Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 21 of 195
Found at i:4825447 original size:4 final size:4
Alignment explanation
Indices: 4825438--4825467 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
4825428 TGCAGAACAA
4825438 AGCC AGCC AGCC AGCC AGCC AGCC AGCC AG
1 AGCC AGCC AGCC AGCC AGCC AGCC AGCC AG
4825468 AACCCAAAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.47, G:0.27, T:0.00
Consensus pattern (4 bp):
AGCC
Found at i:4826031 original size:2 final size:2
Alignment explanation
Indices: 4826024--4826063 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
4826014 AGCACCATCA
4826024 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4826064 AACAGAGCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:4841107 original size:4 final size:4
Alignment explanation
Indices: 4841098--4841128 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
4841088 ATGATCCTAT
*
4841098 CAGG CAGG CAGG CAGG CAGG CAGG CACG CAG
1 CAGG CAGG CAGG CAGG CAGG CAGG CAGG CAG
4841129 CAATTGCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.26, C:0.29, G:0.45, T:0.00
Consensus pattern (4 bp):
CAGG
Found at i:4841629 original size:9 final size:9
Alignment explanation
Indices: 4841616--4841666 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
4841606 AAAATTAAAA
4841616 AAATTAATT
1 AAATTAATT
*
4841625 CAATTAATT
1 AAATTAATT
*
4841634 AAATTAAAAT
1 AAATT-AATT
*
4841644 AATTTAATT
1 AAATTAATT
*
4841653 TAATTAATT
1 AAATTAATT
4841662 AAATT
1 AAATT
4841667 TTAAATAATT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
9 26 0.79
10 7 0.21
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (9 bp):
AAATTAATT
Found at i:4841650 original size:28 final size:28
Alignment explanation
Indices: 4841607--4841684 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
4841597 TTAATTTTTA
*
4841607 AAATTAAAA-AAATTAATTCAATTAATT
1 AAATTAAAATAATTTAATTCAATTAATT
*
4841634 AAATTAAAATAATTTAATTTAATTAATT
1 AAATTAAAATAATTTAATTCAATTAATT
*
4841662 AAATTTTAAATAATTTAATTCAA
1 AAA-TTAAAATAATTTAATTCAA
4841685 AATTATTTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 9 0.20
28 19 0.42
29 17 0.38
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (28 bp):
AAATTAAAATAATTTAATTCAATTAATT
Found at i:4841655 original size:15 final size:15
Alignment explanation
Indices: 4841632--4841693 Score: 63
Period size: 15 Copynumber: 4.2 Consensus size: 15
4841622 ATTCAATTAA
*
4841632 TTAAATTAAAATAAT
1 TTAATTTAAAATAAT
*
4841647 TTAATTT-AATTAAT
1 TTAATTTAAAATAAT
* *
4841661 TAAATTTTAAATAAT
1 TTAATTTAAAATAAT
* *
4841676 TTAATTCAAAATTAT
1 TTAATTTAAAATAAT
4841691 TTA
1 TTA
4841694 TAAGAAAAAC
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
14 12 0.32
15 26 0.68
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
TTAATTTAAAATAAT
Found at i:4842160 original size:12 final size:12
Alignment explanation
Indices: 4842143--4842184 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
4842133 AATAGAAGTG
4842143 AAATTAAATAAT
1 AAATTAAATAAT
4842155 AAATTAAATACAT
1 AAATTAAATA-AT
4842168 AAA--AAATAAT
1 AAATTAAATAAT
*
4842178 AATTTAA
1 AAATTAA
4842185 TGTGATTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 4 0.15
11 5 0.19
12 12 0.46
13 5 0.19
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (12 bp):
AAATTAAATAAT
Found at i:4842827 original size:11 final size:11
Alignment explanation
Indices: 4842811--4842848 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
4842801 GTAATATCTG
4842811 ACAAATCTCAA
1 ACAAATCTCAA
*
4842822 ACAAATCTCTA
1 ACAAATCTCAA
*
4842833 ACAAATCCCAA
1 ACAAATCTCAA
4842844 ACAAA
1 ACAAA
4842849 CTCTTATGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.16
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:4842836 original size:22 final size:21
Alignment explanation
Indices: 4842811--4842852 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
4842801 GTAATATCTG
*
4842811 ACAAATCTCAAACAAATCTCTA
1 ACAAATCCCAAACAAA-CTCTA
4842833 ACAAATCCCAAACAAACTCT
1 ACAAATCCCAAACAAACTCT
4842853 TATGGGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (21 bp):
ACAAATCCCAAACAAACTCTA
Found at i:4843104 original size:23 final size:25
Alignment explanation
Indices: 4843078--4843160 Score: 73
Period size: 25 Copynumber: 3.4 Consensus size: 25
4843068 TTCTTCCTAT
4843078 ATCTCAAACC-AT-GCACTTCTCAC
1 ATCTCAAACCTATAGCACTTCTCAC
* * *
4843101 ATCTTAAACCTTTAGCTCTTCTCAC
1 ATCTCAAACCTATAGCACTTCTCAC
* * *
4843126 ATCTCAAACTTTTAGCTCTTC-CAC
1 ATCTCAAACCTATAGCACTTCTCAC
* *
4843150 GTCTCGAACCT
1 ATCTCAAACCT
4843161 TCGGCTCTTG
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
23 9 0.18
24 12 0.24
25 29 0.58
ACGTcount: A:0.25, C:0.35, G:0.06, T:0.34
Consensus pattern (25 bp):
ATCTCAAACCTATAGCACTTCTCAC
Found at i:4843154 original size:24 final size:25
Alignment explanation
Indices: 4843093--4843178 Score: 102
Period size: 25 Copynumber: 3.5 Consensus size: 25
4843083 AAACCATGCA
*
4843093 CTTCTCACATCTTAAACCTTTAGCT
1 CTTCTCACATCTCAAACCTTTAGCT
*
4843118 CTTCTCACATCTCAAACTTTTAGCT
1 CTTCTCACATCTCAAACCTTTAGCT
* * **
4843143 CTTC-CACGTCTCGAACCTTCGGCT
1 CTTCTCACATCTCAAACCTTTAGCT
*
4843167 CTTGTCACATCT
1 CTTCTCACATCT
4843179 TGAATCTTTA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
24 18 0.35
25 33 0.65
ACGTcount: A:0.20, C:0.35, G:0.08, T:0.37
Consensus pattern (25 bp):
CTTCTCACATCTCAAACCTTTAGCT
Found at i:4843952 original size:11 final size:11
Alignment explanation
Indices: 4843936--4843976 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
4843926 ATAATATCTG
4843936 ATAAATCTTAA
1 ATAAATCTTAA
*
4843947 ATAAATCTTTA
1 ATAAATCTTAA
*
4843958 ATAAATTTTAA
1 ATAAATCTTAA
*
4843969 ACAAATCT
1 ATAAATCT
4843977 CTTATGAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (11 bp):
ATAAATCTTAA
Found at i:4848216 original size:4 final size:4
Alignment explanation
Indices: 4848207--4848231 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
4848197 TGAGGGCAAT
4848207 GAAA GAAA GAAA GAAA GAAA GAAA G
1 GAAA GAAA GAAA GAAA GAAA GAAA G
4848232 GTGAAAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:4852413 original size:26 final size:28
Alignment explanation
Indices: 4852369--4852420 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
4852359 GTTTTTAAAG
* *
4852369 AAATATCAAATCTATTAATAATAAAAAT
1 AAATATCAAATATATTAATAACAAAAAT
4852397 AAATAT-AAATATA-TAATAACAAAA
1 AAATATCAAATATATTAATAACAAAA
4852421 CTTATAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 10 0.45
27 6 0.27
28 6 0.27
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (28 bp):
AAATATCAAATATATTAATAACAAAAAT
Found at i:4852465 original size:22 final size:22
Alignment explanation
Indices: 4852400--4852465 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 22
4852390 TAAAAATAAA
*
4852400 TATAAATATATAATAACAA-AACT
1 TATAAATATAT-AT-ACAATAATT
* * *
4852423 TATAATTATA-AGTATATTAATT
1 TATAAATATATA-TACAATAATT
4852445 TATAAATATATATACAATAAT
1 TATAAATATATATACAATAAT
4852466 AACAATAACA
Statistics
Matches: 33, Mismatches: 7, Indels: 7
0.70 0.15 0.15
Matches are distributed among these distances:
21 3 0.09
22 20 0.61
23 10 0.30
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (22 bp):
TATAAATATATATACAATAATT
Found at i:4863139 original size:16 final size:17
Alignment explanation
Indices: 4863111--4863142 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4863101 GCAAAAGTGC
4863111 AAAACCCCACCCAAAAA
1 AAAACCCCACCCAAAAA
4863128 AAAACCCC-CCCAAAA
1 AAAACCCCACCCAAAA
4863143 TGAACTAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.56, C:0.44, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAACCCCACCCAAAAA
Found at i:4867682 original size:19 final size:20
Alignment explanation
Indices: 4867648--4867685 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
4867638 TTTTATTTAA
4867648 TTTAATAATTTATAATTTTT
1 TTTAATAATTTATAATTTTT
*
4867668 TTTAAT-ATTTGTAATTTT
1 TTTAATAATTTATAATTTT
4867686 ATAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (20 bp):
TTTAATAATTTATAATTTTT
Found at i:4869026 original size:17 final size:18
Alignment explanation
Indices: 4869001--4869034 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4868991 CTGTATAAAT
4869001 AATTGAA-TTAAAATTTG
1 AATTGAATTTAAAATTTG
*
4869018 AATTTAATTTAAAATTT
1 AATTGAATTTAAAATTT
4869035 TTTATTACGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (18 bp):
AATTGAATTTAAAATTTG
Found at i:4875789 original size:2 final size:2
Alignment explanation
Indices: 4875784--4875821 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
4875774 AAAACCAAGG
4875784 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4875822 GTATGTAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:4881789 original size:44 final size:44
Alignment explanation
Indices: 4881713--4881796 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 44
4881703 TAGACGTTGA
*
4881713 AATTCTAGAGGTGGCTCTCACCATATAGCACTTAACTCTCGCAT
1 AATTCTAGAGGTGGCTCTCACCATATAACACTTAACTCTCGCAT
* ** * *
4881757 AATTTTAGAGGTGGCTCTCATGATGTAACACTTAGCTCTC
1 AATTCTAGAGGTGGCTCTCACCATATAACACTTAACTCTC
4881797 ATCCAACGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (44 bp):
AATTCTAGAGGTGGCTCTCACCATATAACACTTAACTCTCGCAT
Found at i:4882385 original size:170 final size:169
Alignment explanation
Indices: 4882098--4882436 Score: 558
Period size: 170 Copynumber: 2.0 Consensus size: 169
4882088 TAGATCACAT
* *
4882098 CAAATGTTGGGATTCTACATGTGGCTTCCACCATATAGCATTTAACTCCTGCAAGATTCTAAAGG
1 CAAACGTTGGGATTCTACATGTGGCTCCCACCATATAGCATTTAACTCCTGCAAGATTCTAAAGG
4882163 TGATGCCTATGGTGTAATACTTAGCTCTCGTCCAACTGGTGACTGCAAGATTCTAAACACTTAGC
66 TGA-GCCTATGGTGTAATACTTAGCTCTCGTCCAACTGGTGACTGCAAGATTCTAAACACTTAGC
*
4882228 TCTCGTCCGATTGGTGACTATTTTGATA-CAATTTATGGAC
130 TCTCGTCCAATTGGTGACTATTTTGATATC-ATTTATGGAC
*
4882268 CAAACGTTGGGATTCTACATGTGGCTCCCACCGTATAGCATTTAACT-CTCGCAAGATTCTAAAG
1 CAAACGTTGGGATTCTACATGTGGCTCCCACCATATAGCATTTAACTCCT-GCAAGATTCTAAAG
4882332 GTG-GCACTTATGGTGTAATACTTAGCTCTCGTCCAACTGGTGACTGCAAGATTCTAAACACTTA
65 GTGAGC-C-TATGGTGTAATACTTAGCTCTCGTCCAACTGGTGACTGCAAGATTCTAAACACTTA
* *
4882396 GCTCTCGTCTAATTGGTGACTGTTTTGATATCATTTATGGA
128 GCTCTCGTCCAATTGGTGACTATTTTGATATCATTTATGGA
4882437 GACCCACACC
Statistics
Matches: 159, Mismatches: 6, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
168 2 0.01
169 3 0.02
170 153 0.96
171 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (169 bp):
CAAACGTTGGGATTCTACATGTGGCTCCCACCATATAGCATTTAACTCCTGCAAGATTCTAAAGG
TGAGCCTATGGTGTAATACTTAGCTCTCGTCCAACTGGTGACTGCAAGATTCTAAACACTTAGCT
CTCGTCCAATTGGTGACTATTTTGATATCATTTATGGAC
Found at i:4882814 original size:175 final size:172
Alignment explanation
Indices: 4882614--4882964 Score: 630
Period size: 175 Copynumber: 2.0 Consensus size: 172
4882604 ATACTTAGCT
4882614 CTCATCCAATTGGTGACTATTCTGATACCATTTATGAAGACTCACACCCAACTTGTGAAATATTG
1 CTCATCCAATTGGTGACTATTCTGATACCATTTATGAAGACTCACACCCAACTTGTGAAATATTG
4882679 TCAACGTATAGTACTTAACTCTCGCAAGATTTTAGAGGTAGCTCCTATGGTGTAGCACTTAGCTC
66 TCAACGTATAGTACTTAACTCTCGCAAGATTTTAGAGGTAGCTCCTATGGTGTAGCACTTAGCTC
*
4882744 TTGTTCGACTGGTGACCATTTTGATACTATTTATGGAGACCCGCA
131 TTGTT---CTGGTGACCACTTTGATACTATTTATGGAGACCCGCA
* *
4882789 CTCATCCAATTGGTGACTGTTCTGATACCATTTGTGAAGACTCACACCCAACTTGTGAAATATTG
1 CTCATCCAATTGGTGACTATTCTGATACCATTTATGAAGACTCACACCCAACTTGTGAAATATTG
* *
4882854 TCAACGTATAGTACTTAACTCTCGCAGGATTTTAGAGGTAGCTCCTATGGTGTAGCATTTAGCTC
66 TCAACGTATAGTACTTAACTCTCGCAAGATTTTAGAGGTAGCTCCTATGGTGTAGCACTTAGCTC
4882919 TTGTTCTGGTGACCACTTTGATACTATTTATGGAGACCCGCA
131 TTGTTCTGGTGACCACTTTGATACTATTTATGGAGACCCGCA
4882961 CTCA
1 CTCA
4882965 ACTTGCAAAA
Statistics
Matches: 171, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
172 40 0.23
175 131 0.77
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (172 bp):
CTCATCCAATTGGTGACTATTCTGATACCATTTATGAAGACTCACACCCAACTTGTGAAATATTG
TCAACGTATAGTACTTAACTCTCGCAAGATTTTAGAGGTAGCTCCTATGGTGTAGCACTTAGCTC
TTGTTCTGGTGACCACTTTGATACTATTTATGGAGACCCGCA
Found at i:4883270 original size:98 final size:98
Alignment explanation
Indices: 4883096--4883301 Score: 376
Period size: 98 Copynumber: 2.1 Consensus size: 98
4883086 AATGTGGGAT
* *
4883096 TATGATATTTCAAGAATGACCAAGATTGTTAATATTGCATTGAATAATATTTCGATTTTGTTTAA
1 TATGTTATTTCAAGAATGACCAAGATTGTTAATATCGCATTGAATAATATTTCGATTTTGTTTAA
4883161 AAAAATGGTATATATTAATACACATTGTTTTGA
66 AAAAATGGTATATATTAATACACATTGTTTTGA
*
4883194 TATGTTATTTCAAGAATGATCAAGATTGTTAATATCGCATTGAATAATATTTCGATTTTGTTTAA
1 TATGTTATTTCAAGAATGACCAAGATTGTTAATATCGCATTGAATAATATTTCGATTTTGTTTAA
*
4883259 AAAAATGGTATATATTAATACATATTGTTTTGA
66 AAAAATGGTATATATTAATACACATTGTTTTGA
4883292 TATGTTATTT
1 TATGTTATTT
4883302 TGGATTTTTT
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 104 1.00
ACGTcount: A:0.36, C:0.06, G:0.13, T:0.44
Consensus pattern (98 bp):
TATGTTATTTCAAGAATGACCAAGATTGTTAATATCGCATTGAATAATATTTCGATTTTGTTTAA
AAAAATGGTATATATTAATACACATTGTTTTGA
Found at i:4883381 original size:20 final size:20
Alignment explanation
Indices: 4883357--4883413 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 20
4883347 ATTTGTATCT
4883357 AATAATATTTAAAAT-AAATA
1 AATAA-ATTTAAAATCAAATA
*
4883377 TATAACATCTTCAAAAATCAAATA
1 AATAA-AT-TT--AAAATCAAATA
4883401 AATAAATTTAAAA
1 AATAAATTTAAAA
4883414 GTATAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
20 10 0.33
21 2 0.07
22 2 0.07
23 7 0.23
24 9 0.30
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (20 bp):
AATAAATTTAAAATCAAATA
Found at i:4883480 original size:28 final size:29
Alignment explanation
Indices: 4883424--4883483 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
4883414 GTATAAAAAT
*
4883424 AATATTATCAATTTATCATGATATTTTTA
1 AATATTATCAATTTATCATGATATATTTA
4883453 AATATT-T-AATTTGATCAT-ATAATATTTA
1 AATATTATCAATTT-ATCATGAT-ATATTTA
4883481 AAT
1 AAT
4883484 GAGTATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 7 0.25
28 15 0.54
29 6 0.21
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (29 bp):
AATATTATCAATTTATCATGATATATTTA
Found at i:4885130 original size:52 final size:53
Alignment explanation
Indices: 4884985--4885129 Score: 163
Period size: 52 Copynumber: 2.8 Consensus size: 53
4884975 ATAATCATAT
* * * * * *
4884985 AAACTTGCCCATTAAGAATCTCTCT-CTTCTTAGAATTTTTCTCCTGTAAATC
1 AAACTTACCTATTAATAATCTCTTTCCTTCTTAGAATTTTTTTCCTATAAATC
* *
4885037 AAACTTATCTATTAATAATCTCTTTCCTT-TTAGAATTTTTTTCCTATAAGTC
1 AAACTTACCTATTAATAATCTCTTTCCTTCTTAGAATTTTTTTCCTATAAATC
* **
4885089 AAACTTACCTATTAA-AAT-TTTTTTTTTCTTAGAATTTTTTT
1 AAACTTACCTATTAATAATCTCTTTCCTTCTTAGAATTTTTTT
4885130 TTTGCAAGTC
Statistics
Matches: 79, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
50 6 0.08
51 16 0.20
52 54 0.68
53 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.05, T:0.49
Consensus pattern (53 bp):
AAACTTACCTATTAATAATCTCTTTCCTTCTTAGAATTTTTTTCCTATAAATC
Found at i:4885192 original size:18 final size:16
Alignment explanation
Indices: 4885180--4885216 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
4885170 ATTAAGAATA
4885180 TTTTTTTTCTTAAAAT
1 TTTTTTTTCTTAAAAT
*
4885196 TTTTTTTT-GT-AAAT
1 TTTTTTTTCTTAAAAT
4885210 TTTTTTT
1 TTTTTTT
4885217 ATCCATCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 11 0.55
15 1 0.05
16 8 0.40
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTTTTTTCTTAAAAT
Found at i:4885215 original size:71 final size:71
Alignment explanation
Indices: 4885083--4885215 Score: 187
Period size: 71 Copynumber: 1.9 Consensus size: 71
4885073 TTTTTTCCTA
* * *
4885083 TAAGTCAAACTTACCTATTAAAATTTTTTTTTTCTTAGAATTTTTTTTTTGCAAGTCTTTTTGTC
1 TAAGTCAAACTTACCTATTAAAATATTTTTTTTCTTAGAAATTTTTTTTTGCAAATCTTTTTGTC
4885148 CATCTG
66 CATCTG
* * * *
4885154 TAAGTCAAATTTACTTATTAAGAATATTTTTTTTCTTA-AAATTTTTTTTTGTAAATTTTTTT
1 TAAGTCAAACTTACCTATTAA-AATATTTTTTTTCTTAGAAATTTTTTTTTGCAAATCTTTTT
4885216 TATCCATCAA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
71 39 0.72
72 15 0.28
ACGTcount: A:0.27, C:0.10, G:0.07, T:0.56
Consensus pattern (71 bp):
TAAGTCAAACTTACCTATTAAAATATTTTTTTTCTTAGAAATTTTTTTTTGCAAATCTTTTTGTC
CATCTG
Found at i:4885905 original size:21 final size:19
Alignment explanation
Indices: 4885866--4885924 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
4885856 AATTAAAATT
*
4885866 AATAAAATAT-TATTTTTAA
1 AATAAAATATATA-TATTAA
4885885 AATATAAATATATATAATT-A
1 AATA-AAATATATAT-ATTAA
*
4885905 AATAAATTATATATATTAA
1 AATAAAATATATATATTAA
4885924 A
1 A
4885925 TCAGATCTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
18 3 0.09
19 15 0.44
20 12 0.35
21 4 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AATAAAATATATATATTAA
Found at i:4885911 original size:18 final size:18
Alignment explanation
Indices: 4885888--4885925 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
4885878 TTTTTAAAAT
4885888 ATAAA-TATATATAATTAA
1 ATAAATTATATAT-ATTAA
4885906 ATAAATTATATATATTAA
1 ATAAATTATATATATTAA
4885924 AT
1 AT
4885926 CAGATCTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAAATTATATATATTAA
Found at i:4912562 original size:2 final size:2
Alignment explanation
Indices: 4912555--4912586 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4912545 TCTAAAGTGC
4912555 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4912587 CTTTCAAGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4923709 original size:26 final size:24
Alignment explanation
Indices: 4923670--4923718 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
4923660 GTATATTCTC
4923670 ATTTCTATTAGATTGATATTTTTGTG
1 ATTTCTATTAGATT--TATTTTTGTG
4923696 ATTTGCTATT-GATTTATTTTTGT
1 ATTT-CTATTAGATTTATTTTTGT
4923719 TTTATTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 9 0.41
26 8 0.36
27 5 0.23
ACGTcount: A:0.20, C:0.04, G:0.14, T:0.61
Consensus pattern (24 bp):
ATTTCTATTAGATTTATTTTTGTG
Found at i:4923773 original size:6 final size:6
Alignment explanation
Indices: 4923762--4923821 Score: 50
Period size: 6 Copynumber: 9.5 Consensus size: 6
4923752 TTTTTTAAAT
* * *
4923762 AAATAA AAATAA AAATAA AAACAA GAA-CA AAATAA AAATGAA TAAATATA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAAT-AA -AAATA-A
4923812 AAATATA AAA
1 AAATA-A AAA
4923822 AATTATCATA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
5 3 0.07
6 24 0.53
7 13 0.29
8 5 0.11
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:4925382 original size:14 final size:15
Alignment explanation
Indices: 4925356--4925386 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
4925346 AATAAAGCAA
4925356 AAAATTATAAATATT
1 AAAATTATAAATATT
4925371 AAAATT-TAAATATT
1 AAAATTATAAATATT
4925385 AA
1 AA
4925387 TTTTATTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAATTATAAATATT
Found at i:4932478 original size:3 final size:3
Alignment explanation
Indices: 4932465--4932495 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
4932455 TTTCTCTTTC
4932465 CTT CTTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT
4932496 TGTGTGCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
CTT
Found at i:4934974 original size:2 final size:2
Alignment explanation
Indices: 4934967--4935018 Score: 50
Period size: 2 Copynumber: 26.0 Consensus size: 2
4934957 CTATGTGGAA
* * * * * *
4934967 AT AT AT AT AT AT AT AT AT AT AA AT AT AA AT AT AC AC AC AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4935009 AT AT AT AT AT
1 AT AT AT AT AT
4935019 GTCTGACATA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (2 bp):
AT
Found at i:4938822 original size:174 final size:174
Alignment explanation
Indices: 4938532--4938880 Score: 680
Period size: 174 Copynumber: 2.0 Consensus size: 174
4938522 GAAACTAATC
4938532 CATTTCTTTTTAACATAATTGCTAAAAACAACAAACAAATTGGGTTTTCCCTTTTCTGTTATGGT
1 CATTTCTTTTTAACATAATTGCTAAAAACAACAAACAAATTGGGTTTTCCCTTTTCTGTTATGGT
4938597 TTTTTTATTTGATAAATTTAATGCATAACAGCAAGCAAAGCTCAAGCAAACCAGGCAGTCAACAG
66 TTTTTTATTTGATAAATTTAATGCATAACAGCAAGCAAAGCTCAAGCAAACCAGGCAGTCAACAG
*
4938662 CTCAGCATAAACCAATGGTCAAAACACAAACACGCACAAAAGGG
131 CTCAACATAAACCAATGGTCAAAACACAAACACGCACAAAAGGG
*
4938706 CATTTCTTTTTAACATAATTGCTAAAAACAACAAACAAATTGGGTTTTTCCTTTTCTGTTATGGT
1 CATTTCTTTTTAACATAATTGCTAAAAACAACAAACAAATTGGGTTTTCCCTTTTCTGTTATGGT
4938771 TTTTTTATTTGATAAATTTAATGCATAACAGCAAGCAAAGCTCAAGCAAACCAGGCAGTCAACAG
66 TTTTTTATTTGATAAATTTAATGCATAACAGCAAGCAAAGCTCAAGCAAACCAGGCAGTCAACAG
4938836 CTCAACATAAACCAATGGTCAAAACACAAACACGCACAAAAGGG
131 CTCAACATAAACCAATGGTCAAAACACAAACACGCACAAAAGGG
4938880 C
1 C
4938881 GAGAAAAACC
Statistics
Matches: 173, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
174 173 1.00
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (174 bp):
CATTTCTTTTTAACATAATTGCTAAAAACAACAAACAAATTGGGTTTTCCCTTTTCTGTTATGGT
TTTTTTATTTGATAAATTTAATGCATAACAGCAAGCAAAGCTCAAGCAAACCAGGCAGTCAACAG
CTCAACATAAACCAATGGTCAAAACACAAACACGCACAAAAGGG
Found at i:4949893 original size:58 final size:58
Alignment explanation
Indices: 4949769--4950103 Score: 395
Period size: 59 Copynumber: 5.6 Consensus size: 58
4949759 TGTGCAGGGC
* ** *
4949769 AAAATTGATACATTCAACTTTTCCCCAAAAAT-TGATTTTTTGAAGTTTTTATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATAT--TTTTTTGAA-AATTTATTTTTAAGA
*
4949829 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTAAGA
*
4949887 AAAATTGATACTTTCAACTTTTCCCCAAAAATAATTTTTTTGGAAATTTATTTTTTAA-A
1 AAAATTGATACTTTCAACTTTTCCCCAAAAAT-ATTTTTTTGAAAATTTA-TTTTTAAGA
* * * * *
4949946 AAAATTGATAATCTCAACTTTTCCCTAAAAATATTTTTTTTTTTAGAAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA----TTTTTTT-GAAAA-TTT-ATTTTTAAGA
* * ** *
4950011 AAAATTGATACTTTCAACTTTTTCTCAAAAACCCTTTTTTTGAAATTTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTTGAAAATTTATTTTTAAGA
4950070 AAAATTGATACTTTCAACTTTTCCCCAAAAATAT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATAT
4950104 ATATTTTTTA
Statistics
Matches: 236, Mismatches: 27, Indels: 26
0.82 0.09 0.09
Matches are distributed among these distances:
58 45 0.19
59 92 0.39
60 40 0.17
61 5 0.02
62 14 0.06
63 4 0.02
64 9 0.04
65 27 0.11
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.44
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTAAGA
Found at i:4950049 original size:124 final size:117
Alignment explanation
Indices: 4949769--4950112 Score: 408
Period size: 124 Copynumber: 2.8 Consensus size: 117
4949759 TGTGCAGGGC
* * *
4949769 AAAATTGATACATTCAACTTTTCCCCAAAAATTGA-TTTTTTGAAGTTTTTATTTTCAAGAAAAA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA-TAATTTTTTTGAAATTTTT-TTTT-AAGAAAAA
*
4949833 TTGATACTTTCAACTTTTTCCCAAAAATA--TTTTTTTGAAAATTTATTTTTAAGA
63 TTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTTTTGAAAATTTATTTTCAAGA
4949887 AAAATTGATACTTTCAACTTTTCCCCAAAAATAATTTTTTTGGAAATTTATTTTTTAA-AAAAAT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATAATTTTTTT-GAAATTT-TTTTTTAAGAAAAAT
* * *
4949951 TGATAATCTCAACTTTTCCCTAAAAATATTTTTTTTTTTAGAAAACTTTGATTTTCAAGG
64 TGATACTTTCAACTTTTCCC-AAAAATA--TTTTTTTTT-GAAAA-TTT-ATTTTCAAGA
* * ***
4950011 AAAATTGATACTTTCAACTTTTTCTCAAAAACCCTTTTTTTGAAATTTTATTTTTAAGAAAAATT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATAATTTTTTTGAAATTTT-TTTTTAAGAAAAATT
*
4950076 GATACTTTCAACTTTTCCCCAAAAATATATATTTTTT
65 GATACTTTCAACTTTT-CCCAAAAATAT-TTTTTTTT
4950113 ATTTTTATTT
Statistics
Matches: 196, Mismatches: 15, Indels: 25
0.83 0.06 0.11
Matches are distributed among these distances:
116 7 0.04
117 26 0.13
118 38 0.19
119 10 0.05
120 2 0.01
121 7 0.04
122 7 0.04
123 24 0.12
124 72 0.37
125 3 0.02
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (117 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATAATTTTTTTGAAATTTTTTTTTAAGAAAAATTG
ATACTTTCAACTTTTCCCAAAAATATTTTTTTTTGAAAATTTATTTTCAAGA
Found at i:4950188 original size:17 final size:17
Alignment explanation
Indices: 4950137--4950206 Score: 63
Period size: 17 Copynumber: 4.1 Consensus size: 17
4950127 AAAATTGAAT
*
4950137 AATAAAACAAAATTAAA
1 AATAAAACAAAAATAAA
*
4950154 AA-AATAA-AATAAAGAAA
1 AATAA-AACAA-AAATAAA
*
4950171 AGTAAAACAAAAATAAA
1 AATAAAACAAAAATAAA
* *
4950188 AATAAAATAAAGATAAA
1 AATAAAACAAAAATAAA
4950205 AA
1 AA
4950207 GAATATTAAC
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
16 4 0.10
17 34 0.81
18 4 0.10
ACGTcount: A:0.79, C:0.03, G:0.04, T:0.14
Consensus pattern (17 bp):
AATAAAACAAAAATAAA
Found at i:4950249 original size:12 final size:12
Alignment explanation
Indices: 4950228--4950272 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
4950218 AAACCTAATC
4950228 TAAT-AAATAAA
1 TAATAAAATAAA
4950239 TAATAAAATAAA
1 TAATAAAATAAA
4950251 TAATAAAAT-AA
1 TAATAAAATAAA
4950262 -AATAAAATAAA
1 TAATAAAATAAA
4950273 AATTAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
10 8 0.25
11 8 0.25
12 16 0.50
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
TAATAAAATAAA
Found at i:4950279 original size:12 final size:11
Alignment explanation
Indices: 4950153--4950284 Score: 67
Period size: 11 Copynumber: 11.4 Consensus size: 11
4950143 ACAAAATTAA
4950153 AAAAATAAAAT
1 AAAAATAAAAT
* *
4950164 AAAGA-AAAGT
1 AAAAATAAAAT
4950174 AAAACA-AAAAT
1 AAAA-ATAAAAT
4950185 AAAAATAAAAT
1 AAAAATAAAAT
*
4950196 AAAGATAAAA-
1 AAAAATAAAAT
* * *
4950206 AGAATATTAACT
1 A-AAAATAAAAT
4950218 AAACCTAATCTAATAAAT
1 AAA---AA--T-A-AAAT
4950236 AAATAATAAAAT
1 AAA-AATAAAAT
4950248 AAATAATAAAAT
1 AAA-AATAAAAT
4950260 -AAAATAAAAT
1 AAAAATAAAAT
4950270 AAAAATTAAAA-
1 AAAAA-TAAAAT
4950281 AAAA
1 AAAA
4950285 CCTGAAGCGG
Statistics
Matches: 97, Mismatches: 11, Indels: 26
0.72 0.08 0.19
Matches are distributed among these distances:
10 17 0.18
11 45 0.46
12 22 0.23
13 1 0.01
14 2 0.02
16 4 0.04
18 6 0.06
ACGTcount: A:0.73, C:0.04, G:0.03, T:0.20
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:4950280 original size:6 final size:5
Alignment explanation
Indices: 4950137--4950273 Score: 57
Period size: 5 Copynumber: 25.4 Consensus size: 5
4950127 AAAATTGAAT
* * * *
4950137 AATAA AACAA AATTA AA-AA AATAA AATAA AGA-AA AGTAA AACAAA AATAAA
1 AATAA AATAA AATAA AATAA AATAA AATAA A-ATAA AATAA AA-TAA AAT-AA
* * *
4950188 AATAA AATAA AGATAA AA-AGA ATATTA ACTAA ACCTAA TCTAAT-A AATAAA
1 AATAA AATAA A-ATAA AATA-A A-ATAA AATAA A-ATAA ---AATAA AAT-AA
4950239 TAATAA AATAAA TAATAA AATAA AATAA AATAA AA
1 -AATAA AAT-AA -AATAA AATAA AATAA AATAA AA
4950274 ATTAAAAAAA
Statistics
Matches: 102, Mismatches: 12, Indels: 36
0.68 0.08 0.24
Matches are distributed among these distances:
4 7 0.07
5 57 0.56
6 29 0.28
7 7 0.07
8 1 0.01
9 1 0.01
ACGTcount: A:0.73, C:0.04, G:0.03, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:4950561 original size:11 final size:11
Alignment explanation
Indices: 4950545--4950587 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
4950535 AGAAAGCTCA
4950545 TTTCTTCTCTC
1 TTTCTTCTCTC
4950556 TTTCTTCT-TC
1 TTTCTTCTCTC
*
4950566 -TCCTTCTCTC
1 TTTCTTCTCTC
*
4950576 TTGCTTCTCTC
1 TTTCTTCTCTC
4950587 T
1 T
4950588 AAACTGCTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 6 0.21
10 4 0.14
11 18 0.64
ACGTcount: A:0.00, C:0.37, G:0.02, T:0.60
Consensus pattern (11 bp):
TTTCTTCTCTC
Found at i:4951180 original size:19 final size:20
Alignment explanation
Indices: 4951134--4951185 Score: 52
Period size: 22 Copynumber: 2.5 Consensus size: 20
4951124 TAATTAGAAA
*
4951134 AGATAAATCAAAAAAATATTAT
1 AGATAAAT-AAAAAAATA-TAC
4951156 AGGATAAATAAAAAAATA-AC
1 A-GATAAATAAAAAAATATAC
*
4951176 AGATATATAA
1 AGATAAATAA
4951186 TTAGATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 8 0.30
20 2 0.07
22 10 0.37
23 7 0.26
ACGTcount: A:0.65, C:0.04, G:0.08, T:0.23
Consensus pattern (20 bp):
AGATAAATAAAAAAATATAC
Found at i:4951203 original size:8 final size:8
Alignment explanation
Indices: 4951192--4951227 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
4951182 ATAATTAGAT
*
4951192 AAAAATAC
1 AAAAATAA
4951200 AAAAATAA
1 AAAAATAA
4951208 ATAAAATAA
1 A-AAAATAA
4951217 AAAAATAA
1 AAAAATAA
4951225 AAA
1 AAA
4951228 TAAAAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 18 0.69
9 8 0.31
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (8 bp):
AAAAATAA
Found at i:4951211 original size:4 final size:4
Alignment explanation
Indices: 4951202--4951279 Score: 63
Period size: 4 Copynumber: 19.2 Consensus size: 4
4951192 AAAAATACAA
* * * *
4951202 AAAT AAAT AAAAT AAAA AAAT AAA- AATAA AAAT AAAT ATAT ATAT AAAT
1 AAAT AAAT -AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT
4951251 AAAT AGTAAT -AAT AAAT AAAT -AAT AAAT A
1 AAAT A--AAT AAAT AAAT AAAT AAAT AAAT A
4951280 CATAGGATAT
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
3 8 0.13
4 45 0.73
5 6 0.10
6 3 0.05
ACGTcount: A:0.73, C:0.00, G:0.01, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:4951215 original size:17 final size:17
Alignment explanation
Indices: 4951193--4951351 Score: 62
Period size: 17 Copynumber: 8.9 Consensus size: 17
4951183 TAATTAGATA
*
4951193 AAAATACAAAAATAAAT
1 AAAATAAAAAAATAAAT
4951210 AAAATAAAAAAATAAAAAT
1 AAAATAAAAAAAT--AAAT
4951229 AAAAATAAATATATATATAAAT
1 -AAAATAAA-A-A-A-ATAAAT
* *
4951251 -AAATAGTAATAATAAAT
1 AAAATA-AAAAAATAAAT
* *
4951268 -AAAT-AATAAATACAT
1 AAAATAAAAAAATAAAT
* *
4951283 AGGATATAAAGGAAAATATAT
1 A--AAATAAA--AAAATAAAT
* *
4951304 -ACAT-AAAATATAGAAT
1 AAAATAAAAAAATA-AAT
4951320 AAAATAAAAAAAT-AA-
1 AAAATAAAAAAATAAAT
4951335 AAAATAACAAAAATAAA
1 AAAATAA-AAAAATAAA
4951352 ATTGGACTTA
Statistics
Matches: 108, Mismatches: 15, Indels: 38
0.67 0.09 0.24
Matches are distributed among these distances:
15 19 0.18
16 10 0.09
17 29 0.27
18 13 0.12
19 6 0.06
20 14 0.13
21 9 0.08
22 5 0.05
23 1 0.01
24 2 0.02
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.22
Consensus pattern (17 bp):
AAAATAAAAAAATAAAT
Found at i:4951226 original size:6 final size:6
Alignment explanation
Indices: 4951190--4951237 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
4951180 ATATAATTAG
* *
4951190 ATAAAA ATACAAA A-ATAA ATAAAA TAAAAAA ATAAAA ATAAAA ATAAA
1 ATAAAA ATA-AAA ATAAAA ATAAAA -ATAAAA ATAAAA ATAAAA ATAAA
4951238 TATATATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 3 0.09
6 23 0.66
7 9 0.26
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (6 bp):
ATAAAA
Found at i:4951226 original size:23 final size:23
Alignment explanation
Indices: 4951161--4951231 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 23
4951151 ATTATAGGAT
*
4951161 AAATAAAAAAATAACAGATATATAATT
1 AAATAAAAAAATAA-A-A-ATA-AATA
* * *
4951188 AGATAAAAATACAAAAATAAATA
1 AAATAAAAAAATAAAAATAAATA
4951211 AAATAAAAAAATAAAAATAAA
1 AAATAAAAAAATAAAAATAAA
4951232 AATAAATATA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
23 21 0.57
24 3 0.08
25 1 0.03
26 1 0.03
27 11 0.30
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (23 bp):
AAATAAAAAAATAAAAATAAATA
Found at i:4951291 original size:29 final size:29
Alignment explanation
Indices: 4951232--4951291 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
4951222 TAAAAATAAA
* *
4951232 AATAAATATATATATAAATAAATAGTAAT
1 AATAAATAAATATATAAATAAATAGGAAT
*
4951261 AATAAATAAATA-ATAAATACATAGGATAT
1 AATAAATAAATATATAAATAAATAGGA-AT
4951290 AA
1 AA
4951292 AGGAAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 12 0.44
29 15 0.56
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (29 bp):
AATAAATAAATATATAAATAAATAGGAAT
Found at i:4951340 original size:15 final size:16
Alignment explanation
Indices: 4951320--4951352 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
4951310 AATATAGAAT
4951320 AAAATAA-AAAAATAA
1 AAAATAACAAAAATAA
4951335 AAAATAACAAAAATAA
1 AAAATAACAAAAATAA
4951351 AA
1 AA
4951353 TTGGACTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (16 bp):
AAAATAACAAAAATAA
Found at i:4951346 original size:9 final size:8
Alignment explanation
Indices: 4951320--4951352 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
4951310 AATATAGAAT
4951320 AAAATAAA
1 AAAATAAA
4951328 AAAAT-AA
1 AAAATAAA
4951335 AAAATAACA
1 AAAATAA-A
4951344 AAAATAAA
1 AAAATAAA
4951352 A
1 A
4951353 TTGGACTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.30
8 8 0.35
9 8 0.35
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAATAAA
Found at i:4958864 original size:27 final size:26
Alignment explanation
Indices: 4958829--4958879 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
4958819 TTTAATTAAT
4958829 TACTCAATTGTA-AAAATATATTTATTA
1 TACTCAATTG-ACAAAAT-TATTTATTA
*
4958856 TACTGAATTGACAAAATTATTTAT
1 TACTCAATTGACAAAATTATTTAT
4958880 AATTTTTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (26 bp):
TACTCAATTGACAAAATTATTTATTA
Found at i:4960448 original size:22 final size:22
Alignment explanation
Indices: 4960389--4960448 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
4960379 ATTGAAATTT
4960389 ATAAATTTAAATTAAATACAAAA
1 ATAAATTT-AATTAAATACAAAA
* * * * *
4960412 ATTAATTAAAATAAATATAATA
1 ATAAATTTAATTAAATACAAAA
4960434 ATAAATTTAATTAAA
1 ATAAATTTAATTAAA
4960449 AATTATTTAT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 23 0.79
23 6 0.21
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
ATAAATTTAATTAAATACAAAA
Found at i:4960908 original size:2 final size:2
Alignment explanation
Indices: 4960901--4960930 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4960891 GGAAAAAGTT
4960901 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4960931 AAGATATGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4968713 original size:11 final size:12
Alignment explanation
Indices: 4968691--4968726 Score: 56
Period size: 11 Copynumber: 3.0 Consensus size: 12
4968681 TTTTATTAGT
4968691 TTAAATATTTTA
1 TTAAATATTTTA
4968703 TTAAA-ATTTTA
1 TTAAATATTTTA
4968714 TTAAATTATTTTA
1 TTAAA-TATTTTA
4968727 AAAAGTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.50
12 5 0.23
13 6 0.27
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TTAAATATTTTA
Found at i:4975895 original size:95 final size:95
Alignment explanation
Indices: 4975726--4975916 Score: 235
Period size: 95 Copynumber: 2.0 Consensus size: 95
4975716 TCGTAACAAG
* * * * *
4975726 TAGCAAAGAAGGCAGTGGTGGTTGTGACTCATATCGACGAAGCGATGGCGACTAAAGAGTAAGGT
1 TAGCAAAAAAGGCAATGGTAGTTGTGACT-ATATCGACGAAGCGACGACGACTAAAGAGTAAGGT
* *
4975791 TTCAGGTGCA-AGATTCTGTTGTGACTCACAT
65 TTCAAGTGCAGA-ATTCTGTTATGACTCACAT
* * *
4975822 TAGCAAAAAAGGCAATGGTAGTTGTGACT-TAGTTGACGAAGCGACGATGA-TAAAAGAGTAGGG
1 TAGCAAAAAAGGCAATGGTAGTTGTGACTATA-TCGACGAAGCGACGACGACT-AAAGAGTAAGG
4975885 TTTCAAGTGCAGAATTCTGTTATGACTCACAT
64 TTTCAAGTGCAGAATTCTGTTATGACTCACAT
4975917 CGATAAAGTA
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
94 3 0.04
95 52 0.63
96 27 0.33
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.26
Consensus pattern (95 bp):
TAGCAAAAAAGGCAATGGTAGTTGTGACTATATCGACGAAGCGACGACGACTAAAGAGTAAGGTT
TCAAGTGCAGAATTCTGTTATGACTCACAT
Found at i:4976573 original size:27 final size:27
Alignment explanation
Indices: 4976491--4976576 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 27
4976481 GAAAGAAACA
* *
4976491 TTTTAAGGAAAAGTTGAAAGTATCAAT
1 TTTTTAGGAAAAGTTAAAAGTATCAAT
* * * **
4976518 TTTCTTTGAAAAATTTCAAAAAAAT--AT
1 TTT-TTAGGAAAAGTT-AAAAGTATCAAT
4976545 TTTTTAGGAAAAGTTAAAAGTATCAAT
1 TTTTTAGGAAAAGTTAAAAGTATCAAT
4976572 TTTTT
1 TTTTT
4976577 TTAAAAATAA
Statistics
Matches: 43, Mismatches: 12, Indels: 8
0.68 0.19 0.13
Matches are distributed among these distances:
25 6 0.14
26 9 0.21
27 15 0.35
28 8 0.19
29 5 0.12
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.41
Consensus pattern (27 bp):
TTTTTAGGAAAAGTTAAAAGTATCAAT
Found at i:4976583 original size:27 final size:27
Alignment explanation
Indices: 4976499--4976583 Score: 70
Period size: 29 Copynumber: 3.1 Consensus size: 27
4976489 CATTTTAAGG
* *
4976499 AAAAGTTGAAAGTATCAATTTTCTTTGA
1 AAAAGTTAAAAGTATCAATTTT-TTTTA
* *
4976527 AAAATTTCAAAA--A--AATATTTTTTA
1 AAAAGTT-AAAAGTATCAATTTTTTTTA
4976551 GGAAAAGTTAAAAGTATCAATTTTTTTTA
1 --AAAAGTTAAAAGTATCAATTTTTTTTA
4976580 AAAA
1 AAAA
4976584 TAAAATTTCA
Statistics
Matches: 44, Mismatches: 6, Indels: 15
0.68 0.09 0.23
Matches are distributed among these distances:
24 4 0.09
25 9 0.20
26 6 0.14
27 6 0.14
28 6 0.14
29 13 0.30
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.39
Consensus pattern (27 bp):
AAAAGTTAAAAGTATCAATTTTTTTTA
Found at i:4976608 original size:175 final size:177
Alignment explanation
Indices: 4976376--4977049 Score: 628
Period size: 175 Copynumber: 3.8 Consensus size: 177
4976366 ATACTTTAAA
* *
4976376 GAAAAGTTAAAAGTATCAATTTTTCTTAAAAGTAAAAATTTCAAATAAAAAATACGCTTTAAGAA
1 GAAAAGTTAAAAGTATCAATTTTTTTTAAAAATAAAAATTTCAAATAAAAAATACGCTTTAAGAA
* * *
4976441 AAGGTTCAAAGTATCAATTTTTTTTAAAAGTAAAAATTTTGAAAGAAACATTTTAAGGAAAAGTT
66 AAAGTTCAAAGTATCAATTTTCTTTAAAAGTAAAAATTTTGAAAGAAAAATTTTAAGGAAAAGTT
4976506 GAAAGTATCAA-TTTTCTT-TGAAAAATTTCAAAAAAATATTTTTTAG
131 GAAAGTATCAATTTTTCTTAT-AAAAATTTCAAAAAAATATTTTTTAG
4976552 GAAAAGTTAAAAGTATCAATTTTTTTTAAAAAT-AAAATTTCAAATAAAAAATACGCTTTAAGAA
1 GAAAAGTTAAAAGTATCAATTTTTTTTAAAAATAAAAATTTCAAATAAAAAATACGCTTTAAGAA
** *
4976616 AAAGTTGGACGTATCAATTTTCTTTAAAAGTAAAAATTTTGAAAGAAAAATTTTAAGGAAAAGTT
66 AAAGTTCAAAGTATCAATTTTCTTTAAAAGTAAAAATTTTGAAAGAAAAATTTTAAGGAAAAGTT
4976681 GAAAGTATCAATTTTTCTTAAAAATAAAAATTTCAAAAAAATATTTTTTAG
131 GAAAGTATCAATTTTTCTT----ATAAAAATTTCAAAAAAATATTTTTTAG
* * * * ** *
4976732 AAAAAGTTGAAAGTGTCAATTCTTTTTAAAAA-AGGAA-TT-AAA-AAAACAT----TTTAAGAA
1 GAAAAGTTAAAAGTATCAATTTTTTTTAAAAATAAAAATTTCAAATAAAAAATACGCTTTAAGAA
* * * * * *
4976789 AAAGTTGAAAGTTTTAATTTTCCTTGAAA-TAAAAA---T-AAA-AAATATATTTTTGAAGAAAA
66 AAAGTTCAAAGTATCAATTTTCTTTAAAAGTAAAAATTTTGAAAGAAA-A-A-TTTT-AAGGAAA
* * *
4976848 AATTGAAAGTATCAATTTTCCTTGAAAAAGCAAAATTTC-AAAAAATATTTTTTTGAG
127 AGTTGAAAGTATCAATTTTTCTT---ATA--AAAATTTCAAAAAAATA-TTTTTT-AG
* * * * * * ***
4976905 AAAAAGTTAAAAGTATCAATTTTTCTTGAAGATAAAATTTTC----AAAATATATTTTTTAA-AG
1 GAAAAGTTAAAAGTATCAATTTTTTTTAAAAATAAAAATTTCAAATAAAAAATACGCTTTAAGA-
* * *
4976965 AAAAGTT-AAGAGTATCAATTTTCTTTGAAAA-TAAAAATTTT-AAA-AAATATTTTTTGAGAAA
65 AAAAGTTCAA-AGTATCAATTTTCTTT-AAAAGTAAAAATTTTGAAAGAAA-A-ATTTTAAGGAA
* *
4977026 AAATTGAAAGTATCAAATTTTCTT
126 AAGTTGAAAGTATCAATTTTTCTT
4977050 GAATAAAGAA
Statistics
Matches: 426, Mismatches: 44, Indels: 53
0.81 0.08 0.10
Matches are distributed among these distances:
167 3 0.01
168 4 0.01
169 2 0.00
170 8 0.02
171 35 0.08
172 20 0.05
173 65 0.15
174 2 0.00
175 103 0.24
176 41 0.10
177 31 0.07
178 12 0.03
179 29 0.07
180 60 0.14
181 11 0.03
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (177 bp):
GAAAAGTTAAAAGTATCAATTTTTTTTAAAAATAAAAATTTCAAATAAAAAATACGCTTTAAGAA
AAAGTTCAAAGTATCAATTTTCTTTAAAAGTAAAAATTTTGAAAGAAAAATTTTAAGGAAAAGTT
GAAAGTATCAATTTTTCTTATAAAAATTTCAAAAAAATATTTTTTAG
Found at i:4976693 original size:59 final size:58
Alignment explanation
Indices: 4976302--4977049 Score: 515
Period size: 59 Copynumber: 12.7 Consensus size: 58
4976292 TAAAAATAAA
* * * * * * *
4976302 AAAAAAATACTTTAAGAAAAATTTTAAAATATCAATTTTTCTTGAAGA-T-CAAA-TTC
1 AAAAAAATATTTTAAGAAAAAGTTGAAAGTATCAA-TTTTCTTTAAAAGTAAAAATTTC
* *
4976358 AAAAAATTATACTTTAA-AGAAAAGTTAAAAGTATCAATTTT-TCTTAAAAGTAAAAATTTC
1 AAAAAA--ATATTTTAAGA-AAAAGTTGAAAGTATCAATTTTCT-TTAAAAGTAAAAATTTC
* * * * *
4976418 AAATAAAAAATACGCTTTAAGAAAAGGTTCAAAGTATCAATTTTTTTTAAAAGTAAAAATTTTG
1 --A-AAAAAATA--TTTTAAGAAAAAGTTGAAAGTATCAATTTTCTTTAAAAGTAAAAA-TTTC
* * *
4976482 AAAGAAACATTTTAAGGAAAAGTTGAAAGTATCAATTTTCTTT----G-AAAAATTTC
1 AAAAAAATATTTTAAGAAAAAGTTGAAAGTATCAATTTTCTTTAAAAGTAAAAATTTC
* * * * *
4976535 AAAAAAATATTTTTTAGGAAAAGTTAAAAGTATCAATTTTTTTTAAAAAT-AAAATTTC
1 AAAAAAATA-TTTTAAGAAAAAGTTGAAAGTATCAATTTTCTTTAAAAGTAAAAATTTC
* * * *
4976593 AAATAAAAAATACGCTTTAAGAAAAAGTTGGACGTATCAATTTTCTTTAAAAGTAAAAATTTTG
1 --A-AAAAAATA--TTTTAAGAAAAAGTTGAAAGTATCAATTTTCTTTAAAAGTAAAAA-TTTC
* *
4976657 AAAGAAAA-ATTTTAAGGAAAAGTTGAAAGTATCAATTTT-TCTTAAAAATAAAAATTTC
1 AAA-AAAATATTTTAAGAAAAAGTTGAAAGTATCAATTTTCT-TTAAAAGTAAAAATTTC
* * *
4976715 AAAAAAATATTTTTTAGAAAAAGTTGAAAGTGTCAATTCTT-TTTAAAA--AAGGAA-TT-
1 AAAAAAATA-TTTTAAGAAAAAGTTGAAAGTATCAATT-TTCTTTAAAAGTAA-AAATTTC
* * * * *
4976771 AAAAAAACATTTTAAGAAAAAGTTGAAAGTTTTAATTTTCCTTGAAA-TAAAAA--T-
1 AAAAAAATATTTTAAGAAAAAGTTGAAAGTATCAATTTTCTTTAAAAGTAAAAATTTC
* * *
4976825 AAAAAATATATTTTTGAAGAAAAAATTGAAAGTATCAATTTTCCTTGAAAAAG-CAAAATTTC
1 AAAAAA-ATA-TTTT-AAGAAAAAGTTGAAAGTATCAATTTT-CTT-TAAAAGTAAAAATTTC
* * * * * *
4976887 AAAAAATATTTTTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTTGAAGA-TAAAATTTTC
1 AAAAAA-A-TATTTTAAGAAAAAGTTGAAAGTATCAA-TTTTCTTTAAAAGTAAAAATTTC
* * *
4976947 AAAATATATTTTTTAA-AGAAAAGTT-AAGAGTATCAATTTTCTTTGAAAA-TAAAAATTTT
1 AAAA-AAATATTTTAAGA-AAAAGTTGAA-AGTATCAATTTTCTTT-AAAAGTAAAAATTTC
* * *
4977006 AAAAAATATTTTTTGAGAAAAAATTGAAAGTATCAAATTTTCTT
1 AAAAAA-ATATTTTAAGAAAAAGTTGAAAGTATC-AATTTTCTT
4977050 GAATAAAGAA
Statistics
Matches: 562, Mismatches: 75, Indels: 106
0.76 0.10 0.14
Matches are distributed among these distances:
53 10 0.02
54 45 0.08
55 35 0.06
56 21 0.04
57 40 0.07
58 56 0.10
59 165 0.29
60 34 0.06
61 44 0.08
62 55 0.10
63 49 0.09
64 8 0.01
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.36
Consensus pattern (58 bp):
AAAAAAATATTTTAAGAAAAAGTTGAAAGTATCAATTTTCTTTAAAAGTAAAAATTTC
Found at i:4976970 original size:291 final size:289
Alignment explanation
Indices: 4976303--4977041 Score: 754
Period size: 291 Copynumber: 2.5 Consensus size: 289
4976293 AAAAATAAAA
* *
4976303 AAAAAATA--CTTTAAGAAAAATTTTAAAA-TATCAATTTTTCTTGAAGATCAAA--TTCAAAAA
1 AAAAAATACGCTTTAAGAAAAA-GTTAAAAGTATCAATTTTTCTTGAAGATAAAATTTTC-AAAA
* *
4976363 ATTATACTTTAAAGAAAAGTTAAAAGTATCAATTTTTCTTAAAAGTAAAAATTTCAAATAAAAAA
64 A-TATATTTTAAAGAAAAGTT-AAAGTATCAATTTTTCTTAAAAATAAAAATTTC--A-AAAAAA
** * * * * *
4976428 TACGCTTTAAGAAAAGGTTCAAAGTATCAATTTTTTTTAAAAGTAAAAATTTTGAAAGAAACATT
124 TA-TTTTTTAGAAAAAGTTGAAAGTATCAATTCTTTTTAAAAG-AAAAA-TTTGAAAAAAACATT
* * ** * * *
4976493 TTAAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAAATTTCAAAAAAATATTTTTTAGGAAAAG
186 TTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAAAAATCAAAAAAATATTTTTAAGAAAAAA
* * *
4976558 TTAAAAGTATCAATTTTTTTTAAAAATAAAATTTCAAAT
251 TTAAAAGTATCAATTTTCTTGAAAAACAAAATTTCAAAT
** * * * *
4976597 AAAAAATACGCTTTAAGAAAAAGTTGGACGTATCAA-TTTTCTTTAAAAGTAAAAATTTTGAAAG
1 AAAAAATACGCTTTAAGAAAAAGTTAAAAGTATCAATTTTTCTTGAAGA-T-AAAATTTTCAAA-
* *
4976661 AA-AAATTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATTTCAAAAAAATAT
63 AATATATTTTAAAGAAAAGTT-AAAGTATCAATTTTTCTTAAAAATAAAAATTTCAAAAAAATAT
* *
4976725 TTTTTAGAAAAAGTTGAAAGTGTCAATTCTTTTTAAAA-AAGGAA-TT-AAAAAAACATTTTAAG
127 TTTTTAGAAAAAGTTGAAAGTATCAATTCTTTTTAAAAGAA-AAATTTGAAAAAAACATTTTAAG
* *
4976787 AAAAAGTTGAAAGTTTTAATTTTCCTTGAAATAAAAAT-AAAAAATATATTTTTGAAGAAAAAAT
191 AAAAAGTTGAAAGTATCAATTTTCCTTG-AA-AAAAATCAAAAAA-ATATTTTT-AAGAAAAAAT
*
4976851 TGAAAGTATCAATTTTCCTTGAAAAAGCAAAATTTC-AA-
252 TAAAAGTATCAATTTT-CTTGAAAAA-CAAAATTTCAAAT
* *** *
4976889 AAAATAT-TTTTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTTGAAGATAAAATTTTCAAAATA
1 AAAAAATACGCTTTAAGAAAAAGTTAAAAGTATCAATTTTTCTTGAAGATAAAATTTTCAAAA-A
* * *
4976953 TATTTTTTAAAGAAAAGTTAAGAGTATCAA-TTTTCTTTGAAAATAAAAATTT-TAAAAAATATT
65 TATATTTTAAAGAAAAGTTAA-AGTATCAATTTTTC-TTAAAAATAAAAATTTCAAAAAAATATT
*
4977016 TTTTGAGAAAAAATTGAAAGTATCAA
128 TTTT-AGAAAAAGTTGAAAGTATCAA
4977042 ATTTTCTTGA
Statistics
Matches: 371, Mismatches: 53, Indels: 45
0.79 0.11 0.10
Matches are distributed among these distances:
289 40 0.11
290 43 0.12
291 93 0.25
292 40 0.11
293 41 0.11
294 24 0.06
295 14 0.04
296 19 0.05
297 50 0.13
298 3 0.01
299 4 0.01
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (289 bp):
AAAAAATACGCTTTAAGAAAAAGTTAAAAGTATCAATTTTTCTTGAAGATAAAATTTTCAAAAAT
ATATTTTAAAGAAAAGTTAAAGTATCAATTTTTCTTAAAAATAAAAATTTCAAAAAAATATTTTT
TAGAAAAAGTTGAAAGTATCAATTCTTTTTAAAAGAAAAATTTGAAAAAAACATTTTAAGAAAAA
GTTGAAAGTATCAATTTTCCTTGAAAAAAATCAAAAAAATATTTTTAAGAAAAAATTAAAAGTAT
CAATTTTCTTGAAAAACAAAATTTCAAAT
Found at i:4983014 original size:29 final size:31
Alignment explanation
Indices: 4982963--4983021 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 31
4982953 AATAACTATG
* **
4982963 AAATATTTAATATGATATTTAAATT-TAAAA
1 AAATATTTAATATAATAAATAAATTATAAAA
4982993 AAAT-TTTAATATAATAAATAAATTATAAA
1 AAATATTTAATATAATAAATAAATTATAAA
4983022 TTTATTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (31 bp):
AAATATTTAATATAATAAATAAATTATAAAA
Found at i:4983136 original size:27 final size:28
Alignment explanation
Indices: 4983105--4983178 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
4983095 TATAAATATT
*
4983105 ATATTA-ATTAATAAATTTTT-AATTTAA
1 ATATTAGATTAA-AAATTTTTAAAATTAA
*
4983132 ATATTATATTAAAAATTTTTAAAATTAA
1 ATATTAGATTAAAAATTTTTAAAATTAA
*
4983160 ATATTAGATTAAATATTTT
1 ATATTAGATTAAAAATTTT
4983179 ATTTTAATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 14 0.33
28 28 0.67
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (28 bp):
ATATTAGATTAAAAATTTTTAAAATTAA
Found at i:4987697 original size:9 final size:9
Alignment explanation
Indices: 4987683--4987722 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
4987673 CTCTTGAAAT
4987683 AAACAAAAA
1 AAACAAAAA
4987692 AAACAAAAA
1 AAACAAAAA
4987701 AAACAAAAA
1 AAACAAAAA
*
4987710 AAA-AAGAA
1 AAACAAAAA
4987718 AAACA
1 AAACA
4987723 TGAAGGAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 7 0.24
9 22 0.76
ACGTcount: A:0.88, C:0.10, G:0.03, T:0.00
Consensus pattern (9 bp):
AAACAAAAA
Found at i:4987710 original size:17 final size:18
Alignment explanation
Indices: 4987683--4987722 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
4987673 CTCTTGAAAT
4987683 AAACAAAAAAAACAAA-AA
1 AAACAAAAAAAA-AAAGAA
4987701 AAAC-AAAAAAAAAAGAA
1 AAACAAAAAAAAAAAGAA
4987718 AAACA
1 AAACA
4987723 TGAAGGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 3 0.15
17 13 0.65
18 4 0.20
ACGTcount: A:0.88, C:0.10, G:0.03, T:0.00
Consensus pattern (18 bp):
AAACAAAAAAAAAAAGAA
Found at i:4997364 original size:213 final size:213
Alignment explanation
Indices: 4996997--4997428 Score: 819
Period size: 213 Copynumber: 2.0 Consensus size: 213
4996987 CAGCTCCTGA
*
4996997 AACAAGGGAGCAAGACATCACCACTCAAGATTATCCATCAGCTACTCCTCCCAACACAGAATCCC
1 AACAAGGGAGCAAGACATCACCACTCAAGATTATCCATCAACTACTCCTCCCAACACAGAATCCC
* *
4997062 AAAATTCTGAAAATTTACCTAAACTTAATGACTACAGCTCTCTACCAAAAATTGCAGTTCCTGGA
66 AAAATTCGGAAAATTTAACTAAACTTAATGACTACAGCTCTCTACCAAAAATTGCAGTTCCTGGA
*
4997127 CCTTCAGAGGCACTCTCATTCCCAGAAGCAGACCCCACCATCCAGATGACTCCCTCAAACGATAA
131 CCTTCAGAGGCACCCTCATTCCCAGAAGCAGACCCCACCATCCAGATGACTCCCTCAAACGATAA
4997192 AACTTTTGGTTTAGCTCC
196 AACTTTTGGTTTAGCTCC
4997210 AACAAGGGAGCAAGACATCACCACTCAAGATTATCCATCAACTACTCCTCCCAACACAGAATCCC
1 AACAAGGGAGCAAGACATCACCACTCAAGATTATCCATCAACTACTCCTCCCAACACAGAATCCC
4997275 AAAATTCGGAAAATTTAACTAAACTTAATGACTACAGCTCTCTACCAAAAATTGCAGTTCCTGGA
66 AAAATTCGGAAAATTTAACTAAACTTAATGACTACAGCTCTCTACCAAAAATTGCAGTTCCTGGA
*
4997340 CCTTCAGAGGCACCCTCATTCCCAGAAGCAGACCCCACCATCCAGATGACTCCCTCAAACGATGA
131 CCTTCAGAGGCACCCTCATTCCCAGAAGCAGACCCCACCATCCAGATGACTCCCTCAAACGATAA
4997405 AACTTTTGGTTTAGCTCC
196 AACTTTTGGTTTAGCTCC
4997423 AACAAG
1 AACAAG
4997429 TCATCATACA
Statistics
Matches: 214, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
213 214 1.00
ACGTcount: A:0.34, C:0.31, G:0.13, T:0.22
Consensus pattern (213 bp):
AACAAGGGAGCAAGACATCACCACTCAAGATTATCCATCAACTACTCCTCCCAACACAGAATCCC
AAAATTCGGAAAATTTAACTAAACTTAATGACTACAGCTCTCTACCAAAAATTGCAGTTCCTGGA
CCTTCAGAGGCACCCTCATTCCCAGAAGCAGACCCCACCATCCAGATGACTCCCTCAAACGATAA
AACTTTTGGTTTAGCTCC
Found at i:5008242 original size:13 final size:13
Alignment explanation
Indices: 5008224--5008248 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5008214 TAATTTGCCG
5008224 TCTGATTACAATT
1 TCTGATTACAATT
5008237 TCTGATTACAAT
1 TCTGATTACAAT
5008249 GAATTTGGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (13 bp):
TCTGATTACAATT
Found at i:5011603 original size:21 final size:21
Alignment explanation
Indices: 5011529--5011608 Score: 57
Period size: 21 Copynumber: 4.0 Consensus size: 21
5011519 TCCTCCTGCA
5011529 ATTAAATAATAA-TA-ATGT-T
1 ATTAAATAATAATTACAT-TAT
*
5011548 A-TAAATAATATATTATATTAT
1 ATTAAATAATA-ATTACATTAT
*
5011569 ATTAAA-ATTAAATTACATT-T
1 ATTAAATAAT-AATTACATTAT
5011589 ATGTAAATAATAATT-CATTA
1 AT-TAAATAATAATTACATTA
5011609 CCTTATCGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
18 9 0.18
19 2 0.04
20 10 0.20
21 21 0.43
22 7 0.14
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (21 bp):
ATTAAATAATAATTACATTAT
Found at i:5020779 original size:20 final size:20
Alignment explanation
Indices: 5020754--5020795 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
5020744 AGTGGCATTC
5020754 AGAGTAGCAGCTAGGAGACT
1 AGAGTAGCAGCTAGGAGACT
5020774 AGAGTAGCAGCTAGGAGACT
1 AGAGTAGCAGCTAGGAGACT
5020794 AG
1 AG
5020796 CAGTTGAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.36, T:0.14
Consensus pattern (20 bp):
AGAGTAGCAGCTAGGAGACT
Found at i:5026028 original size:24 final size:24
Alignment explanation
Indices: 5025997--5026045 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
5025987 ATTTATATAT
*
5025997 TTTATATATTATCAGTAAATAAAA
1 TTTATATATTATCAATAAATAAAA
*
5026021 TTTATATATTATCAATAAATTAAA
1 TTTATATATTATCAATAAATAAAA
5026045 T
1 T
5026046 AATGACAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (24 bp):
TTTATATATTATCAATAAATAAAA
Found at i:5026140 original size:19 final size:22
Alignment explanation
Indices: 5026116--5026156 Score: 61
Period size: 19 Copynumber: 2.0 Consensus size: 22
5026106 TAATTTATGT
5026116 ATATTTA-TT-TTAAT-AATTA
1 ATATTTACTTATTAATGAATTA
5026135 ATATTTACTTATTAATGAATTA
1 ATATTTACTTATTAATGAATTA
5026157 TCATCGTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 2 0.11
21 5 0.26
22 5 0.26
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (22 bp):
ATATTTACTTATTAATGAATTA
Found at i:5030274 original size:79 final size:79
Alignment explanation
Indices: 5030143--5030299 Score: 242
Period size: 79 Copynumber: 2.0 Consensus size: 79
5030133 ACAGATCTTG
* * *
5030143 ATTCCAAGTTATATAACTAAAGCTATGAGAATTTTAGTGAGAGTAGTGCAAGCTGCAAACACTAA
1 ATTCCAAGTTATATAACTAAAGCTATAAGAATTTTAATGAGAGTAATGCAAGCTGCAAACACTAA
5030208 ATATTTAGATTAGT
66 ATATTTAGATTAGT
* * * * *
5030222 ATTCCAAGTTGTATAACTATAGCTATAAGTATTTTAATGAGTGTAATGCAAGCTGCAAACACTAG
1 ATTCCAAGTTATATAACTAAAGCTATAAGAATTTTAATGAGAGTAATGCAAGCTGCAAACACTAA
5030287 ATATTTAGATTAG
66 ATATTTAGATTAG
5030300 CTTATGAAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 70 1.00
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.33
Consensus pattern (79 bp):
ATTCCAAGTTATATAACTAAAGCTATAAGAATTTTAATGAGAGTAATGCAAGCTGCAAACACTAA
ATATTTAGATTAGT
Found at i:5030348 original size:48 final size:48
Alignment explanation
Indices: 5030277--5030369 Score: 170
Period size: 48 Copynumber: 1.9 Consensus size: 48
5030267 ATGCAAGCTG
5030277 CAAACACTAGATATTTAGATTAGCTTAT-GAAAAATTTAGTTGTTTCAC
1 CAAACACTAGATATTTAGATTAGCTTATAG-AAAATTTAGTTGTTTCAC
5030325 CAAACACTAGATATTTAGATTAGCTTATAGAAAATTTAGTTGTTT
1 CAAACACTAGATATTTAGATTAGCTTATAGAAAATTTAGTTGTTT
5030370 TAGTATAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
48 43 0.98
49 1 0.02
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.39
Consensus pattern (48 bp):
CAAACACTAGATATTTAGATTAGCTTATAGAAAATTTAGTTGTTTCAC
Found at i:5039552 original size:20 final size:21
Alignment explanation
Indices: 5039529--5039568 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
5039519 GTGATGTTTT
5039529 ATTTTG-CTTTGAAATATGAG
1 ATTTTGACTTTGAAATATGAG
* *
5039549 ATTTTGATTTTGAGATATGA
1 ATTTTGACTTTGAAATATGA
5039569 TTTACAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.47
Consensus pattern (21 bp):
ATTTTGACTTTGAAATATGAG
Found at i:5043314 original size:17 final size:17
Alignment explanation
Indices: 5043288--5043321 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
5043278 TATTTCGAGC
*
5043288 AAAAAAATTTATTTCTT
1 AAAAAAATTTAATTCTT
*
5043305 AAAAAGATTTAATTCTT
1 AAAAAAATTTAATTCTT
5043322 TACCTCTCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (17 bp):
AAAAAAATTTAATTCTT
Found at i:5044238 original size:34 final size:34
Alignment explanation
Indices: 5044137--5044238 Score: 107
Period size: 34 Copynumber: 2.9 Consensus size: 34
5044127 CGTCACTTAC
* *
5044137 TTTTATAATCTTTTCAAAAATTCATTTTTGAAAGA
1 TTTTATAAT-TTTTCAAAAATTTATTTTAGAAAGA
* * ** *
5044172 TTCTATGATTTTTTGAAAATTTATTATCAGAAA-A
1 TTTTATAATTTTTCAAAAATTTATT-TTAGAAAGA
5044206 TTTTATAATTTTTCAAAAATTTACTTTTAGAAA
1 TTTTATAATTTTTCAAAAATTTA-TTTTAGAAA
5044239 CTTGTGTAAA
Statistics
Matches: 53, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
34 39 0.74
35 14 0.26
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.49
Consensus pattern (34 bp):
TTTTATAATTTTTCAAAAATTTATTTTAGAAAGA
Found at i:5053054 original size:36 final size:36
Alignment explanation
Indices: 5052986--5053054 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
5052976 CAGTCACAAA
**
5052986 TTTTTATTTAAAAATTATGATAATTTGTATAATCGT
1 TTTTTATTTAAAAATTATGATAATTTAAATAATCGT
* *
5053022 TTTTTATTTAAATAATTAT-CTATTTTAAATAAT
1 TTTTTATTTAAA-AATTATGATAATTTAAATAAT
5053055 TATAAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
36 22 0.79
37 6 0.21
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (36 bp):
TTTTTATTTAAAAATTATGATAATTTAAATAATCGT
Found at i:5053063 original size:17 final size:17
Alignment explanation
Indices: 5053028--5053064 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
5053018 TCGTTTTTTA
**
5053028 TTTAAATAATTATCTAT
1 TTTAAATAATTATAAAT
5053045 TTTAAATAATTATAAAT
1 TTTAAATAATTATAAAT
5053062 TTT
1 TTT
5053065 TTATTGCGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTAAATAATTATAAAT
Found at i:5053540 original size:2 final size:2
Alignment explanation
Indices: 5053533--5053558 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5053523 ATGATTAGGC
5053533 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
5053559 GATTTATATT
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:5054074 original size:2 final size:2
Alignment explanation
Indices: 5054067--5054100 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
5054057 TTATTTTGGC
5054067 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
5054101 ATATATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:5054105 original size:2 final size:2
Alignment explanation
Indices: 5054100--5054128 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5054090 TCTCTCTCTC
5054100 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5054129 GAACTCCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5055014 original size:2 final size:2
Alignment explanation
Indices: 5055007--5055041 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5054997 TCTCTTTGTA
5055007 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5055042 ATAGCATCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5067735 original size:20 final size:20
Alignment explanation
Indices: 5067710--5067780 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
5067700 TTTATCCAAG
*
5067710 TTTGACCAAGTTAACTCGAC
1 TTTGACCAAGTTAACTCGAA
* *
5067730 TTTGACCAAGTTGACTCGAG
1 TTTGACCAAGTTAACTCGAA
*
5067750 TTTGACCCAATTTTAAC-CGAA
1 TTTGA-CCAA-GTTAACTCGAA
5067771 TTTGACCAAG
1 TTTGACCAAG
5067781 GGATATTTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
20 27 0.63
21 12 0.28
22 4 0.09
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (20 bp):
TTTGACCAAGTTAACTCGAA
Found at i:5067891 original size:20 final size:20
Alignment explanation
Indices: 5067866--5067914 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
5067856 TTGACAAAGT
5067866 TTGACCAAACAAACCCATGA
1 TTGACCAAACAAACCCATGA
*
5067886 TTGACCAAACAAACCCATGT
1 TTGACCAAACAAACCCATGA
5067906 TTGACCAAA
1 TTGACCAAA
5067915 GTTTGACCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.43, C:0.29, G:0.10, T:0.18
Consensus pattern (20 bp):
TTGACCAAACAAACCCATGA
Found at i:5068634 original size:32 final size:32
Alignment explanation
Indices: 5068593--5068660 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
5068583 AGGTTGCGCA
* *
5068593 TAAACCTTACCTAGTATCAACTTTAGTGGTCT
1 TAAACCTTACCTAGTACCAACTTCAGTGGTCT
*
5068625 TAAACCTTACCTAGTACCAACTTCATTGGTCT
1 TAAACCTTACCTAGTACCAACTTCAGTGGTCT
5068657 TAAA
1 TAAA
5068661 ACTCTCCTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.35
Consensus pattern (32 bp):
TAAACCTTACCTAGTACCAACTTCAGTGGTCT
Found at i:5068670 original size:32 final size:32
Alignment explanation
Indices: 5068593--5068671 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 32
5068583 AGGTTGCGCA
* * *
5068593 TAAACCTTACCTAGTATCAACTTTAGTGGTCT
1 TAAAACTTACCTAGTACCAACTTCAGTGGTCT
* *
5068625 TAAACCTTACCTAGTACCAACTTCATTGGTCT
1 TAAAACTTACCTAGTACCAACTTCAGTGGTCT
5068657 TAAAACTCT-CCTAGT
1 TAAAACT-TACCTAGT
5068672 GCCATTTTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
32 41 0.98
33 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.35
Consensus pattern (32 bp):
TAAAACTTACCTAGTACCAACTTCAGTGGTCT
Found at i:5068784 original size:32 final size:32
Alignment explanation
Indices: 5068715--5068785 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
5068705 TTAGATTCGG
* * *
5068715 CTTAAATCTCTCCTAGTGCCAATTTCACTAGT
1 CTTAAACCTCTCCTAGTGCCAATTTAACTAGA
* * * *
5068747 TTTAAACCTCTCCTAGTGCCATTTTAATTTGA
1 CTTAAACCTCTCCTAGTGCCAATTTAACTAGA
5068779 CTTAAAC
1 CTTAAAC
5068786 TTCCGTGCTG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.39
Consensus pattern (32 bp):
CTTAAACCTCTCCTAGTGCCAATTTAACTAGA
Found at i:5068843 original size:60 final size:59
Alignment explanation
Indices: 5068748--5068907 Score: 167
Period size: 60 Copynumber: 2.7 Consensus size: 59
5068738 TTCACTAGTT
** * * ** * * *
5068748 TTAAACCTCTCCTAGTGCCATTTTAATTTGACTTAAACTTCCGTGCTGATTAGATTGGGC
1 TTAAACCTCTCCTAGTGCCAACTTCATTTG-CTTAAACTTCAGTGCCAACTAAATTAGGC
* *
5068808 TTAAACCTCTCCTAGTGCCAACTTCATTGTGCTTAAACTTTATTGCCAACTAAATTAGGC
1 TTAAACCTCTCCTAGTGCCAACTTCATT-TGCTTAAACTTCAGTGCCAACTAAATTAGGC
* * *
5068868 TTAAACATCTCTTAGTGCCAACTTCACTATGCTTAAACTT
1 TTAAACCTCTCCTAGTGCCAACTTCA-TTTGCTTAAACTT
5068908 TTGTGTCAGC
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
60 81 0.96
61 3 0.04
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (59 bp):
TTAAACCTCTCCTAGTGCCAACTTCATTTGCTTAAACTTCAGTGCCAACTAAATTAGGC
Found at i:5068844 original size:92 final size:92
Alignment explanation
Indices: 5068623--5068845 Score: 247
Period size: 92 Copynumber: 2.4 Consensus size: 92
5068613 CTTTAGTGGT
* * *
5068623 CTTAAACCT-TACCTAGTACCAACTTCATTG-GTCTTAAAACTCTCCTAGTGCCATTTTCACCGG
1 CTTAAACCTCT-CCTAGTGCCAACTTCATTGTG-CTTAAACCTCTCCTAGTGCCATTTTAACCGG
**
5068686 ACTTAAACTTTTGGGACAGTTAGATTCGG
64 ACTTAAACTTCCGGGACAGTTAGATTCGG
* * * * ***
5068715 CTTAAATCTCTCCTAGTGCCAATTTCACTAGT-TTTAAACCTCTCCTAGTGCCATTTTAATTTGA
1 CTTAAACCTCTCCTAGTGCCAACTTCA-TTGTGCTTAAACCTCTCCTAGTGCCATTTTAACCGGA
* * *
5068779 CTTAAACTTCCGTG-CTGATTAGATTGGG
65 CTTAAACTTCCGGGACAG-TTAGATTCGG
5068807 CTTAAACCTCTCCTAGTGCCAACTTCATTGTGCTTAAAC
1 CTTAAACCTCTCCTAGTGCCAACTTCATTGTGCTTAAAC
5068846 TTTATTGCCA
Statistics
Matches: 107, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
91 5 0.05
92 99 0.93
93 3 0.03
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (92 bp):
CTTAAACCTCTCCTAGTGCCAACTTCATTGTGCTTAAACCTCTCCTAGTGCCATTTTAACCGGAC
TTAAACTTCCGGGACAGTTAGATTCGG
Found at i:5068890 original size:32 final size:31
Alignment explanation
Indices: 5068805--5068890 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 31
5068795 GATTAGATTG
* * **
5068805 GGCTTAAACCTCTCCTAGTGCCAACTTCATT
1 GGCTTAAACATCTCTTAGTGCCAACTAAATT
*
5068836 GTGCTT-AA-A-CT-TTATTGCCAACTAAATT
1 G-GCTTAAACATCTCTTAGTGCCAACTAAATT
5068864 AGGCTTAAACATCTCTTAGTGCCAACT
1 -GGCTTAAACATCTCTTAGTGCCAACT
5068891 TCACTATGCT
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
28 17 0.40
29 5 0.12
30 1 0.02
31 5 0.12
32 15 0.35
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.34
Consensus pattern (31 bp):
GGCTTAAACATCTCTTAGTGCCAACTAAATT
Found at i:5068902 original size:32 final size:32
Alignment explanation
Indices: 5068806--5068905 Score: 100
Period size: 32 Copynumber: 3.2 Consensus size: 32
5068796 ATTAGATTGG
* * *
5068806 GCTTAAACCTCTCCTAGTGCCAACTTCATTGT
1 GCTTAAACATCTCTTAGTGCCAACTTCATTAT
* ** *
5068838 GCTT-AA-A-CT-TTATTGCCAACTAAATTAG
1 GCTTAAACATCTCTTAGTGCCAACTTCATTAT
*
5068866 GCTTAAACATCTCTTAGTGCCAACTTCACTAT
1 GCTTAAACATCTCTTAGTGCCAACTTCATTAT
5068898 GCTTAAAC
1 GCTTAAAC
5068906 TTTTGTGTCA
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
28 17 0.33
29 4 0.08
30 1 0.02
31 4 0.08
32 26 0.50
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (32 bp):
GCTTAAACATCTCTTAGTGCCAACTTCATTAT
Found at i:5068930 original size:60 final size:60
Alignment explanation
Indices: 5068806--5068932 Score: 166
Period size: 60 Copynumber: 2.1 Consensus size: 60
5068796 ATTAGATTGG
* * * *
5068806 GCTTAAACCTCTCCTAGTGCCAACTTCATTGTGCTTAAACTTTATTGCCAACTAAATTAG
1 GCTTAAACATCTCCTAGTGCCAACTTCACTATGCTTAAACTTTATTGCCAACTAAATTAA
* * * *
5068866 GCTTAAACATCTCTTAGTGCCAACTTCACTATGCTTAAACTTT-TGTGTCAGCTAGATTAA
1 GCTTAAACATCTCCTAGTGCCAACTTCACTATGCTTAAACTTTAT-TGCCAACTAAATTAA
5068926 GCTTAAA
1 GCTTAAA
5068933 ATATCATCTT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
59 1 0.02
60 57 0.98
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (60 bp):
GCTTAAACATCTCCTAGTGCCAACTTCACTATGCTTAAACTTTATTGCCAACTAAATTAA
Found at i:5072833 original size:34 final size:33
Alignment explanation
Indices: 5072787--5072859 Score: 110
Period size: 34 Copynumber: 2.2 Consensus size: 33
5072777 TAAGCTTAAC
*
5072787 CCCTAAATCAAAAACCTAAACTCTTAACCCAAA
1 CCCTAAATCAAAAACCTAAACTCTAAACCCAAA
* *
5072820 CCCTAAATCCAAAACCCTAAACTCTAAATCCAAA
1 CCCTAAAT-CAAAAACCTAAACTCTAAACCCAAA
5072854 CCCTAA
1 CCCTAA
5072860 GCCTTTAACT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 8 0.22
34 28 0.78
ACGTcount: A:0.47, C:0.36, G:0.00, T:0.18
Consensus pattern (33 bp):
CCCTAAATCAAAAACCTAAACTCTAAACCCAAA
Found at i:5072846 original size:7 final size:7
Alignment explanation
Indices: 5072801--5072880 Score: 56
Period size: 7 Copynumber: 11.7 Consensus size: 7
5072791 AAATCAAAAA
5072801 CCTAAAC
1 CCTAAAC
* *
5072808 TCTTAAC
1 CCTAAAC
5072815 CC-AAAC
1 CCTAAAC
*
5072821 CCTAAAT
1 CCTAAAC
*
5072828 CCAAAAC
1 CCTAAAC
5072835 CCTAAAC
1 CCTAAAC
* *
5072842 TCTAAAT
1 CCTAAAC
5072849 CC-AAAC
1 CCTAAAC
*
5072855 CCTAAGC
1 CCTAAAC
* *
5072862 CTTTAAC
1 CCTAAAC
*
5072869 TCTAAAC
1 CCTAAAC
5072876 CCTAA
1 CCTAA
5072881 TCCAAACCCT
Statistics
Matches: 51, Mismatches: 20, Indels: 4
0.68 0.27 0.05
Matches are distributed among these distances:
6 10 0.20
7 41 0.80
ACGTcount: A:0.41, C:0.36, G:0.01, T:0.21
Consensus pattern (7 bp):
CCTAAAC
Found at i:5072854 original size:20 final size:21
Alignment explanation
Indices: 5072812--5072859 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 21
5072802 CTAAACTCTT
5072812 AACCC-AAACCCTAAATCCAA
1 AACCCTAAACCCTAAATCCAA
*
5072832 AACCCTAAACTCTAAATCC-A
1 AACCCTAAACCCTAAATCCAA
5072852 AACCCTAA
1 AACCCTAA
5072860 GCCTTTAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.48, C:0.38, G:0.00, T:0.15
Consensus pattern (21 bp):
AACCCTAAACCCTAAATCCAA
Found at i:5072891 original size:27 final size:27
Alignment explanation
Indices: 5072817--5072891 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
5072807 CTCTTAACCC
5072817 AAACCCTAAATCCAAAACCC-TAAACTCT
1 AAACCCT-AATCC-AAACCCTTAAACTCT
* * * * * *
5072845 AAATCCAAACCCTAAGCCTTTAACTCT
1 AAACCCTAATCCAAACCCTTAAACTCT
5072872 AAACCCTAATCCAAACCCTT
1 AAACCCTAATCCAAACCCTT
5072892 GACCCTAAAT
Statistics
Matches: 35, Mismatches: 11, Indels: 3
0.71 0.22 0.06
Matches are distributed among these distances:
26 4 0.11
27 26 0.74
28 5 0.14
ACGTcount: A:0.41, C:0.36, G:0.01, T:0.21
Consensus pattern (27 bp):
AAACCCTAATCCAAACCCTTAAACTCT
Found at i:5073130 original size:45 final size:45
Alignment explanation
Indices: 5073066--5073175 Score: 175
Period size: 45 Copynumber: 2.4 Consensus size: 45
5073056 TTTCATACTC
* * *
5073066 CATTTACATGCATTTTAATTGGCATTTGCGTTACATAATTTATTG
1 CATTTACATGCATTTTAATTGCCATTTGCATTACACAATTTATTG
*
5073111 CATTTACATGCATTTTAATTGCCATTTGCATTACACAGTTTATTG
1 CATTTACATGCATTTTAATTGCCATTTGCATTACACAATTTATTG
*
5073156 TATTTACATGCATTTTAATT
1 CATTTACATGCATTTTAATT
5073176 CGTATTGACA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.27, C:0.15, G:0.11, T:0.47
Consensus pattern (45 bp):
CATTTACATGCATTTTAATTGCCATTTGCATTACACAATTTATTG
Found at i:5077224 original size:3 final size:3
Alignment explanation
Indices: 5077216--5077250 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
5077206 TGACCCAATC
*
5077216 CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA ATA CT
1 CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA CT
5077251 TTTACTCCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
CTA
Found at i:5078686 original size:24 final size:24
Alignment explanation
Indices: 5078631--5078689 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
5078621 ATATTTTACC
* *
5078631 ATTTTATTTATTTAAATAAATTTTT
1 ATTTT-TTTATCTAAATAAATTTCT
*
5078656 ATATTTTTATCTAAATAAATTTCT
1 ATTTTTTTATCTAAATAAATTTCT
*
5078680 GTTTTTTTAT
1 ATTTTTTTAT
5078690 TTATATCTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 25 0.86
25 4 0.14
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (24 bp):
ATTTTTTTATCTAAATAAATTTCT
Found at i:5078691 original size:30 final size:30
Alignment explanation
Indices: 5078651--5078707 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
5078641 TTTAAATAAA
*
5078651 TTTTTATATTTTTATCTAAATAAATTTCTG
1 TTTTTATATTTATATCTAAATAAATTTCTG
*
5078681 TTTTTTTATTTATATCTAAATAAATTT
1 TTTTTATATTTATATCTAAATAAATTT
5078708 TTATTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (30 bp):
TTTTTATATTTATATCTAAATAAATTTCTG
Found at i:5078708 original size:24 final size:24
Alignment explanation
Indices: 5078632--5078709 Score: 70
Period size: 30 Copynumber: 3.1 Consensus size: 24
5078622 TATTTTACCA
5078632 TTTTATTTAT-T-TAAATAAATTT
1 TTTTATTTATATCTAAATAAATTT
* *
5078654 TTATATTTTTATCTAAATAAATTTCTGTTT
1 TTTTATTTATATCTAAATAAA------TTT
5078684 TTTTATTTATATCTAAATAAATTT
1 TTTTATTTATATCTAAATAAATTT
5078708 TT
1 TT
5078710 ATTTAAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 14
0.71 0.06 0.23
Matches are distributed among these distances:
22 8 0.18
23 1 0.02
24 13 0.30
30 22 0.50
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (24 bp):
TTTTATTTATATCTAAATAAATTT
Found at i:5078727 original size:21 final size:20
Alignment explanation
Indices: 5078707--5078743 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5078697 TAAATAAATT
5078707 TTTAT-TTAAAAAATATTAA
1 TTTATATTAAAAAATATTAA
*
5078726 TTTATATTAAAAATTATT
1 TTTATATTAAAAAATATT
5078744 TAAATATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTATATTAAAAAATATTAA
Found at i:5078773 original size:30 final size:29
Alignment explanation
Indices: 5078739--5078824 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 29
5078729 ATATTAAAAA
5078739 TTATTTAAATATAAATTAAATATTTAAA-TT
1 TTATTTAAATATAAATTAAA-A-TTAAATTT
*
5078769 TTATTTGAATACT-AATTAAAATTAAATTTT
1 TTATTTAAATA-TAAATTAAAATTAAA-TTT
* *
5078799 TTATTTTAATATAAAATAAAAATTAA
1 TTATTTAAATAT-AAATTAAAATTAA
5078825 TAATTTAATT
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
28 5 0.10
29 2 0.04
30 29 0.60
31 12 0.25
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (29 bp):
TTATTTAAATATAAATTAAAATTAAATTT
Found at i:5080701 original size:17 final size:17
Alignment explanation
Indices: 5080667--5080708 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
5080657 AAATTGCTTT
*
5080667 AATAAAAAATATTAAAA
1 AATAAAAAATATGAAAA
5080684 AATAAAAAATA-GAGAAA
1 AATAAAAAATATGA-AAA
*
5080701 AAGAAAAA
1 AATAAAAA
5080709 GAAAGAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 1 0.05
17 21 0.95
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (17 bp):
AATAAAAAATATGAAAA
Found at i:5083782 original size:24 final size:23
Alignment explanation
Indices: 5083754--5083799 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
5083744 ATAAACCATC
5083754 AAATA-TGAGATTTTAAGAAAATTA
1 AAATAGTGA-ATTTTAA-AAAATTA
*
5083778 AAATAGTGATTTTTAAAAAATT
1 AAATAGTGAATTTTAAAAAATT
5083800 CGGATTTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 11 0.55
25 3 0.15
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (23 bp):
AAATAGTGAATTTTAAAAAATTA
Found at i:5083805 original size:17 final size:17
Alignment explanation
Indices: 5083785--5083817 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
5083775 TTAAAATAGT
*
5083785 GATTTTTAAAAAATTCG
1 GATTTCTAAAAAATTCG
5083802 GATTTCTAAAAAATTC
1 GATTTCTAAAAAATTC
5083818 TTATGTGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.39
Consensus pattern (17 bp):
GATTTCTAAAAAATTCG
Found at i:5084362 original size:26 final size:24
Alignment explanation
Indices: 5084333--5084386 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
5084323 TAATATCTTT
* *
5084333 ATTAACATAATATATATAAACATAAA
1 ATTAA-ATAATAAAT-TAAAAATAAA
*
5084359 ATTAAATAATAAATTAAAAATATA
1 ATTAAATAATAAATTAAAAATAAA
5084383 ATTA
1 ATTA
5084387 TATATATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 12 0.48
25 8 0.32
26 5 0.20
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (24 bp):
ATTAAATAATAAATTAAAAATAAA
Found at i:5084606 original size:24 final size:23
Alignment explanation
Indices: 5084548--5084604 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
5084538 CCATACCTCC
5084548 ATTGATTTTTTAAAAAATTATTA
1 ATTGATTTTTTAAAAAATTATTA
*
5084571 ATTGATTTTTTAAAAAATTATTT
1 ATTGATTTTTTAAAAAATTATTA
5084594 ATTGATTTTTT
1 ATTGATTTTTT
5084605 TATTGTAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (23 bp):
ATTGATTTTTTAAAAAATTATTA
Found at i:5085319 original size:19 final size:20
Alignment explanation
Indices: 5085279--5085325 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
5085269 TAAAATCTTT
*
5085279 AAAAAATACAAAAAAAGGAA
1 AAAAAATACAAAAAAAGAAA
5085299 AAAAAATGA-AAAAAAA-AAA
1 AAAAAAT-ACAAAAAAAGAAA
*
5085318 AACAAATA
1 AAAAAATA
5085326 GAGTGGCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 1 0.04
19 8 0.33
20 14 0.58
21 1 0.04
ACGTcount: A:0.83, C:0.04, G:0.06, T:0.06
Consensus pattern (20 bp):
AAAAAATACAAAAAAAGAAA
Found at i:5085913 original size:17 final size:17
Alignment explanation
Indices: 5085888--5085925 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
5085878 TAAAAAATGG
* *
5085888 AAAATAAAAAA-ACAAA
1 AAAAGAAAAAAGAAAAA
5085904 AAAAGAAAAAAGAAAAA
1 AAAAGAAAAAAGAAAAA
5085921 AAAAG
1 AAAAG
5085926 CTCATTTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.87, C:0.03, G:0.08, T:0.03
Consensus pattern (17 bp):
AAAAGAAAAAAGAAAAA
Found at i:5086322 original size:24 final size:25
Alignment explanation
Indices: 5086295--5086341 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
5086285 TTTTTATTAA
*
5086295 ATTAAAATATTAAATA-ATATATTT
1 ATTAAAATAATAAATATATATATTT
* *
5086319 ATTAATATAATACATATATATAT
1 ATTAAAATAATAAATATATATAT
5086342 AATTAAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATTAAAATAATAAATATATATATTT
Found at i:5086367 original size:12 final size:12
Alignment explanation
Indices: 5086336--5086378 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
5086326 TAATACATAT
5086336 ATATATAATTAA
1 ATATATAATTAA
*
5086348 ATAAATAATTACA
1 ATATATAATTA-A
*
5086361 A-ATATAATTTA
1 ATATATAATTAA
5086372 ATATATA
1 ATATATA
5086379 TAGTAACAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 2 0.08
12 22 0.85
13 2 0.08
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATATAATTAA
Found at i:5086689 original size:10 final size:10
Alignment explanation
Indices: 5086674--5086703 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
5086664 TTATCTAATT
5086674 AAAAAACAAA
1 AAAAAACAAA
*
5086684 AAAAAAGAAA
1 AAAAAACAAA
5086694 AAAAAACAAA
1 AAAAAACAAA
5086704 GATTAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.90, C:0.07, G:0.03, T:0.00
Consensus pattern (10 bp):
AAAAAACAAA
Found at i:5086721 original size:34 final size:35
Alignment explanation
Indices: 5086671--5086739 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 35
5086661 AAATTATCTA
5086671 ATTAAAAAACAAAAAAAA-AGAAAA-AAAAACAAAG
1 ATTAAAAAACAAAAAAAATA-AAAATAAAAACAAAG
* * *
5086705 ATTAAAAAAGACAAAAAATAAAAATAAAAATAAAG
1 ATTAAAAAACAAAAAAAATAAAAATAAAAACAAAG
5086740 TAGACTTGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
34 20 0.67
35 10 0.33
ACGTcount: A:0.80, C:0.04, G:0.06, T:0.10
Consensus pattern (35 bp):
ATTAAAAAACAAAAAAAATAAAAATAAAAACAAAG
Found at i:5086938 original size:31 final size:30
Alignment explanation
Indices: 5086895--5086969 Score: 73
Period size: 31 Copynumber: 2.5 Consensus size: 30
5086885 GAAAATTGAT
* *
5086895 AAAT-ATTTAAAAAGGAGAAAAGAAA-AAAA
1 AAATAATTAAAAAAGGACAAAA-AAAGAAAA
* *
5086924 AAGTAAATTAAAAAATGACAAAAAAAGAAAA
1 AAAT-AATTAAAAAAGGACAAAAAAAGAAAA
5086955 AAATAATTAAGAAAA
1 AAATAATTAA-AAAA
5086970 TAATTTGGCA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
29 3 0.08
30 9 0.24
31 25 0.68
ACGTcount: A:0.73, C:0.01, G:0.11, T:0.15
Consensus pattern (30 bp):
AAATAATTAAAAAAGGACAAAAAAAGAAAA
Found at i:5088868 original size:15 final size:15
Alignment explanation
Indices: 5088831--5088868 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
5088821 CATTGATCAA
5088831 AAGATTGATTTATTTT
1 AAGATT-ATTTATTTT
5088847 -AGTATTATTTATTTT
1 AAG-ATTATTTATTTT
5088862 AAGATTA
1 AAGATTA
5088869 AATGTATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (15 bp):
AAGATTATTTATTTT
Found at i:5088994 original size:34 final size:31
Alignment explanation
Indices: 5088956--5089040 Score: 89
Period size: 34 Copynumber: 2.6 Consensus size: 31
5088946 ATGTATTTTT
5088956 GAAAATAAATTTTCAAGAATATAATATGACTCTC
1 GAAAATAAATTTTCAAGAATATAATAT---TCTC
* ** * * *
5088990 GAAAATTAATTTTTGAGAACATAATATTTTT
1 GAAAATAAATTTTCAAGAATATAATATTCTC
5089021 GAAAATAAATTTTCAAGAAT
1 GAAAATAAATTTTCAAGAAT
5089041 TATATTGTAT
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
31 18 0.44
34 23 0.56
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.36
Consensus pattern (31 bp):
GAAAATAAATTTTCAAGAATATAATATTCTC
Found at i:5089020 original size:17 final size:14
Alignment explanation
Indices: 5088990--5089033 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 14
5088980 TATGACTCTC
*
5088990 GAAAATTAATTTTT
1 GAAAATAAATTTTT
5089004 GAGAACATAATATTTTT
1 GA-AA-ATAA-ATTTTT
5089021 GAAAATAAATTTT
1 GAAAATAAATTTT
5089034 CAAGAATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 7 0.27
15 6 0.23
16 5 0.19
17 8 0.31
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.43
Consensus pattern (14 bp):
GAAAATAAATTTTT
Done.