Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 269 of 352
Found at i:88362646 original size:21 final size:21
Alignment explanation
Indices: 88362622--88362694 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
88362612 GTACCTGGTC
*
88362622 CACACGGGCGTGTGCTTTAGT
1 CACACGGGCATGTGCTTTAGT
* *
88362643 CACACGGTCATGTGCCTCTT-TT
1 CACACGGGCATGTG-CT-TTAGT
* * *
88362665 CACACGAGCATGTGCCTTAGC
1 CACACGGGCATGTGCTTTAGT
88362686 CACACGGGC
1 CACACGGGC
88362695 GTGTACCCCT
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
20 2 0.05
21 21 0.52
22 15 0.38
23 2 0.05
ACGTcount: A:0.18, C:0.32, G:0.26, T:0.25
Consensus pattern (21 bp):
CACACGGGCATGTGCTTTAGT
Found at i:88365865 original size:23 final size:22
Alignment explanation
Indices: 88365839--88365883 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
88365829 CGAGTGTGTG
*
88365839 CCTCAATCACACGGCCTTGTGCC
1 CCTC-ATCACACGGCCATGTGCC
* *
88365862 CCTCTTCACACGGGCATGTGCC
1 CCTCATCACACGGCCATGTGCC
88365884 TCAGCCACAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.16, C:0.42, G:0.20, T:0.22
Consensus pattern (22 bp):
CCTCATCACACGGCCATGTGCC
Found at i:88367527 original size:36 final size:36
Alignment explanation
Indices: 88367487--88367558 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
88367477 CATGCTCAAT
88367487 TTAGGTCCTAACCTAATTAAATTGCAGGTTGCATAA
1 TTAGGTCCTAACCTAATTAAATTGCAGGTTGCATAA
88367523 TTAGGTCCTAACCTAATTAAATTGCAGGTTGCATAA
1 TTAGGTCCTAACCTAATTAAATTGCAGGTTGCATAA
88367559 CAACTCTAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (36 bp):
TTAGGTCCTAACCTAATTAAATTGCAGGTTGCATAA
Found at i:88370014 original size:20 final size:24
Alignment explanation
Indices: 88369965--88370016 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
88369955 AATAAAAATT
88369965 TTTAAAATATAATAAATCAAATGCA
1 TTTAAAATATAATAAATCAAAT-CA
88369990 TTTAAAATATAA-AAA-CAAAT-A
1 TTTAAAATATAATAAATCAAATCA
88370011 -TTAAAA
1 TTTAAAA
88370017 CAAAAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.22
21 1 0.04
23 5 0.19
24 3 0.11
25 12 0.44
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.31
Consensus pattern (24 bp):
TTTAAAATATAATAAATCAAATCA
Found at i:88371709 original size:74 final size:74
Alignment explanation
Indices: 88371588--88371735 Score: 242
Period size: 74 Copynumber: 2.0 Consensus size: 74
88371578 AAAGTGCTCT
* * *
88371588 AAAATTATATCCCACATTATGTGAAATAGAAGGTTTAACTAAAGATGAGCGCTATCGCGCATTGA
1 AAAATTACATCCAACATTATGTGAAATAGAAGGTTTAACTAAAGATGACCGCTATCGCGCATTGA
*
88371653 ACCAAATTC
66 ACAAAATTC
* *
88371662 AAAATTACATCCAACATTATGTGAAGTAGAAGGTTTAACTGAAGATGACCGCTATCGCGCATTGA
1 AAAATTACATCCAACATTATGTGAAATAGAAGGTTTAACTAAAGATGACCGCTATCGCGCATTGA
88371727 ACAAAATTC
66 ACAAAATTC
88371736 TAGATCATCC
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (74 bp):
AAAATTACATCCAACATTATGTGAAATAGAAGGTTTAACTAAAGATGACCGCTATCGCGCATTGA
ACAAAATTC
Found at i:88372210 original size:21 final size:19
Alignment explanation
Indices: 88372172--88372215 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
88372162 ATTTCTATAG
*
88372172 TATTATATATAATGATTTT
1 TATTATATATAATAATTTT
88372191 TATTCATATAATAATAA-TTT
1 TATT-ATAT-ATAATAATTTT
88372211 TATTA
1 TATTA
88372216 AGAATTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 5 0.23
20 11 0.50
21 6 0.27
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (19 bp):
TATTATATATAATAATTTT
Found at i:88372233 original size:20 final size:21
Alignment explanation
Indices: 88372210--88372253 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
88372200 AATAATAATT
88372210 TTATTA-AGAATTTTATTAAA
1 TTATTATAGAATTTTATTAAA
**
88372230 TTA-TATATTATTTTATTAAA
1 TTATTATAGAATTTTATTAAA
88372250 TTAT
1 TTAT
88372254 ATTTAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TTATTATAGAATTTTATTAAA
Found at i:88372261 original size:58 final size:59
Alignment explanation
Indices: 88372199--88372337 Score: 194
Period size: 58 Copynumber: 2.4 Consensus size: 59
88372189 TTTATTCATA
88372199 TAATAATAATTTTATTAAGAATTTTA-TTAAATTATATATTA-TTTTATTAAATTATATT
1 TAATAATAATTTTATTAA-AATTTTAGTTAAATTATATATTATTTTTATTAAATTATATT
* * * * *
88372257 TAATAATAATTATGTTAAAA-TATAGTTAAATTATTTATTATTTTTATTAAATTATTTT
1 TAATAATAATTTTATTAAAATTTTAGTTAAATTATATATTATTTTTATTAAATTATATT
*
88372315 TAATAATAATCTTATTAAAATTT
1 TAATAATAATTTTATTAAAATTT
88372338 AATAACAATA
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
56 3 0.04
57 16 0.23
58 49 0.71
59 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (59 bp):
TAATAATAATTTTATTAAAATTTTAGTTAAATTATATATTATTTTTATTAAATTATATT
Found at i:88386360 original size:29 final size:28
Alignment explanation
Indices: 88386319--88386383 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 28
88386309 AAAGATATTT
88386319 TTAATTAAAAAATATA-TAT-TATATTATA
1 TTAATTAAAAAATA-AGTATGT-TATTATA
*
88386347 TTAACTTAATAAATAAGTATGTTATTATA
1 TTAA-TTAAAAAATAAGTATGTTATTATA
88386376 TTATATTA
1 TTA-ATTA
88386384 TTATTAATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
28 5 0.16
29 25 0.78
30 2 0.06
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (28 bp):
TTAATTAAAAAATAAGTATGTTATTATA
Found at i:88386517 original size:8 final size:8
Alignment explanation
Indices: 88386504--88386551 Score: 68
Period size: 8 Copynumber: 6.5 Consensus size: 8
88386494 AAGATATTTA
88386504 ATATTATT
1 ATATTATT
88386512 ATATTATT
1 ATATTATT
88386520 ATATTATT
1 ATATTATT
88386528 ATATTA--
1 ATATTATT
88386534 A-A-TATT
1 ATATTATT
88386540 ATATTATT
1 ATATTATT
88386548 ATAT
1 ATAT
88386552 AAAATAAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
4 2 0.06
5 1 0.03
6 2 0.06
7 1 0.03
8 30 0.83
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
ATATTATT
Found at i:88386541 original size:20 final size:20
Alignment explanation
Indices: 88386516--88386557 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
88386506 ATTATTATAT
*
88386516 TATTATATTATTATATTAAA
1 TATTATATTATTATATAAAA
88386536 TATTATATTATTATATAAAA
1 TATTATATTATTATATAAAA
88386556 TA
1 TA
88386558 AACAAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TATTATATTATTATATAAAA
Found at i:88386616 original size:22 final size:22
Alignment explanation
Indices: 88386565--88386620 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 22
88386555 ATAAACAAAT
*
88386565 AAAAGAAATG-AAATAGAATAG
1 AAAAGAAATGAAAACAGAATAG
*
88386586 AAATTGAAATGAAAACAGAGA-AG
1 AAA-AGAAATGAAAACAGA-ATAG
88386609 AAAAGAAA-GAAA
1 AAAAGAAATGAAA
88386621 GAAAGGGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 7 0.24
22 10 0.34
23 11 0.38
24 1 0.03
ACGTcount: A:0.68, C:0.02, G:0.20, T:0.11
Consensus pattern (22 bp):
AAAAGAAATGAAAACAGAATAG
Found at i:88389086 original size:67 final size:67
Alignment explanation
Indices: 88388962--88389155 Score: 302
Period size: 67 Copynumber: 2.9 Consensus size: 67
88388952 TGAACATGAA
* * * *
88388962 CACTTAGTACCACCCATGTGACCTAGC--CATTTTATCTCGTTGCTCTCTTGTCTACATGGTGTC
1 CACTTAGAACCACACATGTGACCTAGCTACA-TTTATCCCGTAGCTCTCTTGTCTACATGGTGTC
88389025 CTT
65 CTT
*
88389028 CACTTGGAACCACACATGTGACCTAGCTACATTTATCCCGTAGCTCTCTTGTCTACATGGTGTCC
1 CACTTAGAACCACACATGTGACCTAGCTACATTTATCCCGTAGCTCTCTTGTCTACATGGTGTCC
88389093 TT
66 TT
* *
88389095 CACTTAGAACCACACATGCGACCTAGTTACATTTATCCCGTAGCTCTCTTGTCTACATGGT
1 CACTTAGAACCACACATGTGACCTAGCTACATTTATCCCGTAGCTCTCTTGTCTACATGGT
88389156 ATACATCCCG
Statistics
Matches: 118, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
66 24 0.20
67 92 0.78
68 2 0.02
ACGTcount: A:0.21, C:0.30, G:0.15, T:0.34
Consensus pattern (67 bp):
CACTTAGAACCACACATGTGACCTAGCTACATTTATCCCGTAGCTCTCTTGTCTACATGGTGTCC
TT
Found at i:88389969 original size:213 final size:211
Alignment explanation
Indices: 88389588--88389983 Score: 643
Period size: 213 Copynumber: 1.9 Consensus size: 211
88389578 GTCGAAGTAA
* * *
88389588 ACAACGACATTATAATAAAAAAAACATAAGAAAAAGTCCAAAATACAATAGAAACTTACACCACT
1 ACAACAACATTATAATAAAAAAAACATAAGAAAAAGTCCAAAATACAATAAAAACCTACACCACT
* * *
88389653 CCAAACAAAAAAAAACACAACAAAAGTTCAATTGACCAACGACAATAACAAACCAAACCAAACTA
66 CCAAAAAAAAAAAAACACAACAAAAGCTCAATTGACCAACAACAATAACAAACCAAACCAAACTA
*
88389718 ATAACAATAACACATAAGCTCAAAAACCATTATAGAATAGTTTAAGTTTCTTCATGAGTCCAAAT
131 ATAACAATAACACATAAGCTCAAAAACCATTATAGAATAGTTTAACTTTCTTCATGAGTCCAAAT
88389783 AAACAACAAAAACAAT
196 AAACAACAAAAACAAT
*
88389799 ACAACAACATTGTAATTAAAAAAAACATAAGCAAAAA-TCCAAAATACAATAAAAACCTACACCA
1 ACAACAACATTATAA-TAAAAAAAACATAAG-AAAAAGTCCAAAATACAATAAAAACCTACACCA
*
88389863 GTCCAAAAAAAAAAAGAACACAACAAAAGCTCAATT-ATCCAACAACAATAACAAACCAAACCAA
64 CTCCAAAAAAAAAAA-AACACAACAAAAGCTCAATTGA-CCAACAACAATAACAAACCAAACCAA
* *
88389927 ACTAATAACAATAACACATTAGTTCAAAAACCATTATAGAATAGTTTAACTTTCTTC
127 ACTAATAACAATAACACATAAGCTCAAAAACCATTATAGAATAGTTTAACTTTCTTC
88389984 TTGTGCTTCA
Statistics
Matches: 170, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
211 13 0.08
212 54 0.32
213 103 0.61
ACGTcount: A:0.56, C:0.21, G:0.05, T:0.18
Consensus pattern (211 bp):
ACAACAACATTATAATAAAAAAAACATAAGAAAAAGTCCAAAATACAATAAAAACCTACACCACT
CCAAAAAAAAAAAAACACAACAAAAGCTCAATTGACCAACAACAATAACAAACCAAACCAAACTA
ATAACAATAACACATAAGCTCAAAAACCATTATAGAATAGTTTAACTTTCTTCATGAGTCCAAAT
AAACAACAAAAACAAT
Found at i:88392402 original size:30 final size:30
Alignment explanation
Indices: 88392367--88392433 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
88392357 GTTAAATTAA
*
88392367 AAATTAATTAATATAATAGTATAATAGCAT
1 AAATTAATTAATATAATAGTACAATAGCAT
88392397 AAATTAATTAATATAATAGTACAATAGCAT
1 AAATTAATTAATATAATAGTACAATAGCAT
88392427 AAATTAA
1 AAATTAA
88392434 AAATAGATAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.34
Consensus pattern (30 bp):
AAATTAATTAATATAATAGTACAATAGCAT
Found at i:88394537 original size:9 final size:9
Alignment explanation
Indices: 88394525--88394554 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
88394515 AGTTGATTCA
*
88394525 ATTAATTCG
1 ATTAACTCG
88394534 ATTAACTCG
1 ATTAACTCG
88394543 ATTAACTCG
1 ATTAACTCG
88394552 ATT
1 ATT
88394555 CGAATAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (9 bp):
ATTAACTCG
Found at i:88400251 original size:19 final size:19
Alignment explanation
Indices: 88400227--88400279 Score: 99
Period size: 18 Copynumber: 2.8 Consensus size: 19
88400217 AATTTTAGTG
88400227 ATTTTAATTTTTAAAAATA
1 ATTTTAATTTTTAAAAATA
88400246 ATTTTAA-TTTTAAAAATA
1 ATTTTAATTTTTAAAAATA
88400264 ATTTTAATTTTTAAAA
1 ATTTTAATTTTTAAAA
88400280 TTTAATTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 18 0.55
19 15 0.45
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTTAATTTTTAAAAATA
Found at i:88400869 original size:55 final size:55
Alignment explanation
Indices: 88400808--88400915 Score: 180
Period size: 55 Copynumber: 2.0 Consensus size: 55
88400798 ATAAGCCGTG
* * *
88400808 GTGAGATGGGATATTGAGAGAATATTTCTTTTTAATGCGTTGATTTGATGTTTTA
1 GTGAGATGAGATATTGAGAGAATATTCCTTTTTAATGCATTGATTTGATGTTTTA
*
88400863 GTGAGATGAGATATTGAGAGAATATTCCTTTTTACTGCATTGATTTGATGTTT
1 GTGAGATGAGATATTGAGAGAATATTCCTTTTTAATGCATTGATTTGATGTTT
88400916 GGATAACTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.26, C:0.06, G:0.24, T:0.44
Consensus pattern (55 bp):
GTGAGATGAGATATTGAGAGAATATTCCTTTTTAATGCATTGATTTGATGTTTTA
Found at i:88403822 original size:38 final size:39
Alignment explanation
Indices: 88403740--88403821 Score: 121
Period size: 39 Copynumber: 2.1 Consensus size: 39
88403730 TATTTAATGC
*
88403740 AATAAAATATTTATTATATTTATTTGTGTTTTTTAATAT
1 AATAAAATATTTATTATATTTATTAGTGTTTTTTAATAT
88403779 AATAAAATATTTATTA-ATTTATGGTAGTGTTTTTTTAATAT
1 AATAAAATATTTATTATATTTAT--TAGTG-TTTTTTAATAT
88403820 AA
1 AA
88403822 ATACTTTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
38 6 0.15
39 16 0.41
40 4 0.10
41 13 0.33
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (39 bp):
AATAAAATATTTATTATATTTATTAGTGTTTTTTAATAT
Found at i:88404799 original size:20 final size:19
Alignment explanation
Indices: 88404766--88404805 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
88404756 AATTTAATTT
88404766 TTTTAATTCAAATTTTAAAA
1 TTTTAATTCAAA-TTTAAAA
**
88404786 TTTTAATTTTAATTTAAAA
1 TTTTAATTCAAATTTAAAA
88404805 T
1 T
88404806 AGTATTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTAATTCAAATTTAAAA
Found at i:88407535 original size:5 final size:6
Alignment explanation
Indices: 88407520--88407544 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
88407510 TTAAATTTAA
88407520 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
88407545 GTCAAAGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:88411316 original size:34 final size:35
Alignment explanation
Indices: 88411233--88411396 Score: 145
Period size: 35 Copynumber: 4.7 Consensus size: 35
88411223 TCCTCATTGA
* *
88411233 AATACCATACCTACATTTTACAACTC-GCTATGGGA-
1 AATACCATACCTACGTTTCACAACTCAG-TAT-GGAT
** * **
88411268 AATGTCATATCTACGTTTCTTAACTCAGTA-GGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* *
88411302 AATACCATACCTACGTTTCACAACTCATTATGGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* *
88411337 AATACCATACCTATGTTTCACAACTTAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * * **
88411372 GATACCACACATATATTTCACAACT
1 AATACCATACCTACGTTTCACAACT
88411397 TTGCCATGGA
Statistics
Matches: 104, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
33 3 0.03
34 24 0.23
35 76 0.73
36 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.33
Consensus pattern (35 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGAT
Found at i:88411355 original size:69 final size:70
Alignment explanation
Indices: 88411233--88411396 Score: 168
Period size: 69 Copynumber: 2.4 Consensus size: 70
88411223 TCCTCATTGA
* * ** * **
88411233 AATACCATACCTACATTTTACAACTCGCTATGGGAAATGTCATATCTACGTTTCTTAACTCAGTA
1 AATACCATACCTACATTTCACAACTCACTATGGGAAATACCATACCTACGTTTCACAACTCAGTA
88411298 -GGAT
66 TGGAT
* * ** * *
88411302 AATACCATACCTACGTTTCACAACTCATTATGGTTAATACCATACCTATGTTTCACAACTTAGTA
1 AATACCATACCTACATTTCACAACTCACTATGGGAAATACCATACCTACGTTTCACAACTCAGTA
88411367 TGGAT
66 TGGAT
* * * *
88411372 GATACCACACATATATTTCACAACT
1 AATACCATACCTACATTTCACAACT
88411397 TTGCCATGGA
Statistics
Matches: 76, Mismatches: 18, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
69 52 0.68
70 24 0.32
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.33
Consensus pattern (70 bp):
AATACCATACCTACATTTCACAACTCACTATGGGAAATACCATACCTACGTTTCACAACTCAGTA
TGGAT
Found at i:88417810 original size:29 final size:30
Alignment explanation
Indices: 88417777--88417833 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
88417767 TAAAAAATTG
*
88417777 GCCTAATCCTACAAAT-ATTCAAAAAACCA
1 GCCTAATCCTACAAATAATTAAAAAAACCA
**
88417806 GCCTAATCCTTTAAATAATTAAAAAAAC
1 GCCTAATCCTACAAATAATTAAAAAAAC
88417834 TGCATTTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.49, C:0.23, G:0.04, T:0.25
Consensus pattern (30 bp):
GCCTAATCCTACAAATAATTAAAAAAACCA
Found at i:88424176 original size:4 final size:4
Alignment explanation
Indices: 88424167--88424215 Score: 66
Period size: 4 Copynumber: 12.2 Consensus size: 4
88424157 ATTTTAAGGT
88424167 ATAA ATAA ATAA A-ACA ATAA ATAA ATAA ATAA ATAA A-ACA ATAA ATAA
1 ATAA ATAA ATAA ATA-A ATAA ATAA ATAA ATAA ATAA ATA-A ATAA ATAA
88424215 A
1 A
88424216 GGGTTAGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
3 2 0.05
4 37 0.90
5 2 0.05
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (4 bp):
ATAA
Found at i:88424187 original size:12 final size:12
Alignment explanation
Indices: 88424170--88424215 Score: 76
Period size: 12 Copynumber: 3.8 Consensus size: 12
88424160 TTAAGGTATA
88424170 AATAAATAAAAC
1 AATAAATAAAAC
88424182 AATAAATAAATA-
1 AATAAATAAA-AC
88424194 AATAAATAAAAC
1 AATAAATAAAAC
88424206 AATAAATAAA
1 AATAAATAAA
88424216 GGGTTAGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
11 1 0.03
12 30 0.94
13 1 0.03
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (12 bp):
AATAAATAAAAC
Found at i:88424194 original size:24 final size:24
Alignment explanation
Indices: 88424167--88424215 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
88424157 ATTTTAAGGT
88424167 ATAAATAAATAAAACAATAAATAA
1 ATAAATAAATAAAACAATAAATAA
88424191 ATAAATAAATAAAACAATAAATAA
1 ATAAATAAATAAAACAATAAATAA
88424215 A
1 A
88424216 GGGTTAGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (24 bp):
ATAAATAAATAAAACAATAAATAA
Found at i:88425155 original size:14 final size:16
Alignment explanation
Indices: 88425129--88425167 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
88425119 TTTCTGTCTC
88425129 TCTGT-TTTC-TTGCT
1 TCTGTGTTTCTTTGCT
88425143 T-T-TGTTTCTTTGCT
1 TCTGTGTTTCTTTGCT
88425157 TCTGTGTTTCT
1 TCTGTGTTTCT
88425168 ACTTTTTTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
12 1 0.05
13 5 0.24
14 7 0.33
15 1 0.05
16 7 0.33
ACGTcount: A:0.00, C:0.18, G:0.15, T:0.67
Consensus pattern (16 bp):
TCTGTGTTTCTTTGCT
Found at i:88425830 original size:94 final size:95
Alignment explanation
Indices: 88425732--88426708 Score: 872
Period size: 94 Copynumber: 10.4 Consensus size: 95
88425722 TTTTTGTCGT
* * * * * *
88425732 TTCAATTCGACCCACTACAACTTCTGGGGTATAAGATTTGTAGCTTCACCT-TACTCCATTGCAA
1 TTCAATTCGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTCTACTCCACTACAA
* * *
88425796 CTTTAGGGAGATAATATTTTCTATGGTAGA
66 CTTCAGGGAGATAAGATTTGCTATGGTAGA
* * * * * ** *
88425826 TTCAA-TCTAACCCACTGTAACTTCAAGGATATAGGATTTGTAGCTTCA-ATCTACTTTACTATA
1 TTCAATTC-GACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTCTACTCCACTACA
*
88425889 ACTTCAGGGAGATAAGGTTTGCTATGGTAGA
65 ACTTCAGGGAGATAAGATTTGCTATGGTAGA
* * * ** *
88425920 TTCAATTCGACCCACTGTAACTTCATGGGTATAGGATTTGCAGCTT-AAATCTACTCTACTACAA
1 TTCAATTCGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTCTACTCCACTACAA
* * * *
88425984 CTTTAGGGAGACAAGATTTGCTATGCTAAA
66 CTTCAGGGAGATAAGATTTGCTATGGTAGA
* * *
88426014 TTCAA-TCTGA--C-CTGTCGAAGCTTTAGGGGTATAGGATTTATAGCTTAAATCTC--CTCCAC
1 TTCAATTC-GACCCACTG-C-AA-CTTCAGGGGTATAGGATTTGTAGCTT-CATCTCTACTCCAC
* * * *
88426073 TGCAACTTCAGAGAGATATGATTCGCTATGGTAGA
61 TACAACTTCAGGGAGATAAGATTTGCTATGGTAGA
* * * * * *
88426108 TTCAATCCGACCCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCACCT-TACTCTATTGCAA
1 TTCAATTCGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTCTACTCCACTACAA
* * * *
88426172 CTTCAGGGAGATAATATTTGCAATGATAGC
66 CTTCAGGGAGATAAGATTTGCTATGGTAGA
* * * * * *
88426202 TTCAATTCGATCCGCTGCAACTTCAGGGGTATAGGATTTGTAACTTTAATCT-T-CTCCACCATA
1 TTCAATTCGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGC-TTCATCTCTACTCCACTACA
* * * **
88426265 ATTTTAGAGAGATAAGATTCACTATGGTAGA
65 ACTTCAGGGAGATAAGATTTGCTATGGTAGA
* * *
88426296 TTCAA-TCTGACCCACTGCAACTTCAGGGGTATAGGATTTGCAGCTTCA--TCTGCTCCACTATA
1 TTCAATTC-GACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTCTACTCCACTACA
*
88426358 ACTTTAGGGAGATAAGATTTGCTATGGT-GA
65 ACTTCAGGGAGATAAGATTTGCTATGGTAGA
* * * *
88426388 TTCAATTCGACCCACTACAACTTCAGGGGTATAGGATTTTTAGCTTCA--TCTACTGCACTGCAA
1 TTCAATTCGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTCTACTCCACTACAA
* * *
88426451 CCTCAGGTAGATAAGATTCGCTATGGTAG-
66 CTTCAGGGAGATAAGATTTGCTATGGTAGA
* * * * ** * *
88426480 TTTAAATCTGACCCATTGCAACTTTA-GGGTATAAAATCTGTAGCTTCAATCTGT--TCCACTAC
1 TTCAATTC-GACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTC-ATCTCTACTCCACTAC
* *
88426542 AACTTCAGGGAGATAAGATTTACTATGGTGGA
64 AACTTCAGGGAGATAAGATTTGCTATGGTAGA
* * * * * *
88426574 TTTAATTCGACCCATTTCAACTTCAGGGGTATAGGATTTGTAGCTTTA-ATCTGCTCCACTACAA
1 TTCAATTCGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTCTACTCCACTACAA
* * *
88426638 CTTTAGGGAAATAAGATTCGCTATGGTA-A
66 CTTCAGGGAGATAAGATTTGCTATGGTAGA
* *
88426667 CTTCAA-TCTGACCCACTGCAACTTCAGGGGTATTGGGTTTGT
1 -TTCAATTC-GACCCACTGCAACTTCAGGGGTATAGGATTTGT
88426709 GGTTTCACTG
Statistics
Matches: 714, Mismatches: 137, Indels: 64
0.78 0.15 0.07
Matches are distributed among these distances:
91 4 0.01
92 105 0.15
93 118 0.17
94 466 0.65
95 13 0.02
96 5 0.01
97 3 0.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (95 bp):
TTCAATTCGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTCTACTCCACTACAA
CTTCAGGGAGATAAGATTTGCTATGGTAGA
Found at i:88426019 original size:188 final size:188
Alignment explanation
Indices: 88425732--88426708 Score: 987
Period size: 188 Copynumber: 5.2 Consensus size: 188
88425722 TTTTTGTCGT
* * * * * *
88425732 TTCAATTC-GACCCACTACAACTTCTGGGGTATAAGATTTGTAGCTTCACCTTACTCCATTGCAA
1 TTCAATTCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATC-TACTCCACTACAA
* * * * *
88425796 CTTTAGGGAGATAATATTTTCTATGGTAGATTCAA-TCTAACCCACTGTAACTTCAAGGATATAG
65 CTTTAGGGAGATAAGATTTGCTATGGTAGATTCAATTC-GACCCACTGTAACTTCAGGGGTATAG
** * * *
88425860 GATTTGTAGCTTCAATCTACTTTACTATAACTTCAGGGAGATAAGGTTTGCTATGGTAGA
129 GATTTGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTCGCTATGGTAGA
* * * * *
88425920 TTCAATTC-GACCCACTGTAACTTCATGGGTATAGGATTTGCAGCTTAAATCTACTCTACTACAA
1 TTCAATTCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTT-CATCTACTCCACTACAA
* * * *
88425984 CTTTAGGGAGACAAGATTTGCTATGCTAAATTCAA-TCTGA--C-CTGTCGAAGCTTTAGGGGTA
65 CTTTAGGGAGATAAGATTTGCTATGGTAGATTCAATTC-GACCCACTGT--AA-CTTCAGGGGTA
* * * * * *
88426045 TAGGATTTATAGCTTAAATCTCCTCCACTGCAACTTCAGAGAGATATGATTCGCTATGGTAGA
126 TAGGATTTGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTCGCTATGGTAGA
* * * * * *
88426108 TTCAA-TCCGACCCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCACCTTACTCTATTGCAA
1 TTCAATTCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATC-TACTCCACTACAA
* * * * * * * *
88426172 CTTCAGGGAGATAATATTTGCAATGATAGCTTCAATTCGATCCGCTGCAACTTCAGGGGTATAGG
65 CTTTAGGGAGATAAGATTTGCTATGGTAGATTCAATTCGACCCACTGTAACTTCAGGGGTATAGG
* * * * * * * * *
88426237 ATTTGTAACTTTAATCTTCTCCACCATAATTTTAGAGAGATAAGATTCACTATGGTAGA
130 ATTTGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTCGCTATGGTAGA
* * *
88426296 TTCAA-TCTGACCCACTGCAACTTCAGGGGTATAGGATTTGCAGCTTCATCTGCTCCACTATAAC
1 TTCAATTCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTACTCCACTACAAC
**
88426360 TTTAGGGAGATAAGATTTGCTATGGT-GATTCAATTCGACCCACTACAACTTCAGGGGTATAGGA
66 TTTAGGGAGATAAGATTTGCTATGGTAGATTCAATTCGACCCACTGTAACTTCAGGGGTATAGGA
* * * * *
88426424 TTTTTAGCTTC-ATCTACTGCACTGCAACCTCAGGTAGATAAGATTCGCTATGGTAG-
131 TTTGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTCGCTATGGTAGA
* * * * ** * **
88426480 TTTAAATCTGACCCATTGCAACTTTA-GGGTATAAAATCTGTAGCTTCAATCTGTTCCACTACAA
1 TTCAATTCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTC-ATCTACTCCACTACAA
* * * * *
88426544 CTTCAGGGAGATAAGATTTACTATGGTGGATTTAATTCGACCCA-TTTCAACTTCAGGGGTATAG
65 CTTTAGGGAGATAAGATTTGCTATGGTAGATTCAATTCGACCCACTGT-AACTTCAGGGGTATAG
* * * *
88426608 GATTTGTAGCTTTAATCTGCTCCACTACAACTTTAGGGAAATAAGATTCGCTATGGTA-A
129 GATTTGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTCGCTATGGTAGA
* *
88426667 CTTCAA-TCTGACCCACTGCAACTTCAGGGGTATTGGGTTTGT
1 -TTCAATTCTGACCCACTGCAACTTCAGGGGTATAGGATTTGT
88426709 GGTTTCACTG
Statistics
Matches: 651, Mismatches: 120, Indels: 36
0.81 0.15 0.04
Matches are distributed among these distances:
184 21 0.03
185 96 0.15
186 85 0.13
187 92 0.14
188 347 0.53
189 6 0.01
190 1 0.00
191 3 0.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (188 bp):
TTCAATTCTGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTACTCCACTACAAC
TTTAGGGAGATAAGATTTGCTATGGTAGATTCAATTCGACCCACTGTAACTTCAGGGGTATAGGA
TTTGTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTCGCTATGGTAGA
Found at i:88426226 original size:282 final size:277
Alignment explanation
Indices: 88425749--88426717 Score: 1007
Period size: 282 Copynumber: 3.5 Consensus size: 277
88425739 CGACCCACTA
* * * * * * * *
88425749 CAACTTCTGGGGTATAAGATTTGTAGCTTCACCTTACTCCATTGCAACTTTAGGGAGATAATATT
1 CAACTTCAGGGGTATAGGATTTGTAGCTTAATC-TGCTCCACTACAACTTTAGGGAGATAAGATT
** ** * * *
88425814 TTCTATGGTAGATTCAATCTAACCCACTGTAACTTCAAGGATATAGGATTTGTAGCTTCAATCTA
65 CGCTATGGTAGATTCAATCCGACCCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCACT-TA
* ** * *
88425879 CTTTACTATAACTTCAGGGAGATAAGGTTTGCTATGGTAGATTCAATTCGACCCACTGTAACTTC
129 CTCTACTGCAACTTCAGGGAGATAAGATTTGCTATGGTAG-TTCAATTCGACCCACTGCAACTTC
* * * *
88425944 ATGGGTATAGGATTTGCAGCTTAAATCTACTCTACTACAACTTTAGGGAGACAAGATTTGCTATG
193 A-GGGTATAGGATTTGTAGCTTAAATCTACTCCACTACAACTTTAGGGAGATAAGATTTACTATG
* *
88426009 CTAAATTCAATCTGA-CCTGT
257 GTAGATTCAATCTGACCCTGT
* * * * * * *
88426029 CGAAGCTTTAGGGGTATAGGATTTATAGCTTAAATCTCCTCCACTGCAACTTCAGAGAGATATGA
1 C-AA-CTTCAGGGGTATAGGATTTGTAGCTT-AATCTGCTCCACTACAACTTTAGGGAGATAAGA
88426094 TTCGCTATGGTAGATTCAATCCGACCCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCACCT
63 TTCGCTATGGTAGATTCAATCCGACCCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCA-CT
* * * * * *
88426159 TACTCTATTGCAACTTCAGGGAGATAATATTTGCAATGATAGCTTCAATTCGATCCGCTGCAACT
127 TACTCTACTGCAACTTCAGGGAGATAAGATTTGCTATGGTAG-TTCAATTCGACCCACTGCAACT
* * * * * * * *
88426224 TCAGGGGTATAGGATTTGTAACTTTAATCTTCTCCACCATAATTTTAGAGAGATAAGATTCACTA
191 TCA-GGGTATAGGATTTGTAGCTTAAATCTACTCCACTACAACTTTAGGGAGATAAGATTTACTA
88426289 TGGTAGATTCAATCTGACCCACTG-
255 TGGTAGATTCAATCTGA-CC-CTGT
* * * *
88426313 CAACTTCAGGGGTATAGGATTTGCAGCTTCATCTGCTCCACTATAACTTTAGGGAGATAAGATTT
1 CAACTTCAGGGGTATAGGATTTGTAGCTTAATCTGCTCCACTACAACTTTAGGGAGATAAGATTC
* * * *
88426378 GCTATGGT-GATTCAATTCGACCCACTACAACTTCAGGGGTATAGGATTTTTAGCTTCA-TCTAC
66 GCTATGGTAGATTCAATCCGACCCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCACT-TAC
* * * * * * *
88426441 TGC-ACTGCAACCTCAGGTAGATAAGATTCGCTATGGTAGTTTAAATCTGACCCATTGCAACTTT
130 T-CTACTGCAACTTCAGGGAGATAAGATTTGCTATGGTAGTTCAATTC-GACCCACTGCAACTTC
** * * ** *
88426505 AGGGTATAAAATCTGTAGCTTCAATCTGTTCCACTACAACTTCAGGGAGATAAGATTTACTATGG
193 AGGGTATAGGATTTGTAGCTTAAATCTACTCCACTACAACTTTAGGGAGATAAGATTTACTATGG
* * *
88426570 TGGATTTAAT-TCGACCCATTT
258 TAGATTCAATCT-GACCC-TGT
*
88426591 CAACTTCAGGGGTATAGGATTTGTAGCTTTAATCTGCTCCACTACAACTTTAGGGAAATAAGATT
1 CAACTTCAGGGGTATAGGATTTGTAGC-TTAATCTGCTCCACTACAACTTTAGGGAGATAAGATT
* * * * * *
88426656 CGCTATGGTA-ACTTCAATCTGACCCACTGCAACTTCAGGGGTATTGGGTTTGTGGTTTCACT
65 CGCTATGGTAGA-TTCAATCCGACCCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCACT
88426718 GATCTGTTAC
Statistics
Matches: 569, Mismatches: 103, Indels: 33
0.81 0.15 0.05
Matches are distributed among these distances:
276 1 0.00
277 4 0.01
278 94 0.17
279 89 0.16
280 88 0.15
281 39 0.07
282 244 0.43
283 5 0.01
284 2 0.00
285 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (277 bp):
CAACTTCAGGGGTATAGGATTTGTAGCTTAATCTGCTCCACTACAACTTTAGGGAGATAAGATTC
GCTATGGTAGATTCAATCCGACCCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCACTTACT
CTACTGCAACTTCAGGGAGATAAGATTTGCTATGGTAGTTCAATTCGACCCACTGCAACTTCAGG
GTATAGGATTTGTAGCTTAAATCTACTCCACTACAACTTTAGGGAGATAAGATTTACTATGGTAG
ATTCAATCTGACCCTGT
Found at i:88426426 original size:49 final size:49
Alignment explanation
Indices: 88426286--88426699 Score: 170
Period size: 43 Copynumber: 8.8 Consensus size: 49
88426276 ATAAGATTCA
*
88426286 CTATGGTAGATTCAATCTGACCCACTGCAACTTCAGGGGTATAGGATTTG
1 CTATGGT-GATTCAATCTGACCCACTACAACTTCAGGGGTATAGGATTTG
* * * *
88426336 C-A----GCTTC-ATCTG-CTCCACTATAACTTTAGGGAG-ATAAGATTTG
1 CTATGGTGATTCAATCTGAC-CCACTACAACTTCAGGG-GTATAGGATTTG
88426379 CTATGGTGATTCAAT-TCGACCCACTACAACTTCAGGGGTATAGGATTT-
1 CTATGGTGATTCAATCT-GACCCACTACAACTTCAGGGGTATAGGATTTG
* * * * * * * *
88426427 -T-T--AGCTTC-ATCT-ACTGCACTGCAACCTCAGGTAG-ATAAGATTCG
1 CTATGGTGATTCAATCTGAC-CCACTACAACTTCAGG-GGTATAGGATTTG
* * * * * ** *
88426471 CTATGGTAGTTTAAATCTGACCCATTGCAACTTTA-GGGTATAAAATCTG
1 CTATGGT-GATTCAATCTGACCCACTACAACTTCAGGGGTATAGGATTTG
* ** * *
88426520 -TA----GCTTCAATCTGTTCCACTACAACTTCAGGGAG-ATAAGATTTA
1 CTATGGTGATTCAATCTGACCCACTACAACTTCAGGG-GTATAGGATTTG
* * *
88426564 CTATGGTGGATTTAAT-TCGACCCATTTCAACTTCAGGGGTATAGGATTTG
1 CTATGGT-GATTCAATCT-GACCCACTACAACTTCAGGGGTATAGGATTTG
* * ** * *
88426614 -TA-GCT--TT-AATCTG-CTCCACTACAACTTTAGGGAAATAAGATTCG
1 CTATGGTGATTCAATCTGAC-CCACTACAACTTCAGGGGTATAGGATTTG
* *
88426658 CTATGGTAACTTCAATCTGACCCACTGCAACTTCAGGGGTAT
1 CTATGGTGA-TTCAATCTGACCCACTACAACTTCAGGGGTAT
88426700 TGGGTTTGTG
Statistics
Matches: 263, Mismatches: 59, Indels: 84
0.65 0.15 0.21
Matches are distributed among these distances:
42 3 0.01
43 72 0.27
44 47 0.18
45 9 0.03
46 4 0.02
47 1 0.00
48 11 0.04
49 44 0.17
50 69 0.26
51 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (49 bp):
CTATGGTGATTCAATCTGACCCACTACAACTTCAGGGGTATAGGATTTG
Found at i:88427909 original size:44 final size:43
Alignment explanation
Indices: 88427823--88428556 Score: 482
Period size: 44 Copynumber: 16.4 Consensus size: 43
88427813 CCACTCTTCC
* * * * ***
88427823 GCAACTTCAGAGAGATAAGACTTATAGCTTCGATCCATTCCACT
1 GCAACTTCAGGGAGATAAG-TTTGTAGCTTCAATCTGCTCCACT
* * *
88427867 ACAACTTCAGAGAGATAAGTCTTGTAGCTTCAATATGCTCCACT
1 GCAACTTCAGGGAGATAAGT-TTGTAGCTTCAATCTGCTCCACT
* *
88427911 GTAACTTCAGGGAGATGAGATTTGT-GTCTTCAATCTGCTCCACT
1 GCAACTTCAGGGAGATAAG-TTTGTAG-CTTCAATCTGCTCCACT
* * * **
88427955 GCAACCTCAGGGAGATAAAGTGTGTAGCTTTAATCTGCTCTGCT
1 GCAACTTCAGGGAGAT-AAGTTTGTAGCTTCAATCTGCTCCACT
*** * ** * * *
88427999 GCAACTTCAAAAAGATAATATTTGCTATTTTTAACCTACTCCACT
1 GCAACTTCAGGGAGATAA-GTTTG-TAGCTTCAATCTGCTCCACT
* *
88428044 GCAA-TATCAGGGAGATAAGGTTTGCAGCTTTAATCTGCTCCACT
1 GCAACT-TCAGGGAGATAA-GTTTGTAGCTTCAATCTGCTCCACT
* * * *
88428088 ACAACTTCAAGGAGATAAGATTTGTAGCTTATCTTCAATCTGTTCCACA
1 GCAACTTCAGGGAGATAAG-TTTGTAG-----CTTCAATCTGCTCCACT
* * ** * * *
88428137 GCAACTTCAGGAAGATAAAATTTGTTTATTTTTAACCTACTCCACT
1 GCAACTTCAGGGAGAT-AAGTTTG--TAGCTTCAATCTGCTCCACT
* * * * * *
88428183 GTAACTTCAGGGAAATAAGGGTTATAGCTTTAATCTGCTCTACT
1 GCAACTTCAGGGAGATAA-GTTTGTAGCTTCAATCTGCTCCACT
* * * * *
88428227 GCAACTTTAGAGAGATAAGATTTGCTATCTTCGATCTACTCCACT
1 GCAACTTCAGGGAGATAAG-TTTG-TAGCTTCAATCTGCTCCACT
* * * * * *
88428272 GTAACTTTAGGGAGATAAAATCTATAACTTCAATCTGCTCCACT
1 GCAACTTCAGGGAGAT-AAGTTTGTAGCTTCAATCTGCTCCACT
* * * ** * *
88428316 GCAACTTTAGGGAAATAAGATTCGCTATTTTCAGTTTGCTCCACT
1 GCAACTTCAGGGAGATAAG-TTTG-TAGCTTCAATCTGCTCCACT
* * * *
88428361 GCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCCCCACT
1 GCAACTTCAGGGAGATAAG-TTTGTAGCTTCAATCTGCTCCACT
* * * *
88428405 GCAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTTCTCTACT
1 GCAACTTCAGGGAGATAA-GTTTGTAGCTTCAATCTGCTCCACT
* * * *
88428449 GCAACTTCAGAGAGATAAGATTTTCTATCTTCTATCTGCTCCACT
1 GCAACTTCAGGGAGATAAG--TTTGTAGCTTCAATCTGCTCCACT
* * * *
88428494 GCAACTTCAGGGAGATATGATTTGTGGCTTTAATTTGCTCCACT
1 GCAACTTCAGGGAGATAAG-TTTGTAGCTTCAATCTGCTCCACT
88428538 GCAACTTCAGGGAGATAAG
1 GCAACTTCAGGGAGATAAG
88428557 ATGAAATTTT
Statistics
Matches: 529, Mismatches: 134, Indels: 54
0.74 0.19 0.08
Matches are distributed among these distances:
43 8 0.02
44 317 0.60
45 141 0.27
46 28 0.05
49 31 0.06
50 2 0.00
51 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (43 bp):
GCAACTTCAGGGAGATAAGTTTGTAGCTTCAATCTGCTCCACT
Found at i:88428556 original size:133 final size:133
Alignment explanation
Indices: 88427823--88428555 Score: 530
Period size: 133 Copynumber: 5.5 Consensus size: 133
88427813 CCACTCTTCC
* * * ** *** * * *
88427823 GCAACTTCAGAGAGATAAGACTTATAGCTTCGATCCATTCCACTACAACTTCAGAGAGAT-AAGT
1 GCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAAAT
* * * * * * * * *
88427887 CTTGTAGCTTCAATATGCTCCACTGTAACTTCAGGGAGATGAGA-TTTGTGTCTTCAATCTGCTC
66 -TTATAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTTCTATCTTCTATCTGCTC
88427951 CACT
130 CACT
* * ** *** *
88427955 GCAACCTCAGGGAGATAA-AGTGTGTAGCTTTAATCTGCTCTGCTGCAACTTCAAAAAGATAATA
1 GCAACTTCAGGGAGATAAGA-TTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAAA
* ** * * * *
88428019 TTTGCTATTTTTAACCTACTCCACTGCAA-TATCAGGGAGATAAGGTTTGC-AGCTT-TAATCTG
65 TTT-ATAGCTTTAATCTACTCCACTGCAACT-TCAGGGAGATAAGATTTTCTATCTTCT-ATCTG
88428081 CTCCACT
127 CTCCACT
* * * * *
88428088 ACAACTTCAAGGAGATAAGATTTGTAGCTTATCTTCAATCTGTTCCACAGCAACTTCAGGAAGAT
1 GCAACTTCAGGGAGATAAGATTTGTAGC---T-TT-AATCTGCTCCACTGCAACTTCAGGGAGAT
* ** * * * ** * *
88428153 AAAATTTGTTTATTTTTAACCTACTCCACTGTAACTTCAGGGAAATAAG-GGTTATAGCTT-TAA
61 AAAA-TT-TATAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTTCTATCTTCT-A
*
88428216 TCTGCTCTACT
123 TCTGCTCCACT
* * * ** * * *
88428227 GCAACTTTAGAGAGATAAGATTTGCTATCTTCGATCTACTCCACTGTAACTTTAGGGAGATAAAA
1 GCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAAA
* * * * * * ** * *
88428292 TCTATAACTTCAATCTGCTCCACTGCAACTTTAGGGAAATAAGATTCGCTATTTTC-AGTTTGCT
65 TTTATAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTTCTATCTTCTA-TCTGCT
88428356 CCACT
129 CCACT
* * * * * **
88428361 GCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCCCCACTGCAACTTCAGGGAGATAAGGT
1 GCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAAAT
* * *
88428426 TTATAGCTTTAATCTTCTCTACTGCAACTTCAGAGAGATAAGATTTTCTATCTTCTATCTGCTCC
66 TTATAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTTCTATCTTCTATCTGCTCC
88428491 ACT
131 ACT
* * *
88428494 GCAACTTCAGGGAGATATGATTTGTGGCTTTAATTTGCTCCACTGCAACTTCAGGGAGATAA
1 GCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
88428556 GATGAAATTT
Statistics
Matches: 466, Mismatches: 114, Indels: 41
0.75 0.18 0.07
Matches are distributed among these distances:
131 1 0.00
132 46 0.10
133 242 0.52
134 39 0.08
135 26 0.06
136 2 0.00
137 3 0.01
138 27 0.06
139 75 0.16
140 5 0.01
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (133 bp):
GCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAAAT
TTATAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTTCTATCTTCTATCTGCTCC
ACT
Found at i:88428558 original size:89 final size:89
Alignment explanation
Indices: 88427861--88428558 Score: 575
Period size: 89 Copynumber: 7.8 Consensus size: 89
88427851 TTCGATCCAT
* * * * *
88427861 TCCACTACAACTTCAGAGAGATAAG-TCTTGTAGCTTCAATATGCTCCACTGTAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAGATAAGAT-TTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * *
88427925 ATGAGA-TTTGTGTCTTCAATCTGC
65 ATAAGATTTTCTATCTTCAATCTGC
* * ** ***
88427949 TCCACTGCAACCTCAGGGAGATAA-AGTGTGTAGCTTTAATCTGCTCTGCTGCAACTTCAAAAAG
1 TCCACTGCAACTTCAGGGAGATAAGA-TTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * * * * *
88428013 ATAATATTTGCTATTTTTAACCTAC
65 ATAAGATTTTCTATCTTCAATCTGC
* * * *
88428038 TCCACTGCAA-TATCAGGGAGATAAGGTTTGCAGCTTTAATCTGCTCCACTACAACTTCAAGGAG
1 TCCACTGCAACT-TCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
*
88428102 ATAAGATTTGTAGCTTATCTTCAATCTGT
65 ATAAGATTT-T--C-TATCTTCAATCTGC
* * * ** * * *
88428131 TCCACAGCAACTTCAGGAAGATAAAATTTGTTTATTTTTAACCTACTCCACTGTAACTTCAGGGA
1 TCCACTGCAACTTCAGGGAGATAAGATTTG--TAGCTTTAATCTGCTCCACTGCAACTTCAGGGA
* ** * * *
88428196 AATAAG-GGTTATAGCTTTAATCTGC
64 GATAAGATTTTCTATCTTCAATCTGC
* * * * ** * * *
88428221 TCTACTGCAACTTTAGAGAGATAAGATTTGCTATCTTCGATCTACTCCACTGTAACTTTAGGGAG
1 TCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * * *
88428286 ATAA-AATCTATAACTTCAATCTGC
65 ATAAGATTTTCTATCTTCAATCTGC
* * * * * *
88428310 TCCACTGCAACTTTAGGGAAATAAGATTCGCTA-TTTTCAGTTTGCTCCACTGCAACTTCAGGGA
1 TCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTT-AATCTGCTCCACTGCAACTTCAGGGA
* * * *
88428374 GATAAGA-CTTGTAACTTCAACCTGC
64 GATAAGATTTTCTATCTTCAATCTGC
* * * * * *
88428399 CCCACTGCAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTTCTCTACTGCAACTTCAGAGAGA
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
*
88428464 TAAGATTTTCTATCTTCTATCTGC
66 TAAGATTTTCTATCTTCAATCTGC
* * *
88428488 TCCACTGCAACTTCAGGGAGATATGATTTGTGGCTTTAATTTGCTCCACTGCAACTTCAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
88428553 TAAGAT
66 TAAGAT
88428559 GAAATTTTAT
Statistics
Matches: 477, Mismatches: 116, Indels: 33
0.76 0.19 0.05
Matches are distributed among these distances:
88 85 0.18
89 289 0.61
90 36 0.08
92 1 0.00
93 34 0.07
94 2 0.00
95 30 0.06
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (89 bp):
TCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
TAAGATTTTCTATCTTCAATCTGC
Found at i:88434824 original size:4 final size:4
Alignment explanation
Indices: 88434811--88434880 Score: 54
Period size: 4 Copynumber: 17.8 Consensus size: 4
88434801 ACAAGGATTA
* * * *
88434811 AAAT -AAT AAAT AAAT AAAT GAAT GAAT -AAT ATAT AAAT AAGT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * *
88434857 GAAC AAAT AAAT GAAT AAAAT AAA
1 AAAT AAAT AAAT AAAT -AAAT AAA
88434881 AGGAATAATG
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
3 6 0.12
4 43 0.83
5 3 0.06
ACGTcount: A:0.67, C:0.01, G:0.07, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:88434838 original size:12 final size:12
Alignment explanation
Indices: 88434815--88434880 Score: 62
Period size: 12 Copynumber: 5.5 Consensus size: 12
88434805 GGATTAAAAT
*
88434815 AATAAATAAATA
1 AATAAATGAATA
*
88434827 AATGAATGAAT-
1 AATAAATGAATA
* *
88434838 AATATATAAATA
1 AATAAATGAATA
* *
88434850 AGTAAATGAACA
1 AATAAATGAATA
88434862 AATAAATGAATAA
1 AATAAATGAAT-A
88434875 AATAAA
1 AATAAA
88434881 AGGAATAATG
Statistics
Matches: 41, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
11 8 0.20
12 26 0.63
13 7 0.17
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.24
Consensus pattern (12 bp):
AATAAATGAATA
Found at i:88434846 original size:23 final size:23
Alignment explanation
Indices: 88434812--88434889 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
88434802 CAAGGATTAA
*
88434812 AATAATAAATAAATAAATGAATG
1 AATAATAAATAAATAAATAAATG
* *
88434835 AATAATATATAAATAAGTAAATG
1 AATAATAAATAAATAAATAAATG
* * *
88434858 AACAAATAAATGAATAAAATAAAAGG
1 AA-TAATAAATAAAT-AAAT-AAATG
88434884 AATAAT
1 AATAAT
88434890 GAGTAAATGA
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
23 22 0.51
24 9 0.21
25 6 0.14
26 6 0.14
ACGTcount: A:0.65, C:0.01, G:0.09, T:0.24
Consensus pattern (23 bp):
AATAATAAATAAATAAATAAATG
Found at i:88434865 original size:27 final size:26
Alignment explanation
Indices: 88434812--88434880 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 26
88434802 CAAGGATTAA
**
88434812 AATAATAAATAAATAAATGAATGAAT
1 AATAATAAATAAATAAATGAACAAAT
*
88434838 AATATATAAATAAGTAAATGAACAAAT
1 AATA-ATAAATAAATAAATGAACAAAT
88434865 AAATGAATAAAATAAA
1 -AAT-AAT-AAATAAA
88434881 AGGAATAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 4 0.11
27 19 0.54
28 5 0.14
29 7 0.20
ACGTcount: A:0.67, C:0.01, G:0.07, T:0.25
Consensus pattern (26 bp):
AATAATAAATAAATAAATGAACAAAT
Found at i:88437815 original size:2 final size:2
Alignment explanation
Indices: 88437808--88437839 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
88437798 AAGTTGACTT
88437808 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
88437840 CGAGGCATTG
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:88439455 original size:8 final size:8
Alignment explanation
Indices: 88439442--88439468 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
88439432 AACACTTTGA
88439442 ATTTGTTT
1 ATTTGTTT
88439450 ATTTGTTT
1 ATTTGTTT
88439458 ATTTGTTT
1 ATTTGTTT
88439466 ATT
1 ATT
88439469 CTTCAGCACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.11, T:0.74
Consensus pattern (8 bp):
ATTTGTTT
Found at i:88440547 original size:17 final size:17
Alignment explanation
Indices: 88440525--88440577 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
88440515 GGAAAACATT
88440525 TATTTTAATAGTTTTAG
1 TATTTTAATAGTTTTAG
**
88440542 TATTTTAA-A-CATT--
1 TATTTTAATAGTTTTAG
*
88440555 TATTTTAATGGTTTTAG
1 TATTTTAATAGTTTTAG
88440572 TATTTT
1 TATTTT
88440578 TTATGTACTA
Statistics
Matches: 27, Mismatches: 5, Indels: 8
0.68 0.12 0.20
Matches are distributed among these distances:
13 8 0.30
15 4 0.15
16 1 0.04
17 14 0.52
ACGTcount: A:0.28, C:0.02, G:0.09, T:0.60
Consensus pattern (17 bp):
TATTTTAATAGTTTTAG
Found at i:88440552 original size:30 final size:30
Alignment explanation
Indices: 88440518--88440577 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
88440508 ATTTATTGGA
88440518 AAACATTTATTTTAATAGTTTTAGTATTTT
1 AAACATTTATTTTAATAGTTTTAGTATTTT
*
88440548 AAACATTTATTTTAATGGTTTTAGTATTTT
1 AAACATTTATTTTAATAGTTTTAGTATTTT
88440578 TTATGTACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.57
Consensus pattern (30 bp):
AAACATTTATTTTAATAGTTTTAGTATTTT
Found at i:88440632 original size:14 final size:14
Alignment explanation
Indices: 88440595--88440635 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 14
88440585 CTATATTTTT
88440595 TAAAAAAATT-ATA
1 TAAAAAAATTAATA
*
88440608 T-AATAAA-TAATA
1 TAAAAAAATTAATA
88440620 TAAAAAAATTAATA
1 TAAAAAAATTAATA
88440634 TA
1 TA
88440636 GATAGGTCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
11 1 0.04
12 9 0.39
13 6 0.26
14 7 0.30
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
TAAAAAAATTAATA
Found at i:88443316 original size:22 final size:22
Alignment explanation
Indices: 88443288--88443336 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
88443278 ACAAAATATT
88443288 CTTACTCTATTAGACTTAACGC
1 CTTACTCTATTAGACTTAACGC
* *
88443310 CTTACTCTATTAGATTTAACGT
1 CTTACTCTATTAGACTTAACGC
88443332 CTTAC
1 CTTAC
88443337 AGGTAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.41
Consensus pattern (22 bp):
CTTACTCTATTAGACTTAACGC
Found at i:88452195 original size:87 final size:85
Alignment explanation
Indices: 88452040--88452213 Score: 206
Period size: 87 Copynumber: 2.0 Consensus size: 85
88452030 TAGTATACTC
* * *
88452040 AATGATAATATATATAATAAATACATGTATTGCATGTTTACAACAGTGAAGTACAAAGGGAACAT
1 AATGATAATATATATAAGAAATACATGTATTGCATGTTTACAACAATGAAGTACAAAGAGAACAT
88452105 ATTGATGGAATAAATGGAGT
66 ATTGATGGAATAAATGGAGT
* * ** * * *
88452125 AATGATAATATATATCTAGGAAATACATGTATTGTATGTTTGTAATAATGGAGTACGAAGAGAA-
1 AATGATAATATATA--TAAGAAATACATGTATTGCATGTTTACAACAATGAAGTACAAAGAGAAC
* *
88452189 ATTATTGATGGGATAGATGGAGT
64 A-TATTGATGGAATAAATGGAGT
88452212 AA
1 AA
88452214 GATTTGGCGG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
85 14 0.19
86 1 0.01
87 59 0.80
ACGTcount: A:0.43, C:0.05, G:0.21, T:0.31
Consensus pattern (85 bp):
AATGATAATATATATAAGAAATACATGTATTGCATGTTTACAACAATGAAGTACAAAGAGAACAT
ATTGATGGAATAAATGGAGT
Found at i:88452846 original size:27 final size:27
Alignment explanation
Indices: 88452790--88452931 Score: 108
Period size: 27 Copynumber: 5.3 Consensus size: 27
88452780 AGGGTAGACT
*
88452790 GCCAGGACATTAAACATGGGATAGTGC
1 GCCAGGACATTAAACATGGGATAGTCC
* *
88452817 GCCAGGACATTAAACATGTGATGGTCC
1 GCCAGGACATTAAACATGGGATAGTCC
* * * * *
88452844 GCCAAGATAATAAATAAGGGATAGTCC
1 GCCAGGACATTAAACATGGGATAGTCC
* * * *
88452871 -ACTGAGACAATAAACATGTGATAGTCC
1 GCCAG-GACATTAAACATGGGATAGTCC
* * *
88452898 ACC-GAGACACTAAACATGAGATAGTCC
1 GCCAG-GACATTAAACATGGGATAGTCC
*
88452925 ACCAGGA
1 GCCAGGA
88452932 TAGTAGTTAG
Statistics
Matches: 92, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
26 1 0.01
27 89 0.97
28 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.18
Consensus pattern (27 bp):
GCCAGGACATTAAACATGGGATAGTCC
Found at i:88452921 original size:54 final size:54
Alignment explanation
Indices: 88452822--88452926 Score: 129
Period size: 54 Copynumber: 1.9 Consensus size: 54
88452812 AGTGCGCCAG
* * * * * *
88452822 GACATTAAACATGTGATGGTCCGCCAAGATAATAAATAAGGGATAGTCCACTGA
1 GACAATAAACATGTGATAGTCCACCAAGACAATAAACAAGAGATAGTCCACTGA
* * *
88452876 GACAATAAACATGTGATAGTCCACCGAGACACTAAACATGAGATAGTCCAC
1 GACAATAAACATGTGATAGTCCACCAAGACAATAAACAAGAGATAGTCCAC
88452927 CAGGATAGTA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (54 bp):
GACAATAAACATGTGATAGTCCACCAAGACAATAAACAAGAGATAGTCCACTGA
Found at i:88475553 original size:20 final size:20
Alignment explanation
Indices: 88475530--88475567 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
88475520 TTAAATTCTA
*
88475530 AAAGATAAATACAAATAAAT
1 AAAGATAAATAAAAATAAAT
*
88475550 AAAGATAATTAAAAATAA
1 AAAGATAAATAAAAATAA
88475568 CTCTAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAGATAAATAAAAATAAAT
Found at i:88476309 original size:96 final size:97
Alignment explanation
Indices: 88476184--88476363 Score: 272
Period size: 96 Copynumber: 1.9 Consensus size: 97
88476174 AATTAATTAA
* ** * *
88476184 TTTATTATTGCTTAAGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAACCAAGTACCCCA
1 TTTATTATTGCTTAAGAACATATCAAACCTTTTAACGCGAAGAGAGATGACAACCAAGCACCCCA
88476249 CCCGGGTTACTCAGCCCAATATGCTCCTAATT
66 CCCGGGTTACTCAGCCCAATATGCTCCTAATT
* * *
88476281 TTTATT-TTTCTTAAGAACATATCAAACCTTTTAACGCGAAGAGAGATGACAGCCAAGCACCTCA
1 TTTATTATTGCTTAAGAACATATCAAACCTTTTAACGCGAAGAGAGATGACAACCAAGCACCCCA
*
88476345 CCCTGGTTACTCAGCCCAA
66 CCCGGGTTACTCAGCCCAA
88476364 CACATTCTTA
Statistics
Matches: 74, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
96 68 0.92
97 6 0.08
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (97 bp):
TTTATTATTGCTTAAGAACATATCAAACCTTTTAACGCGAAGAGAGATGACAACCAAGCACCCCA
CCCGGGTTACTCAGCCCAATATGCTCCTAATT
Found at i:88477510 original size:12 final size:11
Alignment explanation
Indices: 88477502--88477584 Score: 61
Period size: 12 Copynumber: 7.5 Consensus size: 11
88477492 AAAATAAAGT
88477502 AATAAATAATA
1 AATAAATAATA
88477513 AA-ATAA-AATA
1 AATA-AATAATA
88477523 AAGT-AATGAATA
1 AA-TAAAT-AATA
88477535 AATAAATAATA
1 AATAAATAATA
88477546 AGATAAATAA-A
1 A-ATAAATAATA
88477557 TAATAAGATAA-A
1 -AATAA-ATAATA
*
88477569 AATAAAGAA-A
1 AATAAATAATA
88477579 AATAAA
1 AATAAA
88477585 AATTAGGTTG
Statistics
Matches: 62, Mismatches: 1, Indels: 19
0.76 0.01 0.23
Matches are distributed among these distances:
10 19 0.31
11 20 0.32
12 23 0.37
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (11 bp):
AATAAATAATA
Found at i:88477539 original size:16 final size:16
Alignment explanation
Indices: 88477502--88477568 Score: 91
Period size: 16 Copynumber: 4.1 Consensus size: 16
88477492 AAAATAAAGT
*
88477502 AATAAATAATAAAATAA
1 AATAAATAATAAGAT-A
*
88477519 AATAAAGTAATGA-ATA
1 AATAAA-TAATAAGATA
88477535 AATAAATAATAAGATA
1 AATAAATAATAAGATA
88477551 AATAAATAATAAGATA
1 AATAAATAATAAGATA
88477567 AA
1 AA
88477569 AATAAAGAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
15 5 0.11
16 28 0.61
17 8 0.17
18 5 0.11
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (16 bp):
AATAAATAATAAGATA
Found at i:88477583 original size:16 final size:18
Alignment explanation
Indices: 88477534--88477587 Score: 62
Period size: 16 Copynumber: 3.2 Consensus size: 18
88477524 AGTAATGAAT
*
88477534 AAATAAATAATAAGAT--
1 AAATAAAGAATAAGATAA
*
88477550 AAATAAATAATAAGATAA
1 AAATAAAGAATAAGATAA
88477568 AAATAAAGAA-AA-ATAA
1 AAATAAAGAATAAGATAA
88477584 AAAT
1 AAAT
88477588 TAGGTTGCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
16 24 0.69
17 2 0.06
18 9 0.26
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (18 bp):
AAATAAAGAATAAGATAA
Found at i:88480720 original size:18 final size:18
Alignment explanation
Indices: 88480697--88480733 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
88480687 TTTGGGAAAA
88480697 GAAAGAGTTTCTTATGTG
1 GAAAGAGTTTCTTATGTG
88480715 GAAAGAGTTTCTTATGTG
1 GAAAGAGTTTCTTATGTG
88480733 G
1 G
88480734 CGAGATTCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.05, G:0.30, T:0.38
Consensus pattern (18 bp):
GAAAGAGTTTCTTATGTG
Found at i:88486196 original size:21 final size:22
Alignment explanation
Indices: 88486170--88486216 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
88486160 CTCTGCTCAA
*
88486170 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
88486191 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
88486213 ACTC
1 ACTC
88486217 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:88495046 original size:21 final size:21
Alignment explanation
Indices: 88495020--88495062 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
88495010 ATACTTTTTC
* *
88495020 AAAGTATTTTCTTTTGGGTTA
1 AAAGTATTTTCCTTTGGATTA
88495041 AAAGTATTTTCCTTTGGATTA
1 AAAGTATTTTCCTTTGGATTA
88495062 A
1 A
88495063 TAAACGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.07, G:0.16, T:0.49
Consensus pattern (21 bp):
AAAGTATTTTCCTTTGGATTA
Found at i:88495768 original size:99 final size:99
Alignment explanation
Indices: 88495597--88495786 Score: 362
Period size: 99 Copynumber: 1.9 Consensus size: 99
88495587 ATAACTAAGT
88495597 TAATATATGAAATTTAAATTTCAATAAAATTTGTAAACTTTTAGTTAATTCTTTGTTTCAATTAA
1 TAATATATGAAATTTAAATTTCAATAAAATTTGTAAACTTTTAGTTAATTCTTTGTTTCAATTAA
88495662 TTTTAACTCCAAACTCAAATCTTAATACTTCAGC
66 TTTTAACTCCAAACTCAAATCTTAATACTTCAGC
* *
88495696 TAATATATGGAATTTAAATTTCAATAAAATTTGTAAGCTTTTAGTTAATTCTTTGTTTCAATTAA
1 TAATATATGAAATTTAAATTTCAATAAAATTTGTAAACTTTTAGTTAATTCTTTGTTTCAATTAA
88495761 TTTTAACTCCAAACTCAAATCTTAAT
66 TTTTAACTCCAAACTCAAATCTTAAT
88495787 CATATAAATT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 89 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (99 bp):
TAATATATGAAATTTAAATTTCAATAAAATTTGTAAACTTTTAGTTAATTCTTTGTTTCAATTAA
TTTTAACTCCAAACTCAAATCTTAATACTTCAGC
Found at i:88505008 original size:14 final size:14
Alignment explanation
Indices: 88504989--88505017 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
88504979 ACAATGCCAA
88504989 TGAGAGAATTTCGT
1 TGAGAGAATTTCGT
88505003 TGAGAGAATTTCGT
1 TGAGAGAATTTCGT
88505017 T
1 T
88505018 AACTCTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.07, G:0.28, T:0.38
Consensus pattern (14 bp):
TGAGAGAATTTCGT
Found at i:88506049 original size:107 final size:106
Alignment explanation
Indices: 88505825--88506143 Score: 421
Period size: 107 Copynumber: 3.0 Consensus size: 106
88505815 GATTTTGGGT
* *
88505825 TATTCAATTACTCATCAGGAAGATTTGATTTTCTTGATTTTTTTCCTTTCTTCATCAT-TTT-CG
1 TATTCAATTTCTCATCAGGGAGATTTGATTTTCTTGATTTTTTTCCTTTCTTCATCATCTTTAC-
**
88505888 TTGTTAGGAAAAAAAAGGATTTAGGGTTTTAAGCAATTCAACATC
65 -TGTTA-GAAAAAAAA-GATTTAGGGTTTTGGGCAATTCAACATC
* * * *
88505933 TATTCAATTTCTCATTAGGGAGATTTGATTTTCTTGATTTTTTTCCTTTTTTTTATCTTCTTTAC
1 TATTCAATTTCTCATCAGGGAGATTTGATTTTCTTGATTTTTTTCC-TTTCTTCATCATCTTTAC
*
88505998 TGTTAGAAAAAAAAGATTTAGGGTTTTGGGTAATTCAACATC
65 TGTTAGAAAAAAAAGATTTAGGGTTTTGGGCAATTCAACATC
* * * * *
88506040 TATTTAATTTCTCATCAAGGAGATTTGATTTTCCT-ATTTTTTTCCCTTTCTTCATCGTCTTCAC
1 TATTCAATTTCTCATCAGGGAGATTTGATTTTCTTGATTTTTTT-CCTTTCTTCATCATCTTTAC
*
88506104 TGTTAG-AAAAAATGATTTAGGGTTTTGGGCAATTCAACAT
65 TGTTAGAAAAAAAAGATTTAGGGTTTTGGGCAATTCAACAT
88506144 TAGCAATGGA
Statistics
Matches: 188, Mismatches: 19, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
105 32 0.17
106 28 0.15
107 58 0.31
108 52 0.28
109 14 0.07
110 3 0.02
111 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (106 bp):
TATTCAATTTCTCATCAGGGAGATTTGATTTTCTTGATTTTTTTCCTTTCTTCATCATCTTTACT
GTTAGAAAAAAAAGATTTAGGGTTTTGGGCAATTCAACATC
Found at i:88511139 original size:18 final size:18
Alignment explanation
Indices: 88511116--88511159 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
88511106 CTTGAGAAAA
**
88511116 TTGAGAGAATTTAAAGAG
1 TTGAGAGAATAGAAAGAG
*
88511134 TTGAGAGAATAGAAAGAT
1 TTGAGAGAATAGAAAGAG
88511152 TTGAGAGA
1 TTGAGAGA
88511160 GAAAAAGGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.25
Consensus pattern (18 bp):
TTGAGAGAATAGAAAGAG
Found at i:88519412 original size:3 final size:3
Alignment explanation
Indices: 88519355--88519396 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
88519345 AAAATGAATG
88519355 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
88519397 TGGAAAAGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:88521995 original size:179 final size:179
Alignment explanation
Indices: 88521691--88522050 Score: 666
Period size: 179 Copynumber: 2.0 Consensus size: 179
88521681 TAATTAGTTG
*
88521691 ATAGAGAAGTTTCCTCCTACATTTCCTGTTATAACCCATAGCTTTGTAGCAAGGCGTTCATCATT
1 ATAGAGAAGTTTCCCCCTACATTTCCTGTTATAACCCATAGCTTTGTAGCAAGGCGTTCATCATT
* *
88521756 TCCTTCAGAGTCTGATTTTTCGTTCAGATACTCCTTTTGATTGAGGAGAGTATAGTGGTGTCACT
66 TCCTTCAGAGTCTGATTTTTCGTTCAGATACTCCATTTGATTGAGGACAGTATAGTGGTGTCACT
88521821 TCATGAATAATACCATTTTGTGCACAGTATTCACCAAATGGTTCAACAT
131 TCATGAATAATACCATTTTGTGCACAGTATTCACCAAATGGTTCAACAT
88521870 ATAGAGAAGTTTCCCCCTACATTTCCTGTTATAACCCATAGCTTTGTAGCAAGGCGTTCATCATT
1 ATAGAGAAGTTTCCCCCTACATTTCCTGTTATAACCCATAGCTTTGTAGCAAGGCGTTCATCATT
* *
88521935 TCCTTCAGAGTCTGATTTTTTGTTCAGATACTCCATTTGATTGAGGACAGTATGGTGGTGTCACT
66 TCCTTCAGAGTCTGATTTTTCGTTCAGATACTCCATTTGATTGAGGACAGTATAGTGGTGTCACT
*
88522000 TCATGAATAATACCATTTTGTGCACAGTATTCATCAAATGGTTCAACAT
131 TCATGAATAATACCATTTTGTGCACAGTATTCACCAAATGGTTCAACAT
88522049 AT
1 AT
88522051 TCACCACCAC
Statistics
Matches: 175, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
179 175 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.36
Consensus pattern (179 bp):
ATAGAGAAGTTTCCCCCTACATTTCCTGTTATAACCCATAGCTTTGTAGCAAGGCGTTCATCATT
TCCTTCAGAGTCTGATTTTTCGTTCAGATACTCCATTTGATTGAGGACAGTATAGTGGTGTCACT
TCATGAATAATACCATTTTGTGCACAGTATTCACCAAATGGTTCAACAT
Found at i:88523339 original size:13 final size:13
Alignment explanation
Indices: 88523305--88523339 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
88523295 TTAGGCCTAT
88523305 AGCGGCACTTTTA
1 AGCGGCACTTTTA
*
88523318 AACGGCACTTTTA
1 AGCGGCACTTTTA
*
88523331 AGCGCCACT
1 AGCGGCACT
88523340 AAAACTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (13 bp):
AGCGGCACTTTTA
Found at i:88523459 original size:45 final size:44
Alignment explanation
Indices: 88523408--88523514 Score: 128
Period size: 43 Copynumber: 2.4 Consensus size: 44
88523398 GCTAAAGTTT
* * *
88523408 GCGGCGTTTATTTGTAAAAAGCGCTGCTAAAGGTCATGTTCTTTA
1 GCGGCGTTT-TGTGGAAAAAGCGCCGCTAAAGGTCATGTTCTTTA
* *
88523453 GCGGCG-TTTGTGGCAAAAGCGCCGCTAAAGGTCATGTTTTTTA
1 GCGGCGTTTTGTGGAAAAAGCGCCGCTAAAGGTCATGTTCTTTA
*
88523496 TCGGCG-TTTGTGGCAAAAA
1 GCGGCGTTTTGTGG-AAAAA
88523515 TGCCGCTGTC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
43 42 0.78
44 6 0.11
45 6 0.11
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (44 bp):
GCGGCGTTTTGTGGAAAAAGCGCCGCTAAAGGTCATGTTCTTTA
Found at i:88523480 original size:43 final size:43
Alignment explanation
Indices: 88523424--88523513 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
88523414 TTTATTTGTA
*
88523424 AAAAGCGCTGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGC
1 AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGC
* *
88523467 AAAAGCGCCGCTAAAGGTCATGTTTTTTATCGGCGTTTGTGGC
1 AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGC
88523510 AAAA
1 AAAA
88523514 ATGCCGCTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGC
Found at i:88524360 original size:135 final size:133
Alignment explanation
Indices: 88524027--88524681 Score: 434
Period size: 132 Copynumber: 4.9 Consensus size: 133
88524017 TTCACCTTAG
* * * * *
88524027 AAAACATGAGTGAAATTCCGAA-GAGATATTCAATTATTTTGAACAAACGGGAGATTGCAACCCA
1 AAAACATGAGTGAAATTCCGAAGGA-ATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCA
* * ** *
88524091 ACACGATAGGGCACTATTCCCCGAATTGCCAAACATCGAACATTTCTTTCGTTTTAAAGAGTTTC
65 GCACGATAGGGCACGATT-CCCGAATTGCCAAACATCGAACATCACCTTCGTTTTAAAGAGTTTC
*
88524156 TAGAA
129 TAAAA
* * * * * * * *
88524161 AAAA-GTGAGTGAAATTCCGAAGGGATCTTCGATTGTTTCGAACAAATGAAAAAGCGTAACCCAG
1 AAAACATGAGTGAAATTCCGAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAG
* * * *
88524225 CACGATAGGGCACGATTCTCAAATTGCCAAACATTGAACATCACCTTCGTTTTGAAATG-TTTTC
66 CACGATAGGGCACGATTCCCGAATTGCCAAACATCGAACATCACCTTCGTTTT-AAA-GAGTTTC
88524289 TTAAAA
129 -TAAAA
* * * *
88524295 AAAACATGAGTGAAA-ACCTAAAGGAATATTCGATTGTTTTGACCAAACGAGAAATCACAACCCA
1 AAAACATGAGTGAAATTCC-GAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCA
* * * ** ** * *
88524359 GCACGATAGGGCATGATTCCCGAATTGTCAAACACCGAGTATTGCCTTCGTTTTAGAGGGTTT-T
65 GCACGATAGGGCACGATTCCCGAATTGCCAAACATCGAACATCACCTTCGTTTTAAAGAGTTTCT
***
88524423 -TGG
130 AAAA
* * * ** * ** * * * *
88524426 AAGACCTGAGTGGAATTTTGAAGGGATATTTTATTATTTTGAGCAAACGAGAAATTGCAACCCAA
1 AAAACATGAGTGAAATTCCGAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAG
* * * * * *
88524491 CATGTTAGGGCACGATTCCGCGAATTGCCAAATATC-AA-ATCTCGTCTTCGCTTTAAAGAATTT
66 CACGATAGGGCACGATTCC-CGAATTGCCAAACATCGAACATCAC--CTTCGTTTTAAAGAGTTT
*
88524554 -T-TAA
128 CTAAAA
* * * ** * ** * * *
88524558 GAGACATGGGTGAAATTCTAAAGGGACCTTCGATTACTTTT-AGCAAACGAGAAATTGCAACCCA
1 AAAACATGAGTGAAATTCCGAAGGAATATTCGATT-GTTTTGAACAAACGAGAAATCGCAACCCA
* * * * * * *
88524622 ACACGTTAGGACACAATTCCACGAATTGCCAAGA-ATCGAATATCGCCTTCGTTTTGAAGA
65 GCACGATAGGGCACGATTCC-CGAATTGCCAA-ACATCGAACATCACCTTCGTTTTAAAGA
88524682 ATTCTTAATA
Statistics
Matches: 408, Mismatches: 98, Indels: 32
0.76 0.18 0.06
Matches are distributed among these distances:
130 3 0.01
131 66 0.16
132 151 0.37
133 75 0.18
134 25 0.06
135 88 0.22
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (133 bp):
AAAACATGAGTGAAATTCCGAAGGAATATTCGATTGTTTTGAACAAACGAGAAATCGCAACCCAG
CACGATAGGGCACGATTCCCGAATTGCCAAACATCGAACATCACCTTCGTTTTAAAGAGTTTCTA
AAA
Found at i:88527537 original size:43 final size:43
Alignment explanation
Indices: 88527471--88527633 Score: 200
Period size: 43 Copynumber: 3.8 Consensus size: 43
88527461 GCCCACTACA
* * * * *
88527471 GCCGCTAAAGAATATGACTTTTAGCTGCGCTTTTATCACAAAC
1 GCCGCTAAAGAACATGACCTTTAACGGCGCTTTTACCACAAAC
** *
88527514 GCCGCTAAAGAACATGACCTTTAGTGGCACTTTTACCACAAAC
1 GCCGCTAAAGAACATGACCTTTAACGGCGCTTTTACCACAAAC
* * *
88527557 GCCGCTAAAGGACATGACCTTTAACGGCGCTTTCAGCACAAAC
1 GCCGCTAAAGAACATGACCTTTAACGGCGCTTTTACCACAAAC
* * *
88527600 GTCACTAAAGAACATGTCCTTTAACGGCGCTTTT
1 GCCGCTAAAGAACATGACCTTTAACGGCGCTTTT
88527634 TGCTCGTATT
Statistics
Matches: 103, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 103 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (43 bp):
GCCGCTAAAGAACATGACCTTTAACGGCGCTTTTACCACAAAC
Found at i:88527925 original size:21 final size:21
Alignment explanation
Indices: 88527901--88527945 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
88527891 TTCTGCTCTG
*
88527901 CTCTGCTTCCCTCGTTACTGC
1 CTCTGCTTCCCTCGCTACTGC
*
88527922 CTCTGCTTCCCTCGCTATTGC
1 CTCTGCTTCCCTCGCTACTGC
88527943 CTC
1 CTC
88527946 CGCTCTAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.04, C:0.44, G:0.13, T:0.38
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTACTGC
Found at i:88528348 original size:13 final size:14
Alignment explanation
Indices: 88528322--88528350 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
88528312 ACTAATGACG
88528322 AATTAAACCATTAT
1 AATTAAACCATTAT
88528336 AATTAAA-CATTAT
1 AATTAAACCATTAT
88528349 AA
1 AA
88528351 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:88531743 original size:24 final size:24
Alignment explanation
Indices: 88531711--88531763 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
88531701 AGTGTTTTAT
88531711 AATATAATATTAATTTTAGATACA
1 AATATAATATTAATTTTAGATACA
*
88531735 AATATAATATTAATTTTAGTTACA
1 AATATAATATTAATTTTAGATACA
88531759 AATAT
1 AATAT
88531764 CATAACATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (24 bp):
AATATAATATTAATTTTAGATACA
Found at i:88534134 original size:114 final size:114
Alignment explanation
Indices: 88533954--88534164 Score: 266
Period size: 115 Copynumber: 1.9 Consensus size: 114
88533944 GCTAAAAGGG
* * * * *
88533954 TAACCTATTGCGGCATTTTACCAAAATGCCACTAATAAACCAATAAAACATTGACGTTTTGATTT
1 TAACCTATTGCGGCACTTTACAAAAATGCCACTAACAAACCAATAAAACATCGACGTTTAGATTT
*
88534019 -AAACAAAATAATCTTTTGTGGCGTTTATACCCTAGCACTGCTAAATCC
66 AAAACAAAATAATCTTTTGCGGCGTTTATACCCTAGCACTGCTAAATCC
* * *
88534067 TAACCTATTGCGGCGCTTTACAAAAAATGCCACTAACAAATCCGATAAAACGA-CGCCGTTTAG-
1 TAACCTATTGCGGCACTTTAC-AAAAATGCCACTAACAAA-CCAATAAAAC-ATCGACGTTTAGA
* * *
88534130 TTTAAAACATAATGATCTTTTGCGGCGTTTTTACC
63 TTTAAAACAAAATAATCTTTTGCGGCGTTTATACC
88534165 TTTTGCGGCG
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
113 19 0.23
114 19 0.23
115 43 0.52
116 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.31
Consensus pattern (114 bp):
TAACCTATTGCGGCACTTTACAAAAATGCCACTAACAAACCAATAAAACATCGACGTTTAGATTT
AAAACAAAATAATCTTTTGCGGCGTTTATACCCTAGCACTGCTAAATCC
Found at i:88534252 original size:15 final size:15
Alignment explanation
Indices: 88534221--88534253 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
88534211 GAAATTATTT
88534221 AATAAATAAATTAAA
1 AATAAATAAATTAAA
88534236 AATAATATAAATTAAA
1 AATAA-ATAAATTAAA
88534252 AA
1 AA
88534254 ACAATCAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AATAAATAAATTAAA
Found at i:88534390 original size:16 final size:16
Alignment explanation
Indices: 88534369--88534422 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
88534359 AGAATTAGAT
88534369 AAAATTTGAAATCTTG
1 AAAATTTGAAATCTTG
88534385 AAAA-TT---A--TTG
1 AAAATTTGAAATCTTG
*
88534395 AAAATTTTAAATCTTG
1 AAAATTTGAAATCTTG
88534411 AAAATTTGAAAT
1 AAAATTTGAAAT
88534423 TATTTAATAG
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
10 7 0.23
11 2 0.06
12 1 0.03
14 1 0.03
15 2 0.06
16 18 0.58
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (16 bp):
AAAATTTGAAATCTTG
Found at i:88534653 original size:14 final size:15
Alignment explanation
Indices: 88534608--88534656 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 15
88534598 TTTTAACCTA
*
88534608 TAAACCCATAACCCT
1 TAAACCCCTAACCCT
* *
88534623 T-AACCCCTAAACTT
1 TAAACCCCTAACCCT
88534637 TAAACCCC-AACCCT
1 TAAACCCCTAACCCT
88534651 TAAACC
1 TAAACC
88534657 ATAAACCATA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 21 0.75
15 7 0.25
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCCTAACCCT
Found at i:88534663 original size:7 final size:7
Alignment explanation
Indices: 88534651--88534721 Score: 61
Period size: 7 Copynumber: 9.9 Consensus size: 7
88534641 CCCCAACCCT
88534651 TAAACCA
1 TAAACCA
88534658 TAAACCA
1 TAAACCA
*
88534665 TAATCCA
1 TAAACCA
88534672 TAAACTCA
1 TAAAC-CA
**
88534680 TAATTCA
1 TAAACCA
*
88534687 TAAACCT
1 TAAACCA
**
88534694 TAAAATA
1 TAAACCA
*
88534701 TTAACTCA
1 TAAAC-CA
88534709 TAAACCA
1 TAAACCA
88534716 TAAACC
1 TAAACC
88534722 CTTATCCCCT
Statistics
Matches: 48, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
7 38 0.79
8 10 0.21
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (7 bp):
TAAACCA
Found at i:88534688 original size:22 final size:22
Alignment explanation
Indices: 88534663--88534720 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
88534653 AACCATAAAC
* *
88534663 CATAATCCATAAACTCA-TAATT
1 CATAAACCATAAACT-ATTAACT
* *
88534685 CATAAACCTTAAAATATTAACT
1 CATAAACCATAAACTATTAACT
88534707 CATAAACCATAAAC
1 CATAAACCATAAAC
88534721 CCTTATCCCC
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
21 1 0.03
22 28 0.97
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (22 bp):
CATAAACCATAAACTATTAACT
Found at i:88534736 original size:22 final size:23
Alignment explanation
Indices: 88534716--88534767 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
88534706 TCATAAACCA
88534716 TAAACCCTTATCCCCTTAACCCC
1 TAAACCCTTATCCCCTTAACCCC
* *
88534739 T-CACGCTTATCCCCTTAACCCC
1 TAAACCCTTATCCCCTTAACCCC
88534761 TAAACCC
1 TAAACCC
88534768 CTAATCCATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.25, C:0.48, G:0.02, T:0.25
Consensus pattern (23 bp):
TAAACCCTTATCCCCTTAACCCC
Found at i:88534779 original size:22 final size:22
Alignment explanation
Indices: 88534754--88534822 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
88534744 CTTATCCCCT
88534754 TAACCCCTAAACCCCTAATCCA
1 TAACCCCTAAACCCCTAATCCA
* *
88534776 TAACCCTTAAA-CCCTAAACCTA
1 TAACCCCTAAACCCCTAATCC-A
* * *
88534798 TAATCCCTAAACCCATAATCTA
1 TAACCCCTAAACCCCTAATCCA
88534820 TAA
1 TAA
88534823 TGGCCTAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
21 8 0.21
22 24 0.63
23 6 0.16
ACGTcount: A:0.41, C:0.36, G:0.00, T:0.23
Consensus pattern (22 bp):
TAACCCCTAAACCCCTAATCCA
Found at i:88534805 original size:15 final size:15
Alignment explanation
Indices: 88534758--88534817 Score: 68
Period size: 15 Copynumber: 4.1 Consensus size: 15
88534748 TCCCCTTAAC
*
88534758 CCCTAAACCCCTAAT
1 CCCTAAACCCATAAT
* * *
88534773 CCAT-AACCCTTAAA
1 CCCTAAACCCATAAT
*
88534787 CCCTAAACCTATAAT
1 CCCTAAACCCATAAT
88534802 CCCTAAACCCATAAT
1 CCCTAAACCCATAAT
88534817 C
1 C
88534818 TATAATGGCC
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
14 11 0.31
15 25 0.69
ACGTcount: A:0.38, C:0.40, G:0.00, T:0.22
Consensus pattern (15 bp):
CCCTAAACCCATAAT
Found at i:88535563 original size:7 final size:7
Alignment explanation
Indices: 88535551--88535619 Score: 57
Period size: 7 Copynumber: 9.3 Consensus size: 7
88535541 TCCCATTAAT
88535551 CCCTAAC
1 CCCTAAC
88535558 CCCTAAC
1 CCCTAAC
88535565 CCCATAAAC
1 CCC-T-AAC
88535574 CCCTAAATC
1 CCCT-AA-C
*
88535583 CCATAAC
1 CCCTAAC
***
88535590 TTTTAAC
1 CCCTAAC
88535597 CCCTAAC
1 CCCTAAC
88535604 CCCTAAC
1 CCCTAAC
*
88535611 CCTTAAC
1 CCCTAAC
88535618 CC
1 CC
88535620 TTAAATCTCA
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
7 34 0.67
8 7 0.14
9 10 0.20
ACGTcount: A:0.32, C:0.48, G:0.00, T:0.20
Consensus pattern (7 bp):
CCCTAAC
Found at i:88535652 original size:20 final size:20
Alignment explanation
Indices: 88535615--88535655 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
88535605 CCTAACCCTT
*
88535615 AACCCTTAAATCTCAAACCC
1 AACCCTTAAACCTCAAACCC
88535635 AACCCTTAAACCAT-AAACCC
1 AACCCTTAAACC-TCAAACCC
88535655 A
1 A
88535656 TAATCCTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.44, C:0.39, G:0.00, T:0.17
Consensus pattern (20 bp):
AACCCTTAAACCTCAAACCC
Found at i:88535653 original size:7 final size:7
Alignment explanation
Indices: 88535641--88535758 Score: 83
Period size: 7 Copynumber: 16.4 Consensus size: 7
88535631 ACCCAACCCT
88535641 TAAACCA
1 TAAACCA
88535648 TAAACCCA
1 TAAA-CCA
* *
88535656 TAATCCT
1 TAAACCA
88535663 TAAACCCA
1 TAAA-CCA
*
88535671 TAATCCA
1 TAAACCA
*
88535678 TAAACCT
1 TAAACCA
**
88535685 TAAAATA
1 TAAACCA
*
88535692 TTAACTCA
1 TAAAC-CA
*
88535700 TCAACCA
1 TAAACCA
88535707 TAAACCA
1 TAAACCA
*
88535714 TAAACCC
1 TAAACCA
88535721 TAAACCA
1 TAAACCA
* *
88535728 TATACCT
1 TAAACCA
*
88535735 TAAACTA
1 TAAACCA
*
88535742 TAAACCT
1 TAAACCA
*
88535749 TAAACTA
1 TAAACCA
88535756 TAA
1 TAA
88535759 TGATAATTAA
Statistics
Matches: 82, Mismatches: 26, Indels: 6
0.72 0.23 0.05
Matches are distributed among these distances:
7 66 0.80
8 16 0.20
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (7 bp):
TAAACCA
Found at i:88535666 original size:22 final size:21
Alignment explanation
Indices: 88535629--88535720 Score: 71
Period size: 22 Copynumber: 4.3 Consensus size: 21
88535619 CTTAAATCTC
*
88535629 AAACCCA-ACCCTTAAACCAT
1 AAACCCATAACCTTAAACCAT
88535649 AAACCCATAATCCTTAAACCCAT
1 AAACCCATAA-CCTTAAA-CCAT
* **
88535672 -AATCCATAAACCTTAAAATAT
1 AAACCCAT-AACCTTAAACCAT
* * *
88535693 TAACTCATCAACCATAAACCAT
1 AAACCCAT-AACCTTAAACCAT
88535715 AAACCC
1 AAACCC
88535721 TAAACCATAT
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
20 7 0.13
21 3 0.05
22 39 0.71
23 6 0.11
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.21
Consensus pattern (21 bp):
AAACCCATAACCTTAAACCAT
Found at i:88535909 original size:30 final size:28
Alignment explanation
Indices: 88535875--88535941 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 28
88535865 TTTAAAATTA
88535875 TTTTAAATAATAGTATTTTA-AT-TTTTTCAT
1 TTTTAAAT-ATA-T-TTTTATATGTTTTT-AT
88535905 TTTTAACATATATTTTTATATGTTTTTAT
1 TTTTAA-ATATATTTTTATATGTTTTTAT
88535934 TTTTAAAT
1 TTTTAAAT
88535942 TTTTTCTACG
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
28 7 0.21
29 11 0.32
30 14 0.41
31 2 0.06
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (28 bp):
TTTTAAATATATTTTTATATGTTTTTAT
Found at i:88536578 original size:30 final size:30
Alignment explanation
Indices: 88536542--88536598 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
88536532 AAATCAAGTA
*
88536542 TGTTAAATGATAGGATTAAATCTCGAAGCG
1 TGTTAAACGATAGGATTAAATCTCGAAGCG
88536572 TGTTAAACGATAGGATTAAATCTCGAA
1 TGTTAAACGATAGGATTAAATCTCGAA
88536599 ACAAAATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.30
Consensus pattern (30 bp):
TGTTAAACGATAGGATTAAATCTCGAAGCG
Found at i:88536912 original size:86 final size:86
Alignment explanation
Indices: 88536638--88537028 Score: 356
Period size: 86 Copynumber: 4.6 Consensus size: 86
88536628 AAAAAATCAA
* * * * * *
88536638 AATAAAATATGTTGAACGACAGGAATAAATCCCGAAACAGA--TTATTCAA-TTTAATT-ATAAT
1 AATAAAATCTGTTAAACGGCGGGAATAAATTCCGAAACAGATTTTATTCAATTTTAATTCAT-GT
* * *
88536699 TTGGGAGCAAAAT-AAAAATCG
65 TTGGAAACAAAATAAAAAATGG
* * ** * * * * *
88536720 AATAAAATTTGTTAAATGGTAGGAATAAATCCCGAAACATATTTAATTTAA-TTT--CTC--GTT
1 AATAAAATCTGTTAAACGGCGGGAATAAATTCCGAAACAGATTTTATTCAATTTTAATTCATGTT
* *
88536780 TGGCAACTAAATAAAAAAATGG
66 TGGAAACAAAAT-AAAAAATGG
* * ** *
88536802 AGTAAAATCTGTTAAACGGTGGGAATAAATTTTGAAACAGATTTTATTGAATTTTAATACTCAT-
1 AATAAAATCTGTTAAACGGCGGGAATAAATTCCGAAACAGATTTTATTCAATTTTAAT--TCATG
*
88536866 TTTGGAAATAAAAT-AAAAATGG
64 TTTGGAAACAAAATAAAAAATGG
* * * * * *
88536888 AATAAAATCTATTGAACGACGGGAATAAATTCCGAAATAGATTTTATTTAATTTTAATTCTTGTT
1 AATAAAATCTGTTAAACGGCGGGAATAAATTCCGAAACAGATTTTATTCAATTTTAATTCATGTT
88536953 TGGAAACAAAATAAAAAATGG
66 TGGAAACAAAATAAAAAATGG
* *
88536974 AATAAAATCTGTTAAACGGCGGGAATAAATCCCGGAACAGATTTTATTCAATTTT
1 AATAAAATCTGTTAAACGGCGGGAATAAATTCCGAAACAGATTTTATTCAATTTT
88537029 TATTATTATT
Statistics
Matches: 249, Mismatches: 46, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
80 11 0.04
82 84 0.34
83 3 0.01
84 12 0.05
85 13 0.05
86 113 0.45
87 2 0.01
88 11 0.04
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (86 bp):
AATAAAATCTGTTAAACGGCGGGAATAAATTCCGAAACAGATTTTATTCAATTTTAATTCATGTT
TGGAAACAAAATAAAAAATGG
Found at i:88537050 original size:86 final size:86
Alignment explanation
Indices: 88536788--88537057 Score: 303
Period size: 86 Copynumber: 3.1 Consensus size: 86
88536778 TTTGGCAACT
* * ** *
88536788 AAATAAAAAAATGGAGTAAAATCTGTTAAACGGTGGGAATAAATTTTGAAACAGATTTTATTGAA
1 AAAT-AAAAAATGGAATAAAATCTGTTAAACGGCGGGAATAAATTCCGAAACAGATTTTATTCAA
* *
88536853 -TTTTAATACTCATTTTGGAAATA
65 TTTTTATTA-TTA-TTTGGAAATA
* * * * *
88536876 AAAT-AAAAATGGAATAAAATCTATTGAACGACGGGAATAAATTCCGAAATAGATTTTATTTAAT
1 AAATAAAAAATGGAATAAAATCTGTTAAACGGCGGGAATAAATTCCGAAACAGATTTTATTCAAT
* * * *
88536940 TTTAATTCTTGTTTGGAAACA
66 TTTTATTATTATTTGGAAATA
* *
88536961 AAATAAAAAATGGAATAAAATCTGTTAAACGGCGGGAATAAATCCCGGAACAGATTTTATTCAAT
1 AAATAAAAAATGGAATAAAATCTGTTAAACGGCGGGAATAAATTCCGAAACAGATTTTATTCAAT
*
88537026 TTTTATTATTATTCT-CAAATA
66 TTTTATTATTATT-TGGAAATA
*
88537047 AAATACAAAAT
1 AAATAAAAAAT
88537058 ATTTTTTTTC
Statistics
Matches: 151, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
85 13 0.09
86 128 0.85
87 6 0.04
88 4 0.03
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.33
Consensus pattern (86 bp):
AAATAAAAAATGGAATAAAATCTGTTAAACGGCGGGAATAAATTCCGAAACAGATTTTATTCAAT
TTTTATTATTATTTGGAAATA
Found at i:88541390 original size:35 final size:35
Alignment explanation
Indices: 88541351--88541419 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
88541341 TAAATAATTA
*
88541351 ACTAAATTTA-ATAGTA-TATATTATAAATTGTTTAC
1 ACTAAA-TTACATAGTAGT-TATTATAAATTATTTAC
*
88541386 ACTAAATTACATAGTAGTTATTATTAATTATTTA
1 ACTAAATTACATAGTAGTTATTATAAATTATTTA
88541420 TACGTAGCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 3 0.10
35 26 0.87
36 1 0.03
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (35 bp):
ACTAAATTACATAGTAGTTATTATAAATTATTTAC
Found at i:88544250 original size:12 final size:13
Alignment explanation
Indices: 88544226--88544251 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88544216 AGTTTATTTA
88544226 TTTCAATTTTTTT
1 TTTCAATTTTTTT
88544239 TTTCAATTTTTTT
1 TTTCAATTTTTTT
88544252 ATCTGACTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTCAATTTTTTT
Found at i:88548520 original size:24 final size:24
Alignment explanation
Indices: 88548493--88548542 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
88548483 ATTGACAAAG
88548493 ACTTGTTGTTAGGATCCACTCCTC
1 ACTTGTTGTTAGGATCCACTCCTC
88548517 ACTTGTTGTTAGGATCCACTCCTC
1 ACTTGTTGTTAGGATCCACTCCTC
88548541 AC
1 AC
88548543 AATAGGCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.36
Consensus pattern (24 bp):
ACTTGTTGTTAGGATCCACTCCTC
Found at i:88550927 original size:33 final size:33
Alignment explanation
Indices: 88550846--88550928 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 33
88550836 ATTCTGGGCC
* **
88550846 AGGCCGTGTGAACCACACGGTCAAGGCCAAATT
1 AGGCCGTGTGAGCCACACGACCAAGGCCAAATT
* *
88550879 GGGCCTTGTGAGCCACACGACCAAGGCCAAATT
1 AGGCCGTGTGAGCCACACGACCAAGGCCAAATT
88550912 AGGCCGTGTTG-GCCACA
1 AGGCCGTG-TGAGCCACA
88550929 TAGGCGTGTG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
33 40 0.95
34 2 0.05
ACGTcount: A:0.27, C:0.29, G:0.29, T:0.16
Consensus pattern (33 bp):
AGGCCGTGTGAGCCACACGACCAAGGCCAAATT
Found at i:88551503 original size:33 final size:34
Alignment explanation
Indices: 88551445--88551514 Score: 115
Period size: 33 Copynumber: 2.1 Consensus size: 34
88551435 TCTGCATTGA
*
88551445 TGCTTACTGTTACTGTAATGGGCTAAGGCCCTAC
1 TGCTTACTGTTACTGTAATGAGCTAAGGCCCTAC
*
88551479 TGCTTACTG-TACTGTGATGAGCTAAGGCCCTAC
1 TGCTTACTGTTACTGTAATGAGCTAAGGCCCTAC
88551512 TGC
1 TGC
88551515 ATGACTATCA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 25 0.74
34 9 0.26
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.31
Consensus pattern (34 bp):
TGCTTACTGTTACTGTAATGAGCTAAGGCCCTAC
Found at i:88551541 original size:38 final size:33
Alignment explanation
Indices: 88551462--88551546 Score: 89
Period size: 33 Copynumber: 2.4 Consensus size: 33
88551452 TGTTACTGTA
* * *
88551462 ATGGGCTAAGGCCCTACTGCTTACTGTACTGTG
1 ATGGGCTAAGGCCCTACTGCTGACTATACTCTG
*
88551495 ATGAGCTAAGGCCCTACTGCATGACTATCACTATACTG
1 ATGGGCTAAGGCCCTACTGC-TGACTAT-AC--T-CTG
88551533 ATGGGCTAAGGCCC
1 ATGGGCTAAGGCCC
88551547 AAGCTGATAC
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
33 19 0.45
34 5 0.12
35 2 0.05
37 1 0.02
38 15 0.36
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.26
Consensus pattern (33 bp):
ATGGGCTAAGGCCCTACTGCTGACTATACTCTG
Found at i:88564956 original size:21 final size:22
Alignment explanation
Indices: 88564927--88564968 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
88564917 AGGGTCAACC
88564927 GCCTATATG-AAGGAGGCACAT
1 GCCTATATGAAAGGAGGCACAT
*
88564948 GCCTGTATGAAAGGAGGCACA
1 GCCTATATGAAAGGAGGCACA
88564969 AGGCCTTGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.33, C:0.19, G:0.31, T:0.17
Consensus pattern (22 bp):
GCCTATATGAAAGGAGGCACAT
Found at i:88567262 original size:31 final size:32
Alignment explanation
Indices: 88567206--88567268 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
88567196 TGGTTTATTT
88567206 TGAACATAGAATGTTTTGCTATGATGATTTGA
1 TGAACATAGAATGTTTTGCTATGATGATTTGA
88567238 TGAACATAGAATGTTTT-CTATGATGATTTGA
1 TGAACATAGAATGTTTTGCTATGATGATTTGA
88567269 ATTTTATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 14 0.45
32 17 0.55
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.41
Consensus pattern (32 bp):
TGAACATAGAATGTTTTGCTATGATGATTTGA
Found at i:88569636 original size:40 final size:40
Alignment explanation
Indices: 88569542--88569686 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
88569532 TACTCGAATG
*
88569542 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
88569583 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
88569623 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
88569663 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
88569687 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:88577670 original size:40 final size:40
Alignment explanation
Indices: 88577576--88577720 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
88577566 TACTCGAATG
*
88577576 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
88577617 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
88577657 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
88577697 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
88577721 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:88584544 original size:28 final size:28
Alignment explanation
Indices: 88584508--88584563 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
88584498 GGATTCATGA
*
88584508 AAGAGTTATATATATATGAGGAGTTGTT
1 AAGAATTATATATATATGAGGAGTTGTT
*
88584536 AAGAATTATATATATATGAGGTGTTGTT
1 AAGAATTATATATATATGAGGAGTTGTT
88584564 CTCTGGGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.41
Consensus pattern (28 bp):
AAGAATTATATATATATGAGGAGTTGTT
Found at i:88585876 original size:22 final size:22
Alignment explanation
Indices: 88585850--88585892 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
88585840 GAGATGAGTA
88585850 TACTTTCTATATTAAGTCGTAG
1 TACTTTCTATATTAAGTCGTAG
88585872 TACTTTCTATATTAAGTCGTA
1 TACTTTCTATATTAAGTCGTA
88585893 ATGGTGTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.47
Consensus pattern (22 bp):
TACTTTCTATATTAAGTCGTAG
Found at i:88598584 original size:32 final size:32
Alignment explanation
Indices: 88598512--88598575 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
88598502 TTATAGTATG
88598512 AAATAGGTGGATTTGCATGTCAAAATTCCCAC
1 AAATAGGTGGATTTGCATGTCAAAATTCCCAC
88598544 AAATAGGTGGATTTGCATGTCAAAATTCCCAC
1 AAATAGGTGGATTTGCATGTCAAAATTCCCAC
88598576 CTCAAGGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (32 bp):
AAATAGGTGGATTTGCATGTCAAAATTCCCAC
Found at i:88600874 original size:45 final size:45
Alignment explanation
Indices: 88600810--88600981 Score: 265
Period size: 45 Copynumber: 3.8 Consensus size: 45
88600800 ATTATCGTAC
*
88600810 GACACTATTTGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
1 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
88600855 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
1 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
* * * *
88600900 CATACTATTCGGGCCTTTGAGCCTAGCAGGCTACAATACCGGTGA
1 GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
* *
88600945 GATACTATTCGGG-CTTTCGATCCTAGCAGGCTATAAT
1 GACACTATTCGGGCCTTT-GAGCCTAGCAGGCTATAAT
88600982 TCCAGTGAAA
Statistics
Matches: 118, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
44 4 0.03
45 114 0.97
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (45 bp):
GACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
Found at i:88606064 original size:32 final size:32
Alignment explanation
Indices: 88605992--88606055 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
88605982 TTATAGTATG
*
88605992 AAATAGGTGGATTTGCATGTCAAAATTTCCAC
1 AAATAGGTGGATTTGCATGTCAAAATTCCCAC
88606024 AAATAGGTGGATTTGCATGTCAAAATTCCCAC
1 AAATAGGTGGATTTGCATGTCAAAATTCCCAC
88606056 CTCAAGGTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (32 bp):
AAATAGGTGGATTTGCATGTCAAAATTCCCAC
Found at i:88608353 original size:45 final size:45
Alignment explanation
Indices: 88608289--88608463 Score: 244
Period size: 45 Copynumber: 3.9 Consensus size: 45
88608279 ATTATCGTAC
* *
88608289 GACACTATTTGGGCCTTTGAGCCTAGCAGGCTATAATACCGGTGA
1 GACACTATTTTGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
*
88608334 GACACTATTTTGGCCTTTGAGCCTAGTAGGCTATAATGCCGGTGA
1 GACACTATTTTGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
* * * * *
88608379 GATACTATTTAGGCCTTTGAGCCTAGCAGGCTACAACGCCAGTGA
1 GACACTATTTTGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
* *
88608424 GATACTA-TTTGGGCTTTCGAGCCTAGCAGGCTATAATGCC
1 GACACTATTTTGGCCTTT-GAGCCTAGCAGGCTATAATGCC
88608464 AGAGAAAGGA
Statistics
Matches: 116, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
44 8 0.07
45 108 0.93
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (45 bp):
GACACTATTTTGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
Found at i:88612859 original size:544 final size:541
Alignment explanation
Indices: 88611829--88612890 Score: 1626
Period size: 544 Copynumber: 2.0 Consensus size: 541
88611819 TCTAATTACA
* *
88611829 ACATAAGGACCTCTAATTTAGTATTCCATAACTATTAGATACCTTTAGCTAATAGAACATCACTT
1 ACATAAGGACCTCTAATTTAATATTCCATAACTATTAGATACCTCTAGCTAATAGAACATCACTT
* * *
88611894 TTGCTCTTTACGCGATTTAGTCCTTTTTATCAAATTAACTAATTAAACGATAAAATTTCTAAATG
66 TTGCACTTTACGCGATGTAGTCCTTTTTATCAAATTAACTAATTAAACGATAAAATTTCTAAACG
* *
88611959 AAACTTGCACATAATCATTCCATCATACTGTAAATATTAAAATAATAATAAAATAATTATTTTGA
131 AAACTTGCACACAATCATTCAATCATACTGTAAATATTAAAATAATAATAAAATAATTATTTTGA
* ***
88612024 CTTTGGATTTGTGGCCCCGAAATGAATTTTCGATTTGACTAAAAATGGGCTATTACAACTCTCCC
196 CTTTGGATTTGTGGCCCCGAAATCAATTTAAAATTTGACTAAAAATGGGCTATTACAACTCTCCC
* ** * *
88612089 CCTTAAGTATTTTTGTCTTCGAAAATCTTACCAGCAAAAAGGTTTGGGTACTATTTTCTCATAGC
261 CCTTAAGGATTTTTGTCCCCGAAAATCTTACCAGCAAAAAGGTTAGGGTACTATTTTCTCATAAC
** *
88612154 TTCCTCGGGTTTCCACGTGGCTTCTTCGACACTGTGCAGTTGCCAAAGTACTTTCACTAATGCTA
326 TTCCTCGGGTTTCCACGTGGCTTCTTCGACACCATGCAGTTGCCAAAGTACTTTCACTAAAGCTA
*
88612219 TGCTTTTATTTTTCAAATGTTTAACCTCACAAGCTAAAATTCTGATCGGTTCTTCGTTGTAGGTC
391 TGCTTTTATTTCTCAAATGTTTAACCTCACAAGCTAAAATTCTGATCGGTTCTTCGTTGTAGGTC
* *
88612284 ATGTCGGGTTGAATCTCAAAATCTGCTAGAGAAATTACGCGTGATGGATCTGATCTATATCGGCA
456 ATGTCGGGTTGAATCCCAAAATCTACTAGAGAAATTACGCGTGATGGATCTGATCTATATCGGCA
88612349 CAACATCGATTTTGCATAAGG
521 CAACATCGATTTTGCATAAGG
* * **
88612370 ACATAAGGACCTCTAATTTAATATTCCATAGCTATTAGGTACCTCTAGCTAATAGAATGTCGA-T
1 ACATAAGGACCTCTAATTTAATATTCCATAACTATTAGATACCTCTAGCTAATAGAACATC-ACT
* * *
88612434 TTTGCACTTTATGGGATGTAGTCCTTTTTATCAAATTAGCTAATTAAACGATAAAATTTCTAAAC
65 TTTGCACTTTACGCGATGTAGTCCTTTTTATCAAATTAACTAATTAAACGATAAAATTTCTAAAC
* * *
88612499 GAAACTTTCACACAATCATTCAATCGTACTGTAAATATTAAAATAATAATAAAGTAATTATTTTT
130 GAAACTTGCACACAATCATTCAATCATACTGTAAATATTAAAATAATAATAAAATAATTA-TTTT
* * * *
88612564 GACTTTGGATTTGTGGTCCCGAAATCACTATTAAAATTTGACTAAAATTGGGCTGTTACAACTCT
194 GACTTTGGATTTGTGGCCCCGAAATCAAT-TTAAAATTTGACTAAAAATGGGCTATTACAACTCT
* * *
88612629 CCCCCTTTAGGGATTTTTGTCCCCGAAAATCTTGCCAGCAAAAAGGTTAGGGTACTATTTTTTCA
258 CCCCC-TTAAGGATTTTTGTCCCCGAAAATCTTACCAGCAAAAAGGTTAGGGTACTATTTTCTCA
* *
88612694 TAACTTCCTCGGGTTTCCACGTGGCTTCTGT-GACACCATGCCA-TTTCTAAAGTACTTTCACTA
322 TAACTTCCTCGGGTTTCCACGTGGCTTCT-TCGACACCATG-CAGTTGCCAAAGTACTTTCACTA
** * * *
88612757 AAGCTATGCTTTTATTTCTCACCTGTTTAACCTTACAAGCTAAAATTCTGATCGGTTTTTTGTTG
385 AAGCTATGCTTTTATTTCTCAAATGTTTAACCTCACAAGCTAAAATTCTGATCGGTTCTTCGTTG
*
88612822 TAGGTCATGTCGGGTTGAATCCCAAAATCTACTAGAGAAATTACGTGTGATGGATCTGATCTATA
450 TAGGTCATGTCGGGTTGAATCCCAAAATCTACTAGAGAAATTACGCGTGATGGATCTGATCTATA
88612887 TCGG
515 TCGG
88612891 TGCAAGATCG
Statistics
Matches: 468, Mismatches: 47, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
541 170 0.36
542 31 0.07
543 35 0.07
544 229 0.49
545 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (541 bp):
ACATAAGGACCTCTAATTTAATATTCCATAACTATTAGATACCTCTAGCTAATAGAACATCACTT
TTGCACTTTACGCGATGTAGTCCTTTTTATCAAATTAACTAATTAAACGATAAAATTTCTAAACG
AAACTTGCACACAATCATTCAATCATACTGTAAATATTAAAATAATAATAAAATAATTATTTTGA
CTTTGGATTTGTGGCCCCGAAATCAATTTAAAATTTGACTAAAAATGGGCTATTACAACTCTCCC
CCTTAAGGATTTTTGTCCCCGAAAATCTTACCAGCAAAAAGGTTAGGGTACTATTTTCTCATAAC
TTCCTCGGGTTTCCACGTGGCTTCTTCGACACCATGCAGTTGCCAAAGTACTTTCACTAAAGCTA
TGCTTTTATTTCTCAAATGTTTAACCTCACAAGCTAAAATTCTGATCGGTTCTTCGTTGTAGGTC
ATGTCGGGTTGAATCCCAAAATCTACTAGAGAAATTACGCGTGATGGATCTGATCTATATCGGCA
CAACATCGATTTTGCATAAGG
Found at i:88638647 original size:22 final size:22
Alignment explanation
Indices: 88638622--88638666 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
88638612 TGAAGGGTTA
88638622 AATTTATTGAATTATTAGAATT
1 AATTTATTGAATTATTAGAATT
88638644 AATTTATTGAATTATTAGAATT
1 AATTTATTGAATTATTAGAATT
88638666 A
1 A
88638667 GAATCAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (22 bp):
AATTTATTGAATTATTAGAATT
Found at i:88639960 original size:30 final size:30
Alignment explanation
Indices: 88639924--88639983 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
88639914 TGTATGGAAA
88639924 GACAAAATTATAATAATTATATTAATCATT
1 GACAAAATTATAATAATTATATTAATCATT
88639954 GACAAAATTATAATAATTATATTAATCATT
1 GACAAAATTATAATAATTATATTAATCATT
88639984 CATTTTGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (30 bp):
GACAAAATTATAATAATTATATTAATCATT
Found at i:88641221 original size:36 final size:36
Alignment explanation
Indices: 88641181--88641250 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
88641171 TCTCTATGTA
88641181 ATATATATATATATATAGAACAATGTAATTAAGGAT
1 ATATATATATATATATAGAACAATGTAATTAAGGAT
88641217 ATATATATATATATATAGAACAATGTAATTAAGG
1 ATATATATATATATATAGAACAATGTAATTAAGG
88641251 TTATCCCAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.36
Consensus pattern (36 bp):
ATATATATATATATATAGAACAATGTAATTAAGGAT
Found at i:88641668 original size:38 final size:38
Alignment explanation
Indices: 88641626--88641704 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
88641616 TTGTCAATAA
*
88641626 TGATTGATTAAGAATGAATTTTCTTTTTATGTTGTGTT
1 TGATTGATTAAGAATGAATTTTCTTTTCATGTTGTGTT
88641664 TGATTGATTAAGAATGAATTTTCTTTTCATGTTGTGTT
1 TGATTGATTAAGAATGAATTTTCTTTTCATGTTGTGTT
88641702 TGA
1 TGA
88641705 GTTATATCTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.24, C:0.04, G:0.19, T:0.53
Consensus pattern (38 bp):
TGATTGATTAAGAATGAATTTTCTTTTCATGTTGTGTT
Found at i:88642924 original size:26 final size:26
Alignment explanation
Indices: 88642894--88642943 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
88642884 AACAATTATT
*
88642894 TTATAATTGTATGAGAAAATATTTCA
1 TTATAATTGTATAAGAAAATATTTCA
*
88642920 TTATAATTTTATAAGAAAATATTT
1 TTATAATTGTATAAGAAAATATTT
88642944 AGTACACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (26 bp):
TTATAATTGTATAAGAAAATATTTCA
Found at i:88647750 original size:24 final size:21
Alignment explanation
Indices: 88647723--88647772 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 21
88647713 CATGGATACA
*
88647723 AATATAATTTCCAATTACTCTAAT
1 AATA-AATTT-CAA-TACTCCAAT
*
88647747 AATAAATTTGAATACTCCAAT
1 AATAAATTTCAATACTCCAAT
88647768 AATAA
1 AATAA
88647773 CACTCTGGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 13 0.54
22 2 0.08
23 5 0.21
24 4 0.17
ACGTcount: A:0.48, C:0.14, G:0.02, T:0.36
Consensus pattern (21 bp):
AATAAATTTCAATACTCCAAT
Found at i:88660243 original size:51 final size:50
Alignment explanation
Indices: 88660131--88660319 Score: 186
Period size: 50 Copynumber: 3.8 Consensus size: 50
88660121 TGAATACACA
* * * * * *
88660131 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAG-T-AGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGA-TGATAAGATCA-CG
* **
88660181 TGTGTAGTACTAACTGCAGGCTACTATGCGTACTCA-ATGACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTA-TCAGATGA-TAAGATCACG
* * * *
88660232 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATAAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGATGATAAGATCACG
* *
88660282 TGTGTAGTACTAAGTGCATGCTACTATGCATATCAGAT
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
88660320 AGCTTCGGCT
Statistics
Matches: 115, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
49 2 0.02
50 75 0.65
51 37 0.32
52 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGATGATAAGATCACG
Found at i:88660326 original size:101 final size:100
Alignment explanation
Indices: 88660131--88660313 Score: 262
Period size: 101 Copynumber: 1.8 Consensus size: 100
88660121 TGAATACACA
* *
88660131 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTAGCATGTGTAGTACTAACT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGATAAGTAG-ATGTGTAGTACTAACT
*
88660196 GCAGGCTACTATGCGTACTCAATGACTTCGATCACG
65 GCAGGCTACTATGCATACTCAATGACTTCGATCACG
*
88660232 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGATAAGGTCATG-TGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGATAA-GT-A-GATGTGTAGTACTAA
* *
88660295 GTGCATGCTACTATGCATA
63 CTGCAGGCTACTATGCATA
88660314 TCAGATAGCT
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
100 5 0.07
101 66 0.90
102 1 0.01
103 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (100 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGATAAGTAGATGTGTAGTACTAACTG
CAGGCTACTATGCATACTCAATGACTTCGATCACG
Found at i:88665990 original size:14 final size:14
Alignment explanation
Indices: 88665973--88666000 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
88665963 AAGGTTTGGC
88665973 CGAAAAGGCAAGTT
1 CGAAAAGGCAAGTT
88665987 CGAAAAGGCAAGTT
1 CGAAAAGGCAAGTT
88666001 GAGTCTGCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.29, T:0.14
Consensus pattern (14 bp):
CGAAAAGGCAAGTT
Found at i:88667687 original size:50 final size:48
Alignment explanation
Indices: 88667612--88667786 Score: 206
Period size: 50 Copynumber: 3.5 Consensus size: 48
88667602 TGAATACACG
*
88667612 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGTTAA-TCGCA
* * * *
88667662 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATGACATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATG-TTA-ATCGCA
* ** * *
88667712 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACGGGATTATTGATCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGTTAATCGCA
*
88667761 TGTGTAATACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
88667787 TGCATATCAG
Statistics
Matches: 106, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
49 30 0.28
50 74 0.70
51 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (48 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGTTAATCGCA
Found at i:88667796 original size:99 final size:100
Alignment explanation
Indices: 88667608--88667798 Score: 276
Period size: 100 Copynumber: 1.9 Consensus size: 100
88667598 ATTGTGAATA
* * *
88667608 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTATTAAGTCGCATGTGTAATACT
**
88667673 AAGTGCAGGCTACTACGTGTATCAGATGATGACAT
66 AAGTGCAGGCTACTACGCATATCAGATGATGACAT
* ** * *
88667708 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACGGGATTATTGA-TCGCATGTGTAATACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTATTAAGTCGCATGTGTAATACT
*
88667772 AAGTGCAGGCTACTATGCATATCAGAT
66 AAGTGCAGGCTACTACGCATATCAGAT
88667799 AGCTTCGGCT
Statistics
Matches: 80, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
99 39 0.49
100 41 0.51
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (100 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTATTAAGTCGCATGTGTAATACT
AAGTGCAGGCTACTACGCATATCAGATGATGACAT
Found at i:88670878 original size:27 final size:26
Alignment explanation
Indices: 88670828--88670880 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
88670818 TTAGGACATC
*
88670828 CTTTAAATATGTCTAGCTTGAGACAA
1 CTTTAAATATGTCTAGCTTAAGACAA
* *
88670854 CTTTCAAATATGTCTTGTTTAAGACAA
1 CTTT-AAATATGTCTAGCTTAAGACAA
88670881 ATTAAATTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (26 bp):
CTTTAAATATGTCTAGCTTAAGACAA
Found at i:88672339 original size:8 final size:8
Alignment explanation
Indices: 88672326--88672365 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
88672316 AATTATGAAT
88672326 AAAAAATA
1 AAAAAATA
88672334 AAAAAATA
1 AAAAAATA
*
88672342 AAAAATAAA
1 AAAAA-ATA
88672351 GAAAAAATA
1 -AAAAAATA
88672360 AAAAAA
1 AAAAAA
88672366 GAAGAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 19 0.68
9 4 0.14
10 5 0.18
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.10
Consensus pattern (8 bp):
AAAAAATA
Found at i:88672343 original size:15 final size:16
Alignment explanation
Indices: 88672323--88672368 Score: 62
Period size: 15 Copynumber: 3.0 Consensus size: 16
88672313 AGGAATTATG
88672323 AATAAAAAATAAA-AA
1 AATAAAAAATAAAGAA
88672338 AATAAAAAATAAAGAA
1 AATAAAAAATAAAGAA
88672354 AA-AATAAAA-AAAGAA
1 AATAA-AAAATAAAGAA
88672369 GAATTTTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 21 0.72
16 8 0.28
ACGTcount: A:0.85, C:0.00, G:0.04, T:0.11
Consensus pattern (16 bp):
AATAAAAAATAAAGAA
Found at i:88672371 original size:18 final size:18
Alignment explanation
Indices: 88672323--88672364 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
88672313 AGGAATTATG
88672323 AATAAAAAAT--A-AAAA
1 AATAAAAAATAAAGAAAA
88672338 AATAAAAAATAAAGAAAA
1 AATAAAAAATAAAGAAAA
88672356 AATAAAAAA
1 AATAAAAAA
88672365 AGAAGAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.42
17 1 0.04
18 13 0.54
ACGTcount: A:0.86, C:0.00, G:0.02, T:0.12
Consensus pattern (18 bp):
AATAAAAAATAAAGAAAA
Found at i:88677656 original size:27 final size:27
Alignment explanation
Indices: 88677595--88677657 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
88677585 TGAGTTTAAA
*
88677595 TTAGGACATCCTTTAAATATGTCTAGC
1 TTAGGACAACCTTTAAATATGTCTAGC
* * *
88677622 TT-GAGACAACTTTTAAATATGTCTTGT
1 TTAG-GACAACCTTTAAATATGTCTAGC
88677649 TTAGGACAA
1 TTAGGACAA
88677658 ATTAAATTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
26 1 0.03
27 28 0.93
28 1 0.03
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (27 bp):
TTAGGACAACCTTTAAATATGTCTAGC
Done.