Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 53 of 126
Found at i:15763677 original size:37 final size:37
Alignment explanation
Indices: 15763611--15763743 Score: 139
Period size: 37 Copynumber: 3.6 Consensus size: 37
15763601 TTGGCTCCAA
* *
15763611 CAATGTGAA-TG-GATTCGTTTTAAGTAAACAAAAGAG
1 CAATGTGAACTGAG-TTCTTTTTAAGCAAACAAAAGAG
15763647 CAATGTGAACTGAGTTCTTTTTAAGCAAACAAAAGAGG
1 CAATGTGAACTGAGTTCTTTTTAAGCAAACAAAAGA-G
* *
15763685 CAATTTTAACT-AGGTT-TTTTTAAGCAAACAAAAGAG
1 CAATGTGAACTGA-GTTCTTTTTAAGCAAACAAAAGAG
* * *
15763721 ATAATGTGAACTGGGTTGTTTTT
1 -CAATGTGAACTGAGTTCTTTTT
15763744 TTTCTCGAGA
Statistics
Matches: 82, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
36 10 0.12
37 53 0.65
38 19 0.23
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.32
Consensus pattern (37 bp):
CAATGTGAACTGAGTTCTTTTTAAGCAAACAAAAGAG
Found at i:15764347 original size:31 final size:31
Alignment explanation
Indices: 15764309--15764367 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
15764299 TCAAGTCTTT
* *
15764309 CTTTAAATTTCCAACGTATACTTTAAGGTCC
1 CTTTAAATCTCCAACGTACACTTTAAGGTCC
**
15764340 CTTTAAATCTCCAATTTACACTTTAAGG
1 CTTTAAATCTCCAACGTACACTTTAAGG
15764368 CTCATTTGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (31 bp):
CTTTAAATCTCCAACGTACACTTTAAGGTCC
Found at i:15766195 original size:25 final size:25
Alignment explanation
Indices: 15766153--15766204 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
15766143 AGCGTTGGCG
*
15766153 GACAGAGTGCCGAAAGAAATCGACA
1 GACAGAGCGCCGAAAGAAATCGACA
* * *
15766178 GACAGAGCGTCGACAGAAATCGTCA
1 GACAGAGCGCCGAAAGAAATCGACA
15766203 GA
1 GA
15766205 TAGGAAGCGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.21, G:0.29, T:0.10
Consensus pattern (25 bp):
GACAGAGCGCCGAAAGAAATCGACA
Found at i:15767432 original size:19 final size:19
Alignment explanation
Indices: 15767375--15767433 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
15767365 TTTATTAATT
* *
15767375 ATATTTATGTTAAACTATA
1 ATATTTATGTTAAATTAAA
15767394 ATATTTAT-TTAAATTAAAA
1 ATATTTATGTTAAATT-AAA
*
15767413 ATATTTATGTTATATTAAA
1 ATATTTATGTTAAATTAAA
15767432 AT
1 AT
15767434 TAAAAGTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 6 0.17
19 23 0.66
20 6 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (19 bp):
ATATTTATGTTAAATTAAA
Found at i:15767585 original size:40 final size:40
Alignment explanation
Indices: 15767511--15767704 Score: 185
Period size: 40 Copynumber: 4.8 Consensus size: 40
15767501 ATTTTTTCAT
* *
15767511 AAACGTCGCTATTGCTATTTACCTTTTGCTGCGTTTATGGGA
1 AAACGCCGCTATTGC--TTTACCTTTTGCGGCGTTTATGGGA
***
15767553 AAACGCCGCTATTGCTTTACCTTTTGCGGCGTTT-TACCA
1 AAACGCCGCTATTGCTTTACCTTTTGCGGCGTTTATGGGA
*
15767592 TAAACGCCGCTATTGCTCTTTACCTTTTGCAGCGTTTATGGG-
1 -AAACGCCGCTATTG--CTTTACCTTTTGCGGCGTTTATGGGA
* * * * ***
15767634 AAAGGACTGCTATTACTTTACCTTTTGCGGTGTTTATTAAA
1 AAACG-CCGCTATTGCTTTACCTTTTGCGGCGTTTATGGGA
* *
15767675 AAACGCTGCTATTGCTTTACTTTTTGCGGC
1 AAACGCCGCTATTGCTTTACCTTTTGCGGC
15767705 ATTTTTGGTC
Statistics
Matches: 125, Mismatches: 21, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
39 2 0.02
40 74 0.59
41 8 0.06
42 40 0.32
43 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.39
Consensus pattern (40 bp):
AAACGCCGCTATTGCTTTACCTTTTGCGGCGTTTATGGGA
Found at i:15767627 original size:42 final size:42
Alignment explanation
Indices: 15767453--15767628 Score: 171
Period size: 42 Copynumber: 4.2 Consensus size: 42
15767443 AAGAGCATTA
* * * *
15767453 GCAGCGTTTTTCTCATAAACACCGTTAATGCTCTTTACATTTT
1 GCAGCGTTTTTC-CATAAACGCCGCTATTGCTCTTTACCTTTT
* * * *
15767496 GC-GGGATTTTTTCATAAACGTCGCTATTGCTATTTACCTTTT
1 GCAGCG-TTTTTCCATAAACGCCGCTATTGCTCTTTACCTTTT
* ***
15767538 GCTGCGTTTATGGGA-AAACGCCGCTATTG--CTTTACCTTTT
1 GCAGCGTTT-TTCCATAAACGCCGCTATTGCTCTTTACCTTTT
* *
15767578 GCGGCGTTTTACCATAAACGCCGCTATTGCTCTTTACCTTTT
1 GCAGCGTTTTTCCATAAACGCCGCTATTGCTCTTTACCTTTT
15767620 GCAGCGTTT
1 GCAGCGTTT
15767629 ATGGGAAAGG
Statistics
Matches: 108, Mismatches: 19, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
39 2 0.02
40 32 0.30
42 63 0.58
43 11 0.10
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.40
Consensus pattern (42 bp):
GCAGCGTTTTTCCATAAACGCCGCTATTGCTCTTTACCTTTT
Found at i:15767627 original size:82 final size:81
Alignment explanation
Indices: 15767485--15767668 Score: 244
Period size: 82 Copynumber: 2.2 Consensus size: 81
15767475 CGTTAATGCT
* ** * *
15767485 CTTTACATTTTGCGGGATTTTTTCATAAACGTCGCTATTGCTATTTACCTTTTGCTGCGTTTATG
1 CTTTACCTTTTGCGGG-TTTTACCATAAACGCCGCTATTGCTATTTACCTTTTGCAGCGTTTATG
*
15767550 GGAAAACG-CCGCTATTG
65 GG-AAACGACCGCTATTA
*
15767567 CTTTACCTTTTGCGGCGTTTTACCATAAACGCCGCTATTGCTCTTTACCTTTTGCAGCGTTTATG
1 CTTTACCTTTTGCGG-GTTTTACCATAAACGCCGCTATTGCTATTTACCTTTTGCAGCGTTTATG
* *
15767632 GGAAAGGACTGCTATTA
65 GGAAACGACCGCTATTA
15767649 CTTTACCTTTTGCGGTGTTT
1 CTTTACCTTTTGCGG-GTTT
15767669 ATTAAAAAAC
Statistics
Matches: 90, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
81 4 0.04
82 85 0.94
83 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.20, T:0.41
Consensus pattern (81 bp):
CTTTACCTTTTGCGGGTTTTACCATAAACGCCGCTATTGCTATTTACCTTTTGCAGCGTTTATGG
GAAACGACCGCTATTA
Found at i:15767679 original size:82 final size:80
Alignment explanation
Indices: 15767485--15767690 Score: 236
Period size: 82 Copynumber: 2.5 Consensus size: 80
15767475 CGTTAATGCT
* * * *
15767485 CTTTACATTTTGCGGGATTTTTTCATAAACGTCGCTATTGCTATTTACCTTTTGCTGCGTTTATG
1 CTTTACCTTTTGCGGG--TTTTTAATAAACGCCGCTATTGCTATTTACCTTTTGCAGCGTTTATG
*
15767550 GGAAAACGCCGCTATTG
64 GGAAAACGCCGCTATTA
*
15767567 CTTTACCTTTTGCGGCG-TTTTACCATAAACGCCGCTATTGCTCTTTACCTTTTGCAGCGTTTAT
1 CTTTACCTTTTGCGG-GTTTTTA--ATAAACGCCGCTATTGCTATTTACCTTTTGCAGCGTTTAT
* *
15767631 GGG-AAAGGACTGCTATTA
63 GGGAAAACG-CCGCTATTA
* *
15767649 CTTTACCTTTTGCGGTGTTTATTAAAAAACGCTGCTATTGCT
1 CTTTACCTTTTGCGG-GTTT-TTAATAAACGCCGCTATTGCT
15767691 TTACTTTTTG
Statistics
Matches: 107, Mismatches: 11, Indels: 12
0.82 0.08 0.09
Matches are distributed among these distances:
80 4 0.04
81 4 0.04
82 93 0.87
83 3 0.03
84 3 0.03
ACGTcount: A:0.20, C:0.21, G:0.19, T:0.40
Consensus pattern (80 bp):
CTTTACCTTTTGCGGGTTTTTAATAAACGCCGCTATTGCTATTTACCTTTTGCAGCGTTTATGGG
AAAACGCCGCTATTA
Found at i:15769143 original size:81 final size:81
Alignment explanation
Indices: 15768997--15769169 Score: 242
Period size: 81 Copynumber: 2.1 Consensus size: 81
15768987 CCATAAAATT
**
15768997 TTTTTAGGAGGCTGAAGTTAAATTATAATTTTTATAATAGTAAAAATGTAATTTTTGAAAAGATT
1 TTTTTAGG-GGCTGAAGTTAAATTATAATTTTTATAATAGTAAAAAAATAATTTTTGAAAAGATT
*
15769062 AGATCAAAATTTTATCA
65 AAATCAAAATTTTATCA
* * *
15769079 TTTTTAGGGG-TCGAAGTTAAATTGTAATTTTTATGATAGTAAAAAAAATAATTTTT-AAAGGAT
1 TTTTTAGGGGCT-GAAGTTAAATTATAATTTTTATAATAGT-AAAAAAATAATTTTTGAAAAGAT
15769142 TAAATCAAAATTTTATCA
64 TAAATCAAAATTTTATCA
*
15769160 ATTTTAGGGG
1 TTTTTAGGGG
15769170 GCCAAAGTGC
Statistics
Matches: 82, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
80 1 0.01
81 60 0.73
82 21 0.26
ACGTcount: A:0.40, C:0.03, G:0.15, T:0.41
Consensus pattern (81 bp):
TTTTTAGGGGCTGAAGTTAAATTATAATTTTTATAATAGTAAAAAAATAATTTTTGAAAAGATTA
AATCAAAATTTTATCA
Found at i:15769184 original size:21 final size:21
Alignment explanation
Indices: 15769158--15769206 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
15769148 AAAATTTTAT
*
15769158 CAATTTTAGGGGGCCAAAGTG
1 CAATTTTAAGGGGCCAAAGTG
*
15769179 CAA-TTTAAGGGGCTAAAGTG
1 CAATTTTAAGGGGCCAAAGTG
*
15769199 TAATTTTA
1 CAATTTTA
15769207 CCTTTATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.31
Consensus pattern (21 bp):
CAATTTTAAGGGGCCAAAGTG
Found at i:15770864 original size:24 final size:24
Alignment explanation
Indices: 15770837--15770900 Score: 92
Period size: 24 Copynumber: 2.7 Consensus size: 24
15770827 ACATTGTTCG
15770837 TGAACATGTTCAATTATATATTCA
1 TGAACATGTTCAATTATATATTCA
* * *
15770861 TGAACTTGCTCAATTATATGTTCA
1 TGAACATGTTCAATTATATATTCA
*
15770885 TGAACATGTTCGATTA
1 TGAACATGTTCAATTA
15770901 AGTTAAATGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (24 bp):
TGAACATGTTCAATTATATATTCA
Found at i:15772678 original size:17 final size:17
Alignment explanation
Indices: 15772646--15772677 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15772636 CCTTCTTTCT
15772646 TTGCTTTATTTATTTTG
1 TTGCTTTATTTATTTTG
15772663 TTGCTTTATTT-TTTT
1 TTGCTTTATTTATTTT
15772678 TAATTGTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.09, C:0.06, G:0.09, T:0.75
Consensus pattern (17 bp):
TTGCTTTATTTATTTTG
Found at i:15773032 original size:21 final size:22
Alignment explanation
Indices: 15773001--15773042 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
15772991 ACCTATTCTT
15773001 TTAATAAAAAAAC-CATATATTA
1 TTAATAAAAAAACTC-TATATTA
15773023 TTAA-AAAAAAACTCTATATT
1 TTAATAAAAAAACTCTATATT
15773043 TTGATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (22 bp):
TTAATAAAAAAACTCTATATTA
Found at i:15773325 original size:78 final size:79
Alignment explanation
Indices: 15773195--15773345 Score: 268
Period size: 78 Copynumber: 1.9 Consensus size: 79
15773185 TACTTAACCA
* * *
15773195 CCCTAAAAATGATAAAATTTTTATTTAATCCTTTAAAAATTGTATTTTTACTATCATAAAAATTA
1 CCCTAAAAATAATAAAATTTTGATTTAATCCTTTAAAAATTATATTTTTACTATCATAAAAATTA
15773260 CAATTTAACTTCGT
66 CAATTTAACTTCGT
15773274 CCCTAAAAATAATAAAATTTTGATTT-ATCCTTTAAAAATTATATTTTTACTATCATAAAAATTA
1 CCCTAAAAATAATAAAATTTTGATTTAATCCTTTAAAAATTATATTTTTACTATCATAAAAATTA
15773338 CAATTTAA
66 CAATTTAA
15773346 AATACGGTAT
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
78 45 0.65
79 24 0.35
ACGTcount: A:0.43, C:0.12, G:0.03, T:0.42
Consensus pattern (79 bp):
CCCTAAAAATAATAAAATTTTGATTTAATCCTTTAAAAATTATATTTTTACTATCATAAAAATTA
CAATTTAACTTCGT
Found at i:15775071 original size:15 final size:15
Alignment explanation
Indices: 15775051--15775165 Score: 112
Period size: 15 Copynumber: 7.7 Consensus size: 15
15775041 GTTCTTCATC
15775051 CATGCTCGCAACATT
1 CATGCTCGCAACATT
*
15775066 CATGCTTGCAACATT
1 CATGCTCGCAACATT
15775081 -AGTGCTCGCAACATT
1 CA-TGCTCGCAACATT
* *
15775096 AATGCTCGC-ACTAGT
1 CATGCTCGCAAC-ATT
*
15775111 CATGCTCGCAGCATT
1 CATGCTCGCAACATT
15775126 -AGTGCTCGCAACATT
1 CA-TGCTCGCAACATT
* *
15775141 CATGTTCGC-ACTAGT
1 CATGCTCGCAAC-ATT
15775156 CATGCTCGCA
1 CATGCTCGCA
15775166 GCATATAGCC
Statistics
Matches: 82, Mismatches: 10, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
14 6 0.07
15 73 0.89
16 3 0.04
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (15 bp):
CATGCTCGCAACATT
Found at i:15775166 original size:45 final size:45
Alignment explanation
Indices: 15775052--15775169 Score: 175
Period size: 45 Copynumber: 2.6 Consensus size: 45
15775042 TTCTTCATCC
* * *
15775052 ATGCTCGCAAC-ATTCATGCTTGCAACATTAGTGCTCGCAACATTA
1 ATGCTCGC-ACTAGTCATGCTCGCAGCATTAGTGCTCGCAACATTA
*
15775097 ATGCTCGCACTAGTCATGCTCGCAGCATTAGTGCTCGCAACATTC
1 ATGCTCGCACTAGTCATGCTCGCAGCATTAGTGCTCGCAACATTA
*
15775142 ATGTTCGCACTAGTCATGCTCGCAGCAT
1 ATGCTCGCACTAGTCATGCTCGCAGCAT
15775170 ATAGCCCCCT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
44 2 0.03
45 65 0.97
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (45 bp):
ATGCTCGCACTAGTCATGCTCGCAGCATTAGTGCTCGCAACATTA
Found at i:15778507 original size:19 final size:18
Alignment explanation
Indices: 15778483--15778518 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
15778473 GCAACAAAAT
*
15778483 AAAAATAAGAAACACAAAG
1 AAAAATAA-AAAAACAAAG
15778502 AAAAATAAAAAAACAAA
1 AAAAATAAAAAAACAAA
15778519 AGTTTTTCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.81, C:0.08, G:0.06, T:0.06
Consensus pattern (18 bp):
AAAAATAAAAAAACAAAG
Found at i:15778520 original size:19 final size:18
Alignment explanation
Indices: 15778475--15778520 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
15778465 CCTCACCTGC
* *
15778475 AACAAAATAAAAATAAGA
1 AACAAAAGAAAAATAAAA
15778493 AACACAAAGAAAAATAAAAA
1 AACA-AAAGAAAAAT-AAAA
15778513 AACAAAAG
1 AACAAAAG
15778521 TTTTTCTGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.17
19 13 0.54
20 7 0.29
ACGTcount: A:0.78, C:0.09, G:0.07, T:0.07
Consensus pattern (18 bp):
AACAAAAGAAAAATAAAA
Found at i:15779689 original size:26 final size:27
Alignment explanation
Indices: 15779660--15779740 Score: 78
Period size: 26 Copynumber: 3.1 Consensus size: 27
15779650 CTTAAGTCCG
*
15779660 TATTATTTTTATTTTTTTA-ATATTTA
1 TATTATTTTTATTTTTTAATATATTTA
* *
15779686 TATTATTTTTTAATATTTAATATATTTA
1 TATTA-TTTTTATTTTTTAATATATTTA
* * *
15779714 TA-CATTTTTATTTATTAATGT-TTTA
1 TATTATTTTTATTTTTTAATATATTTA
15779739 TA
1 TA
15779741 AAATCATTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
25 6 0.13
26 18 0.40
27 12 0.27
28 9 0.20
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.67
Consensus pattern (27 bp):
TATTATTTTTATTTTTTAATATATTTA
Found at i:15784675 original size:59 final size:59
Alignment explanation
Indices: 15784602--15785153 Score: 699
Period size: 59 Copynumber: 9.2 Consensus size: 59
15784592 TTGGATACCC
* *
15784602 GAGGGCAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAAATGGAATTTTGGAAAGTTT
1 GAGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAAATGGAATTTTGGAGAGTTT
* * * *
15784661 GAGGGTAAAATGGTAATTTTTGATGAAATCGGGGCTAAAAATAGAATTTTGGAAAGTTT
1 GAGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAGAGTTT
* * *
15784720 -AGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTGAAAATGGAATTTTGGAAAATTT
1 GA-GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAGAGTTT
* * *
15784779 GGGGGTAAAATGGTAATTTTGGGTGAAATCGGGATTAAAAATGGAATTTTGGAGAGTTT
1 GAGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAGAGTTT
* *
15784838 -AGGGTAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAGTTTTTGAGAGTTT
1 GAGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAGAGTTT
*
15784895 -AGGGGTAAAATGGTAATTTTTGGTGAAATCGGGATTAAAAATGGAATTTTGGAGAGTTT
1 GA-GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAGAGTTT
* * *
15784954 -AGGGGTAAAATGGTAATTTTTGGTAAAATAGGGGTTAAAAATGGAATTTTTAGAGAGTTT
1 GA-GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAA-TTTTGGAGAGTTT
* *
15785014 AGGGTAAAAGGTAAAATGGTAA-TTTTGGTGAAATCGGGGTTATTAAAAATGGAATTTTTGAGAG
1 ---G---AGGGTAAAATGGTAATTTTTGGTGAAATCGGGG---TTAAAAATGGAATTTTGGAGAG
15785078 TTT
57 TTT
* *
15785081 G-GAGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTTGAGAGTTT
1 GAG-GGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAGAGTTT
15785140 G-GAGGTAAAATGGT
1 GAG-GGTAAAATGGT
15785154 TTTGGAATTC
Statistics
Matches: 442, Mismatches: 33, Indels: 36
0.86 0.06 0.07
Matches are distributed among these distances:
57 39 0.09
58 29 0.07
59 262 0.59
60 29 0.07
61 13 0.03
62 16 0.04
64 1 0.00
65 15 0.03
66 13 0.03
67 13 0.03
68 12 0.03
ACGTcount: A:0.35, C:0.02, G:0.30, T:0.33
Consensus pattern (59 bp):
GAGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAGAGTTT
Found at i:15784914 original size:175 final size:174
Alignment explanation
Indices: 15784608--15785153 Score: 761
Period size: 175 Copynumber: 3.0 Consensus size: 174
15784598 ACCCGAGGGC
*
15784608 AAAATGGTAATTTTGGTGAAATCGGGGTTAAAAAATGGAATTTTGGAAAGTTTGAGGGTAAAATG
1 AAAATGGTAATTTTGGTGAAATCGGGGTT-AAAAATGGAATTTTGGAGAGTTT-AGGGTAAAATG
* * * * *
15784673 GTAATTTTTGATGAAATCGGGGCTAAAAATAGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATT
64 GTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTTGAGAGTTTAGGGGTAAAATGGTAATT
* * *
15784738 TTTGGTGAAATCGGGGTTGAAAATGGAATTTTGGAAAATTTGGGGGT
128 TTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAGAGTTTGGGGGT
*
15784785 AAAATGGTAATTTTGGGTGAAATCGGGATTAAAAATGGAATTTTGGAGAGTTTAGGGTAAAATGG
1 AAAATGGTAATTTT-GGTGAAATCGGGGTTAAAAATGGAATTTTGGAGAGTTTAGGGTAAAATGG
*
15784850 TAATTTTGGTGAAATCGGGGTTAAAAATGGAGTTTTTGAGAGTTTAGGGGTAAAATGGTAATTTT
65 TAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTTGAGAGTTTAGGGGTAAAATGGTAATTTT
* *
15784915 TGGTGAAATCGGGATTAAAAATGGAATTTTGGAGAGTTTAGGGGT
130 TGGTGAAATCGGGGTTAAAAATGGAATTTTGGAGAGTTTGGGGGT
* * *
15784960 AAAATGGTAATTTTTGGTAAAATAGGGGTTAAAAATGGAATTTTTAGAGAGTTTAGGGTAAAAGG
1 AAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAA-TTTTGGAGAGTTTA--G-----GG
15785025 TAAAATGGTAATTTTGGTGAAATCGGGGTTATTAAAAATGGAATTTTTGAGAGTTT-GGAGGTAA
57 TAAAATGGTAATTTTGGTGAAATCGGGG---TTAAAAATGGAATTTTTGAGAGTTTAGG-GGTAA
* * *
15785089 AATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTTGAGAGTTTGGAGGT
118 AATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAGAGTTTGGGGGT
15785146 AAAATGGT
1 AAAATGGT
15785154 TTTGGAATTC
Statistics
Matches: 332, Mismatches: 23, Indels: 19
0.89 0.06 0.05
Matches are distributed among these distances:
175 128 0.39
176 32 0.10
177 36 0.11
178 15 0.05
183 30 0.09
185 2 0.01
186 89 0.27
ACGTcount: A:0.35, C:0.02, G:0.30, T:0.34
Consensus pattern (174 bp):
AAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAGAGTTTAGGGTAAAATGGT
AATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTTGAGAGTTTAGGGGTAAAATGGTAATTTTT
GGTGAAATCGGGGTTAAAAATGGAATTTTGGAGAGTTTGGGGGT
Found at i:15785022 original size:29 final size:29
Alignment explanation
Indices: 15784638--15785022 Score: 140
Period size: 30 Copynumber: 13.1 Consensus size: 29
15784628 ATCGGGGTTA
*
15784638 AAAAATGGAA-TTTTGGAAAGTTTGAGGGT
1 AAAAATGGAATTTTTGGAGAGTTT-AGGGT
** **
15784667 -AAAATGGTAATTTTT-GATGAAATCGGGGCT
1 AAAAATGG-AATTTTTGGA-GAGTTTAGGG-T
* *
15784697 AAAAATAGAA-TTTTGGAAAGTTTAGGGGT
1 AAAAATGGAATTTTTGGAGAGTTTA-GGGT
* ** **
15784726 -AAAATGGTAATTTTTGGTGAAATCGGGGTT
1 AAAAATGG-AATTTTTGGAGAGTTTAGGG-T
* * * *
15784756 GAAAATGGAA-TTTTGGAAAATTTGGGGGT
1 AAAAATGGAATTTTTGGAGAGTTT-AGGGT
* * ** *
15784785 -AAAATGGTAATTTTGGGTGA-AATCGGGATT
1 AAAAATGG-AATTTTTGGAGAGTTTAGGG--T
15784815 AAAAATGGAA-TTTTGGAGAGTTTAGGGT
1 AAAAATGGAATTTTTGGAGAGTTTAGGGT
* ** **
15784843 -AAAATGGTAA-TTTTGGTGAAATCGGGGTT
1 AAAAATGG-AATTTTTGGAGAGTTTAGGG-T
*
15784872 AAAAATGGAGTTTTT-GAGAGTTTAGGGGT
1 AAAAATGGAATTTTTGGAGAGTTTA-GGGT
* ** *
15784901 -AAAATGGTAATTTTTGGTGA-AATCGGGATT
1 AAAAATGG-AATTTTTGGAGAGTTTAGGG--T
15784931 AAAAATGGAA-TTTTGGAGAGTTTAGGGGT
1 AAAAATGGAATTTTTGGAGAGTTTA-GGGT
**
15784960 -AAAATGGTAATTTTTGGTA-A-AATAGGGGTT
1 AAAAATGG-AATTTTTGG-AGAGTTTA-GGG-T
*
15784990 AAAAATGGAATTTTTAGAGAGTTTAGGGT
1 AAAAATGGAATTTTTGGAGAGTTTAGGGT
15785019 AAAA
1 AAAA
15785023 GGTAAAATGG
Statistics
Matches: 261, Mismatches: 58, Indels: 74
0.66 0.15 0.19
Matches are distributed among these distances:
27 7 0.03
28 55 0.21
29 76 0.29
30 83 0.32
31 40 0.15
ACGTcount: A:0.35, C:0.02, G:0.30, T:0.33
Consensus pattern (29 bp):
AAAAATGGAATTTTTGGAGAGTTTAGGGT
Found at i:15785100 original size:28 final size:28
Alignment explanation
Indices: 15785059--15785152 Score: 100
Period size: 28 Copynumber: 3.2 Consensus size: 28
15785049 GGGGTTATTA
15785059 AAAATGGAATTTTTGAGAGTTTGGAGGT
1 AAAATGGAATTTTTGAGAGTTTGGAGGT
* * ** *
15785087 AAAATGGTAATTTTTGGTGAAATCAGG-GTT
1 AAAATGG-AATTTTT-GAG-AGTTTGGAGGT
15785117 AAAAATGGAATTTTTGAGAGTTTGGAGGT
1 -AAAATGGAATTTTTGAGAGTTTGGAGGT
15785146 AAAATGG
1 AAAATGG
15785153 TTTTGGAATT
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
28 18 0.35
29 11 0.22
30 11 0.22
31 11 0.22
ACGTcount: A:0.35, C:0.01, G:0.30, T:0.34
Consensus pattern (28 bp):
AAAATGGAATTTTTGAGAGTTTGGAGGT
Found at i:15785442 original size:162 final size:163
Alignment explanation
Indices: 15785236--15785613 Score: 541
Period size: 162 Copynumber: 2.3 Consensus size: 163
15785226 CAAAGAGTGG
* * * * * *
15785236 GTGACACGTGGCAGCCTCACAG-GCA-TCTAGCAGTCAAGGGACTAAATTGTAAATCTTGAAAAA
1 GTGACACGTGGCAACCTC-TAGTGCAGTCAAACAGTCAAAGGACTAAATTATAAATCTTGAAAAA
** *
15785299 TTCTTGGGCCAATTTTGTAATTAAATAAAAGTTGATTTGGGGATTAAATTA-AGACAAATTAGAA
65 TTCTTGGGCCAATTTTGTAATTAAATAAAAGTTGATTTAAGGATTAAATTATA-ACAAATTAAAA
* * *
15785363 ATAATAGGGACTAGATACATAAATAAGC-TAAAAA
129 ATAACAGGGACTAGATACAGAAATAAGCAAAAAAA
*
15785397 GTGACACGTGGCAACCTCT-GATGCAGTCAAACAGTCAAAGGACTAATTTATAAATCTTGAAAAA
1 GTGACACGTGGCAACCTCTAG-TGCAGTCAAACAGTCAAAGGACTAAATTATAAATCTTGAAAAA
*
15785461 TTCTTGGGTCAATTTTGTAATTAAATAAAAGTTGATTTAAGGATTAAATTATAACAAATTAAAAA
65 TTCTTGGGCCAATTTTGTAATTAAATAAAAGTTGATTTAAGGATTAAATTATAACAAATTAAAAA
*
15785526 TTACAGGGACTAGATACAGAAATAAGCAAAAAAA
130 TAACAGGGACTAGATACAGAAATAAGCAAAAAAA
* *
15785560 GTGACACGTGGCAGCCTCTAGTGCAGTCAAACAGTCAAAGAACTAAATTATAAA
1 GTGACACGTGGCAACCTCTAGTGCAGTCAAACAGTCAAAGGACTAAATTATAAA
15785614 CTAATTAAAA
Statistics
Matches: 193, Mismatches: 18, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
159 1 0.01
161 20 0.10
162 116 0.60
163 55 0.28
164 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.26
Consensus pattern (163 bp):
GTGACACGTGGCAACCTCTAGTGCAGTCAAACAGTCAAAGGACTAAATTATAAATCTTGAAAAAT
TCTTGGGCCAATTTTGTAATTAAATAAAAGTTGATTTAAGGATTAAATTATAACAAATTAAAAAT
AACAGGGACTAGATACAGAAATAAGCAAAAAAA
Found at i:15786108 original size:19 final size:19
Alignment explanation
Indices: 15786084--15786120 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
15786074 TTTCTAAATC
15786084 GAACCCAGATCTAGAAAAG
1 GAACCCAGATCTAGAAAAG
*
15786103 GAACCCAGATCTGGAAAA
1 GAACCCAGATCTAGAAAA
15786121 TTTTCAAAAA
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:0.46, C:0.22, G:0.22, T:0.11
Consensus pattern (19 bp):
GAACCCAGATCTAGAAAAG
Found at i:15786301 original size:13 final size:13
Alignment explanation
Indices: 15786273--15786305 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
15786263 TTTCTGACCT
*
15786273 TTTATT-TTATTT
1 TTTATTATTATTC
15786285 TTTATTATTATTC
1 TTTATTATTATTC
15786298 TTTATTAT
1 TTTATTAT
15786306 AAAAATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTATTATTC
Found at i:15786316 original size:24 final size:24
Alignment explanation
Indices: 15786287--15786374 Score: 95
Period size: 24 Copynumber: 3.5 Consensus size: 24
15786277 TTTTATTTTT
*
15786287 TATTATTATTCTTTATTATAAAAA
1 TATTATTATTATTTATTATAAAAA
* * *
15786311 TATTATTATTAATTATTATAACAT
1 TATTATTATTATTTATTATAAAAA
*
15786335 TAATTATTATTATTAATTATTAATAAA
1 T-ATTATTATTATTTATTA-TAA-AAA
*
15786362 TATTAATATTATT
1 TATTATTATTATT
15786375 AAAACAGTCA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
24 21 0.40
25 15 0.29
26 14 0.27
27 2 0.04
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
TATTATTATTATTTATTATAAAAA
Found at i:15786327 original size:10 final size:10
Alignment explanation
Indices: 15786312--15786375 Score: 55
Period size: 10 Copynumber: 6.7 Consensus size: 10
15786302 TTATAAAAAT
15786312 ATTATTATTA
1 ATTATTATTA
15786322 ATTATTA-TA
1 ATTATTATTA
*
15786331 A-CATTAATT-
1 ATTATT-ATTA
15786340 ATTATTATTA
1 ATTATTATTA
*
15786350 ATTATTAATA
1 ATTATTATTA
* *
15786360 AATATTAAT-
1 ATTATTATTA
15786369 ATTATTA
1 ATTATTA
15786376 AAACAGTCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
8 3 0.07
9 14 0.31
10 28 0.62
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (10 bp):
ATTATTATTA
Found at i:15786338 original size:15 final size:13
Alignment explanation
Indices: 15786311--15786356 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
15786301 ATTATAAAAA
*
15786311 TATTATTATTAAT
1 TATTATCATTAAT
15786324 TATTATAACATTAAT
1 TATTAT--CATTAAT
*
15786339 TATTATTATTAAT
1 TATTATCATTAAT
15786352 TATTA
1 TATTA
15786357 ATAAATATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 17 0.59
15 12 0.41
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (13 bp):
TATTATCATTAAT
Found at i:15787123 original size:6 final size:6
Alignment explanation
Indices: 15787103--15787145 Score: 59
Period size: 6 Copynumber: 7.0 Consensus size: 6
15787093 TTAAATTTGT
* *
15787103 TTTAATA TTTTAA TTTAAA TTGAAA TTTAAA TTTAAA TTTAAA
1 TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
15787146 ATCAATTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
6 28 0.88
7 4 0.12
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:15787729 original size:76 final size:75
Alignment explanation
Indices: 15787506--15788116 Score: 841
Period size: 76 Copynumber: 8.0 Consensus size: 75
15787496 CTTTGTCTAA
* * **
15787506 CTCTTACTTCAATTTCGGAGAGATAAAGACTTGCTATCCAATTCTACTTCAATTTCAAGAAGATA
1 CTCTTACTTCAATTTC--AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATA
*
15787571 GGAAATGATGTTG
64 GGAAATGA-CTTG
** *
15787584 CTCTTACTTCAATTTCAGAGATAAAGACACGTTATCC-ACTCTACTTCAATTTTAAGCGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGG
15787648 AAATGACGTTG
66 AAATGAC-TTG
* * * * *
15787659 CTCTTACTTTAATTTCAAAGA-AAACAACTTGTTGTCCAACTCTACTTCAATTTCAAGGGGATAG
1 CTCTTACTTCAATTTCAGAGATAAA-GACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAG
*
15787723 GCAATGATCTTG
65 GAAATGA-CTTG
* *
15787735 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACCCTACTTCAATTTCAAGAGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGG
* *
15787800 AAACGATGTTG
66 AAATGA-CTTG
15787811 CTCTTACTTCAATTTCAGAGATAACA-ACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAG
1 CTCTTACTTCAATTTCAGAGATAA-AGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAG
15787875 GAAATGATCTTG
65 GAAATGA-CTTG
15787887 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGG
* * *
15787952 AAAAGATTTTT
66 AAATGA-CTTG
* * *
15787963 CTCCTACTTCAATTTCAGAGATAAAGATTTGTTATCCAACTCTACTTTAATTTCAAGCGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGG
*
15788028 AAAAGATCTTG
66 AAATGA-CTTG
* *
15788039 CTCCTACTTCAATTTCAGAGATAAAGATTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGG
1 CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGG
*
15788104 AAAAGATCTTG
66 AAATGA-CTTG
15788115 CT
1 CT
15788117 GCGTCTGATC
Statistics
Matches: 487, Mismatches: 39, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
74 3 0.01
75 60 0.12
76 403 0.83
77 5 0.01
78 16 0.03
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (75 bp):
CTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGG
AAATGACTTG
Found at i:15787743 original size:38 final size:38
Alignment explanation
Indices: 15787701--15788055 Score: 131
Period size: 38 Copynumber: 9.3 Consensus size: 38
15787691 TGTCCAACTC
*
15787701 TACTTCAATTTCAAGGGGATAGGCAATGATCTTGCTCT
1 TACTTCAATTTCAAGGGGATAGGAAATGATCTTGCTCT
* * ** *** *
15787739 TACTTCAATTTC-A-GAGATAAAGACTTGTTATCCAAC-CC
1 TACTTCAATTTCAAGGGGAT-AGGAAATG--ATCTTGCTCT
* * *
15787777 TACTTCAATTTCAAGAGGATAGGAAACGATGTTGCTCT
1 TACTTCAATTTCAAGGGGATAGGAAATGATCTTGCTCT
* ** * ***
15787815 TACTTCAATTTC-A-GAGATAACAACTTGTTATCCAACTC-
1 TACTTCAATTTCAAGGGGATAGGAA-ATG--ATCTTGCTCT
*
15787853 TACTTCAATTTCAAGCGGATAGGAAATGATCTTGCTCT
1 TACTTCAATTTCAAGGGGATAGGAAATGATCTTGCTCT
* * ** ***
15787891 TACTTCAATTTC-A-GAGATAAAGACTTGTTATCCAACTC-
1 TACTTCAATTTCAAGGGGAT-AGGAAATG--ATCTTGCTCT
* * * * *
15787929 TACTTCAATTTCAAGCGGATAGGAAAAGATTTTTCTCC
1 TACTTCAATTTCAAGGGGATAGGAAATGATCTTGCTCT
* * ** ***
15787967 TACTTCAATTTC-A-GAGATAAAGATTTGTTATCCAACTC-
1 TACTTCAATTTCAAGGGGAT-AGGAAATG--ATCTTGCTCT
* * * *
15788005 TACTTTAATTTCAAGCGGATAGGAAAAGATCTTGCTCC
1 TACTTCAATTTCAAGGGGATAGGAAATGATCTTGCTCT
15788043 TACTTCAATTTCA
1 TACTTCAATTTCA
15788056 GAGATAAAGA
Statistics
Matches: 216, Mismatches: 77, Indels: 48
0.63 0.23 0.14
Matches are distributed among these distances:
36 16 0.07
37 38 0.18
38 109 0.50
39 38 0.18
40 15 0.07
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (38 bp):
TACTTCAATTTCAAGGGGATAGGAAATGATCTTGCTCT
Found at i:15796185 original size:24 final size:27
Alignment explanation
Indices: 15796135--15796185 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 27
15796125 TATGTCAATA
* *
15796135 GTATGCAAGATATGATGCAAAATGCAT
1 GTATGCAAGATACGATGCAAAAGGCAT
15796162 GTATGCAA-ATACGA-G-AAAAGGCAT
1 GTATGCAAGATACGATGCAAAAGGCAT
15796186 TGATTCTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 8 0.36
25 1 0.05
26 5 0.23
27 8 0.36
ACGTcount: A:0.43, C:0.12, G:0.24, T:0.22
Consensus pattern (27 bp):
GTATGCAAGATACGATGCAAAAGGCAT
Found at i:15800227 original size:58 final size:58
Alignment explanation
Indices: 15800154--15800564 Score: 364
Period size: 59 Copynumber: 7.0 Consensus size: 58
15800144 GAAGAAACGA
* * * * * *
15800154 TGAAATCGGGATTAAAAACGGGACTTTTGGATACCCGAGGGCAAAATGGTAA-TTTTGG
1 TGAAATCGGGGTTAAAAA-TGGAATTTTGGAAACTCGAGGGTAAAATGGTAATTTTTGG
* *
15800212 TGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGA
1 TGAAATCGGGGTTAAAAATGGAATTTTGGAAA-CTCGAGGGTAAAATGGTAATTTTTGG
* * * **
15800271 TGAAATCGAGGCT-AAAATGGAATTTTGGAAAGTTTAGGGGTAAAATGGTAATTTTTGG
1 TGAAATCGGGGTTAAAAATGGAATTTTGGAAACTCGA-GGGTAAAATGGTAATTTTTGG
* * ** * *
15800329 TGAAATTGGGGTTAAAAATGGAATTTTTGAGAGTTTG-GGAATAAAATGGTAATTTTTGG
1 TGAAATCGGGGTTAAAAATGGAATTTTGGA-AACTCGAGG-GTAAAATGGTAATTTTTGG
* * * **
15800388 TGAAATCGGGATTAAAAATGGAATTTTGGAGAGTTTAGGGGTAAAATGGTAATTTTTGG
1 TGAAATCGGGGTTAAAAATGGAATTTTGGAAACTCGA-GGGTAAAATGGTAATTTTTGG
* * * ** * *
15800447 TAAAAATAGGGG-TAAAAATGGAATTTTTGAGAGTTTG-GAGGTAAAATGGTTATTTTTGG
1 T-GAAATCGGGGTTAAAAATGGAATTTTGGA-AACTCGAG-GGTAAAATGGTAATTTTTGG
* * * ** *
15800506 TGAAACCAGGGTTAAAAATGGAATTTTAGAAGGTTCGGGGGTAAAATGGTAATTTTTGG
1 TGAAATCGGGGTTAAAAATGGAATTTTGGAA-ACTCGAGGGTAAAATGGTAATTTTTGG
15800565 AAGTTTCAGG
Statistics
Matches: 293, Mismatches: 46, Indels: 27
0.80 0.13 0.07
Matches are distributed among these distances:
57 13 0.04
58 93 0.32
59 172 0.59
60 15 0.05
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.33
Consensus pattern (58 bp):
TGAAATCGGGGTTAAAAATGGAATTTTGGAAACTCGAGGGTAAAATGGTAATTTTTGG
Found at i:15800376 original size:59 final size:58
Alignment explanation
Indices: 15800196--15800564 Score: 476
Period size: 59 Copynumber: 6.3 Consensus size: 58
15800186 ACCCGAGGGC
* *
15800196 AAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAGAGTTTG-GGGT
* * * *
15800254 AAAATGGTAATTTTTGATGAAATCGAGGCT-AAAATGGAATTTTGGAAAGTTTAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAGAGTTT-GGGGT
* * *
15800312 AAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTTGAGAGTTTGGGAAT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAGAGTTTGGG-GT
*
15800371 AAAATGGTAATTTTTGGTGAAATCGGGATTAAAAATGGAATTTTGGAGAGTTTAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAGAGTTT-GGGGT
* * *
15800430 AAAATGGTAATTTTTGGTAAAAATAGGGG-TAAAAATGGAATTTTTGAGAGTTTGGAGGT
1 AAAATGGTAATTTTTGGT-GAAATCGGGGTTAAAAATGGAATTTTGGAGAGTTTGG-GGT
* * * * *
15800489 AAAATGGTTATTTTTGGTGAAACCAGGGTTAAAAATGGAATTTTAGA-AGGTTCGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAGA-GTT-TGGGGT
15800548 AAAATGGTAATTTTTGG
1 AAAATGGTAATTTTTGG
15800565 AAGTTTCAGG
Statistics
Matches: 274, Mismatches: 27, Indels: 19
0.86 0.08 0.06
Matches are distributed among these distances:
58 73 0.27
59 189 0.69
60 12 0.04
ACGTcount: A:0.35, C:0.02, G:0.29, T:0.34
Consensus pattern (58 bp):
AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAGAGTTTGGGGT
Found at i:15800899 original size:161 final size:162
Alignment explanation
Indices: 15800690--15801037 Score: 558
Period size: 161 Copynumber: 2.2 Consensus size: 162
15800680 ACAGGCATCC
*
15800690 AACAGTC-AAGAGACTAAATTGTAAATCTTGAAAAATTCTTGAGCCAATTTTGTAATTAAATAAA
1 AACAGTCAAAG-GACTAAATTATAAATCTTGAAAAATTCTTGAGCCAATTTTGTAATTAAATAAA
* * *
15800754 AGTTGATTTAGGGATTAAATTA-AGATAAATTAAAAATAACAGGGACTAGATACATAAATAAGCC
65 AGTTGATTTAAGGATTAAATTACA-ACAAATTAAAAATAACAGGGACTAGATACAGAAATAAGCC
*
15800818 AAAAAGTGACACGTGGCAACCTCTGGTACAGTCA
129 AAAAAGTGACACGTGGCAACCTCCGGTACAGTCA
* * *
15800852 GACAGTCAAAGGACTAATTTATAAATCTTG-AAAATTCTTGGGCCAATTTTGTAATTAAATAAAA
1 AACAGTCAAAGGACTAAATTATAAATCTTGAAAAATTCTTGAGCCAATTTTGTAATTAAATAAAA
*
15800916 GTTGATTTAAGGATTAAATTACAACAAATTAAAAATTACAGGGACTAGATACAGAAATAAGCCAA
66 GTTGATTTAAGGATTAAATTACAACAAATTAAAAATAACAGGGACTAGATACAGAAATAAGCCAA
* *
15800981 AAAGTGACACGTGGCAGCCTCCGGTGCAGTCA
131 AAAGTGACACGTGGCAACCTCCGGTACAGTCA
15801013 AACAGTCAAAGGACTAAATTATAAA
1 AACAGTCAAAGGACTAAATTATAAA
15801038 CTAATTAAAA
Statistics
Matches: 171, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
161 144 0.84
162 24 0.14
163 3 0.02
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.26
Consensus pattern (162 bp):
AACAGTCAAAGGACTAAATTATAAATCTTGAAAAATTCTTGAGCCAATTTTGTAATTAAATAAAA
GTTGATTTAAGGATTAAATTACAACAAATTAAAAATAACAGGGACTAGATACAGAAATAAGCCAA
AAAGTGACACGTGGCAACCTCCGGTACAGTCA
Found at i:15801717 original size:16 final size:17
Alignment explanation
Indices: 15801696--15801728 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
15801686 TTCTGACCTT
15801696 TTATTTTCTTT-TTATA
1 TTATTTTCTTTATTATA
15801712 TTATTTTCTTTATTATA
1 TTATTTTCTTTATTATA
15801729 AAAATATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
TTATTTTCTTTATTATA
Found at i:15801746 original size:7 final size:7
Alignment explanation
Indices: 15801734--15801777 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
15801724 TTATAAAAAT
15801734 ATTATTA
1 ATTATTA
15801741 ATTATTA
1 ATTATTA
**
15801748 TAACATTA
1 -ATTATTA
15801756 ATTATT-
1 ATTATTA
15801762 ATTATTA
1 ATTATTA
15801769 ATTATTA
1 ATTATTA
15801776 AT
1 AT
15801778 AAATATTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
6 6 0.19
7 20 0.65
8 5 0.16
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (7 bp):
ATTATTA
Found at i:15801748 original size:10 final size:10
Alignment explanation
Indices: 15801733--15801794 Score: 51
Period size: 10 Copynumber: 6.5 Consensus size: 10
15801723 ATTATAAAAA
15801733 TATTATTAAT
1 TATTATTAAT
15801743 TATTA-TAA-
1 TATTATTAAT
*
15801751 CATTAATT-AT
1 TATT-ATTAAT
15801761 TATTATTAAT
1 TATTATTAAT
* *
15801771 TATTAATAAA
1 TATTATTAAT
*
15801781 TATTAAT-AT
1 TATTATTAAT
15801790 TATTA
1 TATTA
15801795 AAACAGTCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
8 3 0.07
9 14 0.33
10 26 0.60
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (10 bp):
TATTATTAAT
Found at i:15801757 original size:15 final size:13
Alignment explanation
Indices: 15801737--15801775 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
15801727 TAAAAATATT
15801737 ATTAATTATTATAAC
1 ATTAATTATTAT--C
*
15801752 ATTAATTATTATT
1 ATTAATTATTATC
15801765 ATTAATTATTA
1 ATTAATTATTA
15801776 ATAAATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
15 12 0.52
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTAATTATTATC
Found at i:15807125 original size:21 final size:21
Alignment explanation
Indices: 15807096--15807140 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
15807086 ATTATTTGTA
15807096 TTTAGGTGAATTT-AGTTGCAT
1 TTTAGGTG-ATTTCAGTTGCAT
* *
15807117 TTTATGTGATTTCATTTGCAT
1 TTTAGGTGATTTCAGTTGCAT
15807138 TTT
1 TTT
15807141 TATAAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.20, C:0.07, G:0.18, T:0.56
Consensus pattern (21 bp):
TTTAGGTGATTTCAGTTGCAT
Found at i:15808119 original size:18 final size:19
Alignment explanation
Indices: 15808098--15808136 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
15808088 ACAAATCAAG
*
15808098 TTATTCGAGTTAA-TCGAA
1 TTATTCGAGTCAACTCGAA
15808116 TTATTCGAGTCAACTCGAA
1 TTATTCGAGTCAACTCGAA
15808135 TT
1 TT
15808137 TTTTTTTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (19 bp):
TTATTCGAGTCAACTCGAA
Found at i:15808286 original size:29 final size:30
Alignment explanation
Indices: 15808254--15808313 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
15808244 AACTCCAAAC
*
15808254 CTTTTTAC-TTTTCCCCCAAAACTTTTACT
1 CTTTTCACATTTTCCCCCAAAACTTTTACT
* *
15808283 C-TTTCCCATTTTCCCTCAAAACTTTTACT
1 CTTTTCACATTTTCCCCCAAAACTTTTACT
15808312 CT
1 CT
15808314 CATCTCACCC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 4 0.15
29 22 0.85
ACGTcount: A:0.20, C:0.33, G:0.00, T:0.47
Consensus pattern (30 bp):
CTTTTCACATTTTCCCCCAAAACTTTTACT
Found at i:15808496 original size:13 final size:13
Alignment explanation
Indices: 15808478--15808505 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
15808468 CTTTTACTCT
15808478 CCTCCCATCCAAC
1 CCTCCCATCCAAC
15808491 CCTCCCATCCAAC
1 CCTCCCATCCAAC
15808504 CC
1 CC
15808506 AAACCCATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.64, G:0.00, T:0.14
Consensus pattern (13 bp):
CCTCCCATCCAAC
Found at i:15808607 original size:18 final size:19
Alignment explanation
Indices: 15808569--15808608 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
15808559 CTCCCCAAAA
*
15808569 CTCCCAAAACTTTTTATTT
1 CTCCCAAAACTTTTTACTT
*
15808588 CTCCCTAAAC-TTTTACTT
1 CTCCCAAAACTTTTTACTT
15808606 CTC
1 CTC
15808609 ACCCTTTACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.45
Consensus pattern (19 bp):
CTCCCAAAACTTTTTACTT
Found at i:15810064 original size:28 final size:28
Alignment explanation
Indices: 15810031--15810132 Score: 143
Period size: 28 Copynumber: 3.7 Consensus size: 28
15810021 TATATTATTG
*
15810031 GAAAGGAAATTATTGAAAAGGTATATAC
1 GAAAGGATATTATTGAAAAGGTATATAC
*
15810059 GAAAGGATATTATTGAAAAAGTATATAC
1 GAAAGGATATTATTGAAAAGGTATATAC
*
15810087 GAAAGGATATTATT-AAAAGGTATATCC
1 GAAAGGATATTATTGAAAAGGTATATAC
* * *
15810114 AAAAGGATGTTTTTGAAAA
1 GAAAGGATATTATTGAAAA
15810133 AGATATTATC
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 22 0.33
28 44 0.67
ACGTcount: A:0.48, C:0.04, G:0.20, T:0.28
Consensus pattern (28 bp):
GAAAGGATATTATTGAAAAGGTATATAC
Found at i:15810119 original size:55 final size:55
Alignment explanation
Indices: 15810031--15810138 Score: 155
Period size: 55 Copynumber: 2.0 Consensus size: 55
15810021 TATATTATTG
*
15810031 GAAAGGAAATTATTGAAAAGGTATATACGAAAGGATATTATTGAAAAAGTATATAC
1 GAAAGGAAATTATTGAAAAGGTATATACAAAAGGATATTATTGAAAAAG-ATATAC
* * * *
15810087 GAAAGGATATTATT-AAAAGGTATATCCAAAAGGATGTTTTTGAAAAAGATAT
1 GAAAGGAAATTATTGAAAAGGTATATACAAAAGGATATTATTGAAAAAGATAT
15810139 TATCTGGAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 4 0.09
55 30 0.64
56 13 0.28
ACGTcount: A:0.48, C:0.04, G:0.19, T:0.29
Consensus pattern (55 bp):
GAAAGGAAATTATTGAAAAGGTATATACAAAAGGATATTATTGAAAAAGATATAC
Found at i:15811098 original size:13 final size:13
Alignment explanation
Indices: 15811060--15811117 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 13
15811050 ATATATGTAA
* *
15811060 ATGAAATGGTAAA
1 ATGAAATGGTTAT
* *
15811073 ATGAAACGATTAT
1 ATGAAATGGTTAT
15811086 ATGAAATGGTTAT
1 ATGAAATGGTTAT
* *
15811099 AAGGAATGGTTAT
1 ATGAAATGGTTAT
*
15811112 GTGAAA
1 ATGAAA
15811118 AATATATGTA
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.45, C:0.02, G:0.24, T:0.29
Consensus pattern (13 bp):
ATGAAATGGTTAT
Found at i:15813195 original size:13 final size:13
Alignment explanation
Indices: 15813162--15813195 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
15813152 GGAAATAAAC
*
15813162 ATATGAAATGATT
1 ATATGAAGTGATT
*
15813175 ATATGAAGTGTTT
1 ATATGAAGTGATT
15813188 ATATGAAG
1 ATATGAAG
15813196 CATTTGTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (13 bp):
ATATGAAGTGATT
Found at i:15815494 original size:13 final size:13
Alignment explanation
Indices: 15815458--15815515 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
15815448 ATATATGTAA
* *
15815458 ATGAAATGGTAAA
1 ATGAAATGGTTAT
*
15815471 ATGAAACGGTTAT
1 ATGAAATGGTTAT
15815484 ATGAAATGGTTAT
1 ATGAAATGGTTAT
* *
15815497 AAGGAATGGTTAT
1 ATGAAATGGTTAT
*
15815510 GTGAAA
1 ATGAAA
15815516 AATATATGTA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.43, C:0.02, G:0.26, T:0.29
Consensus pattern (13 bp):
ATGAAATGGTTAT
Found at i:15819029 original size:20 final size:20
Alignment explanation
Indices: 15819001--15819040 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
15818991 TATAAAACTT
* * *
15819001 TTATTATTTGTGATTTTAAA
1 TTATAATTTATGATTATAAA
15819021 TTATAATTTATGATTATAAA
1 TTATAATTTATGATTATAAA
15819041 ATTTATTATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
TTATAATTTATGATTATAAA
Found at i:15829910 original size:19 final size:17
Alignment explanation
Indices: 15829888--15829930 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 17
15829878 AACCCCCTTT
*
15829888 ATTAAACATAACAATTAAA
1 ATTAAAAATAACAA--AAA
15829907 ATTAAAAATAACAAAAA
1 ATTAAAAATAACAAAAA
15829924 ATTAAAA
1 ATTAAAA
15829931 TTAAAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.43
19 13 0.57
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (17 bp):
ATTAAAAATAACAAAAA
Found at i:15838430 original size:13 final size:13
Alignment explanation
Indices: 15838414--15838440 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15838404 GAATTTAGCA
15838414 TCGTGATTTTATC
1 TCGTGATTTTATC
15838427 TCGTGATTTTATC
1 TCGTGATTTTATC
15838440 T
1 T
15838441 TGCCCTATGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.56
Consensus pattern (13 bp):
TCGTGATTTTATC
Found at i:15838684 original size:39 final size:39
Alignment explanation
Indices: 15838580--15838691 Score: 118
Period size: 39 Copynumber: 2.8 Consensus size: 39
15838570 TTGTGTGTAA
* * *
15838580 CTTCAATCTACCCCTCTGGATTAGGGGTAAAAGACTGGATCG
1 CTTCAATCT-GCCCTCTAGATTAGGGGT-AAA-ACTAGATCG
* * * *
15838622 CTTTAATTTGCCCT-TTGAGTTAGGGGTAAAACTAGATGG
1 CTTCAATCTGCCCTCTAGA-TTAGGGGTAAAACTAGATCG
15838661 CTTCAATCTGCCCTCTAGATTAGGGGTAAAA
1 CTTCAATCTGCCCTCTAGATTAGGGGTAAAA
15838692 GATTGTGGAT
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
39 31 0.53
40 9 0.15
41 12 0.20
42 7 0.12
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (39 bp):
CTTCAATCTGCCCTCTAGATTAGGGGTAAAACTAGATCG
Found at i:15838795 original size:38 final size:38
Alignment explanation
Indices: 15838580--15838795 Score: 141
Period size: 42 Copynumber: 5.3 Consensus size: 38
15838570 TTGTGTGTAA
* *
15838580 CTTCAATCTACCCCTCTGGATTAGGGGTAAAAGACTGGATCG
1 CTTCAATCT-GCCCTCT-GATTA-GGGTAAAAGATTGGAT-G
* * * * *
15838622 CTTTAATTTGCCCTTTGAGTTAGGGGT-AAA-ACTAGATGG
1 CTTCAATCTGCCCTCTGA-TTA-GGGTAAAAGATTGGAT-G
15838661 CTTCAATCTGCCCTCTAGATTAGGGGTAAAAGATTGTGGATG
1 CTTCAATCTGCCCTCT-GATTA-GGGTAAAAGA-T-TGGATG
* * * *
15838703 CTTCAATCTACCC-CATGGTCAGGGTAAGAGATTGAATGATG
1 CTTCAATCTGCCCTC-TGATTAGGGTAAAAGATTG---GATG
* *
15838744 TATTCAATCTGCCCTCTGATTAGCGTAAAAGATTGGATG
1 -CTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGATG
*
15838783 CTTCATTCTGCCC
1 CTTCAATCTGCCC
15838796 CATAATCGGG
Statistics
Matches: 139, Mismatches: 23, Indels: 28
0.73 0.12 0.15
Matches are distributed among these distances:
38 13 0.09
39 33 0.24
40 19 0.14
41 22 0.16
42 47 0.34
43 5 0.04
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (38 bp):
CTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGATG
Found at i:15838797 original size:80 final size:84
Alignment explanation
Indices: 15838662--15838816 Score: 219
Period size: 80 Copynumber: 1.9 Consensus size: 84
15838652 ACTAGATGGC
* **
15838662 TTCAATCTGCCCTCTAGATTAGGGGTAAAAGATTGTGGATGCTTCAATCTACCCCATGGTCAGGG
1 TTCAATCTGCCCTCTAGATTAGGCGTAAAAGATTGTGGATGCTTCAATCTACCCCATAATCAGGG
15838727 TAAGAGATTGAATGATGTA
66 TAAGAGATTGAATGATGTA
* * *
15838746 TTCAATCTGCCCTCT-GATTA-GCGTAAAAGA-T-TGGATGCTTCATTCTGCCCCATAATCGGGG
1 TTCAATCTGCCCTCTAGATTAGGCGTAAAAGATTGTGGATGCTTCAATCTACCCCATAATCAGGG
*
15838807 TATGAGATTG
66 TAAGAGATTG
15838817 GATGGTAGCT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
80 34 0.53
81 1 0.02
82 9 0.14
83 5 0.08
84 15 0.23
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (84 bp):
TTCAATCTGCCCTCTAGATTAGGCGTAAAAGATTGTGGATGCTTCAATCTACCCCATAATCAGGG
TAAGAGATTGAATGATGTA
Found at i:15839243 original size:49 final size:49
Alignment explanation
Indices: 15839115--15839861 Score: 497
Period size: 49 Copynumber: 15.2 Consensus size: 49
15839105 TATTGCAGCC
* * * * * *
15839115 TCAATCTTTCCCATCACGTCTCTAAGGTAAAAGGTTCACCGTTGCTGCT
1 TCAATCTTTCCCATCATGTCTCTATGGTACAAGATTCGCCGTTGCGGCT
* * **
15839164 CTCAATCTTTCCC-TCCATATCTCCATGGTACAAGATTCGCTATTGCGGCT
1 -TCAATCTTTCCCAT-CATGTCTCTATGGTACAAGATTCGCCGTTGCGGCT
* * * * * * *
15839214 TCAATATTTCCCATCACGTCTTTAAGGTACAAGGTTCGTCGTTGTGGCT
1 TCAATCTTTCCCATCATGTCTCTATGGTACAAGATTCGCCGTTGCGGCT
* * * *
15839263 TCAACCTTTCCC-TCCATATCTCCATGGTACAAGATTCACCGTTGCGGCT
1 TCAATCTTTCCCAT-CATGTCTCTATGGTACAAGATTCGCCGTTGCGGCT
* *
15839312 TCAATCTTTCCAATCATGTCTCTATGGTACAAGGTTCGCCGTTGCGGCT
1 TCAATCTTTCCCATCATGTCTCTATGGTACAAGATTCGCCGTTGCGGCT
* * * * *
15839361 TCAACCTTTCCC-TCCATATCTCCATGGTACAGGATTCGCCGTTGCGACT
1 TCAATCTTTCCCAT-CATGTCTCTATGGTACAAGATTCGCCGTTGCGGCT
* * * * * * *
15839410 TCACT-TTTCCCATCACGTCTCTAAGGTACAAGGTTCGTCGTTACGACT
1 TCAATCTTTCCCATCATGTCTCTATGGTACAAGATTCGCCGTTGCGGCT
* * * * * * *
15839458 TCAACCTTTCCCTTCATATCTCCATGGTATAAGATTCGCCATTGCGACAT
1 TCAATCTTTCCCATCATGTCTCTATGGTACAAGATTCGCCGTTGCGGC-T
* * * * * *
15839508 T-AATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCACCGTTGTGGAT
1 TCAATCTTTCCCATCATGTCTCTATGGTACAAGATTCGCCGTTGCGGCT
* * * * *
15839556 TCAACCTTTCCC-TCCATATCTCCATGGTACTAGATTCACCGTTGCGGCT
1 TCAATCTTTCCCAT-CATGTCTCTATGGTACAAGATTCGCCGTTGCGGCT
* * * * * * * * *
15839605 TCAATCTTTCCCATTATTTTTCTAAT-GTATAAGGTTCGTCGGTACGACT
1 TCAATCTTTCCCATCATGTCTCT-ATGGTACAAGATTCGCCGTTGCGGCT
* * * ** * * *
15839654 TCAACCTTTCCC-TCCATATCTCCATGGTATTAGATTTGTCATTGCGGCT
1 TCAATCTTTCCCAT-CATGTCTCTATGGTACAAGATTCGCCGTTGCGGCT
* ** * * ** **
15839703 TCAATCTTTCCTATCACATCTCTAAGGTACAAGGTTAACTATTGCGGCT
1 TCAATCTTTCCCATCATGTCTCTATGGTACAAGATTCGCCGTTGCGGCT
* * ** * *
15839752 TCAACCTTTCCCTTCACATCTCTAAGGTACAAGGTTCGCCGTTGCGGCT
1 TCAATCTTTCCCATCATGTCTCTATGGTACAAGATTCGCCGTTGCGGCT
* * ** * * * *
15839801 TCAA-CCTTCACCTTCACATCTCTAAGGTATC-AGATTTGTCGTTACGGCT
1 TCAATCTTTC-CCATCATGTCTCTATGGTA-CAAGATTCGCCGTTGCGGCT
15839850 TCAATCTTTCCC
1 TCAATCTTTCCC
15839862 TTAAAACCTG
Statistics
Matches: 540, Mismatches: 139, Indels: 37
0.75 0.19 0.05
Matches are distributed among these distances:
48 48 0.09
49 442 0.82
50 50 0.09
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (49 bp):
TCAATCTTTCCCATCATGTCTCTATGGTACAAGATTCGCCGTTGCGGCT
Found at i:15839863 original size:98 final size:98
Alignment explanation
Indices: 15839115--15839862 Score: 869
Period size: 98 Copynumber: 7.6 Consensus size: 98
15839105 TATTGCAGCC
* ** * *
15839115 TCAATCTTTCCCATCACGTCTCTAAGGTAAAAGGTTCACCGTTGCTGCTCTCAATCTTTCCCTCC
1 TCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCGTCGTTGCGGCT-TCAACCTTTCCCTCC
**
15839180 ATATCTCCATGGTACAAGATTCGCTATTGCGGCT
65 ATATCTCCATGGTACAAGATTCGCCGTTGCGGCT
* * *
15839214 TCAATATTTCCCATCACGTCTTTAAGGTACAAGGTTCGTCGTTGTGGCTTCAACCTTTCCCTCCA
1 TCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCGTCGTTGCGGCTTCAACCTTTCCCTCCA
*
15839279 TATCTCCATGGTACAAGATTCACCGTTGCGGCT
66 TATCTCCATGGTACAAGATTCGCCGTTGCGGCT
* * * *
15839312 TCAATCTTTCCAATCATGTCTCTATGGTACAAGGTTCGCCGTTGCGGCTTCAACCTTTCCCTCCA
1 TCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCGTCGTTGCGGCTTCAACCTTTCCCTCCA
* *
15839377 TATCTCCATGGTACAGGATTCGCCGTTGCGACT
66 TATCTCCATGGTACAAGATTCGCCGTTGCGGCT
* * * *
15839410 TCACT-TTTCCCATCACGTCTCTAAGGTACAAGGTTCGTCGTTACGACTTCAACCTTTCCCTTCA
1 TCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCGTCGTTGCGGCTTCAACCTTTCCCTCCA
* * *
15839474 TATCTCCATGGTATAAGATTCGCCATTGCGACAT
66 TATCTCCATGGTACAAGATTCGCCGTTGCGGC-T
** * *
15839508 T-AATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCACCGTTGTGGATTCAACCTTTCCCTCCA
1 TCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCGTCGTTGCGGCTTCAACCTTTCCCTCCA
* *
15839572 TATCTCCATGGTACTAGATTCACCGTTGCGGCT
66 TATCTCCATGGTACAAGATTCGCCGTTGCGGCT
* ** * * * * * *
15839605 TCAATCTTTCCCATTATTTTTCTAATGTATAAGGTTCGTCGGTACGACTTCAACCTTTCCCTCCA
1 TCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCGTCGTTGCGGCTTCAACCTTTCCCTCCA
** * * *
15839670 TATCTCCATGGTATTAGATTTGTCATTGCGGCT
66 TATCTCCATGGTACAAGATTCGCCGTTGCGGCT
* * * *
15839703 TCAATCTTTCCTATCACATCTCTAAGGTACAAGGTTAAC-T-ATTGCGGCTTCAACCTTTCCCTT
1 TCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTT--CGTCGTTGCGGCTTCAACCTTTCCCTC
* * * *
15839766 CACATCTCTAAGGTACAAGGTTCGCCGTTGCGGCT
64 CATATCTCCATGGTACAAGATTCGCCGTTGCGGCT
* * * * * * *
15839801 TCAA-CCTTCACCTTCACATCTCTAAGGTATC-AGATTTGTCGTTACGGCTTCAATCTTTCCCT
1 TCAATCTTTC-CCATCACGTCTCTAAGGTA-CAAGGTTCGTCGTTGCGGCTTCAACCTTTCCCT
15839863 TAAAACCTGT
Statistics
Matches: 548, Mismatches: 92, Indels: 19
0.83 0.14 0.03
Matches are distributed among these distances:
97 90 0.16
98 413 0.75
99 44 0.08
100 1 0.00
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (98 bp):
TCAATCTTTCCCATCACGTCTCTAAGGTACAAGGTTCGTCGTTGCGGCTTCAACCTTTCCCTCCA
TATCTCCATGGTACAAGATTCGCCGTTGCGGCT
Found at i:15840393 original size:112 final size:115
Alignment explanation
Indices: 15840227--15840442 Score: 314
Period size: 112 Copynumber: 1.9 Consensus size: 115
15840217 TATCGTTAGA
* * *
15840227 CCACTAATCGTTATTTTGAAATGCAAAAAATGTTTGAATCAAGGTCGTAAGGTGGATAAAATT-A
1 CCACTAAACGTTATTTCG-AATGCAAAAAATGCTTGAATCAAGGTCGTAAGGTGGATAAAATTGA
* *
15840291 AGTTTTATTGGAGATAAAACTCGTATGAATGAAAAGATTATGAATCATTGGT
65 A-TTTTATAGGAGACAAAACTCGTATGAATGAAAAGATTATGAATCATTGGT
*
15840343 CCACTAAACGTTATTTCG-ATGC-AAAAATGCTTGAA-CAAGGTTGTAAGGTGGATAAAATTGAA
1 CCACTAAACGTTATTTCGAATGCAAAAAATGCTTGAATCAAGGTCGTAAGGTGGATAAAATTGAA
* *
15840405 TTTTATAGGAGGCAAAGCTCGTATGAATGAAAAGATTA
66 TTTTATAGGAGACAAAACTCGTATGAATGAAAAGATTA
15840443 AAAGTGACAA
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
112 57 0.63
113 14 0.15
114 4 0.04
116 16 0.18
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.31
Consensus pattern (115 bp):
CCACTAAACGTTATTTCGAATGCAAAAAATGCTTGAATCAAGGTCGTAAGGTGGATAAAATTGAA
TTTTATAGGAGACAAAACTCGTATGAATGAAAAGATTATGAATCATTGGT
Found at i:15840467 original size:20 final size:21
Alignment explanation
Indices: 15840442--15840480 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15840432 TGAAAAGATT
15840442 AAAAGTGA-CAAACATTGGTC
1 AAAAGTGACCAAACATTGGTC
*
15840462 AAAAGTTACCAAACATTGG
1 AAAAGTGACCAAACATTGG
15840481 GTGAGCAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.46, C:0.15, G:0.18, T:0.21
Consensus pattern (21 bp):
AAAAGTGACCAAACATTGGTC
Found at i:15841592 original size:21 final size:21
Alignment explanation
Indices: 15841566--15841610 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
15841556 TTCATCTTGA
15841566 TTTTTTC-CTTCTTTTCTTTGG
1 TTTTTTCTC-TCTTTTCTTTGG
*
15841587 TTTTTTCTCTCTTTTTTTTGG
1 TTTTTTCTCTCTTTTCTTTGG
15841608 TTT
1 TTT
15841611 CAAGATGCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.00, C:0.16, G:0.09, T:0.76
Consensus pattern (21 bp):
TTTTTTCTCTCTTTTCTTTGG
Found at i:15851053 original size:13 final size:11
Alignment explanation
Indices: 15851021--15851063 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
15851011 CCATTTTCTA
*
15851021 AATAAAATAAT
1 AATAAAATATT
15851032 AAT-AAATATTT
1 AATAAAATA-TT
15851043 AAGTAAAATATT
1 AA-TAAAATATT
15851055 AATAAAATA
1 AATAAAATA
15851064 ATATTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 5 0.18
13 5 0.18
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (11 bp):
AATAAAATATT
Found at i:15851338 original size:29 final size:28
Alignment explanation
Indices: 15851292--15851346 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
15851282 AAATTGGTAT
* *
15851292 ATTTTTACTTTTGGTCCT-TCAAATTTTC
1 ATTTTTACCTTTGATCCTCT-AAATTTTC
15851320 ATTTTTACACTTTGATCCTCTAAATTT
1 ATTTTTAC-CTTTGATCCTCTAAATTT
15851347 CAAATATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 8 0.35
29 14 0.61
30 1 0.04
ACGTcount: A:0.22, C:0.18, G:0.05, T:0.55
Consensus pattern (28 bp):
ATTTTTACCTTTGATCCTCTAAATTTTC
Found at i:15851655 original size:63 final size:63
Alignment explanation
Indices: 15851542--15851668 Score: 200
Period size: 63 Copynumber: 2.0 Consensus size: 63
15851532 TTTTATTATA
* * *
15851542 TATAAATTTTAGGGATGTTACACGTAATTGTTGAGAATTCGTAGCCATGATCGAAATCAATTC
1 TATAAATTTTAGGGATGTTACACGTAATTGTTAAGAACTCGCAGCCATGATCGAAATCAATTC
* * *
15851605 TATAAATTTTAGGGATGTTACATGTAATTGTTAAGAACTCGCAGCTATGATCGAAATCAGTTC
1 TATAAATTTTAGGGATGTTACACGTAATTGTTAAGAACTCGCAGCCATGATCGAAATCAATTC
15851668 T
1 T
15851669 CTCGCTTTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (63 bp):
TATAAATTTTAGGGATGTTACACGTAATTGTTAAGAACTCGCAGCCATGATCGAAATCAATTC
Found at i:15857989 original size:2 final size:2
Alignment explanation
Indices: 15857982--15858007 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15857972 AATGGGAGAA
15857982 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
15858008 TAAACCTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15858774 original size:28 final size:29
Alignment explanation
Indices: 15858721--15858775 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
15858711 ATTATTTGCA
* *
15858721 TTATTTTATTTATTTATTATTTATTTTTT
1 TTATTTTATTTATTTATCATTCATTTTTT
*
15858750 TTATTTT-TTTATTTGTCATTCATTTT
1 TTATTTTATTTATTTATCATTCATTTT
15858776 CTTTGTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (29 bp):
TTATTTTATTTATTTATCATTCATTTTTT
Found at i:15858775 original size:24 final size:23
Alignment explanation
Indices: 15858698--15858775 Score: 63
Period size: 24 Copynumber: 3.3 Consensus size: 23
15858688 ATTGTTCCAT
15858698 TTATATTT-TTTATATTATTTG-CA
1 TTAT-TTTATTTAT-TTATTTGTCA
*
15858721 TTATTTTATTTATTTATTAT-TTA
1 TTATTTTATTTATTTATT-TGTCA
* *
15858744 TTTTTTTTATTTTTTTATTTGTCA
1 -TTATTTTATTTATTTATTTGTCA
15858768 TTCATTTT
1 TT-ATTTT
15858776 CTTTGTTATT
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
22 8 0.18
23 14 0.32
24 22 0.50
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.73
Consensus pattern (23 bp):
TTATTTTATTTATTTATTTGTCA
Found at i:15858849 original size:74 final size:72
Alignment explanation
Indices: 15858724--15858891 Score: 196
Period size: 74 Copynumber: 2.3 Consensus size: 72
15858714 ATTTGCATTA
* * * *
15858724 TTTTATTTATTTATTATTTATTTTTTTTATTTTTTTATTTGTCATTCATTTTCTT-TGTTATTTA
1 TTTTATTTAATT-TTATTTATTTTTTTTATTATTTTATTTATCATTCATTTTCTTATGTTAGTTA
15858788 CATTCTTAC
65 CATT-TTAC
* * *
15858797 TTTTATTTAATTTTATTTATTATTTTTTATGTATTTTATTTAT-TTGTTATTTTTTTATGTTAGT
1 TTTTATTTAATTTTATTTATT-TTTTTTAT-TATTTTATTTATCAT-TCATTTTCTTATGTTAGT
* *
15858861 TATATTTTCC
63 TACATTTTAC
15858871 TTTTATTTAATTTTATTTATT
1 TTTTATTTAATTTTATTTATT
15858892 GATTGATATT
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
72 9 0.11
73 20 0.24
74 42 0.51
75 11 0.13
ACGTcount: A:0.20, C:0.05, G:0.04, T:0.72
Consensus pattern (72 bp):
TTTTATTTAATTTTATTTATTTTTTTTATTATTTTATTTATCATTCATTTTCTTATGTTAGTTAC
ATTTTAC
Found at i:15858862 original size:17 final size:15
Alignment explanation
Indices: 15858721--15858868 Score: 76
Period size: 16 Copynumber: 9.5 Consensus size: 15
15858711 ATTATTTGCA
*
15858721 TTATTTTATTTATTTA
1 TTATTTT-TTTATTTG
*
15858737 TTATTTATTT-TTT-
1 TTATTTTTTTATTTG
15858750 TTATTTTTTTATTTG
1 TTATTTTTTTATTTG
* * *
15858765 TCATTCATTTTCTTTG
1 TTATT-TTTTTATTTG
*
15858781 TTATTTACATTCTTACTT-
1 TTATTT---TT-TTATTTG
*
15858799 TTATTTAATTTTATTTA
1 TTATTT--TTTTATTTG
15858816 TTA-TTTTTTA--TG
1 TTATTTTTTTATTTG
15858828 -TATTTTATTTATTTG
1 TTATTTT-TTTATTTG
15858843 TTATTTTTTTATGTTAG
1 TTATTTTTTTAT-TT-G
15858860 TTATATTTT
1 TTAT-TTTT
15858869 CCTTTTATTT
Statistics
Matches: 104, Mismatches: 12, Indels: 30
0.71 0.08 0.21
Matches are distributed among these distances:
11 2 0.02
12 4 0.04
13 13 0.12
14 11 0.11
15 14 0.13
16 33 0.32
17 11 0.11
18 12 0.12
19 4 0.04
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (15 bp):
TTATTTTTTTATTTG
Found at i:15866079 original size:6 final size:6
Alignment explanation
Indices: 15866068--15866094 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
15866058 TGAGATGAAA
15866068 ATCGAC ATCGAC ATCGAC ATCGAC ATC
1 ATCGAC ATCGAC ATCGAC ATCGAC ATC
15866095 TTCGAATAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.33, G:0.15, T:0.19
Consensus pattern (6 bp):
ATCGAC
Found at i:15870252 original size:9 final size:9
Alignment explanation
Indices: 15870238--15870275 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
15870228 AATTAAATAG
15870238 TTTGAGTTA
1 TTTGAGTTA
15870247 TTTGAGTTA
1 TTTGAGTTA
*
15870256 ATTGAGTTA
1 TTTGAGTTA
*
15870265 ATTGAGTTA
1 TTTGAGTTA
15870274 TT
1 TT
15870276 CAAATCAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.53
Consensus pattern (9 bp):
TTTGAGTTA
Found at i:15880131 original size:18 final size:17
Alignment explanation
Indices: 15880108--15880161 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
15880098 ATTTTCATTA
15880108 TTTTATTTAGTATTTTAT
1 TTTTATTTA-TATTTTAT
15880126 TTTTATTTATCA-TTTAT
1 TTTTATTTAT-ATTTTAT
15880143 TTTTATTT-T-TTTTAT
1 TTTTATTTATATTTTAT
15880158 TTTT
1 TTTT
15880162 TTATTTTTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
15 9 0.26
16 1 0.03
17 14 0.41
18 10 0.29
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTTATTTATATTTTAT
Found at i:15880141 original size:17 final size:17
Alignment explanation
Indices: 15880096--15880150 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
15880086 ATTTTTTATA
15880096 TTATTT-TCA-TTA-TT
1 TTATTTATCATTTATTT
15880110 TTATTTAGT-ATTTTATTT
1 TTATTTA-TCA-TTTATTT
15880128 TTATTTATCATTTATTT
1 TTATTTATCATTTATTT
15880145 TTATTT
1 TTATTT
15880151 TTTTTATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
16 1 0.03
17 17 0.49
18 10 0.29
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.73
Consensus pattern (17 bp):
TTATTTATCATTTATTT
Found at i:15880156 original size:9 final size:9
Alignment explanation
Indices: 15880137--15880268 Score: 61
Period size: 9 Copynumber: 14.0 Consensus size: 9
15880127 TTTATTTATC
15880137 ATTTATTTTT
1 ATTT-TTTTT
15880147 ATTTTTTTT
1 ATTTTTTTT
15880156 A-TTTTTTT
1 ATTTTTTTT
15880164 ATTTTTGTCATT
1 ATTTTT-T--TT
*
15880176 CATTTTCTTT
1 -ATTTTTTTT
* **
15880186 ATTATTTAC
1 ATTTTTTTT
* **
15880195 A-TTCTTGC
1 ATTTTTTTT
**
15880203 ATTCATTTT
1 ATTTTTTTT
* *
15880212 AATTTATTT
1 ATTTTTTTT
*
15880221 ATTATTTTT
1 ATTTTTTTT
*
15880230 ATGTTTTTT
1 ATTTTTTTT
15880239 ATTTTTTTT
1 ATTTTTTTT
15880248 ATTTTTATGTT
1 ATTTTT-T-TT
15880259 ATTTATTTTT
1 ATTT-TTTTT
15880269 GCCTTTATTT
Statistics
Matches: 91, Mismatches: 22, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
8 13 0.14
9 51 0.56
10 10 0.11
11 7 0.08
12 5 0.05
13 5 0.05
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.73
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:15880164 original size:23 final size:23
Alignment explanation
Indices: 15880087--15880169 Score: 71
Period size: 23 Copynumber: 3.5 Consensus size: 23
15880077 TCATTTATAA
* **
15880087 TTTTTTA-TATTATTTTCATTAT
1 TTTTTTATTTTTATTTTTTTTAT
15880109 TTTATTTAGTATTTTATTTTTATTTA-
1 TTT-TTTA-T-TTTTATTTTT-TTTAT
**
15880135 TCATTTATTTTTATTTTTTTTAT
1 TTTTTTATTTTTATTTTTTTTAT
15880158 TTTTTTATTTTT
1 TTTTTTATTTTT
15880170 GTCATTCATT
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
22 7 0.15
23 24 0.50
24 1 0.02
25 4 0.08
26 9 0.19
27 3 0.06
ACGTcount: A:0.19, C:0.02, G:0.01, T:0.77
Consensus pattern (23 bp):
TTTTTTATTTTTATTTTTTTTAT
Found at i:15880197 original size:22 final size:21
Alignment explanation
Indices: 15880156--15880198 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
15880146 TATTTTTTTT
*
15880156 ATTTTTTTATTTTTGTCATTC
1 ATTTTTTTATTTTTGACATTC
15880177 ATTTTCTTTATTATTT-ACATTC
1 ATTTT-TTTATT-TTTGACATTC
15880199 TTGCATTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 11 0.58
23 3 0.16
ACGTcount: A:0.19, C:0.12, G:0.02, T:0.67
Consensus pattern (21 bp):
ATTTTTTTATTTTTGACATTC
Found at i:15880253 original size:24 final size:25
Alignment explanation
Indices: 15880208--15880268 Score: 88
Period size: 24 Copynumber: 2.4 Consensus size: 25
15880198 CTTGCATTCA
*
15880208 TTTTAATTTATTTATTATTTTTATGT
1 TTTTTATTT-TTTATTATTTTTATGT
15880234 TTTTTATTTTTT-TTATTTTTATGT
1 TTTTTATTTTTTATTATTTTTATGT
*
15880258 TATTTATTTTT
1 TTTTTATTTTT
15880269 GCCTTTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
24 22 0.67
25 3 0.09
26 8 0.24
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (25 bp):
TTTTTATTTTTTATTATTTTTATGT
Found at i:15880408 original size:19 final size:16
Alignment explanation
Indices: 15880356--15880409 Score: 60
Period size: 15 Copynumber: 3.4 Consensus size: 16
15880346 TAATTACATG
15880356 TTTA-TTGTG-TCTTA
1 TTTATTTGTGTTCTTA
15880370 TTTATTTGTGTT-TTA
1 TTTATTTGTGTTCTTA
15880385 TTTATTTGTTGTTGCTTA
1 TTTATTTG-TGTT-CTTA
15880403 TATTATT
1 T-TTATT
15880410 AATTAATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.12
15 16 0.47
16 5 0.15
18 4 0.12
19 5 0.15
ACGTcount: A:0.15, C:0.04, G:0.13, T:0.69
Consensus pattern (16 bp):
TTTATTTGTGTTCTTA
Found at i:15881061 original size:29 final size:29
Alignment explanation
Indices: 15881029--15881159 Score: 129
Period size: 29 Copynumber: 4.5 Consensus size: 29
15881019 CAATCATGCC
* *
15881029 ACAGATACAGTCATGTCATAGATATAGTT
1 ACAGATGCAGTCATGTCACAGATATAGTT
* * * * *
15881058 ACAGATACAATCATGTTACAAATACAGTT
1 ACAGATGCAGTCATGTCACAGATATAGTT
* * *
15881087 ACGGATGCAATCATGTCATAGATATAGTT
1 ACAGATGCAGTCATGTCACAGATATAGTT
* *
15881116 ACGGATGCAGACATGAT-ACAGATATAGTT
1 ACAGATGCAGTCATG-TCACAGATATAGTT
*
15881145 ACAGATGCAGACATG
1 ACAGATGCAGTCATG
15881160 ATACCCCATC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
29 85 0.99
30 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (29 bp):
ACAGATGCAGTCATGTCACAGATATAGTT
Found at i:15881077 original size:17 final size:17
Alignment explanation
Indices: 15881010--15881083 Score: 59
Period size: 17 Copynumber: 4.6 Consensus size: 17
15881000 ACAGATACAA
15881010 TTACAGATACAATCATG
1 TTACAGATACAATCATG
** *
15881027 CCACAGATACAGTCATG
1 TTACAGATACAATCATG
* *
15881044 TCATAGAT---AT-A-G
1 TTACAGATACAATCATG
15881056 TTACAGATACAATCATG
1 TTACAGATACAATCATG
*
15881073 TTACAAATACA
1 TTACAGATACA
15881084 GTTACGGATG
Statistics
Matches: 43, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
12 7 0.16
13 1 0.02
14 1 0.02
15 2 0.05
16 1 0.02
17 31 0.72
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (17 bp):
TTACAGATACAATCATG
Found at i:15881101 original size:58 final size:58
Alignment explanation
Indices: 15881029--15881153 Score: 162
Period size: 58 Copynumber: 2.2 Consensus size: 58
15881019 CAATCATGCC
* * *
15881029 ACAGATACAGTCATGTCATAGATATAGTTACAGATACA-ATCATGTTACAAATACAGTT
1 ACAGATGCAATCATGTCATAGATATAGTTACAGATACAGA-CATGATACAAATACAGTT
* * * * *
15881087 ACGGATGCAATCATGTCATAGATATAGTTACGGATGCAGACATGATACAGATATAGTT
1 ACAGATGCAATCATGTCATAGATATAGTTACAGATACAGACATGATACAAATACAGTT
15881145 ACAGATGCA
1 ACAGATGCA
15881154 GACATGATAC
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 56 0.98
59 1 0.02
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.27
Consensus pattern (58 bp):
ACAGATGCAATCATGTCATAGATATAGTTACAGATACAGACATGATACAAATACAGTT
Found at i:15881854 original size:53 final size:53
Alignment explanation
Indices: 15881764--15882153 Score: 254
Period size: 53 Copynumber: 7.2 Consensus size: 53
15881754 TTATAGCCCA
* * *
15881764 TGTGTCTCAAAACAATATGCACACACCTTGACACATGCCCATGTGTCAACCCG
1 TGTGCCTCCAAACAATATACACACACCTTGACACATGCCCATGTGTCAACCCG
*
15881817 TGTGCC-CCAGAACAATATACACACACCTTGACACATGCCCGTGTGTCAACCCG
1 TGTGCCTCCA-AACAATATACACACACCTTGACACATGCCCATGTGTCAACCCG
* * * * *
15881870 TGTGCCTCTAAACAATATACACACACATCCTGACACA--CACTTGTGTGCCAGCCCG
1 TGTGCCTCCAAACAATATACACACAC--CTTGACACATGCCCATGTGT--CAACCCG
* * * * ** * * *
15881925 TGTACCTCTAAACAGTATATACACA-C--GACAACACACCCCT-TGACACACGCCCA
1 TGTGCCTCCAAACAATATACACACACCTTGAC-ACATGCCCATGTGTCA-A--CCCG
* * * * * *
15881978 TGTGCCTCCAAACAGTATACACACACACCCTGGCACACGCCCATGTGCCAACCTG
1 TGTGCCTCCAAACA--ATATACACACACCTTGACACATGCCCATGTGTCAACCCG
* * * * *
15882033 TGTACCTCCAAACAATATACATACACACACCTTGACACACGCCCGTGTGCCAACCCA
1 TGTGCCTCCAAAC-A-AT--ATACACACACCTTGACACATGCCCATGTGTCAACCCG
* * * * * * *
15882090 AGTGCCTCTAAACAGTATACACACACATCCTGACACACGCCCGTGTGCCAACCCG
1 TGTGCCTCCAAACAATATACACACAC--CTTGACACATGCCCATGTGTCAACCCG
15882145 TGTGCCTCC
1 TGTGCCTCC
15882154 TGCAACTTAT
Statistics
Matches: 271, Mismatches: 43, Indels: 44
0.76 0.12 0.12
Matches are distributed among these distances:
50 5 0.02
51 3 0.01
52 5 0.02
53 103 0.38
54 2 0.01
55 94 0.35
56 3 0.01
57 50 0.18
58 6 0.02
ACGTcount: A:0.30, C:0.37, G:0.14, T:0.19
Consensus pattern (53 bp):
TGTGCCTCCAAACAATATACACACACCTTGACACATGCCCATGTGTCAACCCG
Found at i:15881925 original size:55 final size:54
Alignment explanation
Indices: 15881764--15882153 Score: 346
Period size: 55 Copynumber: 7.2 Consensus size: 54
15881754 TTATAGCCCA
* * * * * * *
15881764 TGTGTCTCAAAACAATATGCACACAC-CTTGACACATGCCCATGTGTCAACCCG
1 TGTGCCTCCAAACAATATACACACACACCTGACACACGCCCGTGTGCCAACCCG
* * *
15881817 TGTGCC-CCAGAACAATATACACACAC-CTTGACACATGCCCGTGTGTCAACCCG
1 TGTGCCTCCA-AACAATATACACACACACCTGACACACGCCCGTGTGCCAACCCG
* * ** *
15881870 TGTGCCTCTAAACAATATACACACACATCCTGACACACACTTGTGTGCCAGCCCG
1 TGTGCCTCCAAACAATATACACACACA-CCTGACACACGCCCGTGTGCCAACCCG
* * * * * * *
15881925 TGTACCTCTAAACAGTATATACACACGA-C-AACACAC-CCC-T-TGACACACGCCCA
1 TGTGCCTCCAAACAATATACACACAC-ACCTGACACACGCCCGTGTG-C-CA-ACCCG
* * * *
15881978 TGTGCCTCCAAACAGTATACACACACACCCTGGCACACGCCCATGTGCCAACCTG
1 TGTGCCTCCAAACAATATACACACACA-CCTGACACACGCCCGTGTGCCAACCCG
* *
15882033 TGTACCTCCAAACAATATACATACACACACCTTGACACACGCCCGTGTGCCAACCCA
1 TGTGCCTCCAAACAATATAC--ACACACACC-TGACACACGCCCGTGTGCCAACCCG
* * *
15882090 AGTGCCTCTAAACAGTATACACACACATCCTGACACACGCCCGTGTGCCAACCCG
1 TGTGCCTCCAAACAATATACACACACA-CCTGACACACGCCCGTGTGCCAACCCG
15882145 TGTGCCTCC
1 TGTGCCTCC
15882154 TGCAACTTAT
Statistics
Matches: 279, Mismatches: 40, Indels: 34
0.79 0.11 0.10
Matches are distributed among these distances:
50 2 0.01
51 2 0.01
52 6 0.02
53 101 0.36
54 4 0.01
55 106 0.38
56 10 0.04
57 46 0.16
58 2 0.01
ACGTcount: A:0.30, C:0.37, G:0.14, T:0.19
Consensus pattern (54 bp):
TGTGCCTCCAAACAATATACACACACACCTGACACACGCCCGTGTGCCAACCCG
Found at i:15886414 original size:31 final size:30
Alignment explanation
Indices: 15886379--15886445 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 30
15886369 AAAATTAAAT
15886379 TAATTATTTTTTATAGTATAATAACTAGAAC
1 TAATTATTTTTTATA-TATAATAACTAGAAC
* *
15886410 TAATTA---TTTATATTTAATAATTAGAAC
1 TAATTATTTTTTATATATAATAACTAGAAC
15886437 TAATTATTT
1 TAATTATTT
15886446 CATTCATTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
27 19 0.61
28 6 0.19
31 6 0.19
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (30 bp):
TAATTATTTTTTATATATAATAACTAGAAC
Found at i:15886429 original size:27 final size:28
Alignment explanation
Indices: 15886388--15886445 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 28
15886378 TTAATTATTT
15886388 TTTATAGTATAATAACTAGAACTAATTA
1 TTTATAGTATAATAACTAGAACTAATTA
* *
15886416 TTTATA-TTTAATAATTAGAACTAATTA
1 TTTATAGTATAATAACTAGAACTAATTA
15886443 TTT
1 TTT
15886446 CATTCATTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 22 0.79
28 6 0.21
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (28 bp):
TTTATAGTATAATAACTAGAACTAATTA
Found at i:15886561 original size:15 final size:17
Alignment explanation
Indices: 15886541--15886572 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15886531 TCATTTCATT
15886541 TATAT-AATG-ATAAAA
1 TATATAAATGCATAAAA
15886556 TATATAAATGCATAAAA
1 TATATAAATGCATAAAA
15886573 AAAATTTGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 4 0.27
17 6 0.40
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.31
Consensus pattern (17 bp):
TATATAAATGCATAAAA
Found at i:15886722 original size:17 final size:17
Alignment explanation
Indices: 15886700--15886737 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
15886690 ATTTAGATGA
*
15886700 AAAATATACTA-AAATAT
1 AAAATAAACTAGAAA-AT
15886717 AAAATAAACTAGAAAAT
1 AAAATAAACTAGAAAAT
15886734 AAAA
1 AAAA
15886738 ATGGAGTCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (17 bp):
AAAATAAACTAGAAAAT
Found at i:15886855 original size:2 final size:2
Alignment explanation
Indices: 15886848--15886895 Score: 52
Period size: 2 Copynumber: 26.5 Consensus size: 2
15886838 AAGATATTTA
*
15886848 AT AT AT AT AT AT AT AT AT A- AT AA AT AT AT AT A- AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15886887 -T AT A- AT AT A
1 AT AT AT AT AT A
15886896 ATGATAATGA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
1 5 0.13
2 34 0.87
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:15886855 original size:11 final size:11
Alignment explanation
Indices: 15886841--15886895 Score: 62
Period size: 11 Copynumber: 5.1 Consensus size: 11
15886831 TATAACTAAG
*
15886841 ATATTTAATAT
1 ATATATAATAT
15886852 ATATAT-ATAT
1 ATATATAATAT
15886862 ATATAATAA-AT
1 ATAT-ATAATAT
15886873 ATATATAATAT
1 ATATATAATAT
15886884 -TATTATAATAT
1 ATA-TATAATAT
15886895 A
1 A
15886896 ATGATAATGA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
10 14 0.37
11 23 0.61
12 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
ATATATAATAT
Found at i:15886902 original size:11 final size:10
Alignment explanation
Indices: 15886809--15886903 Score: 58
Period size: 11 Copynumber: 9.7 Consensus size: 10
15886799 TCAATATAAC
15886809 ATATAATATA
1 ATATAATATA
* *
15886819 ATATAAAAGAA
1 ATATAATA-TA
*
15886830 ATATAA-CTA
1 ATATAATATA
* *
15886839 AGAT-ATTTA
1 ATATAATATA
15886848 ATAT-ATAT-
1 ATATAATATA
15886856 ATATATATATA
1 ATATA-ATATA
15886867 ATA-AATAT-
1 ATATAATATA
15886875 ATATAATATTA
1 ATATAATA-TA
*
15886886 TTATAATATA
1 ATATAATATA
15886896 ATGATAAT
1 AT-ATAAT
15886904 GAATTTTTAT
Statistics
Matches: 66, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
8 8 0.12
9 20 0.30
10 16 0.24
11 22 0.33
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (10 bp):
ATATAATATA
Found at i:15888389 original size:67 final size:64
Alignment explanation
Indices: 15888283--15888461 Score: 231
Period size: 64 Copynumber: 2.8 Consensus size: 64
15888273 TGGTTTGTTA
15888283 TTTATTTATTTATTTATATTCATAAAATAATAAATAAAT-AAT-AAAACAAAATTAATATTATT
1 TTTATTTATTTATTTATATTCATAAAATAATAAATAAATAAATAAAAACAAAATTAATATTATT
*
15888345 TTATATTTATTTATTTATATTCATACAATAAATAATAAATAAATAAATAAAAATAAAATTAATAT
1 TT-TATTTATTTATTTATATTCAT---A-AAATAATAAATAAATAAATAAAAACAAAATTAATAT
15888410 TATT
61 TATT
* * *
15888414 TTTATTTATTTATATT-TA-TAAAAATAATAATAAATTAATAAATAAAAA
1 TTTATTTATTTAT-TTATATTCATAA-AATAATAAATAAATAAATAAAAA
15888462 TAATAAGAAA
Statistics
Matches: 104, Mismatches: 4, Indels: 16
0.84 0.03 0.13
Matches are distributed among these distances:
62 2 0.02
63 22 0.21
64 23 0.22
66 1 0.01
67 17 0.16
68 16 0.15
69 23 0.22
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (64 bp):
TTTATTTATTTATTTATATTCATAAAATAATAAATAAATAAATAAAAACAAAATTAATATTATT
Found at i:15888408 original size:15 final size:15
Alignment explanation
Indices: 15888371--15888401 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15888361 ATATTCATAC
15888371 AATAAATAATAAATA
1 AATAAATAATAAATA
15888386 AATAAATAA-AAATA
1 AATAAATAATAAATA
15888400 AA
1 AA
15888402 ATTAATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAAATAATAAATA
Found at i:15888718 original size:126 final size:127
Alignment explanation
Indices: 15888451--15888704 Score: 458
Period size: 126 Copynumber: 2.0 Consensus size: 127
15888441 TAATAAATTA
* *
15888451 ATAAATAAAAATAATAAGAAAAATAGAATGGGATTTCGAGGCCCGGACGAAATTAGACTTGTAAA
1 ATAAATAAAAATAATAAGAAAAATAAAATGGGATTTCGAGGCCCGGACGAAATTAAACTTGTAAA
15888516 CTAAGTATGGCATTAAAAATTAGAAATAATTCTAGTTTTTTAAATTTGAGTTTGTAATTCAT
66 CTAAGTATGGCATTAAAAATTAGAAATAATTCTAGTTTTTTAAATTTGAGTTTGTAATTCAT
* *
15888578 ATAAATAAAAATAATAA-AAAAATAAAATGGGGTTTCGAGGCCCGGACGAAATTAAACTTGTACA
1 ATAAATAAAAATAATAAGAAAAATAAAATGGGATTTCGAGGCCCGGACGAAATTAAACTTGTAAA
15888642 CTAAGTATGGCATTAAAAATTAGAAATAATTCTAGTTTTTT-AATTTGAGTTTGTAATTCAT
66 CTAAGTATGGCATTAAAAATTAGAAATAATTCTAGTTTTTTAAATTTGAGTTTGTAATTCAT
15888703 AT
1 AT
15888705 TAATTATGAA
Statistics
Matches: 123, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
125 22 0.18
126 84 0.68
127 17 0.14
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (127 bp):
ATAAATAAAAATAATAAGAAAAATAAAATGGGATTTCGAGGCCCGGACGAAATTAAACTTGTAAA
CTAAGTATGGCATTAAAAATTAGAAATAATTCTAGTTTTTTAAATTTGAGTTTGTAATTCAT
Found at i:15890704 original size:12 final size:12
Alignment explanation
Indices: 15890687--15890712 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15890677 CCAAACTAAT
15890687 TCGGTTAATTGA
1 TCGGTTAATTGA
15890699 TCGGTTAATTGA
1 TCGGTTAATTGA
15890711 TC
1 TC
15890713 TAATTCAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.42
Consensus pattern (12 bp):
TCGGTTAATTGA
Found at i:15892126 original size:15 final size:16
Alignment explanation
Indices: 15892100--15892129 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15892090 ATTTAGTAAA
15892100 TAAAAAATTAAAATAT
1 TAAAAAATTAAAATAT
15892116 TAAAAAA-TAAAATA
1 TAAAAAATTAAAATA
15892130 AATATTCGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
TAAAAAATTAAAATAT
Found at i:15894510 original size:18 final size:17
Alignment explanation
Indices: 15894461--15894514 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
15894451 TTATAAATAA
15894461 TTTTGAATTTA-ATAATT
1 TTTTGAATTTATAT-ATT
*
15894478 TTTTATAATTT-TATATT
1 TTTT-GAATTTATATATT
15894495 TTTTGAATTATATATATT
1 TTTTGAATT-TATATATT
15894513 TT
1 TT
15894515 AAAGTTTCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
16 4 0.13
17 12 0.39
18 15 0.48
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTTGAATTTATATATT
Found at i:15895517 original size:21 final size:21
Alignment explanation
Indices: 15895493--15895551 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
15895483 CCTTTTTCTA
*
15895493 AAGTTAAAAGTTAAAATCA-T
1 AAGTTAAAAGTTAAAACCACT
*
15895513 CAAGTTAAAAGTCAAAACCACT
1 -AAGTTAAAAGTTAAAACCACT
*
15895535 AAGTTAAAAGGTAAAAC
1 AAGTTAAAAGTTAAAAC
15895552 TACGTCGTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.54, C:0.12, G:0.12, T:0.22
Consensus pattern (21 bp):
AAGTTAAAAGTTAAAACCACT
Found at i:15898100 original size:29 final size:29
Alignment explanation
Indices: 15898037--15898158 Score: 154
Period size: 29 Copynumber: 4.2 Consensus size: 29
15898027 AATTTAAGGG
** * *
15898037 CAAAATGGTAATTTTGTAAAAGTTCAAGGT
1 CAAAATGGTAATTTT-TGGATGTTCGAGGT
15898067 CAAAATGGTAATTTTTGGATGTTCGAGGT
1 CAAAATGGTAATTTTTGGATGTTCGAGGT
* *
15898096 CAAAATGGTAATTTTTGGATGTTTGGGGT
1 CAAAATGGTAATTTTTGGATGTTCGAGGT
* * *
15898125 CAAAGTGGTAATTTTTGGATGTTTGAGGG
1 CAAAATGGTAATTTTTGGATGTTCGAGGT
15898154 CAAAA
1 CAAAA
15898159 ATACAATTTT
Statistics
Matches: 82, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
29 67 0.82
30 15 0.18
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (29 bp):
CAAAATGGTAATTTTTGGATGTTCGAGGT
Found at i:15899469 original size:21 final size:21
Alignment explanation
Indices: 15899403--15899469 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
15899393 ATTTCTAACA
*
15899403 ATAATAAATGAATCA-ATTAAT
1 ATAATAAATAAAT-ATATTAAT
* * *
15899424 AAAATATATTAATATATTAGA-
1 ATAATAAATAAATATATTA-AT
*
15899445 ATAATAAATAAATATATTATT
1 ATAATAAATAAATATATTAAT
15899466 ATAA
1 ATAA
15899470 ATTAGACACC
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.37
Consensus pattern (21 bp):
ATAATAAATAAATATATTAAT
Found at i:15900688 original size:99 final size:97
Alignment explanation
Indices: 15900585--15901233 Score: 438
Period size: 99 Copynumber: 6.6 Consensus size: 97
15900575 GCCTCGATCC
* ** * *
15900585 TTCCCTTCATCTCTTCATGGTACCGGGTTCACCGTTACGACCTCAA-CCTTTCCCATCACATCTT
1 TTCCCTTCATCT-TTCAAGGTACCGGACTCACCGTTGCGACCTCAATCC-TTCCCTTCACATCTT
* * ** *
15900649 CTTAGGTGTCGGGTTCGTCGTTACGGTCTTAACCT
64 CTT-GGTATCGGGTTCGCCGTTACGACCTCAACCT
* * *
15900684 TTCCCATTCCATCTTT-AAGGTACCGGACTCGCCGTTGCAACTTCAATCCTTCCCTTCACATCTT
1 TTCCC-TT-CATCTTTCAAGGTACCGGACTCACCGTTGCGACCTCAATCCTTCCCTTCACATCTT
* *
15900748 CTTAGGTACCGGGTTCGCCGTTACAACCTCAACCT
64 CTT-GGTATCGGGTTCGCCGTTACGACCTCAACCT
* * * *
15900783 TTCCCTTCGTATCTTTTAAGGTACCGGATTCACCGTCGCGACCTCAATCCTTCCTTTCATC-TCT
1 TTCCCTTC--ATCTTTCAAGGTACCGGACTCACCGTTGCGACCTCAATCCTTCCCTTCA-CATCT
* * * * *
15900847 TCATGGT-GCTAGGTTCGCCGTTACGGCCTCGACCT
63 TCTTGGTATC-GGGTTCGCCGTTACGACCTCAACCT
* * * * * ***
15900882 TTCTCATCA-CATCTTCTTAGGTACCGGGCTCACCGTTGCGGCCTCAA-CCTTTCCCTTTGTATC
1 TTCCCTTCATC-T-TTC-AAGGTACCGGACTCACCGTTGCGACCTCAATCC-TTCCCTTCACATC
*
15900945 TTCGTGGTATCGGGTTCGCCGTTACGACCTCAACCT
62 TTCTTGGTATCGGGTTCGCCGTTACGACCTCAACCT
* * * * * * **
15900981 TTCCCATAAT-ATCTTTTAAGGTACCGGATTCGCTGTCGCGTCCTCAATCCTTCCCTTCATTTCT
1 TTCCC-T--TCATCTTTCAAGGTACCGGACTCACCGTTGCGACCTCAATCCTTCCCTTCACATCT
* ** *
15901045 TCATGGTATTAGGTTCGCCGTTGC-AGCCTCAACCT
63 TCTTGGTATCGGGTTCGCCGTTACGA-CCTCAACCT
* * * * ** * * *
15901080 TTCCATCACATC-TTCTAAGGTACTGGATTCGTCGTCGCGGCCTCAATCCTTCCCTTAATC-TCT
1 TTCCCT-TCATCTTTC-AAGGTACCGGACTCACCGTTGCGACCTCAATCCTTCCCTTCA-CATCT
* * * * *
15901143 TCATGGTA-CTGGGTTCACCGTTGCGGCCTTAACCT
63 TCTTGGTATC-GGGTTCGCCGTTACGACCTCAACCT
* * * *
15901178 TTCCCTTCACATCTTTTAAGGTACCGAATTCGCCGTTGCGACCTCAATCCTTCCCT
1 TTCCCTT--CATCTTTCAAGGTACCGGACTCACCGTTGCGACCTCAATCCTTCCCT
15901234 GTCAAACCTG
Statistics
Matches: 438, Mismatches: 84, Indels: 56
0.76 0.15 0.10
Matches are distributed among these distances:
96 1 0.00
97 5 0.01
98 85 0.19
99 282 0.64
100 55 0.13
101 8 0.02
102 2 0.00
ACGTcount: A:0.16, C:0.33, G:0.17, T:0.34
Consensus pattern (97 bp):
TTCCCTTCATCTTTCAAGGTACCGGACTCACCGTTGCGACCTCAATCCTTCCCTTCACATCTTCT
TGGTATCGGGTTCGCCGTTACGACCTCAACCT
Found at i:15900871 original size:198 final size:197
Alignment explanation
Indices: 15900660--15901233 Score: 683
Period size: 198 Copynumber: 2.9 Consensus size: 197
15900650 TTAGGTGTCG
* * * *
15900660 GGTTCGTCGTTACGGTCTTAACCTTTCCCATTC-CATCTT-TAAGGTACCGGACTCGCCGTTGCA
1 GGTTCGCCGTTACGGCCTCAACCTTTCCCA-TCACATCTTCTAAGGTACCGGACTCGCCGTTGCG
* * *
15900723 ACTTCAATCCTTCCCTTCACATCTTCTTAGGTACCGGGTTCGCCGTTACAACCTCAACCTTTCCC
65 GCCTCAATCCTTCCCTT-A-ATCTTCTTAGGTACCGGGTTCGCCGTTACGACCTCAACCTTTCCC
* * *
15900788 TTCGTATCTTTTAAGGTACCGGATTCACCGTCGCGACCTCAATCCTTCCTTTCATCTCTTCATGG
128 TTCATATCTTTTAAGGTACCGGATTCGCCGTCGCGACCTCAATCCTTCCCTTCATCTCTTCATGG
*
15900853 TGCTA
193 TACTA
* * * * *
15900858 GGTTCGCCGTTACGGCCTCGACCTTTCTCATCACATCTTCTTAGGTACCGGGCTCACCGTTGCGG
1 GGTTCGCCGTTACGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGACTCGCCGTTGCGG
* * *
15900923 CCTCAA-CCTTTCCCTTTGTATCTTCGT-GGTATCGGGTTCGCCGTTACGACCTCAACCTTTCCC
66 CCTCAATCC-TTCCC-TT-AATCTTCTTAGGTACCGGGTTCGCCGTTACGACCTCAACCTTTCCC
* * * * *
15900986 ATAATATCTTTTAAGGTACCGGATTCGCTGTCGCGTCCTCAATCCTTCCCTTCATTTCTTCATGG
128 TTCATATCTTTTAAGGTACCGGATTCGCCGTCGCGACCTCAATCCTTCCCTTCATCTCTTCATGG
*
15901051 TATTA
193 TACTA
* * * * * *
15901056 GGTTCGCCGTTGCAGCCTCAACCTTT-CCATCACATCTTCTAAGGTACTGGATTCGTCGTCGCGG
1 GGTTCGCCGTTACGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGACTCGCCGTTGCGG
* * * * *
15901120 CCTCAATCCTTCCCTTAATC-TCTTCATGGTACTGGGTTCACCGTTGCGGCCTTAACCTTTCCCT
66 CCTCAATCCTTCCCTTAATCTTCTT-A-GGTACCGGGTTCGCCGTTACGACCTCAACCTTTCCCT
* * *
15901184 TCACATCTTTTAAGGTACCGAATTCGCCGTTGCGACCTCAATCCTTCCCT
129 TCATATCTTTTAAGGTACCGGATTCGCCGTCGCGACCTCAATCCTTCCCT
15901234 GTCAAACCTG
Statistics
Matches: 316, Mismatches: 52, Indels: 17
0.82 0.14 0.04
Matches are distributed among these distances:
194 3 0.01
195 3 0.01
196 2 0.01
197 117 0.37
198 152 0.48
199 37 0.12
200 2 0.01
ACGTcount: A:0.16, C:0.33, G:0.17, T:0.34
Consensus pattern (197 bp):
GGTTCGCCGTTACGGCCTCAACCTTTCCCATCACATCTTCTAAGGTACCGGACTCGCCGTTGCGG
CCTCAATCCTTCCCTTAATCTTCTTAGGTACCGGGTTCGCCGTTACGACCTCAACCTTTCCCTTC
ATATCTTTTAAGGTACCGGATTCGCCGTCGCGACCTCAATCCTTCCCTTCATCTCTTCATGGTAC
TA
Found at i:15901005 original size:248 final size:247
Alignment explanation
Indices: 15900470--15901013 Score: 622
Period size: 248 Copynumber: 2.2 Consensus size: 247
15900460 TAGGTTCACT
* * * * * ****
15900470 GTTACGGCCTCAACCTTCCTTTTATATCTTCTAAGGTACCGGGTTCACCGTTGTTGCCTCAACCT
1 GTTACGACCTCAACCTTCCCTTAATATCTTTTAAGGTACCGGGTTCGCCGTTACAACCTCAACCT
* * * *
15900535 TTCCCATCACATTTTTTAAGGTACTGGATTCACCGTCGCGGCCTCGATCCTTCCCTTCATCTCTT
66 TTCCCATCACATCTTTTAAGGTACCGGATTCACCGTCGCGACCTCAATCCTTCCCTTCATCTCTT
* ** *
15900600 CATGGTACCGGGTTCACCGTTACGACCTCAACCTTTCCCATCACATCTTCTTAGGTGTCGGGTTC
131 CATGGTACCAGGTTCACCGTTACGACCTCAACCTTTCCCATCACATCTTCTTAGGTACCGGGCTC
** * * *
15900665 GTCGTTACGGTCTTAACCTTTCCCATTCCATCTTTAAGGTACCGGACTCGCC
196 ACCGTTACGGCCTCAACCTTTCCCATTCCATCTTCAAGGTACCGGACTCGCC
* * * * *
15900717 GTTGCAACTTCAATCCTTCCCTTCACATCTTCTT-AGGTACCGGGTTCGCCGTTACAACCTCAAC
1 GTTACGACCTCAA-CCTTCCCTTAATATCTT-TTAAGGTACCGGGTTCGCCGTTACAACCTCAAC
* ** *
15900781 CTTTCCCTTCGTATCTTTTAAGGTACCGGATTCACCGTCGCGACCTCAATCCTTCCTTTCATCTC
64 CTTTCCCATCACATCTTTTAAGGTACCGGATTCACCGTCGCGACCTCAATCCTTCCCTTCATCTC
* * * * * *
15900846 TTCATGGTGCTAGGTTCGCCGTTACGGCCTCGACCTTTCTCATCACATCTTCTTAGGTACCGGGC
129 TTCATGGTACCAGGTTCACCGTTACGACCTCAACCTTTCCCATCACATCTTCTTAGGTACCGGGC
* * ** ** * **
15900911 TCACCGTTGCGGCCTCAACCTTTCCCTTTGTATCTTCGTGGTATCGGGTTCGCC
194 TCACCGTTACGGCCTCAACCTTTCCCATTCCATCTTCAAGGTACCGGACTCGCC
* *
15900965 GTTACGACCTCAACCTTTCCCATAATATCTTTTAAGGTACCGGATTCGC
1 GTTACGACCTCAACC-TTCCCTTAATATCTTTTAAGGTACCGGGTTCGC
15901014 TGTCGCGTCC
Statistics
Matches: 241, Mismatches: 52, Indels: 7
0.80 0.17 0.02
Matches are distributed among these distances:
247 13 0.05
248 227 0.94
249 1 0.00
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.34
Consensus pattern (247 bp):
GTTACGACCTCAACCTTCCCTTAATATCTTTTAAGGTACCGGGTTCGCCGTTACAACCTCAACCT
TTCCCATCACATCTTTTAAGGTACCGGATTCACCGTCGCGACCTCAATCCTTCCCTTCATCTCTT
CATGGTACCAGGTTCACCGTTACGACCTCAACCTTTCCCATCACATCTTCTTAGGTACCGGGCTC
ACCGTTACGGCCTCAACCTTTCCCATTCCATCTTCAAGGTACCGGACTCGCC
Found at i:15909856 original size:30 final size:29
Alignment explanation
Indices: 15909822--15910005 Score: 133
Period size: 29 Copynumber: 6.2 Consensus size: 29
15909812 AATTTGAGGG
*
15909822 AAAATGATAATTTTATAAAAGTTTAGGGTC
1 AAAATGATAATTTT-TAGAAGTTTAGGGTC
* * * *
15909852 AAAATGGTAATTTTTAGATGTTCGAGGG-A
1 AAAATGATAATTTTTAGAAGTT-TAGGGTC
* * ** *
15909881 AAAATGGTAATTTTTAGATGTTCGGGGGC
1 AAAATGATAATTTTTAGAAGTTTAGGGTC
* *
15909910 AAAAATG-TAATTTTGGAAAAGTTTAGGGTC
1 -AAAATGATAATTTT-TAGAAGTTTAGGGTC
*
15909940 AAAATGATAATTTTTGAGAAGTTTGGGGGT-
1 AAAATGATAATTTTT-AGAAGTTT-AGGGTC
* *
15909970 AAAAT-ATAATTTTTGTGAAGTTCGAGGGTC
1 AAAATGATAATTTTT-AGAAGTT-TAGGGTC
15910000 AAAATG
1 AAAATG
15910006 TAGTTTGAAA
Statistics
Matches: 124, Mismatches: 20, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
28 3 0.02
29 61 0.49
30 56 0.45
31 4 0.03
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.35
Consensus pattern (29 bp):
AAAATGATAATTTTTAGAAGTTTAGGGTC
Found at i:15909943 original size:29 final size:29
Alignment explanation
Indices: 15909745--15910007 Score: 107
Period size: 29 Copynumber: 9.0 Consensus size: 29
15909735 CGAAATTGAA
* *
15909745 AATTTTGGAAAA-TTTAGGATTAAAATCG-
1 AATTTTGGAAAAGTTTAGGGTCAAAAT-GT
*
15909773 AACTTTTGGAAAA-TTTAAGGTCGAAAATGT
1 AA-TTTTGGAAAAGTTTAGGGTC-AAAATGT
* *
15909803 GACTTTGG-AAA-TTTGAGGG--AAAATGAT
1 AATTTTGGAAAAGTTT-AGGGTCAAAATG-T
**
15909830 AATTTTATAAAAGTTTAGGGTCAAAATGGT
1 AATTTTGGAAAAGTTTAGGGTCAAAAT-GT
* * * * *
15909860 AATTTT-TAGATGTTCGAGGG-AAAAATGGT
1 AATTTTGGAAAAGTT-TAGGGTCAAAAT-GT
* * * ** *
15909889 AATTTT-TAGATGTTCGGGGGCAAAAATGT
1 AATTTTGGAAAAGTTTAGGGTC-AAAATGT
15909918 AATTTTGGAAAAGTTTAGGGTCAAAATGAT
1 AATTTTGGAAAAGTTTAGGGTCAAAATG-T
* * * *
15909948 AATTTTTGAGAAGTTTGGGGGT-AAAATAT
1 AATTTTGGAAAAGTTT-AGGGTCAAAATGT
* ** *
15909977 AATTTTTGTGAAGTTCGAGGGTCAAAATGT
1 AATTTTGGAAAAGTT-TAGGGTCAAAATGT
15910007 A
1 A
15910008 GTTTGAAATA
Statistics
Matches: 186, Mismatches: 31, Indels: 34
0.74 0.12 0.14
Matches are distributed among these distances:
26 6 0.03
27 5 0.03
28 18 0.10
29 89 0.48
30 63 0.34
31 5 0.03
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (29 bp):
AATTTTGGAAAAGTTTAGGGTCAAAATGT
Found at i:15909980 original size:88 final size:89
Alignment explanation
Indices: 15909822--15909983 Score: 229
Period size: 88 Copynumber: 1.8 Consensus size: 89
15909812 AATTTGAGGG
* * *
15909822 AAAATGATAATTTTATAAAAGTTTAGGGTCAAAATGGTAATTTTTAGATGTTCGAGGGAAAAATG
1 AAAATGATAATTTTAGAAAAGTTTAGGGTCAAAATGATAATTTTTAGAAGTTCGAGGGAAAAATG
*
15909887 GTAATTTTTAGATGTTCGGGGGCA
66 ATAATTTTTAGATGTTCGGGGGCA
* * * *
15909911 AAAATG-TAATTTTGGAAAAGTTTAGGGTCAAAATGATAATTTTTGAGAAGTTTGGGGGTAAAAT
1 AAAATGATAATTTTAGAAAAGTTTAGGGTCAAAATGATAATTTTT-AGAAGTTCGAGGGAAAAAT
15909975 -ATAATTTTT
65 GATAATTTTT
15909984 GTGAAGTTCG
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
88 43 0.67
89 21 0.33
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.36
Consensus pattern (89 bp):
AAAATGATAATTTTAGAAAAGTTTAGGGTCAAAATGATAATTTTTAGAAGTTCGAGGGAAAAATG
ATAATTTTTAGATGTTCGGGGGCA
Found at i:15912672 original size:11 final size:10
Alignment explanation
Indices: 15912644--15912681 Score: 53
Period size: 11 Copynumber: 3.9 Consensus size: 10
15912634 ATTCTCTAGT
15912644 GGTTTTTTT-
1 GGTTTTTTTA
15912653 -GTTTTTTTA
1 GGTTTTTTTA
15912662 GGTTTTGTTTA
1 GGTTTT-TTTA
15912673 GGTTTTTTT
1 GGTTTTTTT
15912682 CTAAGGGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.31
10 8 0.31
11 10 0.38
ACGTcount: A:0.05, C:0.00, G:0.21, T:0.74
Consensus pattern (10 bp):
GGTTTTTTTA
Found at i:15914803 original size:14 final size:14
Alignment explanation
Indices: 15914784--15914817 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
15914774 ATGGTTTTTA
15914784 ACCCAATCCTTATT
1 ACCCAATCCTTATT
15914798 ACCCAATCCTTATT
1 ACCCAATCCTTATT
15914812 ACCCAA
1 ACCCAA
15914818 CAAACTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.32, C:0.38, G:0.00, T:0.29
Consensus pattern (14 bp):
ACCCAATCCTTATT
Found at i:15915006 original size:21 final size:22
Alignment explanation
Indices: 15914982--15915032 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
15914972 TGAACCCGAC
15914982 TCATTGACT-GTTGACCATTGA
1 TCATTGACTAGTTGACCATTGA
*
15915003 TCATTGA-TAGTTGACCGTTGA
1 TCATTGACTAGTTGACCATTGA
*
15915024 TCGTTGACT
1 TCATTGACT
15915033 TTTTCGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 1 0.04
21 24 0.92
22 1 0.04
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.39
Consensus pattern (22 bp):
TCATTGACTAGTTGACCATTGA
Found at i:15922240 original size:20 final size:20
Alignment explanation
Indices: 15922215--15922252 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
15922205 CCTATTGATC
*
15922215 GTTGACCGTTGACTTTTTGG
1 GTTGACCGTTGAATTTTTGG
15922235 GTTGACCGTTGAATTTTT
1 GTTGACCGTTGAATTTTT
15922253 TCGAGAAACC
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:0.13, C:0.13, G:0.26, T:0.47
Consensus pattern (20 bp):
GTTGACCGTTGAATTTTTGG
Found at i:15929960 original size:9 final size:10
Alignment explanation
Indices: 15929936--15929960 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
15929926 GATTAATCGC
15929936 GAAAAATAAA
1 GAAAAATAAA
15929946 GAAAAATAAA
1 GAAAAATAAA
15929956 GAAAA
1 GAAAA
15929961 CACATAGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (10 bp):
GAAAAATAAA
Found at i:15936520 original size:119 final size:119
Alignment explanation
Indices: 15936276--15936511 Score: 321
Period size: 119 Copynumber: 2.0 Consensus size: 119
15936266 CAATGGAGAA
* * *
15936276 AAGTGAACCAAATCCTTCTTCTTGATAAGATACAGAGAAGAGGATTAAAACAATGAGGCAGTCAT
1 AAGTGAACCAAATCCATCTTCCTGATAAGATACAGAGAAGAGGATTAAAACAATGACGCAGTCAT
* * * * * *
15936341 CTTCCTGATGAGGTACTGAGAAGTAGACCAATTCAATGAAGCGAAGCTCAATAG
66 CTTCCTGATGAGATACCGAGAAATAGACCAAATCAATGAAGCAAAGATCAATAG
* * * *
15936395 AAGTGAACCAAATCCATCTTCCTGATGAGATACAGTGAAGTA-GATTAAAATAATGACGCGGTCA
1 AAGTGAACCAAATCCATCTTCCTGATAAGATACAGAGAAG-AGGATTAAAACAATGACGCAGTCA
**
15936459 TCTTTTTGATGAGATACCGAGAAATAGACCAAATCAATGAAGCAAAGATCAAT
65 TCTTCCTGATGAGATACCGAGAAATAGACCAAATCAATGAAGCAAAGATCAAT
15936512 TTGAGTGAAA
Statistics
Matches: 101, Mismatches: 15, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
119 100 0.99
120 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (119 bp):
AAGTGAACCAAATCCATCTTCCTGATAAGATACAGAGAAGAGGATTAAAACAATGACGCAGTCAT
CTTCCTGATGAGATACCGAGAAATAGACCAAATCAATGAAGCAAAGATCAATAG
Found at i:15936675 original size:185 final size:186
Alignment explanation
Indices: 15936437--15936801 Score: 597
Period size: 185 Copynumber: 2.0 Consensus size: 186
15936427 CAGTGAAGTA
* * **
15936437 GATTAAAATAATGACGCGGTCATCTTTTTGATGAGATACCGAGAAATAGACCAAATCAATGAAGC
1 GATTAAAACAATAACGCGGTCATCTTCCTGATGAGATACCGAGAAATAGACCAAATCAATGAAGC
* *
15936502 AAAGATCAATTTGAGTGAAACTTCAAACCC-CATCTTCTTAATGAGATATAGAGAAGTGGGTCAA
66 AAAGATCAATTTGAGTGAAACTTAAAACCCTCATCTTCTTAATGAGATACAGAGAAGTGGGTCAA
*
15936566 AGCAATAAAGCGGTTACCTTCTTGATGAGATACAGAGAAGTGAACCAAATTTCGTG
131 AGCAATAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAAATTTCGTG
* * *
15936622 GATTAAAACAATAAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAGC
1 GATTAAAACAATAACGCGGTCATCTTCCTGATGAGATACCGAGAAATAGACCAAATCAATGAAGC
* *
15936687 AAAGCTCAATTTGAGTGAAACTTAAAACCCTCATCTTCTTGATGAGATACAGAGAAGTGGGTCAA
66 AAAGATCAATTTGAGTGAAACTTAAAACCCTCATCTTCTTAATGAGATACAGAGAAGTGGGTCAA
* *
15936752 AGTAGTAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAAAT
131 AGCAATAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAAAT
15936802 CCGTCTTCCT
Statistics
Matches: 165, Mismatches: 14, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
185 86 0.52
186 79 0.48
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.24
Consensus pattern (186 bp):
GATTAAAACAATAACGCGGTCATCTTCCTGATGAGATACCGAGAAATAGACCAAATCAATGAAGC
AAAGATCAATTTGAGTGAAACTTAAAACCCTCATCTTCTTAATGAGATACAGAGAAGTGGGTCAA
AGCAATAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAAATTTCGTG
Found at i:15936980 original size:209 final size:208
Alignment explanation
Indices: 15936619--15937304 Score: 994
Period size: 209 Copynumber: 3.3 Consensus size: 208
15936609 ACCAAATTTC
*
15936619 GTGGATTAAAACAATAAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGA
1 GTGGATTAAAACAATGAGGCGGTCATCTTCCTGATGAGATA-TGAGAAGTAGACCAAATCAATGA
* * * * *
15936684 AGCAAAGCTCAATTTGAGTGAAACTTAAAACCCTCATCTTCTTGATGAGATACAGAGAAGTGGGT
65 AGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTAATGAGATACAGAGAAGTGGGT
* * *
15936749 CAAAGTAGTAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGA
130 CAAAGCAATAAAGAGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGA
*
15936814 TGAAATATAGAGAA
195 TGAAATACAGAGAA
*
15936828 ATGGATTAAAACAATGAGGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGA
1 GTGGATTAAAACAATGAGGCGGTCATCTTCCTGATGAGATA-TGAGAAGTAGACCAAATCAATGA
* *
15936893 AGTAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATATTCCTAATGAGATACAGAGAAGTGGGT
65 AGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTAATGAGATACAGAGAAGTGGGT
* *
15936958 CAAAGCAATAAAGTGGTTACCTTCCTGATGAGATATAGAGAAGTGAACCAAATCCGTCTTCCTGA
130 CAAAGCAATAAAGAGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGA
**
15937023 TGTGATACAGAGAA
195 TGAAATACAGAGAA
*
15937037 GTGGATTAAAACAATGAGGCGATCATCTTCC---T--G--ATGAGAAGTAGACCAAAT-AATGAA
1 GTGGATTAAAACAATGAGGCGGTCATCTTCCTGATGAGATATGAGAAGTAGACCAAATCAATGAA
*
15937094 GCAAAGCTCAATGTGTGAGTGAAACTTCAAACCCCCATCTTCCTAATGAGATACAGAGAAGTGAG
66 GCAAAGCTCAA--TGTGAGTGAAACTTCAAACCCCCATCTTCCTAATGAGATACAGAGAAGTGGG
* * * * * *
15937159 TCAAAGCAATAAGGAGGTCATCTTCCTGATGAGATACAGAGAAGGGAACCAAATCTGTCTTCTTG
129 TCAAAGCAATAAAGAGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTG
15937224 AT-AAGATACAGAGAA
194 ATGAA-ATACAGAGAA
* * * *
15937239 GTGGATCAAAACAATGAGGCAGTCATCTTCCTGATGAGATATAGAGACGTTGACCAAATCAATGA
1 GTGGATTAAAACAATGAGGCGGTCATCTTCCTGATGAGATAT-GAGAAGTAGACCAAATCAATGA
15937304 A
65 A
15937305 ACAGAGATCG
Statistics
Matches: 429, Mismatches: 36, Indels: 22
0.88 0.07 0.05
Matches are distributed among these distances:
200 16 0.04
201 17 0.04
202 148 0.34
204 1 0.00
205 1 0.00
206 1 0.00
207 1 0.00
209 224 0.52
210 14 0.03
211 6 0.01
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (208 bp):
GTGGATTAAAACAATGAGGCGGTCATCTTCCTGATGAGATATGAGAAGTAGACCAAATCAATGAA
GCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTAATGAGATACAGAGAAGTGGGTC
AAAGCAATAAAGAGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGAT
GAAATACAGAGAA
Found at i:15949026 original size:21 final size:22
Alignment explanation
Indices: 15949002--15949043 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
15948992 CATAATGTAC
15949002 ATGAATATAA-TA-TAAAATATG
1 ATGAATA-AATTATTAAAATATG
*
15949023 ATGATTAAATTATTAAAATAT
1 ATGAATAAATTATTAAAATAT
15949044 CAATTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
20 2 0.11
21 8 0.44
22 8 0.44
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (22 bp):
ATGAATAAATTATTAAAATATG
Found at i:15955064 original size:17 final size:18
Alignment explanation
Indices: 15955031--15955068 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
15955021 TTAAAAAATC
*
15955031 AATTAAATTATATATTTA
1 AATTAAATTATACATTTA
15955049 AATTAAA-TATACATTTA
1 AATTAAATTATACATTTA
15955066 AAT
1 AAT
15955069 ATTAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (18 bp):
AATTAAATTATACATTTA
Found at i:15955091 original size:25 final size:26
Alignment explanation
Indices: 15954993--15955092 Score: 79
Period size: 25 Copynumber: 4.0 Consensus size: 26
15954983 TGGTGGAACC
15954993 ATTTAAATAAATAAATAATAA--AATAT
1 ATTTAAAT-AATAAATAATAATTAA-AT
* * * *
15955019 ATTTAAAAAATCAATTA-AATTATAT
1 ATTTAAATAATAAATAATAATTAAAT
15955044 ATTTAAAT--TAAAT-ATACATTTAAAT
1 ATTTAAATAATAAATAATA-A-TTAAAT
15955069 A-TTAAATAATAAATAATAATTAAA
1 ATTTAAATAATAAATAATAATTAAA
15955093 AAAATAAAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 17
0.71 0.08 0.20
Matches are distributed among these distances:
22 1 0.02
23 5 0.08
24 9 0.15
25 27 0.46
26 14 0.24
27 3 0.05
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
ATTTAAATAATAAATAATAATTAAAT
Found at i:15955239 original size:95 final size:97
Alignment explanation
Indices: 15955115--15955374 Score: 298
Period size: 97 Copynumber: 2.7 Consensus size: 97
15955105 CAATTGGGTT
* * *
15955115 GCGCCATTTAAAATGGCTCCACCAAAAAAATAAATTTAAATTTTTAAAAAATAAAT-AATGAATA
1 GCGCCATTTAATATGACACCACC-AAAAAA-AAATTTAAATTTTTAAAAAATAAATAAAT-AATA
* * *
15955179 AAT-AAATAAG-TGACATTTTTTAGG-GAAGTGATG
63 AATAAAAAAAGCTGACATTTGTT-GGTGAAATGATG
* * *
15955212 GCGCTATTTAATATGACACTACCAAAAAAATATTTAAATTTTTAAAAAA-AAATAAATAATAAAT
1 GCGCCATTTAATATGACACCACCAAAAAAAAATTTAAATTTTTAAAAAATAAATAAATAATAAA-
*
15955276 TAAAAAAAGCTGACATTTGTTGGTGAAATGGTG
65 TAAAAAAAGCTGACATTTGTTGGTGAAATGATG
* **
15955309 GCGCCATTTAATATGGCACCACCAAAAAAAGAAATTTAAATTTAAAAAAAAT-AATAAATAATAA
1 GCGCCATTTAATATGACACCACC-AAAAAA-AAATTTAAATTTTTAAAAAATAAATAAATAATAA
15955373 AT
64 AT
15955375 CATTAAAAAA
Statistics
Matches: 139, Mismatches: 16, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
94 10 0.07
95 23 0.17
96 14 0.10
97 55 0.40
98 7 0.05
99 30 0.22
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.29
Consensus pattern (97 bp):
GCGCCATTTAATATGACACCACCAAAAAAAAATTTAAATTTTTAAAAAATAAATAAATAATAAAT
AAAAAAAGCTGACATTTGTTGGTGAAATGATG
Found at i:15964116 original size:17 final size:18
Alignment explanation
Indices: 15964097--15964155 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
15964087 AAACCAAAAG
* *
15964097 TTTACTGAAAC-AATACG
1 TTTACTGATACAAATACA
*
15964114 TTTATTGATACAAATACA
1 TTTACTGATACAAATACA
*
15964132 TTTATTGATACAAATACA
1 TTTACTGATACAAATACA
15964150 TTTACT
1 TTTACT
15964156 ACTTGTCGTG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
17 9 0.24
18 28 0.76
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.39
Consensus pattern (18 bp):
TTTACTGATACAAATACA
Found at i:15964135 original size:18 final size:18
Alignment explanation
Indices: 15964108--15964153 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
15964098 TTACTGAAAC
*
15964108 AATACGTTTATTGATACA
1 AATACATTTATTGATACA
15964126 AATACATTTATTGATACA
1 AATACATTTATTGATACA
15964144 AATACATTTA
1 AATACATTTA
15964154 CTACTTGTCG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (18 bp):
AATACATTTATTGATACA
Found at i:15970037 original size:16 final size:16
Alignment explanation
Indices: 15969996--15970038 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
15969986 TCACACCATC
15969996 TATATAATATTTTTGG
1 TATATAATATTTTTGG
* *
15970012 TATAT--CATTTTTGT
1 TATATAATATTTTTGG
15970026 TATATAATATTTT
1 TATATAATATTTT
15970039 GTGTAGTAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
14 12 0.55
16 10 0.45
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.60
Consensus pattern (16 bp):
TATATAATATTTTTGG
Done.