Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008953.1 Hibiscus syriacus cultivar Beakdansim tig00112281_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: 2822058
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 15
Found at i:1516786 original size:2 final size:2
Alignment explanation
Indices: 1516779--1516810 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1516769 TGTTTTGTGT
1516779 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1516811 CGAGTCTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1517241 original size:65 final size:65
Alignment explanation
Indices: 1517132--1517386 Score: 325
Period size: 65 Copynumber: 3.9 Consensus size: 65
1517122 GGTGTAATTG
* * * * * * *
1517132 TTGAATATAGTACAAATCACTCCTATGACTCATGTACCTATGTGGT-CTATGAGGTGGAGTGATA
1 TTGAATATTGTACAGATCATTCATGTGACTCATGTACCTTTGTGGTGC-ATGAGCTGGAGTGATA
1517196 A
65 A
*
1517197 TTGAATATTGTATAGATCATTCATGTGACTCATGTACCTTTGTGGTGCATGAGCTGGAGTGATAA
1 TTGAATATTGTACAGATCATTCATGTGACTCATGTACCTTTGTGGTGCATGAGCTGGAGTGATAA
* *
1517262 TTGAATACTGTACAAATCACTT-ATGTGACTCATGTACCTTTGTGGTGCATGAGCTGGAGTGATA
1 TTGAATATTGTACAGATCA-TTCATGTGACTCATGTACCTTTGTGGTGCATGAGCTGGAGTGATA
1517326 A
65 A
* * * * * * *
1517327 TTAAATATTGTACAGATCACTCATGCGAATCATGTACCTTTATGGTACATGAGGTGGAGT
1 TTGAATATTGTACAGATCATTCATGTGACTCATGTACCTTTGTGGTGCATGAGCTGGAGT
1517387 CATCACCATA
Statistics
Matches: 167, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
64 1 0.01
65 163 0.98
66 3 0.02
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.34
Consensus pattern (65 bp):
TTGAATATTGTACAGATCATTCATGTGACTCATGTACCTTTGTGGTGCATGAGCTGGAGTGATAA
Found at i:1517365 original size:130 final size:130
Alignment explanation
Indices: 1517132--1517386 Score: 361
Period size: 130 Copynumber: 2.0 Consensus size: 130
1517122 GGTGTAATTG
* *
1517132 TTGAATATAGTACAAATCACTCCTATGACTCATGTACCTATGTGGTCTATGAGGTGGAGTGATAA
1 TTGAATATAGTACAAATCACTCATATGACTCATGTACCTATGTGGTCTATGAGCTGGAGTGATAA
* * * * * * *
1517197 TTGAATATTGTATAGATCATTCATGTGACTCATGTACCTTTGTGGTGCATGAGCTGGAGTGATAA
66 TTAAATATTGTACAGATCACTCATGCGAATCATGTACCTTTATGGTACATGAGCTGGAGTGATAA
* * *
1517262 TTGAATACT-GTACAAATCACTTATGTGACTCATGTACCTTTGTGGTGC-ATGAGCTGGAGTGAT
1 TTGAATA-TAGTACAAATCACTCATATGACTCATGTACCTATGTGGT-CTATGAGCTGGAGTGAT
*
1517325 AATTAAATATTGTACAGATCACTCATGCGAATCATGTACCTTTATGGTACATGAGGTGGAGT
64 AATTAAATATTGTACAGATCACTCATGCGAATCATGTACCTTTATGGTACATGAGCTGGAGT
1517387 CATCACCATA
Statistics
Matches: 110, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
130 108 0.98
131 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.34
Consensus pattern (130 bp):
TTGAATATAGTACAAATCACTCATATGACTCATGTACCTATGTGGTCTATGAGCTGGAGTGATAA
TTAAATATTGTACAGATCACTCATGCGAATCATGTACCTTTATGGTACATGAGCTGGAGTGATAA
Found at i:1520941 original size:42 final size:42
Alignment explanation
Indices: 1520894--1520996 Score: 170
Period size: 42 Copynumber: 2.5 Consensus size: 42
1520884 TGATTTGCTA
*
1520894 AAGGTAGTATCGATACCGTTTGAAGAATGTATCGATACTGAG
1 AAGGTAGTATCGATACCATTTGAAGAATGTATCGATACTGAG
* *
1520936 AAGGTAGTATTGATACTATTTGAAGAATGTATCGATACTGAG
1 AAGGTAGTATCGATACCATTTGAAGAATGTATCGATACTGAG
*
1520978 ATGGTAGTATCGATACCAT
1 AAGGTAGTATCGATACCAT
1520997 GGGTATGGTA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (42 bp):
AAGGTAGTATCGATACCATTTGAAGAATGTATCGATACTGAG
Found at i:1520945 original size:20 final size:20
Alignment explanation
Indices: 1520922--1520993 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
1520912 TTTGAAGAAT
1520922 GTATCGATACTGAGAAGGTA
1 GTATCGATACTGAGAAGGTA
* *
1520942 GTATTGATACT-ATTTGAA-GAA
1 GTATCGATACTGA---GAAGGTA
*
1520963 TGTATCGATACTGAGATGGTA
1 -GTATCGATACTGAGAAGGTA
1520984 GTATCGATAC
1 GTATCGATAC
1520994 CATGGGTATG
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
19 1 0.02
20 22 0.54
21 4 0.10
22 13 0.32
23 1 0.02
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.32
Consensus pattern (20 bp):
GTATCGATACTGAGAAGGTA
Found at i:1520974 original size:22 final size:22
Alignment explanation
Indices: 1520900--1520974 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 22
1520890 GCTAAAGGTA
**
1520900 GTATCGATACCGTTTGAAGAAT
1 GTATCGATACTATTTGAAGAAT
*
1520922 GTATCGATACTGA---GAAG-GT
1 GTATCGATACT-ATTTGAAGAAT
*
1520941 AGTATTGATACTATTTGAAGAAT
1 -GTATCGATACTATTTGAAGAAT
1520964 GTATCGATACT
1 GTATCGATACT
1520975 GAGATGGTAG
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
19 2 0.05
20 14 0.34
22 24 0.59
23 1 0.02
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (22 bp):
GTATCGATACTATTTGAAGAAT
Found at i:1521885 original size:21 final size:21
Alignment explanation
Indices: 1521856--1521905 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
1521846 GTCGAGGGTT
1521856 TTATGTGGTCCTCCGGGACAA
1 TTATGTGGTCCTCCGGGACAA
* * *
1521877 TTATTTGGTCTTTCGGGACAA
1 TTATGTGGTCCTCCGGGACAA
*
1521898 ATATGTGG
1 TTATGTGG
1521906 CACTTCGGTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.20, C:0.16, G:0.28, T:0.36
Consensus pattern (21 bp):
TTATGTGGTCCTCCGGGACAA
Found at i:1521912 original size:21 final size:21
Alignment explanation
Indices: 1521888--1521955 Score: 68
Period size: 21 Copynumber: 3.1 Consensus size: 21
1521878 TATTTGGTCT
1521888 TTCGGGACAAATATGTGGCAC
1 TTCGGGACAAATATGTGGCAC
1521909 TTCGGTG-CAAACCTATGTGGTCA-
1 TTCGG-GACAAA--TATGTGG-CAC
* *
1521932 TTCGGAACAATTATGTGGCAC
1 TTCGGGACAAATATGTGGCAC
1521953 TTC
1 TTC
1521956 AATGCAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
20 2 0.05
21 19 0.49
22 1 0.03
23 15 0.38
24 2 0.05
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (21 bp):
TTCGGGACAAATATGTGGCAC
Found at i:1525887 original size:24 final size:23
Alignment explanation
Indices: 1525852--1525934 Score: 60
Period size: 24 Copynumber: 3.4 Consensus size: 23
1525842 TATAGTATTT
1525852 TTATT-TTGTAAATTAAAAGATAA
1 TTATTATT-TAAATTAAAAGATAA
* *
1525875 TTTTTAATTTAAATATTAATAGGATAA
1 TTATT-ATTT-AA-ATTAA-AAGATAA
* *
1525902 TTATTATTTAATTTAAAAAGATAT
1 TTATTATTTAAATT-AAAAGATAA
*
1525926 TTGTTATTT
1 TTATTATTT
1525935 TTTAATTTTA
Statistics
Matches: 47, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
23 4 0.09
24 16 0.34
25 8 0.17
26 9 0.19
27 10 0.21
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (23 bp):
TTATTATTTAAATTAAAAGATAA
Found at i:1528175 original size:2 final size:2
Alignment explanation
Indices: 1528152--1528201 Score: 57
Period size: 2 Copynumber: 25.5 Consensus size: 2
1528142 ATTCAAACTT
* * * *
1528152 TA TA TA TT TA TC TA TA TT TA TA TA TG TA -A TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1528193 TA TA TA TA T
1 TA TA TA TA T
1528202 GAACAGAACT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (2 bp):
TA
Found at i:1531228 original size:6 final size:6
Alignment explanation
Indices: 1531217--1531254 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
1531207 TTTTCCATTC
1531217 ATTGGG ATTGGG ATTGGG ATTGGG ATTGGG ATTGGG AT
1 ATTGGG ATTGGG ATTGGG ATTGGG ATTGGG ATTGGG AT
1531255 GCGGTGGAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.18, C:0.00, G:0.47, T:0.34
Consensus pattern (6 bp):
ATTGGG
Found at i:1536678 original size:15 final size:15
Alignment explanation
Indices: 1536658--1536717 Score: 86
Period size: 15 Copynumber: 4.0 Consensus size: 15
1536648 TAATAAGGTT
*
1536658 ATTTATTTTAAAATA
1 ATTTATTATAAAATA
1536673 ATTTATTATAAAATA
1 ATTTATTATAAAATA
1536688 ATTTACTT-TAAAATA
1 ATTTA-TTATAAAATA
*
1536703 AATTATTATAAAATA
1 ATTTATTATAAAATA
1536718 TGGATTGATT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
14 2 0.05
15 37 0.90
16 2 0.05
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTTATTATAAAATA
Found at i:1536698 original size:30 final size:30
Alignment explanation
Indices: 1536658--1536717 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
1536648 TAATAAGGTT
* *
1536658 ATTTATTTTAAAATAATTTATTATAAAATA
1 ATTTACTTTAAAATAAATTATTATAAAATA
1536688 ATTTACTTTAAAATAAATTATTATAAAATA
1 ATTTACTTTAAAATAAATTATTATAAAATA
1536718 TGGATTGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (30 bp):
ATTTACTTTAAAATAAATTATTATAAAATA
Found at i:1536758 original size:33 final size:32
Alignment explanation
Indices: 1536635--1536772 Score: 119
Period size: 33 Copynumber: 4.3 Consensus size: 32
1536625 TATTAAAATA
*
1536635 ATTTT-AAATAATTTA--ATAAGG-TT-ATTT
1 ATTTTAAAATAATTTATTATATGGATTGATTT
* * *
1536662 ATTTTAAAATAATTTATTATA--AAATAATTT
1 ATTTTAAAATAATTTATTATATGGATTGATTT
* *
1536692 ACTTTAAAATAAATTATTATAAAATATGGATTGATTT
1 ATTTTAAAAT-AA-T-TTAT--TATATGGATTGATTT
1536729 ATTTTAAAATAATTTATTAGTATGGATTGATTT
1 ATTTTAAAATAATTTATTA-TATGGATTGATTT
1536762 ATTTTAAAATA
1 ATTTTAAAATA
1536773 TGGATTGATT
Statistics
Matches: 89, Mismatches: 9, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
27 5 0.06
28 10 0.11
29 1 0.01
30 16 0.18
31 2 0.02
32 2 0.02
33 28 0.31
34 4 0.04
35 4 0.04
36 2 0.02
37 15 0.17
ACGTcount: A:0.44, C:0.01, G:0.07, T:0.49
Consensus pattern (32 bp):
ATTTTAAAATAATTTATTATATGGATTGATTT
Found at i:1536763 original size:18 final size:18
Alignment explanation
Indices: 1536740--1536787 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
1536730 TTTTAAAATA
*
1536740 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
1536758 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
1536780 ATTTATTA
1 ATTTATTA
1536788 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:1536837 original size:32 final size:32
Alignment explanation
Indices: 1536796--1537331 Score: 314
Period size: 32 Copynumber: 16.7 Consensus size: 32
1536786 TATTGTAGTT
1536796 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
1536828 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
1536851 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* *
1536882 TTATGGATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
**
1536914 GTATGGATTGATTTATTTTAAA-ATATGGATT-
1 GTATGGATTGATTTATTTTAAATA-ATTTATTA
** * * *
1536945 G-ATTTATT-ATTGTAGTTGTATGGATTGATTTATT-
1 GTATGGATTGATT-TA-TT-T-T-AAATAATTTATTA
* * * * *
1536979 -T-T-AAATAATTTATTAGTATGAATTGATTTATTTTAAA
1 GTATGGATTGATTTATT--T-T-AAATAATTTA--TT--A
*
1537016 ATATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
1537048 GTATGTATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
1537080 GTATGGATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* **
1537112 GTATGGATTAATTTATTTTAAA-ATATGGATT-
1 GTATGGATTGATTTATTTTAAATA-ATTTATTA
** * * *
1537143 G-ATTTATT-ATTGTAGTTGTATGGATTGATTTATT-
1 GTATGGATTGATT-TA-TT-T-T-AAATAATTTATTA
* * * * * *
1537177 -T-T-AAATAATTTATTAGTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATT--T-T-AAATAATTTA--TT--A
*
1537214 ATATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
1537246 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* *
1537278 GTATAGATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
**
1537310 GTATATATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
1537332 ATATAGATTG
Statistics
Matches: 413, Mismatches: 45, Indels: 92
0.75 0.08 0.17
Matches are distributed among these distances:
22 14 0.03
23 4 0.01
25 1 0.00
26 3 0.01
28 3 0.01
29 7 0.02
30 14 0.03
31 16 0.04
32 280 0.68
33 10 0.02
34 20 0.05
36 15 0.04
37 2 0.00
38 4 0.01
39 2 0.00
40 18 0.04
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.54
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:1536854 original size:22 final size:22
Alignment explanation
Indices: 1536829--1536871 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1536819 AATTTATTAG
1536829 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1536851 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1536872 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1536879 original size:14 final size:14
Alignment explanation
Indices: 1536860--1536913 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
1536850 ATATGGATTG
1536860 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
1536874 ATTTATTATTATGGATTG
1 ATTTATT-TTA---AATA
1536892 ATTTATTTTAAATA
1 ATTTATTTTAAATA
1536906 ATTTATTT
1 ATTTATTT
1536914 GTATGGATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 17 0.53
15 3 0.09
17 3 0.09
18 9 0.28
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:1536922 original size:166 final size:165
Alignment explanation
Indices: 1536716--1537469 Score: 897
Period size: 166 Copynumber: 4.7 Consensus size: 165
1536706 TATTATAAAA
1536716 TATGGATTGATTTATTTTAAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA
1 TATGGATTGATTTATTTT-AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA
1536781 TTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTT
65 TTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTT
*
1536846 TAAAATATGGATTGATTTATTTTAAATAATTTATTAT
130 TAAAATATGGATTGATTTA-TTTAAATAATTTATTAG
*
1536883 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
1536948 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTT
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
1537013 AAAATATGGATTGATTTATTTTAAATAATTTATTAG
131 AAAATATGGATTGATTTA-TTTAAATAATTTATTAG
* *
1537049 TATGTATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA--TGG
* * * *** *
1537114 ATGGATTAATTTATTTTA-AAATATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGA
60 ATTGATTTA-TTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGA
** ** * ** * * *
1537171 TTTATTTT-AAATAATTTATTAGTATGGATTGATTTATTTTA-AAA
123 TTTATTTTAAAAT-ATGGATT-G-ATTTATTTAAATAATTTATTAG
1537215 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT--AA-AT--A---AT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
* **
1537272 TTATTA--GTA----TA--GATTGATTTATTTTAAATAATTTATTTGTATATATTGATTTATTTT
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
* *
1537329 AAAATATAGATTGATTTA-TT--AT--TGTAGTT-G
131 AAAATATGGATTGATTTATTTAAATAATTTA-TTAG
*
1537359 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1537424 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTA
66 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTA
1537470 TTATAGTTGT
Statistics
Matches: 510, Mismatches: 40, Indels: 81
0.81 0.06 0.13
Matches are distributed among these distances:
143 3 0.01
144 60 0.12
145 1 0.00
146 6 0.01
147 3 0.01
148 5 0.01
149 6 0.01
150 25 0.05
151 7 0.01
152 12 0.02
154 3 0.01
155 1 0.00
157 1 0.00
158 2 0.00
159 1 0.00
160 26 0.05
162 2 0.00
165 4 0.01
166 269 0.53
167 32 0.06
168 7 0.01
170 4 0.01
172 23 0.05
173 7 0.01
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (165 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
AAAATATGGATTGATTTATTTAAATAATTTATTAG
Found at i:1537015 original size:198 final size:198
Alignment explanation
Indices: 1536851--1537469 Score: 1065
Period size: 198 Copynumber: 3.2 Consensus size: 198
1536841 TATTTTAAAA
*
1536851 TATGGATTGATTTATTTTAAATAATTTATTATTATGGATTGATTTATTTTAAATAATTTATTTGT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGT
1536916 ATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTT
66 ATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTT
* *
1536981 AAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTAT
131 AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTGATTTTAAATAATTTAT
1537046 TAG
196 TAG
*
1537049 TATGTATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGT
*
1537114 ATGGATTAATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTT
66 ATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTT
*
1537179 AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTAT
131 AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTGATTTTAAATAATTTAT
1537244 TAG
196 TAG
*
1537247 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAATAATTTATTTGT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGT
** *
1537312 ATATATTGATTTATTTTAAAATATAGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTT
66 ATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTT
*
1537377 AAATAATTTATTAGTATGGATTGATTTATTTTAAAATAT--A--GATTGA-TTT--ATTATTGTA
131 AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTGATTTTAAATAATT-TA
1537435 GTT-G
195 -TTAG
1537439 TATGGATTGATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTATTA
1537470 TTATAGTTGT
Statistics
Matches: 407, Mismatches: 12, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
191 5 0.01
192 34 0.08
193 5 0.01
194 5 0.01
196 1 0.00
198 357 0.88
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (198 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGT
ATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTT
AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTGATTTTAAATAATTTAT
TAG
Found at i:1537020 original size:22 final size:22
Alignment explanation
Indices: 1536995--1537037 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1536985 AATTTATTAG
1536995 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
1537017 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
1537038 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:1537123 original size:18 final size:18
Alignment explanation
Indices: 1537070--1537129 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
1537060 TTATTTTAAA
*
1537070 TAATTTATTAGTATGGAT
1 TAATTTATTTGTATGGAT
* *
1537088 TGATTTATTT-TA---AA
1 TAATTTATTTGTATGGAT
1537102 TAATTTATTTGTATGGAT
1 TAATTTATTTGTATGGAT
1537120 TAATTTATTT
1 TAATTTATTT
1537130 TAAAATATGG
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
14 10 0.30
15 2 0.06
17 2 0.06
18 19 0.58
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.57
Consensus pattern (18 bp):
TAATTTATTTGTATGGAT
Found at i:1537171 original size:80 final size:83
Alignment explanation
Indices: 1537049--1537299 Score: 357
Period size: 80 Copynumber: 3.0 Consensus size: 83
1537039 AATTTATTAG
* * *
1537049 TATGTATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGT
1 TATGGATTGATTTA-TTT-AAT-ATGTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGT
*
1537114 ATGGATTAATTTATTTTAAAA
63 ATGGATTGATTTATTTTAAAA
1537135 TATGGATTGATTTA-TT-AT-TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTAT
1 TATGGATTGATTTATTTAATATGTA-TTAGTATGGATTGATTTATTTTAAATAATTTATTAGTAT
1537196 GGATTGATTTATTTTAAAA
65 GGATTGATTTATTTTAAAA
*
1537215 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGT
1 TATGGATTGATTTA-TTT-AAT-ATGTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGT
*
1537280 ATAGATTGATTTATTTTAAA
63 ATGGATTGATTTATTTTAAA
1537300 TAATTTATTT
Statistics
Matches: 151, Mismatches: 6, Indels: 16
0.87 0.03 0.09
Matches are distributed among these distances:
80 70 0.46
81 2 0.01
82 4 0.03
84 4 0.03
85 2 0.01
86 69 0.46
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (83 bp):
TATGGATTGATTTATTTAATATGTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATG
GATTGATTTATTTTAAAA
Found at i:1537218 original size:22 final size:22
Alignment explanation
Indices: 1537193--1537235 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1537183 AATTTATTAG
1537193 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1537215 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1537236 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1537293 original size:18 final size:18
Alignment explanation
Indices: 1537238--1537349 Score: 60
Period size: 18 Copynumber: 6.4 Consensus size: 18
1537228 ATTTTAAATA
*
1537238 ATTTATTAGTATGGATTG
1 ATTTATTAGTATAGATTG
* *
1537256 ATTTATT--T-TA-AATA
1 ATTTATTAGTATAGATTG
1537270 ATTTATTAGTATAGATTG
1 ATTTATTAGTATAGATTG
* *
1537288 ATTTATT--T-TA-AATA
1 ATTTATTAGTATAGATTG
* *
1537302 ATTTATTTGTATATATTG
1 ATTTATTAGTATAGATTG
*
1537320 ATTTATTTTAAAATATAGATTG
1 ATTTA--TT--AGTATAGATTG
1537342 ATTTATTA
1 ATTTATTA
1537350 TTGTAGTTGT
Statistics
Matches: 70, Mismatches: 12, Indels: 24
0.66 0.11 0.23
Matches are distributed among these distances:
14 18 0.26
15 3 0.04
16 4 0.06
17 4 0.06
18 24 0.34
20 4 0.06
22 13 0.19
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (18 bp):
ATTTATTAGTATAGATTG
Found at i:1537367 original size:26 final size:25
Alignment explanation
Indices: 1537337--1537454 Score: 89
Period size: 26 Copynumber: 4.5 Consensus size: 25
1537327 TTAAAATATA
1537337 GATTGATTTATTATTGTAGTTGTATG
1 GATTGATTTATTATTGTA-TTGTATG
*
1537363 GATTGATTTATTTTAAATAATTTATTAGTATG
1 GATTGATTTA--TT--AT--TGTATT-GTATG
*** *
1537395 GATTGATTTA-T-TT-TAAAATATA
1 GATTGATTTATTATTGTATTGTATG
1537417 GATTGATTTATTATTGTAGTTGTATG
1 GATTGATTTATTATTGTA-TTGTATG
1537443 GATTGATTTATT
1 GATTGATTTATT
1537455 TTAAATAATT
Statistics
Matches: 72, Mismatches: 9, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
22 13 0.18
23 3 0.04
24 3 0.04
25 2 0.03
26 26 0.36
28 2 0.03
29 1 0.01
30 2 0.03
31 2 0.03
32 18 0.25
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (25 bp):
GATTGATTTATTATTGTATTGTATG
Found at i:1537376 original size:80 final size:80
Alignment explanation
Indices: 1537278--1537475 Score: 351
Period size: 80 Copynumber: 2.5 Consensus size: 80
1537268 TAATTTATTA
* * *
1537278 GTATAGATTGATTTATTTTAAATAATTTATTTGTATATATTGATTTATTTTAAAATATAGATTGA
1 GTATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATAGATTGA
1537343 TTTATTATTGTAGTT
66 TTTATTATTGTAGTT
*
1537358 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGA
1 GTATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATAGATTGA
1537423 TTTATTATTGTAGTT
66 TTTATTATTGTAGTT
*
1537438 GTATGGATTGATTTATTTTAAATAATTTATTATTATAG
1 GTATGGATTGATTTATTTTAAATAATTTATTAGTATAG
1537476 TTGTATGGAT
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 112 1.00
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (80 bp):
GTATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATAGATTGA
TTTATTATTGTAGTT
Found at i:1537386 original size:40 final size:40
Alignment explanation
Indices: 1537342--1537491 Score: 157
Period size: 40 Copynumber: 3.8 Consensus size: 40
1537332 ATATAGATTG
1537342 ATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATA
1 ATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATA
* * * * * * *
1537382 ATTTATTA--GTA--TGGATTGATTTATTTTAAAATATAGATTG
1 ATTTATTATTGTAGTTGTATGGATTGA-TTT--ATTTTA-AATA
1537422 ATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATA
1 ATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATA
*
1537462 ATTTATTATTATAGTTGTATGGATT-ATTTA
1 ATTTATTATTGTAGTTGTATGGATTGATTTA
1537492 AATTTCAATA
Statistics
Matches: 87, Mismatches: 15, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
36 9 0.10
37 3 0.03
38 3 0.03
39 9 0.10
40 44 0.51
41 4 0.05
42 3 0.03
43 3 0.03
44 9 0.10
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (40 bp):
ATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATA
Found at i:1537519 original size:31 final size:31
Alignment explanation
Indices: 1537484--1537542 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
1537474 AGTTGTATGG
* *
1537484 ATTATTTAAATTTCAATATTGTAAAACTAAA
1 ATTATTTAAATCTCAATATTGCAAAACTAAA
*
1537515 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAATATTGCAAAACT
1537543 CTTTTAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAATATTGCAAAACTAAA
Found at i:1541263 original size:252 final size:252
Alignment explanation
Indices: 1540818--1541293 Score: 826
Period size: 252 Copynumber: 1.9 Consensus size: 252
1540808 GTGTTCGGGT
* * * *
1540818 TCTATGGCGAATTGGTTTCTTTGGTTTGAGATGGATAATATGGTTGTGCAGAAATAAAACCGGAT
1 TCTATGGCAAATTAGTTTCTTTGGTTTGAGATGGACAATATGGTTGTGCAGAAATAAAACCAGAT
1540883 TCAAGGGAGCTTCTTTTTCGTTAGATCAGATCTTTTATAAAGCTATGATCCTGATTGGGTTTTAG
66 TCAAGGGAGCTTCTTTTTCGTTAGATCAGATCTTTTATAAAGCTATGATCCTGATTGGGTTTTAG
*
1540948 GCAAACTCTTTATGGCCAATGCTACTCCCATCGGTTAATGATTTTGTGTGTAATCCGGAAGCCAT
131 GCAAACTCTTTATGGCCAATGCTACTCCCATCGGTTAATGATTTTGTGTGTAATCCAGAAGCCAT
* *
1541013 TGTGTATGGTGTCCGATGATTGTCAATACAGAGCAGTACTAGTTGGTGTGGTGTCAA
196 TATGTATGGTGTCCGATGATTATCAATACAGAGCAGTACTAGTTGGTGTGGTGTCAA
* * *
1541070 TCTATGGCAAATTAGTTTTTTTGGTTTGAGCTGGACAATCTGGTTGTGCAGAAATAAAACCAGAT
1 TCTATGGCAAATTAGTTTCTTTGGTTTGAGATGGACAATATGGTTGTGCAGAAATAAAACCAGAT
* * *
1541135 TCAAGGGAGCTTCTTTTTCGTTAGATCATATCTTTTATAAAGCTATGATCGTGATTGGGTTTTGG
66 TCAAGGGAGCTTCTTTTTCGTTAGATCAGATCTTTTATAAAGCTATGATCCTGATTGGGTTTTAG
*
1541200 GCGAACTCTTTATGGCCAATGCTACTCCCATCGGTTAATGATTTTGTGTGTAATCCAGAAGCCAT
131 GCAAACTCTTTATGGCCAATGCTACTCCCATCGGTTAATGATTTTGTGTGTAATCCAGAAGCCAT
1541265 TATGTATGGTGTCCGATGATTATCAATAC
196 TATGTATGGTGTCCGATGATTATCAATAC
1541294 GGATGTCCAG
Statistics
Matches: 210, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
252 210 1.00
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (252 bp):
TCTATGGCAAATTAGTTTCTTTGGTTTGAGATGGACAATATGGTTGTGCAGAAATAAAACCAGAT
TCAAGGGAGCTTCTTTTTCGTTAGATCAGATCTTTTATAAAGCTATGATCCTGATTGGGTTTTAG
GCAAACTCTTTATGGCCAATGCTACTCCCATCGGTTAATGATTTTGTGTGTAATCCAGAAGCCAT
TATGTATGGTGTCCGATGATTATCAATACAGAGCAGTACTAGTTGGTGTGGTGTCAA
Found at i:1550221 original size:21 final size:22
Alignment explanation
Indices: 1550192--1550249 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
1550182 TTTAACCCTT
* *
1550192 TTAAATTTTTTAAAA-TTCTCA
1 TTAAATTTTTAAAAATTTCCCA
*
1550213 TTAATTTTTTAAAAATTTCCCA
1 TTAAATTTTTAAAAATTTCCCA
* *
1550235 TTAAATATTAAAAAA
1 TTAAATTTTTAAAAA
1550250 ATTAAATTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.47
Consensus pattern (22 bp):
TTAAATTTTTAAAAATTTCCCA
Found at i:1550992 original size:16 final size:16
Alignment explanation
Indices: 1550955--1550993 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
1550945 ATCATGACAT
1550955 TTTTAATTATTTTTAAA
1 TTTT-ATTATTTTTAAA
*
1550972 -ATTATTATTTTTAAA
1 TTTTATTATTTTTAAA
1550987 TTTTATT
1 TTTTATT
1550994 CAACTAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTATTATTTTTAAA
Found at i:1560721 original size:213 final size:213
Alignment explanation
Indices: 1560334--1560765 Score: 839
Period size: 213 Copynumber: 2.0 Consensus size: 213
1560324 AAAATTTTTA
1560334 TTATCAAACAAGATTACAACCAAACCAAATAAACCTTTTAGTACAATAGACCAAACCTTCAACTG
1 TTATCAAACAAGATTACAACCAAACCAAATAAACCTTTTAGTACAATAGACCAAACCTTCAACTG
1560399 AACAACCCATCTACCCCAATCTCCCACACCAGTAGCTTAGCACCCCTAACCTATACCTGATTTAG
66 AACAACCCATCTACCCCAATCTCCCACACCAGTAGCTTAGCACCCCTAACCTATACCTGATTTAG
1560464 CTAAACAATCTGTTTCCCCATTAATCATCTATTAATAGGCCTAATAATAACATTAAAATGCATCA
131 CTAAACAATCTGTTTCCCCATTAATCATCTATTAATAGGCCTAATAATAACATTAAAATGCATCA
1560529 CAGACTTCTGAATTTCTG
196 CAGACTTCTGAATTTCTG
1560547 TTATCAAACAAGATTACAACCAAACCAAATAAACCTTTTAGTACAATAGACCAAACCTTCAACTG
1 TTATCAAACAAGATTACAACCAAACCAAATAAACCTTTTAGTACAATAGACCAAACCTTCAACTG
1560612 AACAACCCATCTACCCCAATCTCCCACACCAGTAGCTTAGCACCCCTAACCTATACCTGATTTAG
66 AACAACCCATCTACCCCAATCTCCCACACCAGTAGCTTAGCACCCCTAACCTATACCTGATTTAG
1560677 CTAAACAATCTGTTTCCCCATTAACTCATCTATTAATA-GCCTAATAATAACATTAAAATGCATC
131 CTAAACAATCTGTTTCCCCATTAA-TCATCTATTAATAGGCCTAATAATAACATTAAAATGCATC
1560741 ACAGACTTCTGAATTTCTG
195 ACAGACTTCTGAATTTCTG
*
1560760 TGATCA
1 TTATCA
1560766 TATCGACATA
Statistics
Matches: 217, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
213 204 0.94
214 13 0.06
ACGTcount: A:0.38, C:0.28, G:0.07, T:0.27
Consensus pattern (213 bp):
TTATCAAACAAGATTACAACCAAACCAAATAAACCTTTTAGTACAATAGACCAAACCTTCAACTG
AACAACCCATCTACCCCAATCTCCCACACCAGTAGCTTAGCACCCCTAACCTATACCTGATTTAG
CTAAACAATCTGTTTCCCCATTAATCATCTATTAATAGGCCTAATAATAACATTAAAATGCATCA
CAGACTTCTGAATTTCTG
Found at i:1564237 original size:249 final size:246
Alignment explanation
Indices: 1563710--1564243 Score: 697
Period size: 252 Copynumber: 2.2 Consensus size: 246
1563700 ACTTATCACA
1563710 TATTAAATAAAAATA--TTTTTATTA-T-TCGAGTCGGGTC-GG---G-TTTCTAATTCATTTAC
1 TATTAAATAAAAATATTTTTTTATTATTCTCG-GTCGGGTCGGGTCAGATTTCTAATTCATTTAC
1563766 GGGTCAGGTCGGTGAAACTTTATTTTGGTCGGGTCGGTTTTTTAAGTGTGATATTCGGGTAGGGT
65 GGGTCAGGTCGGTGAAACTTTATTTTGGTCGGGTCGGTTTTTTAAGTGTGATATTCGGGTAGGGT
* * *
1563831 CGAGTCGGGTTTAGAGTGAAAAATACCCGACCCGAAAAATATATAATTTTACCTTATATATTTAG
130 ---GTCGGGTTTAGAGTGAAAAATACCCAACCCAAAAAATATATAATTTTACCTTATATATTAAG
1563896 ATATAATTACAATAATACCCCTCTATATATAATTTTTTCAATTAAGTCATTGTTT
192 ATATAATTACAATAATACCCCTCTATATATAATTTTTTCAATTAAGTCATTGTTT
* *
1563951 TATTAAATAAAAATATTTTTTTATTATTCTGGGTCGGGTCGGGTCAGATTTCTAATTCATATATT
1 TATTAAATAAAAATATTTTTTTATTATTCTCGGTCGGGTCGGGTCAGATTTCTAATTCAT-T-TA
* * *
1564016 CGGGTCGGGTCAGGTGATACTTTATTTTGTCTGGTTGGGTCGGTTTTTTTAAGTGTGATATTC-G
64 CGGGTCAGGTC-GGTGAAACTTTA--TT-T-TGGTCGGGTCGG-TTTTTTAAGTGTGATATTCGG
* * *
1564080 GTCGGGT-TTGGGTTTAGGGTGAAAAATACCCAACCCAAAAAATATATAATTTTACCTTATAT-T
123 GTAGGGTGTCGGGTTTAGAGTGAAAAATACCCAACCCAAAAAATATATAATTTTACCTTATATAT
*
1564143 TAAGA-ATAATTACAATAATACCCCTCTATA-ATATTTTTTTCAATTAAGTC--TGCTTTT
188 TAAGATATAATTACAATAATACCCCTCTATATATAATTTTTTCAATTAAGTCATTG--TTT
*
1564200 TATTGAATAAAAATAATTTTTTTATTATT-TCGGTCGGGTCGGGT
1 TATTAAATAAAAAT-ATTTTTTTATTATTCTCGGTCGGGTCGGGT
1564244 GAAACTTTAT
Statistics
Matches: 259, Mismatches: 14, Indels: 32
0.85 0.05 0.10
Matches are distributed among these distances:
241 15 0.06
243 9 0.03
244 9 0.03
245 4 0.02
247 2 0.01
248 1 0.00
249 61 0.24
250 40 0.15
251 16 0.06
252 62 0.24
254 2 0.01
255 1 0.00
256 18 0.07
257 19 0.07
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (246 bp):
TATTAAATAAAAATATTTTTTTATTATTCTCGGTCGGGTCGGGTCAGATTTCTAATTCATTTACG
GGTCAGGTCGGTGAAACTTTATTTTGGTCGGGTCGGTTTTTTAAGTGTGATATTCGGGTAGGGTG
TCGGGTTTAGAGTGAAAAATACCCAACCCAAAAAATATATAATTTTACCTTATATATTAAGATAT
AATTACAATAATACCCCTCTATATATAATTTTTTCAATTAAGTCATTGTTT
Found at i:1564642 original size:17 final size:18
Alignment explanation
Indices: 1564617--1564663 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
1564607 TATGGAATTG
*
1564617 GATTCCAATTCC-TGACA
1 GATTCCAATTCCTTCACA
*
1564634 GATTTCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
1564652 GATTCCAATTCC
1 GATTCCAATTCC
1564664 ATCAGAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:1572257 original size:77 final size:77
Alignment explanation
Indices: 1572119--1572277 Score: 302
Period size: 77 Copynumber: 2.1 Consensus size: 77
1572109 AAATTTTATT
1572119 AAGAAAAAACCCAGAAAATTGGGAAAAAGATAAATACAAAAACAAGATCAACCAAAGAAACATCT
1 AAGAAAAAACCCAGAAAATTGGGAAAAAGATAAATACAAAAACAAGATCAACCAAAGAAACATCT
1572184 CACATAAGATTA
66 CACATAAGATTA
1572196 AAGAAAAAACCCAGAAAATTGGGAAAAAGATAAATACAAAAAC-AGATCAACCAAAGAAAACATC
1 AAGAAAAAACCCAGAAAATTGGGAAAAAGATAAATACAAAAACAAGATCAACCAAAG-AAACATC
1572260 TCACATAAGATTA
65 TCACATAAGATTA
1572273 AAGAA
1 AAGAA
1572278 CAAAGATTTA
Statistics
Matches: 81, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
76 13 0.16
77 68 0.84
ACGTcount: A:0.60, C:0.15, G:0.12, T:0.13
Consensus pattern (77 bp):
AAGAAAAAACCCAGAAAATTGGGAAAAAGATAAATACAAAAACAAGATCAACCAAAGAAACATCT
CACATAAGATTA
Found at i:1575893 original size:38 final size:38
Alignment explanation
Indices: 1575851--1575929 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 38
1575841 AAGATTACAA
*
1575851 TTATAGTCATAAATTAAATATATAATAAAGATATCTTC
1 TTATAGTCATAAATTAAACATATAATAAAGATATCTTC
** * * *
1575889 TTATAGTTGTAAATTAAACATATAATGAGGATATTTTC
1 TTATAGTCATAAATTAAACATATAATAAAGATATCTTC
1575927 TTA
1 TTA
1575930 AAATGGTTAG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (38 bp):
TTATAGTCATAAATTAAACATATAATAAAGATATCTTC
Found at i:1581865 original size:3 final size:3
Alignment explanation
Indices: 1581857--1581891 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
1581847 GAAACTCCAA
1581857 AAG AAG AAGG AAG AAG AAG AA- AAG AAG AAG AAG AA
1 AAG AAG AA-G AAG AAG AAG AAG AAG AAG AAG AAG AA
1581892 AAATGATGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1581883 original size:11 final size:11
Alignment explanation
Indices: 1581855--1581888 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
1581845 GTGAAACTCC
1581855 AAAAGAAGAAG
1 AAAAGAAGAAG
*
1581866 -GAAGAAGAAG
1 AAAAGAAGAAG
1581876 AAAAGAAGAAG
1 AAAAGAAGAAG
1581887 AA
1 AA
1581889 GAAAAATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (11 bp):
AAAAGAAGAAG
Found at i:1581885 original size:14 final size:14
Alignment explanation
Indices: 1581857--1581893 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
1581847 GAAACTCCAA
*
1581857 AAGAAG-AAGGAAG
1 AAGAAGAAAAGAAG
1581870 AAGAAGAAAAGAAG
1 AAGAAGAAAAGAAG
1581884 AAGAAGAAAA
1 AAGAAGAAAA
1581894 ATGATGTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (14 bp):
AAGAAGAAAAGAAG
Found at i:1585480 original size:26 final size:26
Alignment explanation
Indices: 1585451--1585508 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
1585441 GGAAAACATG
* *
1585451 AATAAAT-GAAAAAAATGAAGAATAAA
1 AATAAATAAAAAAAAAT-AAAAATAAA
*
1585477 AATAAGTAAAAAAAAATAAAAATAAA
1 AATAAATAAAAAAAAATAAAAATAAA
1585503 AATAAA
1 AATAAA
1585509 AGGAAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 19 0.70
27 8 0.30
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.16
Consensus pattern (26 bp):
AATAAATAAAAAAAAATAAAAATAAA
Found at i:1585488 original size:10 final size:10
Alignment explanation
Indices: 1585471--1585536 Score: 55
Period size: 10 Copynumber: 6.6 Consensus size: 10
1585461 AAAAATGAAG
1585471 AATAAAAATA
1 AATAAAAATA
* *
1585481 AGTAAAAAAA
1 AATAAAAATA
1585491 AATAAAAATA
1 AATAAAAATA
*
1585501 AA-AATAA-A
1 AATAAAAATA
**
1585509 AGGAAAAATA
1 AATAAAAATA
1585519 AATAAATAAATA
1 AAT-AA-AAATA
1585531 AATAAA
1 AATAAA
1585537 TGAAATATTA
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
8 2 0.05
9 8 0.19
10 21 0.49
11 4 0.09
12 8 0.19
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.17
Consensus pattern (10 bp):
AATAAAAATA
Found at i:1585497 original size:6 final size:6
Alignment explanation
Indices: 1585461--1585520 Score: 57
Period size: 6 Copynumber: 9.5 Consensus size: 6
1585451 AATAAATGAA
* * **
1585461 AAAAAT GAAGAAT AAAAAT AAGTAAAA AAAAAT AAAAAT AAAAAT AAAAGG
1 AAAAAT -AAAAAT AAAAAT AA--AAAT AAAAAT AAAAAT AAAAAT AAAAAT
1585512 AAAAAT AAA
1 AAAAAT AAA
1585521 TAAATAAATA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
6 33 0.77
7 5 0.12
8 5 0.12
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:1585515 original size:26 final size:27
Alignment explanation
Indices: 1585458--1585516 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
1585448 ATGAATAAAT
*
1585458 GAAAAAAATGAAGAATAAAAATAAGTAA
1 GAAAAAAATGAAAAATAAAAATAAG-AA
1585486 -AAAAAAAT-AAAAATAAAAATAA-AA
1 GAAAAAAATGAAAAATAAAAATAAGAA
*
1585510 GGAAAAA
1 GAAAAAA
1585517 TAAATAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 2 0.07
25 5 0.18
26 13 0.46
27 8 0.29
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (27 bp):
GAAAAAAATGAAAAATAAAAATAAGAA
Found at i:1585523 original size:4 final size:4
Alignment explanation
Indices: 1585514--1585543 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
1585504 ATAAAAGGAA
1585514 AAAT AAAT AAAT AAAT AAAT AAAT GAAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT -AAAT A
1585544 TTAAAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:1585656 original size:12 final size:13
Alignment explanation
Indices: 1585628--1585663 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
1585618 TATATAATAT
1585628 AAACAAATAAAAA
1 AAACAAATAAAAA
*
1585641 AAACAAA-AACAA
1 AAACAAATAAAAA
1585653 AAACAAATAAA
1 AAACAAATAAA
1585664 TATATAAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.83, C:0.11, G:0.00, T:0.06
Consensus pattern (13 bp):
AAACAAATAAAAA
Found at i:1586481 original size:37 final size:37
Alignment explanation
Indices: 1586383--1586482 Score: 137
Period size: 37 Copynumber: 2.7 Consensus size: 37
1586373 GTGCTTGTGG
* * * * *
1586383 ATCATATCTTTAGGAGTTTAAATCATAGTATAACTCT
1 ATCATATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
* *
1586420 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCATATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
1586457 ATCATATTTTTAGGAGTTTGAATCCT
1 ATCATATTTTTAGGAGTTTGAATCCT
1586483 TGTAGGACAA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (37 bp):
ATCATATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
Found at i:1587536 original size:106 final size:106
Alignment explanation
Indices: 1587218--1587851 Score: 861
Period size: 106 Copynumber: 6.0 Consensus size: 106
1587208 GCATTGTTCC
* * * * * * *
1587218 GAGTCTAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACTAGGAAATTATTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * ** *
1587282 ACCAGCCGTCCCTTCATTTTGAAGTTGAACTTGTGTTGTCTC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTT
* * *
1587324 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAA-AT-TTTGTTGATAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * *
1587383 TCAGCTGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTT
* * * *
1587424 GGGTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
1587489 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTT
*
1587530 GAGTCCAATAT-CTTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTT-CGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* *
1587594 ACTAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTT
* * *
1587636 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
1587701 CTAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTT
* * *
1587742 GAGTCCAATATCCTTCGTTGTAAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
1587807 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTT
1587848 GAGT
1 GAGT
1587852 GGCACGATAT
Statistics
Matches: 475, Mismatches: 44, Indels: 18
0.88 0.08 0.03
Matches are distributed among these distances:
100 79 0.17
101 3 0.01
102 4 0.01
104 4 0.01
105 6 0.01
106 375 0.79
107 4 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.35
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTT
Found at i:1588695 original size:22 final size:22
Alignment explanation
Indices: 1588669--1588723 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
1588659 TTGTGTTTGG
1588669 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
1588691 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
1588713 TCAAAGGTTTG
1 TCAAAGGTTTG
1588724 ATAGAGTAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:1589339 original size:7 final size:7
Alignment explanation
Indices: 1589327--1589399 Score: 62
Period size: 7 Copynumber: 10.6 Consensus size: 7
1589317 TTTTTGTCCC
1589327 TTTTTCT
1 TTTTTCT
1589334 TTTTTC-
1 TTTTTCT
*
1589340 TTTTTGT
1 TTTTTCT
*
1589347 TCTTTCT
1 TTTTTCT
1589354 TTTTT-T
1 TTTTTCT
*
1589360 TGTTT-T
1 TTTTTCT
*
1589366 TTTTTGT
1 TTTTTCT
1589373 TTTTTGCT
1 TTTTT-CT
1589381 TCTTTTCT
1 T-TTTTCT
*
1589389 TTTTTGT
1 TTTTTCT
1589396 TTTT
1 TTTT
1589400 GCCCTTTTTC
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
6 15 0.28
7 30 0.56
8 5 0.09
9 4 0.07
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.84
Consensus pattern (7 bp):
TTTTTCT
Found at i:1589349 original size:9 final size:8
Alignment explanation
Indices: 1589327--1589393 Score: 59
Period size: 8 Copynumber: 8.5 Consensus size: 8
1589317 TTTTTGTCCC
1589327 TTTTTC-T
1 TTTTTCTT
1589334 TTTTTCTT
1 TTTTTCTT
1589342 TTTGTTCTT
1 TTT-TTCTT
1589351 TCTTTT-TT
1 T-TTTTCTT
*
1589359 TTGTT-TT
1 TTTTTCTT
*
1589366 TTTTTGTT
1 TTTTTCTT
*
1589374 TTTTGCTT
1 TTTTTCTT
*
1589382 CTTTTCTT
1 TTTTTCTT
1589390 TTTT
1 TTTT
1589394 GTTTTTGCCC
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
7 15 0.31
8 24 0.49
9 8 0.16
10 2 0.04
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.84
Consensus pattern (8 bp):
TTTTTCTT
Found at i:1589349 original size:16 final size:16
Alignment explanation
Indices: 1589330--1589392 Score: 67
Period size: 16 Copynumber: 3.9 Consensus size: 16
1589320 TTGTCCCTTT
1589330 TTCTTTTTTCTTTTTG
1 TTCTTTTTTCTTTTTG
1589346 TTCTTTCTTT-TTTTTG
1 TTCTTT-TTTCTTTTTG
* *
1589362 TTTTTTTTTGTTTTT-
1 TTCTTTTTTCTTTTTG
*
1589377 TGCTTCTTTTCTTTTT
1 TTCTT-TTTTCTTTTT
1589393 TGTTTTTGCC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
15 6 0.15
16 31 0.77
17 3 0.08
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (16 bp):
TTCTTTTTTCTTTTTG
Found at i:1589359 original size:39 final size:38
Alignment explanation
Indices: 1589334--1589411 Score: 73
Period size: 35 Copynumber: 2.2 Consensus size: 38
1589324 CCCTTTTTCT
1589334 TTTTTC-TTTTTG-TTC-TTTCTTTTTTTTGTTT-T---
1 TTTTTCTTTTTTGCTTCTTTTCTTTTTTTT-TTTGTCCC
*
1589366 TTTTTGTTTTTTGCTTCTTTTCTTTTTTGTTTTTG-CCC
1 TTTTTCTTTTTTGCTTCTTTTCTTTTTT-TTTTTGTCCC
1589404 TTTTTCTT
1 TTTTTCTT
1589412 CTGATTGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
32 5 0.14
33 6 0.17
34 3 0.08
35 13 0.36
36 2 0.06
38 7 0.19
ACGTcount: A:0.00, C:0.13, G:0.08, T:0.79
Consensus pattern (38 bp):
TTTTTCTTTTTTGCTTCTTTTCTTTTTTTTTTTGTCCC
Found at i:1589369 original size:26 final size:26
Alignment explanation
Indices: 1589326--1589400 Score: 80
Period size: 26 Copynumber: 2.7 Consensus size: 26
1589316 TTTTTTGTCC
*
1589326 CTTTTTCTTTTTTCTTTTTGTTCTTT-
1 CTTTTT-TTTTTTTTTTTTGTTCTTTG
*
1589352 CTTTTTTTTGTTTTTTTTTGTTTTTTG
1 CTTTTTTTT-TTTTTTTTTGTTCTTTG
1589379 CTTCTTTTCTTTTTTGTTTTTG
1 CTT-TTTT-TTTTTT-TTTTTG
1589401 CCCTTTTTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
25 3 0.07
26 20 0.48
27 3 0.07
28 8 0.19
29 8 0.19
ACGTcount: A:0.00, C:0.11, G:0.08, T:0.81
Consensus pattern (26 bp):
CTTTTTTTTTTTTTTTTTGTTCTTTG
Found at i:1589411 original size:22 final size:23
Alignment explanation
Indices: 1589365--1589407 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
1589355 TTTTTTGTTT
*
1589365 TTTTTTGTTTTTTGCTTCTTTTC
1 TTTTTTGTTTTTTGCCTCTTTTC
1589388 TTTTTTG-TTTTTGCC-CTTTT
1 TTTTTTGTTTTTTGCCTCTTTT
1589408 TCTTCTGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 7 0.37
23 7 0.37
ACGTcount: A:0.00, C:0.14, G:0.09, T:0.77
Consensus pattern (23 bp):
TTTTTTGTTTTTTGCCTCTTTTC
Found at i:1591181 original size:23 final size:22
Alignment explanation
Indices: 1591155--1591199 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1591145 TTCATCTGTT
1591155 CCTTCCAAGCTCTCTTGTCAGGC
1 CCTTCCAA-CTCTCTTGTCAGGC
* * *
1591178 CCTTCGAACTTTCTTTTCAGGC
1 CCTTCCAACTCTCTTGTCAGGC
1591200 TATGAGCTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.13, C:0.36, G:0.16, T:0.36
Consensus pattern (22 bp):
CCTTCCAACTCTCTTGTCAGGC
Found at i:1593892 original size:2 final size:2
Alignment explanation
Indices: 1593885--1593913 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1593875 AATAAATGAA
1593885 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 A
1593914 AATGAGTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1594771 original size:37 final size:37
Alignment explanation
Indices: 1594730--1594834 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
1594720 GTGCTTGTGG
* * *
1594730 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * *
1594767 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
*
1594804 ATCCTATTTTTAGAAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1594835 GACAAAAAGG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:1597319 original size:18 final size:18
Alignment explanation
Indices: 1597296--1597360 Score: 76
Period size: 18 Copynumber: 3.4 Consensus size: 18
1597286 ATGATAAACA
1597296 ATATCATACATAATAGTC
1 ATATCATACATAATAGTC
* **
1597314 ATATCATAGCCATGATAAAC
1 ATATCATA--CATAATAGTC
1597334 AATATCATACATAATAGTC
1 -ATATCATACATAATAGTC
1597353 ATATCATA
1 ATATCATA
1597361 TTCTTTTTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 16 0.42
19 7 0.18
20 7 0.18
21 8 0.21
ACGTcount: A:0.46, C:0.17, G:0.06, T:0.31
Consensus pattern (18 bp):
ATATCATACATAATAGTC
Found at i:1597359 original size:39 final size:39
Alignment explanation
Indices: 1597284--1597360 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
1597274 TTTATCAAAA
1597284 CCATGATAAACAATATCATACATAATAGTCATATCATAG
1 CCATGATAAACAATATCATACATAATAGTCATATCATAG
1597323 CCATGATAAACAATATCATACATAATAGTCATATCATA
1 CCATGATAAACAATATCATACATAATAGTCATATCATA
1597361 TTCTTTTTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (39 bp):
CCATGATAAACAATATCATACATAATAGTCATATCATAG
Found at i:1610987 original size:20 final size:21
Alignment explanation
Indices: 1610962--1611001 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1610952 TTTGCCCTAA
1610962 TTCAT-CCAGTATCAATACTG
1 TTCATCCCAGTATCAATACTG
*
1610982 TTCATCCCAGTATCGATACT
1 TTCATCCCAGTATCAATACT
1611002 CGAACCCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.35
Consensus pattern (21 bp):
TTCATCCCAGTATCAATACTG
Found at i:1611505 original size:16 final size:16
Alignment explanation
Indices: 1611471--1611515 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
1611461 ACTTGGAGAG
*
1611471 GAAAGTAAG-AGAAAA
1 GAAAATAAGAAGAAAA
*
1611486 GAAAATAAGAAGAAAT
1 GAAAATAAGAAGAAAA
*
1611502 GAAAATGAGAAGAA
1 GAAAATAAGAAGAA
1611516 GATGGAATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 8 0.31
16 18 0.69
ACGTcount: A:0.67, C:0.00, G:0.24, T:0.09
Consensus pattern (16 bp):
GAAAATAAGAAGAAAA
Found at i:1619731 original size:91 final size:88
Alignment explanation
Indices: 1619578--1619933 Score: 579
Period size: 91 Copynumber: 4.1 Consensus size: 88
1619568 AATATATACA
1619578 AAAATTTAAGGATATGATAATATATATTATT-AGAGTGATTGCCACAAATAGCTTTCCTTCTATC
1 AAAATTTAAGGATATGATAATATATATTATTAAGAGTGATTGCCACAAATAGCTTTCCTTCTATC
1619642 TATCCTTGATCACATATAAATTCTT
66 TATCCTTGATCAC--ATAAATTCTT
1619667 AAAATTTAAGGTATATGATAA-ATATATTTATTAAGAGTGATTGCCACAAATAGCTTTCCTTCTA
1 AAAATTTAAGG-ATATGATAATATATA-TTATTAAGAGTGATTGCCACAAATAGCTTTCCTTCTA
1619731 TCTATCCTTGATCACATATAAATTCTT
64 TCTATCCTTGATCAC--ATAAATTCTT
1619758 AAAATTTAAGG-TATGATAATATATATTATTAAGAGTGATTGCCACAAATA--TTTCCTTCTATC
1 AAAATTTAAGGATATGATAATATATATTATTAAGAGTGATTGCCACAAATAGCTTTCCTTCTATC
1619820 TATCCTTGATCACATAAATTCTT
66 TATCCTTGATCACATAAATTCTT
1619843 AAAATTTAAGGTATATGATAATAT-T-TTATTAAGAGTGATTGCCACAAATAGCTTTCCTTCTA-
1 AAAATTTAAGG-ATATGATAATATATATTATTAAGAGTGATTGCCACAAATAGCTTTCCTTCTAT
1619905 -TATCCTTGATCACAT-AATTCTT
65 CTATCCTTGATCACATAAATTCTT
1619927 AAAATTT
1 AAAATTT
1619934 TATTTAATTT
Statistics
Matches: 259, Mismatches: 0, Indels: 21
0.93 0.00 0.08
Matches are distributed among these distances:
84 14 0.05
85 61 0.24
86 1 0.00
87 46 0.18
89 49 0.19
90 19 0.07
91 69 0.27
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (88 bp):
AAAATTTAAGGATATGATAATATATATTATTAAGAGTGATTGCCACAAATAGCTTTCCTTCTATC
TATCCTTGATCACATAAATTCTT
Found at i:1623730 original size:28 final size:29
Alignment explanation
Indices: 1623668--1623733 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
1623658 TTCTGGGTTA
*
1623668 AAAAAATATAATTAAATTGTTAATAAAAT
1 AAAAATTATAATTAAATTGTTAATAAAAT
* **
1623697 ATAAATTAT-ATTAAATT-TTAATATTTAT
1 AAAAATTATAATTAAATTGTTAATA-AAAT
1623725 AAAAATTAT
1 AAAAATTAT
1623734 GATCGTTTCC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 6 0.19
28 18 0.58
29 7 0.23
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (29 bp):
AAAAATTATAATTAAATTGTTAATAAAAT
Found at i:1625409 original size:17 final size:18
Alignment explanation
Indices: 1625376--1625417 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
1625366 CTAAACTGGG
*
1625376 TATATTTAATAAATTATA
1 TATATATAATAAATTATA
1625394 TATATATAAT-AATTATA
1 TATATATAATAAATTATA
*
1625411 TAAATAT
1 TATATAT
1625418 TTTAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TATATATAATAAATTATA
Found at i:1625423 original size:17 final size:17
Alignment explanation
Indices: 1625387--1625437 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
1625377 ATATTTAATA
* **
1625387 AATTATATATATATAAT
1 AATTATATAAATATTTT
1625404 AATTATATAAATATTTT
1 AATTATATAAATATTTT
*
1625421 AA-TATTTAAAATATTTT
1 AATTATAT-AAATATTTT
1625438 TAAATATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 4 0.14
17 25 0.86
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AATTATATAAATATTTT
Found at i:1625626 original size:2 final size:2
Alignment explanation
Indices: 1625619--1625650 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1625609 CGCTAAAAAG
1625619 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
1625651 TTCTAATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1626092 original size:64 final size:60
Alignment explanation
Indices: 1625991--1626155 Score: 233
Period size: 64 Copynumber: 2.7 Consensus size: 60
1625981 TACACTGTAT
*
1625991 ACTAACATTCCCCGTGCACTCCAAACGTTCAGCAAGCTTTTGGCTCCTCTCGTAAAGCAAGCAC
1 ACTAACATTCCCCATGCACTCCAAACGTTCAGCAAGCTTTTGGCTCCTCTCGT--A--AAGCAC
* *
1626055 ACTAACATTCCCCATGCACTCCAAACGTTCAACAAGCTTTTGGCTTCTCTCGTAAAGCAC
1 ACTAACATTCCCCATGCACTCCAAACGTTCAGCAAGCTTTTGGCTCCTCTCGTAAAGCAC
* *
1626115 ATTAAAATTCCCCATGCACTCCAAAACGTT-AGCAAGCTTTT
1 ACTAACATTCCCCATGCACTCC-AAACGTTCAGCAAGCTTTT
1626156 CAACACTCTT
Statistics
Matches: 94, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
60 36 0.38
61 7 0.07
62 1 0.01
64 50 0.53
ACGTcount: A:0.29, C:0.32, G:0.13, T:0.26
Consensus pattern (60 bp):
ACTAACATTCCCCATGCACTCCAAACGTTCAGCAAGCTTTTGGCTCCTCTCGTAAAGCAC
Found at i:1632407 original size:27 final size:27
Alignment explanation
Indices: 1632357--1632410 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
1632347 TCATAGAGAA
* *
1632357 GTCACCCTCAAAAGTCGCATGCTCATT
1 GTCACCCTCAAAACTCGCAGGCTCATT
1632384 GTCACCCTCATAAACT-GCAGGCTCATT
1 GTCACCCTCA-AAACTCGCAGGCTCATT
1632411 CATCATTCTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.26
Consensus pattern (27 bp):
GTCACCCTCAAAACTCGCAGGCTCATT
Found at i:1639000 original size:21 final size:21
Alignment explanation
Indices: 1638975--1639016 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1638965 ACAGAAGATG
1638975 AAGTAGAAGAAGTACCATGAA
1 AAGTAGAAGAAGTACCATGAA
* *
1638996 AAGTAGATGAAGTACCTTGAA
1 AAGTAGAAGAAGTACCATGAA
1639017 TATTGTCTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.10, G:0.24, T:0.19
Consensus pattern (21 bp):
AAGTAGAAGAAGTACCATGAA
Found at i:1640010 original size:20 final size:20
Alignment explanation
Indices: 1639982--1640021 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1639972 AACTCGAGCT
* *
1639982 GAACTGAGTTAACCTGAACC
1 GAACCGAGTCAACCTGAACC
*
1640002 GAACCGAGTCAACTTGAACC
1 GAACCGAGTCAACCTGAACC
1640022 AGTCTGATCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.28, G:0.20, T:0.17
Consensus pattern (20 bp):
GAACCGAGTCAACCTGAACC
Found at i:1641901 original size:35 final size:36
Alignment explanation
Indices: 1641861--1641974 Score: 133
Period size: 35 Copynumber: 3.2 Consensus size: 36
1641851 AAGTCTCTGC
* * *
1641861 AGGTTCAGTTCTGATAAAGTTGGT-ATTCTTTATAT
1 AGGTTCAGTTCTGATCAAGCTGGTAATTCCTTATAT
*** * *
1641896 AGGTTCAACACCGATCAA-CTAGTAATTCCTTATAT
1 AGGTTCAGTTCTGATCAAGCTGGTAATTCCTTATAT
1641931 CAGGTTCAGTTCTGATCAAGCTGGTAATTCCTTATAT
1 -AGGTTCAGTTCTGATCAAGCTGGTAATTCCTTATAT
1641968 AGGTTCA
1 AGGTTCA
1641975 ACATAGATCA
Statistics
Matches: 63, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
34 3 0.05
35 23 0.37
36 21 0.33
37 16 0.25
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (36 bp):
AGGTTCAGTTCTGATCAAGCTGGTAATTCCTTATAT
Found at i:1641937 original size:36 final size:36
Alignment explanation
Indices: 1641885--1641977 Score: 116
Period size: 36 Copynumber: 2.6 Consensus size: 36
1641875 TAAAGTTGGT
*
1641885 ATTCTTTATATAGGTTCAACACCGATCAA-CTAGTA
1 ATTCCTTATATAGGTTCAACACCGATCAAGCTAGTA
*** * *
1641920 ATTCCTTATATCAGGTTCAGTTCTGATCAAGCTGGTA
1 ATTCCTTATAT-AGGTTCAACACCGATCAAGCTAGTA
1641957 ATTCCTTATATAGGTTCAACA
1 ATTCCTTATATAGGTTCAACA
1641978 TAGATCAGTT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
35 10 0.21
36 21 0.45
37 16 0.34
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (36 bp):
ATTCCTTATATAGGTTCAACACCGATCAAGCTAGTA
Found at i:1641984 original size:36 final size:35
Alignment explanation
Indices: 1641872--1642000 Score: 113
Period size: 35 Copynumber: 3.7 Consensus size: 35
1641862 GGTTCAGTTC
* * *
1641872 TGATAAAGTTGGT-ATTCTTTATATAGGTTCAACA
1 TGATCAAGCTGGTAATTCCTTATATAGGTTCAACA
* * *
1641906 CCGATCAA-CTAGTAATTCCTTATATCAGGTTCAGTTC-
1 -TGATCAAGCTGGTAATTCCTTATAT-AGGTTCA--ACA
1641943 TGATCAAGCTGGTAATTCCTTATATAGGTTCAACA
1 TGATCAAGCTGGTAATTCCTTATATAGGTTCAACA
* *
1641978 TAGATC-AGTTGATAATTCCTTAT
1 T-GATCAAGCTGGTAATTCCTTAT
1642001 GGACCTAAGG
Statistics
Matches: 76, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
34 4 0.05
35 31 0.41
36 24 0.32
37 16 0.21
38 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (35 bp):
TGATCAAGCTGGTAATTCCTTATATAGGTTCAACA
Found at i:1643519 original size:13 final size:13
Alignment explanation
Indices: 1643493--1643530 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
1643483 TCATACCCCC
1643493 AATTT-TTAATATA
1 AATTTATTAA-ATA
1643506 AATTTATTAAATA
1 AATTTATTAAATA
*
1643519 AATTAATTAAAT
1 AATTTATTAAAT
1643531 TTTAAAGACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 19 0.83
14 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AATTTATTAAATA
Found at i:1646668 original size:21 final size:21
Alignment explanation
Indices: 1646638--1646706 Score: 120
Period size: 21 Copynumber: 3.3 Consensus size: 21
1646628 TGAGTAATGG
*
1646638 AATCTATCTTGTCATAACTGA
1 AATCTCTCTTGTCATAACTGA
1646659 AATCTCTCTTGTCATAACTGA
1 AATCTCTCTTGTCATAACTGA
*
1646680 AATCTCTTTTGTCATAACTGA
1 AATCTCTCTTGTCATAACTGA
1646701 AATCTC
1 AATCTC
1646707 AAGTAACTCT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (21 bp):
AATCTCTCTTGTCATAACTGA
Found at i:1647295 original size:36 final size:36
Alignment explanation
Indices: 1647182--1647297 Score: 146
Period size: 36 Copynumber: 3.2 Consensus size: 36
1647172 GAAGTCTCTG
**
1647182 TAGGTTCAGTTCTGATCAAGCTGGTAATTCCTTCCA
1 TAGGTTCAGTTCTGATCAAGCTGGTAATTCCTTATA
* *
1647218 TAGGTTCAGTACCGAT-AAGCTGGTAATTCCTTAT-
1 TAGGTTCAGTTCTGATCAAGCTGGTAATTCCTTATA
* *
1647252 TGCAGGTTCAGTTGTGATCAAGCTAGTAATTCCTTATA
1 T--AGGTTCAGTTCTGATCAAGCTGGTAATTCCTTATA
1647290 TAGGTTCA
1 TAGGTTCA
1647298 ACATCGATCA
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
34 1 0.01
35 16 0.24
36 33 0.49
37 17 0.25
38 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (36 bp):
TAGGTTCAGTTCTGATCAAGCTGGTAATTCCTTATA
Found at i:1647307 original size:36 final size:36
Alignment explanation
Indices: 1647195--1647323 Score: 104
Period size: 35 Copynumber: 3.6 Consensus size: 36
1647185 GTTCAGTTCT
** ** *
1647195 GATCAAGCTGGTAATTCCTTCCATAGGTTCAGTACC
1 GATCAAGCTGGTAATTCCTTATATAGGTTCAACATC
** *
1647231 GAT-AAGCTGGTAATTCCTTAT-TGCAGGTTC-AGTTGT
1 GATCAAGCTGGTAATTCCTTATAT--AGGTTCAACAT-C
*
1647267 GATCAAGCTAGTAATTCCTTATATAGGTTCAACATC
1 GATCAAGCTGGTAATTCCTTATATAGGTTCAACATC
* *
1647303 GATCAA-ATGGTAATTTCTTAT
1 GATCAAGCTGGTAATTCCTTAT
1647324 GGACCTAAGG
Statistics
Matches: 73, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
34 1 0.01
35 28 0.38
36 24 0.33
37 19 0.26
38 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (36 bp):
GATCAAGCTGGTAATTCCTTATATAGGTTCAACATC
Found at i:1647314 original size:72 final size:72
Alignment explanation
Indices: 1647183--1647323 Score: 185
Period size: 72 Copynumber: 2.0 Consensus size: 72
1647173 AAGTCTCTGT
* * ** *
1647183 AGGTTCAGTTCTGATCAAGCTGGTAATTCCTTCCATAGGTTCAGTACCGATAAGCTGGTAATTCC
1 AGGTTCAGTTCTGATCAAGCTAGTAATTCCTTACATAGGTTCAACACCGATAAGATGGTAATTCC
1647248 TTATTGC
66 TTATTGC
* * * *
1647255 AGGTTCAGTTGTGATCAAGCTAGTAATTCCTTATATAGGTTCAACATCGATCAA-ATGGTAATTT
1 AGGTTCAGTTCTGATCAAGCTAGTAATTCCTTACATAGGTTCAACACCGAT-AAGATGGTAATTC
1647319 CTTAT
65 CTTAT
1647324 GGACCTAAGG
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
72 57 0.97
73 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (72 bp):
AGGTTCAGTTCTGATCAAGCTAGTAATTCCTTACATAGGTTCAACACCGATAAGATGGTAATTCC
TTATTGC
Found at i:1648280 original size:18 final size:17
Alignment explanation
Indices: 1648232--1648286 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
1648222 TTGGACCCTT
* *
1648232 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
1648250 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
*
1648268 AGTGCATTCGATGCTTCA
1 AGTGCA-TCGATGCATCA
1648286 A
1 A
1648287 AATAGCCAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.19
18 13 0.41
19 13 0.41
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:1648450 original size:65 final size:63
Alignment explanation
Indices: 1648252--1648451 Score: 167
Period size: 65 Copynumber: 3.1 Consensus size: 63
1648242 TGCACTAAGA
* * * * * *
1648252 GTGCATCGATGCATCAAGTGCATTCGATGCTTCA-AAATAGC-CAGAGTGCATCGATGCATGGCT
1 GTGCATCAATACATCAAATGCATTCGATGTTTCATAAA-ATCTC--AGTGCATCGATGCATGGTT
1648315 G
63 G
* * *
1648316 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGGTGCATGGTAT
1 GTGCATCAATACATCAAATGCATTCGATG-TTTCATAAAAT-CTCAGTGCATCGATGCATGGT-T
1648381 -
63 G
* **
1648381 GTGCATCAATACATGAAATGCATTCGATG-TTCAATTTAAT-TCATGGTGCATCGATGCATGGAT
1 GTGCATCAATACATCAAATGCATTCGATGTTTC-ATAAAATCTCA--GTGCATCGATGCATGG-T
1648444 TG
62 TG
1648446 GTGCAT
1 GTGCAT
1648452 AGGTGCATCA
Statistics
Matches: 115, Mismatches: 11, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
62 3 0.03
63 3 0.03
64 49 0.43
65 54 0.47
66 5 0.04
67 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.30
Consensus pattern (63 bp):
GTGCATCAATACATCAAATGCATTCGATGTTTCATAAAATCTCAGTGCATCGATGCATGGTTG
Found at i:1648930 original size:2 final size:2
Alignment explanation
Indices: 1648923--1648967 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1648913 AATTGATTAA
1648923 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
1648965 AT A
1 AT A
1648968 GCTTAGCTGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1653386 original size:180 final size:182
Alignment explanation
Indices: 1653084--1653446 Score: 712
Period size: 180 Copynumber: 2.0 Consensus size: 182
1653074 CTTAGCAACT
1653084 AGGCACAAATTAGTTATATCAATAGAATCTAAATGCACCATGTATATGTTTCCTAATCTATGACC
1 AGGCACAAATTAGTTATATCAATAGAATCTAAATGCACCATGTATATGTTTCCTAATCTATGACC
1653149 AACAAGCATAATCTGATTAGATGCAATGTCAATGACTTTACAACCATTAATATCAAACATGACAT
66 AACAAGCATAATCTGATTAGATGCAATGTCAATGACTTTACAACCATTAATATCAAACATGACAT
1653214 TGAAT-CCTTATCACAAAATTGACTAATACTCAATAGATTATGC-TTAATCC
131 TGAATCCCTTATCACAAAATTGACTAATACTCAATAGATTATGCTTTAATCC
1653264 AGGCACAAATTAGTTATATCAATAGAATCTAAATGCACCATGTATATGTTTCCTAATCTATGACC
1 AGGCACAAATTAGTTATATCAATAGAATCTAAATGCACCATGTATATGTTTCCTAATCTATGACC
1653329 AACAAGCATAATCTGATTAGATGCAATGTCAATGACTTTACAACCATTAATATCAAACATGACAT
66 AACAAGCATAATCTGATTAGATGCAATGTCAATGACTTTACAACCATTAATATCAAACATGACAT
1653394 TGAATCCCTTATCACAAAATTGACTAATACTCAATAGATTATGCTTTAATCC
131 TGAATCCCTTATCACAAAATTGACTAATACTCAATAGATTATGCTTTAATCC
1653446 A
1 A
1653447 TTCACATATA
Statistics
Matches: 181, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
180 135 0.75
181 38 0.21
182 8 0.04
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.31
Consensus pattern (182 bp):
AGGCACAAATTAGTTATATCAATAGAATCTAAATGCACCATGTATATGTTTCCTAATCTATGACC
AACAAGCATAATCTGATTAGATGCAATGTCAATGACTTTACAACCATTAATATCAAACATGACAT
TGAATCCCTTATCACAAAATTGACTAATACTCAATAGATTATGCTTTAATCC
Found at i:1656123 original size:18 final size:17
Alignment explanation
Indices: 1656069--1656117 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
1656059 TTAGACCCTT
* *
1656069 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
1656087 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
1656105 AGTGCATTCGATG
1 AGTGCA-TCGATG
1656118 TTTCAAACGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:1658892 original size:31 final size:31
Alignment explanation
Indices: 1658854--1658920 Score: 134
Period size: 31 Copynumber: 2.2 Consensus size: 31
1658844 ATACCCTAGA
1658854 AGTGTAACGATTTAACCAGTTGACAGGCATC
1 AGTGTAACGATTTAACCAGTTGACAGGCATC
1658885 AGTGTAACGATTTAACCAGTTGACAGGCATC
1 AGTGTAACGATTTAACCAGTTGACAGGCATC
1658916 AGTGT
1 AGTGT
1658921 TGGGAGTTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (31 bp):
AGTGTAACGATTTAACCAGTTGACAGGCATC
Found at i:1661076 original size:29 final size:32
Alignment explanation
Indices: 1661017--1661077 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 32
1661007 TGTTGTCACG
*
1661017 ATTCAACAAGAATTATATCTCCTTGTAGTAGT
1 ATTCAACAAGAATTATATCTCCTTGCAGTAGT
* *
1661049 ATTCAAC-TGAATT-TAT-TCCTTGCCGTAGT
1 ATTCAACAAGAATTATATCTCCTTGCAGTAGT
1661078 CGATTAAGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
29 11 0.42
30 3 0.12
31 5 0.19
32 7 0.27
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (32 bp):
ATTCAACAAGAATTATATCTCCTTGCAGTAGT
Found at i:1666867 original size:143 final size:143
Alignment explanation
Indices: 1666604--1666888 Score: 498
Period size: 143 Copynumber: 2.0 Consensus size: 143
1666594 GGTGCATTTT
* *
1666604 GACATATTTTGTGTATGATAGTTATCGATCGATTTTGTTTAATGCATATGTTGCATTTTCGTATC
1 GACATACTTTGTGTATGATAGTTATCGATCGATCTTGTTTAATGCATATGTTGCATTTTCGTATC
* *
1666669 AGTACTATATGTACTTTCGGCACTATGTGTGCATCCATGGAATTCATAATGAGTTTGTGAATTAT
66 AGTACTATATGTACTTTCGGCACTATGTGTGCATCCATGGAATTCATAATAAGTTTGTGAATTAC
1666734 CATTTCGACACTC
131 CATTTCGACACTC
* * *
1666747 GACATACTTTGTGTATGATGGTTATCGATCGATCTTGTTTAATGCATATGTTGTATTTTCTTATC
1 GACATACTTTGTGTATGATAGTTATCGATCGATCTTGTTTAATGCATATGTTGCATTTTCGTATC
1666812 AGTACTATATGTACTTTCGGCACTATGTGTGCATCCATGGAATTCATAATAAGTTTGTGAATTAC
66 AGTACTATATGTACTTTCGGCACTATGTGTGCATCCATGGAATTCATAATAAGTTTGTGAATTAC
*
1666877 CATTTTGACACT
131 CATTTCGACACT
1666889 ATGTCTGCAT
Statistics
Matches: 134, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
143 134 1.00
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (143 bp):
GACATACTTTGTGTATGATAGTTATCGATCGATCTTGTTTAATGCATATGTTGCATTTTCGTATC
AGTACTATATGTACTTTCGGCACTATGTGTGCATCCATGGAATTCATAATAAGTTTGTGAATTAC
CATTTCGACACTC
Found at i:1666912 original size:53 final size:53
Alignment explanation
Indices: 1666832--1666946 Score: 167
Period size: 53 Copynumber: 2.2 Consensus size: 53
1666822 GTACTTTCGG
* **
1666832 CACTATGTGTGCATCCATGGAATTCATAATAAGTTTGTGAATTACCATTTTGA
1 CACTATGTCTGCATCCATAAAATTCATAATAAGTTTGTGAATTACCATTTTGA
* * *
1666885 CACTATGTCTGCATCCATAAAATTCATAATGAGTTTGTGAATTACTATTTTGG
1 CACTATGTCTGCATCCATAAAATTCATAATAAGTTTGTGAATTACCATTTTGA
1666938 CACATATGT
1 CAC-TATGT
1666947 GTAACGCATA
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
53 50 0.91
54 5 0.09
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (53 bp):
CACTATGTCTGCATCCATAAAATTCATAATAAGTTTGTGAATTACCATTTTGA
Found at i:1672544 original size:19 final size:19
Alignment explanation
Indices: 1672520--1672574 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
1672510 TCGAATGCAT
* **
1672520 TCCATGCACCGATGCACTC
1 TCCATGCATCGATGCACAA
1672539 TCCATGCATCGATGCACAA
1 TCCATGCATCGATGCACAA
*
1672558 GCCATGCATCGATGCAC
1 TCCATGCATCGATGCAC
1672575 CAGGCTATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.25, C:0.36, G:0.18, T:0.20
Consensus pattern (19 bp):
TCCATGCATCGATGCACAA
Found at i:1674406 original size:15 final size:15
Alignment explanation
Indices: 1674386--1674424 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
1674376 CTACATGGAG
1674386 CGATGAAGAAAGTTC
1 CGATGAAGAAAGTTC
1674401 CGATGAAGAAAGTTC
1 CGATGAAGAAAGTTC
1674416 CGATGAAGA
1 CGATGAAGA
1674425 GGAACAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.41, C:0.13, G:0.28, T:0.18
Consensus pattern (15 bp):
CGATGAAGAAAGTTC
Found at i:1680371 original size:19 final size:19
Alignment explanation
Indices: 1680347--1680385 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1680337 TCGAATGCAT
1680347 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
1680366 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
1680385 T
1 T
1680386 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:1680510 original size:64 final size:65
Alignment explanation
Indices: 1680333--1680495 Score: 222
Period size: 65 Copynumber: 2.5 Consensus size: 65
1680323 GAATTAATTG
* * * *
1680333 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
* ** **
1680398 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATA-TTTTCA
1680461 A
65 A
1680462 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
1680496 TGGTGCACCG
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 36 0.42
65 49 0.58
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:1687343 original size:54 final size:54
Alignment explanation
Indices: 1687279--1687675 Score: 474
Period size: 54 Copynumber: 7.4 Consensus size: 54
1687269 CTATGTGTAC
*
1687279 TACATGCACTATGTGTGCAACCCACGAAATTCATCATGAGTTGATGAACAACCG
1 TACAGGCACTATGTGTGCAACCCACGAAATTCATCATGAGTTGATGAACAACCG
* * * *
1687333 TACATGCACTATGTGTGCAATCCACGGAATTCATCATGAGTTGATGAATAACCG
1 TACAGGCACTATGTGTGCAACCCACGAAATTCATCATGAGTTGATGAACAACCG
*** *
1687387 TACAGGCACTATACCTGCAACCCACGAAATTCATCATGAGTTGATGAACAATCG
1 TACAGGCACTATGTGTGCAACCCACGAAATTCATCATGAGTTGATGAACAACCG
* * *
1687441 TACATGCACTATGTGTGCAATCCAC-AGAATTCATCATGAGTTGATGAATAACCG
1 TACAGGCACTATGTGTGCAACCCACGA-AATTCATCATGAGTTGATGAACAACCG
* * * *
1687495 TACAGGCACTATATGTGCAACTCACGTAATTCATCATGTGTTGATGAACAACCG
1 TACAGGCACTATGTGTGCAACCCACGAAATTCATCATGAGTTGATGAACAACCG
*** * *
1687549 TACAGGCACTATGTGTGCAACTTGCAAAATTCATCAT-ATGTTGATGAACAACCA
1 TACAGGCACTATGTGTGCAACCCACGAAATTCATCATGA-GTTGATGAACAACCG
* * * * * * * *
1687603 TAAATGCACTGTGTGTGCAACTCAAGGAATTCATCATGTGTTGATGAACGACCG
1 TACAGGCACTATGTGTGCAACCCACGAAATTCATCATGAGTTGATGAACAACCG
** *
1687657 TTTAGGCACTACGTGTGCA
1 TACAGGCACTATGTGTGCA
1687676 TCTTAATAAA
Statistics
Matches: 291, Mismatches: 48, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
53 1 0.00
54 290 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (54 bp):
TACAGGCACTATGTGTGCAACCCACGAAATTCATCATGAGTTGATGAACAACCG
Found at i:1690325 original size:16 final size:16
Alignment explanation
Indices: 1690300--1690332 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1690290 CTCTAAAGGT
*
1690300 AAAATTCCAAAAATTC
1 AAAATCCCAAAAATTC
1690316 AAAATCCCAAAAATTC
1 AAAATCCCAAAAATTC
1690332 A
1 A
1690333 CTCATAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.21, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAATCCCAAAAATTC
Found at i:1690511 original size:31 final size:31
Alignment explanation
Indices: 1690464--1690602 Score: 92
Period size: 31 Copynumber: 4.5 Consensus size: 31
1690454 CAAATAGTCG
* * * *
1690464 AAAATGATTATATGGCACATGGTACATGTTA
1 AAAATGATGATGTGACACATGATACATGTTA
* *
1690495 AAAGTGATGATGTGGCACAT-AT-CATGTTTCGA
1 AAAATGATGATGTGACACATGATACATG-TT--A
* * *
1690527 AAAATGATGATGTGATATCATGTTTC--G--A
1 AAAATGATGATGTGACA-CATGATACATGTTA
* * *
1690555 AAAGTGATGATGTGATACATGCTACATGTTA
1 AAAATGATGATGTGACACATGATACATGTTA
1690586 AAAATGATGATGTGACA
1 AAAATGATGATGTGACA
1690603 TATATCATGT
Statistics
Matches: 85, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
27 6 0.07
28 17 0.20
29 5 0.06
30 3 0.04
31 33 0.39
32 15 0.18
33 4 0.05
34 1 0.01
35 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.32
Consensus pattern (31 bp):
AAAATGATGATGTGACACATGATACATGTTA
Found at i:1690551 original size:28 final size:28
Alignment explanation
Indices: 1690513--1690575 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
1690503 GATGTGGCAC
1690513 ATATCATGTTTCGAAAAATGATGATGTG
1 ATATCATGTTTCGAAAAATGATGATGTG
*
1690541 ATATCATGTTTCGAAAAGTGATGATGTG
1 ATATCATGTTTCGAAAAATGATGATGTG
1690569 ATA-CATG
1 ATATCATG
1690576 CTACATGTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 4 0.12
28 30 0.88
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.35
Consensus pattern (28 bp):
ATATCATGTTTCGAAAAATGATGATGTG
Found at i:1690652 original size:62 final size:59
Alignment explanation
Indices: 1690526--1690650 Score: 146
Period size: 62 Copynumber: 2.1 Consensus size: 59
1690516 TCATGTTTCG
* * * * *
1690526 AAAAATGATGATGTGATATCATGTTTCGAAAAGTGATGATGTGATACATGCTACATGTT
1 AAAAATGATGATGTGATATCATGTGTCGAAAAGTAATGACGTGACACATGCCACATGTT
*
1690585 AAAAATGATGATGTGACATATATCATGTGTC-AAAAGTAATGACGTGACAC-TGCCACGTGTT
1 AAAAATGATGATGTG----ATATCATGTGTCGAAAAGTAATGACGTGACACATGCCACATGTT
1690646 AAAAA
1 AAAAA
1690651 ATTTATGGGA
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
59 15 0.27
61 14 0.25
62 16 0.29
63 11 0.20
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (59 bp):
AAAAATGATGATGTGATATCATGTGTCGAAAAGTAATGACGTGACACATGCCACATGTT
Found at i:1691437 original size:24 final size:22
Alignment explanation
Indices: 1691409--1691452 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
1691399 AAATGTTATT
1691409 AAAGATTATTAGCAGACAATTTTA
1 AAAGATTATTAGC-GA-AATTTTA
1691433 AAAGATTATTAGCGAAATTT
1 AAAGATTATTAGCGAAATTT
1691453 GTTTGAGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 5 0.25
23 2 0.10
24 13 0.65
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (22 bp):
AAAGATTATTAGCGAAATTTTA
Found at i:1693992 original size:29 final size:29
Alignment explanation
Indices: 1693940--1693996 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
1693930 TTTTTTTGTC
* **
1693940 ATTATACCTATTTTATATGTTATTCAAATA
1 ATTATACCTATATTATATAATATT-AAATA
1693970 ATTATACC-ATATTATATAATATTAAAT
1 ATTATACCTATATTATATAATATTAAAT
1693997 CTACTACAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.17
29 12 0.50
30 8 0.33
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (29 bp):
ATTATACCTATATTATATAATATTAAATA
Found at i:1694246 original size:63 final size:62
Alignment explanation
Indices: 1694137--1694254 Score: 134
Period size: 63 Copynumber: 1.9 Consensus size: 62
1694127 TTAAAAGTTA
* * *
1694137 TAAAAGGATCATTAAACCTTTCAAATATTTATAAAATGGCCATTAAACTTTATCAAAACACCG
1 TAAAAGGATCATTAAACCTTTCAAATATTTACAAAATAGCCATTAAA-TATATCAAAACACCG
* *
1694200 TAAAATGATCATTAAA-CTTATCAAACTA-TTACAAAATAATCC-TTAAATATATCAA
1 TAAAAGGATCATTAAACCTT-TCAAA-TATTTACAAAAT-AGCCATTAAATATATCAA
1694255 TATTTATTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
62 10 0.21
63 33 0.70
64 4 0.09
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.31
Consensus pattern (62 bp):
TAAAAGGATCATTAAACCTTTCAAATATTTACAAAATAGCCATTAAATATATCAAAACACCG
Found at i:1694742 original size:42 final size:42
Alignment explanation
Indices: 1694694--1694776 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
1694684 ACATTAATTT
1694694 AATGGATCAATGTATATTTTTTCTTGATTATTTATTTTAATG
1 AATGGATCAATGTATATTTTTTCTTGATTATTTATTTTAATG
*
1694736 AATGGATCAATGTATATTTTTTCTTGATTATTTTTTTTAAT
1 AATGGATCAATGTATATTTTTTCTTGATTATTTATTTTAAT
1694777 TGTGAAAATC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.28, C:0.05, G:0.11, T:0.57
Consensus pattern (42 bp):
AATGGATCAATGTATATTTTTTCTTGATTATTTATTTTAATG
Found at i:1695586 original size:18 final size:17
Alignment explanation
Indices: 1695552--1695601 Score: 68
Period size: 18 Copynumber: 3.0 Consensus size: 17
1695542 CTACTAAGGA
1695552 ATTTTA-TTAGGATTTT
1 ATTTTATTTAGGATTTT
1695568 ATTTTATTTAGGTATTTT
1 ATTTTATTTAGG-ATTTT
*
1695586 ATTTTCTTTA-GATTTT
1 ATTTTATTTAGGATTTT
1695602 CTCAAACTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 11 0.35
17 6 0.19
18 14 0.45
ACGTcount: A:0.22, C:0.02, G:0.10, T:0.66
Consensus pattern (17 bp):
ATTTTATTTAGGATTTT
Found at i:1701305 original size:19 final size:19
Alignment explanation
Indices: 1701281--1701317 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1701271 TGAACTAACT
*
1701281 ATTGACCTGCCTGTTGACC
1 ATTGACATGCCTGTTGACC
*
1701300 ATTGACATTCCTGTTGAC
1 ATTGACATGCCTGTTGAC
1701318 TTTGAATTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (19 bp):
ATTGACATGCCTGTTGACC
Found at i:1711293 original size:53 final size:54
Alignment explanation
Indices: 1711223--1711454 Score: 308
Period size: 54 Copynumber: 4.3 Consensus size: 54
1711213 ATAAGTTCTT
* * *
1711223 TGGGGTGCACACGTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATT-TG
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTCCG
* *
1711276 TGGGTTGCACACTTAGTGCCGATACGGTTGTTCATAAACTTATTATGAATTCCA
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTCCG
* * *
1711330 TTGGTTGAACACTTAGTG-AGCATACGGTCGTTCATAAACTTATTATGAATTCCG
1 TGGGTTGCACACTTAGTGCCG-ATACGGTCGTTCATAAACTTATTATGAATTCCG
* * * * *
1711384 TGGGTTG-ATCACTTAGTGCCAATACGATCATTCGTAAACTTATTATGAATTTCG
1 TGGGTTGCA-CACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTCCG
1711438 TGGGTTGCACACTTAGT
1 TGGGTTGCACACTTAGT
1711455 TTTGATAGTA
Statistics
Matches: 157, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
53 50 0.32
54 106 0.68
55 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (54 bp):
TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTCCG
Found at i:1720740 original size:23 final size:24
Alignment explanation
Indices: 1720693--1720740 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
1720683 TTAGAGAAAA
* * *
1720693 GAAAAGTTCATTCTTTCAATTCAT
1 GAAAAATTCATTCTTGCAATACAT
1720717 GAAAAATTCATT-TTGCAATACAT
1 GAAAAATTCATTCTTGCAATACAT
1720740 G
1 G
1720741 GTATTATTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (24 bp):
GAAAAATTCATTCTTGCAATACAT
Found at i:1726902 original size:54 final size:54
Alignment explanation
Indices: 1726839--1726958 Score: 204
Period size: 54 Copynumber: 2.2 Consensus size: 54
1726829 CTCATAGGGT
*
1726839 GTACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAACAGATTGCCCAATGG
1 GTACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAACAGAATGCCCAATGG
* * *
1726893 GTACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAATATAATGCCCTATGG
1 GTACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAACAGAATGCCCAATGG
1726947 GTACCGATACCC
1 GTACCGATACCC
1726959 TCTTATAGGT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (54 bp):
GTACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAACAGAATGCCCAATGG
Found at i:1732278 original size:15 final size:15
Alignment explanation
Indices: 1732260--1732289 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1732250 AAAACCATGT
1732260 TAGATAAAAAGGTAA
1 TAGATAAAAAGGTAA
1732275 TAGATAAAAAGGTAA
1 TAGATAAAAAGGTAA
1732290 GAAATAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (15 bp):
TAGATAAAAAGGTAA
Found at i:1732296 original size:15 final size:15
Alignment explanation
Indices: 1732263--1732297 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1732253 ACCATGTTAG
* *
1732263 ATAAAAAGGTAATAG
1 ATAAAAAGGTAAGAA
1732278 ATAAAAAGGTAAGAA
1 ATAAAAAGGTAAGAA
1732293 ATAAA
1 ATAAA
1732298 TAAATTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAAAAGGTAAGAA
Found at i:1732414 original size:8 final size:9
Alignment explanation
Indices: 1732390--1732415 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
1732380 ATAAAAAATA
1732390 AAGAAAAAG
1 AAGAAAAAG
1732399 AAGAAAAAG
1 AAGAAAAAG
1732408 AAGAAAAA
1 AAGAAAAA
1732416 AATATAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (9 bp):
AAGAAAAAG
Found at i:1732430 original size:24 final size:21
Alignment explanation
Indices: 1732411--1732496 Score: 57
Period size: 24 Copynumber: 3.7 Consensus size: 21
1732401 GAAAAAGAAG
1732411 AAAAAAATATAGAAATAAAACAA
1 AAAAAAATATA-AAATAAAA-AA
1732434 ATAAATAAA-ATAATAATAAAAAA
1 A-AAA-AAATATAA-AATAAAAAA
*
1732457 GTAAAAATAATATATATATAAAATAA
1 --AAAAA-AATATA-AAATAAAA-AA
*
1732483 AAAAAAATAAAAAA
1 AAAAAAATATAAAA
1732497 AGTAAATATA
Statistics
Matches: 51, Mismatches: 3, Indels: 19
0.70 0.04 0.26
Matches are distributed among these distances:
22 2 0.04
23 10 0.20
24 23 0.45
25 13 0.25
26 3 0.06
ACGTcount: A:0.77, C:0.01, G:0.02, T:0.20
Consensus pattern (21 bp):
AAAAAAATATAAAATAAAAAA
Found at i:1732464 original size:25 final size:23
Alignment explanation
Indices: 1732376--1732492 Score: 66
Period size: 22 Copynumber: 5.1 Consensus size: 23
1732366 AAATAGTAAG
*
1732376 TAATATAAAAAATAAAGA-AAAA
1 TAATATAAAAAATAAAAATAAAA
* * * *
1732398 GAAGA-AAAAGAAGAAAAA-AATA
1 TAATATAAAA-AATAAAAATAAAA
* *
1732420 TAGAAATAAAACAA-ATAAATAAAA
1 TA-ATATAAAA-AATAAAAATAAAA
*
1732444 TAATAATAAAAAAGTAAAAATAATA
1 TAAT-ATAAAAAA-TAAAAATAAAA
*
1732469 T-ATATATAAAATAAAAA-AAAA
1 TAATATAAAAAATAAAAATAAAA
1732490 TAA
1 TAA
1732493 AAAAAGTAAA
Statistics
Matches: 72, Mismatches: 15, Indels: 16
0.70 0.15 0.16
Matches are distributed among these distances:
21 8 0.11
22 20 0.28
23 16 0.22
24 19 0.26
25 9 0.12
ACGTcount: A:0.75, C:0.01, G:0.06, T:0.18
Consensus pattern (23 bp):
TAATATAAAAAATAAAAATAAAA
Found at i:1732487 original size:32 final size:33
Alignment explanation
Indices: 1732423--1732508 Score: 92
Period size: 32 Copynumber: 2.7 Consensus size: 33
1732413 AAAAATATAG
1732423 AAATAAAACAAA-TAAATA-A-AATAATAATAAAA
1 AAATAAAA-AAAGTAAATATATAA-AATAATAAAA
* *
1732455 AAGTAAAAATAA-TATATATATAAAATAA-AAAA
1 AAATAAAAA-AAGTAAATATATAAAATAATAAAA
1732487 AAATAAAAAAAGTAAATATATA
1 AAATAAAAAAAGTAAATATATA
1732509 TATATATATA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
31 3 0.07
32 35 0.76
33 6 0.13
34 2 0.04
ACGTcount: A:0.74, C:0.01, G:0.02, T:0.22
Consensus pattern (33 bp):
AAATAAAAAAAGTAAATATATAAAATAATAAAA
Found at i:1732491 original size:46 final size:46
Alignment explanation
Indices: 1732378--1732586 Score: 116
Period size: 44 Copynumber: 4.6 Consensus size: 46
1732368 ATAGTAAGTA
* * * * *
1732378 ATATAAAAAATAAAGAAAAAGAAGAA-AAAGAAG-AAAAA-AATAT
1 ATATATAAAATAAAAAAAAATAATAATAAAAAAGTAAAAATAATAT
* * *
1732421 AGAAATAAAACAAATAAATAAAATAATAATAAAAAAGTAAAAATAATAT
1 ATATATAAAA-TAA-AAA-AAAATAATAATAAAAAAGTAAAAATAATAT
1732470 ATATATAAAAT--AAAAAAA-AAT-A-AAAAAAGTAAATATATATATAT
1 ATATATAAAATAAAAAAAAATAATAATAAAAAAGTAAA-A-ATA-ATAT
* * * * * *
1732514 ATATATATAAATTAATAAAACTGATAATAAAAAA-T-AATAT-ATTT
1 ATATATA-AAATAAAAAAAAATAATAATAAAAAAGTAAAAATAATAT
* * *
1732558 ATATATATAATCTAAAAAAAATAAAAATA
1 ATATATAAAAT-AAAAAAAAATAATAATA
1732587 TATACTAAAG
Statistics
Matches: 129, Mismatches: 21, Indels: 31
0.71 0.12 0.17
Matches are distributed among these distances:
41 11 0.09
42 2 0.02
43 16 0.12
44 40 0.31
45 9 0.07
46 10 0.08
47 11 0.09
48 9 0.07
49 15 0.12
50 6 0.05
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.24
Consensus pattern (46 bp):
ATATATAAAATAAAAAAAAATAATAATAAAAAAGTAAAAATAATAT
Found at i:1732634 original size:22 final size:21
Alignment explanation
Indices: 1732580--1732640 Score: 54
Period size: 23 Copynumber: 2.8 Consensus size: 21
1732570 TAAAAAAAAT
1732580 AAAAATATATAC-T-AAAGTAA
1 AAAAATAT-TACATAAAAGTAA
* *
1732600 AAAAGAAAATACATAAAATGTAA
1 AAAA-ATATTACATAAAA-GTAA
1732623 AAAAATATTACATGAAAA
1 AAAAATATTACAT-AAAA
1732641 AAAAATAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
20 7 0.22
21 3 0.09
22 10 0.31
23 12 0.38
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (21 bp):
AAAAATATTACATAAAAGTAA
Found at i:1732997 original size:34 final size:34
Alignment explanation
Indices: 1732954--1733022 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
1732944 GAATCCTAGC
1732954 AAAATTCTATCATATCTTCAAGAGTTTGAATCCT
1 AAAATTCTATCATATCTTCAAGAGTTTGAATCCT
* * * *
1732988 AAAATTCTATCCTATTTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTCAAGAGTTTGAATCCT
1733022 A
1 A
1733023 GTAGGACGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (34 bp):
AAAATTCTATCATATCTTCAAGAGTTTGAATCCT
Found at i:1733787 original size:98 final size:98
Alignment explanation
Indices: 1733618--1733876 Score: 286
Period size: 98 Copynumber: 2.6 Consensus size: 98
1733608 TGGAACCGGA
* * * *
1733618 AAATTGTTTGTTGACAACCAGCCGTCCTTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCA
1 AAATTGTTTGTTGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCCA
* *
1733683 ATATCCTTCGTTGTGAAGTTGAGATTGGCTCCG
66 ATATCCTCCGCTGTGAAGTTGAGATTGGCTCCG
** * * *
1733716 AAATTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGTCCA
1 AAATTGTTTGTTGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCCA
* *
1733781 ATATCCTCCGCTGTGAAGTTGAAATTAGC-CCTG
66 ATATCCTCCGCTGTGAAGTTGAGATTGGCTCC-G
* * * *
1733814 AAACTGGGAAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTC
1 AAA-T-TG----T-TTGTTGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTC
1733877 ATAGGTAGCA
Statistics
Matches: 133, Mismatches: 20, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
97 2 0.02
98 85 0.64
99 1 0.01
100 1 0.01
104 1 0.01
105 43 0.32
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (98 bp):
AAATTGTTTGTTGACAACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCCA
ATATCCTCCGCTGTGAAGTTGAGATTGGCTCCG
Found at i:1733864 original size:105 final size:102
Alignment explanation
Indices: 1733618--1734010 Score: 316
Period size: 105 Copynumber: 3.8 Consensus size: 102
1733608 TGGAACCGGA
* * *
1733618 AAATTGTTTGTTGACAACCAGCCGTCCTTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-CC
1 AAATTG-TTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGGGTACC
* * ** * ** ** **
1733682 A-ATATCCTTCGTTGT-GAAGTTGAG-ATTG-GCTCCG
65 AGATATCCTCCGTCGTGGAAAATCAGCCCTGAAATGAG
** * * * *
1733716 AAATTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGT-CC
1 AAATTG-TTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGGGTACC
* * *
1733780 A-ATATCCTCCG-CTGTGAAGTTGAAATTAGCCCTGAAACTGGG
65 AGATATCCTCCGTC-GTG--G--AAAATCAGCCCTGAAA-TGAG
* * *
1733822 AAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCATAGGTAGCA
1 AAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGGGTACCA
** *
1733887 TGATATCCTCCGTCGTGGAAAATCAGCTTTGAAATTAG
66 -GATATCCTCCGTCGTGGAAAATCAGCCCTGAAATGAG
* * **
1733925 AAAGTTGTTCGTTGACAACCAGCCGTCCCTTCGTTGTAAAGTTGAACTTGTGTTGTCTTGAGTGG
1 AAA-TTGTT-GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGGGTAC
*
1733990 CACGATATCCTCCATCGTGGA
64 CA-GATATCCTCCGTCGTGGA
1734011 GTTGAAATCG
Statistics
Matches: 237, Mismatches: 43, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
98 67 0.28
101 1 0.00
103 9 0.04
104 19 0.08
105 116 0.49
106 11 0.05
108 13 0.05
109 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (102 bp):
AAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGGGTACCA
GATATCCTCCGTCGTGGAAAATCAGCCCTGAAATGAG
Found at i:1734768 original size:67 final size:67
Alignment explanation
Indices: 1734582--1734774 Score: 235
Period size: 67 Copynumber: 2.8 Consensus size: 67
1734572 GTCTTAAAAA
* * * * *
1734582 AGACAAAATTCGTTTCAAGGGAAACGATCTTAAAGATATATGTTGTTTCATGAGAAACGGCCTCA
1 AGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGAT-TTTG-TGTTTCAAGAGAAACGGCCTCA
1734647 AGGG
64 AGGG
* * * * * *
1734651 AGACAAAATTTTTTTTTATA-GGAAATAAACTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCA
1 AGACAAAA-TTTGTTTCA-AGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACGGCCTCA
1734715 AGGG
64 AGGG
*
1734719 AGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTTGTGTTTCAAGAGAAAC
1 AGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAAC
1734775 ATTTTCAAAG
Statistics
Matches: 105, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
66 1 0.01
67 41 0.39
68 31 0.30
69 11 0.10
70 20 0.19
71 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (67 bp):
AGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACGGCCTCAAG
GG
Found at i:1734839 original size:36 final size:33
Alignment explanation
Indices: 1734729--1734843 Score: 144
Period size: 33 Copynumber: 3.5 Consensus size: 33
1734719 AGACAAAATT
* *
1734729 TGTTTCAAGGGAAACAATCTCAAAGG--TTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGCTTTTTG
* *
1734760 TGTTTCAAGAGAAACATTTTCAAAGGGTTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGCTTTTTG
*
1734793 TGTTTTAAGAGAAACAATTTCAAAGGTTTCTTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGG---CTTTTTG
1734829 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
1734844 TGTATCAAGG
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
31 23 0.32
33 29 0.40
36 20 0.28
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.37
Consensus pattern (33 bp):
TGTTTCAAGAGAAACAATTTCAAAGGCTTTTTG
Found at i:1734994 original size:36 final size:36
Alignment explanation
Indices: 1734885--1735359 Score: 245
Period size: 36 Copynumber: 13.9 Consensus size: 36
1734875 CAAGGATTGA
*
1734885 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * *
1734922 TGTTTTAAGAAAAACATGTCTTAAGATAGACAAAATT
1 TGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAATT
*
1734959 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
1734995 TGTTT-AATGTA-AAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAA-G-AGAAAC-TGTCTCAAGAGAGACAAAATT
* * *
1735024 TGTTTCAAGGGAAACTGTTTTC-A-A-AG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
*
1735053 ATGTTTCAATAGAAACTGTCTCAA-AGGAGACAAAATT
1 -TGTTTCAAGAGAAACTGTCTCAAGA-GAGACAAAATT
* *
1735090 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
** * * * *
1735126 CATTTCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
* *
1735154 ATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* *
1735192 TGTTTCAAGGGAAACTATCTCAAGAGAGAC--AATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * * * *
1735226 TATTTCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
* *
1735254 ATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* *
1735292 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
*
1735328 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
1735360 TGGTGAGCAC
Statistics
Matches: 343, Mismatches: 53, Indels: 85
0.71 0.11 0.18
Matches are distributed among these distances:
28 5 0.01
29 49 0.14
30 31 0.09
31 1 0.00
32 5 0.01
33 5 0.01
34 20 0.06
35 7 0.02
36 110 0.32
37 90 0.26
38 20 0.06
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.31
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Done.