTATCAATATCGAGGATTATGGTATTGATACTAGACACTTAGTACTA
Found at i:10960289 original size:20 final size:20
Alignment explanation
Indices: 10960239--10960289 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
10960229 TATTGTTTCG
*
10960239 ATACTAGATGCTTAGTATCA
1 ATACTAGATGATTAGTATCA
* * *
10960259 ATAC-CGAATGATTGGTATTA
1 ATACTAG-ATGATTAGTATCA
10960279 ATACTAGATGA
1 ATACTAGATGA
10960290 ACTAGTGTCC
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
19 1 0.04
20 22 0.92
21 1 0.04
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (20 bp):
ATACTAGATGATTAGTATCA
Found at i:10960349 original size:21 final size:21
Alignment explanation
Indices: 10960286--10960350 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
10960276 TTAATACTAG
* * *
10960286 ATGAACTAGTGTCCATACCAA
1 ATGAACTGGTATCCATACCGA
*
10960307 ATG-ACTTGGTATCCATATCGA
1 ATGAAC-TGGTATCCATACCGA
*
10960328 ATGAACTGGTTTCCATACCGA
1 ATGAACTGGTATCCATACCGA
10960349 AT
1 AT
10960351 ATTGGGTATT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 2 0.06
21 32 0.89
22 2 0.06
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGAACTGGTATCCATACCGA
Found at i:10961967 original size:46 final size:46
Alignment explanation
Indices: 10961845--10962147 Score: 367
Period size: 46 Copynumber: 6.6 Consensus size: 46
10961835 TTATTTATTA
* * * * * *
10961845 ATTTCATTTATGGCATCCTTTTATGCCTATAATACACCCTTTCATCC
1 ATTTCATTTATGACATCCTTTCATGCCT-TAATGCATCATTTCATGC
* * **
10961892 ATTTCATTTATGGCACCCTTTCAAACCTTAATGCATCATTTCATGC
1 ATTTCATTTATGACATCCTTTCATGCCTTAATGCATCATTTCATGC
* * *
10961938 ATTTCATTTATGCCATCCTTCCACT-CCTTAATGCATAATTTCATGC
1 ATTTCATTTATGACATCCTTTCA-TGCCTTAATGCATCATTTCATGC
* * * * *
10961984 ATTTTATTTGTGGCATCCTTTCATGCCTTAATGCATCCTTTCATGA
1 ATTTCATTTATGACATCCTTTCATGCCTTAATGCATCATTTCATGC
* *
10962030 ATTTCATTTTTGACATCCTTTTATGCCTTAATGCAT-ATTTCATGC
1 ATTTCATTTATGACATCCTTTCATGCCTTAATGCATCATTTCATGC
10962075 ATTTCATTTATGACATCCCTTTCATGCCTTAATGCATCATTTCATGC
1 ATTTCATTTATGACAT-CCTTTCATGCCTTAATGCATCATTTCATGC
**
10962122 ATTTCATTTATGGTATCCTTTCATGC
1 ATTTCATTTATGACATCCTTTCATGC
10962148 ATTTCATTTA
Statistics
Matches: 222, Mismatches: 30, Indels: 9
0.85 0.11 0.03
Matches are distributed among these distances:
45 23 0.10
46 152 0.68
47 47 0.21
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.44
Consensus pattern (46 bp):
ATTTCATTTATGACATCCTTTCATGCCTTAATGCATCATTTCATGC
Found at i:10962105 original size:138 final size:139
Alignment explanation
Indices: 10961845--10962147 Score: 414
Period size: 138 Copynumber: 2.2 Consensus size: 139
10961835 TTATTTATTA
* * *
10961845 ATTTCATTTATGGCATCCTTTTATGCCTATAATACACCCTTTCATCCATTTCATTTATGGCACCC
1 ATTTCATTTATGGCATCCTTTCATGCCTATAATACACCCTTTCATCAATTTCATTTATGACACCC
*
10961910 TTTCAAACCTTAATGCATCATTTCATGCATTTCATTTATGCCATCCTTCCACTCCTTAATGCATA
66 TTTCAAACCTTAATGCATCATTTCATGCATTTCATTTATGACATCCTTCCACTCCTTAATGCATA
10961975 ATTTCATGC
131 ATTTCATGC
* * * * * * *
10961984 ATTTTATTTGTGGCATCCTTTCATGCCT-TAATGCATCCTTTCATGAATTTCATTTTTGACATCC
1 ATTTCATTTATGGCATCCTTTCATGCCTATAATACACCCTTTCATCAATTTCATTTATGACACCC
* ** *
10962048 TTTTATGCCTTAATGCAT-ATTTCATGCATTTCATTTATGACATCCCTTTCA-TGCCTTAATGCA
66 TTTCAAACCTTAATGCATCATTTCATGCATTTCATTTATGACAT-CCTTCCACT-CCTTAATGCA
*
10962111 TCATTTCATGC
129 TAATTTCATGC
*
10962122 ATTTCATTTATGGTATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGC
10962148 ATTTCATTTA
Statistics
Matches: 143, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
137 25 0.17
138 93 0.65
139 25 0.17
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.44
Consensus pattern (139 bp):
ATTTCATTTATGGCATCCTTTCATGCCTATAATACACCCTTTCATCAATTTCATTTATGACACCC
TTTCAAACCTTAATGCATCATTTCATGCATTTCATTTATGACATCCTTCCACTCCTTAATGCATA
ATTTCATGC
Found at i:10962145 original size:26 final size:26
Alignment explanation
Indices: 10961976--10962413 Score: 211
Period size: 26 Copynumber: 18.7 Consensus size: 26
10961966 TAATGCATAA
* *
10961976 TTTCATGCATTTTATTTGTGGCATCC
1 TTTCATGCATTTCATTTATGGCATCC
*
10962002 TTTCATGC----C-TTAAT-GCATCC
1 TTTCATGCATTTCATTTATGGCATCC
* * *
10962022 TTTCATGAATTTCATTTTTGACATCC
1 TTTCATGCATTTCATTTATGGCATCC
* * *
10962048 TTTTATGC----C-TTAAT-GCAT-A
1 TTTCATGCATTTCATTTATGGCATCC
*
10962067 TTTCATGCATTTCATTTATGACATCCC
1 TTTCATGCATTTCATTTATGGCAT-CC
* *
10962094 TTTCATGC----C-TTAAT-GCATCA
1 TTTCATGCATTTCATTTATGGCATCC
*
10962114 TTTCATGCATTTCATTTATGGTATCC
1 TTTCATGCATTTCATTTATGGCATCC
*
10962140 TTTCATGCATTTCATTTATGGCATCA
1 TTTCATGCATTTCATTTATGGCATCC
* * *
10962166 TTTCGTGC----C-TTAAT-ACAT-C
1 TTTCATGCATTTCATTTATGGCATCC
* **
10962185 TTTCATGCGTTTCATTTATGATATCC
1 TTTCATGCATTTCATTTATGGCATCC
* * *
10962211 TTTCAAGC----C-TTAAT-GCATCA
1 TTTCATGCATTTCATTTATGGCATCC
* *
10962231 TTTCATGCATTTCATGTATGGCATCA
1 TTTCATGCATTTCATTTATGGCATCC
*
10962257 TTTCATGC----C-TTAAT-GCATCC
1 TTTCATGCATTTCATTTATGGCATCC
*
10962277 TTTCATGCATTTCAATTATGGCATCC
1 TTTCATGCATTTCATTTATGGCATCC
* *
10962303 TTTCATGC----CA-TAAT-ACATCC
1 TTTCATGCATTTCATTTATGGCATCC
*
10962323 TTTCATGCATTTCATTTATGACATCC
1 TTTCATGCATTTCATTTATGGCATCC
* *
10962349 TTTTATACATTTCATTTATGGCATCC
1 TTTCATGCATTTCATTTATGGCATCC
* *
10962375 TTTCATGC----C-TTAAT-GCATCA
1 TTTCATGCATTTCATTTATGGCATCC
10962395 TTTCATGCATTTCATTTAT
1 TTTCATGCATTTCATTTAT
10962414 CGATTCATTT
Statistics
Matches: 306, Mismatches: 56, Indels: 101
0.66 0.12 0.22
Matches are distributed among these distances:
19 14 0.05
20 77 0.25
21 27 0.09
22 11 0.04
23 3 0.01
24 15 0.05
25 26 0.08
26 125 0.41
27 8 0.03
ACGTcount: A:0.23, C:0.22, G:0.10, T:0.45
Consensus pattern (26 bp):
TTTCATGCATTTCATTTATGGCATCC
Found at i:10962189 original size:118 final size:117
Alignment explanation
Indices: 10962016--10962264 Score: 363
Period size: 118 Copynumber: 2.1 Consensus size: 117
10962006 ATGCCTTAAT
* * * * *
10962016 GCATCCTTTCATGAATTTCATTTTTGACATCCTTTTATGCCTTAATGCATATTTCATGCATTTCA
1 GCATCCTTTCATGCATTTCATTTATGACATCATTTCATGCCTTAATACATATTTCATGCATTTCA
* *
10962081 TTTATGACATCCCTTTCATGCCTTAATGCATCATTTCATGCATTTCATTTATG
66 TTTATGACAT-CCTTTCAAGCCTTAATGCATCATTTCATGCATTTCATGTATG
* * * * *
10962134 GTATCCTTTCATGCATTTCATTTATGGCATCATTTCGTGCCTTAATACATCTTTCATGCGTTTCA
1 GCATCCTTTCATGCATTTCATTTATGACATCATTTCATGCCTTAATACATATTTCATGCATTTCA
*
10962199 TTTATGATATCCTTTCAAGCCTTAATGCATCATTTCATGCATTTCATGTATG
66 TTTATGACATCCTTTCAAGCCTTAATGCATCATTTCATGCATTTCATGTATG
*
10962251 GCATCATTTCATGC
1 GCATCCTTTCATGC
10962265 CTTAATGCAT
Statistics
Matches: 116, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
117 52 0.45
118 64 0.55
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.45
Consensus pattern (117 bp):
GCATCCTTTCATGCATTTCATTTATGACATCATTTCATGCCTTAATACATATTTCATGCATTTCA
TTTATGACATCCTTTCAAGCCTTAATGCATCATTTCATGCATTTCATGTATG
Found at i:10962245 original size:209 final size:209
Alignment explanation
Indices: 10961925--10962413 Score: 658
Period size: 209 Copynumber: 2.3 Consensus size: 209
10961915 AACCTTAATG
* * * * *
10961925 CATCATTTCATGCATTTCATTTATGCCATCCTTCCACT-CCTTAATGCATAATTTCATGCATTTT
1 CATCCTTTCATGCATTTCATTTATGGCATCCTTTCA-TGCCTTAATGCAT-CTTTCATGCATTTC
* * * * * * * *
10961989 ATTTGTGGCATCCTTTCATGCCTTAATGCATCCTTTCATGAATTTCATTTTTGACATCCTTTTAT
64 ATTTATGACATCCTTTCAAGCCTTAATGCATCATTTCATGAATTTCATGTATGACATCATTTCAT
* * *
10962054 GCCTTAATGCAT-ATTTCATGCATTTCATTTATGACATCCCTTTCATGCCTTAATGCATCATTTC
129 GCCTTAATGCATCATTTCATGCATTTCAATTATGACAT-CCTTTCATGCCATAATACATCATTTC
*
10962118 ATGCATTTCATTTATGG
193 ATGCATTTCATTTATGA
* * * * *
10962135 TATCCTTTCATGCATTTCATTTATGGCATCATTTCGTGCCTTAATACATCTTTCATGCGTTTCAT
1 CATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCTTTCATGCATTTCAT
* * *
10962200 TTATGATATCCTTTCAAGCCTTAATGCATCATTTCATGCATTTCATGTATGGCATCATTTCATGC
66 TTATGACATCCTTTCAAGCCTTAATGCATCATTTCATGAATTTCATGTATGACATCATTTCATGC
* * *
10962265 CTTAATGCATCCTTTCATGCATTTCAATTATGGCATCCTTTCATGCCATAATACATCCTTTCATG
131 CTTAATGCATCATTTCATGCATTTCAATTATGACATCCTTTCATGCCATAATACATCATTTCATG
10962330 CATTTCATTTATGA
196 CATTTCATTTATGA
* *
10962344 CATCCTTTTATACATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTCA
1 CATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAATGCATC-TTTCATGCATTTCA
10962409 TTTAT
65 TTTAT
10962414 CGATTCATTT
Statistics
Matches: 241, Mismatches: 35, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
209 161 0.67
210 80 0.33
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.44
Consensus pattern (209 bp):
CATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCTTTCATGCATTTCAT
TTATGACATCCTTTCAAGCCTTAATGCATCATTTCATGAATTTCATGTATGACATCATTTCATGC
CTTAATGCATCATTTCATGCATTTCAATTATGACATCCTTTCATGCCATAATACATCATTTCATG
CATTTCATTTATGA
Found at i:10962280 original size:20 final size:20
Alignment explanation
Indices: 10962207--10962330 Score: 77
Period size: 20 Copynumber: 5.6 Consensus size: 20
10962197 CATTTATGAT
*
10962207 ATCCTTTCAAGCCTTAATGC
1 ATCCTTTCATGCCTTAATGC
* *
10962227 ATCATTTCATGCATTTCATGTATGGC
1 ATCCTTTCATGC-CTT-A---AT-GC
*
10962253 ATCATTTCATGCCTTAATGC
1 ATCCTTTCATGCCTTAATGC
*
10962273 ATCCTTTCATGCATTTCAATTATGGC
1 ATCCTTTCATGC-CTT--A--AT-GC
* *
10962299 ATCCTTTCATGCCATAATAC
1 ATCCTTTCATGCCTTAATGC
10962319 ATCCTTTCATGC
1 ATCCTTTCATGC
10962331 ATTTCATTTA
Statistics
Matches: 83, Mismatches: 9, Indels: 24
0.72 0.08 0.21
Matches are distributed among these distances:
20 36 0.43
21 8 0.10
22 1 0.01
23 2 0.02
24 1 0.01
25 7 0.08
26 28 0.34
ACGTcount: A:0.24, C:0.26, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCCTTTCATGCCTTAATGC
Found at i:10962348 original size:46 final size:46
Alignment explanation
Indices: 10962136--10962351 Score: 299
Period size: 46 Copynumber: 4.7 Consensus size: 46
10962126 CATTTATGGT
* *
10962136 ATCCTTTCATGCATTTCATTTATGGCATCATTTCGTGCCTTAATAC
1 ATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAATAC
* ** * *
10962182 AT-CTTTCATGCGTTTCATTTATGATATCCTTTCAAGCCTTAATGC
1 ATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAATAC
* * * *
10962227 ATCATTTCATGCATTTCATGTATGGCATCATTTCATGCCTTAATGC
1 ATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAATAC
* *
10962273 ATCCTTTCATGCATTTCAATTATGGCATCCTTTCATGCCATAATAC
1 ATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAATAC
*
10962319 ATCCTTTCATGCATTTCATTTATGACATCCTTT
1 ATCCTTTCATGCATTTCATTTATGGCATCCTTT
10962352 TATACATTTC
Statistics
Matches: 147, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
45 38 0.26
46 109 0.74
ACGTcount: A:0.23, C:0.24, G:0.10, T:0.43
Consensus pattern (46 bp):
ATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAATAC
Found at i:10962348 original size:72 final size:72
Alignment explanation
Indices: 10962272--10962413 Score: 230
Period size: 72 Copynumber: 2.0 Consensus size: 72
10962262 TGCCTTAATG
* *
10962272 CATCCTTTCATGCATTTCAATTATGGCATCCTTTCATGCCATAATACATCCTTTCATGCATTTCA
1 CATCCTTTCATACATTTCAATTATGGCATCCTTTCATGCCATAATACATCATTTCATGCATTTCA
10962337 TTTATGA
66 TTTATGA
* * * *
10962344 CATCCTTTTATACATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTCA
1 CATCCTTTCATACATTTCAATTATGGCATCCTTTCATGCCATAATACATCATTTCATGCATTTCA
10962409 TTTAT
66 TTTAT
10962414 CGATTCATTT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 64 1.00
ACGTcount: A:0.24, C:0.24, G:0.08, T:0.44
Consensus pattern (72 bp):
CATCCTTTCATACATTTCAATTATGGCATCCTTTCATGCCATAATACATCATTTCATGCATTTCA
TTTATGA
Found at i:10962896 original size:42 final size:41
Alignment explanation
Indices: 10962816--10962898 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 41
10962806 TCCAGGCTCA
* *
10962816 ATAGTATCGATACCCTACCATGGTATCGATAATTCTATACT
1 ATAGTATCGATACCCTACCATAGTATCGATAATACTATACT
* * * *
10962857 ATAGTATCGATACCTTTCTCTTAGTATCGATACTACTATACT
1 ATAGTATCGATACCCTAC-CATAGTATCGATAATACTATACT
10962899 TTGGTACCGT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
41 16 0.46
42 19 0.54
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (41 bp):
ATAGTATCGATACCCTACCATAGTATCGATAATACTATACT
Found at i:10969261 original size:66 final size:65
Alignment explanation
Indices: 10969189--10969470 Score: 306
Period size: 66 Copynumber: 4.2 Consensus size: 65
10969179 TTCATTTATG
* * *
10969189 GCATCCTTTCATGCCTTAATGCATCCATTCATGCATTTCATTTATGTCATCCTTTCATTCCTTAA
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGC-TTTCATTTATGGCATCCTTTCATGCCTTAA
10969254 T
65 T
*
10969255 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGCTTTAA
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGC-TTTCATTTATGGCATCCTTTCATGCCTTAA
10969320 T
65 T
* * *
10969321 GCATCCTTTCATGCATTTCATTTATGGCATCCCTTCATGC---C-TTAAT-GCATCCTTTCATGC
1 GCATCCTTTCATGC----C-TTAAT-GCATCCTTTCATGCTTTCATTTATGGCATCCTTTCATGC
*
10969381 ATTTCATTTAT
60 ----C-TTAAT
* *
10969392 GGCATCCTTTCATGCCTTAATGCTTCCTTTCATG-TTTCATTTGTGGCATCCTTTCATGCCTTAA
1 -GCATCCTTTCATGCCTTAATGCATCCTTTCATGCTTTCATTTATGGCATCCTTTCATGCCTTAA
10969456 T
65 T
10969457 GCATCCTTTCATGC
1 GCATCCTTTCATGC
10969471 ATTTTATTTA
Statistics
Matches: 184, Mismatches: 15, Indels: 36
0.78 0.06 0.15
Matches are distributed among these distances:
64 14 0.08
65 4 0.02
66 102 0.55
67 8 0.04
68 3 0.02
69 3 0.02
70 15 0.08
71 8 0.04
72 27 0.15
ACGTcount: A:0.19, C:0.27, G:0.11, T:0.44
Consensus pattern (65 bp):
GCATCCTTTCATGCCTTAATGCATCCTTTCATGCTTTCATTTATGGCATCCTTTCATGCCTTAAT
Found at i:10969268 original size:46 final size:46
Alignment explanation
Indices: 10969118--10969267 Score: 246
Period size: 46 Copynumber: 3.3 Consensus size: 46
10969108 TCATTTATAT
*
10969118 CATCCTTTCATGAATTTCATTTATGGCATCCTTTTATGCCTTAATG
1 CATCCTTTCATGAATTTCATTTATGGCATCCTTTCATGCCTTAATG
*
10969164 CATTCTTTCATGAATTTCATTTATGGCATCCTTTCATGCCTTAATG
1 CATCCTTTCATGAATTTCATTTATGGCATCCTTTCATGCCTTAATG
* * * *
10969210 CATCCATTCATGCATTTCATTTATGTCATCCTTTCATTCCTTAATG
1 CATCCTTTCATGAATTTCATTTATGGCATCCTTTCATGCCTTAATG
10969256 CATCCTTTCATG
1 CATCCTTTCATG
10969268 CCTTAATGCA
Statistics
Matches: 96, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 96 1.00
ACGTcount: A:0.21, C:0.24, G:0.09, T:0.45
Consensus pattern (46 bp):
CATCCTTTCATGAATTTCATTTATGGCATCCTTTCATGCCTTAATG
Found at i:10969293 original size:112 final size:113
Alignment explanation
Indices: 10969058--10969641 Score: 481
Period size: 112 Copynumber: 5.1 Consensus size: 113
10969048 TTATTCATTA
* *** *
10969058 ATTTCATTTATGGCATCCTTTCATGCCTTTAATACA-CTCTTTCATATTTTTCATTTATATCATC
1 ATTTCATTTATGGCATCCTTTCATGCC-TTAATGCATC-CTTTCATGCATTTCATTTATGTCATC
* * * * *
10969122 CTTTCATGAATTTCATTTATGGCATCCTTTTATGCCTTAATGCATTCTTTCATGA
64 CTTTC----A-TTCCTTAATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
*
10969177 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCATTCATGCATTTCATTTATGTCATCCT
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGTCATCCT
10969242 TTCATTCCTTAAT-GCATCCTTTCATGCCTTAATGCATCCTTTCATGC
66 TTCATTCCTTAATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
* * *
10969289 ATTTCATTTATGGCATCCTTTCATGCTTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGTCATCCT
* *
10969354 TTCATGCCTTAAT-GCATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGC
66 TTCATTCCTTAATGGCATCCTTTCATGC----C-TTAAT-GCATCCTTTCATGC
* * * ** *
10969407 ----C-TTAAT-GCTTCCTTTCATGTTTCATTTGTGGCATCCTTTCATGC----C-TTAATG-CA
1 ATTTCATTTATGGCATCCTTTCATG---CCTTAAT-GCATCCTTTCATGCATTTCATTTATGTCA
* *
10969460 TCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
62 TCCTTTCATTC--CTTA---ATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
** * * * *
10969517 ATTTCATTTATGGCATCCTTTCATAACTTAATTCATCATTTCATACCTTAATGCATCTT-T-TCA
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATT--T-CAT-TTATGTCA
** *
10969580 TACAATTCA-T--TT-ATGGCATCCTTTCATGCCTTAATGCATCATTTCATGC
62 T-CCTTTCATTCCTTAATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
10969629 ATTTCATTTATGG
1 ATTTCATTTATGG
10969642 ATTCATTTTA
Statistics
Matches: 390, Mismatches: 41, Indels: 75
0.77 0.08 0.15
Matches are distributed among these distances:
110 26 0.07
111 9 0.02
112 195 0.50
113 14 0.04
114 3 0.01
115 10 0.03
116 42 0.11
117 4 0.01
118 47 0.12
119 29 0.07
120 5 0.01
121 6 0.02
ACGTcount: A:0.21, C:0.24, G:0.09, T:0.45
Consensus pattern (113 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGTCATCCT
TTCATTCCTTAATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGC
Found at i:10969305 original size:46 final size:46
Alignment explanation
Indices: 10969255--10969560 Score: 517
Period size: 46 Copynumber: 6.7 Consensus size: 46
10969245 ATTCCTTAAT
10969255 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATG
*
10969301 GCATCCTTTCATGCTTTAATGCATCCTTTCATGCATTTCATTTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATG
*
10969347 GCATCCCTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATG
* *
10969393 GCATCCTTTCATGCCTTAATGCTTCCTTTCATG--TTTCATTTGTG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATG
*
10969437 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATG
10969483 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATG
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATG
** * *
10969529 GCATCCTTTCATAACTTAATTCATCATTTCAT
1 GCATCCTTTCATGCCTTAATGCATCCTTTCAT
10969561 ACCTTAATGC
Statistics
Matches: 244, Mismatches: 14, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
44 42 0.17
46 202 0.83
ACGTcount: A:0.20, C:0.25, G:0.10, T:0.44
Consensus pattern (46 bp):
GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATG
Found at i:10969305 original size:92 final size:92
Alignment explanation
Indices: 10969058--10969560 Score: 377
Period size: 92 Copynumber: 5.5 Consensus size: 92
10969048 TTATTCATTA
* * *** **
10969058 ATTTCATTTATGGCATCCTTTCATGCCTTTAATACA-CTCTTTCATATTTTTCATTTATATCATC
1 ATTTCATTAATGGCATCCTTTCATGCC-TTAATGCATC-CTTTCATGCATTTCATTTATGGCATC
* *
10969122 CTTTCATGAATTTCATTTATGGCATCCTTTT
64 CTTTCATG-CTTTCATTTAT-GCATCCTTTC
* * * * * *
10969153 A-TGCCTTAAT-GCATTCTTTCATGAATTTCATTTATGGCATCCTTTCATGC----C-TTAAT-G
1 ATTTCATTAATGGCATCCTTTCATG-----CCTTAAT-GCATCCTTTCATGCATTTCATTTATGG
*
10969210 CATCCATTCATGCATTTCATTTATGTCATCCTTTC
60 CATCCTTTCATGC-TTTCATTTATG-CATCCTTTC
*
10969245 A-TTCCTTAAT-GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCT
1 ATTTCATTAATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCT
10969308 TTCATGCTTT-A---ATGCATCCTTTCATGC
66 TTCATGCTTTCATTTATGCATCC-TT--T-C
* *
10969335 ATTTCATTTATGGCATCCCTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCT
1 ATTTCATTAATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCT
* *
10969400 TTCATGC---C-TTAATGCTTCCTTTC
66 TTCATGCTTTCATTTATGCATCCTTTC
** *
10969423 ATGTTTCATTTGTGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATGGCATC
1 A--TTTCATTAATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATC
*
10969488 CTTTCATGC---C-TTAATGCATCCTTTCATGC
64 CTTTCATGCTTTCATTTATGCATCC-TT--T-C
* ** * *
10969517 ATTTCATTTATGGCATCCTTTCATAACTTAATTCATCATTTCAT
1 ATTTCATTAATGGCATCCTTTCATGCCTTAATGCATCCTTTCAT
10969561 ACCTTAATGC
Statistics
Matches: 344, Mismatches: 33, Indels: 65
0.78 0.07 0.15
Matches are distributed among these distances:
86 19 0.06
87 10 0.03
88 2 0.01
89 2 0.01
90 83 0.24
91 19 0.06
92 167 0.49
93 17 0.05
94 9 0.03
95 1 0.00
97 4 0.01
98 10 0.03
99 1 0.00
ACGTcount: A:0.21, C:0.24, G:0.09, T:0.46
Consensus pattern (92 bp):
ATTTCATTAATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCT
TTCATGCTTTCATTTATGCATCCTTTC
Found at i:10969320 original size:158 final size:158
Alignment explanation
Indices: 10969118--10969425 Score: 526
Period size: 158 Copynumber: 1.9 Consensus size: 158
10969108 TCATTTATAT
* *
10969118 CATCCTTTCATGAATTTCATTTATGGCATCCTTTTATGCCTTAATGCATTCTTTCATGAATTTCA
1 CATCCTTTCATGAATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGAATTTCA
* * *
10969183 TTTATGGCATCCTTTCATGCCTTAATGCATCCATTCATGCATTTCATTTATGTCATCCTTTCATT
66 TTTATGGCATCCCTTCATGCCTTAATGCATCCATTCATGCATTTCATTTATGGCATCCTTTCATG
10969248 CCTTAATGCATCCTTTCATGCCTTAATG
131 CCTTAATGCATCCTTTCATGCCTTAATG
* * *
10969276 CATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGCTTTAATGCATCCTTTCATGCATTTCA
1 CATCCTTTCATGAATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGAATTTCA
*
10969341 TTTATGGCATCCCTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTTCATG
66 TTTATGGCATCCCTTCATGCCTTAATGCATCCATTCATGCATTTCATTTATGGCATCCTTTCATG
*
10969406 CCTTAATGCTTCCTTTCATG
131 CCTTAATGCATCCTTTCATG
10969426 TTTCATTTGT
Statistics
Matches: 140, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
158 140 1.00
ACGTcount: A:0.20, C:0.25, G:0.10, T:0.44
Consensus pattern (158 bp):
CATCCTTTCATGAATTTCATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGAATTTCA
TTTATGGCATCCCTTCATGCCTTAATGCATCCATTCATGCATTTCATTTATGGCATCCTTTCATG
CCTTAATGCATCCTTTCATGCCTTAATG
Found at i:10969472 original size:136 final size:137
Alignment explanation
Indices: 10969255--10969560 Score: 515
Period size: 136 Copynumber: 2.2 Consensus size: 137
10969245 ATTCCTTAAT
*
10969255 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGCTTTAA
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATG-ATTTCATTTATGGCATCCTTTCATGCCTTAA
10969320 TGCATCCTTTCATGCATTTCATTTATGGCATCCCTTCATGCCTTAATGCATCCTTTCATGCATTT
65 TGCATCCTTTCATGCATTTCATTTATGGCATCCCTTCATGCCTTAATGCATCCTTTCATGCATTT
10969385 CATTTATG
130 CATTTATG
* *
10969393 GCATCCTTTCATGCCTTAATGCTTCCTTTCATG-TTTCATTTGTGGCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAATGCATCCTTTCATGATTTCATTTATGGCATCCTTTCATGCCTTAAT
* *
10969457 GCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTC
66 GCATCCTTTCATGCATTTCATTTATGGCATCCCTTCATGCCTTAATGCATCCTTTCATGCATTTC
10969522 ATTTATG
131 ATTTATG
** * *
10969529 GCATCCTTTCATAACTTAATTCATCATTTCAT
1 GCATCCTTTCATGCCTTAATGCATCCTTTCAT
10969561 ACCTTAATGC
Statistics
Matches: 158, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
136 126 0.80
138 32 0.20
ACGTcount: A:0.20, C:0.25, G:0.10, T:0.44
Consensus pattern (137 bp):
GCATCCTTTCATGCCTTAATGCATCCTTTCATGATTTCATTTATGGCATCCTTTCATGCCTTAAT
GCATCCTTTCATGCATTTCATTTATGGCATCCCTTCATGCCTTAATGCATCCTTTCATGCATTTC
ATTTATG
Found at i:10969559 original size:66 final size:66
Alignment explanation
Indices: 10969354--10969628 Score: 229
Period size: 66 Copynumber: 4.1 Consensus size: 66
10969344 ATGGCATCCC
* * ** * *
10969354 TTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTTCATGCCTTAATGCTTCC
1 TTCATGCCTTAATGCATCCTTTCATACAATTCATTTATGGCATCCTTTCATAACTTAATGCATCA
10969419 T
66 T
* ** * * **
10969420 TTCATGTTTCATTTGTGGCATCCTTTCATGC----C-TTAAT-GCATCCTTTCATGCATTTTATT
1 TTCATG---CCTTAAT-GCATCCTTTCATACAATTCATTTATGGCATCCTTTCAT--AACTTA--
*
10969479 TATGGCATCCT
58 -AT-GCATCAT
* * *
10969490 TTCATGCCTTAATGCATCCTTTCATGCATTTCATTTATGGCATCCTTTCATAACTTAATTCATCA
1 TTCATGCCTTAATGCATCCTTTCATACAATTCATTTATGGCATCCTTTCATAACTTAATGCATCA
10969555 T
66 T
* * **
10969556 TTCATACCTTAATGCATCTTTTCATACAATTCATTTATGGCATCCTTTCATGCCTTAATGCATCA
1 TTCATGCCTTAATGCATCCTTTCATACAATTCATTTATGGCATCCTTTCATAACTTAATGCATCA
10969621 T
66 T
10969622 TTCATGC
1 TTCATGC
10969629 ATTTCATTTA
Statistics
Matches: 169, Mismatches: 24, Indels: 32
0.75 0.11 0.14
Matches are distributed among these distances:
64 12 0.07
65 4 0.02
66 94 0.56
67 6 0.04
69 6 0.04
70 31 0.18
71 4 0.02
72 12 0.07
ACGTcount: A:0.21, C:0.25, G:0.10, T:0.44
Consensus pattern (66 bp):
TTCATGCCTTAATGCATCCTTTCATACAATTCATTTATGGCATCCTTTCATAACTTAATGCATCA
T
Found at i:10969605 original size:46 final size:46
Alignment explanation
Indices: 10969550--10969649 Score: 139
Period size: 46 Copynumber: 2.2 Consensus size: 46
10969540 TAACTTAATT
*
10969550 CATCATTTCATACCTTAATGCATCTTTTCATACAATTCATTTATGG
1 CATCATTTCATACCTTAATGCATCATTTCATACAATTCATTTATGG
* * * *
10969596 CATCCTTTCATGCCTTAATGCATCATTTCATGCATTTCATTTATGG
1 CATCATTTCATACCTTAATGCATCATTTCATACAATTCATTTATGG
10969642 -ATTCATTT
1 CA-TCATTT
10969650 TAGAGTAGTT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
45 1 0.02
46 46 0.98
ACGTcount: A:0.25, C:0.22, G:0.08, T:0.45
Consensus pattern (46 bp):
CATCATTTCATACCTTAATGCATCATTTCATACAATTCATTTATGG
Found at i:10974306 original size:41 final size:41
Alignment explanation
Indices: 10974261--10974523 Score: 176
Period size: 41 Copynumber: 6.4 Consensus size: 41
10974251 CCTTGATTTA
* * * * *
10974261 AATTGGATTGTGAATTAATACATGTTACCATGATTGAATTG
1 AATTGAATTATGAATTATTACATGTTGCCATGATTGAAATG
* * * *
10974302 AATTGAATTATGAATTATTGCATGTTGCCCTGA-TCAAATC
1 AATTGAATTATGAATTATTACATGTTGCCATGATTGAAATG
** *
10974342 AAGTTGAATGGTGAATTATTACATGTTGCCATGATTGAACTG
1 AA-TTGAATTATGAATTATTACATGTTGCCATGATTGAAATG
* * * * *
10974384 AATTGAATTATGAATTATTGCATGCTGCCCTGATCG-AATC
1 AATTGAATTATGAATTATTACATGTTGCCATGATTGAAATG
* * * *
10974424 AAGTTGAATGGA-GAATTATTGCCTGCTGCCATGATT-AAATTG
1 AA-TTGAAT-TATGAATTATTACATGTTGCCATGATTGAAA-TG
* ** ** * **
10974466 AATCGAATGGTGAGCTATTGCATGTTTTCATGATTGAAATG
1 AATTGAATTATGAATTATTACATGTTGCCATGATTGAAATG
*
10974507 AATCTG-ATTGTGAATTA
1 AAT-TGAATTATGAATTA
10974524 GTGCGTGCTG
Statistics
Matches: 172, Mismatches: 41, Indels: 18
0.74 0.18 0.08
Matches are distributed among these distances:
40 11 0.06
41 147 0.85
42 14 0.08
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.37
Consensus pattern (41 bp):
AATTGAATTATGAATTATTACATGTTGCCATGATTGAAATG
Found at i:10974367 original size:82 final size:82
Alignment explanation
Indices: 10974270--10974491 Score: 309
Period size: 82 Copynumber: 2.7 Consensus size: 82
10974260 AAATTGGATT
* *
10974270 GTGAATTAATACATGTTACCATGATTGAATTGAATTGAATTATGAATTATTGCATGTTGCCCTGA
1 GTGAATTATTACATGTTGCCATGATTGAATTGAATTGAATTATGAATTATTGCATGTTGCCCTGA
10974335 TCAAATCAAGTTGAATG
66 TCAAATCAAGTTGAATG
* *
10974352 GTGAATTATTACATGTTGCCATGATTGAACTGAATTGAATTATGAATTATTGCATGCTGCCCTGA
1 GTGAATTATTACATGTTGCCATGATTGAATTGAATTGAATTATGAATTATTGCATGTTGCCCTGA
*
10974417 TCGAATCAAGTTGAATG
66 TCAAATCAAGTTGAATG
* * * * * * ** **
10974434 GAGAATTATTGCCTGCTGCCATGATTAAATTGAATCGAATGGTGAGCTATTGCATGTT
1 GTGAATTATTACATGTTGCCATGATTGAATTGAATTGAATTATGAATTATTGCATGTT
10974492 TTCATGATTG
Statistics
Matches: 123, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
82 123 1.00
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.36
Consensus pattern (82 bp):
GTGAATTATTACATGTTGCCATGATTGAATTGAATTGAATTATGAATTATTGCATGTTGCCCTGA
TCAAATCAAGTTGAATG
Found at i:10974444 original size:123 final size:123
Alignment explanation
Indices: 10974313--10974544 Score: 279
Period size: 123 Copynumber: 1.9 Consensus size: 123
10974303 ATTGAATTAT
* * * *
10974313 GAATTATTGCATGTTGCCCTGATCAAA-TCAAGTTGAATGGTGAATTATTACATGTTGCCATGAT
1 GAATTATTGCATGCTGCCATGATCAAATTCAA-TCGAATGGTGAACTATTACATGTTGCCATGAT
* * **
10974377 TGAACTGAAT-TGAATTATGAATTATTGCATGCTGCCCTGATCGAATCAAGTTGAATGGA
65 TGAAATGAATCTG-ATTATGAATTAGTGCATGCTGCCAAGATCGAATCAAGTTGAATGGA
* * * * * **
10974436 GAATTATTGCCTGCTGCCATGATTAAATTGAATCGAATGGTGAGCTATTGCATGTTTTCATGATT
1 GAATTATTGCATGCTGCCATGATCAAATTCAATCGAATGGTGAACTATTACATGTTGCCATGATT
* *
10974501 GAAATGAATCTGATTGTGAATTAGTGCGTGCTGCCAAGATCGAA
66 GAAATGAATCTGATTATGAATTAGTGCATGCTGCCAAGATCGAA
10974545 CTCGATTGAA
Statistics
Matches: 90, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
123 85 0.94
124 5 0.06
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (123 bp):
GAATTATTGCATGCTGCCATGATCAAATTCAATCGAATGGTGAACTATTACATGTTGCCATGATT
GAAATGAATCTGATTATGAATTAGTGCATGCTGCCAAGATCGAATCAAGTTGAATGGA
Found at i:10982577 original size:41 final size:41
Alignment explanation
Indices: 10982491--10982773 Score: 210
Period size: 41 Copynumber: 6.9 Consensus size: 41
10982481 AGTTATTTCC
* * * * * **
10982491 TGTTGCCTTGATTTAAATTGAATTGGATTATGAGTTAATATA
1 TGTTGCCATGA-TTGAATTGAATTGAATTATGAATTATTGCA
*
10982533 TGTTACCATGATTGAATTGAATTGAATTATGAATTATTGCA
1 TGTTGCCATGATTGAATTGAATTGAATTATGAATTATTGCA
** * * * ** *
10982574 TGTTATCATGA-TCAAATCAAGTTGAATGGTAAATTATTGCA
1 TGTTGCCATGATTGAATTGAA-TTGAATTATGAATTATTGCA
* *
10982615 TGCTGCCATGATTGAATTGAATTGAATTACGAATTATTGCA
1 TGTTGCCATGATTGAATTGAATTGAATTATGAATTATTGCA
* * * **
10982656 TGTTGCCCTGATCGAA-TCAAGTTGAATGGTGAATTATTGCA
1 TGTTGCCATGATTGAATTGAA-TTGAATTATGAATTATTGCA
* * ** * ** *
10982697 TGCTGCCATGATTAAATTGAATCAAATTGTGAGCTATTGTA
1 TGTTGCCATGATTGAATTGAATTGAATTATGAATTATTGCA
** * *
10982738 TGTTTTCATCATTGAATTGAATCGAATTATGAATTA
1 TGTTGCCATGATTGAATTGAATTGAATTATGAATTA
10982774 GTACATACTG
Statistics
Matches: 185, Mismatches: 52, Indels: 9
0.75 0.21 0.04
Matches are distributed among these distances:
40 9 0.05
41 158 0.85
42 18 0.10
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (41 bp):
TGTTGCCATGATTGAATTGAATTGAATTATGAATTATTGCA
Found at i:10982735 original size:82 final size:82
Alignment explanation
Indices: 10982538--10982718 Score: 299
Period size: 82 Copynumber: 2.2 Consensus size: 82
10982528 ATATATGTTA
*
10982538 CCATGATTGAATTGAATTGAATTATGAATTATTGCATGTTATCATGATCAAATCAAGTTGAATGG
1 CCATGATTGAATTGAATTGAATTATGAATTATTGCATGTTACCATGATCAAATCAAGTTGAATGG
10982603 TAAATTATTGCATGCTG
66 TAAATTATTGCATGCTG
* * * *
10982620 CCATGATTGAATTGAATTGAATTACGAATTATTGCATGTTGCCCTGATCGAATCAAGTTGAATGG
1 CCATGATTGAATTGAATTGAATTATGAATTATTGCATGTTACCATGATCAAATCAAGTTGAATGG
*
10982685 TGAATTATTGCATGCTG
66 TAAATTATTGCATGCTG
*
10982702 CCATGATTAAATTGAAT
1 CCATGATTGAATTGAAT
10982719 CAAATTGTGA
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
82 92 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (82 bp):
CCATGATTGAATTGAATTGAATTATGAATTATTGCATGTTACCATGATCAAATCAAGTTGAATGG
TAAATTATTGCATGCTG
Found at i:10986468 original size:5 final size:5
Alignment explanation
Indices: 10986421--10986449 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
10986411 TAGTTTATAT
10986421 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
10986450 TTAGATTTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:10989040 original size:17 final size:17
Alignment explanation
Indices: 10989018--10989051 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
10989008 ATTTTAAGTT
10989018 AATAATAATAA-TAAATA
1 AATAATAA-AATTAAATA
10989035 AATAATAAAATTAAATA
1 AATAATAAAATTAAATA
10989052 GTAATAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AATAATAAAATTAAATA
Found at i:10990615 original size:249 final size:249
Alignment explanation
Indices: 10990175--10990674 Score: 919
Period size: 249 Copynumber: 2.0 Consensus size: 249
10990165 CATCTCTGGT
* *
10990175 TGACTTCGGAACTAGACTAATATTGGAATACCCTAGGGTACTGGGTCACACACCTTGGGCTCTCG
1 TGACTTCAGAACTAGACTAATATTGGAAAACCCTAGGGTACTGGGTCACACACCTTGGGCTCTCG
* *
10990240 TTCTATACTTCGCTTAGAGCAGTCTGCTGGGTCAGTCAGGCTTGCTCCATTGGGAATTTTATGGA
66 ATCTATACTTCGCTTAGAGCAATCTGCTGGGTCAGTCAGGCTTGCTCCATTGGGAATTTTATGGA
*
10990305 CCTTTGGACATGGATGTGTATTAGACCCTTTATTGGATTTAAACACTCTTGCCTGGCAGCTTGTT
131 CCTTTGGACATGGATGTGTATTAGACCCTTTATTGGATTTAAACACTCTTGCCTAGCAGCTTGTT
10990370 CATTGGGTCATATGAACATCCCTAACTTGGACCCTTTGGACACATGTGTGTGTG
196 CATTGGGTCATATGAACATCCCTAACTTGGACCCTTTGGACACATGTGTGTGTG
10990424 TGACTTCAGAACTAGACTAATATTGGAAAACCCTAGGGTACTGGGTCACACACCTTGGGCTCTCG
1 TGACTTCAGAACTAGACTAATATTGGAAAACCCTAGGGTACTGGGTCACACACCTTGGGCTCTCG
* * *
10990489 ATCTATACTTCGCTTGGAGTAATCTGCTGGGTCAGTCAGGCTTGCTCCATTGGGACTTTTATGGA
66 ATCTATACTTCGCTTAGAGCAATCTGCTGGGTCAGTCAGGCTTGCTCCATTGGGAATTTTATGGA
*
10990554 CCTTTGGACATGGATGTGTATTAGACCCTTTATTGGATTTGAACACTCTTGCCTAGCAGCTTGTT
131 CCTTTGGACATGGATGTGTATTAGACCCTTTATTGGATTTAAACACTCTTGCCTAGCAGCTTGTT
10990619 CATTGGGTCATATGAACATCCCTAACTTGGACCCTTTGGACACATGTGTGTGTG
196 CATTGGGTCATATGAACATCCCTAACTTGGACCCTTTGGACACATGTGTGTGTG
10990673 TG
1 TG
10990675 TTTAAAAACT
Statistics
Matches: 242, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
249 242 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.33
Consensus pattern (249 bp):
TGACTTCAGAACTAGACTAATATTGGAAAACCCTAGGGTACTGGGTCACACACCTTGGGCTCTCG
ATCTATACTTCGCTTAGAGCAATCTGCTGGGTCAGTCAGGCTTGCTCCATTGGGAATTTTATGGA
CCTTTGGACATGGATGTGTATTAGACCCTTTATTGGATTTAAACACTCTTGCCTAGCAGCTTGTT
CATTGGGTCATATGAACATCCCTAACTTGGACCCTTTGGACACATGTGTGTGTG
Found at i:10990701 original size:31 final size:31
Alignment explanation
Indices: 10990663--10991501 Score: 507
Period size: 29 Copynumber: 26.9 Consensus size: 31
10990653 TTTGGACACA
10990663 TGTGTGTGTGTGTTTAAAAACTATATATGTT
1 TGTGTGTGTGTGTTTAAAAACTATATATGTT
10990694 TGTGTGTGTGTGTTTTTTTAAAAACTATATATGTTT
1 TGTGTGTGTGTG----TTTAAAAACTATATATG-TT
10990730 GTGTGTGTGTGTGTTTAAAAACTATATATGTTT
1 -TGTGTGTGTGTGTTTAAAAACTATATATG-TT
10990763 GTGTGTGTGTGTATGTTTAAAAACTATATATGTT
1 -TGTGTGTGTG--TGTTTAAAAACTATATATGTT
*
10990797 TGTGCGTGTGTG--TAAAAACTATATATGTTTGT
1 TGTGTGTGTGTGTTTAAAAACTATATATG--T-T
10990829 GTGTGTGTGTGCGTGTGTGTAAAAACTATATATGTTTGTGTGT
1 -TGTGTGTGT--GTGT-T-TAAAAACTATATA------TGT-T
** *
10990872 GTGTGTGTGTGTGTGTGTTTAAA-AACTATATATGTTT
1 -TGTGTGTGTGTGT-T-TAAAAACTA-TATAT--G-TT
10990909 GTGTGTGTGTGTGTTTAAAAACTATATATGTTTGTGT
1 -TGTGTGTGTGTGTTTAAAAACTATATA----TGT-T
*
10990946 GTGTGTGTGTGTGTTTAAAAAC--TATATGTG
1 -TGTGTGTGTGTGTTTAAAAACTATATATGTT
*
10990976 TGTGTGTGTGTGTTTAAAAAC--TATATGTG
1 TGTGTGTGTGTGTTTAAAAACTATATATGTT
* * *
10991005 TGTGTGTGTGTGTTTAAAAACTATGTGTGTG
1 TGTGTGTGTGTGTTTAAAAACTATATATGTT
*
10991036 TGTGTGTGTTTGTTTAAAAACTATATATG--
1 TGTGTGTGTGTGTTTAAAAACTATATATGTT
10991065 TGTGTGTGTGTGTTTAAAAAC----TATG--
1 TGTGTGTGTGTGTTTAAAAACTATATATGTT
10991090 TGTGTGTGTGTGTTTAAAAACTATATATG--
1 TGTGTGTGTGTGTTTAAAAACTATATATGTT
*
10991119 TATGTGTGTGTGTTTAAAAAC--TATA----
1 TGTGTGTGTGTGTTTAAAAACTATATATGTT
10991144 TGTGTGTGTGTGTTTAAAAAC--TATA----
1 TGTGTGTGTGTGTTTAAAAACTATATATGTT
*
10991169 TGTGTGTGTGTGTTTAAAAAC------TGTG
1 TGTGTGTGTGTGTTTAAAAACTATATATGTT
10991194 TGTGTGTGTGTGTTTAAAAAC------TG--
1 TGTGTGTGTGTGTTTAAAAACTATATATGTT
* *
10991217 TGTGTGTGTGTGTTTAAAAAATATATATGTG
1 TGTGTGTGTGTGTTTAAAAACTATATATGTT
* ** **** * *** *
10991248 TGTATGTGTGCTTGTGCATGTGCGTGTGCGTGTG
1 TGTGTGTGTG--TGTTTAAAAAC-TATATATGTT
*
10991282 TATGTGTGTGTGTTTAAAAAC--TATATG--
1 TGTGTGTGTGTGTTTAAAAACTATATATGTT
* *
10991309 TGTGTGTGTGTGTTTAAAAACTATATGTGTG
1 TGTGTGTGTGTGTTTAAAAACTATATATGTT
* * * * *
10991340 TGTGTGAGTGTGTTTAAAAATTATGTGTGTG
1 TGTGTGTGTGTGTTTAAAAACTATATATGTT
*
10991371 TGTGTGTGTGTGTTTAAAAACTATATGTGTGTGTGTGT
1 TGTGTGTGTGTGTTTAAAAACTATA------TATGT-T
10991409 ATGTGTGTGTGTGTTTTTAAAAACTATATATG--
1 -TGTGTGTGTGTG--TTTAAAAACTATATATGTT
* * *
10991441 TGTGTGTGTGTGTGTGAAAACTATATATATAT
1 TGTGTGTGTGTGTTTAAAAACTATATATGT-T
10991473 GTGTGTGTGTGTGTTTAAAAACTATATAT
1 -TGTGTGTGTGTGTTTAAAAACTATATAT
10991502 ATATATATAT
Statistics
Matches: 679, Mismatches: 56, Indels: 144
0.77 0.06 0.16
Matches are distributed among these distances:
23 20 0.03
25 93 0.14
27 24 0.04
29 133 0.20
31 121 0.18
32 6 0.01
33 78 0.11
34 16 0.02
35 55 0.08
36 5 0.01
37 57 0.08
38 1 0.00
39 26 0.04
40 1 0.00
41 28 0.04
43 13 0.02
45 2 0.00
ACGTcount: A:0.24, C:0.04, G:0.27, T:0.46
Consensus pattern (31 bp):
TGTGTGTGTGTGTTTAAAAACTATATATGTT
Found at i:10990870 original size:2 final size:2
Alignment explanation
Indices: 10990865--10990889 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10990855 TATATATGTT
10990865 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
10990890 TTAAAAACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:10990981 original size:25 final size:25
Alignment explanation
Indices: 10990947--10991585 Score: 345
Period size: 25 Copynumber: 24.5 Consensus size: 25
10990937 TGTTTGTGTG
10990947 TGTGTGTGTGTGTTTAAAAACTATA
1 TGTGTGTGTGTGTTTAAAAACTATA
10990972 TGTGTGTGTGTGTGTGTTTAAAAACTATA
1 ----TGTGTGTGTGTGTTTAAAAACTATA
*
10991001 TGTGTGTGTGTGTGTGTTTAAAAACTATGTGTG
1 ----TGTGTGTGTGTGTTTAAAAACTA----TA
10991034 TGTGTGTGTGTTTGTTTAAAAACTATATA
1 TGTGTGTGTG--TGTTTAAAAAC--TATA
*
10991063 TGTGTGTGTGTGTGTTTAAAAACTATG
1 --TGTGTGTGTGTGTTTAAAAACTATA
10991090 TGTGTGTGTGTGTTTAAAAACTATATA
1 TGTGTGTGTGTGTTTAAAAAC--TATA
10991117 TGTATGTGTGTGTGTTTAAAAACTATA
1 TG--TGTGTGTGTGTTTAAAAACTATA
10991144 TGTGTGTGTGTGTTTAAAAACTATA
1 TGTGTGTGTGTGTTTAAAAACTATA
* *
10991169 TGTGTGTGTGTGTTTAAAAACTGTG
1 TGTGTGTGTGTGTTTAAAAACTATA
*
10991194 TGTGTGTGTGTGTTTAAAAAC--TG
1 TGTGTGTGTGTGTTTAAAAACTATA
*
10991217 TGTGTGTGTGTGTTTAAAAAATATA
1 TGTGTGTGTGTGTTTAAAAACTATA
* * * * *
10991242 TATGTGTGTATGTGT----GCT-TG
1 TGTGTGTGTGTGTTTAAAAACTATA
* ** * *
10991262 TGCATGTGCGTGTGCGT-----GTGTA
1 TG--TGTGTGTGTGTTTAAAAACTATA
10991284 TGTGTGTGTGT--TTAAAAACTATA
1 TGTGTGTGTGTGTTTAAAAACTATA
10991307 TGTGTGTGTGTGTGTTTAAAAACTATA
1 --TGTGTGTGTGTGTTTAAAAACTATA
* *
10991334 TGTGTGTGTGTGAGTGTGTTTAAAAATTATGTGTGTG
1 ----TGTGTGT--GTGTGTTTAAAAACTA------TA
10991371 TGTGTGTGTGTGTTTAAAAACTATA
1 TGTGTGTGTGTGTTTAAAAACTATA
* *
10991396 TGTGTGTGTGTG--T----A-TGTG
1 TGTGTGTGTGTGTTTAAAAACTATA
10991414 TGTGTGTGT-T-TTTAAAAACTATATA
1 TGTGTGTGTGTGTTTAAAAAC--TATA
*
10991439 TGTGTGTGTGTGTGTGTGAAAACTATATATATA
1 TGTGTGTGTGTGT-T-T--AAA--A-A-CTATA
10991472 TGTGTGTGTGTGTGTTTAAAAACTATA
1 --TGTGTGTGTGTGTTTAAAAACTATA
* * * * * * * * ** * *
10991499 TATATATATATATAT-ATATGTGTG
1 TGTGTGTGTGTGTTTAAAAACTATA
10991523 TGTGTGTGTGTGTTTAAAAACTATA
1 TGTGTGTGTGTGTTTAAAAACTATA
**
10991548 CATGTGTGTGTGTTTAAAAACTATA
1 TGTGTGTGTGTGTTTAAAAACTATA
10991573 TGTGTGTGTGTGT
1 TGTGTGTGTGTGT
10991586 GTGTGTTTAA
Statistics
Matches: 488, Mismatches: 62, Indels: 124
0.72 0.09 0.18
Matches are distributed among these distances:
17 1 0.00
18 13 0.03
19 1 0.00
20 10 0.02
21 2 0.00
22 14 0.03
23 26 0.05
24 12 0.02
25 182 0.37
26 1 0.00
27 31 0.06
28 2 0.00
29 104 0.21
31 57 0.12
33 16 0.03
34 2 0.00
35 13 0.03
37 1 0.00
ACGTcount: A:0.24, C:0.04, G:0.27, T:0.45
Consensus pattern (25 bp):
TGTGTGTGTGTGTTTAAAAACTATA
Found at i:10991276 original size:18 final size:18
Alignment explanation
Indices: 10991253--10991293 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
10991243 ATGTGTGTAT
*
10991253 GTGTGCTTGTGCATGTGC
1 GTGTGCGTGTGCATGTGC
* *
10991271 GTGTGCGTGTGTATGTGT
1 GTGTGCGTGTGCATGTGC
10991289 GTGTG
1 GTGTG
10991294 TTTAAAAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.05, C:0.10, G:0.44, T:0.41
Consensus pattern (18 bp):
GTGTGCGTGTGCATGTGC
Found at i:10991315 original size:27 final size:27
Alignment explanation
Indices: 10991284--10991408 Score: 160
Period size: 27 Copynumber: 4.3 Consensus size: 27
10991274 TGCGTGTGTA
10991284 TGTGTGTGTGTTTAAAAACTATATGTG
1 TGTGTGTGTGTTTAAAAACTATATGTG
10991311 TGTGTGTGTGTTTAAAAACTATATGTGTG
1 TGTGTGTGTGTTTAAAAACTATA--TGTG
* *
10991340 TGTGTGAGTGTGTTTAAAAATTATGTGTGTGTG
1 TGTGT--GTGTGTTTAAAAACTA----TATGTG
10991373 TGTGTGTGTGTTTAAAAACTATATGTG
1 TGTGTGTGTGTTTAAAAACTATATGTG
10991400 TGTGTGTGT
1 TGTGTGTGT
10991409 ATGTGTGTGT
Statistics
Matches: 86, Mismatches: 4, Indels: 16
0.81 0.04 0.15
Matches are distributed among these distances:
27 37 0.43
29 9 0.10
31 30 0.35
33 9 0.10
35 1 0.01
ACGTcount: A:0.22, C:0.02, G:0.30, T:0.46
Consensus pattern (27 bp):
TGTGTGTGTGTTTAAAAACTATATGTG
Found at i:10991352 original size:41 final size:39
Alignment explanation
Indices: 10991334--10991456 Score: 145
Period size: 41 Copynumber: 3.3 Consensus size: 39
10991324 AAAAACTATA
*
10991334 TGTGTGTGTGTGAGTGTGTTTAAAAA-T-TA--TGTGTG
1 TGTGTGTGTGTGTGTGTGTTTAAAAACTATATGTGTGTG
10991369 ----TGTGTGTGTGTGTGTTTAAAAACTATATGTGTGTG
1 TGTGTGTGTGTGTGTGTGTTTAAAAACTATATGTGTGTG
* *
10991404 TGTGTATGTGTGTGTGTGTTTTTAAAAACTATATATGTGTG
1 TGTG--TGTGTGTGTGTGTGTTTAAAAACTATATGTGTGTG
10991445 TGTGTGTGTGTG
1 TGTGTGTGTGTG
10991457 AAAACTATAT
Statistics
Matches: 75, Mismatches: 3, Indels: 16
0.80 0.03 0.17
Matches are distributed among these distances:
31 21 0.28
32 1 0.01
33 2 0.03
35 6 0.08
39 8 0.11
41 37 0.49
ACGTcount: A:0.19, C:0.02, G:0.33, T:0.47
Consensus pattern (39 bp):
TGTGTGTGTGTGTGTGTGTTTAAAAACTATATGTGTGTG
Found at i:10991413 original size:14 final size:14
Alignment explanation
Indices: 10991394--10991422 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10991384 TTAAAAACTA
10991394 TATGTGTGTGTGTG
1 TATGTGTGTGTGTG
10991408 TATGTGTGTGTGTG
1 TATGTGTGTGTGTG
10991422 T
1 T
10991423 TTTTAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.00, G:0.41, T:0.52
Consensus pattern (14 bp):
TATGTGTGTGTGTG
Found at i:10991502 original size:33 final size:33
Alignment explanation
Indices: 10991408--10991505 Score: 141
Period size: 33 Copynumber: 3.1 Consensus size: 33
10991398 TGTGTGTGTG
*
10991408 TATGTGTGTGTGTGTTTTTAAAAAC----TATA
1 TATGTGTGTGTGTGTGTTTAAAAACTATATATA
* *
10991437 TATGTGTGTGTGTGTGTGTGAAAACTATATATA
1 TATGTGTGTGTGTGTGTTTAAAAACTATATATA
10991470 TATGTGTGTGTGTGTGTTTAAAAACTATATATA
1 TATGTGTGTGTGTGTGTTTAAAAACTATATATA
10991503 TAT
1 TAT
10991506 ATATATATAT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
29 22 0.37
33 38 0.63
ACGTcount: A:0.29, C:0.03, G:0.22, T:0.46
Consensus pattern (33 bp):
TATGTGTGTGTGTGTGTTTAAAAACTATATATA
Found at i:10991554 original size:31 final size:31
Alignment explanation
Indices: 10991513--10991622 Score: 142
Period size: 31 Copynumber: 3.7 Consensus size: 31
10991503 TATATATATA
10991513 TATATGTGTGTGTGTGTGTGTGTTTAAAAAC
1 TATATGTGTGTGTGTGTGTGTGTTTAAAAAC
**
10991544 TATA------CATGTGTGTGTGTTTAAAAAC
1 TATATGTGTGTGTGTGTGTGTGTTTAAAAAC
10991569 TATATGTGTGTGTGTGTGTGTGTTTAAAAAC
1 TATATGTGTGTGTGTGTGTGTGTTTAAAAAC
* *
10991600 TATGTGTGTGTGCGTGTGTGTGT
1 TATATGTGTGTGTGTGTGTGTGT
10991623 GCGTGTGTGT
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
25 23 0.34
31 44 0.66
ACGTcount: A:0.21, C:0.05, G:0.30, T:0.45
Consensus pattern (31 bp):
TATATGTGTGTGTGTGTGTGTGTTTAAAAAC
Found at i:10991605 original size:25 final size:25
Alignment explanation
Indices: 10991521--10991616 Score: 102
Period size: 25 Copynumber: 3.6 Consensus size: 25
10991511 TATATATGTG
10991521 TGTGTGTGTGTGTGTTTAAAAACTA
1 TGTGTGTGTGTGTGTTTAAAAACTA
***
10991546 TACATGTGTGTGTGTTTAAAAACTATA
1 TGTGTGTGTGTGTGTTTAAAAAC--TA
10991573 TGTGTGTGTGTGTGTGTGTTTAAAAACTA
1 ----TGTGTGTGTGTGTGTTTAAAAACTA
*
10991602 TGTGTGTGTGCGTGT
1 TGTGTGTGTGTGTGT
10991617 GTGTGTGCGT
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
25 34 0.59
27 2 0.03
29 2 0.03
31 20 0.34
ACGTcount: A:0.22, C:0.05, G:0.29, T:0.44
Consensus pattern (25 bp):
TGTGTGTGTGTGTGTTTAAAAACTA
Found at i:10991681 original size:18 final size:18
Alignment explanation
Indices: 10991642--10991688 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
10991632 TGTGCGTGTT
* * *
10991642 CGTGTGCGTGTGCGTGTG
1 CGTGTGCGTGTGCATATA
10991660 CGTGTGCGTGTGCATATA
1 CGTGTGCGTGTGCATATA
*
10991678 CGTGTGTGTGT
1 CGTGTGCGTGT
10991689 TTAAAAACTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.06, C:0.15, G:0.43, T:0.36
Consensus pattern (18 bp):
CGTGTGCGTGTGCATATA
Found at i:10991688 original size:6 final size:6
Alignment explanation
Indices: 10991602--10991672 Score: 106
Period size: 6 Copynumber: 11.8 Consensus size: 6
10991592 TTAAAAACTA
* * * *
10991602 TGTGTG TGTGCG TGTGTG TGTGCG TGTGTG TGTGCG TGTTCG TGTGCG
1 TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG TGTGCG
10991650 TGTGCG TGTGCG TGTGCG TGTGC
1 TGTGCG TGTGCG TGTGCG TGTGC
10991673 ATATACGTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 58 1.00
ACGTcount: A:0.00, C:0.13, G:0.48, T:0.39
Consensus pattern (6 bp):
TGTGCG
Found at i:10991712 original size:2 final size:2
Alignment explanation
Indices: 10991707--10991751 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
10991697 TATATATGTT
* * * *
10991707 TG TG TG TC TC TG TG TG TG TG TG TT TG TA TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
10991749 TG T
1 TG T
10991752 TTAAAAACTA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.02, C:0.04, G:0.40, T:0.53
Consensus pattern (2 bp):
TG
Found at i:10991772 original size:39 final size:39
Alignment explanation
Indices: 10991727--10991821 Score: 181
Period size: 39 Copynumber: 2.4 Consensus size: 39
10991717 TGTGTGTGTG
*
10991727 TGTTTGTATGTGTGTGTGTGTGTGTTTAAAAACTATATA
1 TGTTTGTGTGTGTGTGTGTGTGTGTTTAAAAACTATATA
10991766 TGTTTGTGTGTGTGTGTGTGTGTGTTTAAAAACTATATA
1 TGTTTGTGTGTGTGTGTGTGTGTGTTTAAAAACTATATA
10991805 TGTTTGTGTGTGTGTGT
1 TGTTTGTGTGTGTGTGT
10991822 TTAAAAACTA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.18, C:0.02, G:0.29, T:0.51
Consensus pattern (39 bp):
TGTTTGTGTGTGTGTGTGTGTGTGTTTAAAAACTATATA
Found at i:10991961 original size:16 final size:16
Alignment explanation
Indices: 10991924--10991963 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
10991914 ACATTCTAAA
**
10991924 ACTATATATATATACT
1 ACTATATATATATAAG
*
10991940 AATATATATATATAAG
1 ACTATATATATATAAG
10991956 ACTATATA
1 ACTATATA
10991964 CATAATTATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (16 bp):
ACTATATATATATAAG
Found at i:10998434 original size:33 final size:33
Alignment explanation
Indices: 10998397--10998460 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
10998387 TGTGTTCTGT
*
10998397 CTATATATCTATATTTTTTATTACATAAAAAAA
1 CTATATATCTATATTTTTAATTACATAAAAAAA
10998430 CTATATATCTATATTTTTAATTACATAAAAA
1 CTATATATCTATATTTTTAATTACATAAAAA
10998461 TATATTTACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (33 bp):
CTATATATCTATATTTTTAATTACATAAAAAAA
Done.