Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1085
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: 1639209
ACGTcount: A:0.19, C:0.10, G:0.10, T:0.20
Warning! 665865 characters in sequence are not A, C, G, or T
File 3 of 7
Found at i:287754 original size:17 final size:17
Alignment explanation
Indices: 287734--287771 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
287724 ACTAAATAAA
287734 TATTTTTAT-TAAATATT
1 TATTTTTATGT-AATATT
287751 TA-TTTTATGTAATATT
1 TATTTTTATGTAATATT
287767 TATTT
1 TATTT
287772 AATATTTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
TATTTTTATGTAATATT
Found at i:288926 original size:20 final size:20
Alignment explanation
Indices: 288891--288928 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
288881 AAATAATATC
*
288891 ATATAATTTAATAATAATGT
1 ATATAATTTAACAATAATGT
*
288911 ATATAATTTTACAATAAT
1 ATATAATTTAACAATAAT
288929 ATTACATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (20 bp):
ATATAATTTAACAATAATGT
Found at i:289390 original size:16 final size:18
Alignment explanation
Indices: 289371--289404 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
289361 AAATTTAATA
289371 ATTAATT-TAT-TAAAAT
1 ATTAATTATATATAAAAT
289387 ATTAATTATATATAAAAT
1 ATTAATTATATATAAAAT
289405 TATAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 3 0.19
18 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTAATTATATATAAAAT
Found at i:289583 original size:27 final size:27
Alignment explanation
Indices: 289531--289583 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
289521 TTTTATCTGA
* *
289531 ATTTTATTTATTTAGTTCAATTATTAT
1 ATTTTATGTATTTAGTTCAATAATTAT
*
289558 ATTTTATGT-TTTATTTCAAATAATTA
1 ATTTTATGTATTTAGTTC-AATAATTA
289584 AAAAAATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (27 bp):
ATTTTATGTATTTAGTTCAATAATTAT
Found at i:289618 original size:22 final size:24
Alignment explanation
Indices: 289593--289658 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
289583 AAAAAAATTT
289593 AATTATTTTTTTAATATA-AA-AA
1 AATTATTTTTTTAATATATAATAA
* *
289615 AATTATTTGTTAAATATATAATAA
1 AATTATTTTTTTAATATATAATAA
* * *
289639 AAATAATTTTTTAATTTATA
1 AATTATTTTTTTAATATATA
289659 TGATATAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
22 16 0.46
23 2 0.06
24 17 0.49
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
AATTATTTTTTTAATATATAATAA
Found at i:289659 original size:26 final size:25
Alignment explanation
Indices: 289606--289652 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
289596 TATTTTTTTA
*
289606 ATATAA-AAAAATTATTTGTTAAAT
1 ATATAATAAAAATAATTTGTTAAAT
*
289630 ATATAATAAAAATAATTTTTTAA
1 ATATAATAAAAATAATTTGTTAA
289653 TTTATATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (25 bp):
ATATAATAAAAATAATTTGTTAAAT
Found at i:289665 original size:33 final size:31
Alignment explanation
Indices: 289628--289710 Score: 89
Period size: 34 Copynumber: 2.6 Consensus size: 31
289618 TATTTGTTAA
**
289628 ATATATAATAAAAATAATTTTTTAA-TTTAT
1 ATATATAATAAAAATAATTTTAAAATTTTAT
289658 ATGATATAAATATTAAAATAA-TTTAAAATTTTAT
1 AT-ATAT-AATA--AAAATAATTTTAAAATTTTAT
*
289692 ATATATAATAAATATAATT
1 ATATATAATAAAAATAATT
289711 ATATTATTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
30 8 0.18
31 5 0.11
32 8 0.18
33 9 0.20
34 14 0.32
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (31 bp):
ATATATAATAAAAATAATTTTAAAATTTTAT
Found at i:289759 original size:2 final size:2
Alignment explanation
Indices: 289752--289811 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
289742 TTATTGATCC
*
289752 TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
289794 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
289812 AAATCACATT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:292546 original size:2 final size:2
Alignment explanation
Indices: 292534--292567 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
292524 CTGAAAAAGG
*
292534 AT AT AT TT 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
292568 GATGCTTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:293713 original size:19 final size:19
Alignment explanation
Indices: 293689--293726 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
293679 ATCAACAATG
*
293689 GCAAATCATTAAATCACCC
1 GCAAATCATCAAATCACCC
293708 GCAAATCATCAAATCACCC
1 GCAAATCATCAAATCACCC
293727 ATTTAGTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.34, G:0.05, T:0.18
Consensus pattern (19 bp):
GCAAATCATCAAATCACCC
Found at i:298194 original size:34 final size:34
Alignment explanation
Indices: 298139--298323 Score: 246
Period size: 34 Copynumber: 5.5 Consensus size: 34
298129 TATCTTTTAG
* * *
298139 CCATTTAGTAAATAATGGCAAACCACTAAATCAC
1 CCATTTAGTCAACAATGGCAAACCACCAAATCAC
* *
298173 CCATTTAATCAACAATAGCAAACCACCAAATCAC
1 CCATTTAGTCAACAATGGCAAACCACCAAATCAC
* *
298207 CCATTTGGTCAACAATGGCAAACTACC-AATCAC
1 CCATTTAGTCAACAATGGCAAACCACCAAATCAC
* * *
298240 CCATTTAATCAACAATGGAAAACCACTAAATCAC
1 CCATTTAGTCAACAATGGCAAACCACCAAATCAC
* *
298274 CTATTTAGTCAACAATGGTAAACCACCAAATCAC
1 CCATTTAGTCAACAATGGCAAACCACCAAATCAC
*
298308 CCAATTAGTCAACAAT
1 CCATTTAGTCAACAAT
298324 ATGATTTTAT
Statistics
Matches: 130, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
33 28 0.22
34 102 0.78
ACGTcount: A:0.43, C:0.28, G:0.08, T:0.22
Consensus pattern (34 bp):
CCATTTAGTCAACAATGGCAAACCACCAAATCAC
Found at i:298249 original size:67 final size:67
Alignment explanation
Indices: 298139--298324 Score: 246
Period size: 67 Copynumber: 2.7 Consensus size: 67
298129 TATCTTTTAG
* * * *
298139 CCATTTAGTAAATAATGGCAAACCACTAAATCACCCATTTAATCAACAATAGCAAACCACCAAAT
1 CCATTTAGTCAACAATGGCAAACCAC-CAATCACCCATTTAATCAACAATAGAAAACCACCAAAT
298204 CAC
65 CAC
* * * *
298207 CCATTTGGTCAACAATGGCAAACTACCAATCACCCATTTAATCAACAATGGAAAACCACTAAATC
1 CCATTTAGTCAACAATGGCAAACCACCAATCACCCATTTAATCAACAATAGAAAACCACCAAATC
298272 AC
66 AC
* * * *
298274 CTATTTAGTCAACAATGGTAAACCACCAAATCACCCAATTAGTCAACAATA
1 CCATTTAGTCAACAATGGCAAACCACC-AATCACCCATTTAATCAACAATA
298325 TGATTTTATG
Statistics
Matches: 102, Mismatches: 15, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
67 60 0.59
68 42 0.41
ACGTcount: A:0.44, C:0.27, G:0.08, T:0.22
Consensus pattern (67 bp):
CCATTTAGTCAACAATGGCAAACCACCAATCACCCATTTAATCAACAATAGAAAACCACCAAATC
AC
Found at i:299238 original size:97 final size:97
Alignment explanation
Indices: 299088--299278 Score: 355
Period size: 97 Copynumber: 2.0 Consensus size: 97
299078 TTTTTTCATG
*
299088 TATCGATACATTGTACTATATATCGATACAAATAGTGATAGGGTAGCTACTGCCAATTTCATGTA
1 TATCGATACATTGTACCATATATCGATACAAATAGTGATAGGGTAGCTACTGCCAATTTCATGTA
*
299153 TTGATACAATTTGTCCATGTATCGATACAATA
66 TCGATACAATTTGTCCATGTATCGATACAATA
*
299185 TATCGATACATTGTACCATGTATCGATACAAATAGTGATAGGGTAGCTACTGCCAATTTCATGTA
1 TATCGATACATTGTACCATATATCGATACAAATAGTGATAGGGTAGCTACTGCCAATTTCATGTA
299250 TCGATACAATTTGTCCATGTATCGATACA
66 TCGATACAATTTGTCCATGTATCGATACA
299279 TTGAACATGT
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
97 91 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (97 bp):
TATCGATACATTGTACCATATATCGATACAAATAGTGATAGGGTAGCTACTGCCAATTTCATGTA
TCGATACAATTTGTCCATGTATCGATACAATA
Found at i:299270 original size:21 final size:21
Alignment explanation
Indices: 299244--299299 Score: 80
Period size: 19 Copynumber: 2.8 Consensus size: 21
299234 CTGCCAATTT
**
299244 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAATTTGAA
299265 CATGTATCGATAC-A-TTGAA
1 CATGTATCGATACAATTTGAA
299284 CATGTATCGATACAAT
1 CATGTATCGATACAAT
299300 GTATCGATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 16 0.52
20 2 0.06
21 13 0.42
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (21 bp):
CATGTATCGATACAATTTGAA
Found at i:299303 original size:13 final size:13
Alignment explanation
Indices: 299285--299311 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
299275 TACATTGAAC
299285 ATGTATCGATACA
1 ATGTATCGATACA
299298 ATGTATCGATACA
1 ATGTATCGATACA
299311 A
1 A
299312 GGTAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:299924 original size:19 final size:19
Alignment explanation
Indices: 299865--299916 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
299855 TAAAAAAAAT
*
299865 TCTCCCCCTTTAACGAATA
1 TCTCCCCCTTAAACGAATA
*
299884 TGTCCCCCTTAAACGAATA
1 TCTCCCCCTTAAACGAATA
299903 TCTCCCCCTTAAAC
1 TCTCCCCCTTAAAC
299917 AGTTATCTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.27, C:0.38, G:0.06, T:0.29
Consensus pattern (19 bp):
TCTCCCCCTTAAACGAATA
Found at i:301799 original size:13 final size:13
Alignment explanation
Indices: 301781--301808 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
301771 AAATAGTACC
301781 CAATGTATCGATA
1 CAATGTATCGATA
301794 CAATGTATCGATA
1 CAATGTATCGATA
301807 CA
1 CA
301809 GGGAATGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:305840 original size:21 final size:21
Alignment explanation
Indices: 305769--305843 Score: 123
Period size: 21 Copynumber: 3.6 Consensus size: 21
305759 TTTTTATCCA
*
305769 AATGTTTCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
* *
305790 AATGTATCAATATATTTGTAG
1 AATGTATCGATACATTTGTAG
305811 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
305832 AATGTATCGATA
1 AATGTATCGATA
305844 AAAGATCCCA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:305928 original size:19 final size:18
Alignment explanation
Indices: 305877--305966 Score: 75
Period size: 19 Copynumber: 5.1 Consensus size: 18
305867 TTGATTTTCA
305877 ATAA-TTTGTATCGATAC
1 ATAAGTTTGTATCGATAC
* *
305894 ATTCAGTAAATGTATCGATAC
1 A-TAAGT--TTGTATCGATAC
305915 ATAAGTGTTGTATCGATAC
1 ATAAGT-TTGTATCGATAC
305934 --AA---TGTATCGATAC
1 ATAAGTTTGTATCGATAC
305947 ATAAGTTTTGTATCGATAC
1 ATAAG-TTTGTATCGATAC
305966 A
1 A
305967 ATGTATCGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
13 11 0.19
15 2 0.03
17 3 0.05
18 2 0.03
19 24 0.41
20 4 0.07
21 12 0.21
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
ATAAGTTTGTATCGATAC
Found at i:305941 original size:13 final size:13
Alignment explanation
Indices: 305923--305947 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
305913 ACATAAGTGT
305923 TGTATCGATACAA
1 TGTATCGATACAA
305936 TGTATCGATACA
1 TGTATCGATACA
305948 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:305943 original size:32 final size:32
Alignment explanation
Indices: 305902--305974 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
305892 ACATTCAGTA
305902 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
305934 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
305966 AATGTATCG
1 AATGTATCG
305975 CTACGAAGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:306016 original size:20 final size:21
Alignment explanation
Indices: 305991--306031 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
305981 AGCTACTGCC
305991 AAGG-AATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
306011 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
306032 GTATCGATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:306055 original size:20 final size:20
Alignment explanation
Indices: 306030--306097 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
306020 TATCGATACA
306030 TTGTATCGATACATCGATCT
1 TTGTATCGATACATCGATCT
306050 TTGTATCGAT--A-C-A---
1 TTGTATCGATACATCGATCT
306063 TTGTATCGATACATCGATCT
1 TTGTATCGATACATCGATCT
306083 TTGTATCGATACATC
1 TTGTATCGATACATC
306098 TAGGAAGTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
13 10 0.24
15 1 0.02
16 2 0.05
17 2 0.05
18 1 0.02
20 25 0.61
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (20 bp):
TTGTATCGATACATCGATCT
Found at i:306060 original size:33 final size:33
Alignment explanation
Indices: 306018--306096 Score: 158
Period size: 33 Copynumber: 2.4 Consensus size: 33
306008 ATTAAGGAAA
306018 TGTATCGATACATTGTATCGATACATCGATCTT
1 TGTATCGATACATTGTATCGATACATCGATCTT
306051 TGTATCGATACATTGTATCGATACATCGATCTT
1 TGTATCGATACATTGTATCGATACATCGATCTT
306084 TGTATCGATACAT
1 TGTATCGATACAT
306097 CTAGGAAGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATTGTATCGATACATCGATCTT
Found at i:306092 original size:12 final size:13
Alignment explanation
Indices: 306018--306076 Score: 67
Period size: 13 Copynumber: 5.0 Consensus size: 13
306008 ATTAAGGAAA
306018 TGTATCGATACAT
1 TGTATCGATACAT
306031 TGTATCGATAC--
1 TGTATCGATACAT
*
306042 ---ATCGAT-CTT
1 TGTATCGATACAT
306051 TGTATCGATACAT
1 TGTATCGATACAT
306064 TGTATCGATACAT
1 TGTATCGATACAT
306077 CGATCTTTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
7 1 0.03
8 6 0.15
12 6 0.15
13 26 0.67
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:308584 original size:79 final size:79
Alignment explanation
Indices: 308469--308940 Score: 603
Period size: 79 Copynumber: 6.0 Consensus size: 79
308459 CAGCTCCGAT
* * * * *
308469 TTTATTTTCAAAACACTAATTT-TCTATAATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGA
1 TTTATTTCCAAAATATTAATTTCTC-ATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
308533 TACTCCAACCCCTGC
65 TACTCCAACCCCTGC
* * * *
308548 TTTA-TTCTTAAAATATTGATTTCTCATAATCAGGGATACTCCAACCCCGTTATTTCCGAGGGGA
1 TTTATTTC-CAAAATATTAATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
* *
308612 TACTCTAACCCCAGC
65 TACTCCAACCCCTGC
* *
308627 TTTATTTCCAAAATATTAATTTCTCATAATTGGGGATACTCCAACCCCGTTATTTTCGAAGGGAT
1 TTTATTTCCAAAATATTAATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGAT
* *
308692 ATTCCAACCCCGGC
66 ACTCCAACCCCTGC
* *
308706 TTTATTTCCAAAATATTAATTTCTCATAATTGGGGATACTCCAACCCCGTTATTTTCGAGAGGAT
1 TTTATTTCCAAAATATTAATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGAT
*
308771 AATCCAACCCCTGC
66 ACTCCAACCCCTGC
*
308785 TTTATTTCCAAAATATTAGTTTCTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGAT
1 TTTATTTCCAAAATATTAATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGAT
*
308850 ACTCCAACCCC-GAT
66 ACTCCAACCCCTG-C
* * * * * * *
308864 TTTATTTTCAAAAACATCAATTTTTCACAATCGAGGATACTCCAACCTCGTTA-TTTC-ATCGGG
1 TTTA-TTTCCAAAATATTAATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTTCGA--GGG
*
308927 GATTCTCCAACCCC
63 GATACTCCAACCCC
308941 GTTACCTCCG
Statistics
Matches: 350, Mismatches: 36, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
78 4 0.01
79 285 0.81
80 61 0.17
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.33
Consensus pattern (79 bp):
TTTATTTCCAAAATATTAATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGAT
ACTCCAACCCCTGC
Found at i:308939 original size:108 final size:107
Alignment explanation
Indices: 308813--309048 Score: 292
Period size: 107 Copynumber: 2.2 Consensus size: 107
308803 GTTTCTCATA
** * * *
308813 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAAA
1 ATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTTA-TTCCAAAAA
* *
308878 CATCAATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTC
65 CATCAATTTCTCACAATCGAGGATACTCCAACCCCGTTATTTC
* * *
308921 ATCGGGGATTCTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAAT
1 ATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTTATTCCAAAAAC
** * * *
308986 ATTGATTTCTCATAATTGGGGATACTCCAACCCCGTTATTTC
66 ATCAATTTCTCACAATCGAGGATACTCCAACCCCGTTATTTC
*** *
309028 CGAGGGGATACTCCAATCCCG
1 ATCGGGGATACTCCAACCCCG
309049 ATTTTTTTTT
Statistics
Matches: 108, Mismatches: 20, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
107 58 0.54
108 50 0.46
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (107 bp):
ATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTTATTCCAAAAAC
ATCAATTTCTCACAATCGAGGATACTCCAACCCCGTTATTTC
Found at i:308967 original size:187 final size:186
Alignment explanation
Indices: 308737--309126 Score: 543
Period size: 187 Copynumber: 2.1 Consensus size: 186
308727 TCTCATAATT
** * *
308737 GGGGATACTCCAACCCCGTTATTTTCGAGAGGATAATCCAACCCCTG-CTTTATTTCCAAAATAT
1 GGGGATACTCCAACCCCGTTACCTCCGAGAGGATAATCCAACCCC-GACTTTATTCCCAAAATAT
*
308801 T-AGTTTCTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATT
65 TGA-TTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATT
* * * *
308865 TTATTTTCAAAAACATCAATTTTTCACAATCGAGGATACTCCAACCTCGTTA-TTTCATC
129 TTATTTTC-AAAACATCAATTTCTCACAACCGAGGATACTCCAACCCCGTTATTTTCA-A
* * *
308924 GGGGATTCTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATT
1 GGGGATACTCCAACCCCGTTACCTCCGAGAGGATAATCCAACCCCGACTTTATTCCCAAAATATT
* *
308989 GATTTCTCATAATTGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATCCCGATTTT
66 GATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTT
* * * * * *
309054 TTTTTCTAATCATCGATTTCTCACAACCGGGGATACTCCAGCCCCGTTATTTTCAA
131 ATTTTCAAAACATCAATTTCTCACAACCGAGGATACTCCAACCCCGTTATTTTCAA
309110 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
309127 ATTATTATAT
Statistics
Matches: 179, Mismatches: 21, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
186 52 0.29
187 126 0.70
188 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (186 bp):
GGGGATACTCCAACCCCGTTACCTCCGAGAGGATAATCCAACCCCGACTTTATTCCCAAAATATT
GATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTT
ATTTTCAAAACATCAATTTCTCACAACCGAGGATACTCCAACCCCGTTATTTTCAA
Found at i:309015 original size:79 final size:78
Alignment explanation
Indices: 308923--309157 Score: 258
Period size: 79 Copynumber: 3.0 Consensus size: 78
308913 GTTATTTCAT
* ** *
308923 CGGGGATTCTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATT-CCAAAATAT
*
308988 TGATTTCTCATAAT
65 TGATTTCTCATAAC
* * * * *
309002 TGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATCCCGATTTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGA-TTTTATTCCAAAAT-A
* *
309066 TCGATTTCTCACAAC
64 TTGATTTCTCATAAC
* * *
309081 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGGATACTCCAACCCC-ATTATTATATCCAAAATA
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATT-TTAT-TCCAAAATA
*
309145 TTAAATTTCTCAT
64 TT-GATTTCTCAT
309158 CGGGAAATAT
Statistics
Matches: 127, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
77 2 0.02
78 7 0.06
79 102 0.80
80 16 0.13
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTCCAAAATATT
GATTTCTCATAAC
Found at i:309176 original size:266 final size:266
Alignment explanation
Indices: 308658--309142 Score: 674
Period size: 266 Copynumber: 1.8 Consensus size: 266
308648 TCTCATAATT
** * * * *
308658 GGGGATACTCCAACCCCGTTATTTTCGAAGGGATATTCCAACCCCGGCTTTATTTCCAAAATATT
1 GGGGATACTCCAACCCCGTTACCTCCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAATATT
*
308723 AATTTCTCATAATTGGGGATACTCCAACCCCGTTATTTTCGAGAGGATAATCCAACCCCTGCTTT
66 AATTTCTCATAATTGGGGATACTCCAACCCCGTTATTTCCGAGAGGATAATCCAACCCCTGCTTT
* * * *
308788 ATTTCCAAAATATTAGTTTCTCATAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACT
131 ATTTCCAAAATATGAGTTTCTCACAACCGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACT
* *
308853 CCAACCCCGATTTTATTTTCAAAAACATCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
196 CCAACCCCGATTTTATTATCAAAAACATCAATATTTCACAATCGAGGATACTCCAACCTCGTTAT
308918 TTCATC
261 TTCATC
* *
308924 GGGGATTCTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATT
1 GGGGATACTCCAACCCCGTTACCTCCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAATATT
* * * * *
308989 GATTTCTCATAATTGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATCCC-GATTT
66 AATTTCTCATAATTGGGGATACTCCAACCCCGTTATTTCCGAGAGGATAATCCAACCCCTG-CTT
* * * *
309053 TTTTTTC-TAATCATCGA-TTTCTCACAACCGGGGATACTCCAGCCCCGTTATTTTCAAGGGGAT
130 TATTTCCAAAAT-AT-GAGTTTCTCACAACCGGGGATACTCCAACCCCGTTATTTTCAAGGGGAT
*
309116 ACTCCAACCCC-ATTATTA-TATCCAAAA
193 ACTCCAACCCCGATT-TTATTATCAAAAA
309143 TATTAAATTT
Statistics
Matches: 191, Mismatches: 24, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
265 14 0.07
266 176 0.92
267 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (266 bp):
GGGGATACTCCAACCCCGTTACCTCCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAATATT
AATTTCTCATAATTGGGGATACTCCAACCCCGTTATTTCCGAGAGGATAATCCAACCCCTGCTTT
ATTTCCAAAATATGAGTTTCTCACAACCGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACT
CCAACCCCGATTTTATTATCAAAAACATCAATATTTCACAATCGAGGATACTCCAACCTCGTTAT
TTCATC
Found at i:321540 original size:18 final size:18
Alignment explanation
Indices: 321517--321560 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
321507 TTTCTCTTCT
* *
321517 AAAAAAAAAACAAAAGCA
1 AAAAAAAAAAAAAAAACA
321535 AAAAAAAAAAAAAAAACA
1 AAAAAAAAAAAAAAAACA
321553 AAGAAAAA
1 AA-AAAAA
321561 GAGAGAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.89, C:0.07, G:0.05, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAAAAAAACA
Found at i:322717 original size:55 final size:54
Alignment explanation
Indices: 322641--323062 Score: 450
Period size: 55 Copynumber: 7.4 Consensus size: 54
322631 CGCCTTTTTT
* *
322641 TCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTTAG
1 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTAG
* *
322696 TCCTCAAATAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAG
1 TCCTCAAAGAGCAGGACG------CCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-TAG
* * *
322757 TCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTAG
1 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTAG
*
322812 TCCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAG
1 TCCTCAAAGAGCAGG--A----CGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-TAG
* * * * *
322873 TCCTCGAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGATGGCATTTTTTAG
1 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTAG
* *
322928 TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA-TTTCTCAG
1 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-T-AG
* *
322983 TCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAG
1 TCCTCAAAGAGCAGGA---C---GCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTAG
323044 TCCTCAAAGAGCAGGACGC
1 TCCTCAAAGAGCAGGACGC
323063 TCTCTCTTTT
Statistics
Matches: 315, Mismatches: 26, Indels: 52
0.80 0.07 0.13
Matches are distributed among these distances:
53 3 0.01
54 1 0.00
55 153 0.49
56 7 0.02
57 1 0.00
58 2 0.01
59 1 0.00
60 8 0.03
61 136 0.43
62 1 0.00
63 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (54 bp):
TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTAG
Found at i:322845 original size:116 final size:116
Alignment explanation
Indices: 322641--323062 Score: 588
Period size: 116 Copynumber: 3.6 Consensus size: 116
322631 CGCCTTTTTT
* * *
322641 TCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAATA
1 TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAAGA
322706 GCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAG
66 GCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAG
*
322757 TCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAAGA
1 TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAAGA
* *
322822 GCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAG
66 GCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAG
* * * * **
322873 TCCTCGAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGATGGCATTTTTTAGTCCTCAAAGA
1 TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAAGA
*
322938 GCAGGACGCCTT-T-C----AAAGCCCACACGAGTTGGTGGCA-TTTCTCAG
66 GCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC-CAG
* * *
322983 TCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCT
1 TCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCT
323048 CAAAGAGCAGGACGC
60 CAAAGAGCAGGACGC
323063 TCTCTCTTTT
Statistics
Matches: 276, Mismatches: 23, Indels: 14
0.88 0.07 0.04
Matches are distributed among these distances:
109 4 0.01
110 42 0.15
111 3 0.01
112 1 0.00
114 1 0.00
115 1 0.00
116 224 0.81
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (116 bp):
TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAAGA
GCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAG
Found at i:322945 original size:171 final size:174
Alignment explanation
Indices: 322659--323062 Score: 577
Period size: 171 Copynumber: 2.3 Consensus size: 174
322649 GAGCAGGATG
* *
322659 CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTT-TAGTCCTCAAATAGCAGGACGCCTTCTCCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCTAGTCCTCAAAGAGCAGGACGCCTTCTCC-
* *
322723 TTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCC
64 --TAAAGCCCACACAAGTTGATGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCC
322788 ACACAAGCTGGTGGCACCTTT-T-AGTCCTCAAAGAGCAGGACACCTTCT
127 ACACAAGCTGGTGGCA--TTTCTCAGTCCTCAAAGAGCAGGACACCTTCT
*
322836 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCGAAGAGCAGGACGCCTT-T-C-A
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACGCCTTCTCCTA
* * **
322898 AAGCCCACACGAGTTGATGGCATTTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACAC
66 AAGCCCACACAAGTTGATGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACAC
* * ** *
322963 GAGTTGGTGGCATTTCTCAGTCCTCAAAGAGCAGGATGCCTTTT
131 AAGCTGGTGGCATTTCTCAGTCCTCAAAGAGCAGGACACCTTCT
*
323007 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACGC
323063 TCTCTCTTTT
Statistics
Matches: 208, Mismatches: 16, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
169 3 0.01
170 1 0.00
171 147 0.71
175 1 0.00
176 5 0.02
177 51 0.25
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (174 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACGCCTTCTCCTA
AAGCCCACACAAGTTGATGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACAC
AAGCTGGTGGCATTTCTCAGTCCTCAAAGAGCAGGACACCTTCT
Found at i:323141 original size:55 final size:55
Alignment explanation
Indices: 323076--323278 Score: 187
Period size: 55 Copynumber: 3.6 Consensus size: 55
323066 CTCTTTTCAC
*
323076 CCTTTAGTCCTCAAAGAGCAGGACGC-CTTTCAAAGCCCACACAAGTTGGTTGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCTCTTTCAAAGCCCACACAAGTTGGTAGCA
* * * * *
323130 CCTTTCAGTCCTCAAAGAGCAGGATGC-CTTTTAAGGCCCACACGAGTTGGTGGCA
1 CCTTT-AGTCCTCAAAGAGCAGGACGCTCTTTCAAAGCCCACACAAGTTGGTAGCA
** ** *
323185 CCCTCCAGTCCTCAAAGAATAGGACGCCTTTTTCTTTTCAAAGCCCACTCAAGTTGGTAGCA
1 -CCTTTAGTCCTCAAAGAGCAGGACG-C----TC-TTTCAAAGCCCACACAAGTTGGTAGCA
*
323247 -CTTGGTAGTCCTCAAAGAGCAGGACGCACTTT
1 CCTT--TAGTCCTCAAAGAGCAGGACGCTCTTT
323279 ATTTTCCTCT
Statistics
Matches: 118, Mismatches: 20, Indels: 20
0.75 0.13 0.13
Matches are distributed among these distances:
54 5 0.04
55 61 0.52
56 7 0.06
57 1 0.01
60 2 0.02
61 2 0.02
62 40 0.34
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (55 bp):
CCTTTAGTCCTCAAAGAGCAGGACGCTCTTTCAAAGCCCACACAAGTTGGTAGCA
Found at i:323354 original size:43 final size:42
Alignment explanation
Indices: 323254--323477 Score: 224
Period size: 42 Copynumber: 5.2 Consensus size: 42
323244 GCACTTGGTA
323254 GTCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTTCT--TTT
1 GTCCTCAAAGAGCAGGACGCA-TTTATTTTCCT-TTTCTCCTTT
*
323296 GTCCTCAAAGAGCAGGACGCATTTCGTTTTCCTTTTCTCCTTT
1 GTCCTCAAAGAGCAGGACGCATTT-ATTTTCCTTTTCTCCTTT
* * *
323339 GTCCTCAAAGAGCAGGACACTCTTTA-TTTCCTTTTTTTCCCTTTT
1 GTCCTCAAAGAGCAGGACGC-ATTTATTTTCC-TTTTCT-CC-TTT
* *
323384 AGTCCTCAAAGAGCAGGATGCACTTTATTTTCCTTTTC-CTTTT
1 -GTCCTCAAAGAGCAGGACGCA-TTTATTTTCCTTTTCTCCTTT
* * * * *
323427 ATCCTCAGAGAGCAGGATGTATTTCATTTCCCTTTT-TCCTTT
1 GTCCTCAAAGAGCAGGACGCATTT-ATTTTCCTTTTCTCCTTT
323469 GTCCTCAAA
1 GTCCTCAAA
323478 AAACGGGACG
Statistics
Matches: 153, Mismatches: 17, Indels: 24
0.79 0.09 0.12
Matches are distributed among these distances:
41 11 0.07
42 72 0.47
43 30 0.20
44 6 0.04
45 3 0.02
46 26 0.17
47 5 0.03
ACGTcount: A:0.19, C:0.26, G:0.14, T:0.41
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGACGCATTTATTTTCCTTTTCTCCTTT
Found at i:323461 original size:89 final size:88
Alignment explanation
Indices: 323255--323477 Score: 225
Period size: 89 Copynumber: 2.6 Consensus size: 88
323245 CACTTGGTAG
* *
323255 TCCTCAAAGAGCAGGACGC-ACTTTATTTTCC--TCTTT--CTTTTGTCCTCAAAGAGCAGGACG
1 TCCTCAAAGAGCAGGACACTA-TTTA-TTTCCTTTTTTTCCCTTTTGTCCTCAAAGAGCAGGACG
* *
323315 CATTTCGTTTTCCTTTTCTCCTTTG
64 CATTTCATTTTCCTTTTCTCCTTTA
* *
323340 TCCTCAAAGAGCAGGACACTCTTTATTTCCTTTTTTTCCCTTTTAGTCCTCAAAGAGCAGGATGC
1 TCCTCAAAGAGCAGGACACTATTTATTTCCTTTTTTTCCCTTTT-GTCCTCAAAGAGCAGGACGC
*
323405 ACTTT-ATTTTCCTTTTC-CTTTTA
65 A-TTTCATTTTCCTTTTCTCCTTTA
* ** *
323428 TCCTCAGAGAGCAGGA-TGTATTTCATTTCC-CTTTTT-CC-TTTGTCCTCAAA
1 TCCTCAAAGAGCAGGACACTATTT-ATTTCCTTTTTTTCCCTTTTGTCCTCAAA
323478 AAACGGGACG
Statistics
Matches: 118, Mismatches: 12, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
84 14 0.12
85 25 0.21
86 6 0.05
87 9 0.08
88 30 0.25
89 31 0.26
90 3 0.03
ACGTcount: A:0.19, C:0.26, G:0.13, T:0.41
Consensus pattern (88 bp):
TCCTCAAAGAGCAGGACACTATTTATTTCCTTTTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCA
TTTCATTTTCCTTTTCTCCTTTA
Found at i:326535 original size:79 final size:79
Alignment explanation
Indices: 326404--326896 Score: 584
Period size: 79 Copynumber: 6.2 Consensus size: 79
326394 CTCCGCAATC
* * * * * * *
326404 GGGGATATTCCAGCTCCGATTTTATTTTCAAAACACTAATTT-TCTATAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTAATTTCTC-ATAATCGGGGATACTCCAA
**
326468 CCCTATTA-TTTCTGA
65 CCCCGTTATTTTC-GA
* ** *
326483 GGGGATACTCCAACCCCTACTTTATTTTTAAAATATTGATTTCTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTAATTTCTCATAATCGGGGATACTCCAAC
*
326548 CCCATTATTTTCGA
66 CCCGTTATTTTCGA
* *
326562 GGGGATACTCCAACCCC-AGCTTTATTTCCAAAATATTAATTTCTCATAATTGGGGATACTCTAA
1 GGGGATACTCCAACCCCGA-CTTTATTTCCAAAATATTAATTTCTCATAATCGGGGATACTCCAA
326626 CCCCGTTATTTTCGA
65 CCCCGTTATTTTCGA
* *
326641 GGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTAATTTCTCATAATTGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTAATTTCTCATAATCGGGGATACTCCAAC
*
326706 CCCGTTATTTTTGA
66 CCCGTTATTTTCGA
* * *
326720 GGGGATACTCCAACCCTTG-CTTTATTTCCAAAATATTAGTTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCC-CGACTTTATTTCCAAAATATTAATTTCTCATAATCGGGGATACTCCAA
326784 CCCCGTTATTTTCGA
65 CCCCGTTATTTTCGA
* * * * * * **
326799 GGGGATACTCCAACCCCGATTTTATTTTCAAAAACATCAATTTTTCACAATCAAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTA-TTTCCAAAATATTAATTTCTCATAATCGGGGATACTCCAA
**
326864 CCTTGTTA-TTTC-A
65 CCCCGTTATTTTCGA
*
326877 TCGGAGATACTCCAACCCCG
1 --GGGGATACTCCAACCCCG
326897 TTACCTCTGA
Statistics
Matches: 369, Mismatches: 36, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
78 3 0.01
79 305 0.83
80 61 0.17
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTAATTTCTCATAATCGGGGATACTCCAAC
CCCGTTATTTTCGA
Found at i:326918 original size:187 final size:185
Alignment explanation
Indices: 326695--327080 Score: 526
Period size: 187 Copynumber: 2.1 Consensus size: 185
326685 CATAATTGGG
** * ** *
326695 GATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCTTGCTTTATTTCCAAAATATT-AG
1 GATACTCCAACCCCGTTACCTCTGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGA-
326759 TTTCTCATAATTGGGGATACTCCAACCCCGTTATTT-TCGAGGGGATACTCCAACCCCGATTTTA
65 TTTCTCATAATTGGGGATACTCCAACCCCGTTATTTCT-GAGGGGATACTCCAACCCCGATTTT-
* * ** *
326823 TTTTCAAAAACATCAATTTTTCACAATCAAGGATACTCCAACCTTGTTA-TTTCATCGGA
128 TTTTC-AAAACATCAATTTCTCACAACCAAGGATACTCCAACCCCGTTATTTTCA-AGGA
326882 GATACTCCAACCCCGTTACCTCTGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGAT
1 GATACTCCAACCCCGTTACCTCTGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGAT
* *
326947 TTCTCATAATTGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCTAATCCCGATTTTTTT
66 TTCTCATAATTGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTTTT
* * * ** * *
327012 TCTAATCATCGATTTCTCACAACCGGGGATACTCCAGCCCCGTTATTTTCAAGGG
131 TCAAAACATCAATTTCTCACAACCAAGGATACTCCAACCCCGTTATTTTCAAGGA
327067 GATACTCCAACCCC
1 GATACTCCAACCCC
327081 ATTATTATCT
Statistics
Matches: 176, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
185 49 0.28
186 10 0.06
187 115 0.65
188 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (185 bp):
GATACTCCAACCCCGTTACCTCTGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGAT
TTCTCATAATTGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTTTT
TCAAAACATCAATTTCTCACAACCAAGGATACTCCAACCCCGTTATTTTCAAGGA
Found at i:327057 original size:78 final size:79
Alignment explanation
Indices: 326882--327080 Score: 224
Period size: 78 Copynumber: 2.5 Consensus size: 79
326872 TTTCATCGGA
** * *
326882 GATACTCCAACCCCGTTACCTCTGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGAT
1 GATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGATTTATTCCCAAAATATCGAT
* **
326947 TTCTCATAATTGGG
66 TTCTCACAACCGGG
* * * ** *
326961 GATACTCCAACCCCGTTATTTCTGAGGGGATACTCTAATCCC-GATTTTTTTTC-TAATCATCGA
1 GATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGATTTATTCCCAAAAT-ATCGA
327024 TTTCTCACAACCGGG
65 TTTCTCACAACCGGG
* *
327039 GATACTCCAGCCCCGTTATTT-TCAAGGGGATACTCCAACCCC
1 GATACTCCAACCCCGTTATTTCT-GAGGGGATACTCCAACCCC
327081 ATTATTATCT
Statistics
Matches: 101, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
77 4 0.04
78 59 0.58
79 38 0.38
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (79 bp):
GATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGATTTATTCCCAAAATATCGAT
TTCTCACAACCGGG
Found at i:330438 original size:20 final size:19
Alignment explanation
Indices: 330394--330446 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
330384 GTTGCAAGCT
330394 ATGTATCGATACATTTCTTC
1 ATGTATCGATACATTTC-TC
*
330414 TTGTATCGATACATTGTAC-C
1 ATGTATCGATACATT-T-CTC
330434 ATGTATCGATACA
1 ATGTATCGATACA
330447 AATAGTGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 27 0.93
21 1 0.03
22 1 0.03
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (19 bp):
ATGTATCGATACATTTCTC
Found at i:330536 original size:97 final size:97
Alignment explanation
Indices: 330421--330607 Score: 347
Period size: 97 Copynumber: 1.9 Consensus size: 97
330411 TTCTTGTATC
*
330421 GATACATTGTACCATGTATCGATACAAATAGTGATAGGATAGCTACTGCCAATTTCATGTATCGA
1 GATACATTGTACCATGTATCGATACAAATAGTGATAGGATAGCTACTGCCAATTTCATGTATCAA
*
330486 TACAGTTTGTCCATGTATCGATACAATATTTG
66 TACAATTTGTCCATGTATCGATACAATATTTG
*
330518 GATACATTGTACCATGTATCGATACAAATAGTGATAGGGTAGCTACTGCCAATTTCATGTATCAA
1 GATACATTGTACCATGTATCGATACAAATAGTGATAGGATAGCTACTGCCAATTTCATGTATCAA
330583 TACAATTTGTCCATGTATCGATACA
66 TACAATTTGTCCATGTATCGATACA
330608 TTGAACATGT
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
97 87 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (97 bp):
GATACATTGTACCATGTATCGATACAAATAGTGATAGGATAGCTACTGCCAATTTCATGTATCAA
TACAATTTGTCCATGTATCGATACAATATTTG
Found at i:330599 original size:21 final size:21
Alignment explanation
Indices: 330573--330628 Score: 71
Period size: 19 Copynumber: 2.8 Consensus size: 21
330563 CTGCCAATTT
* **
330573 CATGTATCAATACAATTTGTC
1 CATGTATCGATACAATTTGAA
330594 CATGTATCGATAC-A-TTGAA
1 CATGTATCGATACAATTTGAA
330613 CATGTATCGATACAAT
1 CATGTATCGATACAAT
330629 GTATCGATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 16 0.53
20 2 0.07
21 12 0.40
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (21 bp):
CATGTATCGATACAATTTGAA
Found at i:330632 original size:13 final size:13
Alignment explanation
Indices: 330614--330640 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
330604 TACATTGAAC
330614 ATGTATCGATACA
1 ATGTATCGATACA
330627 ATGTATCGATACA
1 ATGTATCGATACA
330640 A
1 A
330641 GGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:333007 original size:20 final size:20
Alignment explanation
Indices: 332982--333035 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
332972 GTTACAAGCA
*
332982 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
*
333002 ATGTATCGATATAATGTACC
1 ATGTATCGATACAATGTACC
*
333022 ATGTATCAATACAA
1 ATGTATCGATACAA
333036 ACAGTGGTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:333112 original size:19 final size:19
Alignment explanation
Indices: 333063--333120 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
333053 ACTACTAGTT
333063 TCATGTATCGATACAATTG
1 TCATGTATCGATACAATTG
*
333082 TCCATATATCGATACAA-TG
1 T-CATGTATCGATACAATTG
333101 ATCATGTATCGATAC-ATTG
1 -TCATGTATCGATACAATTG
333120 T
1 T
333121 ATCGATTCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
18 2 0.06
19 17 0.50
20 15 0.44
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (19 bp):
TCATGTATCGATACAATTG
Found at i:333161 original size:20 final size:22
Alignment explanation
Indices: 333138--333180 Score: 72
Period size: 20 Copynumber: 2.0 Consensus size: 22
333128 CAAAGCATAA
333138 TGTATCGATACA-TC-AGGGTT
1 TGTATCGATACATTCAAGGGTT
333158 TGTATCGATACATTCAAGGGTT
1 TGTATCGATACATTCAAGGGTT
333180 T
1 T
333181 TGACCTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 12 0.57
21 2 0.10
22 7 0.33
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (22 bp):
TGTATCGATACATTCAAGGGTT
Found at i:340393 original size:31 final size:30
Alignment explanation
Indices: 340348--340424 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 30
340338 AAACCATTTT
340348 TGATGAAGATTTTGATGATAAAT-AAAAAGAAA
1 TGATGAA-A-TTTGATGA-AAATAAAAAAGAAA
* *
340380 TGATGTAAATTTGATGAAATTCAAAAAAGAAT
1 TGATG-AAATTTGATGAAAAT-AAAAAAGAAA
340412 TGATGAAATTTGA
1 TGATGAAATTTGA
340425 GAATGAATAC
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
30 3 0.08
31 16 0.40
32 19 0.47
33 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.18, T:0.31
Consensus pattern (30 bp):
TGATGAAATTTGATGAAAATAAAAAAGAAA
Found at i:340597 original size:20 final size:21
Alignment explanation
Indices: 340567--340608 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
340557 TCTGGGTTTT
340567 TTCAGATGTATCAATACATTA
1 TTCAGATGTATCAATACATTA
*
340588 TTCA-ATGTATCGATACATTA
1 TTCAGATGTATCAATACATTA
340608 T
1 T
340609 GGGAATTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (21 bp):
TTCAGATGTATCAATACATTA
Found at i:344537 original size:13 final size:13
Alignment explanation
Indices: 344519--344544 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
344509 ACATTTCTTC
344519 ATGTATCGATACA
1 ATGTATCGATACA
344532 ATGTATCGATACA
1 ATGTATCGATACA
344545 TGGTACAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:345496 original size:13 final size:13
Alignment explanation
Indices: 345478--345502 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
345468 CATAAAGTGT
345478 TGTATCGATACAA
1 TGTATCGATACAA
345491 TGTATCGATACA
1 TGTATCGATACA
345503 TGTTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:345583 original size:13 final size:13
Alignment explanation
Indices: 345565--345589 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
345555 ATCACTTAAA
345565 TGTATCGATACAT
1 TGTATCGATACAT
345578 TGTATCGATACA
1 TGTATCGATACA
345590 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:345642 original size:52 final size:52
Alignment explanation
Indices: 345598--345778 Score: 344
Period size: 52 Copynumber: 3.5 Consensus size: 52
345588 CACTGATCTT
345598 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
345650 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
345702 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
345754 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
345779 TCATATTTCG
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 127 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:629698 original size:79 final size:79
Alignment explanation
Indices: 629562--629765 Score: 212
Period size: 79 Copynumber: 2.6 Consensus size: 79
629552 GAGATAATAA
* * * * * ** * *
629562 CGGGGTTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTAAGAAATCGATGA
1 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATAAGAAATCAAT-A
*
629627 -TTAGAAAAAAAAAT
65 TTTAGAAAAAAAAAC
* *
629641 CGGGATTGGAGTATCTCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
1 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATAAGAAATCAATAT
* ** * *
629706 TTTGGGAATAAAGC
66 TTAGAAAAAAAAAC
* * *
629720 CGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCC
1 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC
629766 GATGAAATAA
Statistics
Matches: 103, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
78 1 0.01
79 102 0.99
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (79 bp):
CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATAAGAAATCAATAT
TTAGAAAAAAAAAC
Found at i:629760 original size:28 final size:28
Alignment explanation
Indices: 629720--629791 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
629710 GGAATAAAGC
** *
629720 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
629748 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
629776 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
629792 TCGACTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:629988 original size:51 final size:51
Alignment explanation
Indices: 629779--630164 Score: 257
Period size: 52 Copynumber: 7.4 Consensus size: 51
629769 GAAATAACGA
* * * *
629779 GGTTGGAGTATCCTCGACTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTA-TTTTGGAAATAAAATCGG
* * * * * * * *
629831 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTCGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTAGTATTTTGGAAATAAAATCGG
* * * *
629883 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAA-CTGG
1 GGTTGGAGTATCCCCGATTAT-GAAAAATTAGTATTTTGGAAATAAAATC-GG
* * *
629935 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTGGAAATAAAATCGG
** ** * *
629986 GGTTGGAGTATCCCC---TCGGAAATAACGGGGTTGGAGTATCCCT-GATGAT-CAA-CGG
1 GGTTGGAGTATCCCCGATTATGAAA-AA-----TT--AGTAT-TTTGGA-AATAAAATCGG
* * *
630041 GGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAA-AAATT--AGTATTTTGGAAATAAAATCGG
* * *
630095 AGTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGA-AAAATTAGTATTTTGGAAATAAAATCGG
* *
630146 AGTTGGAATATCCCCGATT
1 GGTTGGAGTATCCCCGATT
630165 GTGGAGAATT
Statistics
Matches: 263, Mismatches: 49, Indels: 45
0.74 0.14 0.13
Matches are distributed among these distances:
48 5 0.02
49 2 0.01
51 75 0.29
52 95 0.36
53 27 0.10
54 24 0.09
55 18 0.07
56 7 0.03
57 3 0.01
58 6 0.02
59 1 0.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTGGAAATAAAATCGG
Found at i:629996 original size:263 final size:263
Alignment explanation
Indices: 629670--630169 Score: 808
Period size: 263 Copynumber: 1.9 Consensus size: 263
629660 CGAAAATAAC
* *
629670 GGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATC
* *
629735 CCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAAT-AACGAGGTTGGAGTATCCTCGACTG
66 CCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG--ATCAACGAGGTTGGAGTATCCCCGACTG
*
629799 TGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTG
129 TGAAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAA-GAAAATTA
* *
629862 GTGTTTCGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAAT
193 GTGTTTCGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAAT
629927 AAAACT
258 AAAACT
* *
629933 GGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATC
* * *
629998 CCCTCGGAAATAACGGGGTTGGAGTATCCCTGATGATCAACGGGGTTGGAGTATCCCCGATTGTG
66 CCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGATCAACGAGGTTGGAGTATCCCCGACTGTG
* *
630063 AAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAAATTAGTG
131 AAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAATTAGTG
* *
630128 TTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
196 TTTCGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGA
630170 GAATTGAGAA
Statistics
Matches: 218, Mismatches: 16, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
261 2 0.01
262 26 0.12
263 150 0.69
264 40 0.18
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (263 bp):
GGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATC
CCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGATCAACGAGGTTGGAGTATCCCCGACTGTG
AAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAATTAGTG
TTTCGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAA
ACT
Found at i:630018 original size:28 final size:28
Alignment explanation
Indices: 629983--630055 Score: 98
Period size: 27 Copynumber: 2.6 Consensus size: 28
629973 GAAATAAAGT
629983 CGGGGTTGGAGTATCCCCTCGGA-AAT-AA
1 CGGGGTTGGAGTATCCCCT--GATAATCAA
*
630011 CGGGGTTGGAGTAT-CCCTGATGATCAA
1 CGGGGTTGGAGTATCCCCTGATAATCAA
630038 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
630056 GATTGTGAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
25 2 0.05
26 2 0.05
27 20 0.49
28 17 0.41
ACGTcount: A:0.21, C:0.22, G:0.34, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTGATAATCAA
Found at i:632543 original size:13 final size:13
Alignment explanation
Indices: 632525--632550 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
632515 ACAAAGATCC
632525 ATGTATCGATACA
1 ATGTATCGATACA
632538 ATGTATCGATACA
1 ATGTATCGATACA
632551 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:632546 original size:33 final size:33
Alignment explanation
Indices: 632504--632571 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
632494 TAAATTTCCA
***
632504 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
632537 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
632570 AA
1 AA
632572 AACTTATGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:632653 original size:21 final size:21
Alignment explanation
Indices: 632627--632703 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
632617 GTTGGGACCC
* *
632627 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACA-TTCTACAAA
*
632648 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
632669 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
632690 TGTATCGATACATT
1 TGTATCGATACATT
632704 TGGATAATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:637664 original size:21 final size:21
Alignment explanation
Indices: 637615--637669 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
637605 ATTTTTCAAT
*
637615 CATCAAA-TTCTTCAAATACA
1 CATCAAATTTCTTCAAAAACA
* *
637635 CTTCGAATTTCTTCAAAAACA
1 CATCAAATTTCTTCAAAAACA
*
637656 CATCAAATTCCTTC
1 CATCAAATTTCTTC
637670 TTTTCCTTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 5 0.18
21 23 0.82
ACGTcount: A:0.38, C:0.27, G:0.02, T:0.33
Consensus pattern (21 bp):
CATCAAATTTCTTCAAAAACA
Found at i:639571 original size:20 final size:20
Alignment explanation
Indices: 639548--639621 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
639538 ACAATTCAAA
639548 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
639568 GTATCGATACATGAAAAAAAAT
1 GTATCGATACATG--TTGCAAT
639590 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
639610 GTATCGATACAT
1 GTATCGATACAT
639622 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 28 0.64
22 16 0.36
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:639638 original size:41 final size:42
Alignment explanation
Indices: 639548--639642 Score: 174
Period size: 42 Copynumber: 2.3 Consensus size: 42
639538 ACAATTCAAA
639548 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAAAAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAAAAT
*
639590 GTATCGATACATGTTGCAATGTATCGATACAT-AAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAAAAT
639631 GTATCGATACAT
1 GTATCGATACAT
639643 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 20 0.38
42 32 0.62
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAAAAT
Found at i:639699 original size:13 final size:13
Alignment explanation
Indices: 639681--639706 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
639671 TACAGCAAGT
639681 ATGTATCGATACA
1 ATGTATCGATACA
639694 ATGTATCGATACA
1 ATGTATCGATACA
639707 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:641414 original size:13 final size:13
Alignment explanation
Indices: 641396--641420 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
641386 AAATTGCTAA
641396 GTATCGATACATT
1 GTATCGATACATT
641409 GTATCGATACAT
1 GTATCGATACAT
641421 ATTGCTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:641419 original size:33 final size:33
Alignment explanation
Indices: 641375--641439 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
641365 CACACCCAGA
641375 TGTATCAATACAAATTGCTAAGTATCGATACAT
1 TGTATCAATACAAATTGCTAAGTATCGATACAT
* * **
641408 TGTATCGATACATATTGCTTTGTATCGATACA
1 TGTATCAATACAAATTGCTAAGTATCGATACA
641440 CTAAGGAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (33 bp):
TGTATCAATACAAATTGCTAAGTATCGATACAT
Found at i:646521 original size:16 final size:17
Alignment explanation
Indices: 646492--646537 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
646482 TATTAAGTAT
646492 ATTAA-AATATAAAAT-A
1 ATTAATAATA-AAAATAA
*
646508 CTTAATAATAAAAATAA
1 ATTAATAATAAAAATAA
*
646525 ATAAATAATAAAA
1 ATTAATAATAAAA
646538 TTTTATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 9 0.36
17 16 0.64
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (17 bp):
ATTAATAATAAAAATAA
Found at i:646569 original size:23 final size:23
Alignment explanation
Indices: 646542--646593 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
646532 ATAAAATTTT
*
646542 ATATTTA-TTTATTTTTAAAAATA
1 ATATTTACTTT-TATTTAAAAATA
646565 ATATTTACTTTTATTTAAAAATA
1 ATATTTACTTTTATTTAAAAATA
646588 AT-TTTA
1 ATATTTA
646594 AAAATATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 4 0.15
23 20 0.74
24 3 0.11
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (23 bp):
ATATTTACTTTTATTTAAAAATA
Found at i:649804 original size:21 final size:20
Alignment explanation
Indices: 649757--649804 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
649747 TTTTTTATTA
*
649757 ATAATTTATTTTATATAAAT
1 ATAATATATTTTATATAAAT
* *
649777 TTAATATATTTATATATTAAT
1 ATAATATATTT-TATATAAAT
*
649798 ATCATAT
1 ATAATAT
649805 CATATTTTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
ATAATATATTTTATATAAAT
Found at i:649840 original size:35 final size:34
Alignment explanation
Indices: 649776--649868 Score: 109
Period size: 35 Copynumber: 2.7 Consensus size: 34
649766 TTTATATAAA
*
649776 TTTAA-TATATTTATATATTA-ATATCATATCATAT
1 TTTAATTAT-TTTATATATTATAT-TTATATCATAT
649810 TTTAATTATTTTATAATATTATATTTATATCATAT
1 TTTAATTATTTTAT-ATATTATATTTATATCATAT
* *
649845 TTTATTTTATTTTATATTTTATAT
1 TTTA-ATTATTTTATATATTATAT
649869 AATTTTTCGT
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
34 10 0.19
35 31 0.60
36 11 0.21
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (34 bp):
TTTAATTATTTTATATATTATATTTATATCATAT
Found at i:649873 original size:17 final size:17
Alignment explanation
Indices: 649841--649874 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
649831 TATTTATATC
* *
649841 ATATTTTATTTTATTTT
1 ATATTTTATATAATTTT
649858 ATATTTTATATAATTTT
1 ATATTTTATATAATTTT
649875 TCGTAATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
ATATTTTATATAATTTT
Found at i:649958 original size:19 final size:20
Alignment explanation
Indices: 649929--649972 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
649919 TAAAACATAA
*
649929 AAATTATTTAA-ATAAATTT
1 AAATTACTTAACATAAATTT
*
649948 TAATTACTTAACATAAATTT
1 AAATTACTTAACATAAATTT
649968 AAATT
1 AAATT
649973 TATTTATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATTACTTAACATAAATTT
Found at i:650149 original size:19 final size:17
Alignment explanation
Indices: 650090--650149 Score: 50
Period size: 19 Copynumber: 3.4 Consensus size: 17
650080 TTAAATTTAA
*
650090 TATTATAAAAAAATGATT
1 TATTATAATAAAAT-ATT
* *
650108 AAATTATAATTAAATATT
1 -TATTATAATAAAATATT
650126 T-TTATAATAAAATAATT
1 TATTATAATAAAAT-ATT
650143 TAGTTAT
1 TA-TTAT
650150 CAATTTTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
16 11 0.33
17 4 0.12
18 3 0.09
19 15 0.45
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
TATTATAATAAAATATT
Found at i:655517 original size:21 final size:21
Alignment explanation
Indices: 655484--655524 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
655474 CTAAGTAAAA
655484 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
655505 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
655525 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:655648 original size:53 final size:53
Alignment explanation
Indices: 655583--655701 Score: 211
Period size: 53 Copynumber: 2.2 Consensus size: 53
655573 CACATTTTAA
* *
655583 ATGTATCGATACAGGACATTGGCAGTAGCCAAATTTGTATCGATACACACAAT
1 ATGTATCGATACAGGACACTGGCAGTAGCCAAATTTGTATCGATACACAAAAT
*
655636 ATGTATCGATACAGGTCACTGGCAGTAGCCAAATTTGTATCGATACACAAAAT
1 ATGTATCGATACAGGACACTGGCAGTAGCCAAATTTGTATCGATACACAAAAT
655689 ATGTATCGATACA
1 ATGTATCGATACA
655702 TTGGAAGTAG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 63 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (53 bp):
ATGTATCGATACAGGACACTGGCAGTAGCCAAATTTGTATCGATACACAAAAT
Found at i:660519 original size:19 final size:19
Alignment explanation
Indices: 660495--660533 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
660485 CCATTTGAAT
660495 AATAAGATAATCTAGTCTA
1 AATAAGATAATCTAGTCTA
* *
660514 AATAAGATATTCTATTCTA
1 AATAAGATAATCTAGTCTA
660533 A
1 A
660534 TTTTAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.36
Consensus pattern (19 bp):
AATAAGATAATCTAGTCTA
Found at i:660556 original size:20 final size:20
Alignment explanation
Indices: 660525--660562 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
660515 ATAAGATATT
660525 CTATTCTAATTTTAAAATTAG
1 CTATTCTAA-TTTAAAATTAG
660546 CTATT-TAATTTAAAATT
1 CTATTCTAATTTAAAATT
660563 TAAAAGTGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (20 bp):
CTATTCTAATTTAAAATTAG
Found at i:666007 original size:13 final size:13
Alignment explanation
Indices: 665989--666014 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
665979 ATATAAGTTT
665989 TGTATCGATACAA
1 TGTATCGATACAA
666002 TGTATCGATACAA
1 TGTATCGATACAA
666015 AACCACCTTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:671311 original size:238 final size:238
Alignment explanation
Indices: 670893--671362 Score: 850
Period size: 238 Copynumber: 2.0 Consensus size: 238
670883 AGAAATGAAG
* * *
670893 AAGGGTTATAACAGGGTATGCTTGATGAAGAGGTGGAAGAAGTAGATATCAGGTTTAATGTAACT
1 AAGGGTTATAACAGGGTATGCATGATGAAGAGGTGGAAGAAGAAGACATCAGGTTTAATGTAACT
* *
670958 TTAAATTGGCCTAAAATCAATAATGTTGGCAGGCCTCTAGGCAAAATCTTGTCTTGTAAGCCCAG
66 TTAAATTGGCCTAAAATCAATAATGTTAGCAAGCCTCTAGGCAAAATCTTGTCTTGTAAGCCCAG
*
671023 TTGGAAATGTTTGGCCTTTGGATTCTATAAGTATTAATCTTCCTTTAGTGAATGAGGCTTAATTA
131 ATGGAAATGTTTGGCCTTTGGATTCTATAAGTATTAATCTTCCTTTAGTGAATGAGGCTTAATTA
671088 TCAACTCAAAACCATGATCAAAGAGGAGTGCAATGTGCAATCA
196 TCAACTCAAAACCATGATCAAAGAGGAGTGCAATGTGCAATCA
671131 AAGGGTTATAACAGGGTATGCATGATGAAGAGGTGGAAGAAGAAGACATCAGGTTTAATGTAACT
1 AAGGGTTATAACAGGGTATGCATGATGAAGAGGTGGAAGAAGAAGACATCAGGTTTAATGTAACT
* *
671196 TTAAATTGGCCTAAAATCAATAATGTTAGCAAGCTTCTTGGCAAAATCTTGTCTTGTAAGCCCAG
66 TTAAATTGGCCTAAAATCAATAATGTTAGCAAGCCTCTAGGCAAAATCTTGTCTTGTAAGCCCAG
*
671261 ATGGAAATGTTTGGCCTTTGGATTCTATAAGTATTAATCTTTCTTTAGTGAATGAGGCTTAATTA
131 ATGGAAATGTTTGGCCTTTGGATTCTATAAGTATTAATCTTCCTTTAGTGAATGAGGCTTAATTA
*
671326 TCAACTTAAAACCATGATCAAAGAGGAGTGCAATGTG
196 TCAACTCAAAACCATGATCAAAGAGGAGTGCAATGTG
671363 TTCCTAAATC
Statistics
Matches: 222, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
238 222 1.00
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (238 bp):
AAGGGTTATAACAGGGTATGCATGATGAAGAGGTGGAAGAAGAAGACATCAGGTTTAATGTAACT
TTAAATTGGCCTAAAATCAATAATGTTAGCAAGCCTCTAGGCAAAATCTTGTCTTGTAAGCCCAG
ATGGAAATGTTTGGCCTTTGGATTCTATAAGTATTAATCTTCCTTTAGTGAATGAGGCTTAATTA
TCAACTCAAAACCATGATCAAAGAGGAGTGCAATGTGCAATCA
Found at i:672734 original size:20 final size:20
Alignment explanation
Indices: 672679--672736 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
672669 AAGGGTAACA
***
672679 ATTGTATCAATACAAGGCAT
1 ATTGTATCAATACAATATAT
**
672699 ATTGTATTGATACAATATAT
1 ATTGTATCAATACAATATAT
*
672719 TTTGTATCAATACAATAT
1 ATTGTATCAATACAATAT
672737 TAAGATTTTT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (20 bp):
ATTGTATCAATACAATATAT
Found at i:674165 original size:58 final size:58
Alignment explanation
Indices: 674075--674223 Score: 208
Period size: 58 Copynumber: 2.6 Consensus size: 58
674065 GCATATTAAC
* * *
674075 GATTTTTGTGTCATTTCATGCATATTTATGTCATTTTAGTCATTTTCCATAACAAAGG
1 GATTTTTATGTCATTTCATGCATTTTTATGTCATTTTAGTAATTTTCCATAACAAAGG
* * ***
674133 GATTTTTATGTCATTTTATGCATTTTTATGTCATTTTAGTAATTTTCCATGATGTAGG
1 GATTTTTATGTCATTTCATGCATTTTTATGTCATTTTAGTAATTTTCCATAACAAAGG
* *
674191 GTTTTTTATGTCATTTCATGCATTTTTAAGTCA
1 GATTTTTATGTCATTTCATGCATTTTTATGTCA
674224 CTTTCCATGA
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 80 1.00
ACGTcount: A:0.23, C:0.11, G:0.14, T:0.51
Consensus pattern (58 bp):
GATTTTTATGTCATTTCATGCATTTTTATGTCATTTTAGTAATTTTCCATAACAAAGG
Found at i:674167 original size:11 final size:11
Alignment explanation
Indices: 674134--674169 Score: 58
Period size: 10 Copynumber: 3.5 Consensus size: 11
674124 TAACAAAGGG
674134 ATTTTTATGTC
1 ATTTTTATGTC
674145 A-TTTTATG-C
1 ATTTTTATGTC
674154 ATTTTTATGTC
1 ATTTTTATGTC
674165 ATTTT
1 ATTTT
674170 AGTAATTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 2 0.09
10 14 0.61
11 7 0.30
ACGTcount: A:0.19, C:0.08, G:0.08, T:0.64
Consensus pattern (11 bp):
ATTTTTATGTC
Found at i:674952 original size:52 final size:52
Alignment explanation
Indices: 674878--675016 Score: 233
Period size: 52 Copynumber: 2.7 Consensus size: 52
674868 TTTGGAATGA
*
674878 AAATGTATCGATACATTTTTCATTATATCGATACATTCTGGGTTTTTGACCC
1 AAATGTATCGATACATTCTTCATTATATCGATACATTCTGGGTTTTTGACCC
* *
674930 AAATGTATCAATACATTCTTCATTGTATCGATACATTCTGGGTTTTTGACCC
1 AAATGTATCGATACATTCTTCATTATATCGATACATTCTGGGTTTTTGACCC
* *
674982 AAATGTATCGATACCTTCTTCAATATATCGATACA
1 AAATGTATCGATACATTCTTCATTATATCGATACA
675017 CGTAGGCTAT
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 80 1.00
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (52 bp):
AAATGTATCGATACATTCTTCATTATATCGATACATTCTGGGTTTTTGACCC
Found at i:679728 original size:28 final size:28
Alignment explanation
Indices: 679695--679760 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
679685 AATTTCAATT
*
679695 TAATAATTAAAATCATTATTTATCTTATA
1 TAATAATTAAAATC-TAATTTATCTTATA
* *
679724 -AATAATCAATATCTAATTTATCTTATA
1 TAATAATTAAAATCTAATTTATCTTATA
679751 TAAT-ATTAAA
1 TAATAATTAAA
679761 GAATTACATA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
27 17 0.55
28 14 0.45
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (28 bp):
TAATAATTAAAATCTAATTTATCTTATA
Found at i:682383 original size:168 final size:167
Alignment explanation
Indices: 682156--682623 Score: 608
Period size: 168 Copynumber: 2.8 Consensus size: 167
682146 TTTTTTTCTT
* * * * *
682156 CGTAAATTTTTTCG-GGAAGATTTTTCATAATTTTTAATTTTGAAAATTCATCAAATATTATTAT
1 CGTAATTTTTTTCGAGG-GGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTAT
* *
682220 TTATTTCATATTAAATT-AGTTTTCAAAAATTAATTCATTTTCATAAGTTTTTGAATTTTTTTCT
65 TTATTTCATATT-AATTCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGAATTTTTTTCT
* * *
682284 TGAAATTTC-CCTTTTTTCGAAATACTATGTTTTCTACTC
129 TGAAATTTCTCCTTTTCT-AAAATACGATGTTTTCTACTC
* * *
682323 TGTAATTTTTTTTCGAGGGGATTTTTCTTAGTTTTCAATTTTTAAAATTCATCAAATATTATCAT
1 CGTAA-TTTTTTTCGAGGGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTAT
* * *
682388 TTATTTCATATTAATTCAGTTTTCAAAAATTCATTTATTTTCTTGAGTTGTTT-AATTTTTTCCT
65 TTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATGAGTT-TTTGAATTTTTTTCT
* *
682452 TGAAA-TTCTCCTTTTCTAAAATACGGTGTTTTTTACTC
129 TGAAATTTCTCCTTTTCTAAAATACGATGTTTTCTACTC
* * *
682490 CGTAATTTTTTTCGAGGGGATTTTT-TGAGGTTTTTAATTTTTAAAATTCATCAAACATCATTAT
1 CGTAATTTTTTTCGAGGGGATTTTTCTTA-GTTTTTAATTTTTAAAATTCATCAAATATTATTAT
* * *
682554 TTATTTCCTATTAATTCAATTTTCAAAAATTCATTCATCTTCATGAGTTTTTGAA-TTTTTTCTT
65 TTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGAATTTTTTTC-T
682618 TGAAAT
129 TGAAAT
682624 CCCCATTTTC
Statistics
Matches: 262, Mismatches: 30, Indels: 18
0.85 0.10 0.06
Matches are distributed among these distances:
165 11 0.04
166 103 0.39
167 32 0.12
168 111 0.42
169 5 0.02
ACGTcount: A:0.28, C:0.11, G:0.09, T:0.52
Consensus pattern (167 bp):
CGTAATTTTTTTCGAGGGGATTTTTCTTAGTTTTTAATTTTTAAAATTCATCAAATATTATTATT
TATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATGAGTTTTTGAATTTTTTTCTTG
AAATTTCTCCTTTTCTAAAATACGATGTTTTCTACTC
Found at i:682736 original size:167 final size:166
Alignment explanation
Indices: 682186--682736 Score: 534
Period size: 166 Copynumber: 3.3 Consensus size: 166
682176 TTTTTCATAA
* * *
682186 TTTTTAATTTTGAAAATTCATCAAATATTATT-ATTTATTTCAT-ATTAAATT-AGTTTTCAAAA
1 TTTTAAATTTTTAAAATTCATCAAATATT-TTCATTTATTTC-TCATT-AATTCAATTTTCAAAA
* * * * *
682248 ATTAATTCATTTTCATAAGTTTTTGAATTTTTT-TCTTGAAATTTCCCTTTTTTCGAAATACT-A
63 ATTCATTCATTTTCATGAGTTTTTGAATTTTTTCT-TTGAAA-TTCCCCTTTTCCAAAATACTGA
* *
682311 TGTTTTCTACTCTGTAATTTTTTTTCGAGGGGATTTTTCTTAG
126 -GTTTTCTACTCCGTAA-TTTTTTTCGAGGGGATTTTTTTTAG
* * *
682354 TTTTCAATTTTTAAAATTCATCAAATATTATCATTTATTTCAT-ATTAATTCAGTTTTCAAAAAT
1 TTTTAAATTTTTAAAATTCATCAAATATTTTCATTTATTTC-TCATTAATTCAATTTTCAAAAAT
* * * * * * *
682418 TCATTTATTTTCTTGAGTTGTTT-AATTTTTTCCTTGAAATTCTCCTTTTCTAAAATACGGTGTT
65 TCATTCATTTTCATGAGTT-TTTGAATTTTTTCTTTGAAATTCCCCTTTTCCAAAATACTGAGTT
* *
682482 TTTTACTCCGTAATTTTTTTCGAGGGGA-TTTTTTGAGG
129 TTCTACTCCGTAATTTTTTTCGAGGGGATTTTTTTTA-G
* * *
682520 TTTTTAATTTTTAAAATTCATCAAACATCATT-ATTTATTTC-CTATTAATTCAATTTTCAAAAA
1 TTTTAAATTTTTAAAATTCATCAAATAT-TTTCATTTATTTCTC-ATTAATTCAATTTTCAAAAA
* *
682583 TTCATTCATCTTCATGAGTTTTTGAATTTTTTCTTTGAAA-TCCCCATTTTCCCAAAAAACTGAG
64 TTCATTCATTTTCATGAGTTTTTGAATTTTTTCTTTGAAATTCCCC-TTTT-CCAAAATACTGAG
* * *
682647 TTTTCTAAC-CCATAAATATTTTCG-GGAGGATTTTTTTTAG
127 TTTTCT-ACTCCGTAATTTTTTTCGAGG-GGATTTTTTTTAG
* * * * * **
682687 TCTAAAATTTTTAAAATGCATCTAATATTTTCATTGAACTCTCATTAATT
1 TTTTAAATTTTTAAAATTCATCAAATATTTTCATTTATTTCTCATTAATT
682737 TAGTTTTGAG
Statistics
Matches: 318, Mismatches: 48, Indels: 35
0.79 0.12 0.09
Matches are distributed among these distances:
165 13 0.04
166 110 0.35
167 99 0.31
168 93 0.29
169 3 0.01
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.50
Consensus pattern (166 bp):
TTTTAAATTTTTAAAATTCATCAAATATTTTCATTTATTTCTCATTAATTCAATTTTCAAAAATT
CATTCATTTTCATGAGTTTTTGAATTTTTTCTTTGAAATTCCCCTTTTCCAAAATACTGAGTTTT
CTACTCCGTAATTTTTTTCGAGGGGATTTTTTTTAG
Found at i:683301 original size:10 final size:10
Alignment explanation
Indices: 683275--683323 Score: 71
Period size: 10 Copynumber: 4.8 Consensus size: 10
683265 AAAGAGAGGA
*
683275 AGAAAAGAAAG
1 AGAAAA-AAAT
683286 AGAAAAAAAT
1 AGAAAAAAAT
683296 AGAAAAAAAT
1 AGAAAAAAAT
*
683306 AGGAAAAAAT
1 AGAAAAAAAT
683316 AGAAAAAA
1 AGAAAAAA
683324 CCAAGCTAGC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
10 29 0.83
11 6 0.17
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (10 bp):
AGAAAAAAAT
Found at i:685135 original size:156 final size:156
Alignment explanation
Indices: 684925--685933 Score: 882
Period size: 156 Copynumber: 6.5 Consensus size: 156
684915 TATTTATCAG
* * * *
684925 TTTAAGTCCTTTAGGGTTGCCGGGGTACTTTTACGTCAAAAGTATACCCATAGGGGTATTTTCAT
1 TTTAAGTCCTTTAGGGTTGCCAGGGTACTTTTACGTCGAAGGTATACCCATAGGGGTATTTTCGT
* * * * *
684990 AATTTTTTAGAATCGAATCTTAAGTTGTCACCCGGTCTGCTTTTATGCTGAAGGTGGGCATTTAG
66 AATTTTTTAGAATCGAATCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGTGGGCATTTAG
685055 GATAGGTTCATCCCATCTCTAGT-TGT
131 GATAGGTTCATCCCATCTCTAGTCT-T
* * * * * *
685081 TTTAAGTCCTTTAGGGTTGCCATGGTACTTTTACATTGAGGGTATACCCCTAGGGGCATTTTCGT
1 TTTAAGTCCTTTAGGGTTGCCAGGGTACTTTTACGTCGAAGGTATACCCATAGGGGTATTTTCGT
* * * * * * *
685146 AATTTTTTAGAA-CCAAGTCCTAGGCTATCAACGGGTCCGCTTTTATGCCTAAGGTGGCCATTTG
66 AATTTTTTAGAATCGAA-TCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGTGGGCATTTA
* *
685210 GGATAAGTTCATCCCATCTTTAGTCTT
130 GGATAGGTTCATCCCATCTCTAGTCTT
* * * * *
685237 TTTAAGTCCTTTAGGATTGTCGGGGTACTTTTACGTCGAAGGTATAGCCATAGGGGTATTTTTGT
1 TTTAAGTCCTTTAGGGTTGCCAGGGTACTTTTACGTCGAAGGTATACCCATAGGGGTATTTTCGT
** * * * *
685302 AATTTCCTAGAA-CCAACTCCTAGGTTGTCACCGGGTCTGCTTTTATGCCAAAGGTGGGCAGTTA
66 AATTTTTTAGAATCGAA-TCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGTGGGCATTTA
* ** * * * **
685366 GGGTAGGTTTGTTCCATTTCAAACCTT
130 GGATAGGTTCATCCCATCTCTAGTCTT
* * * * * *
685393 TTTAAGTCCTTTAGGGGTACC-GAGATACTTTCACGTCGAAGGTAT-CCCTTAAGGGTATTTTCG
1 TTTAAGTCCTTTAGGGTTGCCAG-GGTACTTTTACGTCGAAGGTATACCCATAGGGGTATTTTCG
* * * * * * * * ** **
685456 TAATTTTTCAAAATTGAGTCCTAGATTATCACCAGGTCCTCTTTTACACTAAAGGTGGGCATTTA
65 TAATTTTTTAGAATCGAATCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGTGGGCATTTA
* * * *
685521 GGATAGGTTCAGCACTATTTCAAGTCTTT
130 GGATAGGTTCATC-CCATCTCTAGTC-TT
* * * * * ***
685550 TTTAAGTCCTTTAAGGCTGCCGGGGTACTTTTATGTCAAAGGTATACTTGTAGGGGTATTTTCGT
1 TTTAAGTCCTTTAGGGTTGCCAGGGTACTTTTACGTCGAAGGTATACCCATAGGGGTATTTTCGT
* * * *
685615 AATTTTCTAGAATCGAGTCCTAGGTTGTCACTGGGTCCGCTTTTATGCCGAATGTGGGCATTTAG
66 AATTTTTTAGAATCGAATCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGTGGGCATTTAG
* *
685680 GATAGGCTCATCACATCTCTAGTCTT
131 GATAGGTTCATCCCATCTCTAGTCTT
* * * * ** * *
685706 TTTAAGTCTTTTAGGGTT-ACTGGGATACTTTCACGTCGAAGGTATACCTTTAGAGGTATTTTCA
1 TTTAAGTCCTTTAGGGTTGCCAGGG-TACTTTTACGTCGAAGGTATACCCATAGGGGTATTTTCG
** * * * * * ** * *
685770 TTTTTTTTTCAAAACCGAGTCCTAGGTCGTCGCTAGGTCCACTTTTGTGCCGAAGGTGGGCATTT
65 TAATTTTTT-AGAATCGAATCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGTGGGCATTT
* * *
685835 AGGATAGTTTCATCCTATTTCTA-TCCTT
129 AGGATAGGTTCATCCCATCTCTAGT-CTT
* * * ** * * * * *
685863 TTTAGGTCTTTTAGGGGTATCA-GGTACTTTTACGTCGAAGGTATCCCCTTAAGGGCATTTTCAT
1 TTTAAGTCCTTTAGGGTTGCCAGGGTACTTTTACGTCGAAGGTATACCCATAGGGGTATTTTCGT
685927 AATTTTT
66 AATTTTT
685934 CTTGAACTTA
Statistics
Matches: 680, Mismatches: 161, Indels: 24
0.79 0.19 0.03
Matches are distributed among these distances:
155 77 0.11
156 392 0.58
157 133 0.20
158 78 0.11
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (156 bp):
TTTAAGTCCTTTAGGGTTGCCAGGGTACTTTTACGTCGAAGGTATACCCATAGGGGTATTTTCGT
AATTTTTTAGAATCGAATCCTAGGTTGTCACCGGGTCCGCTTTTATGCCGAAGGTGGGCATTTAG
GATAGGTTCATCCCATCTCTAGTCTT
Found at i:685549 original size:312 final size:306
Alignment explanation
Indices: 684925--685906 Score: 939
Period size: 313 Copynumber: 3.1 Consensus size: 306
684915 TATTTATCAG
* *
684925 TTTAAGTCCTTTAGGGTTGCCGGGGTACTTTTACGTCAAAAGTATACCCATAGGGGTATTTTCAT
1 TTTAAGTCCTTTAGGGTTGCCGGGGTACTTTTACGTCAAAGGTATA-CCATAGGGGTATTTTCGT
* * * * * *
684990 AATTTTTTAGAATCGAATCTTAAGTTGTCACCCGGTCTGCTTTTATGCTGAAGGTGGGCATTTAG
65 AATTTTCTAGAA-CCAATCCTAGGTTGTCACCGGGTCTGCTTTTATGCCGAAGGTGGGCATTTAG
* * * ** * * * * *
685055 GATAGGTTCATCCCATCTCTAGTTGTTTTAAGTCCTTTAGGGTTGCC-ATGGTACTTTTACATTG
129 GATAGGTTTATTCCATCTCAACCT-TTTTAAGTCCTTTAGGGTTACCGA-GATACTTTCACGTCG
* * * * * * * * * *
685119 AGGGTATACCCCTAGGGGCATTTTCGTAATTTTTTAGAACCAAGTCCTAGGCTATCAACGGGTCC
192 AAGGTAT-CCCTTAAGGGTATTTTCGTAATTTTTCAAAACCGAGTCCTAGGTTATCACCAGGTCC
* * * * *
685184 GCTTTTATGCCTAAGGTGGCCATTTGGGATAAGTTCATCCCATCTT-TAGTCTT
256 ACTTTTA--CCTAAGGTGGGCATTTAGGATAGGTTCATCCTAT-TTCTAGTCTT
* * * *
685237 TTTAAGTCCTTTAGGATTGTCGGGGTACTTTTACGTCGAAGGTATAGCCATAGGGGTATTTTTGT
1 TTTAAGTCCTTTAGGGTTGCCGGGGTACTTTTACGTCAAAGGTATA-CCATAGGGGTATTTTCGT
* * *
685302 AATTTCCTAGAACCAACTCCTAGGTTGTCACCGGGTCTGCTTTTATGCCAAAGGTGGGCAGTTAG
65 AATTTTCTAGAACCAA-TCCTAGGTTGTCACCGGGTCTGCTTTTATGCCGAAGGTGGGCATTTAG
* * * *
685367 GGTAGGTTTGTTCCATTTCAAACCTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTCACGTCGA
129 GATAGGTTTATTCCATCTC-AACCTTTTTAAGTCCTTTAGGGTTACCGAGATACTTTCACGTCGA
** * *
685432 AGGTATCCCTTAAGGGTATTTTCGTAATTTTTCAAAATTGAGTCCTAGATTATCACCAGGTCCTC
193 AGGTATCCCTTAAGGGTATTTTCGTAATTTTTCAAAACCGAGTCCTAGGTTATCACCAGGTCCAC
* *
685497 TTTTACACTAAAGGTGGGCATTTAGGATAGGTTCAGCACTATTTCAAGTCTTT
258 TTTTAC-CT-AAGGTGGGCATTTAGGATAGGTTCATC-CTATTTCTAGTC-TT
* * * **
685550 TTTAAGTCCTTTAAGGCTGCCGGGGTACTTTTATGTCAAAGGTATACTTGTAGGGGTATTTTCGT
1 TTTAAGTCCTTTAGGGTTGCCGGGGTACTTTTACGTCAAAGGTATAC-CATAGGGGTATTTTCGT
* * * * *
685615 AATTTTCTAGAATCGAGTCCTAGGTTGTCACTGGGTCCGCTTTTATGCCGAATGTGGGCATTTAG
65 AATTTTCTAGAA-CCAATCCTAGGTTGTCACCGGGTCTGCTTTTATGCCGAAGGTGGGCATTTAG
* * ** * * *
685680 GATAGGCTCA-TCACATCTCTAGTCTTTTTAAGTCTTTTAGGGTTACTGGGATACTTTCACGTCG
129 GATAGGTTTATTC-CATCTC-AACCTTTTTAAGTCCTTTAGGGTTACCGAGATACTTTCACGTCG
* * * ** ** * *
685744 AAGGTATACCTTTAGAGGTATTTTCATTTTTTTTTCAAAACCGAGTCCTAGGTCGTCGCTAGGTC
192 AAGGTATCCCTTAAG-GGTATTTTC-GTAATTTTTCAAAACCGAGTCCTAGGTTATCACCAGGTC
* * *
685809 CACTTTTGTGCCGAAGGTGGGCATTTAGGATAGTTTCATCCTATTTCTA-TCCTT
255 CAC-TTT-TACCTAAGGTGGGCATTTAGGATAGGTTCATCCTATTTCTAGT-CTT
* * * ** * *
685863 TTTAGGTCTTTTAGGGGTATC-AGGTACTTTTACGTCGAAGGTAT
1 TTTAAGTCCTTTAGGGTTGCCGGGGTACTTTTACGTCAAAGGTAT
685907 CCCCTTAAGG
Statistics
Matches: 548, Mismatches: 106, Indels: 32
0.80 0.15 0.05
Matches are distributed among these distances:
309 1 0.00
310 2 0.00
311 79 0.14
312 191 0.35
313 193 0.35
314 20 0.04
315 56 0.10
316 4 0.01
317 2 0.00
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (306 bp):
TTTAAGTCCTTTAGGGTTGCCGGGGTACTTTTACGTCAAAGGTATACCATAGGGGTATTTTCGTA
ATTTTCTAGAACCAATCCTAGGTTGTCACCGGGTCTGCTTTTATGCCGAAGGTGGGCATTTAGGA
TAGGTTTATTCCATCTCAACCTTTTTAAGTCCTTTAGGGTTACCGAGATACTTTCACGTCGAAGG
TATCCCTTAAGGGTATTTTCGTAATTTTTCAAAACCGAGTCCTAGGTTATCACCAGGTCCACTTT
TACCTAAGGTGGGCATTTAGGATAGGTTCATCCTATTTCTAGTCTT
Found at i:685900 original size:469 final size:468
Alignment explanation
Indices: 684925--685934 Score: 1111
Period size: 469 Copynumber: 2.2 Consensus size: 468
684915 TATTTATCAG
* * * * * * *
684925 TTTAAGTCCTTTAGGGTTGCCGGGGTACTTTTACGTCAAAAGTATACCCATAGGGGTATTTTCAT
1 TTTAAGTCCTTTAGGGGTACCGAGGTACTTTTACGTCGAAGGTATACCCTTAAGGGTATTTTCAT
* * * * * ** *
684990 AATTTTTTAGAATCGAATCTTAAGTTGTCACCCGGTCTGCTTTTATGCTGAAGGTGGGCATTTAG
66 AATTTTTCAAAATCGAATCCTAAGTTATCACCAGGTCTGCTTTTACACTAAAGGTGGGCATTTAG
* * * * * **
685055 GATAGGTTCATCCCATCTCTAGTTGTTTTAAGTCCTTTAGGGTTGCCATGGTACTTTTACATTGA
131 GATAGGTTCAGCCCATCTCAAGTTGTTTTAAGTCCTTTAAGGCTGCCAGGGTACTTTTACATCAA
* *
685120 GGGTATACCCCTAGGGGCATTTTCGTAATTTTTTAGAACCAAGTCCTAGGCTATCAACGGGTCCG
196 AGGTATACCCCTAGGGGCATTTTCGTAATTTTCTAGAACCAAGTCCTAGGCTATCAACGGGTCCG
* * * * *
685185 CTTTTATGCCTAAGGTGGCCATTTGGGATAAGTTCATCCCATCTTTAGTCTTTTTAAGTCCTTTA
261 CTTTTATGCCGAAGGTGGCCATTTAGGATAAGCTCATCACATCTCTAGTCTTTTTAAGTCCTTTA
* * * * *
685250 GGATTGTCGGGGTACTTTTACGTCGAAGGTATAGCCATAGGGGTATTTTTGTAATTTCCTAGAAC
326 GGATTCTCGGGATACTTTCACGTCGAAGGTATAGCCATAGAGGTATTTTTGTAATTTCCTAAAAC
* * ** * **
685315 CAACTCCTAGGTTGTCACCGGGTCTGCTTTTATGCCAAAGGTGGGCAGTTAGGGTAGGTTTGTTC
391 CAACTCCTAGGTCGTCACCAGGTCCACTTTTATGCCAAAGGTGGGCAGTTAGGATAGGTTTCATC
685380 CATTTCAAACCTT
456 CATTTCAAACCTT
* * *
685393 TTTAAGTCCTTTAGGGGTACCGAGATACTTTCACGTCGAAGGTAT-CCCTTAAGGGTATTTTCGT
1 TTTAAGTCCTTTAGGGGTACCGAGGTACTTTTACGTCGAAGGTATACCCTTAAGGGTATTTTCAT
* *
685457 AATTTTTCAAAATTGAGTCCT-AGATTATCACCAGGTCCT-CTTTTACACTAAAGGTGGGCATTT
66 AATTTTTCAAAATCGAATCCTAAG-TTATCACCAGGT-CTGCTTTTACACTAAAGGTGGGCATTT
* * * * **
685520 AGGATAGGTTCAGCACTATTTCAAGTCTTTTTTAAGTCCTTTAAGGCTGCCGGGGTACTTTTATG
129 AGGATAGGTTCAGC-CCATCTCAAGT-TGTTTTAAGTCCTTTAAGGCTGCCAGGGTACTTTTACA
*** * * * * *
685585 TCAAAGGTATACTTGTAGGGGTATTTTCGTAATTTTCTAGAATCGAGTCCTAGGTTGTC-ACTGG
192 TCAAAGGTATACCCCTAGGGGCATTTTCGTAATTTTCTAGAACCAAGTCCTAGGCTATCAAC-GG
* * *
685649 GTCCGCTTTTATGCCGAATGTGGGCATTTAGGATAGGCTCATCACATCTCTAGTCTTTTTAAGTC
256 GTCCGCTTTTATGCCGAAGGTGGCCATTTAGGATAAGCTCATCACATCTCTAGTCTTTTTAAGTC
* * * * **
685714 TTTTAGGGTTACT-GGGATACTTTCACGTCGAAGGTATA-CCTTTAGAGGTATTTTCATTTTTTT
321 CTTTAGGATT-CTCGGGATACTTTCACGTCGAAGGTATAGCC-ATAGAGGTATTTT--TGTAATT
* * * * * * * *
685777 TTC-AAAACCGAGTCCTAGGTCGTCGCTAGGTCCACTTTTGTGCCGAAGGTGGGCATTTAGGATA
382 TCCTAAAACCAACTCCTAGGTCGTCACCAGGTCCACTTTTATGCCAAAGGTGGGCAGTTAGGATA
* *
685841 -GTTTCATCCTATTTCTATCCTT
447 GGTTTCATCC-ATTTCAAACCTT
* * * * *
685863 TTTAGGTCTTTTAGGGGTATC-AGGTACTTTTACGTCGAAGGTATCCCCTTAAGGGCATTTTCAT
1 TTTAAGTCCTTTAGGGGTACCGAGGTACTTTTACGTCGAAGGTATACCCTTAAGGGTATTTTCAT
685927 AATTTTTC
66 AATTTTTC
685935 TTGAACTTAG
Statistics
Matches: 445, Mismatches: 86, Indels: 20
0.81 0.16 0.04
Matches are distributed among these distances:
466 2 0.00
467 76 0.17
468 52 0.12
469 207 0.47
470 102 0.23
471 6 0.01
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (468 bp):
TTTAAGTCCTTTAGGGGTACCGAGGTACTTTTACGTCGAAGGTATACCCTTAAGGGTATTTTCAT
AATTTTTCAAAATCGAATCCTAAGTTATCACCAGGTCTGCTTTTACACTAAAGGTGGGCATTTAG
GATAGGTTCAGCCCATCTCAAGTTGTTTTAAGTCCTTTAAGGCTGCCAGGGTACTTTTACATCAA
AGGTATACCCCTAGGGGCATTTTCGTAATTTTCTAGAACCAAGTCCTAGGCTATCAACGGGTCCG
CTTTTATGCCGAAGGTGGCCATTTAGGATAAGCTCATCACATCTCTAGTCTTTTTAAGTCCTTTA
GGATTCTCGGGATACTTTCACGTCGAAGGTATAGCCATAGAGGTATTTTTGTAATTTCCTAAAAC
CAACTCCTAGGTCGTCACCAGGTCCACTTTTATGCCAAAGGTGGGCAGTTAGGATAGGTTTCATC
CATTTCAAACCTT
Found at i:694050 original size:89 final size:89
Alignment explanation
Indices: 693899--694062 Score: 274
Period size: 89 Copynumber: 1.8 Consensus size: 89
693889 TATATTTGTA
* * *
693899 ATGAAATGATGATGACATGAGCTTGGATGATGACAAAATAGGTTTAAGCTTGTTTATGCTTGATC
1 ATGAAATGATGATGACATGAGCTTGGATCACGACAAAATAGGTTTAAGCTTGTTCATGCTTGATC
693964 TTGTTGATTTCTTTGTGTTTTATG
66 TTGTTGATTTCTTTGTGTTTTATG
* * *
693988 ATGAAGTGATGATGACATGAGCTTGGATCACGATAGAATAGGTTTAAGCTTGTTCATGCTTGATC
1 ATGAAATGATGATGACATGAGCTTGGATCACGACAAAATAGGTTTAAGCTTGTTCATGCTTGATC
694053 TTGTTGATTT
66 TTGTTGATTT
694063 TTTAAACTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 69 1.00
ACGTcount: A:0.26, C:0.09, G:0.24, T:0.40
Consensus pattern (89 bp):
ATGAAATGATGATGACATGAGCTTGGATCACGACAAAATAGGTTTAAGCTTGTTCATGCTTGATC
TTGTTGATTTCTTTGTGTTTTATG
Found at i:695768 original size:333 final size:333
Alignment explanation
Indices: 695166--695905 Score: 872
Period size: 333 Copynumber: 2.2 Consensus size: 333
695156 TTCAAACATC
* * * * *
695166 AAAATTCATCGAATATTATTATTTATTTCATATTCATTCA-ATTTTCAAAAACTAATTCATTTTC
1 AAAATTCATCAAATATTATTATTTGTTTCATATTAATT-ATATTTTAAAAAATTAATTCATTTTC
* * * * *
695230 ATGAGTGTTTGAATTTTTTCTTAAAATTCCCTTTTTTTTCCAAAGTACGTTATTTTCTACTTCGT
65 ATGAGTTTTTAAATTTTTCCTTAAAATTCCCTTTTTTTT-CAAAATACGGTATTTTCTACTTCGT
* * * * * * *
695295 AAAATTTTTTTAGGGGATTTTTCTTGATTTTTAATTTTTTAAATTCATCAAATATTATTATTTGA
129 AAAATTTTTTGAGAGGATTTTTCTTGATTTTCAATTTTTAAAATTCATCAAACATTATCATATGA
* * * * * * *
695360 TTCATATTAATTCTATTTTCAAAAATTAATTTATTTTCATGAGTTTTTAAATTTTTTTCTTGAAA
194 TTCATATTAATTCTATTTTAAAAAATTAATTCATCTTCATGAGTTATTAAATGTTTTCCCTGAAA
** * * * * *
695425 TTCTCTTTTTTTTAATTACGTTGTTTTTTACT-TCGTAAATTTTTT-TAG-GGAATTTTTCTTGG
259 TTCTCTTTTTTCGAAATACGGTGTTTTCTACTCT-GTAAATTTTTTCGAGAGG-ATTTTTCTCGG
*
695487 TTTTTAAATTTT
322 TTTTCAAATTTT
* * *
695499 AAAATTCATCAAATATTATTATTTGTTTCATATTAATTATTTTTTTAAAAATTAATTTATTTTCA
1 AAAATTCATCAAATATTATTATTTGTTTCATATTAATTATATTTTAAAAAATTAATTCATTTTCA
* * * *
695564 TAAGTTTTTAAAGTTTTTCCTTAAACTTTCCTTTTTTTGT-AAAATACGGTGTTTTCTACTTCGT
66 TGAGTTTTTAAA-TTTTTCCTTAAAATTCCCTTTTTTT-TCAAAATACGGTATTTTCTACTTCGT
*
695628 -AAATTTTTTGGAGAGGATTTTTGTT-AGTTTTCAATTTTTAAAATTCATCAAACATTATCATAT
129 AAAATTTTTT-GAGAGGATTTTTCTTGA-TTTTCAATTTTTAAAATTCATCAAACATTATCATAT
695691 -ATTTCATATTAATTC-AGTTTTAAAAAATTAATTCATCTTCATGAGTTATT-AATGTTTTCCCT
192 GA-TTCATATTAATTCTA-TTTTAAAAAATTAATTCATCTTCATGAGTTATTAAATGTTTTCCCT
* *
695753 GAAATTCTCCTTTTTTCGAAATATGGTGTTTTCTACTCTGTAAATTTTTTCGAGAGGGTTTTTCT
255 GAAATTCT-CTTTTTTCGAAATACGGTGTTTTCTACTCTGTAAATTTTTTCGAGAGGATTTTTCT
*
695818 CGGTTTTCAATTTTT
319 CGGTTTTCAAATTTT
* * * *
695833 AAAATTCATCAAACATCATCATTTGATTCATATTAATT-TAGTTTTAAAAAATTAATTCATTTTC
1 AAAATTCATCAAATATTATTATTTGTTTCATATTAATTATA-TTTTAAAAAATTAATTCATTTTC
695897 ATGAGTTTT
65 ATGAGTTTT
695906 GGAGTTTTTT
Statistics
Matches: 345, Mismatches: 50, Indels: 23
0.83 0.12 0.06
Matches are distributed among these distances:
332 30 0.09
333 205 0.59
334 107 0.31
335 3 0.01
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.52
Consensus pattern (333 bp):
AAAATTCATCAAATATTATTATTTGTTTCATATTAATTATATTTTAAAAAATTAATTCATTTTCA
TGAGTTTTTAAATTTTTCCTTAAAATTCCCTTTTTTTTCAAAATACGGTATTTTCTACTTCGTAA
AATTTTTTGAGAGGATTTTTCTTGATTTTCAATTTTTAAAATTCATCAAACATTATCATATGATT
CATATTAATTCTATTTTAAAAAATTAATTCATCTTCATGAGTTATTAAATGTTTTCCCTGAAATT
CTCTTTTTTCGAAATACGGTGTTTTCTACTCTGTAAATTTTTTCGAGAGGATTTTTCTCGGTTTT
CAAATTTT
Found at i:695845 original size:166 final size:165
Alignment explanation
Indices: 695166--696019 Score: 820
Period size: 168 Copynumber: 5.1 Consensus size: 165
695156 TTCAAACATC
* * * * *
695166 AAAATTCATCGAATATTATTATTTATTTCATATTCATTCAATTTTCAAAAACTAATTCATTTTCA
1 AAAATTCATCAAATATTATTATTTATTTCATATTAATTCAGTTTTAAAAAATTAATTCATTTTCA
* * * * * * *
695231 TGAGTGTTTGAAT-TTTTTCTTAAAATTC-CCTTTTTTTTCCAAAGTACGTTATTTTCTACTTCG
66 TGAGTTTTTAAATGTTTTTCCTGAAATTCTCC--TTTTTTCGAAA-TACGGTGTTTTCTACTTCG
* * *
695294 TAAAATTTTTTTAGGGGATTTTTCTTGATTTTTAATTTTT
128 T-AAATTTTTTGA-GGGATTTTTCTTGGTTTTCAATTTTT
* * *
695334 TAAATTCATCAAATATTATTATTTGA-TTCATATTAATTCTA-TTTTCAAAAATTAATTTATTTT
1 AAAATTCATCAAATATTATTATTT-ATTTCATATTAATTC-AGTTTTAAAAAATTAATTCATTTT
* * ** * * *
695397 CATGAGTTTTTAAATTTTTTTCTTGAAATTCT-CTTTTTTTTAATTACGTTGTTTTTTACTTCGT
64 CATGAGTTTTTAAATGTTTTTCCTGAAATTCTCCTTTTTTCGAAATACGGTGTTTTCTACTTCGT
* * *
695461 AAATTTTTTTAGGGAATTTTTCTTGGTTTTTAAATTTT
129 AAATTTTTTGAGGG-ATTTTTCTTGGTTTTCAATTTTT
* * * *
695499 AAAATTCATCAAATATTATTATTTGTTTCATATTAATT-ATTTTTTTAAAAATTAATTTATTTTC
1 AAAATTCATCAAATATTATTATTTATTTCATATTAATTCA-GTTTTAAAAAATTAATTCATTTTC
* * *
695563 ATAAGTTTTTAAA-GTTTTTCCTTAAACTT-TCCTTTTTTTGTAAAATACGGTGTTTTCTACTTC
65 ATGAGTTTTTAAATGTTTTTCCTGAAA-TTCTCCTTTTTTCG--AAATACGGTGTTTTCTACTTC
* *
695626 GTAAATTTTTTGGAGAGGATTTTTGTTAGTTTTCAATTTTT
127 GTAAATTTTTT-GAG-GGATTTTTCTTGGTTTTCAATTTTT
* * * *
695667 AAAATTCATCAAACATTATCATATATTTCATATTAATTCAGTTTTAAAAAATTAATTCATCTTCA
1 AAAATTCATCAAATATTATTATTTATTTCATATTAATTCAGTTTTAAAAAATTAATTCATTTTCA
* * *
695732 TGAGTTATT-AATGTTTTCCCTGAAATTCTCCTTTTTTCGAAATATGGTGTTTTCTAC-TCTGTA
66 TGAGTTTTTAAATGTTTTTCCTGAAATTCTCCTTTTTTCGAAATACGGTGTTTTCTACTTC-GTA
* *
695795 AATTTTTTCGAGAGGGTTTTTCTCGGTTTTCAATTTTT
130 AATTTTTT-GAG-GGATTTTTCTTGGTTTTCAATTTTT
* * * *
695833 AAAATTCATCAAACATCATCATTTGA-TTCATATTAATTTAGTTTTAAAAAATTAATTCATTTTC
1 AAAATTCATCAAATATTATTATTT-ATTTCATATTAATTCAGTTTTAAAAAATTAATTCATTTTC
** * * ** * * * *
695897 ATGAGTTTTGGAGTTTTTTTGTTGAAATTCT-C-TTTTTC-AAGAAACTGAGTTTTCTTCTTCGT
65 ATGAGTTTTTAAATGTTTTTCCTGAAATTCTCCTTTTTTCGAA-ATACGGTGTTTTCTACTTCGT
* **
695959 AAATTTTTTCGGGGGATTGTTT-TTGGTTTAAAATTTTT
129 AAATTTTTT-GAGGGATT-TTTCTTGGTTTTCAATTTTT
* * *
695997 AAAACTCATCTAATATTGTTATT
1 AAAATTCATCAAATATTATTATT
696020 AAACTTTCAT
Statistics
Matches: 586, Mismatches: 77, Indels: 50
0.82 0.11 0.07
Matches are distributed among these distances:
163 1 0.00
164 50 0.09
165 147 0.25
166 140 0.24
167 57 0.10
168 171 0.29
169 20 0.03
ACGTcount: A:0.28, C:0.10, G:0.09, T:0.52
Consensus pattern (165 bp):
AAAATTCATCAAATATTATTATTTATTTCATATTAATTCAGTTTTAAAAAATTAATTCATTTTCA
TGAGTTTTTAAATGTTTTTCCTGAAATTCTCCTTTTTTCGAAATACGGTGTTTTCTACTTCGTAA
ATTTTTTGAGGGATTTTTCTTGGTTTTCAATTTTT
Found at i:696234 original size:14 final size:14
Alignment explanation
Indices: 696215--696248 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
696205 AAATTTTATC
696215 TTAATTTTTA-AATT
1 TTAATTTTTACAA-T
696229 TTAATTTTTACAAT
1 TTAATTTTTACAAT
696243 TTAATT
1 TTAATT
696249 CTATTGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.89
15 2 0.11
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (14 bp):
TTAATTTTTACAAT
Found at i:698602 original size:311 final size:310
Alignment explanation
Indices: 698023--698661 Score: 770
Period size: 311 Copynumber: 2.1 Consensus size: 310
698013 TCATATCCAT
* * * *
698023 ATCTTTTTAAAGTCCTTT-AGGGATACTGAGTACTTTTACGTTGAAGGTGTCTCCTAGGGGCAAT
1 ATCTTTTT-AAGTCCTTTAAGGGATACTAAGTACTTTCACGTCGAAGGTATCTCCTAGGGGCAAT
* * *
698087 TTCATAATTTTTTAGAATCGAGTCCTAGGTTACCACCGGTCCTACTTCTATGCCAAAGGTAGATA
65 TTCATAATTTTTCAAAATCGAGTCCTAGGTTACCACCGGTCCTACTTCTATGCCAAAAGTAGATA
* * * * *
698152 TTTAGGATAGGTTCCTCTTTTCTATTACCCTCTTTAAGTCTTTTAGGGGTATCGAGTACTTTCAC
130 TTTAGGATAGGTTCCCCATTTCTATTACCCTCTTTAAGTCCTTGAGGGGTACCGAGTACTTTCAC
* * * * * *
698217 TTCGAAGGTATTCCTTAGGGGTATTTTCATAATTTTTCAAAATCGAGTCATAGGTTATCATCGGG
195 GTCGAAGGTATCCCTAAGGGGTATTTTCATAATTTTTCAAAACCGAGTCATAGGTTATAATCGGA
* *
698282 TCCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCTTTTATA
260 TCCGCTTTTATACCGAAGGTGGGTATTTAGGATAGGTTCATCCCATTTATA
* * *
698333 ATCCTTTTTAAGTCCTTTAATGG-TACTAAGATACTTTCACGTCGAAGGTATCTCTTATGGGCAA
1 AT-CTTTTTAAGTCCTTTAAGGGATACTAAG-TACTTTCACGTCGAAGGTATCTCCTAGGGGCAA
** * ** * * * *
698397 TTTTGTAATTTTTCAAAATCGA-TCCTAGGTTATCATTGGGT-CTGCTTTTATGCCAAAAGTGGG
64 TTTCATAATTTTTCAAAATCGAGTCCTAGGTTACCA-CCGGTCCTACTTCTATGCCAAAAGTAGA
* * *
698460 TATTTAGGATTA-GTTCACCCATTT-TA-TAGTCCTTTTTAAGTCCTTGAGGGGTACCGAGATAT
128 TATTTAGGA-TAGGTTC-CCCATTTCTATTA-CCCTCTTTAAGTCCTTGAGGGGTACCGAG-TAC
* * *
698522 TTTCACGTCGAAGGTATCCCTAAGGGGTATTTTCATAATTTTTTAGAACCGAGTCTTAGGTTATA
189 TTTCACGTCGAAGGTATCCCTAAGGGGTATTTTCATAATTTTTCAAAACCGAGTCATAGGTTATA
* * *
698587 ATCGGATCTGCTTTTATACTGAATGTGGGTATTTAGGATAGGTTCATCCCATTTATA
254 ATCGGATCCGCTTTTATACCGAAGGTGGGTATTTAGGATAGGTTCATCCCATTTATA
* *
698644 GTCTTTTTAAGTCTTTTA
1 ATCTTTTTAAGTCCTTTA
698662 GGGGTATCGG
Statistics
Matches: 278, Mismatches: 43, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
309 2 0.01
310 100 0.36
311 176 0.63
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.40
Consensus pattern (310 bp):
ATCTTTTTAAGTCCTTTAAGGGATACTAAGTACTTTCACGTCGAAGGTATCTCCTAGGGGCAATT
TCATAATTTTTCAAAATCGAGTCCTAGGTTACCACCGGTCCTACTTCTATGCCAAAAGTAGATAT
TTAGGATAGGTTCCCCATTTCTATTACCCTCTTTAAGTCCTTGAGGGGTACCGAGTACTTTCACG
TCGAAGGTATCCCTAAGGGGTATTTTCATAATTTTTCAAAACCGAGTCATAGGTTATAATCGGAT
CCGCTTTTATACCGAAGGTGGGTATTTAGGATAGGTTCATCCCATTTATA
Found at i:698645 original size:156 final size:156
Alignment explanation
Indices: 698025--698719 Score: 655
Period size: 155 Copynumber: 4.5 Consensus size: 156
698015 ATATCCATAT
* * * * * * *
698025 CTTTTTAAAGTCCTTTAGGGATACTGAG-TACTTTTACGTTGAAGGTGTCTCCT-AGGGGCAATT
1 CTTTTT-AAGTCCTTTAGGGGTACCGAGATACTTTCACGTCGAAGGTATC-CCTAAGGGGTATTT
* * * * * * * * *
698088 TCATAATTTTTTAGAATCGAGTCCTAGGTTACCA-CCGGTCCTACTTCTATGCC-AAAGGTAGAT
64 TCATAATTTTTCAAAATCGAGTCATAGGTTATCATCGGGT-CTGCTTTTATGCCGAAA-GTGGGT
* ** *
698151 ATTTAGGATAGGTTCCT-CTTTTCTATTA-CC
127 ATTTAGGATAGGTTCATCCCATT-TA-TAGTC
* * * * * *
698181 CTCTTTAAGTCTTTTAGGGGTATCGAG-TACTTTCACTTCGAAGGTATTCCTTAGGGGTATTTTC
1 CTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTCACGTCGAAGGTATCCCTAAGGGGTATTTTC
* *
698245 ATAATTTTTCAAAATCGAGTCATAGGTTATCATCGGGTCCGCTTTTATGCCGAAGGTGGGTATTT
66 ATAATTTTTCAAAATCGAGTCATAGGTTATCATCGGGTCTGCTTTTATGCCGAAAGTGGGTATTT
* *
698310 AGGATAGGTTCATCCCTTTTATAATC
131 AGGATAGGTTCATCCCATTTATAGTC
** ** * * **
698336 CTTTTTAAGTCCTTTAATGGTACTAAGATACTTTCACGTCGAAGGTATCTCTTATGGGCAATTTT
1 CTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTCACGTCGAAGGTATC-CCTAAGGGGTATTTT
* * * *
698401 -GTAATTTTTCAAAATCGA-TCCTAGGTTATCATTGGGTCTGCTTTTATGCCAAAAGTGGGTATT
65 CATAATTTTTCAAAATCGAGTCATAGGTTATCATCGGGTCTGCTTTTATGCCGAAAGTGGGTATT
698464 TAGGATTA-GTTCA-CCCATTTTATAGTC
130 TAGGA-TAGGTTCATCCCA-TTTATAGTC
* *
698491 CTTTTTAAGTCCTTGAGGGGTACCGAGATATTTTCACGTCGAAGGTATCCCTAAGGGGTATTTTC
1 CTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTCACGTCGAAGGTATCCCTAAGGGGTATTTTC
* * * * * * * * *
698556 ATAATTTTTTAGAACCGAGTCTTAGGTTATAATCGGATCTGCTTTTATACTGAATGTGGGTATTT
66 ATAATTTTTCAAAATCGAGTCATAGGTTATCATCGGGTCTGCTTTTATGCCGAAAGTGGGTATTT
698621 AGGATAGGTTCATCCCATTTATAGT-
131 AGGATAGGTTCATCCCATTTATAGTC
* * * * * *
698646 CTTTTTAAGTCTTTTAGGGGTATCG-GGTAC-TTCTATGTTGAAGGTAT-CCTATAGGGGCATTT
1 CTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTC-ACGTCGAAGGTATCCCTA-AGGGGTATTT
698708 TCATAATTTTTC
64 TCATAATTTTTC
698720 TTAAACTTAG
Statistics
Matches: 445, Mismatches: 79, Indels: 32
0.80 0.14 0.06
Matches are distributed among these distances:
153 7 0.02
154 53 0.12
155 263 0.59
156 108 0.24
157 14 0.03
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (156 bp):
CTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTCACGTCGAAGGTATCCCTAAGGGGTATTTTC
ATAATTTTTCAAAATCGAGTCATAGGTTATCATCGGGTCTGCTTTTATGCCGAAAGTGGGTATTT
AGGATAGGTTCATCCCATTTATAGTC
Found at i:704121 original size:20 final size:19
Alignment explanation
Indices: 704068--704125 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
704058 GATACACACC
704068 TTGA-TATATCGATACATA
1 TTGATTATATCGATACATA
*
704086 TTGCTTAGTATCGATACATA
1 TTGATTA-TATCGATACATA
*
704106 TTGAATTATATTGATACATA
1 TTG-ATTATATCGATACATA
704126 AAACTGGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 3 0.09
19 2 0.06
20 26 0.76
21 3 0.09
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.41
Consensus pattern (19 bp):
TTGATTATATCGATACATA
Found at i:704196 original size:20 final size:20
Alignment explanation
Indices: 704171--704217 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
704161 ACATTGTATT
704171 GATACATGCTGAATTATATC
1 GATACATGCTGAATTATATC
* * *
704191 GATACATGGTGAATTGTATT
1 GATACATGCTGAATTATATC
704211 GATACAT
1 GATACAT
704218 TGAGCCCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (20 bp):
GATACATGCTGAATTATATC
Found at i:704727 original size:31 final size:31
Alignment explanation
Indices: 704684--704763 Score: 133
Period size: 31 Copynumber: 2.6 Consensus size: 31
704674 AAGATAAGGT
704684 GGGAGGTTCTATCTTAGCTTGTGAAAAGATA
1 GGGAGGTTCTATCTTAGCTTGTGAAAAGATA
*
704715 GGGAAGTTCTATCTTAGCTTGTGAAAAGATA
1 GGGAGGTTCTATCTTAGCTTGTGAAAAGATA
* *
704746 AGGAGGTTCTATTTTAGC
1 GGGAGGTTCTATCTTAGC
704764 CTTCAAAAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.29, C:0.10, G:0.28, T:0.34
Consensus pattern (31 bp):
GGGAGGTTCTATCTTAGCTTGTGAAAAGATA
Found at i:706348 original size:21 final size:21
Alignment explanation
Indices: 706322--706361 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
706312 AATACTTTTT
*
706322 AAAAGAAAGTAAATGAGTTGG
1 AAAAGAAAATAAATGAGTTGG
*
706343 AAAAGAAAATAAGTGAGTT
1 AAAAGAAAATAAATGAGTT
706362 ACAAAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.25, T:0.20
Consensus pattern (21 bp):
AAAAGAAAATAAATGAGTTGG
Found at i:706367 original size:21 final size:21
Alignment explanation
Indices: 706322--706374 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
706312 AATACTTTTT
* **
706322 AAAAGAAAGTAAATGAGTTGG
1 AAAAGAAAATAAATGAGTTAC
*
706343 AAAAGAAAATAAGTGAGTTAC
1 AAAAGAAAATAAATGAGTTAC
706364 AAAATGAAAAT
1 AAAA-GAAAAT
706375 GATTAATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 21 0.78
22 6 0.22
ACGTcount: A:0.58, C:0.02, G:0.21, T:0.19
Consensus pattern (21 bp):
AAAAGAAAATAAATGAGTTAC
Found at i:709699 original size:13 final size:13
Alignment explanation
Indices: 709681--709720 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
709671 AAAAGGCACT
709681 TTGTATCGATACA
1 TTGTATCGATACA
*
709694 TTGTATCGACACA
1 TTGTATCGATACA
*
709707 TTCTATCGATACA
1 TTGTATCGATACA
709720 T
1 T
709721 AATGAATTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:709735 original size:20 final size:20
Alignment explanation
Indices: 709710--709760 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
709700 CGACACATTC
709710 TATCGATACATAATGAATTG
1 TATCGATACATAATGAATTG
**
709730 TATCGATACATGGTGAATTG
1 TATCGATACATAATGAATTG
*
709750 TATCAATACAT
1 TATCGATACAT
709761 TAAGCCCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (20 bp):
TATCGATACATAATGAATTG
Found at i:710265 original size:31 final size:32
Alignment explanation
Indices: 710193--710287 Score: 113
Period size: 36 Copynumber: 2.9 Consensus size: 32
710183 AAGTAATTGA
*
710193 AAGGTTCTATCTTAGCCTTTGAACAACATAGGGAG
1 AAGGTTCTATCTTAGCC-TTGAA-AAGATA-GGAG
710228 AGAGGTTCTATCTTAGCCTGTGAAAAGATA-G-G
1 A-AGGTTCTATCTTAGCCT-TGAAAAGATAGGAG
*
710260 AAGGTTCTATCTTAGCCTTTAAAAGATA
1 AAGGTTCTATCTTAGCCTTGAAAAGATA
710288 ATATTGTAAG
Statistics
Matches: 56, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
30 9 0.16
31 17 0.30
32 2 0.04
33 1 0.02
35 7 0.12
36 20 0.36
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.31
Consensus pattern (32 bp):
AAGGTTCTATCTTAGCCTTGAAAAGATAGGAG
Found at i:711582 original size:14 final size:16
Alignment explanation
Indices: 711534--711594 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
711524 TGGATTTCAT
* *
711534 AAAAAAAGTTAAAAAAA
1 AAAAAAAG-GAAAGAAA
*
711551 AAAAAAAGGGAAGAAA
1 AAAAAAAGGAAAGAAA
711567 AAAAAAA-GAAAGAAA
1 AAAAAAAGGAAAGAAA
*
711582 AAAGGAAAGGAAA
1 AAA-AAAAGGAAA
711595 AATGGAGGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
15 10 0.27
16 15 0.41
17 12 0.32
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (16 bp):
AAAAAAAGGAAAGAAA
Found at i:711582 original size:27 final size:25
Alignment explanation
Indices: 711544--711596 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 25
711534 AAAAAAAGTT
*
711544 AAAAAAAAAAAAAAGGGAAGAAAAA
1 AAAAAAAAAAAAAAGGAAAGAAAAA
*
711569 AAAAAGAAAGAAAAAAGGAAAGGAAAA
1 AAAAA-AAA-AAAAAAGGAAAGAAAAA
711596 A
1 A
711597 TGGAGGATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.21
26 3 0.12
27 16 0.67
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (25 bp):
AAAAAAAAAAAAAAGGAAAGAAAAA
Found at i:712593 original size:40 final size:40
Alignment explanation
Indices: 712517--712593 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
712507 ACAAGAAGTT
** *
712517 GTCCAGCAAGTCCAGGTAATCTTAATATGCTGTTACTGTC
1 GTCCAGCAAGTCCAGGTAATCTTAATAAACTATTACTGTC
*
712557 GTCCAGCAAGTCTAGGTAA-CTTTAATAAACTATTACT
1 GTCCAGCAAGTCCAGGTAATC-TTAATAAACTATTACT
712594 ATTTTTCTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.03
40 31 0.97
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (40 bp):
GTCCAGCAAGTCCAGGTAATCTTAATAAACTATTACTGTC
Found at i:713595 original size:48 final size:48
Alignment explanation
Indices: 713536--713632 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
713526 CCTAATCAAC
*
713536 ATCTAAATAGATTTCAATGTTCATGTTAGCTTTCATCTTAAAGAACAA
1 ATCTAAATAGATTTCAATGTTCATGTTAGCTCTCATCTTAAAGAACAA
*
713584 ATCTAAGTAGATTTCAATGTTCATGTTAGCTCTCATCTTAAAGAACAA
1 ATCTAAATAGATTTCAATGTTCATGTTAGCTCTCATCTTAAAGAACAA
713632 A
1 A
713633 CCTTTTCCTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (48 bp):
ATCTAAATAGATTTCAATGTTCATGTTAGCTCTCATCTTAAAGAACAA
Found at i:715716 original size:23 final size:20
Alignment explanation
Indices: 715674--715724 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 20
715664 AGATTGAAGC
715674 AAAAAAAA-AAAAAAACAAG
1 AAAAAAAATAAAAAAACAAG
715693 AAAAAAAATACAAAAACACTAAG
1 AAAAAAAATA-AAAAA-AC-AAG
*
715716 AGAAAAAAT
1 AAAAAAAAT
715725 CAATTTTTCG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 8 0.30
20 1 0.04
21 5 0.19
22 2 0.07
23 11 0.41
ACGTcount: A:0.80, C:0.08, G:0.06, T:0.06
Consensus pattern (20 bp):
AAAAAAAATAAAAAAACAAG
Found at i:717571 original size:154 final size:153
Alignment explanation
Indices: 717193--717562 Score: 422
Period size: 154 Copynumber: 2.4 Consensus size: 153
717183 TAGGGGCATC
* * * * * * *
717193 TTTGTAATTTTTCAAAACTAAGTCCTAGGTTGTTGCTAGGTCTGCTTTCATGCCGAAGGTAGGCA
1 TTTGTAATTTTTCAAAACCAAGTCTTAGGTTGTTACTGGGTCTGCTTTTATGCTGAAGGTA-CCA
717258 TTTAGGATAGGTTCATCCCTTTTAAAATCCTTGTTAAGTCCTTTAAGGGTATCAAGTACTTTTAC
65 TTTAGGATAGGTTCATCCCTTTTAAAATCCTTGTTAAGTCCTTTAAGGGTATCAAGTACTTTTAC
*
717323 ATCGAAGGTATCCCTTAGGGTATT
130 ATCGAAGGTATCCCCTAGGGTATT
** * * * * * * * * * * *
717347 TTCAT-AGTTTTCTAGAATCGAGTCTTAGGTTGTCACCGGGTCCGTTTTTATG-TCAAATGTGGC
1 TTTGTAATTTTTC-AAAACCAAGTCTTAGGTTGTTACTGGGTCTGCTTTTATGCT-GAAGGT-AC
* * *
717410 CTTTTAGGATAGGTTCATCCCTTTTAAAATCCTTTTTAAGTCCTTTAGGGGTAT-AAGGTACTTT
63 CATTTAGGATAGGTTCATCCCTTTTAAAATCCTTGTTAAGTCCTTTAAGGGTATCAA-GTACTTT
*
717474 TACGTCGAAGGTATCCCCTAGGAGTATT
127 TACATCGAAGGTATCCCCTAGG-GTATT
* *
717502 TTTGTAATTTTTCAAAACCAACTCTTAGGTTGTTACTGGGTTTGCTTTTATGCTGAAGGTA
1 TTTGTAATTTTTCAAAACCAAGTCTTAGGTTGTTACTGGGTCTGCTTTTATGCTGAAGGTA
717563 TAAGTTAGGG
Statistics
Matches: 169, Mismatches: 40, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
153 8 0.05
154 112 0.66
155 42 0.25
156 7 0.04
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (153 bp):
TTTGTAATTTTTCAAAACCAAGTCTTAGGTTGTTACTGGGTCTGCTTTTATGCTGAAGGTACCAT
TTAGGATAGGTTCATCCCTTTTAAAATCCTTGTTAAGTCCTTTAAGGGTATCAAGTACTTTTACA
TCGAAGGTATCCCCTAGGGTATT
Found at i:720990 original size:20 final size:19
Alignment explanation
Indices: 720967--721015 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
720957 CACACCCAGA
*
720967 TGTATCGATACATATTACTT
1 TGTATCGATACATATT-CAT
* *
720987 TGTATCAATACATGTTCAT
1 TGTATCGATACATATTCAT
721006 TGTATCGATA
1 TGTATCGATA
721016 TACCATAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (19 bp):
TGTATCGATACATATTCAT
Found at i:721564 original size:35 final size:33
Alignment explanation
Indices: 721525--721691 Score: 137
Period size: 31 Copynumber: 4.9 Consensus size: 33
721515 GAAGTGATTG
* * *
721525 AGAGGTTCTATTTTAGCTTTTGAAAAAGATAAGAA
1 AGAGGTTCTATCTTAGCCTGTG-AAAAGATAAG-A
721560 AGAGGTTCTATCTTAGCCTGTGAAAAGAT-AG-
1 AGAGGTTCTATCTTAGCCTGTGAAAAGATAAGA
* *
721591 GGAGGTTTTATCTTAGCCTAGCCTTTGAAAAAGATAAGGA
1 AGAGGTTCTATCTTAGCCT-G----TG-AAAAGATAA-GA
* *
721631 AGAGGTTTTATCTTAGCTTGTGAAAAGAT-AG-
1 AGAGGTTCTATCTTAGCCTGTGAAAAGATAAGA
*
721662 GGAGGTTCTATCTTAG-CTCGTGAAAAGATA
1 AGAGGTTCTATCTTAGCCT-GTGAAAAGATA
721692 GGGTTGTAAG
Statistics
Matches: 111, Mismatches: 10, Indels: 25
0.76 0.07 0.17
Matches are distributed among these distances:
30 1 0.01
31 41 0.37
32 2 0.02
33 3 0.03
34 14 0.13
35 21 0.19
36 2 0.02
37 7 0.06
38 1 0.01
39 2 0.02
40 17 0.15
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.32
Consensus pattern (33 bp):
AGAGGTTCTATCTTAGCCTGTGAAAAGATAAGA
Found at i:721603 original size:31 final size:32
Alignment explanation
Indices: 721561--721694 Score: 139
Period size: 31 Copynumber: 4.0 Consensus size: 32
721551 AGATAAGAAA
721561 GAGGTTCTATCTTAGCCT-GTGAAAAGATAGG
1 GAGGTTCTATCTTAGCCTAGTGAAAAGATAGG
*
721592 GAGGTTTTATCTTAGCCTAGCCTTTGAAAAAGATAAGG
1 GAGGTTCTATCTTAGCCTAG----TG-AAAAGAT-AGG
* *
721630 AAGAGGTTTTATCTTAG-CTTGTGAAAAGATAGG
1 --GAGGTTCTATCTTAGCCTAGTGAAAAGATAGG
*
721663 GAGGTTCTATCTTAG-CTCGTGAAAAGATAGG
1 GAGGTTCTATCTTAGCCTAGTGAAAAGATAGG
721694 G
1 G
721695 TTGTAAGGTT
Statistics
Matches: 90, Mismatches: 4, Indels: 18
0.80 0.04 0.16
Matches are distributed among these distances:
31 47 0.52
32 1 0.01
33 3 0.03
34 7 0.08
35 2 0.02
36 2 0.02
37 7 0.08
38 3 0.03
39 3 0.03
40 15 0.17
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.31
Consensus pattern (32 bp):
GAGGTTCTATCTTAGCCTAGTGAAAAGATAGG
Found at i:721637 original size:71 final size:71
Alignment explanation
Indices: 721538--721678 Score: 237
Period size: 71 Copynumber: 2.0 Consensus size: 71
721528 GGTTCTATTT
* *
721538 TAGCTTTTGAAAAAGATAAGAAAGAGGTTCTATCTTAGCCTGTGAAAAGATAGGGAGGTTTTATC
1 TAGCCTTTGAAAAAGATAAGAAAGAGGTTCTATCTTAGCCTGTGAAAAGATAGGGAGGTTCTATC
721603 TTAGCC
66 TTAGCC
* * *
721609 TAGCCTTTGAAAAAGATAAGGAAGAGGTTTTATCTTAGCTTGTGAAAAGATAGGGAGGTTCTATC
1 TAGCCTTTGAAAAAGATAAGAAAGAGGTTCTATCTTAGCCTGTGAAAAGATAGGGAGGTTCTATC
721674 TTAGC
66 TTAGC
721679 TCGTGAAAAG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (71 bp):
TAGCCTTTGAAAAAGATAAGAAAGAGGTTCTATCTTAGCCTGTGAAAAGATAGGGAGGTTCTATC
TTAGCC
Found at i:723341 original size:21 final size:22
Alignment explanation
Indices: 723317--723366 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
723307 GAATTAGACG
*
723317 AGAAAATAAATGAGTTGGAA-A
1 AGAAAATAAATGAGTTGCAAGA
*
723338 AGAAAAGAAATGAGTTGCAAGA
1 AGAAAATAAATGAGTTGCAAGA
723360 AGAAAAT
1 AGAAAAT
723367 GATGTATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.58, C:0.02, G:0.24, T:0.16
Consensus pattern (22 bp):
AGAAAATAAATGAGTTGCAAGA
Found at i:724214 original size:19 final size:20
Alignment explanation
Indices: 724190--724240 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
724180 TATTTTAGTG
*
724190 TGTATCGATACAATG-AACA
1 TGTATCGATACAAAGCAACA
*
724209 TGTATCGATACAAAGCAATA
1 TGTATCGATACAAAGCAACA
724229 TGTATCGATACA
1 TGTATCGATACA
724241 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (20 bp):
TGTATCGATACAAAGCAACA
Found at i:725513 original size:20 final size:18
Alignment explanation
Indices: 725488--725572 Score: 76
Period size: 20 Copynumber: 4.9 Consensus size: 18
725478 CTACCAAGGA
725488 AATGTATCGATACATTATT
1 AATGTATCGATACATTA-T
725507 CAATGTATCGATAC---AT
1 -AATGTATCGATACATTAT
*
725523 --TGTATTGATACATTATT
1 AATGTATCGATACATTA-T
725540 CAATGTATCGATACA--AT
1 -AATGTATCGATACATTAT
725557 AATGTATCGATACATT
1 AATGTATCGATACATT
725573 GTATCGATAC
Statistics
Matches: 54, Mismatches: 2, Indels: 20
0.71 0.03 0.26
Matches are distributed among these distances:
13 10 0.19
16 16 0.30
17 3 0.06
18 1 0.02
20 24 0.44
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (18 bp):
AATGTATCGATACATTAT
Found at i:725532 original size:13 final size:13
Alignment explanation
Indices: 725510--725584 Score: 63
Period size: 13 Copynumber: 6.0 Consensus size: 13
725500 CATTATTCAA
725510 TGTATCGATACAT
1 TGTATCGATACAT
*
725523 TGTATTGATACA-
1 TGTATCGATACAT
*
725535 T-TAT---T-CAA
1 TGTATCGATACAT
725543 TGTATCGATACAAT
1 TGTATCGATAC-AT
725557 AATGTATCGATACAT
1 --TGTATCGATACAT
725572 TGTATCGATACAT
1 TGTATCGATACAT
725585 CGATCTTTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 18
0.72 0.03 0.25
Matches are distributed among these distances:
7 2 0.04
8 2 0.04
9 3 0.06
11 3 0.06
12 2 0.04
13 25 0.49
14 1 0.02
15 2 0.04
16 11 0.22
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:725533 original size:33 final size:35
Alignment explanation
Indices: 725489--725572 Score: 136
Period size: 33 Copynumber: 2.4 Consensus size: 35
725479 TACCAAGGAA
725489 ATGTATCGATACATTATTCAATGTATCGATAC-AT
1 ATGTATCGATACATTATTCAATGTATCGATACAAT
*
725523 -TGTATTGATACATTATTCAATGTATCGATACAAT
1 ATGTATCGATACATTATTCAATGTATCGATACAAT
725557 AATGTATCGATACATT
1 -ATGTATCGATACATT
725573 GTATCGATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
33 30 0.67
34 2 0.04
36 13 0.29
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (35 bp):
ATGTATCGATACATTATTCAATGTATCGATACAAT
Done.