Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_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: 7662336
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 27 of 38
Found at i:5597302 original size:41 final size:41
Alignment explanation
Indices: 5597256--5597347 Score: 143
Period size: 41 Copynumber: 2.2 Consensus size: 41
5597246 TTTTTTAACT
5597256 ATCGCAACGACAACTGTAGACTATCGCAA-C-AAATTTGGAAA
1 ATCGCAACGACAACTGTAGACTATCGCAACCGAAA--TGGAAA
5597297 ATCGCAACGACAACTGTAGACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGACAACTGTAGACTATCGCAAC-CGAAATGGAAA
5597339 ATCGCAACG
1 ATCGCAACG
5597348 CGATTTTTAA
Statistics
Matches: 48, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
41 29 0.60
42 15 0.31
43 1 0.02
44 3 0.06
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (41 bp):
ATCGCAACGACAACTGTAGACTATCGCAACCGAAATGGAAA
Found at i:5613485 original size:14 final size:13
Alignment explanation
Indices: 5613458--5613490 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
5613448 ATCCTTTTAA
5613458 TAAAATATTTTTT
1 TAAAATATTTTTT
5613471 TAAAATATTTCTTT
1 TAAAATATTT-TTT
5613485 TAAAAT
1 TAAAAT
5613491 CTTGATGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (13 bp):
TAAAATATTTTTT
Found at i:5619126 original size:17 final size:17
Alignment explanation
Indices: 5619102--5619154 Score: 81
Period size: 17 Copynumber: 3.2 Consensus size: 17
5619092 TAAAAGATAC
5619102 AATA-TATAGTAAGAGA
1 AATAGTATAGTAAGAGA
5619118 AATAGTATAGTAAGAGA
1 AATAGTATAGTAAGAGA
* *
5619135 AATAGTATAATAAAAGA
1 AATAGTATAGTAAGAGA
5619152 AAT
1 AAT
5619155 TATACAGTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
16 4 0.12
17 30 0.88
ACGTcount: A:0.58, C:0.00, G:0.17, T:0.25
Consensus pattern (17 bp):
AATAGTATAGTAAGAGA
Found at i:5622532 original size:80 final size:79
Alignment explanation
Indices: 5622403--5622562 Score: 268
Period size: 80 Copynumber: 2.0 Consensus size: 79
5622393 AAATTAACTA
* *
5622403 ATTTGTTTTCTTTAACATTAATCAAACCAAATTATTTGACCGTTAATCGAACCGAAATTTATTTG
1 ATTTGTTTTCTTTAACATTAATCAAACCAAATTATTTGACCCTTAATCGAACCCAAATTTATTTG
5622468 AAAATTATTAACCG
66 AAAATTATTAACCG
*
5622482 ATTT-TTTTCTTTAACCATTAATCGAACCAAAATTATTTGACCCTTAATCGAACCCAAATTTATT
1 ATTTGTTTTCTTTAA-CATTAATCAAACC-AAATTATTTGACCCTTAATCGAACCCAAATTTATT
5622546 TGAAAATTATTAACCG
64 TGAAAATTATTAACCG
5622562 A
1 A
5622563 ATTAACCTAA
Statistics
Matches: 76, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
78 10 0.13
79 16 0.21
80 50 0.66
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (79 bp):
ATTTGTTTTCTTTAACATTAATCAAACCAAATTATTTGACCCTTAATCGAACCCAAATTTATTTG
AAAATTATTAACCG
Found at i:5622626 original size:74 final size:69
Alignment explanation
Indices: 5622525--5622690 Score: 199
Period size: 74 Copynumber: 2.3 Consensus size: 69
5622515 TATTTGACCC
** *
5622525 TTAATCGAACCCAAATTTATTTGAAAATTATTAACCGAATTAACCTAATAAAATAAATTATTTTT
1 TTAATCGAACTGAAATTTATTTGAAAATTATTAACCG----AACCAAATAAAAT-AATTATTTTT
*
5622590 CTTTAACCG
61 CTTTAACCA
* * * *
5622599 TTAATCGAACTGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACTGATTTTTTTTCTTTA
1 TTAATCGAACTGAAATTTATTTGAAAATTATTAACCGAACCAAATAAAATAATTATTTTTCTTTA
5622664 ACCA
66 ACCA
*
5622668 TTAATCAAACTGAAA-TTATTTGA
1 TTAATCGAACTGAAATTTATTTGA
5622691 CCGTTAATCA
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
68 8 0.10
69 30 0.36
70 10 0.12
74 35 0.42
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (69 bp):
TTAATCGAACTGAAATTTATTTGAAAATTATTAACCGAACCAAATAAAATAATTATTTTTCTTTA
ACCA
Found at i:5622682 original size:69 final size:71
Alignment explanation
Indices: 5622537--5622690 Score: 197
Period size: 69 Copynumber: 2.2 Consensus size: 71
5622527 AATCGAACCC
* *
5622537 AAATTTATTTGAAAATTATTAACCGAATTAACCTAATAAAATAAATTATTTTTCTTTAACCGTTA
1 AAATTTATTTGAAAATTATTAACCG-A--AACCAAATAAAATAAATTATTTTTCTTTAACCATTA
*
5622602 ATCGAACTG
63 ATCAAACTG
* * * *
5622611 AAATTTATTTGAAAATTATTAACCG-AACCAAATCAACT-GATTTTTTTTCTTTAACCATTAATC
1 AAATTTATTTGAAAATTATTAACCGAAACCAAATAAAATAAATTATTTTTCTTTAACCATTAATC
5622674 AAACTG
66 AAACTG
5622680 AAA-TTATTTGA
1 AAATTTATTTGA
5622691 CCGTTAATCA
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
68 8 0.11
69 30 0.41
70 10 0.14
74 25 0.34
ACGTcount: A:0.41, C:0.13, G:0.06, T:0.40
Consensus pattern (71 bp):
AAATTTATTTGAAAATTATTAACCGAAACCAAATAAAATAAATTATTTTTCTTTAACCATTAATC
AAACTG
Found at i:5622712 original size:169 final size:167
Alignment explanation
Indices: 5622477--5622897 Score: 597
Period size: 161 Copynumber: 2.6 Consensus size: 167
5622467 GAAAATTATT
* * * *
5622477 AACCG-ATTTTTTTCTTTAACCATTAATCGAACCAAAATTATTTGACCCTTAATCGAACCCAAAT
1 AACCGAATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAATCGAAAT
*
5622541 TTATTTGAAAATTATTAACCGAATTAACCTAATAAAATAAATTA-TTTTTCTTTAACCGTTAATC
66 TTATTTGAAAATTATTAACCG-ATTAA-C-AATAAAATAAATTATTTTTTCCTTAACCGTTAATC
* *
5622605 GAACTGAAATTTATTTGAAAATTATTAACCGAACCAAATC
128 GAACCGAAATTTATTTGAAAATTATTAACCAAACCAAATC
* * * * *
5622645 AACTGATTTTTTTTCTTTAACCATTAATCAAACTGAAATTATTTGACCGTTAATCAAATCGAAAT
1 AACCGAATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAATCGAAAT
5622710 TTATTTGAAAATTATTAACC-----A-AATAAAATAAATTATTTTTTCCTTAACCGTTAATCGAA
66 TTATTTGAAAATTATTAACCGATTAACAATAAAATAAATTATTTTTTCCTTAACCGTTAATCGAA
* * *
5622769 CCGAAATTTATTTGAAAATTATTAACCAAATCGAATT
131 CCGAAATTTATTTGAAAATTATTAACCAAACCAAATC
* *
5622806 AACCGAATTTGTTTCTTTAACCATTAATCGAACCGAAATTATTTGATCGTTAATCGAATCGAAAT
1 AACCGAATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAATCGAAAT
*
5622871 TTATTTGAAAATTATTAACTGATTAAC
66 TTATTTGAAAATTATTAACCGATTAAC
5622898 GGTTAATTTG
Statistics
Matches: 222, Mismatches: 23, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
160 14 0.06
161 131 0.59
163 1 0.00
166 1 0.00
168 4 0.02
169 71 0.32
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.38
Consensus pattern (167 bp):
AACCGAATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAATCGAAAT
TTATTTGAAAATTATTAACCGATTAACAATAAAATAAATTATTTTTTCCTTAACCGTTAATCGAA
CCGAAATTTATTTGAAAATTATTAACCAAACCAAATC
Found at i:5622774 original size:66 final size:69
Alignment explanation
Indices: 5622690--5622851 Score: 215
Period size: 66 Copynumber: 2.4 Consensus size: 69
5622680 AAATTATTTG
* * **
5622690 ACCGTTAATCAAATCGAAATTTATTTGAAAATTATTAACCAAAT-AAAATAA-ATTATTT-TTTC
1 ACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCAAATCAAAATAACAGAATTTGTTTC
5622752 CTTA
66 CTTA
* * *
5622756 ACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCAAATCGAATTAACCGAATTTGTTTC
1 ACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCAAATCAAAATAACAGAATTTGTTTC
*
5622821 TTTA
66 CTTA
*
5622825 ACCATTAATCGAACCGAAA-TTATTTGA
1 ACCGTTAATCGAACCGAAATTTATTTGA
5622852 TCGTTAATCG
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
66 42 0.50
67 5 0.06
68 12 0.14
69 25 0.30
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (69 bp):
ACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCAAATCAAAATAACAGAATTTGTTTC
CTTA
Found at i:5624881 original size:12 final size:13
Alignment explanation
Indices: 5624849--5624873 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5624839 TTTTTTAAAT
5624849 AAAATATTATTTA
1 AAAATATTATTTA
5624862 AAAATATTATTT
1 AAAATATTATTT
5624874 TAAATATTGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAAATATTATTTA
Found at i:5625151 original size:32 final size:32
Alignment explanation
Indices: 5625112--5625175 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
5625102 ATTTAAATAT
5625112 AATGTGACAATTATTTTTGTATTAATTTAGAC
1 AATGTGACAATTATTTTTGTATTAATTTAGAC
5625144 AATGTGACAATTATTTTTGTATTAATTTAGAC
1 AATGTGACAATTATTTTTGTATTAATTTAGAC
5625176 TTAATATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.47
Consensus pattern (32 bp):
AATGTGACAATTATTTTTGTATTAATTTAGAC
Found at i:5626079 original size:14 final size:15
Alignment explanation
Indices: 5626055--5626083 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
5626045 AATAAACTGA
5626055 CCATAAAAATTCAAT
1 CCATAAAAATTCAAT
5626070 CCAT-AAAATTCAAT
1 CCATAAAAATTCAAT
5626084 GAATAAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
CCATAAAAATTCAAT
Found at i:5633346 original size:41 final size:41
Alignment explanation
Indices: 5633287--5633371 Score: 125
Period size: 41 Copynumber: 2.1 Consensus size: 41
5633277 TTATATATAT
* *
5633287 ATATATTCTGTATTTGGTGTTCGAACACAATAGCTCAAGTA
1 ATATATTCTGTATGTGGTGTTCGAACACAAGAGCTCAAGTA
* * *
5633328 ATATATTCTGTATGTGGTGTTCGAACTCAAGATCTTAAGTA
1 ATATATTCTGTATGTGGTGTTCGAACACAAGAGCTCAAGTA
5633369 ATA
1 ATA
5633372 GTAACAAGTC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.38
Consensus pattern (41 bp):
ATATATTCTGTATGTGGTGTTCGAACACAAGAGCTCAAGTA
Found at i:5633964 original size:12 final size:12
Alignment explanation
Indices: 5633947--5633984 Score: 76
Period size: 12 Copynumber: 3.2 Consensus size: 12
5633937 ATGGTGGTTG
5633947 ATAACGTGATGA
1 ATAACGTGATGA
5633959 ATAACGTGATGA
1 ATAACGTGATGA
5633971 ATAACGTGATGA
1 ATAACGTGATGA
5633983 AT
1 AT
5633985 GAGCTAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (12 bp):
ATAACGTGATGA
Found at i:5634739 original size:18 final size:18
Alignment explanation
Indices: 5634718--5634779 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
5634708 ACAAACATCT
5634718 TTATCATGATCTCTATCA
1 TTATCATGATCTCTATCA
* ** ***
5634736 TTATTAACATAAATATCA
1 TTATCATGATCTCTATCA
5634754 TTATCATGATCTCTATCA
1 TTATCATGATCTCTATCA
*
5634772 CTATCATG
1 TTATCATG
5634780 TATTAACATT
Statistics
Matches: 31, Mismatches: 13, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.34, C:0.19, G:0.05, T:0.42
Consensus pattern (18 bp):
TTATCATGATCTCTATCA
Found at i:5634758 original size:36 final size:36
Alignment explanation
Indices: 5634697--5634777 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 36
5634687 ACATATACCC
*
5634697 TCATTATCAACACAAACATCTTTATCATGATCTCTA
1 TCATTATCAACACAAACATCATTATCATGATCTCTA
* * *
5634733 TCATTATTAACATAAATATCATTATCATGATCTCTA
1 TCATTATCAACACAAACATCATTATCATGATCTCTA
*
5634769 TCACTATCA
1 TCATTATCA
5634778 TGTATTAACA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.37, C:0.22, G:0.02, T:0.38
Consensus pattern (36 bp):
TCATTATCAACACAAACATCATTATCATGATCTCTA
Found at i:5635070 original size:21 final size:21
Alignment explanation
Indices: 5635025--5635102 Score: 117
Period size: 21 Copynumber: 3.9 Consensus size: 21
5635015 GCACTGAAAT
*
5635025 TTGTCCTGAAGGACCAC--TA
1 TTGTCCCGAAGGACCACTGTA
*
5635044 -TGTCCCGTAGGACCACTGTA
1 TTGTCCCGAAGGACCACTGTA
5635064 TTGTCCCGAAGGACCACTGTA
1 TTGTCCCGAAGGACCACTGTA
5635085 TTGTCCCGAAGGACCACT
1 TTGTCCCGAAGGACCACT
5635103 ATATCCCATA
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
18 14 0.26
20 2 0.04
21 37 0.70
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.24
Consensus pattern (21 bp):
TTGTCCCGAAGGACCACTGTA
Found at i:5635075 original size:39 final size:41
Alignment explanation
Indices: 5635025--5635102 Score: 115
Period size: 39 Copynumber: 1.9 Consensus size: 41
5635015 GCACTGAAAT
* *
5635025 TTGTCCTGAAGGACCAC-TA-TGTCCCGTAGGACCACTGTA
1 TTGTCCCGAAGGACCACGTATTGTCCCGAAGGACCACTGTA
5635064 TTGTCCCGAAGGACCACTGTATTGTCCCGAAGGACCACT
1 TTGTCCCGAAGGACCAC-GTATTGTCCCGAAGGACCACT
5635103 ATATCCCATA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
39 16 0.47
41 2 0.06
42 16 0.47
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.24
Consensus pattern (41 bp):
TTGTCCCGAAGGACCACGTATTGTCCCGAAGGACCACTGTA
Found at i:5636479 original size:20 final size:20
Alignment explanation
Indices: 5636454--5636507 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
5636444 ATCTTCAGGG
5636454 GGGTATCGATACCCCCTATA
1 GGGTATCGATACCCCCTATA
5636474 GGGTATCGATACCCCCTATA
1 GGGTATCGATACCCCCTATA
5636494 GGGTATCGATACCC
1 GGGTATCGATACCC
5636508 TACTGACATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (20 bp):
GGGTATCGATACCCCCTATA
Found at i:5638484 original size:13 final size:13
Alignment explanation
Indices: 5638468--5638502 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
5638458 TTCAAATATA
5638468 TTATCAATTTAAT
1 TTATCAATTTAAT
*
5638481 TTATCGATTTAAT
1 TTATCAATTTAAT
*
5638494 TTATTAATT
1 TTATCAATT
5638503 ATTCTAAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (13 bp):
TTATCAATTTAAT
Found at i:5638729 original size:34 final size:34
Alignment explanation
Indices: 5638686--5638753 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
5638676 AAATTAATAA
5638686 CCCTACAATTTTGGGACCATCTAGCAGTCAATTT
1 CCCTACAATTTTGGGACCATCTAGCAGTCAATTT
5638720 CCCTACAATTTTGGGACCATCTAGCAGTCAATTT
1 CCCTACAATTTTGGGACCATCTAGCAGTCAATTT
5638754 AAAACGCCCG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (34 bp):
CCCTACAATTTTGGGACCATCTAGCAGTCAATTT
Found at i:5639096 original size:31 final size:31
Alignment explanation
Indices: 5639015--5639113 Score: 89
Period size: 31 Copynumber: 3.3 Consensus size: 31
5639005 TTTTGAACGG
* *
5639015 GGTACTAAAATGATACAAAAACT-AAACTTTA
1 GGTACTAAAATGA-ACAAAAATTGAAAGTTTA
** *
5639046 GGTA-T-AGTTTAA-AAAAATTGAAAGTTTA
1 GGTACTAAAATGAACAAAAATTGAAAGTTTA
*
5639074 GGTACTAAAATGAACAAAAATTGATAGTTTA
1 GGTACTAAAATGAACAAAAATTGAAAGTTTA
**
5639105 AATACTAAA
1 GGTACTAAA
5639114 CGCATAATTA
Statistics
Matches: 53, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
27 6 0.11
28 12 0.23
29 4 0.08
30 5 0.09
31 26 0.49
ACGTcount: A:0.51, C:0.07, G:0.13, T:0.29
Consensus pattern (31 bp):
GGTACTAAAATGAACAAAAATTGAAAGTTTA
Found at i:5645503 original size:19 final size:19
Alignment explanation
Indices: 5645479--5645524 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
5645469 TGTGTTGATG
5645479 GTTCCTCTTTTTCATTTTC
1 GTTCCTCTTTTTCATTTTC
*
5645498 GTTCCTCTTTTTCTTTTTC
1 GTTCCTCTTTTTCATTTTC
5645517 GTTCCTCT
1 GTTCCTCT
5645525 CGATTCTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.02, C:0.28, G:0.07, T:0.63
Consensus pattern (19 bp):
GTTCCTCTTTTTCATTTTC
Found at i:5646134 original size:3 final size:3
Alignment explanation
Indices: 5646126--5646220 Score: 111
Period size: 3 Copynumber: 31.0 Consensus size: 3
5646116 TAAAAGCATA
*
5646126 AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT AAT GAT -AT AAAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* * * *
5646172 AAT AAT AAT AAT AAT AAT AAC ACT AAT AAT ATT AAAT ATT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
5646218 AAT
1 AAT
5646221 TCGGACAAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
2 2 0.03
3 70 0.89
4 7 0.09
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:5647122 original size:17 final size:17
Alignment explanation
Indices: 5647087--5647130 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
5647077 TTCTACAAAT
*
5647087 TAATATTTTATAAATTAA
1 TAATATTTT-TAAAATAA
5647105 TAATATTTTTAAAATAA
1 TAATATTTTTAAAATAA
5647122 TAAT-TTTTT
1 TAATATTTTT
5647131 CGATCGGGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 5 0.20
17 11 0.44
18 9 0.36
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TAATATTTTTAAAATAA
Found at i:5647725 original size:63 final size:60
Alignment explanation
Indices: 5647599--5647748 Score: 162
Period size: 63 Copynumber: 2.5 Consensus size: 60
5647589 AATATAATGA
* *
5647599 ATAGTCGGGTGACCATTTTGTAACTTTTGATAGTCGAAGGACTTAATAAAGCAACACTCT
1 ATAGTCAGGTGACCATTTTGTAACTTTTAATAGTCGAAGGACTTAATAAAGCAACACTCT
* * * *
5647659 ATAGTCAGATGACCATTTTGTTATAATTTTTAATAGTTGAAGGACTTAATAAAGTAGTAC-CT-T
1 ATAGTCAGGTGACCATTTTG---TAACTTTTAATAGTCGAAGGACTTAATAAAGCA--ACACTCT
*
5647722 ATAGTCAGGGGACCA-TTTGTATACTTT
1 ATAGTCAGGTGACCATTTTGTA-ACTTT
5647749 ATCCAACTAC
Statistics
Matches: 75, Mismatches: 9, Indels: 12
0.78 0.09 0.12
Matches are distributed among these distances:
59 2 0.03
60 22 0.29
62 4 0.05
63 43 0.57
64 2 0.03
65 2 0.03
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (60 bp):
ATAGTCAGGTGACCATTTTGTAACTTTTAATAGTCGAAGGACTTAATAAAGCAACACTCT
Found at i:5648404 original size:2 final size:2
Alignment explanation
Indices: 5648397--5648425 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
5648387 TCCGTTAATA
5648397 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5648426 TTTTGTTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:5649374 original size:60 final size:61
Alignment explanation
Indices: 5649260--5649386 Score: 154
Period size: 60 Copynumber: 2.1 Consensus size: 61
5649250 TGACCTTTCA
* *
5649260 TAACTTTTAATAGTAGAGAGACTTAACAAAGTAATACTCTATAGCCAAAGGACCATTT-TG
1 TAACTTTTAATAGTAGAGAGACCTAACAAAATAATACTCTATAGCCAAAGGACCATTTGTG
* * **
5649320 TAACTTTTAATAGTAGAGAGACCTAATAAAATAGTA-TCTTATAGCC-GGGAGACCATTTGTG
1 TAACTTTTAATAGTAGAGAGACCTAACAAAATAATACTC-TATAGCCAAAG-GACCATTTGTG
5649381 T-ACTTT
1 TAACTTT
5649387 ACCTTTTAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
59 3 0.05
60 52 0.90
61 3 0.05
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (61 bp):
TAACTTTTAATAGTAGAGAGACCTAACAAAATAATACTCTATAGCCAAAGGACCATTTGTG
Found at i:5649725 original size:4 final size:4
Alignment explanation
Indices: 5649704--5649740 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
5649694 GTATATCATA
*
5649704 TATG TATG TGTG TA-- TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
5649741 ATGGGGTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
2 2 0.07
4 27 0.93
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:5649743 original size:14 final size:14
Alignment explanation
Indices: 5649702--5649740 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
5649692 AGGTATATCA
*
5649702 TATATGTATGTGTG
1 TATATGTATGTATG
5649716 TATATGTATGTATG
1 TATATGTATGTATG
5649730 --TATGTATGTAT
1 TATATGTATGTAT
5649741 ATGGGGTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 11 0.46
14 13 0.54
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (14 bp):
TATATGTATGTATG
Found at i:5652201 original size:19 final size:19
Alignment explanation
Indices: 5652177--5652213 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
5652167 ATGACCAACA
*
5652177 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
5652196 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
5652214 CAGTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:5652264 original size:20 final size:20
Alignment explanation
Indices: 5652239--5652310 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
5652229 GTTTCTAGAT
*
5652239 TCGTAACGCGATTTTGACTA
1 TCGTAACGCGATTATGACTA
* * *
5652259 TCGTAATGCGAATATGTA-AA
1 TCGTAACGCGATTATG-ACTA
* * *
5652279 TAGCAACGCGATTCTGACTA
1 TCGTAACGCGATTATGACTA
5652299 TCGTAACGCGAT
1 TCGTAACGCGAT
5652311 AATACATAAT
Statistics
Matches: 38, Mismatches: 12, Indels: 4
0.70 0.22 0.07
Matches are distributed among these distances:
19 1 0.03
20 36 0.95
21 1 0.03
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (20 bp):
TCGTAACGCGATTATGACTA
Found at i:5652414 original size:22 final size:22
Alignment explanation
Indices: 5652389--5652439 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
5652379 CTACGGCAAC
*
5652389 ATCCGTCCCCATCTCCGACGAA
1 ATCCATCCCCATCTCCGACGAA
5652411 ATCCATCCCCATCTCCGACGAA
1 ATCCATCCCCATCTCCGACGAA
5652433 ATCCATC
1 ATCCATC
5652440 TATCTCCATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.45, G:0.10, T:0.20
Consensus pattern (22 bp):
ATCCATCCCCATCTCCGACGAA
Found at i:5652863 original size:39 final size:40
Alignment explanation
Indices: 5652805--5652887 Score: 123
Period size: 39 Copynumber: 2.1 Consensus size: 40
5652795 AAAATCGCAA
* **
5652805 CGATAGTCAAATTCGCGTTGCGATTTTCA-TTTCGCGTTG
1 CGATAGTCAAATTCACGTTGCGATAGTCATTTTCGCGTTG
*
5652844 CGATAGTCAAATTCACGTTGCGATAGTCATTTTCGTGTTG
1 CGATAGTCAAATTCACGTTGCGATAGTCATTTTCGCGTTG
5652884 CGAT
1 CGAT
5652888 TTTCATTTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 26 0.67
40 13 0.33
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.37
Consensus pattern (40 bp):
CGATAGTCAAATTCACGTTGCGATAGTCATTTTCGCGTTG
Found at i:5652864 original size:20 final size:20
Alignment explanation
Indices: 5652805--5652887 Score: 96
Period size: 20 Copynumber: 4.2 Consensus size: 20
5652795 AAAATCGCAA
5652805 CGATAGTCAAATTCGCGTTG
1 CGATAGTCAAATTCGCGTTG
** *
5652825 CGATTTTC-ATTTCGCGTTG
1 CGATAGTCAAATTCGCGTTG
*
5652844 CGATAGTCAAATTCACGTTG
1 CGATAGTCAAATTCGCGTTG
** *
5652864 CGATAGTCATTTTCGTGTTG
1 CGATAGTCAAATTCGCGTTG
5652884 CGAT
1 CGAT
5652888 TTTCATTTTC
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
19 16 0.31
20 35 0.69
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.37
Consensus pattern (20 bp):
CGATAGTCAAATTCGCGTTG
Found at i:5652893 original size:20 final size:20
Alignment explanation
Indices: 5652816--5652910 Score: 102
Period size: 20 Copynumber: 4.8 Consensus size: 20
5652806 GATAGTCAAA
5652816 TTCGCGTTGCGATTTTCA-T
1 TTCGCGTTGCGATTTTCATT
** **
5652835 TTCGCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATTTTCATT
* **
5652855 TTCACGTTGCGATAGTCATT
1 TTCGCGTTGCGATTTTCATT
*
5652875 TTCGTGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
*
5652895 TTCGTGTTGCGATTTT
1 TTCGCGTTGCGATTTT
5652911 AAGTTTCAGA
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
19 16 0.25
20 49 0.75
ACGTcount: A:0.15, C:0.18, G:0.22, T:0.45
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTCATT
Found at i:5652917 original size:20 final size:20
Alignment explanation
Indices: 5652874--5652917 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
5652864 CGATAGTCAT
* *
5652874 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
5652894 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
5652914 TTTC
1 TTTC
5652918 AGAAAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:5654931 original size:19 final size:19
Alignment explanation
Indices: 5654903--5654952 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
5654893 AAAATGAAAA
*
5654903 TCGCAATGCGA-ATTTAGTT
1 TCGCATTGCGATATTTA-TT
* *
5654922 TCGCGTTGCGATTTTTATT
1 TCGCATTGCGATATTTATT
5654941 TCGCATTGCGAT
1 TCGCATTGCGAT
5654953 TATCCCGTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 22 0.85
20 4 0.15
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (19 bp):
TCGCATTGCGATATTTATT
Found at i:5654953 original size:19 final size:20
Alignment explanation
Indices: 5654915--5654953 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
5654905 GCAATGCGAA
*
5654915 TTTAGTTTCGCGTTGCGATT
1 TTTAGTTTCGCATTGCGATT
5654935 TTTA-TTTCGCATTGCGATT
1 TTTAGTTTCGCATTGCGATT
5654954 ATCCCGTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.13, C:0.15, G:0.21, T:0.51
Consensus pattern (20 bp):
TTTAGTTTCGCATTGCGATT
Found at i:5655016 original size:20 final size:20
Alignment explanation
Indices: 5654993--5655036 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
5654983 CGATAGTCAT
*
5654993 TTTCGCGTTGCGATTTTAAG
1 TTTCGCGTTACGATTTTAAG
*
5655013 TTTCGTGTTACGATTTTAAG
1 TTTCGCGTTACGATTTTAAG
5655033 TTTC
1 TTTC
5655037 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.14, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTACGATTTTAAG
Found at i:5655579 original size:42 final size:42
Alignment explanation
Indices: 5655517--5655628 Score: 136
Period size: 42 Copynumber: 2.7 Consensus size: 42
5655507 CTGTCATCGT
*
5655517 TCAAGAGG-CCTCTCCTATCGTTCAAGAGGCCCCTATCATCCC
1 TCAAGAGGTCC-CTCCCATCGTTCAAGAGGCCCCTATCATCCC
* * **
5655559 TCAAGAGTTCCCTCCCATCGTTCAAGAGGCCCCTGTCATCGT
1 TCAAGAGGTCCCTCCCATCGTTCAAGAGGCCCCTATCATCCC
* * *
5655601 TGAAGAGGTCCCTCCCACCATTCAAGAG
1 TCAAGAGGTCCCTCCCATCGTTCAAGAG
5655629 CCCGATTCAT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
42 58 0.97
43 2 0.03
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.23
Consensus pattern (42 bp):
TCAAGAGGTCCCTCCCATCGTTCAAGAGGCCCCTATCATCCC
Found at i:5655627 original size:21 final size:21
Alignment explanation
Indices: 5655511--5655628 Score: 103
Period size: 21 Copynumber: 5.6 Consensus size: 21
5655501 ACTCAACTGT
5655511 CATCGTTCAAGAGG-CCTCTCC
1 CATCGTTCAAGAGGTCC-CTCC
* * **
5655532 TATCGTTCAAGAGGCCCCTAT
1 CATCGTTCAAGAGGTCCCTCC
** *
5655553 CATCCCTCAAGAGTTCCCTCC
1 CATCGTTCAAGAGGTCCCTCC
* **
5655574 CATCGTTCAAGAGGCCCCTGT
1 CATCGTTCAAGAGGTCCCTCC
*
5655595 CATCGTTGAAGAGGTCCCTCC
1 CATCGTTCAAGAGGTCCCTCC
* *
5655616 CACCATTCAAGAG
1 CATCGTTCAAGAG
5655629 CCCGATTCAT
Statistics
Matches: 73, Mismatches: 23, Indels: 2
0.74 0.23 0.02
Matches are distributed among these distances:
21 71 0.97
22 2 0.03
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.24
Consensus pattern (21 bp):
CATCGTTCAAGAGGTCCCTCC
Found at i:5657003 original size:36 final size:36
Alignment explanation
Indices: 5656961--5657070 Score: 112
Period size: 36 Copynumber: 3.3 Consensus size: 36
5656951 AAAGTCTGAT
5656961 TTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
1 TTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
* * *
5656997 TTGTTTAATTGATTTGT-AA-AAGT-TGA----T--
1 TTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
*
5657024 TTGTTTAATTGATGTGTAAATATTTCTTATTTGTGC
1 TTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
*
5657060 TTATTTAATTG
1 TTGTTTAATTG
5657071 GTTGAAATGT
Statistics
Matches: 57, Mismatches: 8, Indels: 18
0.69 0.10 0.22
Matches are distributed among these distances:
27 16 0.28
28 2 0.04
29 3 0.05
30 2 0.04
33 2 0.04
34 4 0.07
35 2 0.04
36 26 0.46
ACGTcount: A:0.25, C:0.04, G:0.16, T:0.55
Consensus pattern (36 bp):
TTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
Found at i:5657040 original size:63 final size:64
Alignment explanation
Indices: 5656933--5657070 Score: 235
Period size: 63 Copynumber: 2.2 Consensus size: 64
5656923 ACTTTTTTTA
5656933 TTGTTTAATTGATTCTTAAAAGTCTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
1 TTGTTTAATTGATTCTTAAAAGTCTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
*
5656997 TTGTTTAATTGATT-TGTAAAAGT-TGATTTGTTTAATTGATGTGTAAATATTTCTTATTTGTGC
1 TTGTTTAATTGATTCT-TAAAAGTCTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
*
5657060 TTATTTAATTG
1 TTGTTTAATTG
5657071 GTTGAAATGT
Statistics
Matches: 71, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
63 50 0.70
64 21 0.30
ACGTcount: A:0.26, C:0.04, G:0.16, T:0.54
Consensus pattern (64 bp):
TTGTTTAATTGATTCTTAAAAGTCTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTGTGC
Found at i:5657200 original size:20 final size:20
Alignment explanation
Indices: 5657147--5657192 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
5657137 AGGTACACTT
5657147 TCGCAACGCTAAACTCAAAA
1 TCGCAACGCTAAACTCAAAA
*
5657167 TCACAACGCTAAACTCAAAA
1 TCGCAACGCTAAACTCAAAA
5657187 TCGCAA
1 TCGCAA
5657193 TGCGAAACGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.46, C:0.30, G:0.09, T:0.15
Consensus pattern (20 bp):
TCGCAACGCTAAACTCAAAA
Found at i:5657250 original size:20 final size:20
Alignment explanation
Indices: 5657223--5657352 Score: 197
Period size: 20 Copynumber: 6.5 Consensus size: 20
5657213 TCTCGTTGTA
*
5657223 ATAGTCAAATTCCCGTTGCG
1 ATAGTCAAATTCGCGTTGCG
* *
5657243 ATAATCAAATTCACGTTGCG
1 ATAGTCAAATTCGCGTTGCG
5657263 ATAGTCAAATTCGCGTTGCG
1 ATAGTCAAATTCGCGTTGCG
*
5657283 ATAGTTAAATTCGCGTTGCG
1 ATAGTCAAATTCGCGTTGCG
*
5657303 ATAGTCAAATTCACGTTGCG
1 ATAGTCAAATTCGCGTTGCG
*
5657323 ATAGTCAAATTCGCATTGCG
1 ATAGTCAAATTCGCGTTGCG
*
5657343 ATATTCAAAT
1 ATAGTCAAAT
5657353 GAATGTGTAA
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 100 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (20 bp):
ATAGTCAAATTCGCGTTGCG
Found at i:5657575 original size:140 final size:140
Alignment explanation
Indices: 5657323--5657592 Score: 522
Period size: 140 Copynumber: 1.9 Consensus size: 140
5657313 TCACGTTGCG
5657323 ATAGTCAAATTCGCATTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
1 ATAGTCAAATTCGCATTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
*
5657388 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 AAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
5657453 AATACACATA
131 AATACACATA
*
5657463 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
1 ATAGTCAAATTCGCATTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
5657528 AAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 AAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
5657593 CACAACGTTT
Statistics
Matches: 128, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 128 1.00
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.29
Consensus pattern (140 bp):
ATAGTCAAATTCGCATTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
AAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:5657675 original size:18 final size:18
Alignment explanation
Indices: 5657652--5657686 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5657642 AAGCCGGTTG
*
5657652 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
5657670 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
5657687 GCCTTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:5660824 original size:20 final size:20
Alignment explanation
Indices: 5660799--5660867 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
5660789 TGAAATTCAA
5660799 CGTTGCGATAGTTAGAATCG
1 CGTTGCGATAGTTAGAATCG
**
5660819 CGTTGCGATTA-TGTATTATCG
1 CGTTGCGA-TAGT-TAGAATCG
*
5660840 CGTTGCGATAGTCAGAATCG
1 CGTTGCGATAGTTAGAATCG
*
5660860 TGTTGCGA
1 CGTTGCGA
5660868 ATCTGGAAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
20 23 0.57
21 17 0.43
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTTAGAATCG
Found at i:5660826 original size:41 final size:42
Alignment explanation
Indices: 5660779--5660869 Score: 107
Period size: 41 Copynumber: 2.2 Consensus size: 42
5660769 ACTAAAACCT
*
5660779 GTTGCGAATT-TGAAAT-TCAACGTTGCGATAGTTAGAATCGC
1 GTTGCGAATTATGAAATATC-ACGTTGCGATAGTCAGAATCGC
* * * *
5660820 GTTGCG-ATTATGTATTATCGCGTTGCGATAGTCAGAATCGT
1 GTTGCGAATTATGAAATATCACGTTGCGATAGTCAGAATCGC
5660861 GTTGCGAAT
1 GTTGCGAAT
5660870 CTGGAAACTG
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
40 3 0.07
41 35 0.83
42 4 0.10
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.34
Consensus pattern (42 bp):
GTTGCGAATTATGAAATATCACGTTGCGATAGTCAGAATCGC
Found at i:5660917 original size:19 final size:19
Alignment explanation
Indices: 5660893--5660948 Score: 103
Period size: 19 Copynumber: 2.9 Consensus size: 19
5660883 TGCGATACTG
*
5660893 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
5660912 GAGATCGCATTGCGATTTA
1 GAGATCGCATTGCGATTTA
5660931 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
5660949 TGTTGGTCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:5664984 original size:21 final size:21
Alignment explanation
Indices: 5664955--5665007 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
5664945 ATTCTAACTA
5664955 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
5664976 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
5664997 TCGCAATGCGA
1 TCGCATTGCGA
5665008 ATACGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:5665022 original size:20 final size:20
Alignment explanation
Indices: 5664997--5665082 Score: 163
Period size: 20 Copynumber: 4.3 Consensus size: 20
5664987 TTTTCCTAAT
5664997 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
5665017 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
5665037 TCGCAATGAGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
5665057 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
5665077 TCGCAA
1 TCGCAA
5665083 CGCAAATCTG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 64 1.00
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:5665310 original size:22 final size:22
Alignment explanation
Indices: 5665285--5665350 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
5665275 AGCGACATCC
5665285 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
* *
5665307 GTCCCCATCTCCGACGATATTA
1 GTCCCCATCTCCGACGAAATCA
* *
5665329 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
5665351 TTCACGGTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.24, C:0.38, G:0.15, T:0.23
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:5665775 original size:20 final size:20
Alignment explanation
Indices: 5665687--5665776 Score: 92
Period size: 20 Copynumber: 4.5 Consensus size: 20
5665677 GCGATTCTGT
5665687 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGATTTTCATTTTCG
** **
5665706 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTTTCATTTTCG
** *
5665726 CGTTGCGATAGTCATTTTCT
1 CGTTGCGATTTTCATTTTCG
*
5665746 TGTTGCGATTTTCATTTTCG
1 CGTTGCGATTTTCATTTTCG
*
5665766 TGTTGCGATTT
1 CGTTGCGATTT
5665777 AAAGTTTCAG
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
19 12 0.20
20 48 0.80
ACGTcount: A:0.14, C:0.18, G:0.22, T:0.46
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTTCG
Found at i:5665784 original size:20 final size:20
Alignment explanation
Indices: 5665741--5665784 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
5665731 CGATAGTCAT
* ** *
5665741 TTTCTTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
5665761 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
5665781 TTTC
1 TTTC
5665785 AGAAACTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.14, G:0.18, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:5667461 original size:22 final size:21
Alignment explanation
Indices: 5667431--5667471 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
5667421 AAATTTACTC
*
5667431 GTAATTTCACTTAGATTGCTTA
1 GTAAATTCA-TTAGATTGCTTA
*
5667453 GTAAATTCATTCGATTGCT
1 GTAAATTCATTAGATTGCT
5667472 GCCAATACTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.44
Consensus pattern (21 bp):
GTAAATTCATTAGATTGCTTA
Found at i:5667616 original size:20 final size:20
Alignment explanation
Indices: 5667591--5667727 Score: 95
Period size: 20 Copynumber: 7.5 Consensus size: 20
5667581 AGAATAGTTT
5667591 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
5667611 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* *
5667631 ACTATCTCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
5667647 A--ATCGCAATGCG-AAATG
1 ACTATCGCAATGCGAAAATG
**
5667664 AAAATCGCAA--C-AACAA--
1 ACTATCGCAATGCGAA-AATG
*
5667680 A--ATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
5667698 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
5667718 ACTATCGCAA
1 ACTATCGCAA
5667728 CGAAAGAATC
Statistics
Matches: 95, Mismatches: 8, Indels: 28
0.73 0.06 0.21
Matches are distributed among these distances:
14 13 0.14
16 10 0.11
17 8 0.08
18 5 0.05
19 7 0.07
20 52 0.55
ACGTcount: A:0.42, C:0.23, G:0.18, T:0.18
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:5667705 original size:34 final size:34
Alignment explanation
Indices: 5667614--5667707 Score: 118
Period size: 33 Copynumber: 2.8 Consensus size: 34
5667604 GAAAATGACT
* * * *
5667614 ATCGCAACGCGAAAATGACTATCTCAACGAGAGA
1 ATCGCAACGCGAAAATGACTATCGCAACAACAAA
* **
5667648 ATCGCAATGCG-AAATGAAAATCGCAACAACAAA
1 ATCGCAACGCGAAAATGACTATCGCAACAACAAA
5667681 ATCGCAACGCGAAAATGACTATCGCAA
1 ATCGCAACGCGAAAATGACTATCGCAA
5667708 TGCGAATTTG
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
33 26 0.53
34 23 0.47
ACGTcount: A:0.45, C:0.23, G:0.18, T:0.14
Consensus pattern (34 bp):
ATCGCAACGCGAAAATGACTATCGCAACAACAAA
Found at i:5667705 original size:53 final size:53
Alignment explanation
Indices: 5667647--5667765 Score: 134
Period size: 53 Copynumber: 2.2 Consensus size: 53
5667637 TCAACGAGAG
*
5667647 AATCGCAATGCGAA-ATGAAAATCGCAAC-AACAAAATCGCAACGCGAAAATGAC
1 AATCGCAATGCGAATATGAAAATCGCAACGAA-AAAATCGCAACGCG-AAATGAA
* * ** * *
5667700 TATCGCAATGCGAATTTGACTATCGCAACGAAAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAATATGAAAATCGCAACGAAAAAATCGCAACGCGAAATGAA
*
5667753 AATCGCATTGCGA
1 AATCGCAATGCGA
5667766 TTCTCTCGTT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
53 30 0.55
54 23 0.42
55 2 0.04
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (53 bp):
AATCGCAATGCGAATATGAAAATCGCAACGAAAAAATCGCAACGCGAAATGAA
Found at i:5667740 original size:87 final size:87
Alignment explanation
Indices: 5667594--5667759 Score: 278
Period size: 87 Copynumber: 1.9 Consensus size: 87
5667584 ATAGTTTACT
* * *
5667594 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCTCAACGAGAGAATCGCAATGCG
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGAATCGCAATGCG
5667659 AAATGAAAATCGCAACAACAAA
66 AAATGAAAATCGCAACAACAAA
* **
5667681 ATCGCAACGCGAAAATGACTATCGCAATGCGAATTTGACTATCGCAACGAAAGAATCGCAATGCG
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGAATCGCAATGCG
5667746 AAATGAAAATCGCA
66 AAATGAAAATCGCA
5667760 TTGCGATTCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.43, C:0.22, G:0.19, T:0.16
Consensus pattern (87 bp):
ATCGCAACGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGAATCGCAATGCG
AAATGAAAATCGCAACAACAAA
Found at i:5667797 original size:20 final size:20
Alignment explanation
Indices: 5667772--5667820 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
5667762 GCGATTCTCT
5667772 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
5667792 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
5667812 CGTTGCGAT
1 CGTTGCGAT
5667821 TTTAAGTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.14, C:0.20, G:0.27, T:0.39
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:5667830 original size:20 final size:20
Alignment explanation
Indices: 5667772--5667830 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
5667762 GCGATTCTCT
* *
5667772 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
* *
5667792 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
**
5667812 CGTTGCGATTTTAAGTTTC
1 CGTTGCGATAGTAAGTTTC
5667831 AGATTCTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.15, C:0.19, G:0.24, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTAAGTTTCG
Found at i:5668359 original size:21 final size:21
Alignment explanation
Indices: 5668326--5668377 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
5668316 CTATCATCCC
5668326 TCAAGA-GTCCACTCCCACCGT
1 TCAAGAGGT-CACTCCCACCGT
** *
5668347 TCAAGAGGTCACTGTCATCGT
1 TCAAGAGGTCACTCCCACCGT
*
5668368 TGAAGAGGTC
1 TCAAGAGGTC
5668378 CTTCCCAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (21 bp):
TCAAGAGGTCACTCCCACCGT
Found at i:5669786 original size:14 final size:14
Alignment explanation
Indices: 5669767--5669802 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
5669757 ATTGTTTAAT
5669767 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
5669781 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
5669795 TGATTTGT
1 TGATTTGT
5669803 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:5669958 original size:33 final size:33
Alignment explanation
Indices: 5669919--5670003 Score: 134
Period size: 33 Copynumber: 2.5 Consensus size: 33
5669909 TCGCAACACG
**
5669919 GAAATGACTATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
*
5669952 GAAATGAAAATCACAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
5669985 GAAAATGAAAATCGCAACG
1 G-AAATGAAAATCGCAACG
5670004 CGAAACTAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 31 0.66
34 16 0.34
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAATGC
Found at i:5670063 original size:34 final size:34
Alignment explanation
Indices: 5670018--5670113 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 34
5670008 ACTAAATTCG
5670018 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
*
5670052 CGTTGCAATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
* ** *
5670085 CGTTGTGATAGTCATTTTCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
5670114 AGTCAATTCC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 29 0.53
34 26 0.47
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.45
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
Found at i:5670114 original size:20 final size:20
Alignment explanation
Indices: 5670085--5670173 Score: 126
Period size: 20 Copynumber: 4.5 Consensus size: 20
5670075 GCGATTCTCT
* *
5670085 CGTTGTGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTCCG
*
5670105 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
5670125 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
5670145 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
5670165 CGTTGCGAT
1 CGTTGCGAT
5670174 TTCCACGTTG
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
20 60 0.97
21 2 0.03
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:5673551 original size:20 final size:20
Alignment explanation
Indices: 5673535--5673757 Score: 383
Period size: 20 Copynumber: 11.2 Consensus size: 20
5673525 CAGATTCGTG
5673535 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
5673555 TTGTGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
5673575 TTGCGATTTACGTATTCGTA
1 TTGCGATTTACGTATTCGCA
*
5673595 TTGCGATTTACGTATTCACA
1 TTGCGATTTACGTATTCGCA
5673615 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
5673635 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
5673655 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
* *
5673675 TTACGATTTACGTATTCACA
1 TTGCGATTTACGTATTCGCA
5673695 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
5673715 TTGCGATTTACGTATTCACA
1 TTGCGATTTACGTATTCGCA
*
5673735 TTGCGATTTACGTATTCGTA
1 TTGCGATTTACGTATTCGCA
5673755 TTG
1 TTG
5673758 TGAATTAGGA
Statistics
Matches: 190, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 190 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:5674439 original size:31 final size:31
Alignment explanation
Indices: 5674404--5674489 Score: 136
Period size: 31 Copynumber: 2.7 Consensus size: 31
5674394 AATGTTTCTA
*
5674404 AATTTAATTACTTTACTTTCAAAATAATCCT
1 AATTTAATTACTTAACTTTCAAAATAATCCT
*
5674435 AATTTAATTACTTAACTTTCAAAATACTCCT
1 AATTTAATTACTTAACTTTCAAAATAATCCT
*
5674466 AATTTAATCACTCTAACTTTCAAA
1 AATTTAATTACT-TAACTTTCAAA
5674490 TTTATTTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 40 0.78
32 11 0.22
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.42
Consensus pattern (31 bp):
AATTTAATTACTTAACTTTCAAAATAATCCT
Found at i:5676215 original size:39 final size:39
Alignment explanation
Indices: 5676171--5676252 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
5676161 TAGTTTTGTG
*
5676171 AAAAATAAAATCTCCCTCTAAGTAAAATAATTTTTGGCT
1 AAAAATAAAATCTCCCCCTAAGTAAAATAATTTTTGGCT
*
5676210 AAAAATAAAATCTCCCCCTAAGTAAAATAATTTTTTGCT
1 AAAAATAAAATCTCCCCCTAAGTAAAATAATTTTTGGCT
5676249 AAAA
1 AAAA
5676253 CAAGTTTTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.46, C:0.16, G:0.06, T:0.32
Consensus pattern (39 bp):
AAAAATAAAATCTCCCCCTAAGTAAAATAATTTTTGGCT
Found at i:5677953 original size:68 final size:68
Alignment explanation
Indices: 5677864--5677996 Score: 230
Period size: 68 Copynumber: 2.0 Consensus size: 68
5677854 TCCGTCACTG
* *
5677864 GACGAGGCCATGTGATAGTGTTGGCTTCTTGGGTTGATATACTACATTTAATTAATATGTATGGA
1 GACGAGGCCATGTGATAGTGTTGGCTTCTTGGGTTGATATACTACATATAATTAATATATATGGA
5677929 ATT
66 ATT
* *
5677932 GACGAGGCCATGTGATGGTGTTGGCTTCTTGGGTTGATATACTATATATAATTAATATATATGGA
1 GACGAGGCCATGTGATAGTGTTGGCTTCTTGGGTTGATATACTACATATAATTAATATATATGGA
5677997 CAAAAGTTCT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 61 1.00
ACGTcount: A:0.27, C:0.10, G:0.26, T:0.38
Consensus pattern (68 bp):
GACGAGGCCATGTGATAGTGTTGGCTTCTTGGGTTGATATACTACATATAATTAATATATATGGA
ATT
Found at i:5678143 original size:28 final size:28
Alignment explanation
Indices: 5678112--5678165 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
5678102 TTTAATGAAA
5678112 AATGGTTTATTATTAACTACGTATTTTT
1 AATGGTTTATTATTAACTACGTATTTTT
5678140 AATGGTTTATTATTAACTACGTATTT
1 AATGGTTTATTATTAACTACGTATTT
5678166 GAACCGGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (28 bp):
AATGGTTTATTATTAACTACGTATTTTT
Found at i:5678174 original size:28 final size:28
Alignment explanation
Indices: 5678115--5678175 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
5678105 AATGAAAAAT
* *
5678115 GGTTTATTATTAACTACGTATTTTTAAT
1 GGTTTATTATTAACTACGTATTTTGAAC
5678143 GGTTTATTATTAACTACGTA-TTTGAACC
1 GGTTTATTATTAACTACGTATTTTGAA-C
5678171 GGTTT
1 GGTTT
5678176 GACTCGACCC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 5 0.17
28 25 0.83
ACGTcount: A:0.26, C:0.10, G:0.15, T:0.49
Consensus pattern (28 bp):
GGTTTATTATTAACTACGTATTTTGAAC
Found at i:5678231 original size:29 final size:28
Alignment explanation
Indices: 5678188--5678431 Score: 330
Period size: 29 Copynumber: 8.5 Consensus size: 28
5678178 CTCGACCCGA
*
5678188 GTGTTAGTTTCGTAAATATTTTTAAAAG
1 GTGTTATTTTCGTAAATATTTTTAAAAG
5678216 GATGTTATTTTCGTAAATATTTTTAAAATG
1 G-TGTTATTTTCGTAAATATTTTTAAAA-G
5678246 GTGTTATTTTCGTAAATATTTTTAAAAG
1 GTGTTATTTTCGTAAATATTTTTAAAAG
* *
5678274 GTGCTATTTTCATAAATATTTTTAAAACG
1 GTGTTATTTTCGTAAATATTTTTAAAA-G
* *
5678303 GTGCTATTTTCGTAAATATTTTTAAAGG
1 GTGTTATTTTCGTAAATATTTTTAAAAG
5678331 GTGTTATTTTCGTAAATATTTTTAAAAG
1 GTGTTATTTTCGTAAATATTTTTAAAAG
** *
5678359 G-GCGCAGTTTTCGTAAATATTTTTGAAAG
1 GTG-TTA-TTTTCGTAAATATTTTTAAAAG
*
5678388 GTGCTATTTTCGTAAATATTTTTAAAAGG
1 GTGTTATTTTCGTAAATATTTTTAAAA-G
5678417 GTGTTAGTTTT-GTAA
1 GTGTTA-TTTTCGTAA
5678432 TTAATTTCTG
Statistics
Matches: 194, Mismatches: 14, Indels: 15
0.87 0.06 0.07
Matches are distributed among these distances:
27 1 0.01
28 76 0.39
29 110 0.57
30 7 0.04
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.47
Consensus pattern (28 bp):
GTGTTATTTTCGTAAATATTTTTAAAAG
Found at i:5678311 original size:57 final size:57
Alignment explanation
Indices: 5678195--5678419 Score: 344
Period size: 57 Copynumber: 3.9 Consensus size: 57
5678185 CGAGTGTTAG
* * *
5678195 TTTCGTAAATATTTTTAAAAGGATGTTATTTTCGTAAATATTTTTAAAATGGTGTTAT
1 TTTCGTAAATATTTTTAAAAGG-TGCTATTTTCGTAAATATTTTTAAAAGGGTGCTAT
* *
5678253 TTTCGTAAATATTTTTAAAAGGTGCTATTTTCATAAATATTTTTAAAACGGTGCTAT
1 TTTCGTAAATATTTTTAAAAGGTGCTATTTTCGTAAATATTTTTAAAAGGGTGCTAT
* * *
5678310 TTTCGTAAATATTTTTAAAGGGTGTTATTTTCGTAAATATTTTTAAAAGGGCGC-AGT
1 TTTCGTAAATATTTTTAAAAGGTGCTATTTTCGTAAATATTTTTAAAAGGGTGCTA-T
*
5678367 TTTCGTAAATATTTTTGAAAGGTGCTATTTTCGTAAATATTTTTAAAAGGGTG
1 TTTCGTAAATATTTTTAAAAGGTGCTATTTTCGTAAATATTTTTAAAAGGGTG
5678420 TTAGTTTTGT
Statistics
Matches: 153, Mismatches: 13, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
56 1 0.01
57 130 0.85
58 22 0.14
ACGTcount: A:0.32, C:0.06, G:0.16, T:0.46
Consensus pattern (57 bp):
TTTCGTAAATATTTTTAAAAGGTGCTATTTTCGTAAATATTTTTAAAAGGGTGCTAT
Found at i:5683899 original size:29 final size:29
Alignment explanation
Indices: 5683857--5683921 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
5683847 AGAAGAGAGT
*
5683857 GAAAGAAACGTTAGGCACCAAACTGAAAC
1 GAAATAAACGTTAGGCACCAAACTGAAAC
* * * *
5683886 GAAATAAATGTTAGGCATCAAACTGGAAT
1 GAAATAAACGTTAGGCACCAAACTGAAAC
5683915 GAAATAA
1 GAAATAA
5683922 TTTCTTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.49, C:0.14, G:0.20, T:0.17
Consensus pattern (29 bp):
GAAATAAACGTTAGGCACCAAACTGAAAC
Found at i:5684794 original size:34 final size:34
Alignment explanation
Indices: 5684739--5684803 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
5684729 AATATCAACA
5684739 TTTTAATTTAGAAAAAGAT-AAATTTACTTTTATT
1 TTTTAATTTAGAAAAAGATAAAATTT-CTTTTATT
* *
5684773 TTTTAATATTTGATAAA-ATAAAATTTCTTTT
1 TTTTAAT-TTAGAAAAAGATAAAATTTCTTTT
5684804 TAAATATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 14 0.52
35 13 0.48
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (34 bp):
TTTTAATTTAGAAAAAGATAAAATTTCTTTTATT
Found at i:5685149 original size:21 final size:20
Alignment explanation
Indices: 5685115--5685156 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
5685105 TCAAAGGTTA
*
5685115 TAGGGTTATGATTTAGAGTT
1 TAGGGTTATAATTTAGAGTT
*
5685135 TAGGGTTTATAATTTAGGGTT
1 TAGGG-TTATAATTTAGAGTT
5685156 T
1 T
5685157 TAAATTAGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.48
Consensus pattern (20 bp):
TAGGGTTATAATTTAGAGTT
Found at i:5685307 original size:14 final size:14
Alignment explanation
Indices: 5685288--5685314 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
5685278 TGCCTAAAAA
5685288 ATACATTTATATAG
1 ATACATTTATATAG
5685302 ATACATTTATATA
1 ATACATTTATATA
5685315 ATGTTATATA
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:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (14 bp):
ATACATTTATATAG
Found at i:5690702 original size:31 final size:31
Alignment explanation
Indices: 5690666--5690731 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
5690656 AGAAATCTAA
* *
5690666 AAAATATACGTATCACGTTAGATATTTTACT
1 AAAATACACGTATCACATTAGATATTTTACT
* * *
5690697 AAAATACATGTATCACATTATATATTTTATT
1 AAAATACACGTATCACATTAGATATTTTACT
5690728 AAAA
1 AAAA
5690732 GAGATGTATC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.39
Consensus pattern (31 bp):
AAAATACACGTATCACATTAGATATTTTACT
Found at i:5690739 original size:31 final size:30
Alignment explanation
Indices: 5690675--5690789 Score: 97
Period size: 31 Copynumber: 3.8 Consensus size: 30
5690665 AAAAATATAC
* * *
5690675 GTATCACGTTAGATATTTTACTAAAATACAT
1 GTATCACATTATATATTTTATTAAAA-ACAT
*
5690706 GTATCACATTATATATTTTATTAAAAGAGAT
1 GTATCACATTATATATTTTATTAAAA-ACAT
** * * * * *
5690737 GTATCTTATTAAATCTTTTA-CAATAATAT
1 GTATCACATTATATATTTTATTAAAAACAT
*
5690766 ATATCACATTATATATTTTATTAA
1 GTATCACATTATATATTTTATTAA
5690790 TAGGTAAAAT
Statistics
Matches: 65, Mismatches: 18, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
29 18 0.28
30 5 0.08
31 42 0.65
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (30 bp):
GTATCACATTATATATTTTATTAAAAACAT
Found at i:5691178 original size:16 final size:17
Alignment explanation
Indices: 5691157--5691190 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
5691147 ATAAGATAAC
5691157 TATAACTT-ATATTAAA
1 TATAACTTAATATTAAA
5691173 TATAACTTAATATTAAA
1 TATAACTTAATATTAAA
5691190 T
1 T
5691191 TACATAAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (17 bp):
TATAACTTAATATTAAA
Found at i:5701609 original size:21 final size:21
Alignment explanation
Indices: 5701583--5701632 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
5701573 AAAAATGAAA
*
5701583 CTAATCTGGGATGGTAAGGTT
1 CTAATCCGGGATGGTAAGGTT
*
5701604 CTAATCCGGGATGGTGAGGTT
1 CTAATCCGGGATGGTAAGGTT
5701625 CTAATCCG
1 CTAATCCG
5701633 CTTTAGAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.30
Consensus pattern (21 bp):
CTAATCCGGGATGGTAAGGTT
Found at i:5714444 original size:19 final size:19
Alignment explanation
Indices: 5714417--5714472 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
5714407 AAAATTTCAT
* *
5714417 TTTGATTTTCAAAATCACC
1 TTTGCTTTTCAAAATCAAC
5714436 TTTGCTTTTCAAAATCAAC
1 TTTGCTTTTCAAAATCAAC
**
5714455 TTTGCCATTCAAAATCAA
1 TTTGCTTTTCAAAATCAA
5714473 ATCATTTTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.34, C:0.21, G:0.05, T:0.39
Consensus pattern (19 bp):
TTTGCTTTTCAAAATCAAC
Found at i:5716600 original size:20 final size:20
Alignment explanation
Indices: 5716575--5716613 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
5716565 TTTTAAATGG
5716575 ACTTTG-AATTATTTTTGAAA
1 ACTTTGAAATT-TTTTTGAAA
5716595 ACTTTGAAATTTTTTTGAA
1 ACTTTGAAATTTTTTTGAA
5716614 TAAATCCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (20 bp):
ACTTTGAAATTTTTTTGAAA
Found at i:5716809 original size:43 final size:43
Alignment explanation
Indices: 5716752--5716833 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
5716742 AGGCATAGAA
* *
5716752 TAATTTCTCACCTTAGCAACTTTTATTT-TCTTACTCTTGTAAT
1 TAATTTCTCACCTTAGAAAATTTTATTTGT-TTACTCTTGTAAT
* *
5716795 TAATTTTTCGCCTTAGAAAATTTTATTTGTTTACTCTTG
1 TAATTTCTCACCTTAGAAAATTTTATTTGTTTACTCTTG
5716834 AATATTTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 33 0.97
44 1 0.03
ACGTcount: A:0.23, C:0.17, G:0.07, T:0.52
Consensus pattern (43 bp):
TAATTTCTCACCTTAGAAAATTTTATTTGTTTACTCTTGTAAT
Found at i:5718485 original size:15 final size:14
Alignment explanation
Indices: 5718453--5718502 Score: 55
Period size: 16 Copynumber: 3.3 Consensus size: 14
5718443 AATTCCTTCA
5718453 TTTTTAATTTATGTAT
1 TTTTTAATTT-T-TAT
5718469 TTTTTAATTTTTAAT
1 TTTTTAATTTTT-AT
*
5718484 TTTTCTAACTTTTAT
1 TTTT-TAATTTTTAT
5718499 TTTT
1 TTTT
5718503 CTTTTTCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
14 1 0.03
15 13 0.42
16 17 0.55
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTTTAATTTTTAT
Found at i:5718503 original size:15 final size:15
Alignment explanation
Indices: 5718466--5718504 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
5718456 TTAATTTATG
*
5718466 TATTTTT-TAATTTT
1 TATTTTTCTAACTTT
5718480 TAATTTTTCTAACTTT
1 T-ATTTTTCTAACTTT
5718496 TATTTTTCT
1 TATTTTTCT
5718505 TTTTCTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 14 0.64
16 7 0.32
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (15 bp):
TATTTTTCTAACTTT
Found at i:5719189 original size:17 final size:18
Alignment explanation
Indices: 5719158--5719191 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5719148 TTTCGGTTTG
5719158 AAAAAAAACGAGTTTTTT
1 AAAAAAAACGAGTTTTTT
*
5719176 AAAAAAACCG-GTTTTT
1 AAAAAAAACGAGTTTTT
5719192 AATCCGATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.32
Consensus pattern (18 bp):
AAAAAAAACGAGTTTTTT
Found at i:5720643 original size:31 final size:29
Alignment explanation
Indices: 5720605--5720663 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 29
5720595 ACATCTCGAA
*
5720605 TTTAGTACTTAAACTATCAGTTTTAGTCCAT
1 TTTAGTACCTAAACTATCA-TTTTA-TCCAT
*
5720636 TTTAGTACCTAAACTTTCATTTTATCCA
1 TTTAGTACCTAAACTATCATTTTATCCA
5720664 AACCATACCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 4 0.15
30 5 0.19
31 17 0.65
ACGTcount: A:0.29, C:0.19, G:0.07, T:0.46
Consensus pattern (29 bp):
TTTAGTACCTAAACTATCATTTTATCCAT
Found at i:5725860 original size:20 final size:20
Alignment explanation
Indices: 5725835--5725963 Score: 91
Period size: 20 Copynumber: 6.3 Consensus size: 20
5725825 TTTTCCCAAT
*
5725835 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGAAAA
* **
5725855 TCGCAACGCGAATTGGAAAAA
1 TCGCAATGCGAATAAG-AAAA
* *
5725876 TCGCAATGTGAATAAGTAAA
1 TCGCAATGCGAATAAGAAAA
* **
5725896 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGAAAA
* **
5725917 TCGCAATGCG-ATACTGACTA
1 TCGCAATGCGAATA-AGAAAA
5725937 TCGCAATGCGATAATAA-AAAA
1 TCGCAATGCG--AATAAGAAAA
5725958 TCGCAA
1 TCGCAA
5725964 CGAGATACTT
Statistics
Matches: 81, Mismatches: 22, Indels: 11
0.71 0.19 0.10
Matches are distributed among these distances:
19 1 0.01
20 40 0.49
21 37 0.46
23 3 0.04
ACGTcount: A:0.42, C:0.18, G:0.21, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATAAGAAAA
Found at i:5725878 original size:21 final size:20
Alignment explanation
Indices: 5725852--5725927 Score: 80
Period size: 21 Copynumber: 3.7 Consensus size: 20
5725842 GCGAATAAGT
5725852 AAATCGCAACGCGAATTGGAA
1 AAATCGCAACGCGAATTGG-A
* * ** *
5725873 AAATCGCAATGTGAATAAGT
1 AAATCGCAACGCGAATTGGA
5725893 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATT-GGA
*
5725914 AAATCGCAATGCGA
1 AAATCGCAACGCGA
5725928 TACTGACTAT
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
20 14 0.33
21 29 0.67
ACGTcount: A:0.42, C:0.17, G:0.24, T:0.17
Consensus pattern (20 bp):
AAATCGCAACGCGAATTGGA
Found at i:5725880 original size:41 final size:41
Alignment explanation
Indices: 5725835--5725927 Score: 168
Period size: 41 Copynumber: 2.3 Consensus size: 41
5725825 TTTTCCCAAT
5725835 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGAAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGAAAAA
* *
5725876 TCGCAATGTGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGAAAAA
5725917 TCGCAATGCGA
1 TCGCAATGCGA
5725928 TACTGACTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.18
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGAAAAA
Found at i:5725940 original size:41 final size:41
Alignment explanation
Indices: 5725854--5725988 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 41
5725844 GAATAAGTAA
* * *
5725854 ATCGCAACGCGAATTGGAAAAATCGCAATGTGAATA-AGTA-A
1 ATCGCAACGCGAATTGGAAAAATCGCAATGAG-ATACTG-ACT
* *
5725895 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGAAAAATCGCAATGAGATACTGACT
* * * * *
5725936 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGAAAAATCGCAATGAGATACTGACT
*
5725977 TTCGCAACGCGA
1 ATCGCAACGCGA
5725989 TACTGACTTT
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
40 4 0.05
41 72 0.92
42 2 0.03
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGAAAAATCGCAATGAGATACTGACT
Found at i:5726006 original size:20 final size:20
Alignment explanation
Indices: 5725916--5726009 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
5725906 AATTGGGAAA
*
5725916 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
5725936 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
5725957 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
5725977 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
5725997 TTCGCAACGCGAT
1 ATCGCAACGCGAT
5726010 TTACATAGCA
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 46 0.77
21 14 0.23
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:5726555 original size:20 final size:20
Alignment explanation
Indices: 5726527--5726582 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 20
5726517 TTCGAGAATG
5726527 AAAATCGCAACGCGAAAATA
1 AAAATCGCAACGCGAAAATA
**
5726547 ACTATCGCAACGCG-AAATA
1 AAAATCGCAACGCGAAAATA
5726566 AAAATCGCAACGCGAAA
1 AAAATCGCAACGCGAAA
5726583 CCAAAATCAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.50, C:0.23, G:0.16, T:0.11
Consensus pattern (20 bp):
AAAATCGCAACGCGAAAATA
Found at i:5726635 original size:20 final size:19
Alignment explanation
Indices: 5726594--5726754 Score: 126
Period size: 20 Copynumber: 8.8 Consensus size: 19
5726584 CAAAATCACA
5726594 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
5726613 TTGCGATTTTTATTTCGCGG
1 TTGCGATTTTCATTTCGC-G
5726633 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
5726652 TTGCGATTGTC---T-G-G
1 TTGCGATTTTCATTTCGCG
* **
5726666 TCGCGATAGTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
* *
5726685 TTGTGA--TTC---TCTCG
1 TTGCGATTTTCATTTCGCG
**
5726699 TTGCGATAGTCATTTCCGCG
1 TTGCGATTTTCATTT-CGCG
* *
5726719 TTGCGATTCTCATTATCTCG
1 TTGCGATTTTCATT-TCGCG
5726739 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
5726755 AACCAAAAGA
Statistics
Matches: 113, Mismatches: 16, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
14 19 0.17
15 1 0.01
16 3 0.03
17 3 0.03
18 1 0.01
19 36 0.32
20 49 0.43
21 1 0.01
ACGTcount: A:0.12, C:0.21, G:0.22, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:5726670 original size:39 final size:39
Alignment explanation
Indices: 5726594--5726670 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
5726584 CAAAATCACA
* **
5726594 TTGCGATTTTCATTTCGCGTTGCGATTTTTATTTCGCGG
1 TTGCGATTTTCATTTCGCGTTGCGATTTCTAGGTCGCGG
5726633 TTGCGATTTTCATTTCGCGTTGCGATTGTCT-GGTCGCG
1 TTGCGATTTTCATTTCGCGTTGCGATT-TCTAGGTCGCG
5726671 ATAGTCATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 32 0.94
40 2 0.06
ACGTcount: A:0.09, C:0.19, G:0.26, T:0.45
Consensus pattern (39 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTCTAGGTCGCGG
Found at i:5726679 original size:33 final size:33
Alignment explanation
Indices: 5726642--5726729 Score: 131
Period size: 33 Copynumber: 2.6 Consensus size: 33
5726632 GTTGCGATTT
* *
5726642 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
* *
5726675 TCATTTCGCGTTGTGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
5726708 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
5726730 ATTATCTCGT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 35 0.71
34 14 0.29
ACGTcount: A:0.11, C:0.24, G:0.25, T:0.40
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:5728814 original size:42 final size:42
Alignment explanation
Indices: 5728754--5728876 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
5728744 GCCCGACTCG
* * *
5728754 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
5728796 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
5728838 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
5728877 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:5728834 original size:21 final size:21
Alignment explanation
Indices: 5728810--5728876 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
5728800 TCATTCCTCG
5728810 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
5728831 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
5728852 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
5728873 AGAG
1 AGAG
5728877 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:5730254 original size:14 final size:14
Alignment explanation
Indices: 5730235--5730270 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
5730225 ATTGTTTAAT
5730235 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
5730249 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
5730263 TGATTTGT
1 TGATTTGT
5730271 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:5730418 original size:19 final size:19
Alignment explanation
Indices: 5730396--5730546 Score: 80
Period size: 19 Copynumber: 8.7 Consensus size: 19
5730386 CGAAATTAAA
5730396 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
5730415 TTCGCTTTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
5730430 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
5730448 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
5730462 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
5730481 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
5730496 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
5730514 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
5730533 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
5730547 GGACATTAAG
Statistics
Matches: 95, Mismatches: 21, Indels: 31
0.65 0.14 0.21
Matches are distributed among these distances:
14 28 0.29
16 6 0.06
17 6 0.06
19 45 0.47
20 10 0.11
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:5730442 original size:33 final size:32
Alignment explanation
Indices: 5730400--5730526 Score: 184
Period size: 33 Copynumber: 3.9 Consensus size: 32
5730390 ATTAAATTCG
*
5730400 CGTTGCGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
5730433 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
5730466 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
5730499 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
5730527 AGTAATTTCC
Statistics
Matches: 85, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
31 3 0.04
33 79 0.93
35 3 0.04
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:5730469 original size:66 final size:66
Alignment explanation
Indices: 5730393--5730525 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
5730383 ATGCGAAATT
* *
5730393 AAATTCGCGTTGCGATTTTCATTTCGCTTTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
5730458 G
66 G
*
5730459 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
5730524 G
66 G
5730525 A
1 A
5730526 TAGTAATTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.16, C:0.23, G:0.20, T:0.42
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:5732835 original size:12 final size:12
Alignment explanation
Indices: 5732818--5732842 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5732808 TCTTCGGGGA
5732818 CTTTTTCTTCTT
1 CTTTTTCTTCTT
5732830 CTTTTTCTTCTT
1 CTTTTTCTTCTT
5732842 C
1 C
5732843 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:5733051 original size:24 final size:24
Alignment explanation
Indices: 5733017--5733070 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
5733007 CTGAAACATC
* *
5733017 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
5733041 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
5733065 ATCAAA
1 ATCAAA
5733071 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:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:5734155 original size:20 final size:20
Alignment explanation
Indices: 5734130--5734187 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
5734120 ATTCATTTGA
* *
5734130 CTATCGTAATGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
5734150 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
5734170 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
5734188 CGCATTGCGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.21
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:5734228 original size:19 final size:19
Alignment explanation
Indices: 5734187--5734539 Score: 662
Period size: 19 Copynumber: 18.8 Consensus size: 19
5734177 AACGAGAAAA
5734187 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
5734203 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
5734220 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
5734239 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
5734258 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
5734277 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
5734296 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
5734315 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
5734334 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
5734353 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
5734372 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
5734391 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
5734410 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
5734429 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
5734448 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
5734467 TCGCATTGCGATGTTCATT
1 TCGCATTGCGATTTTCATT
5734486 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
5734505 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
5734524 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
5734540 TCGTTGCGAT
Statistics
Matches: 330, Mismatches: 2, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
14 11 0.03
16 3 0.01
17 3 0.01
19 313 0.95
ACGTcount: A:0.15, C:0.21, G:0.16, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:5736594 original size:20 final size:19
Alignment explanation
Indices: 5736559--5736625 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
5736549 GAAACTTAAA
5736559 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
5736578 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
5736598 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
5736617 ATCGCAACG
1 ATCGCAACG
5736626 ACAAAATCGT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:5736633 original size:14 final size:14
Alignment explanation
Indices: 5736614--5736671 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
5736604 ATGCGAAATG
5736614 AAAATCGCAACGAC
1 AAAATCGCAACGAC
* *
5736628 AAAATCGTAACGCGAA
1 AAAATCGCAA--CGAC
5736644 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
5736660 AAAATCGCAACG
1 AAAATCGCAACG
5736672 CGAAACACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 20 0.56
16 8 0.22
18 8 0.22
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:5736656 original size:32 final size:33
Alignment explanation
Indices: 5736598--5736676 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
5736588 GGAAATGGCT
*
5736598 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
*
5736631 ATCGTAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
5736663 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
5736677 CACAAATCGC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
32 29 0.67
33 14 0.33
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:5736724 original size:14 final size:14
Alignment explanation
Indices: 5736705--5736762 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
5736695 TTTCATTTCG
5736705 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
5736719 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
5736735 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
5736751 CGTTGCAATTTT
1 CGTTGCGATTTT
5736763 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:5736769 original size:33 final size:33
Alignment explanation
Indices: 5736688--5736778 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
5736678 ACAAATCGCA
*
5736688 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
5736721 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
5736753 TTGCAATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
5736779 AGCCATTTCC
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 30 0.55
33 25 0.45
ACGTcount: A:0.13, C:0.19, G:0.21, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:5736805 original size:20 final size:19
Alignment explanation
Indices: 5736762--5736817 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
5736752 GTTGCAATTT
* *
5736762 TCATTTCGCATTGCGATAG
1 TCATTTCGCGTTGCGATAA
*
5736781 CCATTTCCGCGTTGCGATAA
1 TCATTT-CGCGTTGCGATAA
*
5736801 TCATTTTCGTGTTGCGA
1 TCA-TTTCGCGTTGCGA
5736818 AAGTAAACTA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 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:0.23, G:0.21, T:0.38
Consensus pattern (19 bp):
TCATTTCGCGTTGCGATAA
Found at i:5738679 original size:20 final size:20
Alignment explanation
Indices: 5738654--5738691 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5738644 AATAGTTTCT
5738654 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
5738674 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
5738692 GAGAGAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:5738980 original size:22 final size:22
Alignment explanation
Indices: 5738955--5738998 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
5738945 GATTTAGATA
5738955 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
5738977 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
5738999 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:5739212 original size:20 final size:20
Alignment explanation
Indices: 5739187--5739280 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
5739177 GATTATGTAT
5739187 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
5739207 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
5739227 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
5739248 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
5739268 TATCGCATTGCGA
1 TATCGCGTTGCGA
5739281 TTTTCCCAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:5739252 original size:41 final size:41
Alignment explanation
Indices: 5739207--5739284 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
5739197 CGAAAGTCAG
* * *
5739207 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
* *
5739248 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
5739285 CCCAATTCGC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.40
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
Found at i:5739281 original size:20 final size:20
Alignment explanation
Indices: 5739167--5739281 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
5739157 CGCTTTGAAA
*
5739167 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
5739188 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
5739208 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
5739228 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
5739249 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
5739269 ATCGCATTGCGAT
1 ATCGCATTGCGAT
5739282 TTTCCCAATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 50 0.66
21 24 0.32
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Done.