Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008375.1 Hibiscus syriacus cultivar Beakdansim tig00111132_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1210889
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 7
Found at i:1024812 original size:14 final size:14
Alignment explanation
Indices: 1024793--1024828 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1024783 ATTGTTTAAT
1024793 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
1024807 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
1024821 TGATTTGT
1 TGATTTGT
1024829 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:1024976 original size:14 final size:14
Alignment explanation
Indices: 1024957--1025009 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 14
1024947 AATGAAAATT
1024957 GCAACGAGAGAATC
1 GCAACGAGAGAATC
*
1024971 GCAACGCGAAATGAAAATC
1 GCAA--CG--A-GAGAATC
1024990 GCAACGAGAGAATC
1 GCAACGAGAGAATC
1025004 GCAACG
1 GCAACG
1025010 CGAAATTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 16 0.50
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.31
ACGTcount: A:0.43, C:0.23, G:0.26, T:0.08
Consensus pattern (14 bp):
GCAACGAGAGAATC
Found at i:1024985 original size:33 final size:33
Alignment explanation
Indices: 1024943--1025024 Score: 137
Period size: 33 Copynumber: 2.5 Consensus size: 33
1024933 CTATCGTAAT
*
1024943 GCGAAATGAAAATTGCAACGAGAGAATCGCAAC
1 GCGAAATGAAAATCGCAACGAGAGAATCGCAAC
1024976 GCGAAATGAAAATCGCAACGAGAGAATCGCAAC
1 GCGAAATGAAAATCGCAACGAGAGAATCGCAAC
* *
1025009 GCGAAATTAAATTCGC
1 GCGAAATGAAAATCGC
1025025 GTTGCGATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (33 bp):
GCGAAATGAAAATCGCAACGAGAGAATCGCAAC
Found at i:1025042 original size:19 final size:19
Alignment explanation
Indices: 1025020--1025170 Score: 98
Period size: 19 Copynumber: 8.7 Consensus size: 19
1025010 CGAAATTAAA
*
1025020 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
1025039 TTCGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
1025055 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
1025072 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
* *
1025086 TTAGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
1025105 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
1025121 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
** *
1025138 TTCGCATTGCGATAGTAAT
1 TTCGCATTGCGATTTTCAT
1025157 TTCCGCATTGCGAT
1 TT-CGCATTGCGAT
1025171 AGACATTAAG
Statistics
Matches: 100, Mismatches: 16, Indels: 31
0.68 0.11 0.21
Matches are distributed among these distances:
14 23 0.23
16 13 0.13
17 13 0.13
19 40 0.40
20 11 0.11
ACGTcount: A:0.16, C:0.23, G:0.20, T:0.42
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:1025066 original size:33 final size:32
Alignment explanation
Indices: 1025024--1025150 Score: 193
Period size: 33 Copynumber: 3.9 Consensus size: 32
1025014 ATTAAATTCG
1025024 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
1025057 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
1025090 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
1025123 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
1025151 AGTAATTTCC
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
31 3 0.03
33 80 0.93
35 3 0.03
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:1025102 original size:66 final size:66
Alignment explanation
Indices: 1025017--1025149 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
1025007 ACGCGAAATT
*
1025017 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1025082 G
66 G
*
1025083 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1025148 G
66 G
1025149 A
1 A
1025150 TAGTAATTTC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.41
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:1027670 original size:24 final size:24
Alignment explanation
Indices: 1027636--1027689 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1027626 CTGAAACATC
*
1027636 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
1027660 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
1027684 ATCAAA
1 ATCAAA
1027690 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1028483 original size:20 final size:21
Alignment explanation
Indices: 1028460--1028511 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
1028450 ATATCCTAAT
*
1028460 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
1028480 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
1028501 TCGCAATGCGA
1 TCGCAATGCGA
1028512 TATTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:1028585 original size:20 final size:20
Alignment explanation
Indices: 1028538--1028587 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
1028528 GAGATAATAC
*
1028538 AAAATCACAACGAGATTCTG
1 AAAATCGCAACGAGATTCTG
***
1028558 ACTTTCGCAACGAGATTCTG
1 AAAATCGCAACGAGATTCTG
1028578 AAAATCGCAA
1 AAAATCGCAA
1028588 TCATCTTCAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (20 bp):
AAAATCGCAACGAGATTCTG
Found at i:1028896 original size:20 final size:20
Alignment explanation
Indices: 1028805--1028888 Score: 98
Period size: 20 Copynumber: 4.2 Consensus size: 20
1028795 GGGGAAATCA
1028805 CAACGCGAAAATGGCTATCG
1 CAACGCGAAAATGGCTATCG
*
1028825 CAACGCGAAAATGGGTATCG
1 CAACGCGAAAATGGCTATCG
** ** *
1028845 CAATTCG-AAATGGAAAATCA
1 CAACGCGAAAATGG-CTATCG
1028865 CAACGCGAAAATGGCTATCG
1 CAACGCGAAAATGGCTATCG
1028885 CAAC
1 CAAC
1028889 TAGAAAATCG
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
19 6 0.12
20 39 0.76
21 6 0.12
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.15
Consensus pattern (20 bp):
CAACGCGAAAATGGCTATCG
Found at i:1028960 original size:19 final size:19
Alignment explanation
Indices: 1028915--1028982 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
1028905 GAAATGAAAA
1028915 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
*
1028931 TCG--TTGTGATTTTCATT
1 TCGCATTGCGATTTTCATT
1028948 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1028967 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
1028983 TCGTTGCGAT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
14 10 0.22
16 3 0.07
17 3 0.07
19 29 0.64
ACGTcount: A:0.13, C:0.21, G:0.18, T:0.49
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:1029138 original size:14 final size:14
Alignment explanation
Indices: 1029119--1029155 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1029109 CATTAATTAA
1029119 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
1029133 ACAAATCATCTTTT
1 ACAAATCAACATTT
1029147 ACAAATCAA
1 ACAAATCAA
1029156 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:1031024 original size:20 final size:20
Alignment explanation
Indices: 1031001--1031068 Score: 93
Period size: 20 Copynumber: 3.5 Consensus size: 20
1030991 GAAACTTAAA
1031001 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
1031021 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGACT
* **
1031041 ATCGCAATGCG-AAATGAAA
1 ATCGCAACGCGAAAATGACT
1031060 ATCGCAACG
1 ATCGCAACG
1031069 ACAAAATCGC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
19 13 0.31
20 29 0.69
ACGTcount: A:0.40, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:1031076 original size:14 final size:14
Alignment explanation
Indices: 1031057--1031147 Score: 56
Period size: 14 Copynumber: 5.9 Consensus size: 14
1031047 ATGCGAAATG
1031057 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
1031071 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
*
1031090 AAAATCGCAACTAC
1 AAAATCGCAACGAC
* *
1031104 AAAATCGCAATGCCAA
1 AAAATCGCAA--CGAC
*
1031120 ATGAAATCGGAACGAC
1 A--AAATCGCAACGAC
1031136 AAAATCGCAACG
1 AAAATCGCAACG
1031148 CGAAACACAA
Statistics
Matches: 59, Mismatches: 9, Indels: 18
0.69 0.10 0.21
Matches are distributed among these distances:
14 30 0.51
15 1 0.02
16 8 0.14
17 1 0.02
18 9 0.15
19 10 0.17
ACGTcount: A:0.48, C:0.23, G:0.16, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:1031083 original size:33 final size:33
Alignment explanation
Indices: 1031041--1031152 Score: 181
Period size: 33 Copynumber: 3.4 Consensus size: 33
1031031 GAAAATGGCT
1031041 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
1031074 ATCGCAATGCGAAATGAAAATCGCAACTACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
1031107 ATCGCAATGCCAAATG-AAATCGGAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
1031139 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
1031153 CACAAATCGC
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
32 26 0.36
33 47 0.64
ACGTcount: A:0.47, C:0.22, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:1031160 original size:65 final size:66
Alignment explanation
Indices: 1031041--1031163 Score: 187
Period size: 65 Copynumber: 1.9 Consensus size: 66
1031031 GAAAATGGCT
* * *
1031041 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAATGCGAAATGAAAATCGCAACTACAA
1 ATCGCAATGCCAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATCAAAATCGCAACTACAA
1031106 A
66 A
*
1031107 ATCGCAATGCCAAATG-AAATCGGAACGACAAAATCGCAACGCGAAA-CACAAATCGCA
1 ATCGCAATGCCAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATCA-AAATCGCA
1031164 TTGCGATTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
64 1 0.02
65 36 0.69
66 15 0.29
ACGTcount: A:0.47, C:0.24, G:0.17, T:0.12
Consensus pattern (66 bp):
ATCGCAATGCCAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATCAAAATCGCAACTACAA
A
Found at i:1031181 original size:19 final size:18
Alignment explanation
Indices: 1031159--1031268 Score: 73
Period size: 14 Copynumber: 6.7 Consensus size: 18
1031149 GAAACACAAA
1031159 TCGCATTGCGATTTTCATT
1 TCGCATTGCGA-TTTCATT
* *
1031178 TCGCGTTGCGATTT--TG
1 TCGCATTGCGATTTCATT
*
1031194 TCG--TAGCGATTTCATT
1 TCGCATTGCGATTTCATT
*
1031210 TCGCATTGCGATTT--TG
1 TCGCATTGCGATTTCATT
*
1031226 TCG--TTGCGATTT--TG
1 TCGCATTGCGATTTCATT
1031240 TCG--TTGCGATTTTCATT
1 TCGCATTGCGA-TTTCATT
1031257 TCGCATTGCGAT
1 TCGCATTGCGAT
1031269 AGCCATTTCC
Statistics
Matches: 75, Mismatches: 7, Indels: 19
0.74 0.07 0.19
Matches are distributed among these distances:
14 28 0.37
15 3 0.04
16 12 0.16
17 4 0.05
18 12 0.16
19 16 0.21
ACGTcount: A:0.13, C:0.19, G:0.23, T:0.45
Consensus pattern (18 bp):
TCGCATTGCGATTTCATT
Found at i:1031204 original size:14 final size:14
Alignment explanation
Indices: 1031181--1031252 Score: 90
Period size: 14 Copynumber: 4.9 Consensus size: 14
1031171 TTTCATTTCG
1031181 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
* *
1031195 CGTAGCGATTTCATTT
1 CGTTGCGATTT--TGT
1031211 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
1031227 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
1031241 CGTTGCGATTTT
1 CGTTGCGATTTT
1031253 CATTTCGCAT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
14 34 0.68
16 8 0.16
18 8 0.16
ACGTcount: A:0.11, C:0.17, G:0.25, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1031209 original size:32 final size:32
Alignment explanation
Indices: 1031166--1031237 Score: 117
Period size: 32 Copynumber: 2.2 Consensus size: 32
1031156 AAATCGCATT
*
1031166 GCGATTTTCATTTCGCGTTGCGATTTTGTCGTA
1 GCGA-TTTCATTTCGCATTGCGATTTTGTCGTA
*
1031199 GCGATTTCATTTCGCATTGCGATTTTGTCGTT
1 GCGATTTCATTTCGCATTGCGATTTTGTCGTA
1031231 GCGATTT
1 GCGATTT
1031238 TGTCGTTGCG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
32 33 0.89
33 4 0.11
ACGTcount: A:0.12, C:0.18, G:0.24, T:0.46
Consensus pattern (32 bp):
GCGATTTCATTTCGCATTGCGATTTTGTCGTA
Found at i:1031287 original size:20 final size:19
Alignment explanation
Indices: 1031253--1031307 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
1031243 TTGCGATTTT
*
1031253 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
1031272 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
1031292 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
1031308 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:1031807 original size:18 final size:18
Alignment explanation
Indices: 1031784--1031823 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
1031774 ATCAGATATG
*
1031784 GCTCTGGGTGAGGTGATA
1 GCTCTGGGCGAGGTGATA
*
1031802 GCTCTGGGCGAGGTGATG
1 GCTCTGGGCGAGGTGATA
1031820 GCTC
1 GCTC
1031824 CCGAAGTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.12, C:0.17, G:0.45, T:0.25
Consensus pattern (18 bp):
GCTCTGGGCGAGGTGATA
Found at i:1033169 original size:20 final size:20
Alignment explanation
Indices: 1033121--1033179 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
1033111 AATAGTTTCT
** *
1033121 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
1033141 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
1033161 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
1033180 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:1033470 original size:22 final size:22
Alignment explanation
Indices: 1033443--1033486 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1033433 GATGGAGATA
1033443 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
1033465 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
1033487 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:1043722 original size:17 final size:16
Alignment explanation
Indices: 1043700--1043733 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1043690 TAAAAACAGT
1043700 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
1043717 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
1043733 A
1 A
1043734 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:1055024 original size:26 final size:25
Alignment explanation
Indices: 1054993--1055063 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 25
1054983 CCTCTTAAAT
1054993 TTTTAACTTTTTCTTTTCTCTTTC-
1 TTTTAACTTTTTCTTTTCTCTTTCA
*
1055017 -TTT-A-TTAATT-TTTTCTCTTTCA
1 TTTTAACTT-TTTCTTTTCTCTTTCA
*
1055039 TTTTAACTTTTACTTTTTCTCTTTC
1 TTTTAACTTTTTC-TTTTCTCTTTC
1055064 CTTCATTCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
21 13 0.35
22 3 0.08
23 6 0.16
24 2 0.05
25 2 0.05
26 11 0.30
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.69
Consensus pattern (25 bp):
TTTTAACTTTTTCTTTTCTCTTTCA
Found at i:1055083 original size:47 final size:46
Alignment explanation
Indices: 1054993--1055083 Score: 112
Period size: 47 Copynumber: 2.0 Consensus size: 46
1054983 CCTCTTAAAT
* * * *
1054993 TTTTAACTTTTTCTTTTCTCTTTCTTTATTAATTTTTTCTCTTTCA
1 TTTTAACTTTTACTTTTCTCTTTCTTCATTAATCTTCTCTCTTTCA
*
1055039 TTTTAACTTTTACTTTTTCTCTTTCCTTCATTCATCTTCT-TCTTT
1 TTTTAACTTTTAC-TTTTCTCTTT-CTTCATTAATCTTCTCTCTTT
1055084 TGTTATTCTC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
46 12 0.32
47 15 0.39
48 11 0.29
ACGTcount: A:0.12, C:0.21, G:0.00, T:0.67
Consensus pattern (46 bp):
TTTTAACTTTTACTTTTCTCTTTCTTCATTAATCTTCTCTCTTTCA
Found at i:1056844 original size:17 final size:16
Alignment explanation
Indices: 1056822--1056855 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1056812 TAAAAACAGT
1056822 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
1056839 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
1056855 A
1 A
1056856 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:1059852 original size:24 final size:24
Alignment explanation
Indices: 1059825--1059874 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1059815 TGGTGGTTGA
*
1059825 TTTAATGGT-TGTTTGAACTTTATT
1 TTTAATGGTATATTT-AACTTTATT
*
1059849 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTTAACTTTATT
1059873 TT
1 TT
1059875 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.24, C:0.02, G:0.14, T:0.60
Consensus pattern (24 bp):
TTTAATGGTATATTTAACTTTATT
Found at i:1062837 original size:20 final size:20
Alignment explanation
Indices: 1062812--1062884 Score: 137
Period size: 20 Copynumber: 3.6 Consensus size: 20
1062802 TTTTCCTAAT
1062812 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
1062832 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
1062852 TCGTAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
1062872 TCGCAATGCGAAT
1 TCGCAATGCGAAT
1062885 CTGACTATCG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:1063250 original size:33 final size:34
Alignment explanation
Indices: 1063202--1063274 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 34
1063192 ACTATCGCAA
** *
1063202 TGCGATTCTGTCATTGCGATTTTC-ATTTCGCGT
1 TGCGATTCTGTCATTGCGATAGTCAAATTCGCGT
1063235 TGCGATTCT-TGCATTGCGATAGTCAAATTCGCGT
1 TGCGATTCTGT-CATTGCGATAGTCAAATTCGCGT
1063269 TGCGAT
1 TGCGAT
1063275 AGTCATTTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
32 1 0.03
33 20 0.57
34 14 0.40
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.40
Consensus pattern (34 bp):
TGCGATTCTGTCATTGCGATAGTCAAATTCGCGT
Found at i:1063273 original size:20 final size:20
Alignment explanation
Indices: 1063248--1063294 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
1063238 GATTCTTGCA
1063248 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
** *
1063268 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGTCAAATTCGCG
1063288 TTGCGAT
1 TTGCGAT
1063295 TTAAAGTTTC
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:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCG
Found at i:1065211 original size:20 final size:20
Alignment explanation
Indices: 1065186--1065362 Score: 146
Period size: 20 Copynumber: 9.5 Consensus size: 20
1065176 AGAATAGTTT
1065186 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
1065206 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
1065226 ACTATCGCAAT--G-AGA-G
1 ACTATCGCAATGCGAAAATG
1065242 A--ATCGCAATGCG-AAATG
1 ACTATCGCAATGCGAAAATG
** *
1065259 AAAATCACAA--C-AAAA--
1 ACTATCGCAATGCGAAAATG
* **
1065274 A-AATCGCAACACGAAAATG
1 ACTATCGCAATGCGAAAATG
*
1065293 ACTATCGCAATGAGAAAATG
1 ACTATCGCAATGCGAAAATG
* *
1065313 ACTATCGTAATGCAAAAATG
1 ACTATCGCAATGCGAAAATG
**
1065333 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
1065353 ACTATCGCAA
1 ACTATCGCAA
1065363 CGAAAGAATC
Statistics
Matches: 128, Mismatches: 17, Indels: 24
0.76 0.10 0.14
Matches are distributed among these distances:
14 15 0.12
15 1 0.01
16 6 0.05
17 12 0.09
18 1 0.01
19 7 0.05
20 86 0.67
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.19
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:1065434 original size:20 final size:20
Alignment explanation
Indices: 1065409--1065495 Score: 111
Period size: 20 Copynumber: 4.3 Consensus size: 20
1065399 GATTCTCTCG
1065409 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
*
1065429 TTGCGATAGTAAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
1065449 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
** *
1065469 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
1065489 TTGCGAT
1 TTGCGAT
1065496 TTTAAGTTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:1066070 original size:21 final size:21
Alignment explanation
Indices: 1065979--1066070 Score: 87
Period size: 21 Copynumber: 4.4 Consensus size: 21
1065969 GACTCACCTG
*
1065979 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
*
1066001 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
1066021 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
1066042 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
1066063 TCATCGTT
1 TCATCGTT
1066071 GAAAAGGTCC
Statistics
Matches: 54, Mismatches: 15, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
20 3 0.06
21 50 0.93
22 1 0.02
ACGTcount: A:0.21, C:0.38, G:0.17, T:0.24
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:1067487 original size:14 final size:14
Alignment explanation
Indices: 1067468--1067503 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1067458 ATTGTTTACT
1067468 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
1067482 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
1067496 TGATTTGT
1 TGATTTGT
1067504 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1067698 original size:20 final size:19
Alignment explanation
Indices: 1067642--1067713 Score: 126
Period size: 19 Copynumber: 3.7 Consensus size: 19
1067632 GCAACGAGAG
1067642 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1067661 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1067680 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
1067700 AATCGCAACGCGAA
1 AATCGCAATGCGAA
1067714 TTTAGTTTCG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
19 33 0.65
20 18 0.35
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1067808 original size:33 final size:33
Alignment explanation
Indices: 1067724--1067809 Score: 109
Period size: 33 Copynumber: 2.6 Consensus size: 33
1067714 TTTAGTTTCG
*
1067724 CGTTGCGATTTTCATTTTCCCATTGCGATTCTCT
1 CGTTGCGATTTTCA-TTTCCCATTGCAATTCTCT
* * *
1067758 GGTTGCGATTTTAATTTCGCATTGCAATTCTCT
1 CGTTGCGATTTTCATTTCCCATTGCAATTCTCT
**
1067791 CGTTGCGATAGTCATTTCC
1 CGTTGCGATTTTCATTTCC
1067810 GCGTTGCGAT
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
33 31 0.72
34 12 0.28
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCCCATTGCAATTCTCT
Found at i:1067816 original size:20 final size:20
Alignment explanation
Indices: 1067791--1067879 Score: 126
Period size: 20 Copynumber: 4.5 Consensus size: 20
1067781 GCAATTCTCT
1067791 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* *
1067811 CGTTGCGATAGTCAATTCCA
1 CGTTGCGATAGTCATTTCCG
1067831 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* *
1067851 TGTTTCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
1067871 CGTTGCGAT
1 CGTTGCGAT
1067880 TTCCGCGTTG
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
20 58 0.97
21 2 0.03
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:1070345 original size:24 final size:24
Alignment explanation
Indices: 1070311--1070364 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1070301 CTGAAAAATC
1070311 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
1070335 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
1070359 ATCAAA
1 ATCAAA
1070365 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1070378 original size:24 final size:24
Alignment explanation
Indices: 1070311--1070378 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
1070301 CTGAAAAATC
* * *
1070311 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
1070335 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
1070359 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
1070379 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:1071146 original size:20 final size:20
Alignment explanation
Indices: 1071121--1071184 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
1071111 AAATTAAGTA
1071121 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
1071141 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
* * *
1071161 TTGCGATATTCAGATTCGCG
1 TTGCGATAGTCAGAATCTCG
1071181 TTGC
1 TTGC
1071185 AATTTACGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCTCG
Found at i:1071197 original size:20 final size:20
Alignment explanation
Indices: 1071174--1071243 Score: 113
Period size: 20 Copynumber: 3.5 Consensus size: 20
1071164 CGATATTCAG
* *
1071174 ATTCGCGTTGCAATTTACGT
1 ATTCGCATTGCGATTTACGT
*
1071194 ATTCGCATTACGATTTACGT
1 ATTCGCATTGCGATTTACGT
1071214 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
1071234 ATTCGCATTG
1 ATTCGCATTG
1071244 TGAATTAGGA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:1071269 original size:21 final size:21
Alignment explanation
Indices: 1071245--1071288 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1071235 TTCGCATTGT
1071245 GAATTAGGAAAATCGCAACGC
1 GAATTAGGAAAATCGCAACGC
* *
1071266 GAATTTGGAAAATCGCAATGC
1 GAATTAGGAAAATCGCAACGC
1071287 GA
1 GA
1071289 TAGTCAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.16, G:0.25, T:0.18
Consensus pattern (21 bp):
GAATTAGGAAAATCGCAACGC
Found at i:1073306 original size:104 final size:104
Alignment explanation
Indices: 1073126--1073313 Score: 231
Period size: 104 Copynumber: 1.8 Consensus size: 104
1073116 ATATCGGGTA
* *
1073126 CAATGATAAGTTTATGGCTTCTCTTATAATACCATGAATGATCTAGTGTGCTTCTGGTTTTGTCG
1 CAATGATAAGTTTATGGCTTCTCTTATAATACCATGAATGATCTAATATGCTTCTGGTTTTGTCG
* * *
1073191 GCATTCAGGAATATTTTAGCATTATGCAATTATCAGGAT
66 GAACTCAGGAATAATTTAGCATTATGCAATTATCAGGAT
* * *
1073230 CAATGATAAGTTTGTGGCTTCTCTTA-ACAT-CTCTTGAATGCTCTAATATGCTTCT-GTTTTGT
1 CAATGATAAGTTTATGGCTTCTCTTATA-ATAC-CATGAATGATCTAATATGCTTCTGGTTTTG-
*
1073292 TTGGTAACT-AGGAATAATTTAG
63 TCGG-AACTCAGGAATAATTTAG
1073314 ATGCAAAATG
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
103 8 0.11
104 61 0.86
105 2 0.03
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (104 bp):
CAATGATAAGTTTATGGCTTCTCTTATAATACCATGAATGATCTAATATGCTTCTGGTTTTGTCG
GAACTCAGGAATAATTTAGCATTATGCAATTATCAGGAT
Found at i:1073664 original size:3 final size:3
Alignment explanation
Indices: 1073656--1073752 Score: 131
Period size: 3 Copynumber: 31.7 Consensus size: 3
1073646 TCATTTAAAT
** *
1073656 TTA TTA TTA TTA TTA AAA TTA TTA TTA GTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
1073704 TTA TTA TTA TTA TTTA TTA TTA ATA TTA ATA TTA TATA TTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
1073751 TT
1 TT
1073753 TAATAAATAA
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
3 76 0.93
4 6 0.07
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:1083027 original size:114 final size:114
Alignment explanation
Indices: 1082824--1083049 Score: 389
Period size: 114 Copynumber: 2.0 Consensus size: 114
1082814 AAGTGCCATG
1082824 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * *
1082889 TGATTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAATT
66 TGATTCGGTAGGAACCCCAAAACCAATCATTGGAATTAAAAGATGAATT
* *
1082938 TGCTCATAGTAGAAATAAGGAGACCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* *
1083003 TGGTTCGGTAGGAACCCCAGAACCAATCATTGGAATTAAAAGATGAA
66 TGATTCGGTAGGAACCCCAAAACCAATCATTGGAATTAAAAGATGAA
1083050 CTGCATGATC
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 105 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (114 bp):
TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
TGATTCGGTAGGAACCCCAAAACCAATCATTGGAATTAAAAGATGAATT
Found at i:1085587 original size:22 final size:22
Alignment explanation
Indices: 1085560--1085614 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
1085550 ATCTACACTC
1085560 TTTAAAGATGATAGATTCTCTT
1 TTTAAAGATGATAGATTCTCTT
1085582 TTTAAAGATGATAGATTCTCTT
1 TTTAAAGATGATAGATTCTCTT
*
1085604 TTCAAAGATGA
1 TTTAAAGATGA
1085615 AAGCTTTATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.42
Consensus pattern (22 bp):
TTTAAAGATGATAGATTCTCTT
Found at i:1086295 original size:76 final size:76
Alignment explanation
Indices: 1086169--1087340 Score: 2040
Period size: 76 Copynumber: 15.4 Consensus size: 76
1086159 CTATTTCCCA
*
1086169 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAATGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* * *
1086234 ACCCTCAGAGT
66 ATCCTTAGGGT
1086245 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* * *
1086310 ACCCTCAGGAT
66 ATCCTTAGGGT
1086321 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1086386 ATCCTTAGGGT
66 ATCCTTAGGGT
*
1086397 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1086462 ATCCTTAGGGT
66 ATCCTTAGGGT
*
1086473 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1086538 ATCCTTAGGGT
66 ATCCTTAGGGT
*
1086549 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
1086614 ATCCTCAGGAT
66 ATCCTTAGGGT
1086625 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1086690 ATCCTTAGGGT
66 ATCCTTAGGGT
*
1086701 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1086766 ATCCTTAGGGT
66 ATCCTTAGGGT
* *
1086777 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGTAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1086842 AGCCTTAGGGT
66 ATCCTTAGGGT
*
1086853 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1086917 AGCCTTAGGGT
66 ATCCTTAGGGT
*
1086928 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
* *
1086993 AAACCTTCGGGT
65 AATCCTTAGGGT
1087005 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1087070 AGCCTTAGGGT
66 ATCCTTAGGGT
1087081 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
* *
1087146 AAACCTTCGGGT
65 AATCCTTAGGGT
*
1087158 CATCTGTAAGTCCTATAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
1087223 AGCCTTAGGGT
66 ATCCTTAGGGT
1087234 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
* *
1087299 AAACCTTCGGGT
65 AATCCTTAGGGT
* *
1087311 CATCTGTAAGCCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTACAGTGCATGATGTTT
1087341 TCAACATTTA
Statistics
Matches: 1058, Mismatches: 34, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
75 74 0.07
76 800 0.76
77 184 0.17
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
ATCCTTAGGGT
Found at i:1087479 original size:3 final size:3
Alignment explanation
Indices: 1087471--1087564 Score: 125
Period size: 3 Copynumber: 30.7 Consensus size: 3
1087461 TCATTTAAAT
**
1087471 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
1087519 TTA TTA CTA TTTA TTA TTA ATA TTA ATA TTA TATA TTA TTA TTA TT
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TT
1087565 TAATAAATAA
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
3 74 0.94
4 5 0.06
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:1088400 original size:7 final size:7
Alignment explanation
Indices: 1088384--1088486 Score: 179
Period size: 7 Copynumber: 14.7 Consensus size: 7
1088374 GTTTGAGAGA
*
1088384 GAGAAGG
1 GAGAAAG
1088391 GAGAAAG
1 GAGAAAG
1088398 GAGAAAG
1 GAGAAAG
1088405 GAGAAAG
1 GAGAAAG
1088412 GAGAAAG
1 GAGAAAG
*
1088419 GAGAAAT
1 GAGAAAG
1088426 GAGAAAG
1 GAGAAAG
1088433 GAGAAAG
1 GAGAAAG
1088440 GAGAAAG
1 GAGAAAG
*
1088447 GAGAAAT
1 GAGAAAG
1088454 GAGAAAG
1 GAGAAAG
1088461 GAGAAAG
1 GAGAAAG
1088468 GAGAAAG
1 GAGAAAG
1088475 GAGAAAG
1 GAGAAAG
1088482 GAGAA
1 GAGAA
1088487 TGAGAGAGCT
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 91 1.00
ACGTcount: A:0.56, C:0.00, G:0.42, T:0.02
Consensus pattern (7 bp):
GAGAAAG
Found at i:1099909 original size:8 final size:8
Alignment explanation
Indices: 1099896--1099936 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
1099886 CTCATTTTCA
1099896 GAGAATTT
1 GAGAATTT
1099904 GAGAATTT
1 GAGAATTT
*
1099912 -AGAGTTT
1 GAGAATTT
*
1099919 GGGAATTT
1 GAGAATTT
1099927 GAGAATTT
1 GAGAATTT
1099935 GA
1 GA
1099937 AAGATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:1100232 original size:128 final size:128
Alignment explanation
Indices: 1100004--1100376 Score: 710
Period size: 128 Copynumber: 2.9 Consensus size: 128
1099994 CTATAATCGG
1100004 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
*
1100069 TATCATTACCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
* *
1100132 TTCACTATTCATATGAAGGCGCGTTCCCGGGGGAGCGCCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
*
1100197 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACAATAGATATATCAGTACCTATTAT
66 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
1100260 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
1100325 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCA
66 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCA
1100377 ATTTGAATAA
Statistics
Matches: 238, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
128 238 1.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (128 bp):
TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
Found at i:1100832 original size:33 final size:34
Alignment explanation
Indices: 1100769--1100867 Score: 130
Period size: 33 Copynumber: 3.0 Consensus size: 34
1100759 AAATTTAATG
*
1100769 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
1100803 TTAAATTT-GAATAATATTATTT-TTTTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
1100835 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
1100868 AACATTTATC
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
32 15 0.28
33 25 0.46
34 14 0.26
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:1101408 original size:21 final size:20
Alignment explanation
Indices: 1101381--1101492 Score: 143
Period size: 21 Copynumber: 5.3 Consensus size: 20
1101371 GGTATAAAAC
*
1101381 CCTGCGGGCTAGGCATGTAA
1 CCTGCGGGCTAGGAATGTAA
*
1101401 CCTGGCGGGCTAGGCATGTAA
1 CCT-GCGGGCTAGGAATGTAA
1101422 CCTGGCGGGCTAGGAATGTAA
1 CCT-GCGGGCTAGGAATGTAA
*
1101443 CCCTGCGGGCTCGGAATGTAA
1 -CCTGCGGGCTAGGAATGTAA
*
1101464 CCCTGCGGGCTCGGAATGTAA
1 -CCTGCGGGCTAGGAATGTAA
1101485 CCCTGCGG
1 -CCTGCGG
1101493 AGATGGCATA
Statistics
Matches: 88, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
20 3 0.03
21 82 0.93
22 3 0.03
ACGTcount: A:0.19, C:0.27, G:0.36, T:0.19
Consensus pattern (20 bp):
CCTGCGGGCTAGGAATGTAA
Found at i:1101516 original size:42 final size:42
Alignment explanation
Indices: 1101384--1101516 Score: 137
Period size: 42 Copynumber: 3.2 Consensus size: 42
1101374 ATAAAACCCT
* * *
1101384 GCGGGCTAGGCATGTAA-CCTGGCGGGCTAGGCATGTAACCTG
1 GCGGGCTAGGAATGTAACCCT-GCGGGATCGGCATGTAACCTG
* *
1101426 GCGGGCTAGGAATGTAACCCTGCGGGCTCGGAATGTAACCCT-
1 GCGGGCTAGGAATGTAACCCTGCGGGATCGGCATGTAA-CCTG
* * *
1101468 GCGGGCTCGGAATGTAACCCTGCGGAGAT-GGCATATAAACTG
1 GCGGGCTAGGAATGTAACCCTGCGG-GATCGGCATGTAACCTG
*
1101510 GTGGGCT
1 GCGGGCT
1101517 TGGCATATGA
Statistics
Matches: 78, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
41 2 0.03
42 68 0.87
43 8 0.10
ACGTcount: A:0.21, C:0.23, G:0.36, T:0.20
Consensus pattern (42 bp):
GCGGGCTAGGAATGTAACCCTGCGGGATCGGCATGTAACCTG
Found at i:1101522 original size:21 final size:21
Alignment explanation
Indices: 1101496--1101543 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
1101486 CCTGCGGAGA
*
1101496 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
1101517 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
1101538 GGGCAT
1 TGGCAT
1101544 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:1103310 original size:31 final size:32
Alignment explanation
Indices: 1103267--1103352 Score: 95
Period size: 31 Copynumber: 2.7 Consensus size: 32
1103257 TTAATAATTC
*
1103267 TAAATAAATAATAATTATATAAATATTATTTA-A
1 TAAA-AAATAATAATTATATAAATA-TATTAATA
* *
1103300 T-AAAAATAATATTTACATAAATATATTAATA
1 TAAAAAATAATAATTATATAAATATATTAATA
* *
1103331 TAAAAAATAATAACTATTTAAA
1 TAAAAAATAATAATTATATAAA
1103353 AAAATACTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
30 5 0.11
31 20 0.45
32 18 0.41
33 1 0.02
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.38
Consensus pattern (32 bp):
TAAAAAATAATAATTATATAAATATATTAATA
Found at i:1103312 original size:16 final size:16
Alignment explanation
Indices: 1103272--1103358 Score: 61
Period size: 16 Copynumber: 5.3 Consensus size: 16
1103262 AATTCTAAAT
* *
1103272 AAATAATAATT-ATAT
1 AAATAATATTTAATAA
*
1103287 AAATATTATTTAATAA
1 AAATAATATTTAATAA
1103303 AAATAATATTTACATAA
1 AAATAATATTTA-ATAA
* * * *
1103320 ATATATTAATATAAAAA
1 AAATAAT-ATTTAATAA
1103337 ATAATAACTATTTAA-AA
1 A-AATAA-TATTTAATAA
1103354 AAATA
1 AAATA
1103359 CTAACATAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
15 9 0.16
16 18 0.32
17 16 0.29
18 12 0.21
19 1 0.02
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
AAATAATATTTAATAA
Found at i:1103333 original size:14 final size:15
Alignment explanation
Indices: 1103270--1103339 Score: 63
Period size: 15 Copynumber: 4.7 Consensus size: 15
1103260 ATAATTCTAA
1103270 ATAAATAATAATT-AT
1 ATAAATAAT-ATTAAT
*
1103285 ATAAATATTATTTAAT
1 ATAAATAATA-TTAAT
* * *
1103301 AAAAATAATATTTAC
1 ATAAATAATATTAAT
1103316 ATAAAT-ATATTAAT
1 ATAAATAATATTAAT
*
1103330 ATAAAAAATA
1 ATAAATAATA
1103340 ATAACTATTT
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
14 12 0.28
15 21 0.49
16 10 0.23
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (15 bp):
ATAAATAATATTAAT
Found at i:1104604 original size:21 final size:21
Alignment explanation
Indices: 1104580--1104635 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
1104570 TTCTGGGTAA
*
1104580 TAGTATCGATACTGGTTAAGT
1 TAGTATCGATACTAGTTAAGT
1104601 TAGTATCGATACTAGTTAAGT
1 TAGTATCGATACTAGTTAAGT
*
1104622 TAGTACCGATACTA
1 TAGTATCGATACTA
1104636 CAAGGTAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (21 bp):
TAGTATCGATACTAGTTAAGT
Found at i:1105728 original size:21 final size:21
Alignment explanation
Indices: 1105703--1105742 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1105693 ATATGTGTTA
* *
1105703 TATGTGGTCCTTCGGGACATT
1 TATGTGGTCATTCGAGACATT
1105724 TATGTGGTCATTCGAGACA
1 TATGTGGTCATTCGAGACA
1105743 AATCTTATGT
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:0.20, C:0.17, G:0.28, T:0.35
Consensus pattern (21 bp):
TATGTGGTCATTCGAGACATT
Found at i:1110861 original size:22 final size:22
Alignment explanation
Indices: 1110809--1110856 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
1110799 CATGGCATTT
*
1110809 ATATTTATGTGTTATTACTTATA
1 ATATATATGTGTTATTAC-TATA
1110832 ATATATATGTG-TATTA-TATA
1 ATATATATGTGTTATTACTATA
1110852 ATATA
1 ATATA
1110857 CATATCATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 9 0.38
22 5 0.21
23 10 0.42
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (22 bp):
ATATATATGTGTTATTACTATA
Found at i:1112248 original size:19 final size:20
Alignment explanation
Indices: 1112224--1112268 Score: 74
Period size: 19 Copynumber: 2.2 Consensus size: 20
1112214 ATTACTTTCG
1112224 TTTTTCTATTTTA-TATTAT
1 TTTTTCTATTTTATTATTAT
1112243 TTTTTCTATTTTATTATTAT
1 TTTTTCTATTTTATTATTAT
1112263 TATTTT
1 T-TTTT
1112269 ACTTGTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.54
20 7 0.29
21 4 0.17
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTTCTATTTTATTATTAT
Found at i:1112345 original size:21 final size:20
Alignment explanation
Indices: 1112294--1112355 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
1112284 TGTATATATG
* *
1112294 TTTTTTTTATTTA-TCTATT
1 TTTTTTTTTTTTATTCTCTT
*
1112313 TTCTTTTATTTTTATTCTCTT
1 TT-TTTTTTTTTTATTCTCTT
*
1112334 TTTTTCTTTTTTTCTTC-CTT
1 TTTTT-TTTTTTTATTCTCTT
1112354 TT
1 TT
1112356 ATTTGTTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 2 0.06
20 17 0.49
21 16 0.46
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTTTTTTTTATTCTCTT
Found at i:1112364 original size:21 final size:21
Alignment explanation
Indices: 1112295--1112364 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
1112285 GTATATATGT
*
1112295 TTTTTTTATTTATCTATTTTCTT-
1 TTTTTTTA-TTCTCT-TTTT-TTC
1112318 TTATTTTTATTCTCTTTTTTTC
1 TT-TTTTTATTCTCTTTTTTTC
* *
1112340 TTTTTTTCTTC-CTTTTATTTG
1 TTTTTTTATTCTCTTTT-TTTC
1112361 TTTT
1 TTTT
1112365 ATATATTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
20 5 0.12
21 17 0.41
22 6 0.15
23 7 0.17
24 6 0.15
ACGTcount: A:0.09, C:0.11, G:0.01, T:0.79
Consensus pattern (21 bp):
TTTTTTTATTCTCTTTTTTTC
Found at i:1112476 original size:19 final size:18
Alignment explanation
Indices: 1112427--1112476 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
1112417 TATGTTAGTG
*
1112427 CTATTATTTTTCTTCATT
1 CTATTATTTTTATTCATT
*
1112445 CTATT-TATTTTATTTATT
1 CTATTAT-TTTTATTCATT
1112463 CTATTCATTTTTAT
1 CTATT-ATTTTTAT
1112477 ATTCACTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 1 0.04
18 19 0.70
19 6 0.22
20 1 0.04
ACGTcount: A:0.20, C:0.12, G:0.00, T:0.68
Consensus pattern (18 bp):
CTATTATTTTTATTCATT
Found at i:1116468 original size:95 final size:95
Alignment explanation
Indices: 1116304--1116485 Score: 285
Period size: 95 Copynumber: 1.9 Consensus size: 95
1116294 ATATAATTTA
* *
1116304 TATACAATAAAGCTTGAGATATCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAAT
1 TATACAATAAAGCTTGAGATATCCCTCTAGAGAAATTGGTTAAACGCCCCGGCTTTATGGATAAG
*
1116369 ATTCAGCTAGCCTGATAAAGGTGATTATAC
66 ATTCAGCTAACCTGATAAAGGTGATTATAC
* * * *
1116399 TATACAATAAAGGTTGAGCTGTCTCTCTA-AGGAAATTGGTTAAACGCCCCGGCTTTATGGATAA
1 TATACAATAAAGCTTGAGATATCCCTCTAGA-GAAATTGGTTAAACGCCCCGGCTTTATGGATAA
1116463 GATTCAGCTAACCTGATAAAGGT
65 GATTCAGCTAACCTGATAAAGGT
1116486 ATTTACATAT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
94 1 0.01
95 78 0.99
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (95 bp):
TATACAATAAAGCTTGAGATATCCCTCTAGAGAAATTGGTTAAACGCCCCGGCTTTATGGATAAG
ATTCAGCTAACCTGATAAAGGTGATTATAC
Found at i:1118049 original size:110 final size:110
Alignment explanation
Indices: 1117851--1118050 Score: 319
Period size: 110 Copynumber: 1.8 Consensus size: 110
1117841 GCTTCCCAAT
* * *
1117851 TTCAGAGACAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGCTTAACTTCA
1 TTCAGAGACAATTTCAACTTCACAGCGAAGGATATTAGACTCAAGACAACACAAGCTCAAATTCA
*
1117916 CAACGAAGGGGCAGATGATTGTCAATAAATAACTTTTCAGTGTCA
66 CAACGAAGGGGCAGATGACTGTCAATAAATAACTTTTCAGTGTCA
* *
1117961 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTAGACTCAAGACAGCACAAGCTCAAATTCA
1 TTCAGAGACAATTTCAACTTCACAGCGAAGGATATTAGACTCAAGACAACACAAGCTCAAATTCA
* * *
1118026 CAGCGAAGGGGCGGCTGACTGTCAA
66 CAACGAAGGGGCAGATGACTGTCAA
1118051 CAAGCAATTT
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
110 81 1.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (110 bp):
TTCAGAGACAATTTCAACTTCACAGCGAAGGATATTAGACTCAAGACAACACAAGCTCAAATTCA
CAACGAAGGGGCAGATGACTGTCAATAAATAACTTTTCAGTGTCA
Found at i:1118551 original size:39 final size:39
Alignment explanation
Indices: 1118487--1118562 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
1118477 AACTTGAAAC
*
1118487 AAATTTTATCTCACTTAAGATAGTTTCCCTCGAAACAGA
1 AAATTTTATCTCACTTAAGACAGTTTCCCTCGAAACAGA
* * * * *
1118526 AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 AAATTTTATCTCACTTAAGACAGTTTCCCTCGAAACA
1118563 TAAACTTTGA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.36
Consensus pattern (39 bp):
AAATTTTATCTCACTTAAGACAGTTTCCCTCGAAACAGA
Found at i:1118579 original size:30 final size:30
Alignment explanation
Indices: 1118545--1118790 Score: 110
Period size: 29 Copynumber: 7.7 Consensus size: 30
1118535 CTCCCTTGAG
1118545 ACAGTTTCTCTTGAAACATAAA-CTTTGAAA
1 ACAGTTTCTCTTGAAACA-AAACCTTTGAAA
* *
1118575 ACAGTTTCCCTTGAAACAAAACCTTTGAAT
1 ACAGTTTCTCTTGAAACAAAACCTTTGAAA
* ** *
1118605 A-TGTTTCTCTTGAAACAATGTTTTGCCTCCTTGGAA
1 ACAGTTTCTCTTGAAACAA-----AACCT--TTGAAA
* * *
1118641 ACGGTTTCCCTTGAAACAAAACCTTTGAAT
1 ACAGTTTCTCTTGAAACAAAACCTTTGAAA
* * * *
1118671 A-TGTTTCTCTTGAAACAAAGTTTTGCCTCCTTGGAG
1 ACAGTTTCTCTTGAAACAAA-----ACCT--TTGAAA
1118707 ACAGTTTCTCTTG-AA-AAAACCTTTGAAA
1 ACAGTTTCTCTTGAAACAAAACCTTTGAAA
*
1118735 TC-GTTTTCTCTTGAAACACAAAAAACCTTTGAAA
1 ACAG-TTTCTCTTG-AA-AC--AAAACCTTTGAAA
*
1118769 TC-GTTTCTCTTGGAACACAAAA
1 ACAGTTTCTCTT-GAA-ACAAAA
1118791 AGAAAACCTT
Statistics
Matches: 167, Mismatches: 24, Indels: 49
0.70 0.10 0.20
Matches are distributed among these distances:
27 1 0.01
28 14 0.08
29 34 0.20
30 34 0.20
31 5 0.03
32 3 0.02
33 13 0.08
34 23 0.14
35 3 0.02
36 12 0.07
37 25 0.15
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (30 bp):
ACAGTTTCTCTTGAAACAAAACCTTTGAAA
Found at i:1118611 original size:29 final size:30
Alignment explanation
Indices: 1118548--1118689 Score: 112
Period size: 29 Copynumber: 4.6 Consensus size: 30
1118538 CCTTGAGACA
* *
1118548 GTTTCTCTTGAAACATAAA-CTTTGAAAACA
1 GTTTCTCTTGAAACA-AAACCTTTGAATACT
*
1118578 GTTTCCCTTGAAACAAAACCTTTGAATA-T
1 GTTTCTCTTGAAACAAAACCTTTGAATACT
** *
1118607 GTTTCTCTTGAAACAATGTTTTGCCTCCTTGGAA-ACG
1 GTTTCTCTTGAAACAA-----AACCT--TT-GAATACT
*
1118644 GTTTCCCTTGAAACAAAACCTTTGAATA-T
1 GTTTCTCTTGAAACAAAACCTTTGAATACT
1118673 GTTTCTCTTGAAACAAA
1 GTTTCTCTTGAAACAAA
1118690 GTTTTGCCTC
Statistics
Matches: 89, Mismatches: 12, Indels: 23
0.72 0.10 0.19
Matches are distributed among these distances:
29 37 0.42
30 25 0.28
32 3 0.03
34 3 0.03
36 3 0.03
37 18 0.20
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (30 bp):
GTTTCTCTTGAAACAAAACCTTTGAATACT
Found at i:1118659 original size:66 final size:66
Alignment explanation
Indices: 1118573--1118752 Score: 285
Period size: 66 Copynumber: 2.7 Consensus size: 66
1118563 TAAACTTTGA
*
1118573 AAACAGTTTCCCTTGAAACAAAACCTTTGAATATGTTTCTCTTGAAACAATGTTTTGCCTCCTTG
1 AAACAGTTTCCCTTGAAACAAAACCTTTGAATATGTTTCTCTTGAAACAAAGTTTTGCCTCCTTG
1118638 G
66 G
*
1118639 AAACGGTTTCCCTTGAAACAAAACCTTTGAATATGTTTCTCTTGAAACAAAGTTTTGCCTCCTTG
1 AAACAGTTTCCCTTGAAACAAAACCTTTGAATATGTTTCTCTTGAAACAAAGTTTTGCCTCCTTG
1118704 G
66 G
* *
1118705 AGACAGTTTCTCTTG-AA-AAAACCTTTGAA-ATCGTTTTCTCTTGAAACA
1 AAACAGTTTCCCTTGAAACAAAACCTTTGAATAT-G-TTTCTCTTGAAACA
1118753 CAAAAAACCT
Statistics
Matches: 107, Mismatches: 5, Indels: 5
0.91 0.04 0.04
Matches are distributed among these distances:
63 2 0.02
64 13 0.12
65 16 0.15
66 76 0.71
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.36
Consensus pattern (66 bp):
AAACAGTTTCCCTTGAAACAAAACCTTTGAATATGTTTCTCTTGAAACAAAGTTTTGCCTCCTTG
G
Found at i:1118806 original size:37 final size:37
Alignment explanation
Indices: 1118722--1118860 Score: 180
Period size: 37 Copynumber: 3.8 Consensus size: 37
1118712 TTCTCTTGAA
*
1118722 AAAACCTTTGAAATCGTTTTCTCTTGAAACAC---AA-
1 AAAACCTTTGAAATC-ATTTCTCTTGAAACACAAAAAG
* *
1118756 AAAACCTTTGAAATCGTTTCTCTTGGAACACAAAAAG
1 AAAACCTTTGAAATCATTTCTCTTGAAACACAAAAAG
* *
1118793 AAAACCTTTGAAATTATTTCTCTTGAAACAAAAAAAG
1 AAAACCTTTGAAATCATTTCTCTTGAAACACAAAAAG
1118830 AAAACCTTTGAACAT-ATTTCTCTTGAAACAC
1 AAAACCTTTGAA-ATCATTTCTCTTGAAACAC
1118861 CAAAGCTTTG
Statistics
Matches: 93, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
33 14 0.15
34 15 0.16
36 2 0.02
37 60 0.65
38 2 0.02
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (37 bp):
AAAACCTTTGAAATCATTTCTCTTGAAACACAAAAAG
Found at i:1119228 original size:22 final size:22
Alignment explanation
Indices: 1119176--1119223 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
1119166 CATGGCATTT
*
1119176 ATATTTATGTGTTATTACTTATA
1 ATATATATGTGTTATTAC-TATA
1119199 ATATATATGTG-TATTA-TATA
1 ATATATATGTGTTATTACTATA
1119219 ATATA
1 ATATA
1119224 CATATCATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 9 0.38
22 5 0.21
23 10 0.42
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (22 bp):
ATATATATGTGTTATTACTATA
Found at i:1120654 original size:2 final size:2
Alignment explanation
Indices: 1120649--1120675 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1120639 TATTTTTTTC
1120649 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1120676 TCACTTTCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1120763 original size:8 final size:8
Alignment explanation
Indices: 1120752--1120843 Score: 53
Period size: 8 Copynumber: 10.8 Consensus size: 8
1120742 TGTATATATG
1120752 TTTTTATT
1 TTTTTATT
1120760 TTTTTATT
1 TTTTTATT
* *
1120768 TATCTATT
1 TTTTTATT
*
1120776 TTCTTT-TA
1 TT-TTTATT
1120784 TTTTTATT
1 TTTTTATT
1120792 CTCTTTT-TT
1 -T-TTTTATT
1120801 CTTTTTATCT
1 -TTTTTAT-T
1120811 TCCTTTTATT
1 T--TTTTATT
1120821 TGTTTTATT
1 T-TTTTATT
*
1120830 TATTTATT
1 TTTTTATT
*
1120838 TATTTA
1 TTTTTA
1120844 CATTATCATC
Statistics
Matches: 68, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
7 3 0.04
8 35 0.51
9 17 0.25
10 7 0.10
11 6 0.09
ACGTcount: A:0.14, C:0.09, G:0.01, T:0.76
Consensus pattern (8 bp):
TTTTTATT
Found at i:1120808 original size:24 final size:24
Alignment explanation
Indices: 1120760--1120805 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
1120750 TGTTTTTATT
1120760 TTTTTATTTATCTATTTTCTTTTA
1 TTTTTATTTATCTATTTTCTTTTA
* *
1120784 TTTTTA-TTCTCTTTTTTCTTTT
1 TTTTTATTTATCTATTTTCTTTT
1120806 TATCTTCCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTTTATTTATCTATTTTCTTTTA
Found at i:1120930 original size:16 final size:16
Alignment explanation
Indices: 1120896--1120946 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
1120886 GTTAGTGTTA
* *
1120896 TTATTTTTATAGTCACT
1 TTATTTTTTTA-TTACT
1120913 TTATTTTTTATATT-CT
1 TTATTTTTT-TATTACT
1120929 TTATTTTTTTATTACT
1 TTATTTTTTTATTACT
1120945 TT
1 TT
1120947 CCTTATTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 4 0.13
16 15 0.50
17 9 0.30
18 2 0.07
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.71
Consensus pattern (16 bp):
TTATTTTTTTATTACT
Found at i:1121952 original size:2 final size:2
Alignment explanation
Indices: 1121945--1122001 Score: 100
Period size: 2 Copynumber: 29.5 Consensus size: 2
1121935 AATAAGATTT
1121945 TA TA TA TA TA -A 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
1121986 TA TA TA TA T- TA TA TA T
1 TA TA TA TA TA TA TA TA T
1122002 CCAACTATTA
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 51 0.96
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1122939 original size:15 final size:16
Alignment explanation
Indices: 1122911--1122940 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1122901 ATAATTGAAG
1122911 GAATCAAAATTATAAC
1 GAATCAAAATTATAAC
1122927 GAATCAAAA-TATAA
1 GAATCAAAATTATAA
1122941 AGTGAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.60, C:0.10, G:0.07, T:0.23
Consensus pattern (16 bp):
GAATCAAAATTATAAC
Found at i:1124770 original size:16 final size:16
Alignment explanation
Indices: 1124749--1124779 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1124739 ATAAATAAAT
*
1124749 GAACATAAACGAACAC
1 GAACATAAACAAACAC
1124765 GAACATAAACAAACA
1 GAACATAAACAAACA
1124780 AAATGTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.23, G:0.10, T:0.06
Consensus pattern (16 bp):
GAACATAAACAAACAC
Found at i:1124873 original size:16 final size:16
Alignment explanation
Indices: 1124852--1124920 Score: 84
Period size: 16 Copynumber: 4.3 Consensus size: 16
1124842 TAAATAAACG
1124852 AACATAAACGAACACA
1 AACATAAACGAACACA
*
1124868 AACATAAACGAACACG
1 AACATAAACGAACACA
* * *
1124884 AACATAAATGAATACG
1 AACATAAACGAACACA
* *
1124900 AACATAAACAAACATA
1 AACATAAACGAACACA
1124916 AACAT
1 AACAT
1124921 TGGAGACCCT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.61, C:0.20, G:0.07, T:0.12
Consensus pattern (16 bp):
AACATAAACGAACACA
Found at i:1124885 original size:32 final size:32
Alignment explanation
Indices: 1124849--1124913 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
1124839 TAATAAATAA
*
1124849 ACGAACATAAACGAACACAAACATAAACGAAC
1 ACGAACATAAACGAACACAAACATAAACAAAC
* * *
1124881 ACGAACATAAATGAATACGAACATAAACAAAC
1 ACGAACATAAACGAACACAAACATAAACAAAC
1124913 A
1 A
1124914 TAAACATTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.60, C:0.22, G:0.09, T:0.09
Consensus pattern (32 bp):
ACGAACATAAACGAACACAAACATAAACAAAC
Found at i:1125613 original size:24 final size:24
Alignment explanation
Indices: 1125578--1125646 Score: 104
Period size: 24 Copynumber: 2.9 Consensus size: 24
1125568 GATTGGCTTA
*
1125578 AACATAAATGAATCAACATAAACG
1 AACATAACTGAATCAACATAAACG
1125602 AACATAACTGAA-CAAACATAAACG
1 AACATAACTGAATC-AACATAAACG
*
1125626 AACATAACTGAATGAACATAA
1 AACATAACTGAATCAACATAA
1125647 CTGAACGTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.02
24 40 0.98
ACGTcount: A:0.58, C:0.17, G:0.09, T:0.16
Consensus pattern (24 bp):
AACATAACTGAATCAACATAAACG
Found at i:1125621 original size:14 final size:14
Alignment explanation
Indices: 1125598--1125653 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
1125588 AATCAACATA
1125598 AACGAACATAACTG
1 AACGAACATAACTG
*
1125612 AACAAACAT-A---
1 AACGAACATAACTG
1125622 AACGAACATAACTG
1 AACGAACATAACTG
*
1125636 AATGAACATAACTG
1 AACGAACATAACTG
1125650 AACG
1 AACG
1125654 TTTCACGAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
10 8 0.24
11 1 0.03
13 1 0.03
14 24 0.71
ACGTcount: A:0.54, C:0.20, G:0.12, T:0.14
Consensus pattern (14 bp):
AACGAACATAACTG
Found at i:1126596 original size:2 final size:2
Alignment explanation
Indices: 1126591--1126641 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
1126581 AAAATTTAGG
1126591 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1126633 TA TA TA TA T
1 TA TA TA TA T
1126642 GGACGAGTTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1127067 original size:2 final size:2
Alignment explanation
Indices: 1127062--1127130 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
1127052 TTTTTTTGTT
1127062 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1127104 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1127131 TTCAAATGTA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1128204 original size:8 final size:8
Alignment explanation
Indices: 1128170--1128283 Score: 52
Period size: 8 Copynumber: 12.9 Consensus size: 8
1128160 CGACCTCCAA
1128170 ATAAACTAT
1 ATAAA-TAT
1128179 ATAAATAAAT
1 ATAAAT--AT
1128189 AGTAAATAT
1 A-TAAATAT
1128198 ATAAATAAAT
1 ATAAAT--AT
*
1128208 AGTAAACAT
1 A-TAAATAT
1128217 ATAAATAAAT
1 ATAAAT--AT
1128227 AGTAAAT-T
1 A-TAAATAT
1128235 ATATAAT-T
1 ATA-AATAT
1128243 ATAAATGAAT
1 ATAAAT--AT
*
1128253 ATATATAT
1 ATAAATAT
*
1128261 ATATATAT
1 ATAAATAT
* *
1128269 ATATATAG
1 ATAAATAT
1128277 ATAAATA
1 ATAAATA
1128284 GTAAATCAAT
Statistics
Matches: 87, Mismatches: 5, Indels: 27
0.73 0.04 0.23
Matches are distributed among these distances:
7 5 0.06
8 42 0.48
9 11 0.13
10 15 0.17
11 14 0.16
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (8 bp):
ATAAATAT
Found at i:1128206 original size:23 final size:19
Alignment explanation
Indices: 1128171--1128289 Score: 129
Period size: 19 Copynumber: 6.3 Consensus size: 19
1128161 GACCTCCAAA
1128171 TAAACTATATAAATAAATAG
1 TAAA-TATATAAATAAATAG
1128191 TAAATATATAAATAAATAG
1 TAAATATATAAATAAATAG
*
1128210 TAAACATATAAATAAATAG
1 TAAATATATAAATAAATAG
1128229 TAAATTATATAATTATAAAT-G
1 TAAA-TATATAA--ATAAATAG
* *
1128250 --AATATATATATATATA-
1 TAAATATATAAATAAATAG
* *
1128266 TATATATATAGATAAATAG
1 TAAATATATAAATAAATAG
1128285 TAAAT
1 TAAAT
1128290 CAATATTATA
Statistics
Matches: 84, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
16 5 0.06
18 19 0.23
19 43 0.51
20 10 0.12
21 1 0.01
22 6 0.07
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (19 bp):
TAAATATATAAATAAATAG
Found at i:1128256 original size:2 final size:2
Alignment explanation
Indices: 1128251--1128275 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1128241 TTATAAATGA
1128251 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1128276 GATAAATAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1130462 original size:2 final size:2
Alignment explanation
Indices: 1130457--1130499 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
1130447 TAATACTCTA
* *
1130457 AT AT AT AT AT AT AT AT AT GT TT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1130499 A
1 A
1130500 CAATTATCTC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1131776 original size:22 final size:22
Alignment explanation
Indices: 1131751--1131801 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
1131741 TCTACTTTTT
1131751 TCCCCTCGAACTCCTCTTTAAA
1 TCCCCTCGAACTCCTCTTTAAA
****
1131773 TCCCCTTCTCTTTCCTCTTTAAA
1 TCCCC-TCGAACTCCTCTTTAAA
1131796 TCCCCT
1 TCCCCT
1131802 TCTCTTTCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.16, C:0.43, G:0.02, T:0.39
Consensus pattern (22 bp):
TCCCCTCGAACTCCTCTTTAAA
Found at i:1131790 original size:23 final size:23
Alignment explanation
Indices: 1131762--1131809 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
1131752 CCCCTCGAAC
1131762 TCCTCTTTAAATCCCCTTCTCTT
1 TCCTCTTTAAATCCCCTTCTCTT
1131785 TCCTCTTTAAATCCCCTTCTCTT
1 TCCTCTTTAAATCCCCTTCTCTT
1131808 TC
1 TC
1131810 TATTGATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.12, C:0.40, G:0.00, T:0.48
Consensus pattern (23 bp):
TCCTCTTTAAATCCCCTTCTCTT
Found at i:1132074 original size:15 final size:16
Alignment explanation
Indices: 1132054--1132083 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1132044 CGGCGACTGG
1132054 AAACCCTAGG-GTTTC
1 AAACCCTAGGTGTTTC
1132069 AAACCCTAGGTGTTT
1 AAACCCTAGGTGTTT
1132084 AGCTCTGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (16 bp):
AAACCCTAGGTGTTTC
Found at i:1132219 original size:3 final size:3
Alignment explanation
Indices: 1132196--1132254 Score: 95
Period size: 3 Copynumber: 20.0 Consensus size: 3
1132186 GTAACCTGAA
1132196 AAT AA- AAT AAT AA- AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
1132240 AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT
1132255 GGTTTCCAGA
Statistics
Matches: 53, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
2 4 0.08
3 46 0.87
4 3 0.06
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1133272 original size:21 final size:21
Alignment explanation
Indices: 1133248--1133287 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1133238 TTAAAAATTA
1133248 TAAAGGTA-TACCAATACTCAT
1 TAAAGG-AGTACCAATACTCAT
*
1133269 TAAAGGAGTACCGATACTC
1 TAAAGGAGTACCAATACTC
1133288 CATGTCCTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (21 bp):
TAAAGGAGTACCAATACTCAT
Found at i:1138338 original size:19 final size:18
Alignment explanation
Indices: 1138300--1138335 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1138290 AAATTAAAAA
1138300 AATATATAAAAATATTAT
1 AATATATAAAAATATTAT
*
1138318 AATATATTAAAAT-TTAT
1 AATATATAAAAATATTAT
1138335 A
1 A
1138336 TAAAATATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AATATATAAAAATATTAT
Found at i:1138956 original size:13 final size:13
Alignment explanation
Indices: 1138938--1138963 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1138928 AGTTTCATAA
1138938 CAGCATAACAGAT
1 CAGCATAACAGAT
1138951 CAGCATAACAGAT
1 CAGCATAACAGAT
1138964 TATTAAGCAG
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:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (13 bp):
CAGCATAACAGAT
Found at i:1143526 original size:13 final size:13
Alignment explanation
Indices: 1143508--1143532 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1143498 AGTTTCATAA
1143508 CAGCATAACAGAT
1 CAGCATAACAGAT
1143521 CAGCATAACAGA
1 CAGCATAACAGA
1143533 CTATTAACCA
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:0.48, C:0.24, G:0.16, T:0.12
Consensus pattern (13 bp):
CAGCATAACAGAT
Found at i:1145399 original size:14 final size:14
Alignment explanation
Indices: 1145380--1145437 Score: 70
Period size: 14 Copynumber: 4.4 Consensus size: 14
1145370 AAACCAAGTT
1145380 GCTTTGCTTTCATA
1 GCTTTGCTTTCATA
*
1145394 GCTTTGCTTTCTTA
1 GCTTTGCTTTCATA
1145408 GCTTATG-TTT-AT-
1 GCTT-TGCTTTCATA
1145420 G-TTTGCTTTCATA
1 GCTTTGCTTTCATA
1145433 GCTTT
1 GCTTT
1145438 AGTTTATGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
10 2 0.05
11 5 0.14
12 3 0.08
13 2 0.05
14 23 0.62
15 2 0.05
ACGTcount: A:0.12, C:0.17, G:0.16, T:0.55
Consensus pattern (14 bp):
GCTTTGCTTTCATA
Found at i:1145424 original size:25 final size:25
Alignment explanation
Indices: 1145396--1145448 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 25
1145386 CTTTCATAGC
*
1145396 TTTGCTTTCTTAGC-TTATGTTTATG
1 TTTGCTTTCATAGCTTTA-GTTTATG
1145421 TTTGCTTTCATAGCTTTAGTTTATG
1 TTTGCTTTCATAGCTTTAGTTTATG
1145446 TTT
1 TTT
1145449 TCATAGCCTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 23 0.88
26 3 0.12
ACGTcount: A:0.13, C:0.11, G:0.15, T:0.60
Consensus pattern (25 bp):
TTTGCTTTCATAGCTTTAGTTTATG
Found at i:1163072 original size:40 final size:40
Alignment explanation
Indices: 1163008--1163117 Score: 109
Period size: 40 Copynumber: 2.7 Consensus size: 40
1162998 GCGATCGATA
* *
1163008 ATTCGCAACGCGATCTCCGGTATCGCAAAT-C-AGTTTCCAG
1 ATTCGCAACGCGAT-TCTGCTATCGCAAATGCGAGTTTCC-G
* *
1163048 ATTCGCAACGCGATTCTGACTATCGC-ATTGCGATTTTCCG
1 ATTCGCAACGCGATTCTG-CTATCGCAAATGCGAGTTTCCG
1163088 ACTATCGCAACGCGATTCTGGCTATCGCAA
1 A-T-TCGCAACGCGATTCT-GCTATCGCAA
1163118 CGCGATGCTG
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
39 5 0.08
40 23 0.39
41 7 0.12
42 22 0.37
43 2 0.03
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (40 bp):
ATTCGCAACGCGATTCTGCTATCGCAAATGCGAGTTTCCG
Found at i:1163073 original size:20 final size:20
Alignment explanation
Indices: 1163050--1163144 Score: 118
Period size: 20 Copynumber: 4.7 Consensus size: 20
1163040 GTTTCCAGAT
1163050 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
** *
1163070 TCGCATTGCGATTTTCCGACTA
1 TCGCAACGCGA--TTCTGACTA
*
1163092 TCGCAACGCGATTCTGGCTA
1 TCGCAACGCGATTCTGACTA
*
1163112 TCGCAACGCGATGCTGACTA
1 TCGCAACGCGATTCTGACTA
*
1163132 TCGCAATGCGATT
1 TCGCAACGCGATT
1163145 TTCAAAGCGT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
20 45 0.73
22 17 0.27
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.27
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTA
Found at i:1163123 original size:42 final size:40
Alignment explanation
Indices: 1163050--1163144 Score: 118
Period size: 42 Copynumber: 2.3 Consensus size: 40
1163040 GTTTCCAGAT
** *
1163050 TCGCAACGCGATTCTGACTATCGCATTGCGATTTTCCGACTA
1 TCGCAACGCGATTCTGACTATCGCAACGCGA--TGCCGACTA
* *
1163092 TCGCAACGCGATTCTGGCTATCGCAACGCGATGCTGACTA
1 TCGCAACGCGATTCTGACTATCGCAACGCGATGCCGACTA
*
1163132 TCGCAATGCGATT
1 TCGCAACGCGATT
1163145 TTCAAAGCGT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 19 0.40
42 28 0.60
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.27
Consensus pattern (40 bp):
TCGCAACGCGATTCTGACTATCGCAACGCGATGCCGACTA
Found at i:1163346 original size:22 final size:22
Alignment explanation
Indices: 1163321--1163362 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1163311 GGCGACATCC
1163321 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
* *
1163343 GTCCCCATCTCTGGCGAAAT
1 GTCCCCATCTCCGACGAAAT
1163363 TCGTCTATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.38, G:0.17, T:0.21
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:1163815 original size:20 final size:20
Alignment explanation
Indices: 1163750--1163817 Score: 93
Period size: 20 Copynumber: 3.5 Consensus size: 20
1163740 AGAATCGCAA
* *
1163750 TGCGATTTT-AGTTTCGCGT
1 TGCGATTTTCATTTTCGTGT
**
1163769 TGCGATAGTCATTTTCGTGT
1 TGCGATTTTCATTTTCGTGT
1163789 TGCGATTTTCATTTTCGTGT
1 TGCGATTTTCATTTTCGTGT
1163809 TGCGATTTT
1 TGCGATTTT
1163818 AAGTTTCAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
19 7 0.17
20 35 0.83
ACGTcount: A:0.12, C:0.15, G:0.24, T:0.50
Consensus pattern (20 bp):
TGCGATTTTCATTTTCGTGT
Found at i:1164012 original size:25 final size:26
Alignment explanation
Indices: 1163958--1164012 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
1163948 TTATGTTTAT
* *
1163958 TGTTCTTGGTATATCTTCACATTGTA
1 TGTTTTTGGTATATCTTAACATTGTA
1163984 -GTTTTTGGTATATC-TAAC-TTGGTA
1 TGTTTTTGGTATATCTTAACATT-GTA
1164008 TGTTT
1 TGTTT
1164013 ATTGCTTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 2 0.08
24 6 0.24
25 17 0.68
ACGTcount: A:0.18, C:0.11, G:0.18, T:0.53
Consensus pattern (26 bp):
TGTTTTTGGTATATCTTAACATTGTA
Found at i:1165246 original size:20 final size:20
Alignment explanation
Indices: 1165221--1165265 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1165211 TTTACTTTCG
1165221 CAACGCGAAAATGACTATCA
1 CAACGCGAAAATGACTATCA
** *
1165241 CAACGCGAATTTGACTATCG
1 CAACGCGAAAATGACTATCA
1165261 CAACG
1 CAACG
1165266 AAAGAATCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.27, G:0.18, T:0.18
Consensus pattern (20 bp):
CAACGCGAAAATGACTATCA
Found at i:1165354 original size:18 final size:19
Alignment explanation
Indices: 1165308--1165354 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
1165298 GCGATTCTCT
1165308 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA-TTTCG
*
1165328 CGTTACGATAGTCA-TTCG
1 CGTTGCGATAGTCATTTCG
*
1165346 TGTTGCGAT
1 CGTTGCGAT
1165355 TTTAAGTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 11 0.46
20 13 0.54
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:1167361 original size:14 final size:14
Alignment explanation
Indices: 1167342--1167378 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1167332 TTGCTTATTT
1167342 AATTGATTTATAAA
1 AATTGATTTATAAA
1167356 AATTGATTTATAAA
1 AATTGATTTATAAA
*
1167370 AGTTGATTT
1 AATTGATTT
1167379 GTTTAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (14 bp):
AATTGATTTATAAA
Found at i:1167540 original size:20 final size:20
Alignment explanation
Indices: 1167517--1167555 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1167507 ACGCTAAACT
*
1167517 CAAAATCGCAATGCGAAAGA
1 CAAAATCACAATGCGAAAGA
1167537 CAAAATCACAATGCGAAAG
1 CAAAATCACAATGCGAAAG
1167556 TCAATTCACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.21, G:0.18, T:0.10
Consensus pattern (20 bp):
CAAAATCACAATGCGAAAGA
Found at i:1167625 original size:20 final size:20
Alignment explanation
Indices: 1167600--1167876 Score: 221
Period size: 20 Copynumber: 14.8 Consensus size: 20
1167590 GATTTTCTCA
* *
1167600 TTGCGATAGTCAAATACCCG
1 TTGCGATAGTCAAATTCGCG
*
1167620 TTGCGATAATCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
**
1167640 TTGCGATAGTCAAATTTTCG
1 TTGCGATAGTCAAATTCGCG
*
1167660 TTGCGAT--T----TTCTCG
1 TTGCGATAGTCAAATTCGCG
* * *
1167674 TTGCGTTAGTCAAATACCCG
1 TTGCGATAGTCAAATTCGCG
* *
1167694 TTGCGATAATCAAATTTGCG
1 TTGCGATAGTCAAATTCGCG
1167714 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
* *
1167734 TTGCGATAGACAAATTTGCG
1 TTGCGATAGTCAAATTCGCG
*
1167754 TTGCGAT--T----TTTGCG
1 TTGCGATAGTCAAATTCGCG
* * *
1167768 TTGCCATAGTCATATTCGTG
1 TTGCGATAGTCAAATTCGCG
*
1167788 TTGCAATAGTCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
* *
1167808 TTGCGAT--T----TTTGAG
1 TTGCGATAGTCAAATTCGCG
* *
1167822 TTGCGATAATCAAATTCGTG
1 TTGCGATAGTCAAATTCGCG
1167842 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCAAATTCGCG
*
1167862 TTGCGATATTCAAAT
1 TTGCGATAGTCAAAT
1167877 GAATGTGTAA
Statistics
Matches: 205, Mismatches: 34, Indels: 36
0.75 0.12 0.13
Matches are distributed among these distances:
14 34 0.17
16 3 0.01
18 2 0.01
20 166 0.81
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCG
Found at i:1167643 original size:74 final size:74
Alignment explanation
Indices: 1167558--1167876 Score: 302
Period size: 74 Copynumber: 4.3 Consensus size: 74
1167548 TGCGAAAGTC
* * * *
1167558 AATTCACGTTGCGATAGTCTAATACGCTTTGCGATTTTCTCATTGCGATAGTCAAATACCCGTTG
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCATTGCGATAGTCAAATACCCGTTG
1167623 CGATAATCA
66 CGATAATCA
** * *
1167632 AATTCGCGTTGCGATAGTCAAATTTTCGTTGCGATTTTCTCGTTGCGTTAGTCAAATACCCGTTG
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCATTGCGATAGTCAAATACCCGTTG
1167697 CGATAATCA
66 CGATAATCA
* *** ** * ** ***
1167706 AATTTGCGTTGCGATAGTCAAATTCGCGTTGCGATAGACAAATTTGCG-TTG-CGATTTTTGCGT
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCA-TTGCGATAGTC-AAATACCCGT
* *
1167769 TGCCATAGTCA
64 TGCGATAATCA
* * * * * * **
1167780 TATTCGTGTTGCAATAGTCAAATTCGCGTTGCGATTTT-TGAGTTGCGATAATCAAATTCGTGTT
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCA-TTGCGATAGTCAAATACCCGTT
*
1167844 GCGATAGTCA
65 GCGATAATCA
*
1167854 AATTCGCGTTGCGATATTCAAAT
1 AATTCGCGTTGCGATAGTCAAAT
1167877 GAATGTGTAA
Statistics
Matches: 195, Mismatches: 46, Indels: 8
0.78 0.18 0.03
Matches are distributed among these distances:
73 7 0.04
74 182 0.93
75 6 0.03
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (74 bp):
AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCATTGCGATAGTCAAATACCCGTTG
CGATAATCA
Found at i:1167644 original size:54 final size:53
Alignment explanation
Indices: 1167548--1167868 Score: 227
Period size: 54 Copynumber: 5.9 Consensus size: 53
1167538 AAAATCACAA
* * * * *
1167548 TGCGAAAGTC-AATTCACGTTGCGATAGTCTAATACGCTTTGCGATTTTCTCAT
1 TGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTT-TCAT
* * * **
1167601 TGCGATAGTCAAATACCCGTTGCGATAATCAAATTCGCGTTGCGA-TAGTCAAATT
1 TGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTTC--A-T
* * ** * * * * *
1167656 TTCG-TTG-CGATTTTCTCGTTGCGTTAGTCAAATACCCGTTGCGATAATCAAATTTGCGT
1 TGCGATAGTC-AAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT--T----TTT-CAT
* * *
1167715 TGCGATAGTCAAATTCGCGTTGCGATAGACAAATTTGCGTTGCGATTTTTGCGT
1 TGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTT-CAT
* * * * *
1167769 TGCCATAGTCATATTCGTGTTGCAATAGTCAAATTCGCGTTGCGATTTTTGAGT
1 TGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTTCA-T
* *
1167823 TGCGATAATCAAATTCGTGTTGCGATAGTCAAATTCGCGTTGCGAT
1 TGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT
1167869 ATTCAAATGA
Statistics
Matches: 208, Mismatches: 44, Indels: 31
0.73 0.16 0.11
Matches are distributed among these distances:
52 2 0.01
53 11 0.05
54 152 0.73
55 4 0.02
57 1 0.00
58 1 0.00
59 4 0.02
60 30 0.14
61 2 0.01
62 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (53 bp):
TGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTTCAT
Found at i:1167696 original size:34 final size:34
Alignment explanation
Indices: 1167564--1167700 Score: 139
Period size: 34 Copynumber: 3.9 Consensus size: 34
1167554 AGTCAATTCA
* * *
1167564 CGTTGCGATAGTCTAATACGCTTTGCGATTTTCT
1 CGTTGCGATAGTCAAATACCCGTTGCGATTTTCT
* *
1167598 CATTGCGATAGTCAAATACCCGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATACCCGTTGCGAT--T----TTCT
***
1167638 CGTTGCGATAGTCAAATTTTCGTTGCGATTTTCT
1 CGTTGCGATAGTCAAATACCCGTTGCGATTTTCT
*
1167672 CGTTGCGTTAGTCAAATACCCGTTGCGAT
1 CGTTGCGATAGTCAAATACCCGTTGCGAT
1167701 AATCAAATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
34 53 0.64
36 1 0.01
38 1 0.01
40 28 0.34
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (34 bp):
CGTTGCGATAGTCAAATACCCGTTGCGATTTTCT
Found at i:1167778 original size:94 final size:94
Alignment explanation
Indices: 1167600--1167814 Score: 288
Period size: 94 Copynumber: 2.3 Consensus size: 94
1167590 GATTTTCTCA
* * * *
1167600 TTGCGATAGTCAAATACCCGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTTTCGTTGCG
1 TTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCGCGTTGCGATAGACAAATTTGCGTTGCG
**
1167665 ATTTTCTCGTTGCGTTAGTCAAATACCCG
66 ATTTTCTCGTTGCCATAGTCAAATACCCG
* * *
1167694 TTGCGATAATCAAATTTGCGTTGCGATAGTCAAATTCGCGTTGCGATAGACAAATTTGCGTTGCG
1 TTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCGCGTTGCGATAGACAAATTTGCGTTGCG
* * **
1167759 ATTTT-TGCGTTGCCATAGTCATATTCGTG
66 ATTTTCT-CGTTGCCATAGTCAAATACCCG
*
1167788 TTGCAATAGTCAAATTCGCGTTGCGAT
1 TTGCGATAGTCAAATTCGCGTTGCGAT
1167815 TTTTGAGTTG
Statistics
Matches: 104, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
93 1 0.01
94 103 0.99
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (94 bp):
TTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCGCGTTGCGATAGACAAATTTGCGTTGCG
ATTTTCTCGTTGCCATAGTCAAATACCCG
Found at i:1168099 original size:140 final size:140
Alignment explanation
Indices: 1167847--1168116 Score: 477
Period size: 140 Copynumber: 1.9 Consensus size: 140
1167837 TCGTGTTGCG
* * * *
1167847 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTAATAACAACTGAACATATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATCAATGTGTAATAAGTAATAACAACTAAACAGATAA
*
1167912 TAGCAATGTTCAAACTCAAGTTACTAATACATGTCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
1167977 AATACACATA
131 AATACACATA
* *
1167987 ATAGTCAAATTCGCGTTGTGATATTCAAATCAATGTGTAATAAGTGATAACAACTAAACAGATAA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATCAATGTGTAATAAGTAATAACAACTAAACAGATAA
1168052 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
1168117 TACAATGTTT
Statistics
Matches: 123, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
140 123 1.00
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (140 bp):
ATAGTCAAATTCGCGTTGCGATATTCAAATCAATGTGTAATAAGTAATAACAACTAAACAGATAA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:1168197 original size:18 final size:18
Alignment explanation
Indices: 1168171--1168211 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
1168161 AGGTGAAGCC
*
1168171 GATTGTGATTGGGATTTT
1 GATTGTGATTGCGATTTT
*
1168189 GATTTTGATTGCGATTTT
1 GATTGTGATTGCGATTTT
1168207 GATTG
1 GATTG
1168212 CCTTTTTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.17, C:0.02, G:0.29, T:0.51
Consensus pattern (18 bp):
GATTGTGATTGCGATTTT
Found at i:1170266 original size:14 final size:14
Alignment explanation
Indices: 1170247--1170273 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1170237 TCTCGTGGCA
1170247 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
1170261 TTTTCTTCGGGGA
1 TTTTCTTCGGGGA
1170274 TTTCTTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.19, G:0.30, T:0.44
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:1170279 original size:12 final size:13
Alignment explanation
Indices: 1170248--1170280 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
1170238 CTCGTGGCAT
1170248 TTTCTTCGGGGAC
1 TTTCTTCGGGGAC
1170261 TTTTCTTCGGGGA-
1 -TTTCTTCGGGGAC
1170274 TTTCTTC
1 TTTCTTC
1170281 TTTTTCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
14 12 0.63
ACGTcount: A:0.06, C:0.21, G:0.24, T:0.48
Consensus pattern (13 bp):
TTTCTTCGGGGAC
Done.