Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008523.1 Hibiscus syriacus cultivar Beakdansim tig00111392_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: 4657139
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 18
Found at i:3712118 original size:7 final size:7
Alignment explanation
Indices: 3712102--3712132 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
3712092 GTCAAAGGAA
3712102 GTCAACG
1 GTCAACG
*
3712109 GTCAATG
1 GTCAACG
3712116 GTCAACG
1 GTCAACG
3712123 GTCAACG
1 GTCAACG
3712130 GTC
1 GTC
3712133 GGGTCGGGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.19
Consensus pattern (7 bp):
GTCAACG
Found at i:3712144 original size:17 final size:17
Alignment explanation
Indices: 3712122--3712181 Score: 75
Period size: 17 Copynumber: 3.4 Consensus size: 17
3712112 AATGGTCAAC
*
3712122 GGTCAACGGTCGGGTCG
1 GGTCAACAGTCGGGTCG
3712139 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
**
3712156 GGTCGGGTCAGTCGGGTCG
1 GGTC--AACAGTCGGGTCG
3712175 GGTCAAC
1 GGTCAAC
3712182 CCGGTTCAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 21 0.58
19 15 0.42
ACGTcount: A:0.13, C:0.23, G:0.45, T:0.18
Consensus pattern (17 bp):
GGTCAACAGTCGGGTCG
Found at i:3712157 original size:22 final size:19
Alignment explanation
Indices: 3712129--3712178 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 19
3712119 AACGGTCAAC
3712129 GGTCGGGTCGGGTCAACAGTCG
1 GGTCGGGTCGGGT---CAGTCG
3712151 GGTCGGGTCGGGTCAGTCG
1 GGTCGGGTCGGGTCAGTCG
3712170 GGTCGGGTC
1 GGTCGGGTC
3712179 AACCCGGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 15 0.54
22 13 0.46
ACGTcount: A:0.08, C:0.22, G:0.50, T:0.20
Consensus pattern (19 bp):
GGTCGGGTCGGGTCAGTCG
Found at i:3712171 original size:14 final size:14
Alignment explanation
Indices: 3712152--3712179 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3712142 CAACAGTCGG
3712152 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
3712166 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
3712180 ACCCGGTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.21, G:0.50, T:0.21
Consensus pattern (14 bp):
GTCGGGTCGGGTCA
Found at i:3712197 original size:19 final size:18
Alignment explanation
Indices: 3712175--3712253 Score: 77
Period size: 19 Copynumber: 4.2 Consensus size: 18
3712165 AGTCGGGTCG
* *
3712175 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGG-TCAAACC
3712194 GGTCAAACCGGTCAAACC
1 GGTCAAACCGGTCAAACC
*
3712212 GGTTCAGACCGGTCAAACC
1 GG-TCAAACCGGTCAAACC
* *
3712231 GGTTTAAAACTGGTCAAACC
1 GG--TCAAACCGGTCAAACC
3712251 GGT
1 GGT
3712254 TTTCCAGAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
18 9 0.17
19 27 0.52
20 16 0.31
ACGTcount: A:0.28, C:0.29, G:0.25, T:0.18
Consensus pattern (18 bp):
GGTCAAACCGGTCAAACC
Found at i:3712205 original size:9 final size:9
Alignment explanation
Indices: 3712175--3712253 Score: 77
Period size: 9 Copynumber: 8.3 Consensus size: 9
3712165 AGTCGGGTCG
*
3712175 GGTCAACCC
1 GGTCAAACC
*
3712184 GGTTCAGACC
1 GG-TCAAACC
3712194 GGTCAAACC
1 GGTCAAACC
3712203 GGTCAAACC
1 GGTCAAACC
*
3712212 GGTTCAGACC
1 GG-TCAAACC
3712222 GGTCAAACC
1 GGTCAAACC
* *
3712231 GGTTTAAAACT
1 GG--TCAAACC
3712242 GGTCAAACC
1 GGTCAAACC
3712251 GGT
1 GGT
3712254 TTTCCAGAAG
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
9 35 0.61
10 15 0.26
11 7 0.12
ACGTcount: A:0.28, C:0.29, G:0.25, T:0.18
Consensus pattern (9 bp):
GGTCAAACC
Found at i:3712215 original size:28 final size:28
Alignment explanation
Indices: 3712175--3712233 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
3712165 AGTCGGGTCG
*
3712175 GGTCAACCCGGTTCAGACCGGTCAAACC
1 GGTCAAACCGGTTCAGACCGGTCAAACC
3712203 GGTCAAACCGGTTCAGACCGGTCAAACC
1 GGTCAAACCGGTTCAGACCGGTCAAACC
3712231 GGT
1 GGT
3712234 TTAAAACTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.25, C:0.32, G:0.27, T:0.15
Consensus pattern (28 bp):
GGTCAAACCGGTTCAGACCGGTCAAACC
Found at i:3713149 original size:3 final size:3
Alignment explanation
Indices: 3713141--3713189 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
3713131 ACTTGTAATT
* * *
3713141 TAA TAA TAA GAA TAA TAA -AA TAA TAG TAA TAA TAA TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3713188 TA
1 TA
3713190 GTTAAAATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:3713198 original size:15 final size:15
Alignment explanation
Indices: 3713141--3713198 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 15
3713131 ACTTGTAATT
3713141 TAATAA-TAAGAATAA
1 TAATAATTAA-AATAA
*
3713156 TAA-AA-TAATAGTAA
1 TAATAATTAA-AATAA
*
3713170 TAATAATTATAATAA
1 TAATAATTAAAATAA
*
3713185 TAATAGTTAAAATA
1 TAATAATTAAAATA
3713199 TAAACAAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
14 12 0.34
15 21 0.60
16 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (15 bp):
TAATAATTAAAATAA
Found at i:3725475 original size:27 final size:27
Alignment explanation
Indices: 3725437--3725488 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
3725427 ATTTTCACGG
* *
3725437 GATCTCTGATCATGACCGAGAAATCCA
1 GATCTCTCATCATAACCGAGAAATCCA
3725464 GATCTCTCATCATAACCGAGAAATC
1 GATCTCTCATCATAACCGAGAAATC
3725489 TGCCTGGATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (27 bp):
GATCTCTCATCATAACCGAGAAATCCA
Found at i:3733636 original size:12 final size:12
Alignment explanation
Indices: 3733602--3733639 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
3733592 TTGTTCTTGC
**
3733602 TCCTCGGGCTAC
1 TCCTCGGGCTGT
3733614 TCCTCGGGCTGT
1 TCCTCGGGCTGT
3733626 TCCTCGGGCTGT
1 TCCTCGGGCTGT
3733638 TC
1 TC
3733640 AGGCTCATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.03, C:0.37, G:0.29, T:0.32
Consensus pattern (12 bp):
TCCTCGGGCTGT
Found at i:3735354 original size:20 final size:20
Alignment explanation
Indices: 3735325--3735362 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3735315 CCCCTTCAAA
*
3735325 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
3735345 GGGGGTATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
3735363 TGCACCAAAA
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:0.13, C:0.26, G:0.34, T:0.26
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:3739213 original size:22 final size:21
Alignment explanation
Indices: 3739171--3739210 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3739161 GAGTTTATTT
*
3739171 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
3739192 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
3739211 ACAATTTCTC
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:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:3743448 original size:20 final size:20
Alignment explanation
Indices: 3743423--3743465 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
3743413 TCTAAGAGCC
* *
3743423 CATTTAGGATCATTTAGATG
1 CATTTAGGAGCATATAGATG
*
3743443 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
3743463 CAT
1 CAT
3743466 GAGGTGGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:3743736 original size:27 final size:27
Alignment explanation
Indices: 3743698--3743749 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
3743688 TTTTCACGGG
*
3743698 ATCTCTGATCATGACCGAGAAATCCGA
1 ATCTCTGATCATAACCGAGAAATCCGA
3743725 ATCTCTGATCATAACCGAGAAATCC
1 ATCTCTGATCATAACCGAGAAATCC
3743750 ACCTGGATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (27 bp):
ATCTCTGATCATAACCGAGAAATCCGA
Found at i:3749839 original size:14 final size:14
Alignment explanation
Indices: 3749816--3749849 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
3749806 TAGGACCGTC
*
3749816 AGATGGGTGAAAAT
1 AGATGAGTGAAAAT
3749830 AGATGAGTGAAAAT
1 AGATGAGTGAAAAT
3749844 AGATGA
1 AGATGA
3749850 CTGAGATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.32, T:0.21
Consensus pattern (14 bp):
AGATGAGTGAAAAT
Found at i:3754051 original size:31 final size:32
Alignment explanation
Indices: 3754013--3754092 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 32
3754003 GGGTCGAGGG
*
3754013 TTTACCTATGTTCTTCGGGATATATGAACT-A
1 TTTACCTATGTTCTTCGGGACATATGAACTGA
* *
3754044 TTTACCTATGTTCTTCGAGACATATGGACTGA
1 TTTACCTATGTTCTTCGGGACATATGAACTGA
*
3754076 -TTACCTAGGTTCTTCGG
1 TTTACCTATGTTCTTCGG
3754093 AATCTATGGA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
31 42 0.98
32 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (32 bp):
TTTACCTATGTTCTTCGGGACATATGAACTGA
Found at i:3754101 original size:31 final size:32
Alignment explanation
Indices: 3754013--3754105 Score: 104
Period size: 31 Copynumber: 3.0 Consensus size: 32
3754003 GGGTCGAGGG
* * *
3754013 TTTACCTATGTTCTTCGGGATATATGAACT-A
1 TTTACCTATGTTCTTCGGAATCTATGGACTGA
3754044 TTTACCTATGTTCTTC-GAGA-CATATGGACTGA
1 TTTACCTATGTTCTTCGGA-ATC-TATGGACTGA
*
3754076 -TTACCTAGGTTCTTCGGAATCTATGGACTG
1 TTTACCTATGTTCTTCGGAATCTATGGACTG
3754106 GTCCTTCGGG
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
30 1 0.02
31 48 0.91
32 4 0.08
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (32 bp):
TTTACCTATGTTCTTCGGAATCTATGGACTGA
Found at i:3754727 original size:20 final size:20
Alignment explanation
Indices: 3754702--3754791 Score: 92
Period size: 20 Copynumber: 4.5 Consensus size: 20
3754692 AATTTGGAAA
3754702 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
3754722 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
3754743 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
3754763 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
*
3754783 TTCGCAATG
1 ATCGCAATG
3754792 AGATCGACAT
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 2 0.04
20 39 0.68
21 14 0.25
22 2 0.04
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:3755185 original size:34 final size:34
Alignment explanation
Indices: 3755142--3755248 Score: 106
Period size: 34 Copynumber: 3.0 Consensus size: 34
3755132 GACATTCATT
3755142 TGACTATCGCAACGGGGAAATCGCAACGCGAAAA
1 TGACTATCGCAACGGGGAAATCGCAACGCGAAAA
**
3755176 TGACTATCGCAACGCGAAAATGGCTATCGCAACGCGAAAA
1 TGACTATCGCAACG-G-----GGAAATCGCAACGCGAAAA
* * * *
3755216 TGGCTATCGCAATGAGAAAATCGCAACGCGAAA
1 TGACTATCGCAACGGGGAAATCGCAACGCGAAA
3755249 TGAAAATCGC
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
34 29 0.49
35 1 0.02
40 29 0.49
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.14
Consensus pattern (34 bp):
TGACTATCGCAACGGGGAAATCGCAACGCGAAAA
Found at i:3755216 original size:40 final size:40
Alignment explanation
Indices: 3755161--3755236 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
3755151 CAACGGGGAA
*
3755161 ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGACTATCGCAACGAGAAAATGGCT
* *
3755201 ATCGCAACGCGAAAATGGCTATCGCAATGAGAAAAT
1 ATCGCAACGCGAAAATGACTATCGCAACGAGAAAAT
3755237 CGCAACGCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.16
Consensus pattern (40 bp):
ATCGCAACGCGAAAATGACTATCGCAACGAGAAAATGGCT
Found at i:3755236 original size:20 final size:20
Alignment explanation
Indices: 3755161--3755227 Score: 125
Period size: 20 Copynumber: 3.4 Consensus size: 20
3755151 CAACGGGGAA
*
3755161 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGGCT
3755181 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
3755201 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
3755221 ATCGCAA
1 ATCGCAA
3755228 TGAGAAAATC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:3755296 original size:19 final size:19
Alignment explanation
Indices: 3755255--3755357 Score: 162
Period size: 19 Copynumber: 5.7 Consensus size: 19
3755245 GAAATGAAAA
3755255 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
3755271 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
3755288 TCGTATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
3755307 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
3755326 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
3755345 TCGCATTGCGATT
1 TCGCATTGCGATT
3755358 CTCTCGTTGC
Statistics
Matches: 81, Mismatches: 1, Indels: 7
0.91 0.01 0.08
Matches are distributed among these distances:
14 11 0.14
16 3 0.04
17 3 0.04
19 64 0.79
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.48
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:3756986 original size:40 final size:42
Alignment explanation
Indices: 3756942--3757032 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
3756932 CCTCTTCAAC
*
3756942 GATGACAGTGGCCTCTTGAACG-GTGG-GGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
* *
3756982 GATGATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
3757024 GATGACAGG
1 GATGACAGG
3757033 TGAGTCGGGC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 20 0.44
41 3 0.07
42 22 0.49
ACGTcount: A:0.21, C:0.15, G:0.42, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
Found at i:3756997 original size:21 final size:21
Alignment explanation
Indices: 3756968--3757028 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
3756958 TGAACGGTGG
*
3756968 GGGGACTCTTGAGGGATGATA
1 GGGGACTCTTGAGGGATGAGA
* **
3756989 GGGGCCTCTTGAACGATTG-GA
1 GGGGACTCTTGAGGGA-TGAGA
3757010 GGGGACTCTTGAGGGATGA
1 GGGGACTCTTGAGGGATGA
3757029 CAGGTGAGTC
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.21, C:0.13, G:0.43, T:0.23
Consensus pattern (21 bp):
GGGGACTCTTGAGGGATGAGA
Found at i:3757395 original size:20 final size:20
Alignment explanation
Indices: 3757370--3757408 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
3757360 GAAGAATAGT
3757370 TTACTTTCGCAACACGAAAC
1 TTACTTTCGCAACACGAAAC
*
3757390 TTACTTTCGCAACGCGAAA
1 TTACTTTCGCAACACGAAA
3757409 AATGACTATC
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:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (20 bp):
TTACTTTCGCAACACGAAAC
Found at i:3757451 original size:20 final size:20
Alignment explanation
Indices: 3757376--3757444 Score: 84
Period size: 20 Copynumber: 3.4 Consensus size: 20
3757366 TAGTTTACTT
* * * *
3757376 TCGCAACACGAAACTTACTT
1 TCGCAACGCGAAAATGACTA
3757396 TCGCAACGCGAAAAATGACTA
1 TCGCAACGCG-AAAATGACTA
*
3757417 TCGCAACGCGGAAATGACTA
1 TCGCAACGCGAAAATGACTA
3757437 TCGCAACG
1 TCGCAACG
3757445 ACAAAATCGC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
20 26 0.60
21 17 0.40
ACGTcount: A:0.36, C:0.28, G:0.19, T:0.17
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:3757471 original size:19 final size:19
Alignment explanation
Indices: 3757447--3757499 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
3757437 TCGCAACGAC
*
3757447 AAAATCGCAATGTGAAATG
1 AAAATCGCAATGCGAAATG
3757466 AAAATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
3757485 AAAATCGCAATGCGA
1 AAAATCGCAATGCGA
3757500 TTTGTGTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.47, C:0.15, G:0.21, T:0.17
Consensus pattern (19 bp):
AAAATCGCAATGCGAAATG
Found at i:3757532 original size:14 final size:14
Alignment explanation
Indices: 3757513--3757569 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
3757503 GTGTTTCGCG
3757513 TTGCGATTTTGTCA
1 TTGCGATTTTGTCA
*
3757527 TTGCGATTTTCATTTCACA
1 TTGCGA-TTT--TGT--CA
3757546 TTGCGATTTTGTCA
1 TTGCGATTTTGTCA
3757560 TTGCGATTTT
1 TTGCGATTTT
3757570 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
15 3 0.08
16 2 0.06
17 2 0.06
18 3 0.08
19 8 0.22
ACGTcount: A:0.16, C:0.16, G:0.18, T:0.51
Consensus pattern (14 bp):
TTGCGATTTTGTCA
Found at i:3757549 original size:19 final size:18
Alignment explanation
Indices: 3757525--3757582 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
3757515 GCGATTTTGT
3757525 CATTGCGATTTTCATTTC
1 CATTGCGATTTTCATTTC
*
3757543 ACATTGCGA-TTT--TGT-
1 -CATTGCGATTTTCATTTC
3757558 CATTGCGATTTTCATTTC
1 CATTGCGATTTTCATTTC
3757576 GCATTGC
1 -CATTGC
3757583 AATAGCCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
14 8 0.25
15 3 0.09
16 2 0.06
17 2 0.06
18 3 0.09
19 14 0.44
ACGTcount: A:0.17, C:0.21, G:0.16, T:0.47
Consensus pattern (18 bp):
CATTGCGATTTTCATTTC
Found at i:3757550 original size:33 final size:33
Alignment explanation
Indices: 3757513--3757582 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
3757503 GTGTTTCGCG
3757513 TTGCGATTTTGTCATTGCGATTTTCATTTCACA
1 TTGCGATTTTGTCATTGCGATTTTCATTTCACA
*
3757546 TTGCGATTTTGTCATTGCGATTTTCATTTCGCA
1 TTGCGATTTTGTCATTGCGATTTTCATTTCACA
3757579 TTGC
1 TTGC
3757583 AATAGCCATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.16, C:0.19, G:0.17, T:0.49
Consensus pattern (33 bp):
TTGCGATTTTGTCATTGCGATTTTCATTTCACA
Found at i:3757607 original size:20 final size:19
Alignment explanation
Indices: 3757570--3757624 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
3757560 TTGCGATTTT
* *
3757570 CATTTCGCATTGCAATAGC
1 CATTTCGCGTTGCGATAGC
*
3757589 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
3757609 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
3757625 AAGTAAACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 5 0.17
20 22 0.73
21 3 0.10
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:3758190 original size:18 final size:18
Alignment explanation
Indices: 3758167--3758214 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
3758157 CGGGTCGATC
*
3758167 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTAGGTG
*
3758185 AGGTGATAGCTCTAGGTG
1 AGGTGATGGCTCTAGGTG
3758203 AGGTGATGGCTC
1 AGGTGATGGCTC
3758215 CCAAAGTGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.17, C:0.12, G:0.44, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTAGGTG
Found at i:3759559 original size:20 final size:20
Alignment explanation
Indices: 3759534--3759571 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3759524 AATAGTTTCT
3759534 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
*
3759554 GAAAATGACAATCGCAAC
1 GAAAATGAAAATCGCAAC
3759572 GTGAATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.21, G:0.16, T:0.11
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:3759895 original size:22 final size:22
Alignment explanation
Indices: 3759855--3759898 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3759845 GATGGAGATA
* *
3759855 GACGGATTTTGCCGGAGATGGG
1 GACGGATTTCGCCGAAGATGGG
*
3759877 GACGGATTTCGTCGAAGATGGG
1 GACGGATTTCGCCGAAGATGGG
3759899 TGAGAGAGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.20, C:0.14, G:0.43, T:0.23
Consensus pattern (22 bp):
GACGGATTTCGCCGAAGATGGG
Found at i:3760184 original size:41 final size:41
Alignment explanation
Indices: 3760071--3760200 Score: 183
Period size: 41 Copynumber: 3.2 Consensus size: 41
3760061 GAAAATCCCA
*
3760071 TTGCGATTATGTATTATCTCGTTGCGAAAGTCAGTATCGCG
1 TTGCGATTATGTATTATCGCGTTGCGAAAGTCAGTATCGCG
* *
3760112 TTGCGA--AAGTAAGTATCGCGTTGCGAAAGTCAGTATCGCG
1 TTGCGATTATGT-ATTATCGCGTTGCGAAAGTCAGTATCGCG
* * *
3760152 TTGCGATTTTGTATTATCGCGTTGCGATAGTCAGTATCGCA
1 TTGCGATTATGTATTATCGCGTTGCGAAAGTCAGTATCGCG
3760193 TTGCGATT
1 TTGCGATT
3760201 TTCCCAATTC
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 3 0.04
40 33 0.42
41 40 0.51
42 2 0.03
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (41 bp):
TTGCGATTATGTATTATCGCGTTGCGAAAGTCAGTATCGCG
Found at i:3760199 original size:20 final size:20
Alignment explanation
Indices: 3760085--3760198 Score: 140
Period size: 20 Copynumber: 5.7 Consensus size: 20
3760075 GATTATGTAT
*
3760085 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
3760105 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
3760125 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
** *
3760145 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
*
3760166 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
3760186 TATCGCATTGCGA
1 TATCGCGTTGCGA
3760199 TTTTCCCAAT
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
19 3 0.04
20 63 0.77
21 14 0.17
22 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:3760213 original size:41 final size:41
Alignment explanation
Indices: 3760085--3760220 Score: 134
Period size: 41 Copynumber: 3.3 Consensus size: 41
3760075 GATTATGTAT
* * * ***
3760085 TATCTCGTTGCGAAAGTCAGTATCGCGTTGCGAAAGT--AA
1 TATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAA
* * ** *
3760124 GTATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTAT
1 -TATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAA
3760166 TATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCCAA
1 TATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTT-CCAA
3760208 T-TCGCGTTGCGAT
1 TATCGCGTTGCGAT
3760221 TTACTTATTC
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
40 33 0.40
41 47 0.57
42 3 0.04
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (41 bp):
TATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAA
Found at i:3760281 original size:21 final size:22
Alignment explanation
Indices: 3760229--3760281 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
3760219 ATTTACTTAT
*
3760229 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGAAAAA
**
3760250 TCGCAACGCGAAATT-GAAAAA
1 TCGCATTGCGAAATTGGAAAAA
3760271 TCGCATTGCGA
1 TCGCATTGCGA
3760282 TAGTCATAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGAAAAA
Found at i:3772121 original size:20 final size:19
Alignment explanation
Indices: 3772083--3772121 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
3772073 TAAATTTAGA
*
3772083 GTTAGAATTAGTTCCTGAT
1 GTTAGAATTAGTTACTGAT
*
3772102 GTTAGAAATTAGTTAGTGAT
1 GTTAG-AATTAGTTACTGAT
3772122 TTGTTAGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.41
Consensus pattern (19 bp):
GTTAGAATTAGTTACTGAT
Found at i:3776730 original size:2 final size:2
Alignment explanation
Indices: 3776723--3776753 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3776713 TTATGAGTTG
3776723 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3776754 TAGTTTGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3776847 original size:23 final size:23
Alignment explanation
Indices: 3776817--3776949 Score: 154
Period size: 23 Copynumber: 6.0 Consensus size: 23
3776807 TTGTTAACAT
3776817 AAATGAGTTTATGGAAGAAGAAG
1 AAATGAGTTTATGGAAGAAGAAG
3776840 AAATGAGTTTATGGAAGAAGAAG
1 AAATGAGTTTATGGAAGAAGAAG
3776863 AAAT-ATGTTTAT-G-A-AAGAAG
1 AAATGA-GTTTATGGAAGAAGAAG
* *
3776883 -AATGGGGTTTATAGAAGAAGAAG
1 AAAT-GAGTTTATGGAAGAAGAAG
*
3776906 AAACGAGTTTATGGAAGAAGAAG
1 AAATGAGTTTATGGAAGAAGAAG
*
3776929 AAA--ATGTTTATGGAAGGAGAA
1 AAATGA-GTTTATGGAAGAAGAA
3776950 TAATGGTTCA
Statistics
Matches: 97, Mismatches: 5, Indels: 17
0.82 0.04 0.14
Matches are distributed among these distances:
19 3 0.03
20 12 0.12
21 3 0.03
22 18 0.19
23 59 0.61
24 2 0.02
ACGTcount: A:0.47, C:0.01, G:0.29, T:0.23
Consensus pattern (23 bp):
AAATGAGTTTATGGAAGAAGAAG
Found at i:3776900 original size:43 final size:43
Alignment explanation
Indices: 3776846--3776927 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
3776836 GAAGAAATGA
* *
3776846 GTTTATGGAAGAAGAAGAAA-TATGTTTATGAAAGAAGAATGGG
1 GTTTATAGAAGAAGAAGAAACGA-GTTTATGAAAGAAGAATGGG
*
3776889 GTTTATAGAAGAAGAAGAAACGAGTTTATGGAAGAAGAA
1 GTTTATAGAAGAAGAAGAAACGAGTTTATGAAAGAAGAA
3776928 GAAAATGTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
43 34 0.97
44 1 0.03
ACGTcount: A:0.46, C:0.01, G:0.29, T:0.23
Consensus pattern (43 bp):
GTTTATAGAAGAAGAAGAAACGAGTTTATGAAAGAAGAATGGG
Found at i:3776929 original size:66 final size:65
Alignment explanation
Indices: 3776823--3776950 Score: 211
Period size: 66 Copynumber: 2.0 Consensus size: 65
3776813 ACATAAATGA
* *
3776823 GTTTATGGAAGAAGAAGAAATGAGTTTATGGAAGAAGAAGAAATATGTTTATGAAAGAAGAATGG
1 GTTTATAGAAGAAGAAGAAACGAGTTTATGGAAGAAGAAGAAA-ATGTTTATGAAAGAAGAATGG
3776888 G
65 G
* *
3776889 GTTTATAGAAGAAGAAGAAACGAGTTTATGGAAGAAGAAGAAAATGTTTATGGAAGGAGAAT
1 GTTTATAGAAGAAGAAGAAACGAGTTTATGGAAGAAGAAGAAAATGTTTATGAAAGAAGAAT
3776951 AATGGTTCAA
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
65 17 0.29
66 41 0.71
ACGTcount: A:0.46, C:0.01, G:0.30, T:0.23
Consensus pattern (65 bp):
GTTTATAGAAGAAGAAGAAACGAGTTTATGGAAGAAGAAGAAAATGTTTATGAAAGAAGAATGGG
Found at i:3777830 original size:14 final size:14
Alignment explanation
Indices: 3777811--3777841 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3777801 TCACACACAC
*
3777811 ATATGTATGTATAT
1 ATATGTATATATAT
3777825 ATATGTATATATAT
1 ATATGTATATATAT
3777839 ATA
1 ATA
3777842 AATGAAACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (14 bp):
ATATGTATATATAT
Found at i:3781996 original size:20 final size:20
Alignment explanation
Indices: 3781971--3782017 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
3781961 TGTTTTTCAT
**
3781971 ATTTTAAAGGCTTTAAACAC
1 ATTTTAAACACTTTAAACAC
* *
3781991 ATTTTAAACACTTTCAACAT
1 ATTTTAAACACTTTAAACAC
3782011 ATTTTAA
1 ATTTTAA
3782018 TTAACTAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.15, G:0.04, T:0.40
Consensus pattern (20 bp):
ATTTTAAACACTTTAAACAC
Found at i:3790743 original size:173 final size:174
Alignment explanation
Indices: 3790449--3790781 Score: 515
Period size: 173 Copynumber: 1.9 Consensus size: 174
3790439 GGAGGATATG
*
3790449 TCATCTTCTGGTATTATAATAATTGGAGGCGAGGAATCAAAGCAAATGAGTTGCAATAATTTGTC
1 TCATCTTCTGGTATTATAATAATTGGAGGCGAGGAATCAAAGCAAATAAGTTGCAATAATTTGTC
* * * *
3790514 TCAGCTTTTTAAGTATTTTGTTGATGTTTATTAATGAATTTGACTTCACAAAATTTCAGGGATAG
66 TCAGCTTTTAAAGCATTTTGTTGATGTTTATGAATGAATTTGACTTCACAAAATTTCAGGGATAA
*
3790579 TGGGTTTAGTGATAATTGTTAATCTCATTCTAGCGAGGGGTATA
131 TGGGTTTAGTGATAATTGTTAATATCATTCTAGCGAGGGGTATA
* * * * *
3790623 TCATCTTTTGGTATTATAATATTTGGAGGTGAGGAATCAAAGCAAATAAGTTGGAATTATTTGT-
1 TCATCTTCTGGTATTATAATAATTGGAGGCGAGGAATCAAAGCAAATAAGTTGCAATAATTTGTC
* * * *
3790687 TTAGCTTTTAAAGCATTTTGTTGATGTTTATGATTGAATTTGACTTCTCGAAATTTCAGGGATAA
66 TCAGCTTTTAAAGCATTTTGTTGATGTTTATGAATGAATTTGACTTCACAAAATTTCAGGGATAA
*
3790752 TGGGTTTAGTGATAATTGTTATTATCATTC
131 TGGGTTTAGTGATAATTGTTAATATCATTC
3790782 ATTGTATTTG
Statistics
Matches: 143, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
173 85 0.59
174 58 0.41
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (174 bp):
TCATCTTCTGGTATTATAATAATTGGAGGCGAGGAATCAAAGCAAATAAGTTGCAATAATTTGTC
TCAGCTTTTAAAGCATTTTGTTGATGTTTATGAATGAATTTGACTTCACAAAATTTCAGGGATAA
TGGGTTTAGTGATAATTGTTAATATCATTCTAGCGAGGGGTATA
Found at i:3792274 original size:4 final size:4
Alignment explanation
Indices: 3792265--3792295 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
3792255 TACTCTTTCC
3792265 TTTA TTTA TTTA TTTA TTTA TTTA TTT- TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
3792296 GAATAATGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:3807086 original size:170 final size:167
Alignment explanation
Indices: 3806793--3807122 Score: 606
Period size: 170 Copynumber: 2.0 Consensus size: 167
3806783 CATTTTAACC
3806793 TTTTACAAGACATACAAATTTTTAATAGAAAAATAAACCAAGCAAATGAAACTCAGAGGTGGAAA
1 TTTTACAAGACATACAAATTTTTAATAGAAAAATAAACCAAGCAAATGAAACTCAGAGGTGGAAA
*
3806858 AAGAGTTAGTTTTTTAAAGAAAAACATCATCTTCAAGGAGTTGAGATAGCCTCCGCACAAGAGGC
66 AAGAGTTAGTTTTTTAAAGAAAAACATCAACTTCAAGGAGTTGAGATAGCCTCCGCACAAGAGGC
3806923 TTCAAACTGTACATAGGAGTGACACCCTTTTACAAAT
131 TTCAAACTGTACATAGGAGTGACACCCTTTTACAAAT
3806960 TTTTACCAAGACAGATACAAATTTTTAATAGAAAAATAAACCAAGCAAATGAAACTCAGAGGTGG
1 TTTTA-CAAGAC--ATACAAATTTTTAATAGAAAAATAAACCAAGCAAATGAAACTCAGAGGTGG
* *
3807025 AAAAAGAGTTAGTTTTTTAAAGACAAACGTCAACTTCAAGGAGTTGAGATAGCCTCCGCACAAGA
63 AAAAAGAGTTAGTTTTTTAAAGAAAAACATCAACTTCAAGGAGTTGAGATAGCCTCCGCACAAGA
3807090 GGCTTCAAACTGTACATAGGAGTGACACCCTTT
128 GGCTTCAAACTGTACATAGGAGTGACACCCTTT
3807123 GGGCGTCCCT
Statistics
Matches: 157, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
167 5 0.03
168 6 0.04
170 146 0.93
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.25
Consensus pattern (167 bp):
TTTTACAAGACATACAAATTTTTAATAGAAAAATAAACCAAGCAAATGAAACTCAGAGGTGGAAA
AAGAGTTAGTTTTTTAAAGAAAAACATCAACTTCAAGGAGTTGAGATAGCCTCCGCACAAGAGGC
TTCAAACTGTACATAGGAGTGACACCCTTTTACAAAT
Found at i:3812209 original size:23 final size:24
Alignment explanation
Indices: 3812175--3812219 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
3812165 ATAAATAAAC
*
3812175 TAAATAGCA-TTTAAACATAATTT
1 TAAATAGCATTTTAAAAATAATTT
3812198 TAAATATG-ATTTTAAAAATAAT
1 TAAATA-GCATTTTAAAAATAAT
3812220 AATGAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (24 bp):
TAAATAGCATTTTAAAAATAATTT
Found at i:3813016 original size:2 final size:2
Alignment explanation
Indices: 3813009--3813048 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
3812999 TATTGACATG
3813009 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3813049 TAATTGTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3813405 original size:4 final size:4
Alignment explanation
Indices: 3813398--3813440 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
3813388 TGAATGAATG
3813398 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT
3813441 ATTATTATTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
ATTT
Found at i:3813444 original size:3 final size:3
Alignment explanation
Indices: 3813436--3813474 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
3813426 ATTTATTTAT
3813436 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3813475 GGTCTAGTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:3813451 original size:24 final size:24
Alignment explanation
Indices: 3813400--3813473 Score: 95
Period size: 24 Copynumber: 3.2 Consensus size: 24
3813390 AATGAATGAT
3813400 TTATTTATTTATTTA-T-TTATTTA
1 TTATTTATTTATTTATTATTA-TTA
3813423 TTTATTTATTTATTTATTATTATTA
1 -TTATTTATTTATTTATTATTATTA
3813448 TTA-TTA-TTA-TTATTATTATTA
1 TTATTTATTTATTTATTATTATTA
3813469 TTATT
1 TTATT
3813474 AGGTCTAGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
21 15 0.32
22 4 0.09
23 3 0.06
24 18 0.38
25 4 0.09
26 3 0.06
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (24 bp):
TTATTTATTTATTTATTATTATTA
Found at i:3818150 original size:50 final size:51
Alignment explanation
Indices: 3818087--3818218 Score: 131
Period size: 50 Copynumber: 2.6 Consensus size: 51
3818077 CACCCGTAGC
* * * * * *
3818087 AGTAAAGCGCGCCCCCTGAACCGCACTATATGCTGATTTGGCGCCACGTGG
1 AGTATAGCACGCCCCCTGAACCGCACTATACGCTGACTGGGCGACACGTGG
* * **
3818138 AG-ATAGCACGCCCCCTGTACCGCGCTATACGCTGACTGGGTTACACGTGG
1 AGTATAGCACGCCCCCTGAACCGCACTATACGCTGACTGGGCGACACGTGG
* * **
3818188 GGTATAGCGCGCCCCCTGCTCCGCACTATAC
1 AGTATAGCACGCCCCCTGAACCGCACTATAC
3818219 ACCACGTAGG
Statistics
Matches: 65, Mismatches: 15, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
50 39 0.60
51 26 0.40
ACGTcount: A:0.20, C:0.34, G:0.27, T:0.20
Consensus pattern (51 bp):
AGTATAGCACGCCCCCTGAACCGCACTATACGCTGACTGGGCGACACGTGG
Found at i:3820574 original size:111 final size:111
Alignment explanation
Indices: 3820380--3820712 Score: 576
Period size: 111 Copynumber: 3.0 Consensus size: 111
3820370 ATTACAAAAA
*
3820380 TTAATTCTTACTCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* * *
3820445 AATTAAAACATTAAAATGTTACCGTATCAGCAAATTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTATCGTATCAGCAAAGTGTCGAGATAT
*
3820491 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTAGTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* *
3820556 AATTAAAACGTTAAAATGTTATCGTATTAGTAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTATCGTATCAGCAAAGTGTCGAGATAT
* *
3820602 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAAATAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
3820667 AATTAAAACGTTAAAATGTTATCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTATCGTATCAGCAAAGTGTCGAGATAT
3820713 ATGATTTCCA
Statistics
Matches: 209, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
111 209 1.00
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTATCGTATCAGCAAAGTGTCGAGATAT
Found at i:3820864 original size:10 final size:11
Alignment explanation
Indices: 3820839--3820878 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
3820829 TTAAAAAGAT
3820839 AGAATATTTGAG
1 AGAA-ATTTGAG
3820851 AGAAATTT-AG
1 AGAAATTTGAG
3820861 AG-AATTTGAG
1 AGAAATTTGAG
3820871 AG-AATTTG
1 AGAAATTTG
3820879 GTGTGATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.19
10 14 0.52
11 4 0.15
12 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (11 bp):
AGAAATTTGAG
Found at i:3821117 original size:49 final size:50
Alignment explanation
Indices: 3821001--3821125 Score: 153
Period size: 49 Copynumber: 2.5 Consensus size: 50
3820991 AGATACCCAG
* *
3821001 GTATAGCGCGGATCAGGGGGCGCGCTATACCCACGTGGCGTCAGATCACC
1 GTATAGCGCGGATCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCACC
** ** * *
3821051 GTATATTGCGGGGCAGGGGGCGCGCTATA-CCACGTGGTGCCAAATCAGC
1 GTATAGCGCGGATCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCACC
* *
3821100 GTATAGCGCTGTTCAGGGGGCGCGCT
1 GTATAGCGCGGATCAGGGGGCGCGCT
3821126 TTACTGCTAC
Statistics
Matches: 62, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
49 37 0.60
50 25 0.40
ACGTcount: A:0.18, C:0.26, G:0.37, T:0.18
Consensus pattern (50 bp):
GTATAGCGCGGATCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCACC
Found at i:3822098 original size:18 final size:18
Alignment explanation
Indices: 3822072--3822115 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
3822062 TTATGAAATG
3822072 TAAGATTATAGGTGGAAA
1 TAAGATTATAGGTGGAAA
* * *
3822090 TAGGATTATCGGTTGAAA
1 TAAGATTATAGGTGGAAA
3822108 TAAGATTA
1 TAAGATTA
3822116 CTAAGAATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.41, C:0.02, G:0.25, T:0.32
Consensus pattern (18 bp):
TAAGATTATAGGTGGAAA
Found at i:3822720 original size:18 final size:19
Alignment explanation
Indices: 3822685--3822721 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
3822675 CACGCAATGT
3822685 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
3822705 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
3822722 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:3830861 original size:107 final size:107
Alignment explanation
Indices: 3830675--3830889 Score: 394
Period size: 107 Copynumber: 2.0 Consensus size: 107
3830665 TTTTGTATTC
*
3830675 AAAAGCTTGTTTAGCTTTTCATGGGGAGGAGGAAGAAGAGGAGATGATATGTGTGTGTGACTGTG
1 AAAAGCTTGTTTAGCTTTTCACGGGGAGGAGGAAGAAGAGGAGATGATATGTGTGTGTGACTGTG
3830740 CGTGTTTCGCCTGATTTTCTGAAGTTTGGGAACAGAATAATA
66 CGTGTTTCGCCTGATTTTCTGAAGTTTGGGAACAGAATAATA
* * *
3830782 AAAAGTTTGTTTAGCTTTTCACGGGGAGGAGGAAGAAGCGGAGATGATGTGTGTGTGTGACTGTG
1 AAAAGCTTGTTTAGCTTTTCACGGGGAGGAGGAAGAAGAGGAGATGATATGTGTGTGTGACTGTG
3830847 CGTGTTTCGCCTGATTTTCTGAAGTTTGGGAACAGAATAATA
66 CGTGTTTCGCCTGATTTTCTGAAGTTTGGGAACAGAATAATA
3830889 A
1 A
3830890 GTGGTTTTAA
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
107 104 1.00
ACGTcount: A:0.27, C:0.10, G:0.32, T:0.32
Consensus pattern (107 bp):
AAAAGCTTGTTTAGCTTTTCACGGGGAGGAGGAAGAAGAGGAGATGATATGTGTGTGTGACTGTG
CGTGTTTCGCCTGATTTTCTGAAGTTTGGGAACAGAATAATA
Found at i:3834806 original size:20 final size:20
Alignment explanation
Indices: 3834778--3834815 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3834768 GAATATAAAC
*
3834778 TTATTCATTCAAATTCGGGT
1 TTATACATTCAAATTCGGGT
3834798 TTATACATTCAAATTCGG
1 TTATACATTCAAATTCGG
3834816 TTCATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (20 bp):
TTATACATTCAAATTCGGGT
Found at i:3836370 original size:9 final size:9
Alignment explanation
Indices: 3836356--3836389 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
3836346 TTTTTTCTTT
3836356 AAAAATTAA
1 AAAAATTAA
3836365 AAAAATATAA
1 AAAAAT-TAA
*
3836375 AAAAATTAT
1 AAAAATTAA
3836384 AAAAAT
1 AAAAAT
3836390 AGTTGTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAAAATTAA
Found at i:3836375 original size:10 final size:10
Alignment explanation
Indices: 3836356--3836388 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
3836346 TTTTTTCTTT
3836356 AAAAAT-TAA
1 AAAAATATAA
3836365 AAAAATATAA
1 AAAAATATAA
3836375 AAAAATTATAA
1 AAAAA-TATAA
3836386 AAA
1 AAA
3836389 TAGTTGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 6 0.27
10 8 0.36
11 8 0.36
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
AAAAATATAA
Found at i:3839851 original size:2 final size:2
Alignment explanation
Indices: 3839844--3839875 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
3839834 TATTATTTTA
3839844 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3839876 AGGTATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3841282 original size:2 final size:2
Alignment explanation
Indices: 3841275--3841337 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
3841265 CTGATACAGA
3841275 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3841317 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
3841338 CTTGAATGCG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3844121 original size:75 final size:75
Alignment explanation
Indices: 3844015--3844154 Score: 226
Period size: 75 Copynumber: 1.9 Consensus size: 75
3844005 CTGAAGGATT
* * *
3844015 TAAATCGAACGTACCGATAACGTAAGGGATCAAGCGCTCTTAAATTTTAAACCGATGACCAAAGT
1 TAAACCGAACGGACCGATAACGTAAGGGATCAAGCGCGCTTAAATTTTAAACCGATGACCAAAGT
3844080 CTATTAGACC
66 CTATTAGACC
* * *
3844090 TAAACCGAACGGACCGATAACGTAAGTGATCATGCGCGCTTAATTTTTAAACCGATGACCAAAGT
1 TAAACCGAACGGACCGATAACGTAAGGGATCAAGCGCGCTTAAATTTTAAACCGATGACCAAAGT
3844155 TTACCAGACC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 59 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (75 bp):
TAAACCGAACGGACCGATAACGTAAGGGATCAAGCGCGCTTAAATTTTAAACCGATGACCAAAGT
CTATTAGACC
Found at i:3845047 original size:26 final size:26
Alignment explanation
Indices: 3845014--3845068 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
3845004 CTATTATTTT
*
3845014 AAAAAATAAATA-ATGTTAATTATTA
1 AAAAAATAAATACATATTAATTATTA
* *
3845039 AAAATAATATATACATATTAATTTTTA
1 AAAA-AATAAATACATATTAATTATTA
3845066 AAA
1 AAA
3845069 TTTATATTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 4 0.16
26 7 0.28
27 14 0.56
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (26 bp):
AAAAAATAAATACATATTAATTATTA
Found at i:3845069 original size:26 final size:25
Alignment explanation
Indices: 3845010--3845069 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
3845000 CATACTATTA
*
3845010 TTTTAAAA-AATAAATAATGTTAAT
1 TTTTAAAATAATAAATAATATTAAT
* *
3845034 TATTAAAAATAATATATACATATTAAT
1 T-TTTAAAATAATAAATA-ATATTAAT
3845061 TTTTAAAAT
1 TTTTAAAAT
3845070 TTATATTCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 1 0.03
25 6 0.21
26 14 0.48
27 8 0.28
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (25 bp):
TTTTAAAATAATAAATAATATTAAT
Found at i:3856192 original size:59 final size:59
Alignment explanation
Indices: 3856100--3856214 Score: 230
Period size: 59 Copynumber: 1.9 Consensus size: 59
3856090 CTAATTAATA
3856100 GAGGAAGTGTGACACAACATAGGTACATAAATGTAGTGAAATCTACATTAAAAAAAATT
1 GAGGAAGTGTGACACAACATAGGTACATAAATGTAGTGAAATCTACATTAAAAAAAATT
3856159 GAGGAAGTGTGACACAACATAGGTACATAAATGTAGTGAAATCTACATTAAAAAAA
1 GAGGAAGTGTGACACAACATAGGTACATAAATGTAGTGAAATCTACATTAAAAAAA
3856215 TCATGTAGAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.23
Consensus pattern (59 bp):
GAGGAAGTGTGACACAACATAGGTACATAAATGTAGTGAAATCTACATTAAAAAAAATT
Found at i:3859368 original size:30 final size:31
Alignment explanation
Indices: 3859334--3859393 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
3859324 ATTACAATTT
3859334 AATCATTCAAT-TAAAATATTATTACAAACA
1 AATCATTCAATCTAAAATATTATTACAAACA
* * *
3859364 AATCATTGAATCGTTAAATATTATTTCAAA
1 AATCATTCAATC-TAAAATATTATTACAAA
3859394 TCAATAATCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 10 0.40
32 15 0.60
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.37
Consensus pattern (31 bp):
AATCATTCAATCTAAAATATTATTACAAACA
Found at i:3867928 original size:27 final size:27
Alignment explanation
Indices: 3867852--3867930 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 27
3867842 TATTTTATAA
*
3867852 AATTAATATA-ATTTA-ATTAATGTTAT
1 AATTAATATATATTTATA-AAATGTTAT
* * * *
3867878 AAATAA-ATTTATGTATAATTATGTTAT
1 AATTAATATATATTTATAA-AATGTTAT
3867905 AATTAATATATATTTATAAAATGTTA
1 AATTAATATATATTTATAAAATGTTA
3867931 ATCTTTCCTC
Statistics
Matches: 40, Mismatches: 9, Indels: 7
0.71 0.16 0.12
Matches are distributed among these distances:
25 2 0.05
26 9 0.22
27 19 0.47
28 10 0.25
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (27 bp):
AATTAATATATATTTATAAAATGTTAT
Found at i:3876167 original size:20 final size:21
Alignment explanation
Indices: 3876126--3876168 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
3876116 CATGTATTTA
*
3876126 TCATTAGCTACACATTTCATC
1 TCATTAGCTACACATGTCATC
3876147 TCATT-GCTA-ACATGTCTATC
1 TCATTAGCTACACATGTC-ATC
3876167 TC
1 TC
3876169 TAAGAGAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 6 0.30
20 9 0.45
21 5 0.25
ACGTcount: A:0.26, C:0.28, G:0.07, T:0.40
Consensus pattern (21 bp):
TCATTAGCTACACATGTCATC
Found at i:3877069 original size:32 final size:32
Alignment explanation
Indices: 3877028--3877088 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
3877018 GTAGTACTCG
3877028 ATCCAGATTAATCAATTAATAGATTGGATACT
1 ATCCAGATTAATCAATTAATAGATTGGATACT
3877060 ATCCAGATTAATCAATTAATAGATTGGAT
1 ATCCAGATTAATCAATTAATAGATTGGAT
3877089 GCTGGTGACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.34
Consensus pattern (32 bp):
ATCCAGATTAATCAATTAATAGATTGGATACT
Found at i:3880780 original size:12 final size:12
Alignment explanation
Indices: 3880763--3880790 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
3880753 TATTAGAAAA
3880763 AAATTTAATTTC
1 AAATTTAATTTC
3880775 AAATTTAATTTC
1 AAATTTAATTTC
3880787 AAAT
1 AAAT
3880791 AATAGTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (12 bp):
AAATTTAATTTC
Found at i:3881586 original size:15 final size:16
Alignment explanation
Indices: 3881554--3881588 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
3881544 TTTTCTTAGG
3881554 AAAATATATTAATTAT
1 AAAATATATTAATTAT
*
3881570 AAAATATA-TATTTAT
1 AAAATATATTAATTAT
3881585 AAAA
1 AAAA
3881589 GGTTATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAAATATATTAATTAT
Found at i:3882416 original size:17 final size:18
Alignment explanation
Indices: 3882381--3882426 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
3882371 TATTAAAATT
*
3882381 TAATTATAATT-TTTATA
1 TAATTATAATTATATATA
3882398 TAATTATAATTATAT-TA
1 TAATTATAATTATATATA
* *
3882415 TATTTTTAATTA
1 TAATTATAATTA
3882427 AAAATAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 23 0.92
18 2 0.08
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TAATTATAATTATATATA
Found at i:3906482 original size:17 final size:17
Alignment explanation
Indices: 3906456--3906491 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
3906446 TTAGGTGCGA
*
3906456 GTGTTGGACAAAGATAT
1 GTGTTCGACAAAGATAT
*
3906473 GTGTTCGACACAGATAT
1 GTGTTCGACAAAGATAT
3906490 GT
1 GT
3906492 TCTCTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.31
Consensus pattern (17 bp):
GTGTTCGACAAAGATAT
Found at i:3909906 original size:18 final size:19
Alignment explanation
Indices: 3909883--3909924 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
3909873 ATAATATAGA
*
3909883 AAAATTCTC-CTTTTCACC
1 AAAATTCACACTTTTCACC
3909901 AAAATTCACATCTTTTCACC
1 AAAATTCACA-CTTTTCACC
3909921 AAAA
1 AAAA
3909925 ATAACATGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
20 13 0.62
ACGTcount: A:0.38, C:0.29, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAATTCACACTTTTCACC
Found at i:3909931 original size:20 final size:20
Alignment explanation
Indices: 3909892--3909931 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3909882 AAAAATTCTC
* *
3909892 CTTTTCACCAAAATTCACAT
1 CTTTTCACCAAAAATAACAT
3909912 CTTTTCACCAAAAATAACAT
1 CTTTTCACCAAAAATAACAT
3909932 GGTATCATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.28, G:0.00, T:0.33
Consensus pattern (20 bp):
CTTTTCACCAAAAATAACAT
Found at i:3911326 original size:18 final size:19
Alignment explanation
Indices: 3911303--3911344 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
3911293 TAATATAACA
*
3911303 AAAATTCTC-CTTTTCACC
1 AAAATTCACACTTTTCACC
3911321 AAAATTCACATCTTTTCACC
1 AAAATTCACA-CTTTTCACC
3911341 AAAA
1 AAAA
3911345 ATAACAACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
20 13 0.62
ACGTcount: A:0.38, C:0.29, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAATTCACACTTTTCACC
Found at i:3912758 original size:13 final size:14
Alignment explanation
Indices: 3912734--3912764 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
3912724 AAACATTTCA
3912734 CAAATCAGAAAAGT
1 CAAATCAGAAAAGT
3912748 CAAAT-AGAAAAGT
1 CAAATCAGAAAAGT
3912761 CAAA
1 CAAA
3912765 GAAGCCAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.61, C:0.13, G:0.13, T:0.13
Consensus pattern (14 bp):
CAAATCAGAAAAGT
Found at i:3921907 original size:32 final size:33
Alignment explanation
Indices: 3921871--3921961 Score: 105
Period size: 32 Copynumber: 2.8 Consensus size: 33
3921861 TATTAGGTCG
*
3921871 GGTCAATGTCAAATCAATCAATTTTCAGATT-A
1 GGTCAATATCAAATCAATCAATTTTCAGATTCA
* * * *
3921903 GGTCAATATTAAATCATTCAATTTTC-GGTTCG
1 GGTCAATATCAAATCAATCAATTTTCAGATTCA
* *
3921935 GGTAAATATCATATCAATCAATTTTCA
1 GGTCAATATCAAATCAATCAATTTTCA
3921962 TGTTAGTCCA
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
31 3 0.06
32 45 0.94
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.37
Consensus pattern (33 bp):
GGTCAATATCAAATCAATCAATTTTCAGATTCA
Found at i:3924163 original size:16 final size:17
Alignment explanation
Indices: 3924142--3924174 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
3924132 CTAGAAGATT
3924142 TTTTTAAATTA-ATATA
1 TTTTTAAATTACATATA
*
3924158 TTTTTAATTTACATATA
1 TTTTTAAATTACATATA
3924175 ATGTATGGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTTAAATTACATATA
Found at i:3928933 original size:2 final size:2
Alignment explanation
Indices: 3928926--3928956 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3928916 CTCTAACCAT
3928926 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3928957 TCTTTTTACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3936476 original size:2 final size:2
Alignment explanation
Indices: 3936469--3936499 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3936459 CTAATATGTT
3936469 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3936500 CACTACATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3937069 original size:25 final size:24
Alignment explanation
Indices: 3937035--3937092 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 24
3937025 ATATACATAA
3937035 TAAATATAGAGAATTATTAAATTT
1 TAAATATAGAGAATTATTAAATTT
3937059 TAAATCATAGAGAATTATTAAATTT
1 TAAAT-ATAGAGAATTATTAAATTT
3937084 ATGAAATAT
1 -T-AAATAT
3937093 TTTTATTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
24 5 0.16
25 19 0.61
26 3 0.10
27 4 0.13
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.40
Consensus pattern (24 bp):
TAAATATAGAGAATTATTAAATTT
Found at i:3939216 original size:19 final size:19
Alignment explanation
Indices: 3939166--3939229 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
3939156 TATTTATTAT
*
3939166 AGTGATTTCATTGGTCGTCA
1 AGTG-TTTCATAGGTCGTCA
* *
3939186 AGTG-CTCTATAGGTTGTCA
1 AGTGTTTC-ATAGGTCGTCA
*
3939205 AGTGTTTCATAGATCGTCA
1 AGTGTTTCATAGGTCGTCA
3939224 AGTGTT
1 AGTGTT
3939230 CCTTGAAACA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
18 2 0.06
19 28 0.78
20 6 0.17
ACGTcount: A:0.22, C:0.14, G:0.25, T:0.39
Consensus pattern (19 bp):
AGTGTTTCATAGGTCGTCA
Found at i:3939312 original size:19 final size:19
Alignment explanation
Indices: 3939288--3939325 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
3939278 ACTGTTGCAG
3939288 CTCCATA-AGTTGCCATATA
1 CTCCATAGA-TTGCCATATA
3939307 CTCCATAGATTGCCATATA
1 CTCCATAGATTGCCATATA
3939326 TTTTTGGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (19 bp):
CTCCATAGATTGCCATATA
Found at i:3940099 original size:2 final size:2
Alignment explanation
Indices: 3940088--3940117 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
3940078 CCTTTTGCAT
3940088 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3940118 TCTAGCTGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3940953 original size:21 final size:20
Alignment explanation
Indices: 3940867--3941024 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
3940857 AAATGACCAA
**
3940867 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
3940886 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
3940906 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
3940926 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
3940947 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
3940968 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
3940988 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
3941009 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
3941025 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:3941053 original size:20 final size:20
Alignment explanation
Indices: 3940991--3941260 Score: 260
Period size: 20 Copynumber: 13.5 Consensus size: 20
3940981 CGATTTTCCA
* ** *
3940991 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
3941011 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
3941031 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
3941051 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
3941071 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
3941091 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* *
3941111 ATATCGCAACGCGTATCCAT
1 AAATCGCAACGCGTATCCGT
*
3941131 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
3941151 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
3941171 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
3941191 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
3941211 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
3941231 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
3941251 AAATCACAAC
1 AAATCGCAAC
3941261 ACTGAAATTT
Statistics
Matches: 208, Mismatches: 34, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 204 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:3941077 original size:40 final size:40
Alignment explanation
Indices: 3941030--3941260 Score: 288
Period size: 40 Copynumber: 5.8 Consensus size: 40
3941020 CGCGAACACA
* * *
3941030 TAAATCGCAACGCGTATCCGTAAATCGCAACG-TGTATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACGAT-AATCCG
* * *
3941070 TATATCGCAACGCGTATCCGTAAATCGCAATGCG-T-ATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAA--CGATAATCCG
* * * *
3941110 TATATCGCAACGCGTATCCATAAATCGCAACGATAATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
*
3941150 TAAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
*
3941190 TAAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
* *
3941230 TAAATCGCAACGAGAATCTGTAAATCACAAC
1 TAAATCGCAACGAGAATCCGTAAATCGCAAC
3941261 ACTGAAATTT
Statistics
Matches: 179, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
38 2 0.01
39 1 0.01
40 173 0.97
42 3 0.02
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (40 bp):
TAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
Found at i:3941980 original size:24 final size:24
Alignment explanation
Indices: 3941941--3941987 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
3941931 AAATTTGGTC
3941941 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
3941965 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
3941988 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:3944463 original size:33 final size:34
Alignment explanation
Indices: 3944417--3944576 Score: 180
Period size: 33 Copynumber: 4.4 Consensus size: 34
3944407 ATTACAATCG
*
3944417 CAATGAGAGAATCGCAATGCGAAATGAAAATCCCAA
1 CAATGA-A-AATCGCAATGCGAAATGAAAATCGCAA
3944453 C-ATGAAAATCGCAATGCGGAAATGAAAATCGCAA
1 CAATGAAAATCGCAATGC-GAAATGAAAATCGCAA
3944487 TGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 --C--AATGAAAATCGCAATGCGAAATGAAAATCGCAA
* *
3944525 CGA-GAGAATCGCAATGCGAAATGAAAATCGCAA
1 CAATGAAAATCGCAATGCGAAATGAAAATCGCAA
3944558 TGCAAAATGAAAATCGCAA
1 --C--AATGAAAATCGCAA
3944577 CGAGAGAATC
Statistics
Matches: 108, Mismatches: 5, Indels: 20
0.81 0.04 0.15
Matches are distributed among these distances:
33 40 0.37
34 17 0.16
35 5 0.05
36 3 0.03
37 1 0.01
38 26 0.24
39 16 0.15
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.14
Consensus pattern (34 bp):
CAATGAAAATCGCAATGCGAAATGAAAATCGCAA
Found at i:3944495 original size:19 final size:19
Alignment explanation
Indices: 3944426--3944614 Score: 210
Period size: 19 Copynumber: 10.7 Consensus size: 19
3944416 GCAATGAGAG
3944426 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
3944445 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
3944459 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
3944479 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
3944498 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
3944517 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
3944531 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
3944550 AATCGCAATGCAAAATGAA
1 AATCGCAATGCGAAATGAA
*
3944569 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
3944583 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
3944602 AATCGCATTGCGA
1 AATCGCAATGCGA
3944615 TTCTCCCGTT
Statistics
Matches: 144, Mismatches: 10, Indels: 32
0.77 0.05 0.17
Matches are distributed among these distances:
14 32 0.22
15 2 0.01
16 5 0.03
17 4 0.03
18 2 0.01
19 83 0.58
20 16 0.11
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:3944553 original size:52 final size:52
Alignment explanation
Indices: 3944412--3944614 Score: 263
Period size: 52 Copynumber: 3.9 Consensus size: 52
3944402 CGGAAATTAC
* *
3944412 AATCGCAATGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C---ATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
3944459 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
3944517 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCAAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* *
3944569 AATCGCAACGAGAGAATCGCAATGCGAAATTAAAATCGCATTGCGA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
3944615 TTCTCCCGTT
Statistics
Matches: 137, Mismatches: 8, Indels: 17
0.85 0.05 0.10
Matches are distributed among these distances:
47 8 0.06
50 1 0.01
52 83 0.61
53 29 0.21
55 2 0.01
56 1 0.01
58 13 0.09
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:3944663 original size:19 final size:19
Alignment explanation
Indices: 3944623--3944720 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
3944613 GATTCTCCCG
3944623 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
3944643 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
3944662 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
3944676 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
3944695 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
3944714 TTGCGAT
1 TTGCGAT
3944721 AGTCAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:3944717 original size:52 final size:53
Alignment explanation
Indices: 3944604--3944720 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
3944594 GAAATTAAAA
3944604 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
*
3944657 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
3944709 TCGCATTGCGAT
1 TCGCATTGCGAT
3944721 AGTCAATTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 30 0.48
53 33 0.52
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:3944846 original size:14 final size:14
Alignment explanation
Indices: 3944827--3944863 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
3944817 CATCAATTAC
3944827 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
3944841 ACAAATCATCTTTT
1 ACAAATCAACTTTT
3944855 ACAAATCAA
1 ACAAATCAA
3944864 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:3947119 original size:22 final size:22
Alignment explanation
Indices: 3947078--3947144 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
3947068 CTCGTATAAA
3947078 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
3947101 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
3947123 TGCACCGTAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
3947145 GATGTCCATA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 31 0.72
23 12 0.28
ACGTcount: A:0.25, C:0.28, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:3948849 original size:21 final size:21
Alignment explanation
Indices: 3948825--3948869 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3948815 TCTTGTTCGT
* *
3948825 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
3948846 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
3948867 TTG
1 TTG
3948870 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:3949779 original size:16 final size:16
Alignment explanation
Indices: 3949755--3949793 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
3949745 ATCAGTTCTT
*
3949755 ATCACTCAAATCCTTA
1 ATCAATCAAATCCTTA
* *
3949771 ATCAATCAAATTCTTT
1 ATCAATCAAATCCTTA
3949787 ATCAATC
1 ATCAATC
3949794 TTTAATTACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.36
Consensus pattern (16 bp):
ATCAATCAAATCCTTA
Found at i:3952034 original size:22 final size:22
Alignment explanation
Indices: 3951993--3952059 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
3951983 CTCGTATAAA
3951993 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
3952016 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
3952038 TGCACCGTAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
3952060 GATGTCCATA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 31 0.72
23 12 0.28
ACGTcount: A:0.25, C:0.28, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:3952710 original size:2 final size:2
Alignment explanation
Indices: 3952703--3952760 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
3952693 TCTCTTAAAC
3952703 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3952745 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
3952761 CACATGTTCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3953794 original size:21 final size:21
Alignment explanation
Indices: 3953770--3953814 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3953760 TCTTGTTCGT
* *
3953770 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
3953791 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
3953812 TTG
1 TTG
3953815 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:3954913 original size:20 final size:20
Alignment explanation
Indices: 3954888--3954953 Score: 91
Period size: 19 Copynumber: 3.4 Consensus size: 20
3954878 TAGTTTACTT
* *
3954888 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAACTCAAAA
3954908 TCGCAACGCGAAAC-CAAAA
1 TCGCAACGCGAAACTCAAAA
*
3954927 TCGCAACGCGAAA-TGAAAA
1 TCGCAACGCGAAACTCAAAA
3954946 TCGCAACG
1 TCGCAACG
3954954 ACAGAATCGC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
19 29 0.69
20 13 0.31
ACGTcount: A:0.45, C:0.27, G:0.17, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAACTCAAAA
Found at i:3954963 original size:14 final size:14
Alignment explanation
Indices: 3954944--3954998 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
3954934 GCGAAATGAA
*
3954944 AATCGCAACGACAG
1 AATCGCAACGAAAG
3954958 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
3954975 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
3954991 AATCGCAA
1 AATCGCAA
3954999 TGCGAAATGA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 16 0.46
16 5 0.14
17 6 0.17
19 8 0.23
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:3954971 original size:33 final size:33
Alignment explanation
Indices: 3954925--3955017 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
3954915 GCGAAACCAA
* *
3954925 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
3954958 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
3954991 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
3955018 TGCGATTTTG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.12
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAAAG
Found at i:3954982 original size:19 final size:19
Alignment explanation
Indices: 3954904--3955022 Score: 123
Period size: 19 Copynumber: 6.8 Consensus size: 19
3954894 CACGAAACTT
* **
3954904 AAAATCGCAACGCGAAACC
1 AAAATCGCAATGCGAAATG
*
3954923 AAAATCGCAACGCGAAATG
1 AAAATCGCAATGCGAAATG
*
3954942 AAAATCGCAA--CGACA-G
1 AAAATCGCAATGCGAAATG
3954958 --AATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
3954975 AAAATCGCAA--CGAAA-G
1 AAAATCGCAATGCGAAATG
3954991 --AATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
3955008 AAAATCGCAATGCGA
1 AAAATCGCAATGCGA
3955023 TTTTGGTTTC
Statistics
Matches: 86, Mismatches: 4, Indels: 20
0.78 0.04 0.18
Matches are distributed among these distances:
14 16 0.19
16 11 0.13
17 11 0.13
19 48 0.56
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (19 bp):
AAAATCGCAATGCGAAATG
Found at i:3955040 original size:19 final size:19
Alignment explanation
Indices: 3955018--3955145 Score: 123
Period size: 19 Copynumber: 7.3 Consensus size: 19
3955008 AAAATCGCAA
3955018 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
3955037 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
3955051 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
3955070 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
3955084 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
3955103 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
** *
3955122 TGCGATTTAAGTTTCGTGT
1 TGCGATTTTGGTTTCGCGT
3955141 TGCGA
1 TGCGA
3955146 AAGTAAACTA
Statistics
Matches: 89, Mismatches: 10, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.25
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 60 0.67
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.45
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:3955060 original size:33 final size:33
Alignment explanation
Indices: 3955018--3955109 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
3955008 AAAATCGCAA
3955018 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
3955051 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
3955084 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
3955110 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:3955463 original size:93 final size:93
Alignment explanation
Indices: 3955193--3955752 Score: 1081
Period size: 93 Copynumber: 6.1 Consensus size: 93
3955183 ATGGATTGCA
3955193 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
3955257 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
3955285 TTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
3955349 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
3955377 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
3955442 TAGCAGAATTGGCAACAACCGAACAAA-
66 TAGCAGAATTGGCAGCAACCGAACAAAT
3955469 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
3955534 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
3955562 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
3955627 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
3955655 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
3955720 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
3955748 TTACT
1 TTACT
3955753 AAGCAATCTA
Statistics
Matches: 462, Mismatches: 3, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
92 187 0.40
93 275 0.60
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:3955509 original size:185 final size:186
Alignment explanation
Indices: 3955193--3955752 Score: 1081
Period size: 185 Copynumber: 3.0 Consensus size: 186
3955183 ATGGATTGCA
3955193 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
3955257 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
3955321 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
3955377 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
3955442 TAGCAGAATTGGCAACAACCGAACAAA-TTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
3955506 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
3955562 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
3955627 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
*
3955692 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAATAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
3955748 TTACT
1 TTACT
3955753 AAGCAATCTA
Statistics
Matches: 370, Mismatches: 3, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
184 23 0.06
185 250 0.68
186 97 0.26
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:3957469 original size:14 final size:14
Alignment explanation
Indices: 3957450--3957539 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
3957440 TTGAAATGAA
3957450 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
3957464 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
3957483 AATCGCAACTAGAG
1 AATCGCAACGAGAG
*
3957497 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
3957516 AATCGCAACGAGAG
1 AATCGCAACGAGAG
3957530 AATCGCAACG
1 AATCGCAACG
3957540 CGAAATGAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 30 0.50
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 20 0.33
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:3957482 original size:33 final size:33
Alignment explanation
Indices: 3957442--3957556 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
3957432 TCTTTTGGTT
3957442 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
3957475 GAAATGAAAATCGCAACTAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
3957508 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
3957541 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
3957557 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.47, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:3957488 original size:19 final size:19
Alignment explanation
Indices: 3957464--3957561 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
3957454 GCAACGAGAG
3957464 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
* *
3957483 AATCGCAA--C--TA-GAG
1 AATCGCAACGCGAAATGAA
3957497 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
3957516 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
3957530 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
3957549 AATCGCAATGCGA
1 AATCGCAACGCGA
3957562 TTTTGGTTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 20 0.32
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 32 0.52
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:3957593 original size:14 final size:14
Alignment explanation
Indices: 3957573--3957628 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 14
3957563 TTTGGTTTCG
3957573 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
3957587 AGTTGCGATTTCATTTCG
1 CGTTGCGA-TTC---TCT
3957605 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
3957619 CGTTGCGATT
1 CGTTGCGATT
3957629 TTCATTTCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 19 0.56
15 3 0.09
17 3 0.09
18 9 0.26
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:3957607 original size:32 final size:33
Alignment explanation
Indices: 3957557--3957636 Score: 126
Period size: 32 Copynumber: 2.5 Consensus size: 33
3957547 AAAATCGCAA
**
3957557 TGCGATTTTGGTTTCGCGTTGCGATTCTCTAGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTAGT
*
3957590 TGCGA-TTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTAGT
3957622 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
3957637 TCTCGTTGCG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
32 29 0.67
33 14 0.33
ACGTcount: A:0.10, C:0.21, G:0.23, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTAGT
Found at i:3957657 original size:41 final size:41
Alignment explanation
Indices: 3957612--3957689 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
3957602 TCGCGTTGCG
*
3957612 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
3957653 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
3957690 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Done.