Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_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: 6287495
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 33
Found at i:1333312 original size:21 final size:21
Alignment explanation
Indices: 1333288--1333327 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1333278 CCTTGAGTTA
1333288 TAAAATA-ATAAATTTAAAATT
1 TAAAATATA-AAATTTAAAATT
*
1333309 TAAAATTTAAAATTTAAAA
1 TAAAATATAAAATTTAAAA
1333328 ATATTTATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAAATATAAAATTTAAAATT
Found at i:1346368 original size:21 final size:22
Alignment explanation
Indices: 1346325--1346374 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
1346315 TATTAGTTTT
*
1346325 AATTGATTTTTAAAACATTTAA
1 AATTGATTTTTAAAACATGTAA
1346347 AATTGATTTTTAAAA-ATGTAA
1 AATTGATTTTTAAAACATGTAA
1346368 AATTGAT
1 AATTGAT
1346375 ACTTTTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (22 bp):
AATTGATTTTTAAAACATGTAA
Found at i:1354953 original size:22 final size:22
Alignment explanation
Indices: 1354928--1354982 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
1354918 TTGGACAAAT
* *
1354928 GGTTTCGAAACTGGCCAGATGG
1 GGTTTCAAAACTGGCCAGAGGG
* *
1354950 GGTTTTAAAACTGGCTAGAGGG
1 GGTTTCAAAACTGGCCAGAGGG
*
1354972 GGTTTTAAAAC
1 GGTTTCAAAAC
1354983 CTCTGTTGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.13, G:0.33, T:0.27
Consensus pattern (22 bp):
GGTTTCAAAACTGGCCAGAGGG
Found at i:1362163 original size:13 final size:13
Alignment explanation
Indices: 1362145--1362170 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1362135 GAAGCTGCAC
1362145 TTCTTGACTTCCA
1 TTCTTGACTTCCA
1362158 TTCTTGACTTCCA
1 TTCTTGACTTCCA
1362171 ACAACTGTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.08, T:0.46
Consensus pattern (13 bp):
TTCTTGACTTCCA
Found at i:1368636 original size:19 final size:19
Alignment explanation
Indices: 1368612--1368653 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
1368602 ATTTTTCACA
1368612 AGGACAGGGTTCATAACCT
1 AGGACAGGGTTCATAACCT
1368631 AGGACAGGGTTCATAACCT
1 AGGACAGGGTTCATAACCT
1368650 AGGA
1 AGGA
1368654 AACTGTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.29, T:0.19
Consensus pattern (19 bp):
AGGACAGGGTTCATAACCT
Found at i:1368661 original size:19 final size:19
Alignment explanation
Indices: 1368619--1368662 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
1368609 ACAAGGACAG
* *
1368619 GGTTCATAACCTAGGACAG
1 GGTTCATAACCTAGGAAAC
1368638 GGTTCATAACCTAGGAAAC
1 GGTTCATAACCTAGGAAAC
*
1368657 TGTTCA
1 GGTTCA
1368663 ATTTTCCGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (19 bp):
GGTTCATAACCTAGGAAAC
Found at i:1374996 original size:15 final size:15
Alignment explanation
Indices: 1374974--1375011 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
1374964 ACCCTGACAA
*
1374974 TCGAATTTCGTAACAT
1 TCGAATTTCGCAAC-T
1374990 T-GAATTTCGCAACT
1 TCGAATTTCGCAACT
1375004 TCGAATTT
1 TCGAATTT
1375012 TGCTCCTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 17 0.85
16 1 0.05
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.39
Consensus pattern (15 bp):
TCGAATTTCGCAACT
Found at i:1384109 original size:4 final size:4
Alignment explanation
Indices: 1384100--1384148 Score: 66
Period size: 4 Copynumber: 12.8 Consensus size: 4
1384090 TTTGATCAGT
* *
1384100 TTTC TTTC -TTC TTTC TTTC TTTC TTTC TTTC TTT- TCTC TTTT TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
1384146 TTT
1 TTT
1384149 TTTTTCTATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
3 5 0.13
4 34 0.87
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:1384124 original size:19 final size:18
Alignment explanation
Indices: 1384100--1384155 Score: 69
Period size: 19 Copynumber: 3.1 Consensus size: 18
1384090 TTTGATCAGT
1384100 TTTCTTTCTTCTTTCTTTC
1 TTTCTTTCTTCTTT-TTTC
*
1384119 TTTCTTTCTTTCTTTTCTC
1 TTTCTTTC-TTCTTTTTTC
*
1384138 TTTTTTTCTT-TTTTTTC
1 TTTCTTTCTTCTTTTTTC
1384155 T
1 T
1384156 ATATGTGTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 7 0.21
18 2 0.06
19 18 0.55
20 6 0.18
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTCTTTCTTCTTTTTTC
Found at i:1390006 original size:16 final size:16
Alignment explanation
Indices: 1389985--1390016 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1389975 GAATATTTTT
*
1389985 TTAATTGGGTTTAAAA
1 TTAATTGAGTTTAAAA
1390001 TTAATTGAGTTTAAAA
1 TTAATTGAGTTTAAAA
1390017 ATATTAATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.44
Consensus pattern (16 bp):
TTAATTGAGTTTAAAA
Found at i:1399802 original size:22 final size:22
Alignment explanation
Indices: 1399764--1399893 Score: 129
Period size: 22 Copynumber: 5.9 Consensus size: 22
1399754 AATATATCTA
1399764 TATCAGTGCTGAGGCACTTTAG
1 TATCAGTGCTGAGGCACTTTAG
* * *
1399786 TATTAGTGCTAATGCACTTCT-G
1 TATCAGTGCTGAGGCACTT-TAG
* *
1399808 TATCAGTGATGAGGTACTTTAG
1 TATCAGTGCTGAGGCACTTTAG
* * *
1399830 TATCAATGTTGATGCACTTCT-G
1 TATCAGTGCTGAGGCACTT-TAG
* *
1399852 TATCAGTGTTGAGGCACTTTAA
1 TATCAGTGCTGAGGCACTTTAG
*
1399874 TATCAGTGCTAAGGCACTTT
1 TATCAGTGCTGAGGCACTTT
1399894 CATTAAATGA
Statistics
Matches: 87, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
21 2 0.02
22 83 0.95
23 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (22 bp):
TATCAGTGCTGAGGCACTTTAG
Found at i:1399827 original size:44 final size:44
Alignment explanation
Indices: 1399764--1399892 Score: 177
Period size: 44 Copynumber: 2.9 Consensus size: 44
1399754 AATATATCTA
* *
1399764 TATCAGTGCTGAGGCACTTTAGTATTAGTGCTAATGCACTTCTG
1 TATCAGTGATGAGGCACTTTAGTATCAGTGCTAATGCACTTCTG
* * * *
1399808 TATCAGTGATGAGGTACTTTAGTATCAATGTTGATGCACTTCTG
1 TATCAGTGATGAGGCACTTTAGTATCAGTGCTAATGCACTTCTG
* * *
1399852 TATCAGTGTTGAGGCACTTTAATATCAGTGCTAAGGCACTT
1 TATCAGTGATGAGGCACTTTAGTATCAGTGCTAATGCACTT
1399893 TCATTAAATG
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 72 1.00
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.36
Consensus pattern (44 bp):
TATCAGTGATGAGGCACTTTAGTATCAGTGCTAATGCACTTCTG
Found at i:1399946 original size:2 final size:2
Alignment explanation
Indices: 1399941--1399970 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1399931 ACACACAGAG
1399941 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
1399971 TCAATATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1405253 original size:23 final size:23
Alignment explanation
Indices: 1405205--1405255 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
1405195 TATTTTTTCT
1405205 TTAAATTTTATAAATTCGTCATTC
1 TTAAATTTTATAAATTCGTCA-TC
1405229 TTAAATTTT-TAAAAGTTCGTC-TC
1 TTAAATTTTAT-AAA-TTCGTCATC
1405252 TTAA
1 TTAA
1405256 CAGATCATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
23 7 0.28
24 12 0.48
25 6 0.24
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.49
Consensus pattern (23 bp):
TTAAATTTTATAAATTCGTCATC
Found at i:1406684 original size:45 final size:45
Alignment explanation
Indices: 1406620--1406717 Score: 187
Period size: 45 Copynumber: 2.2 Consensus size: 45
1406610 TTGATTCTCT
*
1406620 GAAAACTTGTCTGCAAACCAAGTAATTATGAAATAAATAAAATAA
1 GAAAACTTGTCTGCAAACCAAGTAATTAAGAAATAAATAAAATAA
1406665 GAAAACTTGTCTGCAAACCAAGTAATTAAGAAATAAATAAAATAA
1 GAAAACTTGTCTGCAAACCAAGTAATTAAGAAATAAATAAAATAA
1406710 GAAAACTT
1 GAAAACTT
1406718 ATCAGATGCC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.23
Consensus pattern (45 bp):
GAAAACTTGTCTGCAAACCAAGTAATTAAGAAATAAATAAAATAA
Found at i:1406884 original size:40 final size:38
Alignment explanation
Indices: 1406833--1406914 Score: 146
Period size: 40 Copynumber: 2.1 Consensus size: 38
1406823 TAGGTATGTA
1406833 TTTTCAGTTTAGTACCTAATATTTATTTCGTTTTAATAT
1 TTTTCAGTTTAGTACCTAATATTTATTTCGTTTTAAT-T
1406872 TTTTACAGTTTAGTACCTAATATTTATTTCGTTTTAATT
1 TTTT-CAGTTTAGTACCTAATATTTATTTCGTTTTAATT
1406911 TTTT
1 TTTT
1406915 GTTACGTTAC
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 9 0.21
40 33 0.79
ACGTcount: A:0.24, C:0.10, G:0.07, T:0.59
Consensus pattern (38 bp):
TTTTCAGTTTAGTACCTAATATTTATTTCGTTTTAATT
Found at i:1407785 original size:16 final size:16
Alignment explanation
Indices: 1407753--1407795 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
1407743 TAAATTATTT
*
1407753 ATTAATGTTATTTTAAA
1 ATTAAT-TTAATTTAAA
1407770 ATTAATTTAATTTAAA
1 ATTAATTTAATTTAAA
* *
1407786 TTTAAATTAA
1 ATTAATTTAA
1407796 ATTTTTCTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTAATTTAATTTAAA
Found at i:1409642 original size:20 final size:20
Alignment explanation
Indices: 1409603--1409647 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
1409593 TTGTTTTTAA
*
1409603 TAAATTTTTATCTATGAAAT
1 TAAATTTTTATCTATAAAAT
* *
1409623 TAAATTTTTATTTTTAAAAT
1 TAAATTTTTATCTATAAAAT
*
1409643 AAAAT
1 TAAAT
1409648 ATTAAAAGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
TAAATTTTTATCTATAAAAT
Found at i:1413893 original size:15 final size:15
Alignment explanation
Indices: 1413873--1413956 Score: 108
Period size: 15 Copynumber: 6.0 Consensus size: 15
1413863 TAATAAGGTT
1413873 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
1413888 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
1413903 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
1413918 ATTTA-TTT----TA
1 ATTTATTTTAAAATA
1413928 A-TTATTTTAAAATA
1 ATTTATTTTAAAATA
*
1413942 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
1413957 TGGATTGATT
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
9 3 0.05
10 6 0.10
14 5 0.08
15 46 0.77
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:1413938 original size:39 final size:37
Alignment explanation
Indices: 1413890--1413986 Score: 140
Period size: 39 Copynumber: 2.6 Consensus size: 37
1413880 TTAAAATAAT
** *
1413890 TTATTTTAAAATAATTTATTATAAAATAATTTATTTTAA
1 TTATTTTAAAATAATTTATTATAAAAT-ATGGA-TTGAA
*
1413929 TTATTTTAAAATAATTTATTATAAAATATGGATTGAT
1 TTATTTTAAAATAATTTATTATAAAATATGGATTGAA
1413966 TTATTTTAAAATAATTTATTA
1 TTATTTTAAAATAATTTATTA
1413987 GTATGGATTA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
37 24 0.44
38 3 0.06
39 27 0.50
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (37 bp):
TTATTTTAAAATAATTTATTATAAAATATGGATTGAA
Found at i:1414017 original size:32 final size:32
Alignment explanation
Indices: 1413955--1415172 Score: 406
Period size: 32 Copynumber: 41.7 Consensus size: 32
1413945 TATTATAAAA
*
1413955 TATGGATTGATTTATTTTAAAATAATTTATTAG
1 TATGGATTGATTTATTTT-AAATAAATTATTAG
*
1413988 TATGGATTAATTTATTTTAAATAAATTATTAG
1 TATGGATTGATTTATTTTAAATAAATTATTAG
1414020 TATGGATTGATTTA-TTT---T-AA--A--A-
1 TATGGATTGATTTATTTTAAATAAATTATTAG
*
1414042 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAAATTATTAG
*
1414074 TATGGATTGATTTATTTTAAAATATGGATTGATT--
1 TATGGATTGATTTATTTT-AAATA--AATT-ATTAG
* * **
1414108 TAT-TATTGTAGTTGTATGTATT-GATTTATT-TTA-
1 TATGGATTG-A-TT-TAT-T-TTAAATAAATTATTAG
* * * * * ** *
1414141 AAT-AATTTATTAGTATGGATT-GATTTATT-TTAAAA
1 TATGGATTGATT--TAT--TTTAAATAAATTATT--AG
*
1414176 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAAATTATTAG
* * *
1414208 TATGAATTTGATTTATTTTAAATAATTTATTTG
1 TATGGA-TTGATTTATTTTAAATAAATTATTAG
* * * *
1414241 TATGGATTGATTGA-TTT--AT--TTTA-AAA
1 TATGGATTGATTTATTTTAAATAAATTATTAG
*
1414267 TATGGATTGATTTC--TT--AT---TGTAGTT-G
1 TATGGATTGATTTATTTTAAATAAAT-TA-TTAG
* *
1414293 TATGGATTGTTTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAAATTATTAG
* *
1414325 TATGGATTGATTTATTTTAAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAAATTATTAG
* * * * *
1414357 TATAGATTGATTGA-TTT--AT--TTTA-AAA
1 TATGGATTGATTTATTTTAAATAAATTATTAG
* *
1414383 TATGGATTGATTTATTATT--GT--A--GTT-G
1 TATGGATTGATTTATT-TTAAATAAATTATTAG
*
1414409 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAAATTATTAG
*
1414441 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAAATTATTAG
* **
1414473 TATGGATTGATTGA-TTTATTTTAAA--A--A-
1 TATGGATTGATTTATTTTA-AATAAATTATTAG
1414500 TATGGATTGATTTA--TT--AT---TGTAGTT-G
1 TATGGATTGATTTATTTTAAATAAAT-TA-TTAG
* *
1414526 TATGGATCGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAAATTATTAG
1414558 TATGGATTGATTTA-TTT---T-AA--A--A-
1 TATGGATTGATTTATTTTAAATAAATTATTAG
*
1414580 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAAATTATTAG
* *
1414612 TATGGATTGATTTATTTTAAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAAATTATTAG
* * * *
1414644 TATGGATTGATTGA-TTT--AT--TTTA-AAA
1 TATGGATTGATTTATTTTAAATAAATTATTAG
1414670 TATGGATTGATTTA--TT--AT---TGTAGTT-G
1 TATGGATTGATTTATTTTAAATAAAT-TA-TTAG
*
1414696 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAAATTATTAG
* * *
1414728 TATAGATTGATTTATTTTAAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAAATTATTAG
* * * *
1414760 TATGGATTGATTGA-TTT--AT--TTTA-AAA
1 TATGGATTGATTTATTTTAAATAAATTATTAG
*
1414786 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAAATTATTAG
1414818 TATGGATTGATTTA-TTT---T-AA--A--A-
1 TATGGATTGATTTATTTTAAATAAATTATTAG
** *
1414840 TATGGATTGATTTATTTTAATAATTTATTAGTATG
1 TATGGATTGATTTATTTT-A-AATAAATTATTA-G
* *
1414875 GATTGATT-ATTTA-----AAT-AATTATT-G
1 TATGGATTGATTTATTTTAAATAAATTATTAG
* * * * *
1414899 CATGGATTGATTGA-TTT--AT--TTTA-AAA
1 TATGGATTGATTTATTTTAAATAAATTATTAG
* *
1414925 TATGGATTGATTTATTATT--GT--A--GTT-G
1 TATGGATTGATTTATT-TTAAATAAATTATTAG
*
1414951 TATGGATTG-TTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAAATTATTAG
* *
1414982 TATGGATTGATTTATTTTAAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAAATTATTAG
* * * *
1415014 TATGGATTGATTGA-TTT--AT--TTTA-AAA
1 TATGGATTGATTTATTTTAAATAAATTATTAG
1415040 TATGGATTGATTTA--TT--AT---TGTAGTT-G
1 TATGGATTGATTTATTTTAAATAAAT-TA-TTAG
*
1415066 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAAATTATTAG
1415098 TATGGATTGATTTA-TTT---TAAA--A-TA-
1 TATGGATTGATTTATTTTAAATAAATTATTAG
*
1415122 TA--GATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAAATTATTAG
*
1415152 TATGGACTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1415173 ATATGGATTG
Statistics
Matches: 928, Mismatches: 114, Indels: 287
0.70 0.09 0.22
Matches are distributed among these distances:
22 52 0.06
23 17 0.02
24 14 0.02
25 35 0.04
26 170 0.18
27 50 0.05
28 23 0.02
29 17 0.02
30 13 0.01
31 60 0.06
32 359 0.39
33 71 0.08
34 18 0.02
35 12 0.01
36 14 0.02
37 1 0.00
38 2 0.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (32 bp):
TATGGATTGATTTATTTTAAATAAATTATTAG
Found at i:1414046 original size:54 final size:54
Alignment explanation
Indices: 1413988--1415204 Score: 646
Period size: 54 Copynumber: 21.6 Consensus size: 54
1413978 AATTTATTAG
* *
1413988 TATGGATTAATTTATTTTAAATAAATTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1414042 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* * * * * *
1414096 TATGGATTGATTTATTATT--GTAGTTGTA-T-GTATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATT-TTAAATAATT-TATTAGTATGGATTGA-TTT--AT--TTTA-AAA
** ** * ** * * *
1414154 TATGGATTGATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAA
* *
1414208 TATGAATTTGATTTATTTTAAATAATTTATTTGTATGGATTGATTGATTTATTTTAAAA
1 TATGGA-TTGATTTATTTTAAATAATTTATTAGTAT-G---GATTGATTTATTTTAAAA
* * *
1414267 TATGGATTGA-TT-TCTT--AT--TGTAGTT-GTATGGATTGTTTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTA-TTT---TAA---A--A
*
1414324 GTATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTGATTTATTTTAAAA
1 -TATGGATTGATTTATTTTAAATAATTTATTAGTAT-G---GATTGATTTATTTTAAAA
*
1414383 TATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTA-TTT---TAA---A--A
1414440 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTGATTTATTTTAAAAA
1 -TATGGATTGATTTATTTTAAATAATTTATTAGTAT-G---GATTGATTTATTTT-AAAA
* * * * * * *
1414500 TATGGATTGATTTATTATT--GTAGTTGTA-T-GGATCGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATT-TTAAATAATT-TATTAGTATGGATTGA-TTT--AT--TTTA-AAA
** ** * ** * * *
1414558 TATGGATTGATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAA
*
1414612 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTAT-G---GATTGATTTATTTTAAAA
*
1414670 TATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAA
1 TATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTT-AA-AA
*
1414720 TTTATTAGTATAGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTGATTTATTTTAAA
1 --TA-T-G----GATTGATTTATTTTAAATAATTTATTAGTAT-G---GATTGATTTATTTTAAA
1414785 A
54 A
1414786 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
1414840 TATGGATTGATTTATTTT-AATAATTTATTAGTATGGATTGA-TTATTTAAATAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAA-AA
* * * * ** * * * ***
1414893 TTATTGCATGGATTGA-TTGATTTATTTTA-AAATATGGATTGATTTATTATTGTAGTTG
1 -TA-TGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAA
1414951 TATGGATTG-TTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
** ** * * * * * ***
1415003 TAATTTATTTGTATGGATTGATTGATTTATTT-TAAAATATGGATTGATTTATTATTGTAGTTG
1 T-ATGGA-TTG-ATTTATT--TTAAATAATTTAT-TAGTATGGATTGATTTA-T-TT-TA-AAA
1415066 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* *
1415120 TATAGATTGATTTATTTTAAATAATTTATTAGTATGGACTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1415174 TATGGATTGATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTATTTTAAATAATTTATTA
1415205 TTGTAGTTGT
Statistics
Matches: 913, Mismatches: 118, Indels: 264
0.71 0.09 0.20
Matches are distributed among these distances:
48 33 0.04
49 8 0.01
50 2 0.00
51 3 0.00
52 47 0.05
53 48 0.05
54 264 0.29
55 53 0.06
56 37 0.04
57 40 0.04
58 199 0.22
59 52 0.06
60 27 0.03
61 6 0.01
62 11 0.01
63 8 0.01
64 27 0.03
65 5 0.01
66 2 0.00
67 8 0.01
68 33 0.04
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:1414048 original size:22 final size:22
Alignment explanation
Indices: 1414020--1414062 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1414010 AAATTATTAG
1414020 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1414042 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1414063 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:1414160 original size:80 final size:80
Alignment explanation
Indices: 1414042--1414345 Score: 439
Period size: 80 Copynumber: 3.7 Consensus size: 80
1414032 TATTTTAAAA
1414042 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1414107 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
*
1414122 TATGTATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
*
1414187 TTATTTTAAATAATTTA-TTAG
66 TTA--TT--AT--TGTAGTT-G
* *
1414208 TATGAATTTGATTTATTTTAAATAATTTATTTGTATGGATTGATTGATTTATTTTAAAATATGGA
1 TATGGA-TTGATTTATTTTAAATAATTTATTAGTAT-G---GATTGATTTATTTTAAAATATGGA
*
1414273 TTGATTTCTTATTGTAGTTG
61 TTGATTTATTATTGTAGTTG
*
1414293 TATGGATTGTTTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
1414346 TAATTTATTT
Statistics
Matches: 202, Mismatches: 9, Indels: 26
0.85 0.04 0.11
Matches are distributed among these distances:
80 84 0.42
82 2 0.01
83 1 0.00
84 29 0.14
85 11 0.05
86 11 0.05
87 30 0.15
88 1 0.00
89 2 0.01
91 31 0.15
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (80 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTG
Found at i:1414170 original size:22 final size:22
Alignment explanation
Indices: 1414154--1414196 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1414144 AATTTATTAG
1414154 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1414176 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1414197 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:1414221 original size:33 final size:35
Alignment explanation
Indices: 1414181--1414265 Score: 129
Period size: 33 Copynumber: 2.5 Consensus size: 35
1414171 TAAAATATGG
1414181 ATTGATTTATTTTAAATAATTTATTAGTAT-GAAT
1 ATTGATTTATTTTAAATAATTTATTAGTATGGAAT
* *
1414215 -TTGATTTATTTTAAATAATTTATTTGTATGGATT
1 ATTGATTTATTTTAAATAATTTATTAGTATGGAAT
1414249 GATTGATTTATTTTAAA
1 -ATTGATTTATTTTAAA
1414266 ATATGGATTG
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
33 28 0.61
34 3 0.07
36 15 0.33
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (35 bp):
ATTGATTTATTTTAAATAATTTATTAGTATGGAAT
Found at i:1414376 original size:22 final size:22
Alignment explanation
Indices: 1414348--1414425 Score: 61
Period size: 22 Copynumber: 3.4 Consensus size: 22
1414338 ATTTTAAATA
1414348 ATTTATTTGTATAGATTGATTG
1 ATTTATTTGTATAGATTGATTG
*
1414370 ATTTATTT-TA-AAATATGGATTG
1 ATTTATTTGTATAGAT-T-GATTG
* *
1414392 ATTTATTATTGTAGTTGTATGGATTG
1 ATTTA-T-TTGTA-TAG-ATTGATTG
1414418 ATTTATTT
1 ATTTATTT
1414426 TAAATAATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 14
0.71 0.06 0.23
Matches are distributed among these distances:
20 3 0.07
21 3 0.07
22 18 0.41
23 1 0.02
24 4 0.09
25 3 0.07
26 10 0.23
28 2 0.05
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (22 bp):
ATTTATTTGTATAGATTGATTG
Found at i:1414376 original size:171 final size:166
Alignment explanation
Indices: 1413955--1415118 Score: 782
Period size: 171 Copynumber: 7.3 Consensus size: 166
1413945 TATTATAAAA
* * *
1413955 TATGGATTGATTTATTTTAAAATAATTTATTAGTATGGATTAATTTATTTTAAATAAATTATTAG
1 TATGGATTGATTTATTTT-AAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTG
* * * *
1414020 TATGGATTGATTTATTT-TAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
65 TATAGATTGATTAATTTAT-TAATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
1414084 TTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
129 TTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
* **
1414122 TATGTATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA-ATATGGA-TTG
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATA-ATTTATTTG
* ** * * * *
1414185 ATTTATTTTAAATAATTTATTAGTATGAATTTGATTTATTTTAAATAATTTATTTGTATGGATTG
65 -TATAGATTGATTAATTTATTAATATGAA-TTGATTTATTTTAAATAATTTATTAGTAT-G---G
*
1414250 ATTGATTTATTTTAAAATATGGATTGATTTCTTATTGTAGTTG
124 ATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
*
1414293 TATGGATTGTTTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGT
* * *
1414358 ATAGATTGATTGATTTATTTTAAAATATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGAT
66 ATAGATTGATTAATTTA--TT--AATATGAATTGATTTATTTTAAATAATTTA-TTAGTATGGAT
1414416 TGATTTATTTT--AA-AT--A---A--T-TTA-T-TA---G
126 TGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
1414441 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTGATTTATTTTAAA-AA--TA-
1 TATGGATTGATTTATTTTAAATAATTTATTAGTAT-G---GATTGATTTATTTTAAATAATTTAT
* * * * * *
1414502 -TGGATTGATTTATT-ATTGTAGTT-GTATGGATCGATTTATTTTAAATAATTTATTAGTATGGA
62 TTGTATAGATTGATTAATT-TA-TTAATATGAATTGATTTATTTTAAATAATTTATTAGTATGGA
*
1414564 TTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA-TTAG
125 TTGATTTATTTTAAAATATGGATTGATTTA--TT--AT--TGTAGTT-G
* * ** * *
1414612 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTGA-TTTATTTTAA--AATATG
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AATAATTTATTTG
* * * * * *
1414674 GATTGATTTATT-ATTGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTG
65 TATAGATTGATTAATT-TA-TTAATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1414737 ATTTATTTT--AA-AT--A---ATTTA-T-TTGTA--TG
128 ATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
* * *
1414764 GATTGATTGATTTATTTT-AA-AA--------TATGGATTGATTTATTTTAAATAATTTATTAGT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGT
* * * *
1414819 ATGGATTGATTTATTT-TAAAATATGGATTGATTTATTTT-AATAATTTATTAGTATGGATTGA-
66 ATAGATTGATTAATTTAT-TAATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
* * * ***
1414881 TTATTTAAATAATTATTGCATGGATTGATTGATTTATTTTA-AAA
130 TTATTT---TAA--AAT--ATGGATTGATTTA-TTATTGTAGTTG
* *
1414925 TATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTG-TTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAATAATTTATTTG
* * * * *
1414982 TATGGATTGATTTA-TT-TTAA-AT--A---ATTTA---T---T--TGTA-T-GGATTGATTGAT
65 TATAGATTGATTAATTTATTAATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1415029 TTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
130 TTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
1415066 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
1415119 ATATAGATTG
Statistics
Matches: 821, Mismatches: 79, Indels: 213
0.74 0.07 0.19
Matches are distributed among these distances:
140 7 0.01
141 26 0.03
142 23 0.03
143 43 0.05
144 31 0.04
145 11 0.01
146 7 0.01
147 37 0.05
148 55 0.07
149 29 0.04
150 2 0.00
151 9 0.01
152 39 0.05
153 5 0.01
154 6 0.01
156 7 0.01
157 5 0.01
158 1 0.00
159 7 0.01
160 4 0.00
161 16 0.02
162 11 0.01
163 3 0.00
164 51 0.06
165 13 0.02
166 56 0.07
167 59 0.07
168 15 0.02
169 2 0.00
170 75 0.09
171 144 0.18
172 6 0.01
173 2 0.00
174 8 0.01
175 6 0.01
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (166 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGT
ATAGATTGATTAATTTATTAATATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATT
TATTTTAAAATATGGATTGATTTATTATTGTAGTTG
Found at i:1414404 original size:287 final size:276
Alignment explanation
Indices: 1414042--1415132 Score: 1059
Period size: 287 Copynumber: 3.8 Consensus size: 276
1414032 TATTTTAAAA
1414042 TATGGATTGATTTATTTTAAATAATTTATTAGTAT-G---GATTGATTTATTTTAAAATATGGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTGATTTATTTTAAAATATGGAT
*
1414103 TGATTTATTATTGTAGTTGTATGTATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTA
66 TGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTA
*
1414168 TTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTTGATTTATTTTAAATAA
131 TTTT-AAATATGGATTGATTTATTTTGAAT-ATTTATT-GTATGAA-TTGATTTATTTTAAATAA
* *
1414233 TTTATTTGTATGGATTGATTGATTTATTTTAAAATATGGATTGATTTCTTATTGTAGTTGTATGG
192 TTTATTAGTAT-G---GATTGATTTATTTTAAAATATGGATTGATTT-TTATTTTA-TTGTATGG
1414298 ATTGTTTTATTTTAAATAATTTATTAG
251 ATTG-TTTATTTTAAATAATTTATTAG
* *
1414325 TATGGATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTGATTTATTTTAAAATATGGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTGATTTATTTTAAAATATGGAT
1414390 TGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTA
66 TGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTA
* * * * ** *
1414455 TTTTAAATA---ATTTATTAGTATGGATTGATTGATTTATTTTAAAAATATGGATTGA-TTT--A
131 TTTTAAATATGGATTGATT--TAT--TTTGAAT-ATTTATTGTATGAAT-T-GATTTATTTTAAA
* * * * *
1414514 TTATTGTAGTT-GTATGGATCGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAA
189 TAATT-TA-TTAGTATGGATTGATTTATTTT-AA-AA--TA-T-GGATTGATT--TTTATTTTAT
**
1414578 AATATGGATTGATTTATTTTAAATAATTTATTAG
244 TGTATGGATTG-TTTATTTTAAATAATTTATTAG
*
1414612 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTGATTTATTTTAAAATATGGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTGATTTATTTTAAAATATGGAT
*
1414677 TGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTA
66 TGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTA
** ** * *** *
1414742 TTTTAAATAATTTATTTGTATGGATTGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAA
131 TTTTAAAT-ATGGA-TTG-ATTTATT--TTGA-ATA-TTTATTGTATGAATTGATTTATTTTAAA
1414807 TAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAATAATTTATTAGT
189 TAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGA--T-TTTT-AT--TTTATT-GT
*
1414872 ATGGATTGATTA-TTTAAATAA-TTATT-G
247 ATGGATTGTTTATTTTAAATAATTTATTAG
* * * * * * ***
1414899 CATGGATTGATTGA-TTT--AT--TTTA-AAATATGGATTGATTTA-TTATTGTAGTTGTATGGA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTGATTTATTTTA-AAATATGGA
* *
1414957 TTG-TTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGGA
65 TTGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTAT-G-
* *
1415020 TTGATTGATTTATTTTAAAATATGGATTGATTTATTATTG--TA---GTTGTATGGATTGATTTA
121 --GATTGATTTATTTT-AAATATGGATTGATTTATT-TTGAATATTTATTGTATGAATTGATTTA
*
1415080 TTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTT
182 TTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTT
1415133 ATTTTAAATA
Statistics
Matches: 691, Mismatches: 63, Indels: 114
0.80 0.07 0.13
Matches are distributed among these distances:
277 2 0.00
278 1 0.00
280 74 0.11
281 35 0.05
282 8 0.01
283 42 0.06
284 13 0.02
285 14 0.02
286 62 0.09
287 304 0.44
288 23 0.03
289 14 0.02
290 31 0.04
291 29 0.04
292 32 0.05
293 7 0.01
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (276 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTGATTTATTTTAAAATATGGAT
TGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTA
TTTTAAATATGGATTGATTTATTTTGAATATTTATTGTATGAATTGATTTATTTTAAATAATTTA
TTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTTTATTTTATTGTATGGATTGTTTATT
TTAAATAATTTATTAG
Found at i:1414481 original size:116 final size:120
Alignment explanation
Indices: 1413955--1415168 Score: 753
Period size: 116 Copynumber: 10.7 Consensus size: 120
1413945 TATTATAAAA
* * *
1413955 TATGGATTGATTTATTTTAAAATAATTTATTAGTATGGATTAATTTATTTTAAATAAATTATTAG
1 TATGGATTGATTTATTTT-AAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAA
***
1414020 TATGGATTG----ATTTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAG
65 TATGGATTGATTTATTTATTTTAGTTGTATGGATTGATTTA-TTT-AAT-ATTTATTAG
* *
1414074 TATGGATTGATTTA-TTT---TAA---A--A-TATGGATTGATTTATTATT--GTAGTTGTATGT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATT-TTAAATAATT-TAT-T
* ** * *
1414127 -AT-T-GATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTT--TA---A--AA
63 AATATGGATTGA-TTTATTTATTTTAGTT-GTATGGATTGATTTATTTAATATTTATTAG
* **
1414176 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTTGATTTATTTTAAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGA-TTGATTTATTTTAAATAATTTATTAA
* *** * *
1414241 TATGGATTGATTGATTTATTTTA-AAATATGGATTGATTT-CTT-AT-TGTAGTT-G
65 TATGGATTGATTTATTTATTTTAGTTGTATGGATTGATTTATTTAATATTTA-TTAG
* **
1414293 TATGGATTGTTTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAAT
* * *** *
1414358 ATAGATTGATTGATTTATTTTA-AAATATGGATTGATTTA-TT-AT-TGTAGTT-G
66 ATGGATTGATTTATTTATTTTAGTTGTATGGATTGATTTATTTAATATTTA-TTAG
*
1414409 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAAT
* **** *
1414474 ATGGATTGATTGATTTATTTTAAAAATATGGATTGATTTA-TT-AT-TGTAGTT-G
66 ATGGATTGATTTATTTATTTTAGTTGTATGGATTGATTTATTTAATATTTA-TTAG
* **
1414526 TATGGATCGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TATGGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAAT
* ** * *
1414587 -T-GATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAATAATTTATTTG
66 ATGGATTGA-TTTATTTATTTTAGTT-GTATGGATTGATTTA-TTT-AAT-ATTTATTAG
* * * * *
1414644 TATGGATTGATTGA-TTT--AT--TTTA-AAATATGGATTGATTTA--TT--AT--TGTAGTT-G
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTA-TTAA
* *
1414696 TATGGATTGATTTATTTTAAATAATTTA-TTAGTATAGATTGATTTATTTTAAATAATTTATTTG
65 TATGGATTGATTTA-TTT--AT--TTTAGTT-GTATGGATTGATTTA-TTT-AAT-ATTTATTAG
* * * *
1414760 TATGGATTGATTGA-TTT--AT--TTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAAT
***
1414819 ATGGATTG----ATTTATTTTA-AAATATGGATTGATTTATTTTAATAATTTATTAG
66 ATGGATTGATTTATTTATTTTAGTTGTATGGATTGATTTA-TTTAAT-ATTTATTAG
* * *
1414871 TATGGATTGA-TTA-TTTAAATAA-TTATT-GCATGGATTGATTGA-TTT--AT--TTTA-AAAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAAT
*
1414926 ATGGATTGATTTA-TTATTGTAGTTGTATGGATTG-TTTATTTTAAATAATTTATTAG
66 ATGGATTGATTTATTTATTTTAGTTGTATGGATTGATTTA-TTT-AAT-ATTTATTAG
* * *
1414982 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTGA-TTT--AT--TTTA-AAAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAAT
*
1415041 ATGGATTGATTTA-TTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAG
66 ATGGATTGATTTATTTATTTTAGTTGTATGGATTGATTTA-TTT-AAT-ATTTATTAG
*
1415098 TATGGATTGATTTATTTT--A-AA---A-TA-TA--GATTGATTTATTTTAAATAATTTATTAGT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAAT
*
1415153 ATGGACTGATTTATTT
66 ATGGATTGATTTATTT
1415169 TAAAATATGG
Statistics
Matches: 931, Mismatches: 80, Indels: 174
0.79 0.07 0.15
Matches are distributed among these distances:
102 15 0.02
103 3 0.00
104 1 0.00
106 16 0.02
107 18 0.02
108 26 0.03
109 9 0.01
110 28 0.03
111 82 0.09
112 108 0.12
113 68 0.07
114 26 0.03
115 73 0.08
116 283 0.30
117 122 0.13
118 22 0.02
119 14 0.02
120 2 0.00
121 2 0.00
122 13 0.01
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (120 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAAT
ATGGATTGATTTATTTATTTTAGTTGTATGGATTGATTTATTTAATATTTATTAG
Found at i:1414583 original size:22 final size:22
Alignment explanation
Indices: 1414558--1414600 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1414548 AATTTATTAG
1414558 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1414580 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1414601 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:1414724 original size:14 final size:14
Alignment explanation
Indices: 1414705--1414758 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
1414695 GTATGGATTG
1414705 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
1414719 ATTTATTAGTATAGATTG
1 ATTTATT--T-TA-AATA
1414737 ATTTATTTTAAATA
1 ATTTATTTTAAATA
1414751 ATTTATTT
1 ATTTATTT
1414759 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 2 0.06
16 2 0.06
17 2 0.06
18 9 0.28
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:1414843 original size:22 final size:22
Alignment explanation
Indices: 1414818--1414859 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
1414808 AATTTATTAG
1414818 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1414840 TATGGATTGATTTATTTTAA
1 TATGGATTGATTTATTTTAA
1414860 TAATTTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.52
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1415085 original size:84 final size:80
Alignment explanation
Indices: 1414981--1415135 Score: 256
Period size: 84 Copynumber: 1.9 Consensus size: 80
1414971 TAATTTATTA
* *
1414981 GTATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTGATTTATTTTAAAATATGGA
1 GTATGGATTGATTTATTTTAAATAATTTATTAGTAT-G---GATTGATTTATTTTAAAATATAGA
1415046 TTGATTTATTATTGTAGTT
62 TTGATTTATTATTGTAGTT
1415065 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGA
1 GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGA
1415130 TTTATT
66 TTTATT
1415136 TTAAATAATT
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
80 33 0.48
83 1 0.01
84 35 0.51
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (80 bp):
GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGA
TTTATTATTGTAGTT
Found at i:1415177 original size:22 final size:22
Alignment explanation
Indices: 1415152--1415194 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1415142 AATTTATTAG
1415152 TATGGACTGATTTATTTTAAAA
1 TATGGACTGATTTATTTTAAAA
*
1415174 TATGGATTGATTTATTTTAAA
1 TATGGACTGATTTATTTTAAA
1415195 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:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (22 bp):
TATGGACTGATTTATTTTAAAA
Found at i:1415254 original size:31 final size:31
Alignment explanation
Indices: 1415219--1415277 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
1415209 AGTTGTATGG
* *
1415219 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
*
1415250 ATTATTTAAATCTCAGTGTTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
1415278 CTTTTAAATT
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:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:1416621 original size:28 final size:28
Alignment explanation
Indices: 1416589--1416645 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
1416579 TAATTCATGT
*
1416589 ACCACGTCATAACGCAGTTAAAAAGTTA
1 ACCACGCCATAACGCAGTTAAAAAGTTA
*
1416617 ACCACGCCATAACGCGGTTAAAAAGTTA
1 ACCACGCCATAACGCAGTTAAAAAGTTA
1416645 A
1 A
1416646 TGGAAAAGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.42, C:0.23, G:0.16, T:0.19
Consensus pattern (28 bp):
ACCACGCCATAACGCAGTTAAAAAGTTA
Found at i:1417675 original size:20 final size:20
Alignment explanation
Indices: 1417647--1417696 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
1417637 TAACTCAGAT
*
1417647 GTATCGATACTGACCTCTAA
1 GTATCGATACCGACCTCTAA
* *
1417667 GTATTGATACCGACCTCTAG
1 GTATCGATACCGACCTCTAA
*
1417687 GTATCAATAC
1 GTATCGATAC
1417697 TAACTGGATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (20 bp):
GTATCGATACCGACCTCTAA
Found at i:1420354 original size:25 final size:26
Alignment explanation
Indices: 1420320--1420376 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
1420310 ATATTTTTAA
* * *
1420320 TAAATTAAAAT-AAATTATATATTTT
1 TAAATGAAAATAAAATAAAATATTTT
1420345 TAAATGAAAATAAAAATAAAATATTTT
1 TAAATGAAAAT-AAAATAAAATATTTT
1420372 TAAAT
1 TAAAT
1420377 TAAGTTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 10 0.37
27 17 0.63
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (26 bp):
TAAATGAAAATAAAATAAAATATTTT
Found at i:1420391 original size:27 final size:27
Alignment explanation
Indices: 1420338--1420420 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 27
1420328 AATAAATTAT
* ** *
1420338 ATATTTTTAAATGAAAATAAAAATAAA
1 ATATTTTTAAATTAAGTTAATAATAAA
*
1420365 ATATTTTTAAATTAAGTTAATAGTAAA
1 ATATTTTTAAATTAAGTTAATAATAAA
*
1420392 ATATATTT-AA-TAAGTTAATACA-AAA
1 ATATTTTTAAATTAAGTTAATA-ATAAA
1420417 ATAT
1 ATAT
1420421 CTTAAGTTAA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
25 17 0.35
26 2 0.04
27 29 0.60
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.39
Consensus pattern (27 bp):
ATATTTTTAAATTAAGTTAATAATAAA
Found at i:1420411 original size:25 final size:27
Alignment explanation
Indices: 1420361--1420420 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 27
1420351 AAAATAAAAA
* *
1420361 TAAAATATTTTTAAATTAAGTTAATAG
1 TAAAATATATTTAAATTAAGTTAATAC
1420388 TAAAATATATTT-AA-TAAGTTAATAC
1 TAAAATATATTTAAATTAAGTTAATAC
*
1420413 AAAAATAT
1 TAAAATAT
1420421 CTTAAGTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 17 0.57
26 2 0.07
27 11 0.37
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (27 bp):
TAAAATATATTTAAATTAAGTTAATAC
Found at i:1420453 original size:15 final size:16
Alignment explanation
Indices: 1420430--1420460 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
1420420 TCTTAAGTTA
1420430 ATATATATATATAATT
1 ATATATATATATAATT
1420446 ATAT-TATATATAATT
1 ATATATATATATAATT
1420461 TGGGTCACGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATATATATATAATT
Found at i:1420719 original size:39 final size:39
Alignment explanation
Indices: 1420676--1420778 Score: 113
Period size: 39 Copynumber: 2.6 Consensus size: 39
1420666 AAATAAATAT
*
1420676 TTTAGAAAATTAATGTGAAATAATTTAAGAAATTAAGAA
1 TTTAGAAAGTTAATGTGAAATAATTTAAGAAATTAAGAA
* * *
1420715 TTTAGAACGTT-ATGGTGTCAA-AATTTAAGAAATTAAGAT
1 TTTAGAAAGTTAAT-GTG-AAATAATTTAAGAAATTAAGAA
*
1420754 TTTAGAATGTTAGA-GTGAAATAATT
1 TTTAGAAAGTTA-ATGTGAAATAATT
1420779 CGAGGTTTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
38 4 0.08
39 46 0.87
40 2 0.04
41 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.17, T:0.36
Consensus pattern (39 bp):
TTTAGAAAGTTAATGTGAAATAATTTAAGAAATTAAGAA
Found at i:1421206 original size:31 final size:31
Alignment explanation
Indices: 1421171--1421236 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
1421161 GGGATGACCA
1421171 CTTAATTAAATAAAAAAGAAAGTGACAATAT
1 CTTAATTAAATAAAAAAGAAAGTGACAATAT
*** *
1421202 CTTAATTAAATAAAAACTTAAGTGACCATAT
1 CTTAATTAAATAAAAAAGAAAGTGACAATAT
1421233 CTTA
1 CTTA
1421237 TGTATTTTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.52, C:0.11, G:0.08, T:0.30
Consensus pattern (31 bp):
CTTAATTAAATAAAAAAGAAAGTGACAATAT
Found at i:1425209 original size:2 final size:2
Alignment explanation
Indices: 1425202--1425229 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1425192 ATGACTTTGC
1425202 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
1425230 GTATTCATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1426764 original size:140 final size:140
Alignment explanation
Indices: 1426512--1426793 Score: 564
Period size: 140 Copynumber: 2.0 Consensus size: 140
1426502 AAAAGAACAA
1426512 GAAGAGAGAGTTGTTTGTTTTGTGCCATAATGTGAGTTATTTCTTTTGTAAGTGTTTGTATGGTA
1 GAAGAGAGAGTTGTTTGTTTTGTGCCATAATGTGAGTTATTTCTTTTGTAAGTGTTTGTATGGTA
1426577 GCGGGAGAAAAGAGAGGGAAGATAACCAAGCAATAACTCAACAAAGCTTGCTTTCAATATCTTTA
66 GCGGGAGAAAAGAGAGGGAAGATAACCAAGCAATAACTCAACAAAGCTTGCTTTCAATATCTTTA
1426642 AGAATTCAAC
131 AGAATTCAAC
1426652 GAAGAGAGAGTTGTTTGTTTTGTGCCATAATGTGAGTTATTTCTTTTGTAAGTGTTTGTATGGTA
1 GAAGAGAGAGTTGTTTGTTTTGTGCCATAATGTGAGTTATTTCTTTTGTAAGTGTTTGTATGGTA
1426717 GCGGGAGAAAAGAGAGGGAAGATAACCAAGCAATAACTCAACAAAGCTTGCTTTCAATATCTTTA
66 GCGGGAGAAAAGAGAGGGAAGATAACCAAGCAATAACTCAACAAAGCTTGCTTTCAATATCTTTA
1426782 AGAATTCAAC
131 AGAATTCAAC
1426792 GA
1 GA
1426794 GGGAAGAAGA
Statistics
Matches: 142, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
140 142 1.00
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (140 bp):
GAAGAGAGAGTTGTTTGTTTTGTGCCATAATGTGAGTTATTTCTTTTGTAAGTGTTTGTATGGTA
GCGGGAGAAAAGAGAGGGAAGATAACCAAGCAATAACTCAACAAAGCTTGCTTTCAATATCTTTA
AGAATTCAAC
Found at i:1428760 original size:138 final size:137
Alignment explanation
Indices: 1428558--1428891 Score: 336
Period size: 138 Copynumber: 2.4 Consensus size: 137
1428548 ATATCGATCT
* * * * * * * * *
1428558 CTTCCAGAAGGG-AGTAGGCAGGATAACCTAATCTTACGCCGAGTGCTCTAACATGTGAAATAGG
1 CTTCCAG-AGGGAAGTAGGCAGGATGACATGATCTTACACCGAGCGCCCTAACGTGTGGAGTAGG
* * *
1428622 CATGCT-ATTCATGTTTCACGCCAAGCGCTTCAACGTTG-GGAGTAGGTAGGGGAGACAAAGTTT
65 CATGCTGATTCA-ATATCACGCCAAGCGCTTCAAC-TTGTGGAGTAGGTAGGGGAGACAAAGTTC
*
1428685 ATGCGGAGTG
128 ATGCGGAGCG
* *
1428695 CTTCCAGAGAGTAAGTA-GCTAGGATGACATGATCTTACACTGAGCGCTCC-AACGTGTGGAGTA
1 CTTCCAGAG-GGAAGTAGGC-AGGATGACATGATCTTACACCGAGCGC-CCTAACGTGTGGAGTA
* * * * * * * *
1428758 GGCATGGTGCTTTAATATCACGCCAAGCGTTTCAACTTGTGGGGTAGGTAGGGTAGATAGAGTTC
63 GGCATGCTGATTCAATATCACGCCAAGCGCTTCAACTTGTGGAGTAGGTAGGGGAGACAAAGTTC
*
1428823 ATGCTGAGCG
128 ATGCGGAGCG
* * *
1428833 CTTCCAGAGGGGAGTAGGCAGGATGACCTGATCTTACGCCGAGCGCCCTAACGTGTGGA
1 CTTCCAGAGGGAAGTAGGCAGGATGACATGATCTTACACCGAGCGCCCTAACGTGTGGA
1428892 ATAGACAAGG
Statistics
Matches: 160, Mismatches: 29, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
136 4 0.03
137 52 0.32
138 100 0.62
139 4 0.03
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.24
Consensus pattern (137 bp):
CTTCCAGAGGGAAGTAGGCAGGATGACATGATCTTACACCGAGCGCCCTAACGTGTGGAGTAGGC
ATGCTGATTCAATATCACGCCAAGCGCTTCAACTTGTGGAGTAGGTAGGGGAGACAAAGTTCATG
CGGAGCG
Found at i:1433337 original size:15 final size:16
Alignment explanation
Indices: 1433317--1433351 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
1433307 CCTTTAAAAG
*
1433317 TTAACAATACA-TTTT
1 TTAACAACACAGTTTT
1433332 TTAACAACACAGTTTT
1 TTAACAACACAGTTTT
1433348 TTAA
1 TTAA
1433352 AATTATTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.40, C:0.14, G:0.03, T:0.43
Consensus pattern (16 bp):
TTAACAACACAGTTTT
Found at i:1437900 original size:16 final size:17
Alignment explanation
Indices: 1437869--1437901 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1437859 TATGCGGAGG
*
1437869 ATTGATAGATTATGGGT
1 ATTGAAAGATTATGGGT
1437886 ATTGAAAGA-TATGGGT
1 ATTGAAAGATTATGGGT
1437902 GAACTTTCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.36
Consensus pattern (17 bp):
ATTGAAAGATTATGGGT
Found at i:1440733 original size:51 final size:51
Alignment explanation
Indices: 1440657--1440759 Score: 188
Period size: 51 Copynumber: 2.0 Consensus size: 51
1440647 ATGGTCCTTC
* *
1440657 TGATCACATAGATGCCACTGATACTAATGTTGTTGTTAATTTTGTTTCTAA
1 TGATCACATAGATGCCACTGATACTAATGTTGTTGTTAATTCTGTCTCTAA
1440708 TGATCACATAGATGCCACTGATACTAATGTTGTTGTTAATTCTGTCTCTAA
1 TGATCACATAGATGCCACTGATACTAATGTTGTTGTTAATTCTGTCTCTAA
1440759 T
1 T
1440760 AAACCTCCAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.42
Consensus pattern (51 bp):
TGATCACATAGATGCCACTGATACTAATGTTGTTGTTAATTCTGTCTCTAA
Found at i:1441966 original size:22 final size:22
Alignment explanation
Indices: 1441938--1441985 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
1441928 AATCCCTCAA
* * *
1441938 TCAGCTCTACTATAGTGTCATT
1 TCAGCTCGAATATAGTGACATT
1441960 TCAGCTCGAATATAGTGACATT
1 TCAGCTCGAATATAGTGACATT
1441982 TCAG
1 TCAG
1441986 TTCGTGTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (22 bp):
TCAGCTCGAATATAGTGACATT
Found at i:1447128 original size:14 final size:14
Alignment explanation
Indices: 1447109--1447138 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1447099 TATATCTTGT
1447109 CACTGGCTACTAGA
1 CACTGGCTACTAGA
*
1447123 CACTGGCTGCTAGA
1 CACTGGCTACTAGA
1447137 CA
1 CA
1447139 ATTGTATCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (14 bp):
CACTGGCTACTAGA
Found at i:1451431 original size:234 final size:232
Alignment explanation
Indices: 1451023--1451490 Score: 893
Period size: 234 Copynumber: 2.0 Consensus size: 232
1451013 CTCTTGCATA
1451023 CGAACAACACGATGAACTAACACGAAACCCTAGAGTTACGCAGCAAAGAAAGCGAGAAACTCCAA
1 CGAACAACACGATGAACTAACACGAAACCCTA-AGTTACGCAGCAAAGAAAGCGAGAAACTCCAA
1451088 GATCTATGGTGATTGACCATGTTAGAATAGTAACTTCATTGAAGAGTTTTAAACCAAGATGTATG
65 GATCTATGGTGATTGACCATGTTAGAATAGTAACTTCATTGAAGAGTTTTAAACCAAGATGTATG
1451153 ACTTTTATTGAATTACAACACTGCTTATATACAAGAAATTACAGCCTCTATAACTACTCATAACA
130 ACTTTTATTGAATTACAACACTGCTTATATACAAGAAATTACAGCCTCTATAACTACTCATAACA
1451218 ACTAACAACTAACATTTAACAACTGCCCTTAACAGCTT
195 ACTAACAACTAACATTTAACAACTGCCCTTAACAGCTT
1451256 CGAACAACACGATGAACTAACACGAAACACCT-AGTTACGCAGCAAAGAAAGCGAGAAACTCCAA
1 CGAACAACACGATGAACTAACACGAAAC-CCTAAGTTACGCAGCAAAGAAAGCGAGAAACTCCAA
1451320 GATCTATGGTGATTGATACCATGTTAGAATAGTAACTTCATTGAAGAGTTTTAAACCAAGATGTA
65 GATCTATGGTGATTG--ACCATGTTAGAATAGTAACTTCATTGAAGAGTTTTAAACCAAGATGTA
1451385 TGACTTTTATTGAATTACAACACTGCTTATATACAAGAAATTACAGCCTCTATAACTACTCATAA
128 TGACTTTTATTGAATTACAACACTGCTTATATACAAGAAATTACAGCCTCTATAACTACTCATAA
1451450 CAACTAACAACTAACATTTAACAACTGCCCTTAACAGCTT
193 CAACTAACAACTAACATTTAACAACTGCCCTTAACAGCTT
1451490 C
1 C
1451491 CTAACTATAA
Statistics
Matches: 232, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
232 47 0.20
233 28 0.12
234 157 0.68
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.25
Consensus pattern (232 bp):
CGAACAACACGATGAACTAACACGAAACCCTAAGTTACGCAGCAAAGAAAGCGAGAAACTCCAAG
ATCTATGGTGATTGACCATGTTAGAATAGTAACTTCATTGAAGAGTTTTAAACCAAGATGTATGA
CTTTTATTGAATTACAACACTGCTTATATACAAGAAATTACAGCCTCTATAACTACTCATAACAA
CTAACAACTAACATTTAACAACTGCCCTTAACAGCTT
Found at i:1452733 original size:23 final size:23
Alignment explanation
Indices: 1452706--1452754 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
1452696 AATATTATTT
1452706 TTTAATGAGGCCTTCGATTTAAG
1 TTTAATGAGGCCTTCGATTTAAG
*
1452729 TTTAATGAGGCCTTGGATTTAAG
1 TTTAATGAGGCCTTCGATTTAAG
1452752 TTT
1 TTT
1452755 TGGAATTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.24, C:0.10, G:0.22, T:0.43
Consensus pattern (23 bp):
TTTAATGAGGCCTTCGATTTAAG
Found at i:1453679 original size:77 final size:76
Alignment explanation
Indices: 1453574--1454090 Score: 583
Period size: 77 Copynumber: 6.7 Consensus size: 76
1453564 TATAAGAAAT
* * * * * * *
1453574 ATGGTTGCGCCTAA-AATTATCATGGTTCATTAAGAAACATGTTGCGATTTAGAATGTTAAAATT
1 ATGGTTGCGCCCAAGAA-TGTCATGGTTCACTAAGAAATAAGTTGCGATCTAGAATGTTAATATT
1453638 TTTATTAATAAA
65 TTTATTAATAAA
* * * * *
1453650 ATAGGTTGCGCCCAAGAATGTCATTGTTCACTAAGAAATAAGTTGTGATCTATAATGTTCATAAT
1 AT-GGTTGCGCCCAAGAATGTCATGGTTCACTAAGAAATAAGTTGCGATCTAGAATGTTAATATT
1453715 TTTATTAATAAA
65 TTTATTAATAAA
* * * *
1453727 ATGGGTTACGTCTAAGAATGTCATGGTTCACTAAGAAATAAGTTGCGATAT-GAAATGTTAATAT
1 AT-GGTTGCGCCCAAGAATGTCATGGTTCACTAAGAAATAAGTTGCGATCTAG-AATGTTAATAT
1453791 TTTTATTAATAAA
64 TTTTATTAATAAA
* * * * * *
1453804 ATGAGTTGTGCCTAAGAATGTCATAGTTCAATAAGAAATATGTTGTGATCT-GAAATGTTAATAT
1 ATG-GTTGCGCCCAAGAATGTCATGGTTCACTAAGAAATAAGTTGCGATCTAG-AATGTTAATAT
1453868 TTTTATTAATAAA
64 TTTTATTAATAAA
* * * * * * *
1453881 ATGAGGTGTGCTCAAGAATATCATGCTTCACTAAGAAATAGGTTGCGATCTGGAATGTTAATATT
1 ATG-GTTGCGCCCAAGAATGTCATGGTTCACTAAGAAATAAGTTGCGATCTAGAATGTTAATATT
*
1453946 TTTATTTATAAA
65 TTTATTAATAAA
* * **
1453958 ATGATTTGCACCCAAGAATGTCATGGTTCACTAAGAAATAAGTTGTTATCTAGAATGTTAATATA
1 ATG-GTTGCGCCCAAGAATGTCATGGTTCACTAAGAAATAAGTTGCGATCTAGAATGTTAATAT-
1454023 TTTT-TTAATAAA
64 TTTTATTAATAAA
* * *
1454035 ATGGATTGCGCCCAAGAATGTCATGGTTCACTAAAAAATAGGTTGTGATCTAGAAT
1 ATGG-TTGCGCCCAAGAATGTCATGGTTCACTAAGAAATAAGTTGCGATCTAGAAT
1454091 AAAATGGGTT
Statistics
Matches: 377, Mismatches: 57, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
76 3 0.01
77 367 0.97
78 7 0.02
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.36
Consensus pattern (76 bp):
ATGGTTGCGCCCAAGAATGTCATGGTTCACTAAGAAATAAGTTGCGATCTAGAATGTTAATATTT
TTATTAATAAA
Found at i:1453811 original size:40 final size:40
Alignment explanation
Indices: 1453762--1453890 Score: 106
Period size: 40 Copynumber: 3.3 Consensus size: 40
1453752 GTTCACTAAG
* *
1453762 AAATAAGTTGCGATATGAAATGTTAATATTTTTATTAATA
1 AAATGAGTTGTGATATGAAATGTTAATATTTTTATTAATA
* * * * * * *
1453802 AAATGAGTTGTGCCTAAG-AATG-TCATA-GTTCAATAA-G
1 AAATGAGTTGTG-ATATGAAATGTTAATATTTTTATTAATA
*
1453839 AAAT-ATGTTGTGATCTGAAATGTTAATATTTTTATTAATA
1 AAATGA-GTTGTGATATGAAATGTTAATATTTTTATTAATA
*
1453879 AAATGAGGTGTG
1 AAATGAGTTGTG
1453891 CTCAAGAATA
Statistics
Matches: 64, Mismatches: 18, Indels: 14
0.67 0.19 0.15
Matches are distributed among these distances:
36 3 0.05
37 14 0.22
38 10 0.16
39 10 0.16
40 23 0.36
41 4 0.06
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.39
Consensus pattern (40 bp):
AAATGAGTTGTGATATGAAATGTTAATATTTTTATTAATA
Found at i:1454108 original size:59 final size:59
Alignment explanation
Indices: 1454029--1454142 Score: 174
Period size: 59 Copynumber: 1.9 Consensus size: 59
1454019 TATATTTTTT
* * *
1454029 AATAAAATGGATTGCGCCCAAGAATGTCATGGTTCACTAAAAAATAGGTTGTGATCTAG
1 AATAAAATGGATTGCACCCAAGAATATCATAGTTCACTAAAAAATAGGTTGTGATCTAG
* * *
1454088 AATAAAATGGGTTGCACCCAAGAATATCATAGTTTACTAATAAATAGGTTGTGAT
1 AATAAAATGGATTGCACCCAAGAATATCATAGTTCACTAAAAAATAGGTTGTGAT
1454143 ATGGAATGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 49 1.00
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (59 bp):
AATAAAATGGATTGCACCCAAGAATATCATAGTTCACTAAAAAATAGGTTGTGATCTAG
Found at i:1454197 original size:136 final size:137
Alignment explanation
Indices: 1453953--1454227 Score: 340
Period size: 136 Copynumber: 2.0 Consensus size: 137
1453943 ATTTTTATTT
* * * * *
1453953 ATAAAATGATTTGCACCCAAGAATGTCATGGTTCACTAAGAAATAAGTTGTTATCTAGAATGTTA
1 ATAAAATGAGTTGCACCCAAGAATATCATAGTTCACTAAGAAATAAGTTGTGATATAGAATGTTA
* * * * * *
1454018 ATATATTTTTTAATAAAATGGATTGCGCCCAAGAATGTCATGGTTCACTAAAAAAT-AGGTTGTG
66 ATATATTTTTTAATAAAATGGAGTGCACACAAGAATCTCATGGTTCACTAAAAAATCAAGTTGCG
1454082 ATCTAGA
131 ATCTAGA
* * * * *
1454089 ATAAAATGGGTTGCACCCAAGAATATCATAGTTTACTAATAAATAGGTTGTGATATGGAATGTTA
1 ATAAAATGAGTTGCACCCAAGAATATCATAGTTCACTAAGAAATAAGTTGTGATATAGAATGTTA
* *
1454154 ATAT-TTTTATTAATAAAATGG-GTGACACACAAGAATCTTATGGTTCACTAAGAAATCAAGTTG
66 ATATATTTT-TTAATAAAATGGAGTG-CACACAAGAATCTCATGGTTCACTAAAAAATCAAGTTG
*
1454217 CGATCTGGA
129 CGATCTAGA
1454226 AT
1 AT
1454228 GCTATTTTTC
Statistics
Matches: 117, Mismatches: 19, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
135 6 0.05
136 97 0.83
137 14 0.12
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (137 bp):
ATAAAATGAGTTGCACCCAAGAATATCATAGTTCACTAAGAAATAAGTTGTGATATAGAATGTTA
ATATATTTTTTAATAAAATGGAGTGCACACAAGAATCTCATGGTTCACTAAAAAATCAAGTTGCG
ATCTAGA
Found at i:1454242 original size:77 final size:77
Alignment explanation
Indices: 1454088--1454247 Score: 175
Period size: 77 Copynumber: 2.1 Consensus size: 77
1454078 TGTGATCTAG
* * * * * *
1454088 AATAAAATGGGTTGCACCCAAGAATATCATAGTTTACTAATAAATAGGTTGTGATATGGAATGTT
1 AATAAAATGGGTTGCACACAAGAATATCATAGTTCACTAAGAAATAAGTTGCGATATGGAATGCT
1454153 AATATTTTTATT
66 AATATTTTTATT
* * * *
1454165 AATAAAATGGG-TGACACACAAGAATCTTATGGTTCACTAAGAAATCAAGTTGCGATCTGGAATG
1 AATAAAATGGGTTG-CACACAAGAATATCATAGTTCACTAAGAAAT-AAGTTGCGATATGGAATG
1454229 CT-AT-TTTTCTATT
64 CTAATATTTT-TATT
1454242 -ATAAAA
1 AATAAAA
1454248 AATTCGAAAG
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
76 12 0.17
77 42 0.60
78 16 0.23
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (77 bp):
AATAAAATGGGTTGCACACAAGAATATCATAGTTCACTAAGAAATAAGTTGCGATATGGAATGCT
AATATTTTTATT
Found at i:1454352 original size:20 final size:20
Alignment explanation
Indices: 1454327--1454364 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1454317 ATAAGGCTGC
*
1454327 AAAGTATCGATATTTTTATA
1 AAAGTATCGATACTTTTATA
1454347 AAAGTATCGATACTTTTA
1 AAAGTATCGATACTTTTA
1454365 AATTTGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (20 bp):
AAAGTATCGATACTTTTATA
Found at i:1454431 original size:19 final size:20
Alignment explanation
Indices: 1454407--1454446 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1454397 TTTTTTAAAA
1454407 TTTC-AAAGCATCGATACTT
1 TTTCAAAAGCATCGATACTT
*
1454426 TTTCAAAAGTATCGATACTT
1 TTTCAAAAGCATCGATACTT
1454446 T
1 T
1454447 CAAATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTCAAAAGCATCGATACTT
Found at i:1454514 original size:155 final size:156
Alignment explanation
Indices: 1454246--1454607 Score: 398
Period size: 155 Copynumber: 2.3 Consensus size: 156
1454236 TCTATTATAA
* * *
1454246 AAAATTCGAAAGTAT-GTATAC-TTTTCTAAAAATATCGATACTTTAGAATTTAAAGAAATATAT
1 AAAATTCAAAAGCATCG-ATACTTTTTC-AAAAGTATCGATACTTTA-AATTTAAAGAAATATAT
* * * ** * *
1454309 GGAAAATGATAAGGCTGCAAAGTATCGATATTTTTATAAAAGTATCGATACTTTTAAATTTGAAA
63 AGAAAATGAGAAGGCTGCAAAGAATAAATATTTTTACAAAAGTATCGATACTTTTAAATTCGAAA
*
1454374 GTTAAAATATATTTTTTTCCAT-TTTT-TTT
128 GTT-AAA-ATATTATTTTCCATGTTTTCTTT
1454403 AAAATTTC-AAAGCATCGATACTTTTTCAAAAGTATCGATACTTTCAAATTTAAAGAAA-A-ATA
1 AAAA-TTCAAAAGCATCGATACTTTTTCAAAAGTATCGATACTTT-AAATTTAAAGAAATATATA
* * * *
1454465 GAAAATGAGAATG-TGTCAAAGAATAAATATTTTTCCAAAAGTATTGATACTTTTAACTTCGAAA
64 GAAAATGAGAAGGCTG-CAAAGAATAAATATTTTTACAAAAGTATCGATACTTTTAAATTCGAAA
1454529 GTTAAAATATTATTTTCCATGTTTTCTTT
128 GTTAAAATATTATTTTCCATGTTTTCTTT
* * * * * *
1454558 TAAATTCAAAAGTATCGATATTTTTTTAGAAGTATCAATACTTTTAAATT
1 AAAATTCAAAAGCATCGATACTTTTTCAAAAGTATCGATAC-TTTAAATT
1454608 CGAAAGTTAA
Statistics
Matches: 176, Mismatches: 20, Indels: 20
0.81 0.09 0.09
Matches are distributed among these distances:
153 13 0.07
154 12 0.07
155 95 0.54
156 4 0.02
157 42 0.24
158 10 0.06
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (156 bp):
AAAATTCAAAAGCATCGATACTTTTTCAAAAGTATCGATACTTTAAATTTAAAGAAATATATAGA
AAATGAGAAGGCTGCAAAGAATAAATATTTTTACAAAAGTATCGATACTTTTAAATTCGAAAGTT
AAAATATTATTTTCCATGTTTTCTTT
Found at i:1455187 original size:19 final size:18
Alignment explanation
Indices: 1455163--1455202 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
1455153 ACTTAAATTC
*
1455163 AAAAGTATCGATACTTCTT
1 AAAAGTATCAATACTT-TT
1455182 AAAAGTATCAATACTTTT
1 AAAAGTATCAATACTTTT
1455200 AAA
1 AAA
1455203 TTCGAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.35
Consensus pattern (18 bp):
AAAAGTATCAATACTTTT
Found at i:1456076 original size:36 final size:38
Alignment explanation
Indices: 1455993--1456080 Score: 117
Period size: 39 Copynumber: 2.3 Consensus size: 38
1455983 TGAGTTTAAG
* *
1455993 GTTAAGGTTAACAAATTATAATAGTTGACCTCATATAAT
1 GTTAAGGTTAACAAATTATAATAGTCGA-CTCATAGAAT
* *
1456032 GTTAAGGTTAACAGATTATAATAGTCGA-TC-TGGAAT
1 GTTAAGGTTAACAAATTATAATAGTCGACTCATAGAAT
1456068 GTTAAGGTTAACA
1 GTTAAGGTTAACA
1456081 TTCTTTTGTG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
36 17 0.38
37 2 0.04
39 26 0.58
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (38 bp):
GTTAAGGTTAACAAATTATAATAGTCGACTCATAGAAT
Found at i:1456362 original size:76 final size:77
Alignment explanation
Indices: 1456092--1456389 Score: 321
Period size: 77 Copynumber: 3.9 Consensus size: 77
1456082 TCTTTTGTGA
* * * * * * * * ** *
1456092 AACCTATTTTATCAATAAAAATATTAGCATTCTAGATCGCAACCTATTTATTAGTGAATTATGAT
1 AACCCATTTTATTAATAAAAATATTAACATTCCATATCACAACTTATTTCTTAGTGAACCATGAC
* ***
1456157 ATTATTGGGATT
66 ATTCTTGGGCGC
* * * *
1456169 AACCCATTTTATTAATAAAAGTATTAACATTTCATATCGCAACCTATTTCTTAGTGAACCATGAC
1 AACCCATTTTATTAATAAAAATATTAACATTCCATATCACAACTTATTTCTTAGTGAACCATGAC
*
1456234 ATGCTTGGGCGC
66 ATTCTTGGGCGC
** * * * *
1456246 AACGTATTTTATTAATAAAAATATTAACATTCCGGT-TCACAATTTATTTTTTAGTAAACCATGA
1 AACCCATTTTATTAATAAAAATATTAACATTCC-ATATCACAACTTATTTCTTAGTGAACCATGA
1456310 CATTCTTGGGCGC
65 CATTCTTGGGCGC
* *
1456323 -ACCCATTTTATTAATAAAAATATTAATATTCCATATCACAACTTGTTTCTTAGTGAACCATGAC
1 AACCCATTTTATTAATAAAAATATTAACATTCCATATCACAACTTATTTCTTAGTGAACCATGAC
1456387 ATT
66 ATT
1456390 TTTAGGCTCA
Statistics
Matches: 184, Mismatches: 35, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
75 1 0.01
76 57 0.31
77 125 0.68
78 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (77 bp):
AACCCATTTTATTAATAAAAATATTAACATTCCATATCACAACTTATTTCTTAGTGAACCATGAC
ATTCTTGGGCGC
Found at i:1457449 original size:12 final size:12
Alignment explanation
Indices: 1457432--1457471 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
1457422 AGTATTTTAA
1457432 AAAATAAAACTT
1 AAAATAAAACTT
*
1457444 AAAATAAAA-TA
1 AAAATAAAACTT
1457455 AAAATGAAAACTT
1 AAAAT-AAAACTT
1457468 AAAA
1 AAAA
1457472 AGAGAAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 6 0.25
12 13 0.54
13 5 0.21
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (12 bp):
AAAATAAAACTT
Found at i:1466347 original size:56 final size:56
Alignment explanation
Indices: 1466261--1466460 Score: 265
Period size: 56 Copynumber: 3.6 Consensus size: 56
1466251 CAGGGCCTCA
* * * * *
1466261 AAAAATAGAGGCCCCGAAATCTAATATATCTATCAGTTGTTGCCATTAATAAGTAT
1 AAAAATAGGGGTCCCGAAATCGAATATATCTATCAGTTGTTGCCATTAAGAAGCAT
* * *
1466317 AAAAATAGGGGTCACGAAATTGAGTATATCTATCAGTTGTTGCCATTAAGAAGCAT
1 AAAAATAGGGGTCCCGAAATCGAATATATCTATCAGTTGTTGCCATTAAGAAGCAT
** * * * *
1466373 AAAAATAAAGGCCCCGAAATCAAATATATCTATCAGTTGTTGTCATTAAGAAACAT
1 AAAAATAGGGGTCCCGAAATCGAATATATCTATCAGTTGTTGCCATTAAGAAGCAT
*
1466429 AAAAATAGGGGTCCCGGAATCGAATATATCTA
1 AAAAATAGGGGTCCCGAAATCGAATATATCTA
1466461 GAAAATAGGG
Statistics
Matches: 122, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 122 1.00
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.28
Consensus pattern (56 bp):
AAAAATAGGGGTCCCGAAATCGAATATATCTATCAGTTGTTGCCATTAAGAAGCAT
Found at i:1468827 original size:3 final size:3
Alignment explanation
Indices: 1468819--1468870 Score: 70
Period size: 3 Copynumber: 17.3 Consensus size: 3
1468809 GATCTTTCGA
*
1468819 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT AATT ATT ATT TTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT
*
1468864 ATA ATT A
1 ATT ATT A
1468871 AATATTAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 39 0.91
4 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1473802 original size:31 final size:31
Alignment explanation
Indices: 1473767--1473836 Score: 140
Period size: 31 Copynumber: 2.3 Consensus size: 31
1473757 TACAAGATAA
1473767 TATTTGTTTAACTAATCATAATGATTAATGC
1 TATTTGTTTAACTAATCATAATGATTAATGC
1473798 TATTTGTTTAACTAATCATAATGATTAATGC
1 TATTTGTTTAACTAATCATAATGATTAATGC
1473829 TATTTGTT
1 TATTTGTT
1473837 ATTCATCATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.33, C:0.09, G:0.10, T:0.49
Consensus pattern (31 bp):
TATTTGTTTAACTAATCATAATGATTAATGC
Found at i:1476924 original size:17 final size:17
Alignment explanation
Indices: 1476904--1476936 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1476894 ATATTTATTT
1476904 ATAT-AAAATATAATATA
1 ATATCAAAA-ATAATATA
1476921 ATATCAAAAATAATAT
1 ATATCAAAAATAATAT
1476937 TATGATCTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
ATATCAAAAATAATATA
Found at i:1477038 original size:17 final size:16
Alignment explanation
Indices: 1477013--1477048 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
1477003 TTAAATATTA
*
1477013 TTTTAAATAATTATAT
1 TTTTAAATAATAATAT
1477029 TTTTATAATAATAATAT
1 TTTTA-AATAATAATAT
1477046 TTT
1 TTT
1477049 AACCTCATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTAAATAATAATAT
Found at i:1478209 original size:14 final size:13
Alignment explanation
Indices: 1478190--1478236 Score: 55
Period size: 14 Copynumber: 3.8 Consensus size: 13
1478180 GCCCTCTGTT
1478190 CGAACATAAATGAA
1 CGAACATAAAT-AA
1478204 CGAACATAAAT--
1 CGAACATAAATAA
*
1478215 -TAACATAAATAA
1 CGAACATAAATAA
1478227 CGAACATAAA
1 CGAACATAAA
1478237 CGAACATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
10 9 0.32
13 8 0.29
14 11 0.39
ACGTcount: A:0.60, C:0.15, G:0.09, T:0.17
Consensus pattern (13 bp):
CGAACATAAATAA
Found at i:1478232 original size:23 final size:24
Alignment explanation
Indices: 1478192--1478254 Score: 83
Period size: 23 Copynumber: 2.6 Consensus size: 24
1478182 CCTCTGTTCG
1478192 AACATAAATGAACGAACATAAATT
1 AACATAAATGAACGAACATAAATT
**
1478216 AACATAAAT-AACGAACATAAACG
1 AACATAAATGAACGAACATAAATT
1478239 AACATATAATCGAACG
1 AACATA-AAT-GAACG
1478255 TTCACGAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 18 0.53
24 12 0.35
26 4 0.12
ACGTcount: A:0.57, C:0.16, G:0.10, T:0.17
Consensus pattern (24 bp):
AACATAAATGAACGAACATAAATT
Found at i:1478691 original size:40 final size:40
Alignment explanation
Indices: 1478605--1478803 Score: 156
Period size: 40 Copynumber: 5.0 Consensus size: 40
1478595 AATAATTAAC
* * * * *
1478605 GAATTCACAACTC-AATTTCGAATTCGCAACACGAAAGTCA
1 GAATTCGCAACACGAATTTCGAATTCGCAACTCG-AATTTA
* *
1478645 -ATTTCGCAACAC-AGTTTCCGAATTCGCAACTCGAATTTA
1 GAATTCGCAACACGAATTT-CGAATTCGCAACTCGAATTTA
* * *
1478684 GAATTCGCAACTCGAATTTGGAATTCGCAACTCGAATTTG
1 GAATTCGCAACACGAATTTCGAATTCGCAACTCGAATTTA
* * **
1478724 GAATTCGCAACACGAATTTACCAAATTCACAACTCAGTTTTTA
1 GAATTCGCAACACGAATTT--CGAATTCGCAACTC-GAATTTA
* * *
1478767 -AATTCGTAACTCGAA-TTCGGATTTCGCAACTCGAATT
1 GAATTCGCAACACGAATTTC-GAATTCGCAACTCGAATT
1478804 CGCCAATTTC
Statistics
Matches: 126, Mismatches: 26, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
39 21 0.17
40 71 0.56
41 6 0.05
42 24 0.19
43 4 0.03
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (40 bp):
GAATTCGCAACACGAATTTCGAATTCGCAACTCGAATTTA
Found at i:1478711 original size:60 final size:60
Alignment explanation
Indices: 1478604--1478743 Score: 151
Period size: 60 Copynumber: 2.4 Consensus size: 60
1478594 AAATAATTAA
* * *
1478604 CGAATTCACAACTC-AATTTCGAATTCGCAACACGAAAGTCAATTTCGCAACAC-AGTTT
1 CGAATTCGCAACTCGAATTTAGAATTCGCAACACGAAAGTCAATTTCGCAACACGAATTT
* ** * *
1478662 CCGAATTCGCAACTCGAATTTAGAATTCGCAACTCGAATTTGGAA-TTCGCAACTCGAATTT
1 -CGAATTCGCAACTCGAATTTAGAATTCGCAACACGAAAGT-CAATTTCGCAACACGAATTT
* *
1478723 GGAATTCGCAACACGAATTTA
1 CGAATTCGCAACTCGAATTTA
1478744 CCAAATTCAC
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
59 13 0.19
60 49 0.72
61 6 0.09
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (60 bp):
CGAATTCGCAACTCGAATTTAGAATTCGCAACACGAAAGTCAATTTCGCAACACGAATTT
Found at i:1478778 original size:62 final size:62
Alignment explanation
Indices: 1478705--1478826 Score: 172
Period size: 62 Copynumber: 2.0 Consensus size: 62
1478695 TCGAATTTGG
* * *
1478705 AATTCGCAACTCGAATTTGGAATTCGCAACACGAATTTACCAAATTCACAACTCAGTTTTTA
1 AATTCGCAACTCGAATTCGGAATTCGCAACACGAATTCACCAAATTCACAACTCAATTTTTA
* * * * *
1478767 AATTCGTAACTCGAATTCGGATTTCGCAACTCGAATTCGCCAATTTCACAACTCAATTTT
1 AATTCGCAACTCGAATTCGGAATTCGCAACACGAATTCACCAAATTCACAACTCAATTTT
1478827 CGAAACATGA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
62 52 1.00
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (62 bp):
AATTCGCAACTCGAATTCGGAATTCGCAACACGAATTCACCAAATTCACAACTCAATTTTTA
Found at i:1478782 original size:82 final size:80
Alignment explanation
Indices: 1478605--1478803 Score: 215
Period size: 82 Copynumber: 2.5 Consensus size: 80
1478595 AATAATTAAC
* * * ** * *
1478605 GAATTCACAACTC-AATTTCGAATTCGCAACACGAAAGTCAATTTCGCAACACAGTTTCCGAATT
1 GAATTCGCAACTCGAATTTGGAATTCGCAACTCGAATTTCAATTTCGCAACACAATTTCCAAATT
*
1478669 CGCAACTCGAATTTA
66 CACAACTCGAATTTA
*
1478684 GAATTCGCAACTCGAATTTGGAATTCGCAACTCGAATTTGGAA-TTCGCAACACGAATTTACCAA
1 GAATTCGCAACTCGAATTTGGAATTCGCAACTCGAATTT-CAATTTCGCAACAC-AATTT-CCAA
**
1478748 ATTCACAACTCAGTTTTTA
63 ATTCACAACTC-GAATTTA
* * *
1478767 -AATTCGTAACTCGAATTCGGATTTCGCAACTCGAATT
1 GAATTCGCAACTCGAATTTGGAATTCGCAACTCGAATT
1478804 CGCCAATTTC
Statistics
Matches: 101, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
79 12 0.12
80 31 0.31
81 6 0.06
82 47 0.47
83 5 0.05
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (80 bp):
GAATTCGCAACTCGAATTTGGAATTCGCAACTCGAATTTCAATTTCGCAACACAATTTCCAAATT
CACAACTCGAATTTA
Found at i:1478805 original size:20 final size:20
Alignment explanation
Indices: 1478664--1478803 Score: 147
Period size: 20 Copynumber: 6.9 Consensus size: 20
1478654 CACAGTTTCC
*
1478664 GAATTCGCAACTCGAATTTA
1 GAATTCGCAACTCGAATTTG
1478684 GAATTCGCAACTCGAATTTG
1 GAATTCGCAACTCGAATTTG
1478704 GAATTCGCAACTCGAATTTG
1 GAATTCGCAACTCGAATTTG
* *
1478724 GAATTCGCAACACGAATTTACC
1 GAATTCGCAACTCGAATTT--G
* * * *
1478746 AAATTCACAACTC-AGTTTTT
1 GAATTCGCAACTCGA-ATTTG
* * *
1478766 AAATTCGTAACTCGAATTCG
1 GAATTCGCAACTCGAATTTG
*
1478786 GATTTCGCAACTCGAATT
1 GAATTCGCAACTCGAATT
1478804 CGCCAATTTC
Statistics
Matches: 100, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
20 85 0.85
21 2 0.02
22 13 0.13
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (20 bp):
GAATTCGCAACTCGAATTTG
Found at i:1478818 original size:22 final size:20
Alignment explanation
Indices: 1478774--1478824 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
1478764 TTAAATTCGT
* *
1478774 AACTCGAATTCGGATTTCGC
1 AACTCGAATTCGAATTTCAC
1478794 AACTCGAATTCGCCAATTTCAC
1 AACTCGAATTCG--AATTTCAC
1478816 AACTC-AATT
1 AACTCGAATT
1478825 TTCGAAACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 12 0.44
21 4 0.15
22 11 0.41
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.29
Consensus pattern (20 bp):
AACTCGAATTCGAATTTCAC
Found at i:1487875 original size:15 final size:15
Alignment explanation
Indices: 1487855--1487886 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1487845 TATGTTTTAA
*
1487855 ATATTAATTATTGTT
1 ATATTAATTATTATT
1487870 ATATTAATTATTATT
1 ATATTAATTATTATT
1487885 AT
1 AT
1487887 TAGTACTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
ATATTAATTATTATT
Found at i:1493668 original size:65 final size:63
Alignment explanation
Indices: 1493587--1493748 Score: 175
Period size: 65 Copynumber: 2.5 Consensus size: 63
1493577 GCATCCCTTG
* *
1493587 ACGGGTGCATCAATGCACTATCTATGCATCGATGCA-TAAATCCCATTTGATGTTTATATTTTTA
1 ACGGGTGCATCAATGCACT-TCTATGCATCGATGCACT-AATCCCATTCGATGTTTACATTTTTA
* * ** *
1493651 AGCGGGTGCATCGATGCAATCTT-TATGCATTGATGCACTAATGGCATTCGATGTTTCCATTTTT
1 A-CGGGTGCATCAATGC-A-CTTCTATGCATCGATGCACTAATCCCATTCGATGTTTACATTTTT
1493715 A
63 A
* *
1493716 ATGGGTGCATCAATGCACTTCCTGTGCATCGAT
1 ACGGGTGCATCAATGCACTT-CTATGCATCGAT
1493749 ACACACTGAA
Statistics
Matches: 81, Mismatches: 11, Indels: 12
0.78 0.11 0.12
Matches are distributed among these distances:
62 3 0.04
63 1 0.01
64 23 0.28
65 49 0.60
66 3 0.04
67 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (63 bp):
ACGGGTGCATCAATGCACTTCTATGCATCGATGCACTAATCCCATTCGATGTTTACATTTTTA
Found at i:1496140 original size:3 final size:3
Alignment explanation
Indices: 1496132--1496188 Score: 87
Period size: 3 Copynumber: 18.3 Consensus size: 3
1496122 TGTCCAAAAT
*
1496132 TTA TTA TTA TTA TTTA TTA TTA TTAA GTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
1496179 TTA TTA TTA T
1 TTA TTA TTA T
1496189 CATCATCATA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
3 45 0.90
4 5 0.10
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:1498116 original size:2 final size:2
Alignment explanation
Indices: 1498060--1498096 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1498050 TTTTTTTCTT
1498060 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1498097 GTATTGTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1498341 original size:17 final size:17
Alignment explanation
Indices: 1498312--1498354 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
1498302 GTAATATTTT
1498312 TATTTTA-TTTTTATAA
1 TATTTTATTTTTTATAA
*
1498328 TATTTTATTTTTTATTA
1 TATTTTATTTTTTATAA
*
1498345 TGTTTTATTT
1 TATTTTATTT
1498355 AATTTTAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (17 bp):
TATTTTATTTTTTATAA
Found at i:1501370 original size:2 final size:2
Alignment explanation
Indices: 1501363--1501413 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
1501353 GTCTATATGC
1501363 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
1501405 AT AT AT AT A
1 AT AT AT AT A
1501414 CTTAAATTAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1508399 original size:164 final size:164
Alignment explanation
Indices: 1507979--1509047 Score: 1378
Period size: 164 Copynumber: 6.5 Consensus size: 164
1507969 CTATTTGCCA
*
1507979 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCACCAAGGCACATCATTTGCAGCATAGCTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGT
* * *
1508044 CGAAAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTT
66 CGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTT
* * * *
1508109 GCAGTATAACTCAAGGCTAGAAAGGTTATCTGCC
131 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC
* * *
1508143 AACAAAAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGCACATTATTTGCAGCATAGCTTAAG
1 -ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAG
* * *
1508208 TTGAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCTCATCATT
65 TCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATT
** *
1508273 TACAATATAACTCAAGGCTAGAAGGGTTATCTATC
130 TACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC
* * *
1508308 ACCAAAGACCTTCGAGTTCGACTACGCTTAGCTCTAAGGCGCATCATTTGCAGCATAGCTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGT
* * *
1508373 CGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTAAATTCAGCTTCGAGGGCACACCATTT
66 CGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTT
*
1508438 ACAGCATAACTCAAGGCTAGAGGGGTTATCTGTC
131 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC
* * * *
1508472 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGACGCATCATTTGTAGCATAGCTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGT
* * * * *
1508537 CGAGAAGGGCTATATGCCAAAGACCCTCAAGTTCGATCACACTCAACTTCGAGGGCATATCATTT
66 CGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTT
*
1508602 ACAGCATAACTCAAGGCTATAAGGGTTATCTGTC
131 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC
* * * * *
1508636 ACCAAAAACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAAT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGT
* * * * * * * * * * * *
1508701 CTAGAATGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTAAGC-TCAACGACACATC
66 CGAGAAGGGCTATCTG-C--C-AAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
* * * * * *
1508765 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG--
127 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC
* * * * * * * * *
1508801 -CCAAATACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGTATAGCTTAAG
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAG
* *
1508865 TCGAGAAGGGCTATCTGCCAAAGGA-CCTCGAGTTCGATTACACTCAGCGTCTAGGGCACATCAT
65 TCGAGAAGGGCTATCTGCCAAA-GACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCAT
* *
1508929 TTACAGCATAACTAAAGGCTAGAAGGGTTATCTGTT
129 TTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC
* *
1508965 ACCAAAGACCTTCGAGTTCGACTACGCTTAGCTCCAAGGCACATCATTTGCAGTATAGCTT--GT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGT
1509028 CGAGAAGGGCTATCTGCCAA
66 CGAGAAGGGCTATCTGCCAA
1509048 CCGAAGACCT
Statistics
Matches: 777, Mismatches: 117, Indels: 23
0.85 0.13 0.03
Matches are distributed among these distances:
161 21 0.03
162 65 0.08
164 419 0.54
165 212 0.27
167 39 0.05
168 21 0.03
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (164 bp):
ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGT
CGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTT
ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC
Found at i:1508479 original size:248 final size:245
Alignment explanation
Indices: 1507979--1509042 Score: 1042
Period size: 248 Copynumber: 4.3 Consensus size: 245
1507969 CTATTTGCCA
* * *
1507979 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCACCAAGGCACATCATTTGCAGCATAGCTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGACACATCATTTGCAGCATAGCTTAAGT
* * * *
1508044 CGAAAAGGGCTATC--TGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCAT
66 CGAGAAGGGCTATCTATGCCAAAGACCCTCAAGTTCGA-TACACTCAGCTTCGAGGGCACATCAT
* * * * * * * * * * **
1508107 TTGCAGTATAACTCAAGGCTAGAAAGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTATGCT
130 TTACAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCTCGAGTTCGATTACACT
* * * * * *
1508172 CAGCTCCAAGGCACATTATTTGCAGCATAGCTTAA-GTTGAGAAGGGTTATCTG--
191 CAGCTCCAGGGCACATCATTTACAGCATAACTAAAGGCT-AGAAGGGTTATCTGTC
* * * * * * * * ** * *
1508225 -CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCTCATCATTTACAATATAACTCAAG
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCAAAGACACATCATTTGCAGCATAGCTTAAG
* * * * * * * * * * *
1508289 GCTAGAAGGGTTATCTATCACCAAAGACCTTCGAGTTCGACTACGCTTAGC-TCTAAGGCGCATC
65 TCGAGAAGGGCTATCTAT-GCCAAAGACCCTCAAGTTCGA-TACACTCAGCTTCGAGGGCACATC
* * *
1508353 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTAAATTCA
128 ATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCA
* * * *
1508418 GCTTCGAGGGCACACCATTTACAGCATAACTCAAGGCTAGAGGGGTTATCTGTC
193 GC-TCCAGGGCACATCATTTACAGCATAACTAAAGGCTAGAAGGGTTATCTGTC
* * *
1508472 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGACGCATCATTTGTAGCATAGCTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGACACATCATTTGCAGCATAGCTTAAGT
* *
1508537 CGAGAAGGGCTA--TATGCCAAAGACCCTCAAGTTCGATCACACTCAACTTCGAGGGCATATCAT
66 CGAGAAGGGCTATCTATGCCAAAGACCCTCAAGTTCGAT-ACACTCAGCTTCGAGGGCACATCAT
* * * * * * * * * *
1508600 TTACAGCATAACTCAAGGCTATAAGGGTTATCTGTCACCAAAAACCTTCGAGTTCGACTACGCTC
130 TTACAGCATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCTCGAGTTCGATTACACTC
* * * * * * * *
1508665 AGCTCCAAGGCATATCATTTGCAGCACAACTTAAA-TCTAGAATGGTTGTCTGCC
192 AGCTCCAGGGCACATCATTTACAGCATAAC-TAAAGGCTAGAAGGGTTATCTGTC
* * * *
1508719 AACAAAAGACCTTTGAGTTCGACTACGCTAAGCTCAACGACACATCATTTGCAGCATAGCTTAAG
1 -ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGACACATCATTTGCAGCATAGCTTAAG
*
1508784 TCGAGAAGGGCTATC--TGCCAAATACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCA
65 TCGAGAAGGGCTATCTATGCCAAAGACCCTCAAGTTCGA-TACACTCAGCTTCGAGGGCACATCA
*
1508847 TTTACAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGGA-CCTCGAGTTCGATTACACTCA
129 TTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAA-GACCCTCGAGTTCGATTACACTCA
* *
1508911 GCGTCTAGGGCACATCATTTACAGCATAACTAAAGGCTAGAAGGGTTATCTGTT
193 GC-TCCAGGGCACATCATTTACAGCATAACTAAAGGCTAGAAGGGTTATCTGTC
* * * *
1508965 ACCAAAGACCTTCGAGTTCGACTACGCTTAGCTCCAAGGCACATCATTTGCAGTATAGCTT--GT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGACACATCATTTGCAGCATAGCTTAAGT
1509028 CGAGAAGGGCTATCT
66 CGAGAAGGGCTATCT
1509043 GCCAACCGAA
Statistics
Matches: 659, Mismatches: 136, Indels: 48
0.78 0.16 0.06
Matches are distributed among these distances:
243 17 0.03
244 48 0.07
245 190 0.29
246 73 0.11
247 68 0.10
248 236 0.36
249 27 0.04
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (245 bp):
ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGACACATCATTTGCAGCATAGCTTAAGT
CGAGAAGGGCTATCTATGCCAAAGACCCTCAAGTTCGATACACTCAGCTTCGAGGGCACATCATT
TACAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCT
CCAGGGCACATCATTTACAGCATAACTAAAGGCTAGAAGGGTTATCTGTC
Found at i:1508923 original size:493 final size:492
Alignment explanation
Indices: 1507979--1509047 Score: 1434
Period size: 493 Copynumber: 2.2 Consensus size: 492
1507969 CTATTTGCCA
*
1507979 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCACCAAGGCACATCATTTGCAGCATAGCTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGT
* * * *
1508044 CGAAAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTT
66 CGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATCACACTCAACTTCGAGGGCATATCATTT
* * *
1508109 GCAGTATAACTCAAGGCTAGAAAGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTATGCTCA
131 ACAGCATAACTCAAGGCTAGAAAGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
* * * *
1508174 GCTCCAAGGCACATTATTTGCAGCATAGCTTAAGTTGAGAAGGGTTATCTGCCAAAGACCCTCGA
196 GCTCCAAGGCACATCATTTGCAGCACAACTTAAATTGAGAAGGGTTATCTGCCAAAGACCCTCGA
* * * * * * * * *
1508239 GTTCGATTACACTCAGCTTCGAGGGCTCATCATTTACAATATAACTCAAGGCTAGAAGGGTTATC
261 GTTCGACTACACTAAGCTTCAACGACACATCATTTACAACATAACTCAAGGCGAGAAGGGCTATC
* * * * * * *
1508304 TATCACCAAAGACCTTCGAGTTCGACTACGCTTAGCTCTAAGGCGCATCATTTGCAGCATAGCTT
326 -ATCACCAAAGACCCTCAAGTTCGACTACACTCAGCTCGAAGGCACATCATTTACAGCATAGCTT
* *
1508369 AAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTAAATTCAGCTTCGAGGGCACACC
390 AAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTAAACTCAGCGTCGAGGGCACACC
* *
1508434 ATTTACAGCATAACTCAAGGCTAGAGGGGTTATCTGTC
455 ATTTACAGCATAACTAAAGGCTAGAAGGGTTATCTGTC
* * * *
1508472 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGACGCATCATTTGTAGCATAGCTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGT
* *
1508537 CGAGAAGGGCTATATGCCAAAGACCCTCAAGTTCGATCACACTCAACTTCGAGGGCATATCATTT
66 CGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATCACACTCAACTTCGAGGGCATATCATTT
* * * *
1508602 ACAGCATAACTCAAGGCTATAAGGGTTATCTGTCACCAAAA-ACCTTCGAGTTCGACTACGCTCA
131 ACAGCATAACTCAAGGCTAGAAAGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
* * *
1508666 GCTCCAAGGCATATCATTTGCAGCACAACTTAAATCT-AGAATGGTTGTCTGCCAACAAAAGACC
196 GCTCCAAGGCACATCATTTGCAGCACAACTTAAAT-TGAGAAGGGTTATCTG-C--C-AAAGACC
* * * * * * * *
1508730 TTTGAGTTCGACTACGCTAAGC-TCAACGACACATCATTTGCAGCATAGCTTAAGTCGAGAAGGG
256 CTCGAGTTCGACTACACTAAGCTTCAACGACACATCATTTACAACATAACTCAAGGCGAGAAGGG
* * * * *
1508794 CTATC-T-GCCAAATACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGTAT
321 CTATCATCACCAAAGACCCTCAAGTTCGACTACACTCAGC-TCGAAGGCACATCATTTACAGCAT
* *
1508857 AGCTTAAGTCGAGAAGGGCTATCTGCCAAAGGA-CCTCGAGTTCGATTACACTCAGCGTCTAGGG
385 AGCTTAAGTCGAGAAGGGCTATCTGCCAAA-GACCCTCGAGTTCGATTAAACTCAGCGTCGAGGG
* *
1508921 CACATCATTTACAGCATAACTAAAGGCTAGAAGGGTTATCTGTT
449 CACACCATTTACAGCATAACTAAAGGCTAGAAGGGTTATCTGTC
* *
1508965 ACCAAAGACCTTCGAGTTCGACTACGCTTAGCTCCAAGGCACATCATTTGCAGTATAGCTT--GT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGT
1509028 CGAGAAGGGCTATCTGCCAA
66 CGAGAAGGGCTATCTGCCAA
1509048 CCGAAGACCT
Statistics
Matches: 500, Mismatches: 69, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
491 21 0.04
492 89 0.18
493 328 0.66
494 2 0.00
495 36 0.07
496 24 0.05
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (492 bp):
ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGT
CGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATCACACTCAACTTCGAGGGCATATCATTT
ACAGCATAACTCAAGGCTAGAAAGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
GCTCCAAGGCACATCATTTGCAGCACAACTTAAATTGAGAAGGGTTATCTGCCAAAGACCCTCGA
GTTCGACTACACTAAGCTTCAACGACACATCATTTACAACATAACTCAAGGCGAGAAGGGCTATC
ATCACCAAAGACCCTCAAGTTCGACTACACTCAGCTCGAAGGCACATCATTTACAGCATAGCTTA
AGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTAAACTCAGCGTCGAGGGCACACCA
TTTACAGCATAACTAAAGGCTAGAAGGGTTATCTGTC
Found at i:1508949 original size:329 final size:326
Alignment explanation
Indices: 1507979--1509047 Score: 1383
Period size: 329 Copynumber: 3.3 Consensus size: 326
1507969 CTATTTGCCA
*
1507979 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCACCAAGGCACATCATTTGCAGCATAGCTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGT
* * *
1508044 CGAAAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTT
66 CGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTT
* * *
1508109 GCAGTATAACTCAAGGCTAGAAAGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTATGCTCA
131 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCC--C-AAAGACCTTCGAGTTCGACTACGCTCA
* * *
1508174 GCTCCAAGGCACATTATTTGCAGCATAGCTTAAGTTGAGAAGGGTTATCTGCCAAAGACCCTCGA
193 GCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGA
* **
1508239 GTTCGATTACACTCAGCTTCGAGGGCTCATCATTTACAATATAACTCAAGGCTAGAAGGGTTATC
258 GTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATC
*
1508304 TATC
323 TGTC
* * *
1508308 ACCAAAGACCTTCGAGTTCGACTACGCTTAGCTCTAAGGCGCATCATTTGCAGCATAGCTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGT
* * *
1508373 CGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTAAATTCAGCTTCGAGGGCACACCATTT
66 CGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTT
* *
1508438 ACAGCATAACTCAAGGCTAGAGGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAG
131 GCAGCATAACTCAAGGCTAGAAGGGTTATCTG-C-CCAAAGACCTTCGAGTTCGACTACGCTCAG
* * * * * *
1508503 CTCTAAGACGCATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACCCTCAAG
194 CTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAG
* * * *
1508568 TTCGATCACACTCAACTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTATAAGGGTTATCT
259 TTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCT
1508633 GTC
324 GTC
* * * * *
1508636 ACCAAAAACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAAT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGT
* * * * * * * * * * * *
1508701 CTAGAATGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTAAGC-TCAACGACACATC
66 CGAGAAGGGCTATCTG-C--C-AAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
* * * * * * * * * *
1508765 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAATACCCTCAAGTTCGATTACACTC
127 ATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCCAAAGACCTTCGAGTTCGACTACGCTC
* * * *
1508829 AGCTTCGAGGGCACATCATTTACAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGGA-CCT
192 AGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAA-GACCCT
* * *
1508893 CGAGTTCGATTACACTCAGCGTCTAGGGCACATCATTTACAGCATAACTAAAGGCTAGAAGGGTT
255 CGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTT
*
1508958 ATCTGTT
320 ATCTGTC
* *
1508965 ACCAAAGACCTTCGAGTTCGACTACGCTTAGCTCCAAGGCACATCATTTGCAGTATAGCTT--GT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGT
1509028 CGAGAAGGGCTATCTGCCAA
66 CGAGAAGGGCTATCTGCCAA
1509048 CCGAAGACCT
Statistics
Matches: 637, Mismatches: 95, Indels: 22
0.84 0.13 0.03
Matches are distributed among these distances:
323 2 0.00
324 1 0.00
326 1 0.00
327 13 0.02
328 238 0.37
329 317 0.50
330 3 0.00
331 40 0.06
332 22 0.03
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (326 bp):
ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGT
CGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTT
GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCCAAAGACCTTCGAGTTCGACTACGCTCAGCT
CCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTT
CGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGT
C
Found at i:1509674 original size:2 final size:2
Alignment explanation
Indices: 1509658--1509693 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
1509648 GTCCATATGC
1509658 AT AT A- AT AT -T 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
1509694 TTTACTTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1514624 original size:25 final size:26
Alignment explanation
Indices: 1514591--1514655 Score: 82
Period size: 25 Copynumber: 2.6 Consensus size: 26
1514581 TAAAATTTTA
*
1514591 AATTCTTAATATTTTT-TATTTT-ATT
1 AATTTTTAATATTTTTATATTTTGA-T
1514616 AATTTTTAATATTTTTATATTTTGAT
1 AATTTTTAATATTTTTATATTTTGAT
*
1514642 -ATTTTTAAAATTTT
1 AATTTTTAATATTTT
1514656 AATAAATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
25 28 0.78
26 7 0.19
27 1 0.03
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (26 bp):
AATTTTTAATATTTTTATATTTTGAT
Found at i:1514635 original size:8 final size:8
Alignment explanation
Indices: 1514603--1514648 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
1514593 TTCTTAATAT
1514603 TTTTTAT-
1 TTTTTATA
1514610 TTTATTA-A
1 TTT-TTATA
1514618 TTTTTAATA
1 TTTTT-ATA
1514627 TTTTTATA
1 TTTTTATA
*
1514635 TTTTGATA
1 TTTTTATA
1514643 TTTTTA
1 TTTTTA
1514649 AAATTTTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
7 5 0.15
8 22 0.67
9 6 0.18
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (8 bp):
TTTTTATA
Found at i:1514638 original size:16 final size:16
Alignment explanation
Indices: 1514504--1514646 Score: 70
Period size: 16 Copynumber: 9.1 Consensus size: 16
1514494 CATATAAATA
*
1514504 TAATATTTTTA-AATT
1 TAATATTTTTATATTT
*
1514519 TAA-ATTTTTAATAATT
1 TAATATTTTT-ATATTT
**
1514535 T-ATAACTTTATCATTT
1 TAATATTTTTAT-ATTT
*
1514551 TATATATTTTGT-TATAT
1 TA-ATATTTT-TATATTT
1514568 TAATA-TTTT-TA-TT
1 TAATATTTTTATATTT
* *
1514581 TAA-AATTTTAAATTCT
1 TAATATTTTTATATT-T
1514597 TAATATTTTT-TATTT
1 TAATATTTTTATATTT
*
1514612 TATTAATTTTTAATATTT
1 TAAT-ATTTTT-ATATTT
* *
1514630 TTATATTTTGATATTT
1 TAATATTTTTATATTT
1514646 T
1 T
1514647 TAAAATTTTA
Statistics
Matches: 99, Mismatches: 14, Indels: 29
0.70 0.10 0.20
Matches are distributed among these distances:
12 1 0.01
13 8 0.08
14 10 0.10
15 15 0.15
16 36 0.36
17 15 0.15
18 13 0.13
19 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (16 bp):
TAATATTTTTATATTT
Found at i:1515163 original size:42 final size:42
Alignment explanation
Indices: 1515115--1515225 Score: 134
Period size: 42 Copynumber: 2.6 Consensus size: 42
1515105 TTCTTAATTA
* * * *
1515115 TAAAAAGTGACATTAAAAAAATTAGGGCTTTAATTATAAATG
1 TAAAAAGTGAGATTAAAAAAATTAGGGCATCAATTATAAAGG
*
1515157 TAAAAAGTGAGATT-AAAAAATTAGAGGCATCACTTATAAAGG
1 TAAAAAGTGAGATTAAAAAAATTAG-GGCATCAATTATAAAGG
* * *
1515199 TAGAAAGTAAGATTAAAAAGATTAGGG
1 TAAAAAGTGAGATTAAAAAAATTAGGG
1515226 GCCATGTAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
41 10 0.17
42 40 0.68
43 9 0.15
ACGTcount: A:0.50, C:0.05, G:0.19, T:0.26
Consensus pattern (42 bp):
TAAAAAGTGAGATTAAAAAAATTAGGGCATCAATTATAAAGG
Found at i:1517064 original size:23 final size:23
Alignment explanation
Indices: 1517009--1517089 Score: 99
Period size: 23 Copynumber: 3.5 Consensus size: 23
1516999 TCGAGGGTTC
* **
1517009 TATGTGGTCATTCGGGACAAAAT
1 TATGTGGTCCTTTAGGACAAAAT
*
1517032 TATGTGGTCCTTTAGGAAAAAAT
1 TATGTGGTCCTTTAGGACAAAAT
**
1517055 TATGTGGTCCTTTAGGACAAACC
1 TATGTGGTCCTTTAGGACAAAAT
*
1517078 TATATGGTCCTT
1 TATGTGGTCCTT
1517090 CGCAACAAAC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (23 bp):
TATGTGGTCCTTTAGGACAAAAT
Found at i:1517097 original size:23 final size:23
Alignment explanation
Indices: 1517071--1517121 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
1517061 GTCCTTTAGG
* *
1517071 ACAAACCTATATGGTCCTTCGCA
1 ACAAACCTATATAGTCATTCGCA
* *
1517094 ACAAACCTATGTAGTCATTCGGA
1 ACAAACCTATATAGTCATTCGCA
1517117 ACAAA
1 ACAAA
1517122 TATGTGGCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (23 bp):
ACAAACCTATATAGTCATTCGCA
Found at i:1517247 original size:19 final size:20
Alignment explanation
Indices: 1517223--1517264 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
1517213 ATGTTGGGCT
*
1517223 AATTAAATAAATGGATAT-A
1 AATTAAACAAATGGATATGA
*
1517242 AATTAAACAAATTGATATGA
1 AATTAAACAAATGGATATGA
1517262 AAT
1 AAT
1517265 GAAAAGTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.57, C:0.02, G:0.10, T:0.31
Consensus pattern (20 bp):
AATTAAACAAATGGATATGA
Found at i:1519680 original size:2 final size:2
Alignment explanation
Indices: 1519673--1519698 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1519663 AGAGATAAGG
1519673 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
1519699 TAAGGATGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1522902 original size:45 final size:46
Alignment explanation
Indices: 1522851--1522956 Score: 151
Period size: 45 Copynumber: 2.3 Consensus size: 46
1522841 GTCGAGGGTT
*
1522851 CTATGTGGTCCTTCGGGACAAAATTATGTGGTCATTCAGGAC-AAC
1 CTATGTGGTCCTTCGGGACAAAACTATGTGGTCATTCAGGACAAAC
* * * * *
1522896 CTATGTGGTCATTCGGGACAAACCTATGTGGTCCTTCGGGACAAAT
1 CTATGTGGTCCTTCGGGACAAAACTATGTGGTCATTCAGGACAAAC
1522942 CTATGTGGTCCTTCG
1 CTATGTGGTCCTTCG
1522957 AAATAAATAT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 37 0.70
46 16 0.30
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (46 bp):
CTATGTGGTCCTTCGGGACAAAACTATGTGGTCATTCAGGACAAAC
Found at i:1522964 original size:23 final size:23
Alignment explanation
Indices: 1522850--1522956 Score: 146
Period size: 23 Copynumber: 4.7 Consensus size: 23
1522840 AGTCGAGGGT
1522850 TCTATGTGGTCCTTCGGGACAAAA
1 TCTATGTGGTCCTTCGGGAC-AAA
* *
1522874 T-TATGTGGTCATTCAGGAC-AA
1 TCTATGTGGTCCTTCGGGACAAA
* *
1522895 CCTATGTGGTCATTCGGGACAAA
1 TCTATGTGGTCCTTCGGGACAAA
*
1522918 CCTATGTGGTCCTTCGGGACAAA
1 TCTATGTGGTCCTTCGGGACAAA
1522941 TCTATGTGGTCCTTCG
1 TCTATGTGGTCCTTCG
1522957 AAATAAATAT
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
21 2 0.03
22 17 0.23
23 55 0.73
24 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.31
Consensus pattern (23 bp):
TCTATGTGGTCCTTCGGGACAAA
Found at i:1522969 original size:21 final size:22
Alignment explanation
Indices: 1522851--1522970 Score: 82
Period size: 23 Copynumber: 5.4 Consensus size: 22
1522841 GTCGAGGGTT
**
1522851 CTATGTGGTCCTTCGGGACAAAA
1 CTATGTGGTCCTTCGAAAC-AAA
* * * *
1522874 TTATGTGGTCATTC-AGGACAAC
1 CTATGTGGTCCTTCGA-AACAAA
* **
1522896 CTATGTGGTCATTCGGGACAAA
1 CTATGTGGTCCTTCGAAACAAA
**
1522918 CCTATGTGGTCCTTCGGGACAAA
1 -CTATGTGGTCCTTCGAAACAAA
*
1522941 TCTATGTGGTCCTTCGAAATAAA
1 -CTATGTGGTCCTTCGAAACAAA
1522964 -TATGTGG
1 CTATGTGG
1522971 CACTTCGGTG
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
21 7 0.09
22 20 0.24
23 55 0.67
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (22 bp):
CTATGTGGTCCTTCGAAACAAA
Found at i:1527746 original size:31 final size:31
Alignment explanation
Indices: 1527708--1527776 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
1527698 GAATGATAAC
*
1527708 TTTAAAAAAAATTAAAA-TAGTATAGAATTAT
1 TTTAAAAAAAA-TAAAACTAGTACAGAATTAT
** *
1527739 TTTAAAAATTATAAAACTATTACAGAATTAT
1 TTTAAAAAAAATAAAACTAGTACAGAATTAT
1527770 TTTAAAA
1 TTTAAAA
1527777 TATGAAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 5 0.15
31 28 0.85
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.38
Consensus pattern (31 bp):
TTTAAAAAAAATAAAACTAGTACAGAATTAT
Found at i:1529796 original size:13 final size:13
Alignment explanation
Indices: 1529778--1529817 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
1529768 AGTGTCATAA
1529778 ATTTATGACGCGC
1 ATTTATGACGCGC
*
1529791 ATTTATGA--CAC
1 ATTTATGACGCGC
1529802 ATTTATGACGCGC
1 ATTTATGACGCGC
1529815 ATT
1 ATT
1529818 GAGCGTCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 10 0.43
13 13 0.57
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (13 bp):
ATTTATGACGCGC
Found at i:1532993 original size:6 final size:6
Alignment explanation
Indices: 1532977--1533008 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
1532967 TACATTTCCA
1532977 TCATC- TCATCT TCATCT TCATCT TCATCT TCA
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCA
1533009 CCATCGTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.19, C:0.34, G:0.00, T:0.47
Consensus pattern (6 bp):
TCATCT
Found at i:1533018 original size:18 final size:18
Alignment explanation
Indices: 1532974--1533020 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
1532964 ATCTACATTT
1532974 CCATCATC-TCATCTTCA
1 CCATCATCTTCATCTTCA
* *
1532991 TCTTCATCTTCATCTTCA
1 CCATCATCTTCATCTTCA
*
1533009 CCATCGTCTTCA
1 CCATCATCTTCA
1533021 GTTCCACCTT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.19, C:0.38, G:0.02, T:0.40
Consensus pattern (18 bp):
CCATCATCTTCATCTTCA
Found at i:1534538 original size:20 final size:20
Alignment explanation
Indices: 1534513--1534551 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1534503 TTGACACCTC
1534513 TTGCATTTGTATTTGCATCT
1 TTGCATTTGTATTTGCATCT
*
1534533 TTGCATTTGTGTTTGCATC
1 TTGCATTTGTATTTGCATC
1534552 ATATTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.15, G:0.18, T:0.54
Consensus pattern (20 bp):
TTGCATTTGTATTTGCATCT
Found at i:1535458 original size:6 final size:6
Alignment explanation
Indices: 1535447--1535479 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
1535437 ATACTAGAAG
1535447 AAAAGA AAAAGA AAAAGA AAAA-A AGAAAGA AAA
1 AAAAGA AAAAGA AAAAGA AAAAGA A-AAAGA AAA
1535480 GATGATTGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 2 0.08
6 21 0.84
7 2 0.08
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:1539238 original size:3 final size:3
Alignment explanation
Indices: 1539230--1539269 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
1539220 TATGTATTTA
1539230 TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1539270 AAATTGGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:1543241 original size:15 final size:16
Alignment explanation
Indices: 1543220--1543258 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
1543210 ATTTAGGTCA
1543220 AAAAATTAAA-ATTTG
1 AAAAATTAAACATTTG
*
1543235 TAAAATTAAAGCATTTG
1 AAAAATTAAA-CATTTG
1543252 AAAAATT
1 AAAAATT
1543259 GATATCAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 9 0.45
17 11 0.55
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.33
Consensus pattern (16 bp):
AAAAATTAAACATTTG
Found at i:1544878 original size:166 final size:167
Alignment explanation
Indices: 1544694--1545026 Score: 602
Period size: 166 Copynumber: 2.0 Consensus size: 167
1544684 TAGCCTTAGC
*
1544694 ATTGAGTTAGAACTTCTTCTTCTTCTCTCCATCACT-CAAGCATCCATCTCATGGGTGTGAATGG
1 ATTGAGTTAGAACTTCTTCTT-TTCTCTCCATCACTCCAAGCATCCATCTCATGGGTG-AAATGG
1544758 AGTATCCC-TCATGATTGAGTTCCAAGCTCCTAGATCATTGGCTTGAATGAAGA-TAT-ATCTTG
64 AGTATCCCTTCATGATTGAGTTCCAAGCTCCTAGATCATTGGCTTGAATGAAGATTATCATCTTG
1544820 TCTTCTAATAGGCATAATTTTCTCCATTGAACTAAAGTGG
129 T-TTCTAATAGGCATAATTTTCTCCATTGAACTAAAGTGG
1544860 ATTGAGTTAGAACTTCTTCTTTTCTCTCCATCACTCCAAGCATCCATCTCATGGGTGAAATGGAG
1 ATTGAGTTAGAACTTCTTCTTTTCTCTCCATCACTCCAAGCATCCATCTCATGGGTGAAATGGAG
1544925 TATCCCTTCATGATTGAGTTCCAAGCTCCTAGATCATTGGCTTGAATGAAGATTATCATCTTGTT
66 TATCCCTTCATGATTGAGTTCCAAGCTCCTAGATCATTGGCTTGAATGAAGATTATCATCTTGTT
1544990 TCTAATAGGCATAATTTTCTCCATTGAACTAAAGTGG
131 TCTAATAGGCATAATTTTCTCCATTGAACTAAAGTGG
1545027 CTTATTGATT
Statistics
Matches: 162, Mismatches: 1, Indels: 7
0.95 0.01 0.04
Matches are distributed among these distances:
165 27 0.17
166 87 0.54
167 41 0.25
168 7 0.04
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (167 bp):
ATTGAGTTAGAACTTCTTCTTTTCTCTCCATCACTCCAAGCATCCATCTCATGGGTGAAATGGAG
TATCCCTTCATGATTGAGTTCCAAGCTCCTAGATCATTGGCTTGAATGAAGATTATCATCTTGTT
TCTAATAGGCATAATTTTCTCCATTGAACTAAAGTGG
Found at i:1545945 original size:17 final size:18
Alignment explanation
Indices: 1545916--1545952 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
1545906 AAAAATAAAG
1545916 TTGGTATATAAATATATA
1 TTGGTATATAAATATATA
1545934 TTGGTATA-AAATATATA
1 TTGGTATATAAATATATA
1545951 TT
1 TT
1545953 TTAAAATCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (18 bp):
TTGGTATATAAATATATA
Found at i:1547514 original size:2 final size:2
Alignment explanation
Indices: 1547507--1547531 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1547497 AGGTGTGGGT
1547507 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1547532 TAGAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1548982 original size:20 final size:20
Alignment explanation
Indices: 1548954--1549009 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 20
1548944 GTATAGTAGA
*
1548954 TATTCTATTAATAAAGTACAT
1 TATTTTATTAATAAAGTAC-T
**
1548975 T-TTTTATTTTTAAA-TACT
1 TATTTTATTAATAAAGTACT
*
1548993 TATTTTAATAATAAAGT
1 TATTTTATTAATAAAGT
1549010 TTGAATATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
18 2 0.07
19 13 0.48
20 11 0.41
21 1 0.04
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.52
Consensus pattern (20 bp):
TATTTTATTAATAAAGTACT
Found at i:1555036 original size:13 final size:13
Alignment explanation
Indices: 1555018--1555054 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
1555008 GACCGGTCAC
1555018 GACCCGACCCGTT
1 GACCCGACCCGTT
1555031 GACCCGACCCGTT
1 GACCCGACCCGTT
1555044 GACCCGACCCG
1 GACCCGACCCG
1555055 ATTGTTGACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.16, C:0.49, G:0.24, T:0.11
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:1555120 original size:28 final size:29
Alignment explanation
Indices: 1555065--1555174 Score: 168
Period size: 29 Copynumber: 3.8 Consensus size: 29
1555055 ATTGTTGACC
1555065 GGTGCTATTCTGGTAAATAATTCGGTTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTT
1555094 GGTGCTATTCTGGT-AATAATTCGGTTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTT
*
1555122 GGTGATATTCTGGTAAATAATTCGGTTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTT
* * * *
1555151 TGTGCTCTTCGGGTAATTAATTCG
1 GGTGCTATTCTGGTAAATAATTCG
1555175 AAATGGGTGC
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
28 27 0.36
29 47 0.64
ACGTcount: A:0.20, C:0.11, G:0.25, T:0.45
Consensus pattern (29 bp):
GGTGCTATTCTGGTAAATAATTCGGTTTT
Found at i:1555166 original size:57 final size:58
Alignment explanation
Indices: 1555065--1555174 Score: 177
Period size: 57 Copynumber: 1.9 Consensus size: 58
1555055 ATTGTTGACC
* *
1555065 GGTGCTATTCTGGTAAATAATTCGGTTTTGGTGCTATTCTGGTAA-TAATTCGGTTTT
1 GGTGATATTCTGGTAAATAATTCGGTTTTGGTGCTATTCGGGTAATTAATTCGGTTTT
* *
1555122 GGTGATATTCTGGTAAATAATTCGGTTTTTGTGCTCTTCGGGTAATTAATTCG
1 GGTGATATTCTGGTAAATAATTCGGTTTTGGTGCTATTCGGGTAATTAATTCG
1555175 AAATGGGTGC
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
57 41 0.85
58 7 0.15
ACGTcount: A:0.20, C:0.11, G:0.25, T:0.45
Consensus pattern (58 bp):
GGTGATATTCTGGTAAATAATTCGGTTTTGGTGCTATTCGGGTAATTAATTCGGTTTT
Found at i:1555184 original size:29 final size:29
Alignment explanation
Indices: 1555152--1555217 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
1555142 TTCGGTTTTT
* *
1555152 GTGCTCTTCGGGTAATTAATTCGAAATGG
1 GTGCTATTCGGGTAATTAATTCGAAAAGG
** * *
1555181 GTGCTATTTTGGTAATTATTTTGAAAAGG
1 GTGCTATTCGGGTAATTAATTCGAAAAGG
1555210 GTGCTATT
1 GTGCTATT
1555218 TGTGTAAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.24, C:0.09, G:0.26, T:0.41
Consensus pattern (29 bp):
GTGCTATTCGGGTAATTAATTCGAAAAGG
Found at i:1555224 original size:29 final size:29
Alignment explanation
Indices: 1555162--1555218 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
1555152 GTGCTCTTCG
*
1555162 GGTAATTAATTCGAAATGGGTGCTATTTT
1 GGTAATTAATTCGAAAAGGGTGCTATTTT
* *
1555191 GGTAATTATTTTGAAAAGGGTGCTATTT
1 GGTAATTAATTCGAAAAGGGTGCTATTT
1555219 GTGTAAAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.28, C:0.05, G:0.25, T:0.42
Consensus pattern (29 bp):
GGTAATTAATTCGAAAAGGGTGCTATTTT
Found at i:1562557 original size:29 final size:29
Alignment explanation
Indices: 1562450--1562560 Score: 150
Period size: 29 Copynumber: 3.8 Consensus size: 29
1562440 ATTGTAGACC
* *
1562450 GGTGCTATTCTGGTAAATAATTTGATTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTT
* *
1562479 GGTACTATTCTGGTAAATAATTCAGTTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTT
*
1562508 GGTGTTATTCTGGTAAATAATTCGGTTTT
1 GGTGCTATTCTGGTAAATAATTCGGTTTT
* * *
1562537 GGTGCTCTTCTGGTGATTAATTCG
1 GGTGCTATTCTGGTAAATAATTCG
1562561 AAATGGGTGC
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.22, C:0.10, G:0.23, T:0.46
Consensus pattern (29 bp):
GGTGCTATTCTGGTAAATAATTCGGTTTT
Found at i:1562580 original size:58 final size:58
Alignment explanation
Indices: 1562450--1562581 Score: 149
Period size: 58 Copynumber: 2.3 Consensus size: 58
1562440 ATTGTAGACC
* ** *
1562450 GGTGCTATTCTGGTAAATAATTTGATTTTGGTACTATTCTGGTAAATAATTCAGTTTT
1 GGTGCTATTCTGGTAAATAATTCGATTTTGGTACTATTCTGGTAAATAATTCAGAATG
* * * * * *
1562508 GGTGTTATTCTGGTAAATAATTCGGTTTTGGTGCTCTTCTGGTGATTAATTC-GAAATG
1 GGTGCTATTCTGGTAAATAATTCGATTTTGGTACTATTCTGGTAAATAATTCAG-AATG
*
1562566 GGTGCTATTTTGGTAA
1 GGTGCTATTCTGGTAA
1562582 TTATTTTAAA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
57 1 0.02
58 60 0.98
ACGTcount: A:0.23, C:0.09, G:0.23, T:0.45
Consensus pattern (58 bp):
GGTGCTATTCTGGTAAATAATTCGATTTTGGTACTATTCTGGTAAATAATTCAGAATG
Done.