Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 135 of 444
Found at i:35688153 original size:64 final size:64
Alignment explanation
Indices: 35688074--35688257 Score: 171
Period size: 67 Copynumber: 2.8 Consensus size: 64
35688064 AGACATTATG
* *
35688074 ATGTAGCTAGGTCGCATGGTTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGTTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
35688138 ATGTAGCTAGGTCGCATGCGTGGTTTC-AGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 ATGTAGCTAGGTCGCATG-GTTGATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
35688202 TAA
62 TAA
* * * *
35688205 AT-TGGCTAGGTCACATTGG-TGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCA-TGGTTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGC
35688258 CGAACTATAT
Statistics
Matches: 97, Mismatches: 15, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 20 0.21
65 8 0.08
66 14 0.14
67 35 0.36
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGTTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:35691101 original size:27 final size:27
Alignment explanation
Indices: 35691071--35691124 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
35691061 ATTTTATCGA
35691071 TGATTTCTCATTAGAATTGGTGAATTC
1 TGATTTCTCATTAGAATTGGTGAATTC
35691098 TGATTTCTCATTAGAATTGGTGAATTC
1 TGATTTCTCATTAGAATTGGTGAATTC
35691125 GATGCTCCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.44
Consensus pattern (27 bp):
TGATTTCTCATTAGAATTGGTGAATTC
Found at i:35704204 original size:16 final size:17
Alignment explanation
Indices: 35704183--35704215 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
35704173 ATTTAATCCT
*
35704183 AATT-AAATTGGATATA
1 AATTAAAATTGAATATA
35704199 AATTAAAATTGAATATA
1 AATTAAAATTGAATATA
35704216 TCATGAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (17 bp):
AATTAAAATTGAATATA
Found at i:35706423 original size:22 final size:22
Alignment explanation
Indices: 35706398--35706448 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
35706388 TTATACAACT
35706398 CATATGACCATTTCGTTTCTTC
1 CATATGACCATTTCGTTTCTTC
*
35706420 CATATGACCGTTTCGTTTCTTC
1 CATATGACCATTTCGTTTCTTC
35706442 CATATGA
1 CATATGA
35706449 AAGTACATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.20, C:0.25, G:0.12, T:0.43
Consensus pattern (22 bp):
CATATGACCATTTCGTTTCTTC
Found at i:35715193 original size:28 final size:27
Alignment explanation
Indices: 35715130--35715199 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
35715120 ATAGTGAGTC
35715130 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
35715157 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
35715185 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35715200 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:35718127 original size:30 final size:30
Alignment explanation
Indices: 35718093--35718153 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
35718083 TTCCCGAGCC
35718093 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
35718123 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
35718153 T
1 T
35718154 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:35718967 original size:64 final size:64
Alignment explanation
Indices: 35718888--35719071 Score: 178
Period size: 67 Copynumber: 2.8 Consensus size: 64
35718878 AGACATTATG
* *
35718888 ATGTAGCTAGGTCGCATGGTTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGTTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
35718952 ATGTAGCTAGGTCGCATGCGTGGTTTC-AGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 ATGTAGCTAGGTCGCATG-GTTGATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
35719016 TAA
62 TAA
* * * * *
35719019 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGTTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGC
35719072 CGAACTATAT
Statistics
Matches: 97, Mismatches: 16, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 20 0.21
65 9 0.09
66 15 0.15
67 33 0.34
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGTTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:35721046 original size:39 final size:39
Alignment explanation
Indices: 35720992--35721174 Score: 321
Period size: 39 Copynumber: 4.7 Consensus size: 39
35720982 GAATGTTCGA
35720992 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
35721031 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
35721070 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
35721109 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
35721148 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
35721175 CTTTGTGCGG
Statistics
Matches: 136, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 127 0.93
40 9 0.07
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:35728149 original size:39 final size:39
Alignment explanation
Indices: 35728095--35728277 Score: 321
Period size: 39 Copynumber: 4.7 Consensus size: 39
35728085 GAATGTTCGA
35728095 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
35728134 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
35728173 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
35728212 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
35728251 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
35728278 CTTTGTGTGG
Statistics
Matches: 136, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 127 0.93
40 9 0.07
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:35731969 original size:16 final size:16
Alignment explanation
Indices: 35731950--35731990 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
35731940 AATTATTAAT
*
35731950 AATTCAATAATTGAAA
1 AATTAAATAATTGAAA
35731966 AATTAAATAATTGAATAA
1 AATTAAATAATTG-A-AA
35731984 AATTAAA
1 AATTAAA
35731991 ATTTAGGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.55
17 1 0.05
18 9 0.41
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (16 bp):
AATTAAATAATTGAAA
Found at i:35732752 original size:22 final size:19
Alignment explanation
Indices: 35732713--35732754 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
35732703 TGCAAAGTTG
35732713 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
35732732 ATAATAGATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
35732754 A
1 A
35732755 AAGGTTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:35732875 original size:29 final size:30
Alignment explanation
Indices: 35732818--35732875 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
35732808 CTTTTGAAAA
* * * *
35732818 TATTTACAAAAAGAGGCACCTAATTTTTAT
1 TATTTACAAAAAGAGACAACGAAATTTTAT
35732848 TATTTACAAAAAGA-ACAACGAAATTTTA
1 TATTTACAAAAAGAGACAACGAAATTTTA
35732876 ACAATAGTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.33
Consensus pattern (30 bp):
TATTTACAAAAAGAGACAACGAAATTTTAT
Found at i:35739076 original size:35 final size:34
Alignment explanation
Indices: 35739052--35739126 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 34
35739042 ATGTTATTTC
35739052 ACATACATACTTATTAAATCGAAATAATCTCTTGT
1 ACATACATACTTATTAAATCGAAAT-ATCTCTTGT
35739087 ACATACATACTTATTAAATCGAAATAATCTCTTGT
1 ACATACATACTTATTAAATCGAAAT-ATCTCTTGT
*
35739122 TCATA
1 ACATA
35739127 TTCTTATGTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.37
Consensus pattern (34 bp):
ACATACATACTTATTAAATCGAAATATCTCTTGT
Found at i:35740413 original size:20 final size:21
Alignment explanation
Indices: 35740390--35740436 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 21
35740380 ATTTAAGTGC
35740390 AATTTTAATTATTTT-ATAAA
1 AATTTTAATTATTTTCATAAA
*
35740410 AA--TTAATTATTTTCGATAAG
1 AATTTTAATTATTTTC-ATAAA
35740430 AATTTTA
1 AATTTTA
35740437 TCAAAACCGC
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
18 11 0.50
20 8 0.36
22 3 0.14
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (21 bp):
AATTTTAATTATTTTCATAAA
Found at i:35741973 original size:40 final size:41
Alignment explanation
Indices: 35741883--35742132 Score: 221
Period size: 40 Copynumber: 6.3 Consensus size: 41
35741873 ACCCAATTAT
* ** * *
35741883 CTTCGGGATTTAG-CCGGATA-TAACCACTTGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATTAATAACTAGCACAAATGC
* * ** * *
35741921 CTTCGGGTCTTAGTCCGGATA-TGGTCACTAGCACAGATGC
1 CTTCGGGACTTAGCCCGGATATTAATAACTAGCACAAATGC
*
35741961 CTTCGGGACTTAGCCCGGATA-TAATAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATTAATAACTAGCACAAATGC
* ** *
35742001 CTTCGGGGCTTAGCCCGGA-ATTTGTAAC-ACGCACAAAAGC
1 CTTCGGGACTTAGCCCGGATATTAATAACTA-GCACAAATGC
* * ** *
35742041 CTTCGGGACTTAGCTC-GAAATTTGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATTAATAACTAGCACAAATGC
* *
35742081 CTTCGGGACTTAGCCCGGA-ATTAATCACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGATATTAATAACTAGCACAAATGC
35742121 CTTCGGGACTTA
1 CTTCGGGACTTA
35742133 ACCCCGTTAG
Statistics
Matches: 175, Mismatches: 30, Indels: 12
0.81 0.14 0.06
Matches are distributed among these distances:
38 11 0.06
39 19 0.11
40 143 0.82
41 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (41 bp):
CTTCGGGACTTAGCCCGGATATTAATAACTAGCACAAATGC
Found at i:35742035 original size:80 final size:80
Alignment explanation
Indices: 35741883--35742132 Score: 249
Period size: 80 Copynumber: 3.1 Consensus size: 80
35741873 ACCCAATTAT
* ** * * *
35741883 CTTCGGGATTTAG-CCGGATATAACCACTTGCAC-AAGGCCTTCGGGTCTTAGTCCGG-ATATGG
1 CTTCGGGACTTAGCCCGGATATAATAACTTGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TGG
* * *
35741945 TCACTAGCACAGATGC
65 TAACTAGCACAAAAGC
* *
35741961 CTTCGGGACTTAGCCCGGATATAATAACTTGCACAAATGCCTTCGGGGCTTAGCCCGGAATTTGT
1 CTTCGGGACTTAGCCCGGATATAATAACTTGCACAAATGCCTTCGGGACTTAGCCCGGAATTGGT
35742026 AAC-ACGCACAAAAGC
66 AACTA-GCACAAAAGC
* * ** * **
35742041 CTTCGGGACTTAGCTC-GAAATTTGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAA
1 CTTCGGGACTTAGCCCGGATA-TAATAACTTGCACAAATGCCTTCGGGACTTAGCCCGGAATTGG
* * *
35742105 TCACTAGCACAAATGT
65 TAACTAGCACAAAAGC
35742121 CTTCGGGACTTA
1 CTTCGGGACTTA
35742133 ACCCCGTTAG
Statistics
Matches: 145, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
78 12 0.08
79 22 0.15
80 108 0.74
81 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAATAACTTGCACAAATGCCTTCGGGACTTAGCCCGGAATTGGT
AACTAGCACAAAAGC
Found at i:35750212 original size:40 final size:40
Alignment explanation
Indices: 35750122--35750371 Score: 201
Period size: 40 Copynumber: 6.3 Consensus size: 40
35750112 ACCCAATTAT
* ** * *
35750122 CTTCGGGATTTAGCCGGATA-TAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCGGATATTAATAACTAGCACAAATGC
* ** * *
35750160 CTTCGGGTCTTAGTCCGGATA-TGGTCACTAGCACAGATGC
1 CTTCGGGACTTAG-CCGGATATTAATAACTAGCACAAATGC
*
35750200 CTTCGGGACTTAGGCCGGATA-TAATAACTTGCACAAATGC
1 CTTCGGGACTTA-GCCGGATATTAATAACTAGCACAAATGC
* ** *
35750240 CTTCGGGGCTTAGCCCGGA-ATTTGTAAC-ACGCACAAAAGC
1 CTTCGGGACTTAG-CCGGATATTAATAACTA-GCACAAATGC
* * * *
35750280 CTTCGAGACTTAGCTC-GAAATTTATAACTCGCACAAATGC
1 CTTCGGGACTTAGC-CGGATATTAATAACTAGCACAAATGC
* *
35750320 CTTCGGGACTTAGCCCGGA-ATTAATCACTAGCACAAATGT
1 CTTCGGGACTTAG-CCGGATATTAATAACTAGCACAAATGC
35750360 CTTCGGGACTTA
1 CTTCGGGACTTA
35750372 ACCCCGTTAG
Statistics
Matches: 172, Mismatches: 29, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
38 11 0.06
39 21 0.12
40 136 0.79
41 4 0.02
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCGGATATTAATAACTAGCACAAATGC
Found at i:35750258 original size:80 final size:79
Alignment explanation
Indices: 35750122--35750371 Score: 265
Period size: 80 Copynumber: 3.2 Consensus size: 79
35750112 ACCCAATTAT
* ** * * * *
35750122 CTTCGGGATTTAGCCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGTCCGG-ATATGGT
1 CTTCGGGACTTAGCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT
*
35750185 CACTAGCACAGATGC
65 CACTAGCACAAATGC
* * *
35750200 CTTCGGGACTTAGGCCGGATATAATAACTTGCACAAATGCCTTCGGGGCTTAGCCCGGAATTTGT
1 CTTCGGGACTTA-GCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* *
35750265 AAC-ACGCACAAAAGC
65 CACTA-GCACAAATGC
* * * *
35750280 CTTCGAGACTTAGCTC-GAAATTTATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAA
1 CTTCGGGACTTAGC-CGGATA-TAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
*
35750344 TCACTAGCACAAATGT
64 TCACTAGCACAAATGC
35750360 CTTCGGGACTTA
1 CTTCGGGACTTA
35750372 ACCCCGTTAG
Statistics
Matches: 143, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
78 11 0.08
79 24 0.17
80 105 0.73
81 3 0.02
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTC
ACTAGCACAAATGC
Found at i:35776665 original size:39 final size:40
Alignment explanation
Indices: 35776569--35776758 Score: 233
Period size: 39 Copynumber: 4.8 Consensus size: 40
35776559 TCGAATGGTG
* * * * *
35776569 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAA
* *
35776610 TCCGGGTCAA-TTCCGAAGGCATTTGTGCGAGTTACCAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAA
35776649 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACC-AAA
* *
35776689 TCCGGGTTAAGTCCCGAAGG-ATTCGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAA
* * *
35776728 TCCGGGCTAATTCCCGAAGGCAATTGTGCGA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA
35776759 ATCACTATAA
Statistics
Matches: 130, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
38 7 0.05
39 55 0.42
40 42 0.32
41 26 0.20
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAA
Found at i:35776717 original size:79 final size:79
Alignment explanation
Indices: 35776569--35776758 Score: 240
Period size: 79 Copynumber: 2.4 Consensus size: 79
35776559 TCGAATGGTG
* * * * *
35776569 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACAAAATCCGGGTCAATCCCGAAGGCATTC
35776634 GTGCGAGTTACCAAA
65 GTGCGAGTTACCAAA
* * *
35776649 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAATCCGGGTTAAGTCCCGAAGG-ATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CAAAATCCGGGTCAA-TCCCGAAGGCATT
*
35776712 CGTGCGAGTTACTAAA
64 CGTGCGAGTTACCAAA
* *
35776728 TCCGGGCTAATTCCCGAAGGCAATTGTGCGA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
35776759 ATCACTATAA
Statistics
Matches: 95, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 4 0.04
79 56 0.59
80 35 0.37
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACAAAATCCGGGTCAATCCCGAAGGCATTCG
TGCGAGTTACCAAA
Found at i:35776773 original size:40 final size:39
Alignment explanation
Indices: 35776569--35776799 Score: 195
Period size: 39 Copynumber: 5.8 Consensus size: 39
35776559 TCGAATGGTG
** * *
35776569 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGG-TAAGTCCCGAAGGCAATTGTGC-GAGTTACTAAA
* * *
35776610 TCCGGGTCAA-TTCCGAAGGCATTTGTGCGAGTTACCAAA
1 TCCGGGT-AAGTCCCGAAGGCAATTGTGCGAGTTACTAAA
* *
35776649 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 TCCGGG-TAAGTCCCGAAGGCAATTGTGCGAGTTA-CTAAA
35776689 TCCGGGTTAAGTCCCGAAGG--ATTCGTGCGAGTTACTAAA
1 TCCGGG-TAAGTCCCGAAGGCAATT-GTGCGAGTTACTAAA
* * *
35776728 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 TCCGGG-TAAGTCCCGAAGGCAATTGTGCGAGTTACTA-AA
* * *
35776769 -CCGGG-AATGTCCCGAAGACAATCGAGCGAGT
1 TCCGGGTAA-GTCCCGAAGGCAATTGTGCGAGT
35776800 CGCTATATCC
Statistics
Matches: 162, Mismatches: 18, Indels: 22
0.80 0.09 0.11
Matches are distributed among these distances:
38 8 0.05
39 75 0.46
40 48 0.30
41 31 0.19
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
TCCGGGTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAA
Found at i:35776773 original size:79 final size:79
Alignment explanation
Indices: 35776569--35776799 Score: 238
Period size: 79 Copynumber: 2.9 Consensus size: 79
35776559 TCGAATGGTG
* * * *
35776569 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAA-TTCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TCACTAAATCCGGGT-AAGTCCCGAAGGCATT
*
35776633 TGTGCGAGTTACCAAA
64 CGTGCGAGTTACCAAA
* * * *
35776649 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAATCCGGGTTAAGTCCCGAAGG-ATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATCA-CTAAATCCGGG-TAAGTCCCGAAGGCATT
*
35776712 CGTGCGAGTTACTAAA
64 CGTGCGAGTTACCAAA
* * * *
35776728 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA-CCGGG-AATGTCCCGAAGACAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATCACTA-AATCCGGGTAA-GTCCCGAAGGCATT
*
35776791 CGAGCGAGT
64 CGTGCGAGT
35776800 CGCTATATCC
Statistics
Matches: 126, Mismatches: 18, Indels: 15
0.79 0.11 0.09
Matches are distributed among these distances:
77 2 0.02
78 11 0.09
79 73 0.58
80 40 0.32
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATCACTAAATCCGGGTAAGTCCCGAAGGCATTCG
TGCGAGTTACCAAA
Found at i:35783530 original size:71 final size:71
Alignment explanation
Indices: 35783442--35783605 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
35783432 GAGATGTATC
35783442 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
35783507 AGGACA
66 AGGACA
*
35783513 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
35783578 CGGACA
66 AGGACA
35783584 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
35783606 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:35785447 original size:21 final size:21
Alignment explanation
Indices: 35785417--35785464 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
35785407 ATTTGATGTT
35785417 ATTCTAGGTATGGATTGGCTA
1 ATTCTAGGTATGGATTGGCTA
*
35785438 ATTCTGGGTATGGATTGGCTA
1 ATTCTAGGTATGGATTGGCTA
*
35785459 ACTCTA
1 ATTCTA
35785465 CTTGATGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.23, C:0.12, G:0.27, T:0.38
Consensus pattern (21 bp):
ATTCTAGGTATGGATTGGCTA
Found at i:35787131 original size:30 final size:30
Alignment explanation
Indices: 35787095--35787154 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
35787085 TTCCCGAGCC
*
35787095 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
35787125 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
35787155 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:35796314 original size:40 final size:40
Alignment explanation
Indices: 35796259--35796468 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
35796249 AACATTGGAA
35796259 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
35796299 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
35796339 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
35796379 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
35796418 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
35796459 CTATATCCGG
1 ATATATCCGG
35796469 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:35804449 original size:40 final size:40
Alignment explanation
Indices: 35804394--35804603 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
35804384 AACATTGGAA
35804394 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
35804434 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
35804474 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
35804514 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
35804553 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
35804594 CTATATCCGG
1 ATATATCCGG
35804604 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:35810379 original size:43 final size:43
Alignment explanation
Indices: 35810329--35810436 Score: 128
Period size: 43 Copynumber: 2.5 Consensus size: 43
35810319 TATCCCAGAT
* * *
35810329 ATGGTCTTACATGTTATCACATATCGATGCCACTGTCCCAAAC
1 ATGGTCTTACATGTAATCACATAACGATGCCAATGTCCCAAAC
* * * * *
35810372 A-GAGTCTTACACGAAATCGCTTAACGATGCCAATGTCCCAGAC
1 ATG-GTCTTACATGTAATCACATAACGATGCCAATGTCCCAAAC
35810415 ATGGTCTTACATGTAATCACAT
1 ATGGTCTTACATGTAATCACAT
35810437 CTCAAAAACC
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
42 1 0.02
43 49 0.96
44 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATAACGATGCCAATGTCCCAAAC
Found at i:35814991 original size:49 final size:49
Alignment explanation
Indices: 35814716--35814983 Score: 491
Period size: 49 Copynumber: 5.5 Consensus size: 49
35814706 TATATAATAG
35814716 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
35814765 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
35814814 TATATGCGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
35814863 TATATGCGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
35814912 TATATCTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
35814961 TATGTGTGATAAGGCCTAATGGC
1 TATATGTGATAAGGCCTAATGGC
35814984 TAATGTGAAA
Statistics
Matches: 212, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 212 1.00
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.30
Consensus pattern (49 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
Found at i:35815134 original size:37 final size:37
Alignment explanation
Indices: 35815087--35815206 Score: 197
Period size: 37 Copynumber: 3.2 Consensus size: 37
35815077 AAATATGTTT
* *
35815087 CGGGTGAGACCCGATGACTACATGTGGAGATTATGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
*
35815124 CGGGTAAGACCCGATGACTATGTGTGGAGATTATGT-
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
35815160 CGTGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
1 CG-GGTAAGACCCGATGACTACGTGTGGAGATTATGTC
35815198 CGGGTAAGA
1 CGGGTAAGA
35815207 ATTCGTAATA
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
36 2 0.03
37 73 0.95
38 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (37 bp):
CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
Found at i:35816930 original size:29 final size:27
Alignment explanation
Indices: 35816896--35816998 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
35816886 TACTCAATCA
*
35816896 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
35816925 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
35816954 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
35816983 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
35816999 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:35824495 original size:43 final size:43
Alignment explanation
Indices: 35824330--35824496 Score: 142
Period size: 43 Copynumber: 3.9 Consensus size: 43
35824320 CAAAAGCTCG
* * * * * *
35824330 TACAATGCC-ATATCCCAGATATGGTCCTACATGTTATCAC-A
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCAA
* * ** * * *
35824371 TATCGATGCCATTGTCCCAGACCGGGTCTTACACGAAAT-TGAT
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCAA
* * *
35824414 TAACGATGCCAATGTTCCAGACATGGTCTTATACGTAATCTCAA
1 T-ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCAA
*
35824458 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATC
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATC
35824497 ACATCTCGAT
Statistics
Matches: 96, Mismatches: 25, Indels: 8
0.74 0.19 0.06
Matches are distributed among these distances:
41 2 0.02
42 6 0.06
43 84 0.88
44 4 0.04
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCAA
Found at i:35827815 original size:25 final size:25
Alignment explanation
Indices: 35827717--35827809 Score: 104
Period size: 25 Copynumber: 3.8 Consensus size: 25
35827707 TCATTAGGGA
*
35827717 TTACCGATTCTTAGCTCGTATGAGC
1 TTACCGATTCTAAGCTCGTATGAGC
*
35827742 TTACCGATTGC-AA-CTGGTGA-GAGC
1 TTACCGATT-CTAAGCTCGT-ATGAGC
*
35827766 TTACCGATTCTAAGCTCATATGAGC
1 TTACCGATTCTAAGCTCGTATGAGC
35827791 TTACCGATT-TATAGCTCGT
1 TTACCGATTCTA-AGCTCGT
35827810 GAGAGCATAT
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
23 1 0.02
24 22 0.39
25 33 0.58
26 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (25 bp):
TTACCGATTCTAAGCTCGTATGAGC
Found at i:35832891 original size:42 final size:42
Alignment explanation
Indices: 35832828--35832911 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
35832818 TAACCTAATT
35832828 GGGAAAATAATTCCCTCATTCTAATAAACTACTAAAAGATAA
1 GGGAAAATAATTCCCTCATTCTAATAAACTACTAAAAGATAA
*
35832870 GGGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAA
1 GGGAAAATAATTCCCTCATTCTAATAAACTACTAAAAGATAA
35832912 AATAAAATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.48, C:0.15, G:0.10, T:0.27
Consensus pattern (42 bp):
GGGAAAATAATTCCCTCATTCTAATAAACTACTAAAAGATAA
Found at i:35832919 original size:42 final size:42
Alignment explanation
Indices: 35832830--35832924 Score: 147
Period size: 42 Copynumber: 2.3 Consensus size: 42
35832820 ACCTAATTGG
**
35832830 GAAAATAATTCCCTCATTCTAATAAACTACTAAAAGATAAGG
1 GAAAATAATTCCCTCATTCTAATAAACTACTAAAAGATAAAA
*
35832872 GAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAATTCCCTCATTCTAATAAACTACTAAAAGATAAAA
*
35832914 TAAAAT-ATTCC
1 GAAAATAATTCC
35832925 TAGAATATCT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 5 0.10
42 44 0.90
ACGTcount: A:0.49, C:0.16, G:0.06, T:0.28
Consensus pattern (42 bp):
GAAAATAATTCCCTCATTCTAATAAACTACTAAAAGATAAAA
Found at i:35832972 original size:19 final size:19
Alignment explanation
Indices: 35832948--35832994 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
35832938 ATGATTTATT
35832948 ATAAGATTTATCTACCTAA
1 ATAAGATTTATCTACCTAA
*
35832967 ATAAGATTTATCTACCTAG
1 ATAAGATTTATCTACCTAA
35832986 ATAA-ATTTA
1 ATAAGATTTA
35832995 AAATATATCC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 5 0.19
19 22 0.81
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.38
Consensus pattern (19 bp):
ATAAGATTTATCTACCTAA
Found at i:35836636 original size:21 final size:21
Alignment explanation
Indices: 35836599--35836638 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
35836589 AATCATTAAA
*
35836599 TTGATGTTATGATATGTGTCT
1 TTGATGTTATGAAATGTGTCT
35836620 TTGATGTGTAT-AAATGTGT
1 TTGATGT-TATGAAATGTGT
35836639 AAGGGATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.23, C:0.03, G:0.25, T:0.50
Consensus pattern (21 bp):
TTGATGTTATGAAATGTGTCT
Found at i:35848218 original size:38 final size:38
Alignment explanation
Indices: 35848167--35848241 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
35848157 GCACGATGAG
35848167 AATGTGTATCGATTATCGACAGCTCGATAAAATGACCA
1 AATGTGTATCGATTATCGACAGCTCGATAAAATGACCA
35848205 AATGTGTATCGATTATCGACAGCTCGATAAAATGACC
1 AATGTGTATCGATTATCGACAGCTCGATAAAATGACC
35848242 GTCAAGAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (38 bp):
AATGTGTATCGATTATCGACAGCTCGATAAAATGACCA
Found at i:35853956 original size:42 final size:42
Alignment explanation
Indices: 35853897--35853977 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
35853887 CATAATTGAG
*
35853897 CACACGGGCAGATACACGAACGTCTGTCTCAGCCGTGTGTGC
1 CACACGGCCAGATACACGAACGTCTGTCTCAGCCGTGTGTGC
* * **
35853939 CACACGGCCTAGA-ACACGAGCGTGTGTCTTGGCCGTGTG
1 CACACGGCC-AGATACACGAACGTCTGTCTCAGCCGTGTG
35853978 AAACCTACAC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 30 0.91
43 3 0.09
ACGTcount: A:0.20, C:0.30, G:0.31, T:0.20
Consensus pattern (42 bp):
CACACGGCCAGATACACGAACGTCTGTCTCAGCCGTGTGTGC
Found at i:35859081 original size:29 final size:29
Alignment explanation
Indices: 35859047--35859106 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
35859037 TAGCCATTTT
35859047 TATTTTCTTTCAGAAACTAAAATGTGACA
1 TATTTTCTTTCAGAAACTAAAATGTGACA
*
35859076 TATTTTCTTTCAGAGACTAAAATGTGACA
1 TATTTTCTTTCAGAAACTAAAATGTGACA
35859105 TA
1 TA
35859107 CTGTTGGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (29 bp):
TATTTTCTTTCAGAAACTAAAATGTGACA
Found at i:35860198 original size:41 final size:41
Alignment explanation
Indices: 35860141--35860224 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
35860131 GGTACCAGAT
*
35860141 CACTAGTTCAGTTTCCAATGTTTGAGTCATCTATCAGACAA
1 CACTAGTTCAGTTTCCAATGTTTGAGCCATCTATCAGACAA
35860182 CACTAGTTCAGTTTCCAATGTTTGAGCCATCTATCAGACAA
1 CACTAGTTCAGTTTCCAATGTTTGAGCCATCTATCAGACAA
35860223 CA
1 CA
35860225 GAGAATAAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (41 bp):
CACTAGTTCAGTTTCCAATGTTTGAGCCATCTATCAGACAA
Found at i:35860483 original size:27 final size:27
Alignment explanation
Indices: 35860448--35860502 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
35860438 TATTTTAGCC
*
35860448 AAAAGAGACGAAAATAAGAAGGATCAA
1 AAAAGAGACGAAAATAAAAAGGATCAA
35860475 AAAAGAGACGAAAATAAAAAGGATCAA
1 AAAAGAGACGAAAATAAAAAGGATCAA
35860502 A
1 A
35860503 CTTTTGGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.65, C:0.07, G:0.20, T:0.07
Consensus pattern (27 bp):
AAAAGAGACGAAAATAAAAAGGATCAA
Found at i:35863561 original size:25 final size:25
Alignment explanation
Indices: 35863529--35863585 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 25
35863519 AAATAGCATT
35863529 AAAC-AAGAAAGAAAGCATAAATGG
1 AAACTAAGAAAGAAAGCATAAATGG
35863553 AAACT----AAGAAAGCATAAATGG
1 AAACTAAGAAAGAAAGCATAAATGG
35863574 AAACTAAGAAAG
1 AAACTAAGAAAG
35863586 CATAAGAACG
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
21 21 0.75
24 4 0.14
25 3 0.11
ACGTcount: A:0.61, C:0.09, G:0.19, T:0.11
Consensus pattern (25 bp):
AAACTAAGAAAGAAAGCATAAATGG
Found at i:35863562 original size:21 final size:21
Alignment explanation
Indices: 35863537--35863590 Score: 108
Period size: 21 Copynumber: 2.6 Consensus size: 21
35863527 TTAAACAAGA
35863537 AAGAAAGCATAAATGGAAACT
1 AAGAAAGCATAAATGGAAACT
35863558 AAGAAAGCATAAATGGAAACT
1 AAGAAAGCATAAATGGAAACT
35863579 AAGAAAGCATAA
1 AAGAAAGCATAA
35863591 GAACGTAGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.59, C:0.09, G:0.19, T:0.13
Consensus pattern (21 bp):
AAGAAAGCATAAATGGAAACT
Found at i:35865552 original size:11 final size:12
Alignment explanation
Indices: 35865522--35865555 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
35865512 CGGCCTGCCC
35865522 ATATTAATTTTT
1 ATATTAATTTTT
35865534 ATATTAATTTTT
1 ATATTAATTTTT
35865546 ATA-TAATTTT
1 ATATTAATTTT
35865556 AAAATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 7 0.32
12 15 0.68
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:35865714 original size:30 final size:31
Alignment explanation
Indices: 35865678--35865741 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 31
35865668 ACTTAACAAG
*
35865678 CAAATGT-TTCTAAAATAATAA-CAAAATTAA
1 CAAATGTCTT-TAAAATAATAATAAAAATTAA
35865708 CAAATGTCTTTAAAATAATAATAAAAATTAA
1 CAAATGTCTTTAAAATAATAATAAAAATTAA
35865739 CAA
1 CAA
35865742 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 18 0.58
31 13 0.42
ACGTcount: A:0.58, C:0.09, G:0.03, T:0.30
Consensus pattern (31 bp):
CAAATGTCTTTAAAATAATAATAAAAATTAA
Found at i:35865791 original size:14 final size:14
Alignment explanation
Indices: 35865772--35865802 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
35865762 ATCTAAACAA
35865772 TAACAACAAAATAG
1 TAACAACAAAATAG
*
35865786 TAACAACATAATAG
1 TAACAACAAAATAG
35865800 TAA
1 TAA
35865803 AATAGTAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (14 bp):
TAACAACAAAATAG
Found at i:35866263 original size:31 final size:29
Alignment explanation
Indices: 35866215--35866327 Score: 95
Period size: 29 Copynumber: 3.8 Consensus size: 29
35866205 ATAAGTATTA
* *
35866215 AATTTATCCATAAATTTTGATTTAATATAC
1 AATTTATACATGAATTTTGATTT-ATATAC
35866245 AATTTAATACATGAATTTTGATTTGATATA-
1 AATTT-ATACATGAATTTTGATTT-ATATAC
* * * * *
35866275 ACTATACACATGAACTTTGATTT-TGTAC
1 AATTTATACATGAATTTTGATTTATATAC
*
35866303 AATTTTATATATGAAATTTTGATTT
1 AA-TTTATACATG-AATTTTGATTT
35866328 GACCGGATTC
Statistics
Matches: 66, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
27 3 0.05
28 1 0.02
29 23 0.35
30 18 0.27
31 21 0.32
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (29 bp):
AATTTATACATGAATTTTGATTTATATAC
Found at i:35875541 original size:19 final size:19
Alignment explanation
Indices: 35875491--35875543 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
35875481 TAGAAATATA
*
35875491 TTAAAAACTTAT-AATATTT
1 TTAAAAA-TTATAAAAATTT
* *
35875510 TGAAATATATATAAAAATTT
1 TTAAAAAT-TATAAAAATTT
35875530 TTAAAAATTATAAA
1 TTAAAAATTATAAA
35875544 TATATATAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
18 1 0.04
19 14 0.52
20 12 0.44
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
TTAAAAATTATAAAAATTT
Found at i:35875551 original size:10 final size:10
Alignment explanation
Indices: 35875512--35875596 Score: 54
Period size: 10 Copynumber: 8.9 Consensus size: 10
35875502 TAATATTTTG
35875512 AAATATATAT
1 AAATATATAT
* * *
35875522 AAAAATTTTT
1 AAATATATAT
*
35875532 AAAAAT-TAT
1 AAATATATAT
35875541 AAATATATAT
1 AAATATATAT
*
35875551 AAATGTATA-
1 AAATATATAT
35875560 AAATA-ACTA-
1 AAATATA-TAT
*
35875569 AAAT-TTTAT
1 AAATATATAT
* *
35875578 AAATTTATAA
1 AAATATATAT
35875588 AAATATATA
1 AAATATATA
35875597 AAAAACTAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
8 3 0.05
9 21 0.36
10 35 0.59
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (10 bp):
AAATATATAT
Found at i:35875554 original size:27 final size:27
Alignment explanation
Indices: 35875516--35875598 Score: 80
Period size: 27 Copynumber: 3.0 Consensus size: 27
35875506 ATTTTGAAAT
* *
35875516 ATATATAAAAATTTTTAAAAATTATAA
1 ATATATATAAATTTATAAAAATTATAA
* *
35875543 ATATATATAAATGTAT-AAAATAACTAA
1 ATATATATAAATTTATAAAAATTA-TAA
*
35875570 A-ATTTTATAAATTTATAAAAATATATAA
1 ATA-TATATAAATTTATAAAAAT-TATAA
35875598 A
1 A
35875599 AAACTAAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
26 7 0.16
27 28 0.62
28 9 0.20
29 1 0.02
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (27 bp):
ATATATATAAATTTATAAAAATTATAA
Found at i:35875578 original size:37 final size:36
Alignment explanation
Indices: 35875537--35875607 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 36
35875527 TTTTTAAAAA
* *
35875537 TTATAAATATATATAAATGTATAAAATAACTAAAATT
1 TTATAAATATATAAAAATATATAAAA-AACTAAAATT
*
35875574 TTATAAATTTATAAAAATATATAAAAAACTAAAA
1 TTATAAATATATAAAAATATATAAAAAACTAAAA
35875608 AATCCCGTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 8 0.26
37 23 0.74
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (36 bp):
TTATAAATATATAAAAATATATAAAAAACTAAAATT
Found at i:35876823 original size:2 final size:2
Alignment explanation
Indices: 35876816--35876848 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
35876806 AAAAACTTTA
*
35876816 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
35876849 AAAAGGGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35883180 original size:15 final size:14
Alignment explanation
Indices: 35883154--35883198 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 14
35883144 AGGCAACCCA
*
35883154 ATTTTTATTTTTCTTT
1 ATTTTTA-TTTT-ATT
35883170 ATTTTTATTTTATT
1 ATTTTTATTTTATT
35883184 ATTTATTATTTTATT
1 ATTT-TTATTTTATT
35883199 TTATTATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 6 0.22
15 14 0.52
16 7 0.26
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (14 bp):
ATTTTTATTTTATT
Found at i:35883197 original size:20 final size:20
Alignment explanation
Indices: 35883172--35883220 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
35883162 TTTTCTTTAT
* *
35883172 TTTTATTTTATTATTTATTA
1 TTTTATTTTATTATTAATCA
35883192 TTTTATTTTATTATTAATCA
1 TTTTATTTTATTATTAATCA
*
35883212 CTTTATTTT
1 TTTTATTTT
35883221 GTTTGGATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTATTTTATTATTAATCA
Found at i:35883217 original size:25 final size:22
Alignment explanation
Indices: 35883156--35883220 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 22
35883146 GCAACCCAAT
35883156 TTTTATT-TTT-CTTTATTTTTA
1 TTTTATTATTTACTTTA-TTTTA
35883177 TTTTATTATTTA--TTATTTTA
1 TTTTATTATTTACTTTATTTTA
35883197 TTTTATTATTAATCACTTTATTTT
1 TTTTATTATT--T-ACTTTATTTT
35883221 GTTTGGATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
20 15 0.41
21 10 0.27
22 4 0.11
23 1 0.03
25 7 0.19
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTATTATTTACTTTATTTTA
Found at i:35893366 original size:20 final size:22
Alignment explanation
Indices: 35893343--35893388 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 22
35893333 AATAGTGGAT
35893343 TATTTTTAA-AATA-TTAAAAA
1 TATTTTTAACAATATTTAAAAA
*
35893363 TA--TTTAACTATATTTAAAAA
1 TATTTTTAACAATATTTAAAAA
35893383 TATTTT
1 TATTTT
35893389 ATTTTATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
18 5 0.24
19 3 0.14
20 11 0.52
22 2 0.10
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TATTTTTAACAATATTTAAAAA
Found at i:35893385 original size:10 final size:10
Alignment explanation
Indices: 35893350--35893387 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
35893340 GATTATTTTT
35893350 AAAATA-TTA
1 AAAATATTTA
35893359 AAAATATTTA
1 AAAATATTTA
**
35893369 ACTATATTTA
1 AAAATATTTA
35893379 AAAATATTT
1 AAAATATTT
35893388 TATTTTATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
9 6 0.25
10 18 0.75
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (10 bp):
AAAATATTTA
Found at i:35898733 original size:18 final size:20
Alignment explanation
Indices: 35898691--35898727 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
35898681 ATATTTTATG
*
35898691 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
35898710 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
35898728 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:35900719 original size:40 final size:40
Alignment explanation
Indices: 35900664--35900763 Score: 139
Period size: 40 Copynumber: 2.5 Consensus size: 40
35900654 TGATACCCGG
* *
35900664 GCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGA
1 GCTAAGACCCGAAGGCATTTATGCGAGTTG-TTATATCCGA
** *
35900704 GCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGG
1 GCTAAGACCCGAAGGCATTTATGCGAGTTGTTATATCCGA
35900744 GCTAAGACCCGAAGGCATTT
1 GCTAAGACCCGAAGGCATTT
35900764 GTGCAAGCTA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 51 0.96
41 2 0.04
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
GCTAAGACCCGAAGGCATTTATGCGAGTTGTTATATCCGA
Found at i:35904300 original size:46 final size:46
Alignment explanation
Indices: 35904233--35904587 Score: 462
Period size: 46 Copynumber: 7.7 Consensus size: 46
35904223 TGGCAACCTG
35904233 ACGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAA
1 ACGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAA
35904279 ACGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAA
1 ACGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAA
*
35904325 ACGTGTAAGACCATGGTTGAAAGATACCATGGTAGCCTGATATGAA
1 ACGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAA
35904371 ACGTGTAAGACCATGGTTGAAAGATACCATGGCA-CCTGATATGAA
1 ACGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAA
* * ***
35904416 ACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAA
1 ACGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAA
**** * ** *
35904462 ATAAATAAGACCATGGTTGAAAGATACCATGACAGTGTGACATGAA
1 ACGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAA
* ** * * *
35904508 ATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAA
1 ACGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATG-AA
* * * * *
35904554 ATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ACGTGTAAGACCATGGTTGAAAGATACCATGGCA
35904588 TCATGTCAAA
Statistics
Matches: 282, Mismatches: 25, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
45 46 0.16
46 236 0.84
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (46 bp):
ACGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAA
Found at i:35904564 original size:183 final size:176
Alignment explanation
Indices: 35904189--35904587 Score: 485
Period size: 183 Copynumber: 2.2 Consensus size: 176
35904179 GTTCTTTGAT
35904189 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACGTGTAAGACCATGGTTGAA
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC-ACCTGACGTGTAAGACCATGGTTGAA
* * * * *** *
35904254 AGATACCATGGCAGCCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGA
65 AGATACCATGGCAACATGACAGGAAACAAATAAGACCATGGTTGAAAGATACCATGACAGCCTGA
* ** * * * *
35904319 TATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGTAGCCTGAT
130 CATGAAACGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
35904366 ATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCACCTGATATGAAACGTGTAAGACCATG
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCACC-----TG--ACGTGTAAGACCATG
* *
35904431 GTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGACA
59 GTTGAAAGATACCATGGCAACATGACAGGAAACAAATAAGACCATGGTTGAAAGATACCATGACA
** *
35904496 GTGTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
124 GCCTGACATGAAACGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
35904549 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
35904588 TCATGTCAAA
Statistics
Matches: 188, Mismatches: 26, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
176 3 0.02
177 37 0.20
181 2 0.01
182 1 0.01
183 145 0.77
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (176 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCACCTGACGTGTAAGACCATGGTTGAAA
GATACCATGGCAACATGACAGGAAACAAATAAGACCATGGTTGAAAGATACCATGACAGCCTGAC
ATGAAACGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:35904632 original size:137 final size:136
Alignment explanation
Indices: 35904238--35904617 Score: 363
Period size: 137 Copynumber: 2.8 Consensus size: 136
35904228 ACCTGACGTG
* * * *
35904238 TAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCA-CATGACATGAAACGAGTAAGACCATAGTTGAAAGA
* * * * * * * * ** ** *
35904303 TACCATGGCAGCCTGATATGAAACGT--GTAAGACCATGGTTGAAAGATACCATGGTAGCCTGAT
65 CACCATGGCAACATG--ACGAAA-ATAAATAAGACCATGGATGAAAGACACCATGACAGTGTGAC
* **
35904366 ATGAAACGTG
127 ATGAAATGAA
* * * * *
35904376 TAAGACCATGGTTGAAAGATACCATGGCACCTGATATGAAACGTGTAAGACCATGGTTGAAAGAT
1 TAAGACCATGGTTGAAAGATACCATGGCACATGACATGAAACGAGTAAGACCATAGTTGAAAGAC
* * *
35904441 ACCATGGCAACATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGACAGTGTGACATG
66 ACCATGGCAACATGAC-GAAAATAAATAAGACCATGGATGAAAGACACCATGACAGTGTGACATG
35904506 AAATGAA
130 AAATGAA
*
35904513 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGGC-ACATGACATG-AAACGAGTAAGACCATAGTTGAAAG
* * * *
35904577 ACACTATGGCATCATGTC-AAAGATAAATAAGACCGTGGATG
64 ACACCATGGCAACATGACGAAA-ATAAATAAGACCATGGATG
35904618 GGAGACGCTA
Statistics
Matches: 210, Mismatches: 26, Indels: 13
0.84 0.10 0.05
Matches are distributed among these distances:
135 2 0.01
136 5 0.02
137 132 0.63
138 71 0.34
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (136 bp):
TAAGACCATGGTTGAAAGATACCATGGCACATGACATGAAACGAGTAAGACCATAGTTGAAAGAC
ACCATGGCAACATGACGAAAATAAATAAGACCATGGATGAAAGACACCATGACAGTGTGACATGA
AATGAA
Found at i:35908827 original size:24 final size:24
Alignment explanation
Indices: 35908800--35908846 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
35908790 AGCCACAATC
* *
35908800 GGGAAGTTTACAAAGAACCATATT
1 GGGAAGCTCACAAAGAACCATATT
*
35908824 GGGAAGCTCACAAAGAGCCATAT
1 GGGAAGCTCACAAAGAACCATAT
35908847 AATAGGAAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.19
Consensus pattern (24 bp):
GGGAAGCTCACAAAGAACCATATT
Found at i:35908868 original size:74 final size:75
Alignment explanation
Indices: 35908790--35908933 Score: 161
Period size: 74 Copynumber: 1.9 Consensus size: 75
35908780 AGTTCATAAG
* * *
35908790 AGCCACA-ATCGGGAAGTTTACAAAG-AACCA-TATTGGGAAGCTCACAAAGAGCC-ATATAATA
1 AGCCACATATCAGGAAG-TT-C-AAGCAACCACTATCGGGAAGCTCACAAAGAGCCAATATAACA
35908851 GGAAGCTCCAGAT
63 GGAAGCTCCAGAT
* * * * *
35908864 AGCCATATATCAGGAAGTTCAAGCGAGCACTATCGGGAAGCTCACGAAGAGCCAATTTAACAGGA
1 AGCCACATATCAGGAAGTTCAAGCAACCACTATCGGGAAGCTCACAAAGAGCCAATATAACAGGA
35908929 AGCTC
66 AGCTC
35908934 ACGAAGAGCC
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
72 3 0.05
73 4 0.07
74 29 0.50
75 22 0.38
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (75 bp):
AGCCACATATCAGGAAGTTCAAGCAACCACTATCGGGAAGCTCACAAAGAGCCAATATAACAGGA
AGCTCCAGAT
Found at i:35908871 original size:25 final size:26
Alignment explanation
Indices: 35908787--35908947 Score: 88
Period size: 25 Copynumber: 6.5 Consensus size: 26
35908777 GGAAGTTCAT
* * * *
35908787 AAGAGCCACA-ATCGGGAAGTTTACA
1 AAGAGCCATATATCAGGAAGCTCACA
* *
35908812 AAGAACCATAT-T-GGGAAGCTCACA
1 AAGAGCCATATATCAGGAAGCTCACA
35908836 AAGAGCCATATAAT-AGGAAGCTC-CA
1 AAGAGCCATAT-ATCAGGAAGCTCACA
* * *
35908861 GATAGCCATATATCAGGAAGTTCA-A
1 AAGAGCCATATATCAGGAAGCTCACA
** * * *
35908886 GCGAG-CA-CTATCGGGAAGCTCACG
1 AAGAGCCATATATCAGGAAGCTCACA
* * *
35908910 AAGAGCCAATTTAACAGGAAGCTCACG
1 AAGAGCC-ATATATCAGGAAGCTCACA
35908937 AAGAGCC-TATA
1 AAGAGCCATATA
35908948 ATTGGGATGC
Statistics
Matches: 106, Mismatches: 21, Indels: 18
0.73 0.14 0.12
Matches are distributed among these distances:
23 12 0.11
24 27 0.25
25 36 0.34
26 10 0.09
27 21 0.20
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.17
Consensus pattern (26 bp):
AAGAGCCATATATCAGGAAGCTCACA
Found at i:35912364 original size:9 final size:9
Alignment explanation
Indices: 35912334--35912367 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
35912324 GTTTGTTTCC
*
35912334 ATTGTGATG
1 ATTGTGGTG
*
35912343 ATTATGGTG
1 ATTGTGGTG
35912352 ATTGTGGTG
1 ATTGTGGTG
35912361 ATTGTGG
1 ATTGTGG
35912368 CAAAAGAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.38, T:0.44
Consensus pattern (9 bp):
ATTGTGGTG
Found at i:35914902 original size:93 final size:93
Alignment explanation
Indices: 35914743--35914928 Score: 336
Period size: 93 Copynumber: 2.0 Consensus size: 93
35914733 TATGTGAAGT
* *
35914743 GTTTTATTGTTTAATTAATGCTTATAGAGTTATATGAGGGTCATATTAAAATATGGTTAAGAAAT
1 GTTTTATTATTTAATTAATGCTTATAGAGTTATATGAGGGTCATACTAAAATATGGTTAAGAAAT
35914808 TATAATGTTTAGATAGTTAATTAAGTAA
66 TATAATGTTTAGATAGTTAATTAAGTAA
* *
35914836 GTTTTATTATTTAATTAATGCTTATAGCGTTATGTGAGGGTCATACTAAAATATGGTTAAGAAAT
1 GTTTTATTATTTAATTAATGCTTATAGAGTTATATGAGGGTCATACTAAAATATGGTTAAGAAAT
35914901 TATAATGTTTAGATAGTTAATTAAGTAA
66 TATAATGTTTAGATAGTTAATTAAGTAA
35914929 AACAAGATTA
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 89 1.00
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.42
Consensus pattern (93 bp):
GTTTTATTATTTAATTAATGCTTATAGAGTTATATGAGGGTCATACTAAAATATGGTTAAGAAAT
TATAATGTTTAGATAGTTAATTAAGTAA
Found at i:35916103 original size:20 final size:20
Alignment explanation
Indices: 35916047--35916124 Score: 63
Period size: 20 Copynumber: 3.9 Consensus size: 20
35916037 CCCCTGTGAA
* *
35916047 CACTTTGGTGTCCCT-ATTTG
1 CACTTTGGTGCCCCTGA-ATG
* *
35916067 CACATTCGTGCCCCCTGAATG
1 CACTTTGGTG-CCCCTGAATG
35916088 CACTTTGGTGCCCCTG-ATAG
1 CACTTTGGTGCCCCTGAAT-G
35916108 CACATTT-GTGCCCCTGA
1 CAC-TTTGGTGCCCCTGA
35916125 TTTCGGCGCC
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
19 2 0.04
20 27 0.57
21 17 0.36
22 1 0.02
ACGTcount: A:0.15, C:0.32, G:0.21, T:0.32
Consensus pattern (20 bp):
CACTTTGGTGCCCCTGAATG
Found at i:35916125 original size:20 final size:21
Alignment explanation
Indices: 35916065--35916125 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 21
35916055 TGTCCCTATT
*
35916065 TGCACATTCGTGCCCCCTGA-A
1 TGCACATTTGTG-CCCCTGATA
35916086 TGCAC-TTTGGTGCCCCTGATA
1 TGCACATTT-GTGCCCCTGATA
35916107 -GCACATTTGTGCCCCTGAT
1 TGCACATTTGTGCCCCTGAT
35916126 TTCGGCGCCC
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
20 24 0.67
21 12 0.33
ACGTcount: A:0.16, C:0.33, G:0.21, T:0.30
Consensus pattern (21 bp):
TGCACATTTGTGCCCCTGATA
Found at i:35919370 original size:40 final size:40
Alignment explanation
Indices: 35919276--35919460 Score: 237
Period size: 40 Copynumber: 4.6 Consensus size: 40
35919266 TATTCGAATG
* * *
35919276 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGATGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* * * * * *
35919317 ATAACCGGACTAAGATCTGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
*
35919357 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
35919397 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
35919437 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
35919461 CTTGTGCAAG
Statistics
Matches: 122, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
39 1 0.01
40 93 0.76
41 28 0.23
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:35921670 original size:506 final size:506
Alignment explanation
Indices: 35920718--35921731 Score: 1992
Period size: 506 Copynumber: 2.0 Consensus size: 506
35920708 AACTCGAGAT
35920718 ATGAGTTTTAAGGTGACAGTGACGCAGTTAGCCAGCTCGTCTGGAAATTTAAAATGGACTGTGCA
1 ATGAGTTTTAAGGTGACAGTGACGCAGTTAGCCAGCTCGTCTGGAAATTTAAAATGGACTGTGCA
* *
35920783 AATAAGTGATTTAAGTCTACGAACCCCTCGTGTCTGACTCCGACAACGGTCTCTGGTACGGGGTG
66 AATAAGTGATTTAAGTCTACGAACCCCTCGTGTCTAACTCCGACAACGGTCTCGGGTACGGGGTG
35920848 TTACAGTCTTTGGATGCTGATTTTGGCTATTTTTAGCTACCTTCTCAACCTATAAATACCTCCCT
131 TTACAGTCTTTGGATGCTGATTTTGGCTATTTTTAGCTACCTTCTCAACCTATAAATACCTCCCT
35920913 TGGCTGCTCACTTACTTCTCTCTCACTTTTCTCTCTTCATTGTTCTTCATTTCCTTCCCTATTCC
196 TGGCTGCTCACTTACTTCTCTCTCACTTTTCTCTCTTCATTGTTCTTCATTTCCTTCCCTATTCC
35920978 TTTGCCAATTTCACATCTTGGAAAAGATTCCTTCAACCACCATTTGGAGCACCATTCAAGTGTTT
261 TTTGCCAATTTCACATCTTGGAAAAGATTCCTTCAACCACCATTTGGAGCACCATTCAAGTGTTT
35921043 GTGGAAGCCTCAGTTCAACAAGAACAAGCGGAGAAGGAGAAGCGGAGCAAACTAGTCAAGCCTTA
326 GTGGAAGCCTCAGTTCAACAAGAACAAGCGGAGAAGGAGAAGCGGAGCAAACTAGTCAAGCCTTA
35921108 GAGAAACACCGGATTTTATTCTTGTTCCCTATCTTTTTAATTTTGTTGTTTTTATGTTGAACATG
391 GAGAAACACCGGATTTTATTCTTGTTCCCTATCTTTTTAATTTTGTTGTTTTTATGTTGAACATG
35921173 TCTATGAATATTTGTGATGTTGATATGTTTAATTTAATTAATTTGGATTAA
456 TCTATGAATATTTGTGATGTTGATATGTTTAATTTAATTAATTTGGATTAA
35921224 ATGAGTTTTAAGGTGACAGTGACGCAGTTAGCCAGCTCGTCTGGAAATTTAAAATGGACTGTGCA
1 ATGAGTTTTAAGGTGACAGTGACGCAGTTAGCCAGCTCGTCTGGAAATTTAAAATGGACTGTGCA
*
35921289 AATAAGTGATTTAAGTCTGCGAACCCCTCGTGTCTAACTCCGACAACGGTCTCGGGTACGGGGTG
66 AATAAGTGATTTAAGTCTACGAACCCCTCGTGTCTAACTCCGACAACGGTCTCGGGTACGGGGTG
35921354 TTACAGTCTTTGGATGCTGATTTTGGCTATTTTTAGCTACCTTCTCAACCTATAAATACCTCCCT
131 TTACAGTCTTTGGATGCTGATTTTGGCTATTTTTAGCTACCTTCTCAACCTATAAATACCTCCCT
35921419 TGGCTGCTCACTTACTTCTCTCTCACTTTTCTCTCTTCATTGTTCTTCATTTCCTTCCCTATTCC
196 TGGCTGCTCACTTACTTCTCTCTCACTTTTCTCTCTTCATTGTTCTTCATTTCCTTCCCTATTCC
35921484 TTTGCCAATTTCACATCTTGGAAAAGATTCCTTCAACCACCATTTGGAGCACCATTCAAGTGTTT
261 TTTGCCAATTTCACATCTTGGAAAAGATTCCTTCAACCACCATTTGGAGCACCATTCAAGTGTTT
*
35921549 GTGGAAGCCTCAGTTTAACAAGAACAAGCGGAGAAGGAGAAGCGGAGCAAACTAGTCAAGCCTTA
326 GTGGAAGCCTCAGTTCAACAAGAACAAGCGGAGAAGGAGAAGCGGAGCAAACTAGTCAAGCCTTA
35921614 GAGAAACACCGGATTTTATTCTTGTTCCCTATCTTTTTAATTTTGTTGTTTTTATGTTGAACATG
391 GAGAAACACCGGATTTTATTCTTGTTCCCTATCTTTTTAATTTTGTTGTTTTTATGTTGAACATG
35921679 TCTATGAATATTTGTGATGTTGATATGTTTAATTTAATTAATTTGGATTAA
456 TCTATGAATATTTGTGATGTTGATATGTTTAATTTAATTAATTTGGATTAA
35921730 AT
1 AT
35921732 TTATTTCATG
Statistics
Matches: 504, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
506 504 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.36
Consensus pattern (506 bp):
ATGAGTTTTAAGGTGACAGTGACGCAGTTAGCCAGCTCGTCTGGAAATTTAAAATGGACTGTGCA
AATAAGTGATTTAAGTCTACGAACCCCTCGTGTCTAACTCCGACAACGGTCTCGGGTACGGGGTG
TTACAGTCTTTGGATGCTGATTTTGGCTATTTTTAGCTACCTTCTCAACCTATAAATACCTCCCT
TGGCTGCTCACTTACTTCTCTCTCACTTTTCTCTCTTCATTGTTCTTCATTTCCTTCCCTATTCC
TTTGCCAATTTCACATCTTGGAAAAGATTCCTTCAACCACCATTTGGAGCACCATTCAAGTGTTT
GTGGAAGCCTCAGTTCAACAAGAACAAGCGGAGAAGGAGAAGCGGAGCAAACTAGTCAAGCCTTA
GAGAAACACCGGATTTTATTCTTGTTCCCTATCTTTTTAATTTTGTTGTTTTTATGTTGAACATG
TCTATGAATATTTGTGATGTTGATATGTTTAATTTAATTAATTTGGATTAA
Found at i:35924337 original size:40 final size:40
Alignment explanation
Indices: 35924293--35924372 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
35924283 ATAAAATTAA
35924293 CACAATTATTAAAGTTTTACAAATAAGACCATTGGAGGAC
1 CACAATTATTAAAGTTTTACAAATAAGACCATTGGAGGAC
35924333 CACAATTATTAAAGTTTTACAAATAAGACCATTGGAGGAC
1 CACAATTATTAAAGTTTTACAAATAAGACCATTGGAGGAC
35924373 TCGCACTTTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (40 bp):
CACAATTATTAAAGTTTTACAAATAAGACCATTGGAGGAC
Found at i:35926881 original size:44 final size:44
Alignment explanation
Indices: 35926781--35926946 Score: 189
Period size: 44 Copynumber: 3.8 Consensus size: 44
35926771 AGCTCGTACA
* *
35926781 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCA-AATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAA-GTCG
* *
35926824 ATGCC-ACTATCCCAGACAG-AGTCTTACACGTAAATCATAAGTCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAATCATAAGTCG
* * * *
35926868 ATGTCAATGTCCCAGATGTGGTCTTACATGTAAATCATAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAAGTCG
*
35926912 ATGCCAACGTCCCATACGTGGTCTTACACG-AAATC
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATC
35926947 TCATATTGGA
Statistics
Matches: 102, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
42 2 0.02
43 29 0.28
44 68 0.67
45 3 0.03
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAAGTCG
Found at i:35940987 original size:17 final size:18
Alignment explanation
Indices: 35940962--35940998 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
35940952 ACGAACTGAA
35940962 TTTAATTAAA-GATTTTT
1 TTTAATTAAAGGATTTTT
*
35940979 TTTACTTAAAGGATTTTT
1 TTTAATTAAAGGATTTTT
35940997 TT
1 TT
35940999 GTGTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (18 bp):
TTTAATTAAAGGATTTTT
Found at i:35942508 original size:46 final size:46
Alignment explanation
Indices: 35942458--35942633 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
35942448 TGGTTGAGCA
*
35942458 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
35942504 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
35942551 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * **
35942597 TCCGAGCTTGTTGAGTTGAGTCCGAGTTGGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35942634 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 63 0.58
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:35942614 original size:93 final size:93
Alignment explanation
Indices: 35942455--35942624 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 93
35942445 GGATGGTTGA
*
35942455 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
35942520 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
35942548 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
35942613 TGAGTCCGAGTT
66 TGAGTCCGAGTT
35942625 GGCTTATGGG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:35945330 original size:20 final size:20
Alignment explanation
Indices: 35945289--35945330 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
35945279 TTAATATGTT
*
35945289 AATGCAATATTTTCAGAAAA
1 AATGCAATATTTTCAAAAAA
35945309 AATGCAGAT-TTTTCAAAAAA
1 AATGCA-ATATTTTCAAAAAA
35945329 AA
1 AA
35945331 AAACTTCCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.29
Consensus pattern (20 bp):
AATGCAATATTTTCAAAAAA
Found at i:35946096 original size:32 final size:32
Alignment explanation
Indices: 35946060--35946131 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
35946050 ATGCTCCTGT
*
35946060 GGCCCACACAA-CCCAAACGACCCAGACTGTGA
1 GGCCCACA-AAGCCCAAACAACCCAGACTGTGA
* *
35946092 GGCCCACAAAGCCTAAACAACCCAGACTGTGT
1 GGCCCACAAAGCCCAAACAACCCAGACTGTGA
*
35946124 GGACCACA
1 GGCCCACA
35946132 TAGTTTGGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 2 0.06
32 33 0.94
ACGTcount: A:0.35, C:0.38, G:0.19, T:0.08
Consensus pattern (32 bp):
GGCCCACAAAGCCCAAACAACCCAGACTGTGA
Found at i:35950878 original size:39 final size:39
Alignment explanation
Indices: 35950811--35950885 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
35950801 TGAGTATTGT
35950811 ATGATATAGGTTTAGCTCAGACGAGTAACCTGATATGTC
1 ATGATATAGGTTTAGCTCAGACGAGTAACCTGATATGTC
* * *
35950850 ATGATATAGGTTTGGC-CTGAACGGGTAACCTGATAT
1 ATGATATAGGTTTAGCTCAG-ACGAGTAACCTGATAT
35950886 AAATTTAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 2 0.06
39 30 0.94
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (39 bp):
ATGATATAGGTTTAGCTCAGACGAGTAACCTGATATGTC
Found at i:35967097 original size:45 final size:49
Alignment explanation
Indices: 35966881--35967203 Score: 261
Period size: 50 Copynumber: 6.6 Consensus size: 49
35966871 ATGTACCGAC
* * * * * ** *
35966881 GCCATGTCCCGGACATAGTCTCACACTGGCTCACGCA-TCAAAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCGCACATACTCGAAGTCGAT
* * * ** *
35966929 GCCATGTCCCAGACATGGTCTTACACT-GACTCTCATATATCGGGGTCAAT
1 GCCATGTCCCAGACATGGTCTTACACTAG-CGCACATA-CTCGAAGTCGAT
* * * *
35966979 GCCATATCCCAGACATGGTCTTACACTGGTTCTCATC-TA-TCGATG-CTGAT
1 GCCATGTCCCAGACATGGTCTTACACTAG--CGCA-CATACTCGAAGTC-GAT
35967029 GCCATGTCCCAGACATGGTCTTACACT-G-GCACATA-TC-AAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCGCACATACTCGAAGTCGAT
* * * *
35967074 GCCAAGTCCCAGACATAGG-CTTACACTAGCTCTCATATCTCGAGGTCGAT
1 GCCATGTCCCAGACAT-GGTCTTACACTAGCGCACATA-CTCGAAGTCGAT
* * * *
35967124 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCGCACATA-CTCGAAGTCGAT
35967174 GCCATGTCCCAGACATGGTCTTACACTAGC
1 GCCATGTCCCAGACATGGTCTTACACTAGC
35967204 TCTCATATCT
Statistics
Matches: 234, Mismatches: 25, Indels: 30
0.81 0.09 0.10
Matches are distributed among these distances:
45 29 0.12
46 10 0.04
47 6 0.03
48 29 0.12
49 6 0.03
50 147 0.63
51 1 0.00
52 5 0.02
53 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (49 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCGCACATACTCGAAGTCGAT
Found at i:35967147 original size:145 final size:147
Alignment explanation
Indices: 35966876--35967200 Score: 442
Period size: 145 Copynumber: 2.2 Consensus size: 147
35966866 GGGTAATGTA
* * * * * *
35966876 CCGACGCCATGTCCCGGACATAGTCTCACACTGGCTCACGCATCAAAGTCGATGCCATGTCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGC-CACACATCAAAGTCGATGCCAAGTCCCAG
*
35966941 ACATGGTCTTACACTGACTCTCATATATCGGGGTCAATGCCATATCCCAGACATGGTCTTACACT
65 ACATGGTCTTACACTGACTCTCATATATCGAGGTCAATGCCATATCCCAGACATGGTCTTACACT
* * * *
35967006 GGTTCTCATCTATCGATG
130 AGCTCTCATATATCGAGG
* *
35967024 CTGATGCCATGTCCCAGACATGGTCTTACACTGG-CACATATC-AAGTCGATGCCAAGTCCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCCACACATCAAAGTCGATGCCAAGTCCCAGA
* * *
35967087 CATAGG-CTTACACT-AGCTCTCATATCTCGAGGTCGATGCCATGTCCCAGACATGGTCTTACAC
66 CAT-GGTCTTACACTGA-CTCTCATATATCGAGGTCAATGCCATATCCCAGACATGGTCTTACAC
*
35967150 TAGCTCTCATATCTCGAGG
129 TAGCTCTCATATATCGAGG
35967169 CCGATGCCATGTCCCAGACATGGTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
35967201 AGCTCTCATA
Statistics
Matches: 157, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
144 1 0.01
145 119 0.76
146 8 0.05
148 29 0.18
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.26
Consensus pattern (147 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCCACACATCAAAGTCGATGCCAAGTCCCAGA
CATGGTCTTACACTGACTCTCATATATCGAGGTCAATGCCATATCCCAGACATGGTCTTACACTA
GCTCTCATATATCGAGG
Found at i:35967212 original size:50 final size:50
Alignment explanation
Indices: 35966923--35967214 Score: 375
Period size: 50 Copynumber: 5.9 Consensus size: 50
35966913 ACGCATCAAA
* *
35966923 GTCGATGCCATGTCCCAGACATGGTCTTACACT-GACTCTCATATATCGGG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCATATCTCGAG
* * * * * * *
35966973 GTCAATGCCATATCCCAGACATGGTCTTACACTGGTTCTCATCTATCGAT
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
* * *
35967023 G-CTGATGCCATGTCCCAGACATGGTCTTACACT-G-GCACATA--TC-AA
1 GTC-GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
*
35967068 GTCGATGCCAAGTCCCAGACATAGG-CTTACACTAGCTCTCATATCTCGAG
1 GTCGATGCCATGTCCCAGACAT-GGTCTTACACTAGCTCTCATATCTCGAG
35967118 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
*
35967168 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTC
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTC
35967215 TCTAGCATCA
Statistics
Matches: 214, Mismatches: 18, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
45 28 0.13
46 6 0.03
47 5 0.02
48 4 0.02
49 6 0.03
50 164 0.77
51 1 0.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (50 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAG
Found at i:35971202 original size:22 final size:23
Alignment explanation
Indices: 35971162--35971207 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
35971152 AATTAATTTC
*
35971162 TAGAAAATAGATTAAATTTTTTA
1 TAGAAAATAAATTAAATTTTTTA
*
35971185 TAGAAAA-AAATTATATTTTTTA
1 TAGAAAATAAATTAAATTTTTTA
35971207 T
1 T
35971208 GTTTGGATGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.46
Consensus pattern (23 bp):
TAGAAAATAAATTAAATTTTTTA
Found at i:35971417 original size:28 final size:28
Alignment explanation
Indices: 35971378--35971434 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
35971368 TAATTTTTTG
*
35971378 TAATAATTAATATC-ATATAAAAACTTAA
1 TAATAAATAATATCTA-ATAAAAACTTAA
*
35971406 TAATAAATAATATCTAATTAAAACTTAA
1 TAATAAATAATATCTAATAAAAACTTAA
35971434 T
1 T
35971435 TTAAAGTACT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 25 0.96
29 1 0.04
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (28 bp):
TAATAAATAATATCTAATAAAAACTTAA
Found at i:35972907 original size:15 final size:15
Alignment explanation
Indices: 35972887--35972936 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
35972877 ATACTATAAA
35972887 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
35972902 ATATTTATAATT-AT
1 ATATTTATTATTAAT
* *
35972916 AATATATATTATTAAA
1 -ATATTTATTATTAAT
35972932 ATATT
1 ATATT
35972937 AATATAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
14 2 0.07
15 25 0.89
16 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:35972926 original size:30 final size:31
Alignment explanation
Indices: 35972870--35972936 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 31
35972860 GACATATTTT
* *
35972870 AATATTTATACTATAAAATATTTATTATTAA
1 AATATTTATAATATAAAATATATATTATTAA
* *
35972901 TATATTTATAAT-TATAATATATATTATTAA
1 AATATTTATAATATAAAATATATATTATTAA
35972931 AATATT
1 AATATT
35972937 AATATAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
30 21 0.68
31 10 0.32
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (31 bp):
AATATTTATAATATAAAATATATATTATTAA
Found at i:35972939 original size:21 final size:18
Alignment explanation
Indices: 35972895--35972942 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
35972885 AAATATTTAT
*
35972895 TATTAATATATTTATAAT
1 TATTAATATATTTATAAA
35972913 TA-TAATATATATTATTAAAA
1 TATTAATATAT-TTA-T-AAA
35972933 TATTAATATA
1 TATTAATATA
35972943 AATATGTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 8 0.32
18 5 0.20
19 1 0.04
20 4 0.16
21 7 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TATTAATATATTTATAAA
Found at i:35973064 original size:14 final size:14
Alignment explanation
Indices: 35973025--35973054 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
35973015 ATAAAATCAA
*
35973025 ATAAATTATTAAAT
1 ATAAATAATTAAAT
35973039 ATAAATAATTAAAT
1 ATAAATAATTAAAT
35973053 AT
1 AT
35973055 GTATATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATAAATAATTAAAT
Found at i:35973079 original size:30 final size:29
Alignment explanation
Indices: 35973036--35973110 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 29
35973026 TAAATTATTA
35973036 AATA-TAAATAATTAAATATGT-ATATTTAAT
1 AATATTAAA-AATTAAATATGTGATATTT--T
*
35973066 AATATTAAAAATTATAATATTTGATATTTT
1 AATATTAAAAATTA-AATATGTGATATTTT
*
35973096 AAAATT-AAAATTAAA
1 AATATTAAAAATTAAA
35973111 ATTAAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
28 2 0.05
29 7 0.17
30 15 0.38
31 10 0.25
32 6 0.15
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.43
Consensus pattern (29 bp):
AATATTAAAAATTAAATATGTGATATTTT
Found at i:35973105 original size:6 final size:6
Alignment explanation
Indices: 35973094--35973119 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
35973084 ATTTGATATT
35973094 TTAAAA TTAAAA TTAAAA TTAAAA TT
1 TTAAAA TTAAAA TTAAAA TTAAAA TT
35973120 TTATTATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
TTAAAA
Found at i:35978424 original size:43 final size:42
Alignment explanation
Indices: 35978377--35978504 Score: 123
Period size: 44 Copynumber: 2.9 Consensus size: 42
35978367 TAAAGCGGCA
** *
35978377 TTGCTCCTGTACATGGAGGGAGGTGTACAAGGTAATAATGGCC
1 TTGCTCCTACACATGGAGGGAGGT-TACAAGGTAATAATGACC
* * *
35978420 TTGCTCCCACACATAGGA-GGAGGTTATGGAAGGTAATAATGACT
1 TTGCTCCTACACAT-GGAGGGAGGTTA--CAAGGTAATAATGACC
*
35978464 TTGCTCCTACACATGGGGGGAGGCTTACGAATGGTAATAAT
1 TTGCTCCTACACATGGAGGGAGG-TTAC-AA-GGTAATAAT
35978505 ATGACCCTTC
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.03
43 19 0.28
44 36 0.52
45 12 0.17
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (42 bp):
TTGCTCCTACACATGGAGGGAGGTTACAAGGTAATAATGACC
Found at i:35978610 original size:45 final size:45
Alignment explanation
Indices: 35978540--35978645 Score: 151
Period size: 45 Copynumber: 2.3 Consensus size: 45
35978530 AGGCTTTCAA
*
35978540 AAGGTAATAAAGTGGCATTGCTCTCGTACATAAGAGGAAG-CTTATGG
1 AAGGTAAT-AA-TGGCATTGCTCTCGTACATAAG-GGAAGACTTACGG
* *
35978587 AAGGTAATAATGGTATTGCTCTCGTACATAAGGGGAGACTTACGG
1 AAGGTAATAATGGCATTGCTCTCGTACATAAGGGAAGACTTACGG
35978632 AAGGTAATAATGGC
1 AAGGTAATAATGGC
35978646 CCTACTCCCA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
44 4 0.07
45 40 0.74
46 2 0.04
47 8 0.15
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.25
Consensus pattern (45 bp):
AAGGTAATAATGGCATTGCTCTCGTACATAAGGGAAGACTTACGG
Found at i:35978744 original size:138 final size:131
Alignment explanation
Indices: 35978405--35978792 Score: 336
Period size: 138 Copynumber: 2.8 Consensus size: 131
35978395 GGAGGTGTAC
** * *
35978405 AAGGTAATAATGGCCTTGCTCCCACACATAGGAGGAGG-TTATGGAAGGTAATAATGACTTTGCT
1 AAGGTAATAATGG-CTTGCTCCTGCACATAGG-GGAGGCTTATGGAAGGTAATAATGGCATTGCT
* * **
35978469 C-C-TACACATGGGGGGAGGCTTAC-GAATGGTAATAATATGACCCTTCTCCCGTACATGGGGGA
64 CTCGT--ACAT-GGGGGAGGCTTACGGAA-GGTAAT-A-ATGGCCCTACTCCCAAACATGGGGGA
* *
35978531 GGCTTTCAA
123 GACTTGCAA
* * * *
35978540 AAGGTAATAAAGTGGCATTGCT-CTCGTACATAAGAGGAAGCTTATGGAAGGTAATAATGGTATT
1 AAGGTAAT-AA-TGGC-TTGCTCCT-GCACAT-AGGGGAGGCTTATGGAAGGTAATAATGGCATT
* *
35978604 GCTCTCGTACATAAGGGGAGACTTACGGAAGGTAATAATGGCCCTACTCCCAAACGCATGGGAGG
61 GCTCTCGTACAT-GGGGGAGGCTTACGGAAGGTAATAATGGCCCTACTCCCAAA--CATGGG-GG
35978669 AGACTTGCAA
122 AGACTTGCAA
* *
35978679 AAGGTAATAATGGTCTTGCTCCTGCACATAGGGGAGGCTTACGGAAGGTAATAAAGTGGCCTTGC
1 AAGGTAATAATGG-CTTGCTCCTGCACATAGGGGAGGCTTATGGAAGGTAAT-AA-TGGCATTGC
* * * *
35978744 TCCTAGATGCATGGGAGGAGGTTTATGGAAGGTAATAATGGCCCTACTC
63 T-CTCG-TACATGGG-GGAGGCTTACGGAAGGTAATAATGGCCCTACTC
35978793 TTGCACATAG
Statistics
Matches: 205, Mismatches: 29, Indels: 33
0.77 0.11 0.12
Matches are distributed among these distances:
135 8 0.04
136 37 0.18
137 32 0.16
138 66 0.32
139 27 0.13
140 35 0.17
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (131 bp):
AAGGTAATAATGGCTTGCTCCTGCACATAGGGGAGGCTTATGGAAGGTAATAATGGCATTGCTCT
CGTACATGGGGGAGGCTTACGGAAGGTAATAATGGCCCTACTCCCAAACATGGGGGAGACTTGCA
A
Found at i:35978779 original size:49 final size:47
Alignment explanation
Indices: 35978299--35978870 Score: 225
Period size: 47 Copynumber: 12.4 Consensus size: 47
35978289 GACTATAAAG
* * * * *
35978299 GGAGGCTTATGGAAAGTAATAAAGAGACCTTGCTCCTAAACGCATAGGG-
1 GGAGGCTTACGGAAGGTAATAAAGTGGCCTTGCTCCTAGA--CAT-GGGA
* ** * * *
35978348 GAAGGCTTACAAAAGGTGATAAAGCGGCATTGCTCCT-GTACAT-GGA
1 GGAGGCTTACGGAAGGTAATAAAGTGGCCTTGCTCCTAG-ACATGGGA
* * *
35978394 GGGAGG-TGTAC--AAGGTAAT-AA-TGGCCTTGCTCCCACACATAGGA
1 -GGAGGCT-TACGGAAGGTAATAAAGTGGCCTTGCTCCTAGACATGGGA
* * * * *
35978438 GGAGG-TTATGGAAGGTAAT-AA-TGACTTTGCTCCTACACATGGGG
1 GGAGGCTTACGGAAGGTAATAAAGTGGCCTTGCTCCTAGACATGGGA
* *
35978482 GGAGGCTTAC-GAATGGTAATAATA-TGACCCTT-CTCC-CGTACATGGG-
1 GGAGGCTTACGGAA-GGTAATAA-AGTG-GCCTTGCTCCTAG-ACATGGGA
* ** * * **
35978528 GGAGGCTTTCAAAAGGTAATAAAGTGGCATTGCT-CTCGTACATAAGA
1 GGAGGCTTACGGAAGGTAATAAAGTGGCCTTGCTCCTAG-ACATGGGA
* * ** * *
35978575 GGAAGCTTATGGAAGGTAAT-AA-TGGTATTGCT-CTCGTACATAAGG-
1 GGAGGCTTACGGAAGGTAATAAAGTGGCCTTGCTCCTAG-ACAT-GGGA
* * * * *
35978620 GGAGACTTACGGAAGGTAAT-AA-TGGCCCTACTCCCAAACGCATGGGA
1 GGAGGCTTACGGAAGGTAATAAAGTGGCCTTGCTCCTAGA--CATGGGA
* * ** * *
35978667 GGAGACTTGCAAAAGGTAAT-AA-TGGTCTTGCTCCT-GCACATAGG-
1 GGAGGCTTACGGAAGGTAATAAAGTGGCCTTGCTCCTAG-ACATGGGA
35978711 GGAGGCTTACGGAAGGTAATAAAGTGGCCTTGCTCCTAGATGCATGGGA
1 GGAGGCTTACGGAAGGTAATAAAGTGGCCTTGCTCCTAGA--CATGGGA
* * * * *
35978760 GGAGGTTTATGGAAGGTAAT-AA-TGGCCCTACT-CTTGCACATAGGGA
1 GGAGGCTTACGGAAGGTAATAAAGTGGCCTTGCTCCTAG-ACAT-GGGA
* * * * *
35978806 GGA-GCTTATGAAAGATCATAAAGTGGCCTTGCTCCAAGACACATGGGA
1 GGAGGCTTACGGAAGGTAATAAAGTGGCCTTGCTCCTAG--ACATGGGA
*
35978854 GAAGGCTTACGGAAGGT
1 GGAGGCTTACGGAAGGT
35978871 GGTAATAAAA
Statistics
Matches: 402, Mismatches: 83, Indels: 76
0.72 0.15 0.14
Matches are distributed among these distances:
42 2 0.00
43 20 0.05
44 57 0.14
45 89 0.22
46 63 0.16
47 91 0.23
48 18 0.04
49 62 0.15
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (47 bp):
GGAGGCTTACGGAAGGTAATAAAGTGGCCTTGCTCCTAGACATGGGA
Found at i:35978779 original size:93 final size:92
Alignment explanation
Indices: 35978299--35978870 Score: 325
Period size: 93 Copynumber: 6.2 Consensus size: 92
35978289 GACTATAAAG
* * * * *
35978299 GGAGGCTTATGGAAAGTAATAAAGAGACCTTGCTCCTAAACGCATAGGGGAAGGCTTACAAAAGG
1 GGAGGCTTA-GGAAGGTAATAATG-G-CCTTGCTCCT--GCACATAGGGG-AGGCTTACGAAAGG
* * *
35978364 TGATAAAGCGGCATTGCTCCT-G-TACAT-GGA
60 TAATAAAGTGGCCTTGCTCCTAGATACATGGGA
* ** * *
35978394 GGGAGG-TGTA-CAAGGTAATAATGGCCTTGCTCCCACACATAGGAGGAGG-TTATGGAAGGTAA
1 -GGAGGCT-TAGGAAGGTAATAATGGCCTTGCTCCTGCACATAGG-GGAGGCTTACGAAAGGTAA
* * * *
35978456 T-AA-TGACTTTGCTCCT--ACACATGGGG
63 TAAAGTGGCCTTGCTCCTAGATACATGGGA
* * * * * * *
35978482 GGAGGCTTACGAATGGTAATAATATGACCCTT-CTCCCGTACATGGGGGAGGCTTTCAAAAGGTA
1 GGAGGCTTAGGAA-GGTAAT-A-ATG-GCCTTGCTCCTGCACATAGGGGAGGCTTACGAAAGGTA
* * **
35978546 ATAAAGTGGCATTGCT-CTCG-TACATAAGA
62 ATAAAGTGGCCTTGCTCCTAGATACATGGGA
* ** * * *
35978575 GGAAGCTTATGGAAGGTAATAATGGTATTGCT-CTCGTACATAAGGGGAGACTTACGGAAGGTAA
1 GGAGGCTTA-GGAAGGTAATAATGGCCTTGCTCCT-GCACAT-AGGGGAGGCTTACGAAAGGTAA
* * * * **
35978639 T-AA-TGGCCCTACTCCCAAACGCATGGGA
63 TAAAGTGGCCTTGCTCCTAGATACATGGGA
* * * *
35978667 GGAGACTT-GCAAAAGGTAATAATGGTCTTGCTCCTGCACATAGGGGAGGCTTACGGAAGGTAAT
1 GGAGGCTTAG--GAAGGTAATAATGGCCTTGCTCCTGCACATAGGGGAGGCTTACGAAAGGTAAT
*
35978731 AAAGTGGCCTTGCTCCTAGATGCATGGGA
64 AAAGTGGCCTTGCTCCTAGATACATGGGA
* * * * * * *
35978760 GGAGGTTTATGGAAGGTAATAATGGCCCTACTCTTGCACATA-GGGAGGAGCTTATGAAAGATCA
1 GGAGGCTTA-GGAAGGTAATAATGGCCTTGCTCCTGCACATAGGGGA-G-GCTTACGAAAGGTAA
* *
35978824 TAAAGTGGCCTTGCTCCAAGACACATGGGA
63 TAAAGTGGCCTTGCTCCTAGATACATGGGA
*
35978854 GAAGGCTTACGGAAGGT
1 GGAGGCTTA-GGAAGGT
35978871 GGTAATAAAA
Statistics
Matches: 368, Mismatches: 78, Indels: 62
0.72 0.15 0.12
Matches are distributed among these distances:
87 21 0.06
88 7 0.02
89 16 0.04
90 28 0.08
91 62 0.17
92 77 0.21
93 83 0.23
94 65 0.18
95 2 0.01
96 7 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (92 bp):
GGAGGCTTAGGAAGGTAATAATGGCCTTGCTCCTGCACATAGGGGAGGCTTACGAAAGGTAATAA
AGTGGCCTTGCTCCTAGATACATGGGA
Found at i:35981686 original size:38 final size:38
Alignment explanation
Indices: 35981643--35981760 Score: 99
Period size: 38 Copynumber: 3.2 Consensus size: 38
35981633 TAAAATTATT
35981643 TTAAAAGAATAACACCATTCAAATTTTAATAATATAAA
1 TTAAAAGAATAACACCATTCAAATTTTAATAATATAAA
* **
35981681 TTAAAAGATATTTAA-A--A---AATTTTCTAA-AAT-TATT
1 TTAAAAGA-A--TAACACCATTCAAATTT-TAATAATATAAA
* *
35981715 TTAAAAGAATAACACCATTCAAAATTTAATAATAAAAA
1 TTAAAAGAATAACACCATTCAAATTTTAATAATATAAA
35981753 TTAAAAGA
1 TTAAAAGA
35981761 TATTTGAAGG
Statistics
Matches: 60, Mismatches: 8, Indels: 24
0.65 0.09 0.26
Matches are distributed among these distances:
31 3 0.05
32 1 0.02
33 1 0.02
34 11 0.18
35 8 0.13
36 6 0.10
37 7 0.12
38 18 0.30
39 1 0.02
40 1 0.02
41 3 0.05
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (38 bp):
TTAAAAGAATAACACCATTCAAATTTTAATAATATAAA
Found at i:35981706 original size:72 final size:72
Alignment explanation
Indices: 35981619--35981765 Score: 258
Period size: 72 Copynumber: 2.0 Consensus size: 72
35981609 AATTGGCCTC
* * *
35981619 TTTAAAAAGTATTCTAAAATTATTTTAAAAGAATAACACCATTCAAATTTTAATAATATAAATTA
1 TTTAAAAAATATTCTAAAATTATTTTAAAAGAATAACACCATTCAAAATTTAATAATAAAAATTA
35981684 AAAGATA
66 AAAGATA
*
35981691 TTTAAAAAATTTTCTAAAATTATTTTAAAAGAATAACACCATTCAAAATTTAATAATAAAAATTA
1 TTTAAAAAATATTCTAAAATTATTTTAAAAGAATAACACCATTCAAAATTTAATAATAAAAATTA
35981756 AAAGATA
66 AAAGATA
35981763 TTT
1 TTT
35981766 GAAGGTTACA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (72 bp):
TTTAAAAAATATTCTAAAATTATTTTAAAAGAATAACACCATTCAAAATTTAATAATAAAAATTA
AAAGATA
Found at i:35983404 original size:40 final size:40
Alignment explanation
Indices: 35983354--35983561 Score: 211
Period size: 40 Copynumber: 5.1 Consensus size: 40
35983344 GCAAAAATTT
* * * *
35983354 TAAAATACAGAGCAATAGTGGCG-TTTAAAAAAAAACGTCGC
1 TAAAA-ACAGAGCAATAGCGGCGCTTT-TAATAAAACGCCGC
* * *
35983395 TAAAAACAGAGCAACAGCGGCGTTTTTTACTAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCG-CTTTTAATAAAACGCCGC
* ** *
35983436 AAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGT
1 TAAAAACAGAGCAATAGCGGCGCTTTTAATAAAACGCCGC
* **
35983476 TAAAAACAGAGCAATAGTGGCGCTTTTGGTAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGCTTTTAATAAAACGCCGC
* ** *
35983516 TAAAAACTAGAGCATTAGCGGCGCTTTTGGTAAAACGCTGC
1 TAAAAAC-AGAGCAATAGCGGCGCTTTTAATAAAACGCCGC
35983557 TAAAA
1 TAAAA
35983562 GTCATATAAC
Statistics
Matches: 146, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
40 73 0.50
41 70 0.48
42 3 0.02
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.20
Consensus pattern (40 bp):
TAAAAACAGAGCAATAGCGGCGCTTTTAATAAAACGCCGC
Found at i:35983521 original size:81 final size:81
Alignment explanation
Indices: 35983385--35983561 Score: 241
Period size: 81 Copynumber: 2.2 Consensus size: 81
35983375 CGTTTAAAAA
* *
35983385 AAAACGTCGCTAAAAACAGAGCAACAGCGGCGTTTTTTACTAAAACGCCGCAAAAAAC-AGAGCA
1 AAAACGCCGCTAAAAACAGAGCAACAGCGGCGTCTTTTACTAAAACGCCGC-AAAAACTAGAGCA
35983449 ATAGCGGCGCTTTTGGT
65 ATAGCGGCGCTTTTGGT
* * * **
35983466 AAAACGCCGTTAAAAACAGAGCAATAGTGGCG-CTTTTGGTAAAACGCCGCTAAAAACTAGAGCA
1 AAAACGCCGCTAAAAACAGAGCAACAGCGGCGTCTTTTACTAAAACGCCGC-AAAAACTAGAGCA
*
35983530 TTAGCGGCGCTTTTGGT
65 ATAGCGGCGCTTTTGGT
*
35983547 AAAACGCTGCTAAAA
1 AAAACGCCGCTAAAA
35983562 GTCATATAAC
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 21 0.25
81 63 0.75
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (81 bp):
AAAACGCCGCTAAAAACAGAGCAACAGCGGCGTCTTTTACTAAAACGCCGCAAAAACTAGAGCAA
TAGCGGCGCTTTTGGT
Found at i:35984632 original size:15 final size:15
Alignment explanation
Indices: 35984612--35984702 Score: 60
Period size: 16 Copynumber: 6.1 Consensus size: 15
35984602 TTTAATTTAG
*
35984612 AAGATAAATGTATAT
1 AAGATAAATATATAT
35984627 AAGATAAATATATAT
1 AAGATAAATATATAT
* * *
35984642 AA-ATTATTAT-TTT
1 AAGATAAATATATAT
* *
35984655 AAAATATATATATAT
1 AAGATAAATATATAT
* *
35984670 ATATATATATATATAT
1 A-AGATAAATATATAT
* *
35984686 ATATATATATATATAT
1 A-AGATAAATATATAT
35984702 A
1 A
35984703 TGAAAAGTTG
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
13 4 0.06
14 11 0.17
15 19 0.30
16 30 0.47
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:35984665 original size:2 final size:2
Alignment explanation
Indices: 35984658--35984703 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
35984648 TTATTTTAAA
35984658 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35984700 AT AT
1 AT AT
35984704 GAAAAGTTGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35986551 original size:39 final size:40
Alignment explanation
Indices: 35986391--35986567 Score: 225
Period size: 40 Copynumber: 4.5 Consensus size: 40
35986381 TGGATGATAA
* *
35986391 CCGGGCTAAGTCCCGAAAGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* * *
35986431 CCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
*
35986471 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
* * *
35986511 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTACAT
* *
35986550 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
35986568 TACTTGGCTT
Statistics
Matches: 124, Mismatches: 12, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
38 15 0.12
39 16 0.13
40 93 0.75
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
Found at i:35990317 original size:39 final size:40
Alignment explanation
Indices: 35990223--35990335 Score: 173
Period size: 39 Copynumber: 2.9 Consensus size: 40
35990213 AATAAAAAGC
35990223 GGAAAATAAGTC--AAA--TTGTCCATCTTCATCTACAAG
1 GGAAAATAAGTCAAAAATCTTGTCCATCTTCATCTACAAG
35990259 GGAAAAATAAGTCAAAAATCTTGTCCATCTTCATCTACAAG
1 GG-AAAATAAGTCAAAAATCTTGTCCATCTTCATCTACAAG
*
35990300 GG-AAATAAGTCAAAAATCTTATCCATCTTCATCTAC
1 GGAAAATAAGTCAAAAATCTTGTCCATCTTCATCTAC
35990336 GTTAGCCGAA
Statistics
Matches: 71, Mismatches: 1, Indels: 7
0.90 0.01 0.09
Matches are distributed among these distances:
36 2 0.03
37 10 0.14
39 36 0.51
41 23 0.32
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (40 bp):
GGAAAATAAGTCAAAAATCTTGTCCATCTTCATCTACAAG
Found at i:35994146 original size:28 final size:27
Alignment explanation
Indices: 35994083--35994152 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
35994073 ATAGTGAGTC
35994083 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
35994110 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
35994138 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35994153 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:36000678 original size:28 final size:27
Alignment explanation
Indices: 36000615--36000684 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
36000605 ATAGTGAGTC
36000615 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
36000642 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
36000670 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36000685 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:36013482 original size:4 final size:4
Alignment explanation
Indices: 36013473--36013501 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
36013463 TGTAAGTATG
36013473 AATT AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT AATT A
36013502 TTTTAGGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:36014666 original size:19 final size:20
Alignment explanation
Indices: 36014644--36014681 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
36014634 TAGTTTTAAA
*
36014644 ATAAAATAA-AATTAAAAAC
1 ATAAAATAATAAATAAAAAC
36014663 ATAAAATAATAAATAAAAA
1 ATAAAATAATAAATAAAAA
36014682 TTTTAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (20 bp):
ATAAAATAATAAATAAAAAC
Found at i:36016771 original size:55 final size:55
Alignment explanation
Indices: 36016679--36016822 Score: 153
Period size: 55 Copynumber: 2.6 Consensus size: 55
36016669 GTATGAAGGT
* ** ** * *
36016679 CCACACCGGTGTTGTTTTGGCAGGTTCGCCCACGGTTTCTTGGCATGGGCGTGTC
1 CCACACCCGTGTTAATTTGGCAGGTTCGCCCACGGTTTCAAGGCACGGGCATGTC
* * * *
36016734 CCACGCCCGTGTTAATTTGACAGGTTCGGCCATGGTTTCAAGGCACGGGCATGTC
1 CCACACCCGTGTTAATTTGGCAGGTTCGCCCACGGTTTCAAGGCACGGGCATGTC
* ** *
36016789 GCACACCCGTGTTGTTTTGGCAGGTTCACCCACG
1 CCACACCCGTGTTAATTTGGCAGGTTCGCCCACG
36016823 ACCATGTAGC
Statistics
Matches: 70, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
55 70 1.00
ACGTcount: A:0.14, C:0.28, G:0.30, T:0.28
Consensus pattern (55 bp):
CCACACCCGTGTTAATTTGGCAGGTTCGCCCACGGTTTCAAGGCACGGGCATGTC
Found at i:36030503 original size:40 final size:39
Alignment explanation
Indices: 36030377--36030511 Score: 135
Period size: 40 Copynumber: 3.4 Consensus size: 39
36030367 TGCTGGAAAT
* * * * *
36030377 TATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
* * * *
36030416 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 -TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTC-G
* *
36030457 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
*
36030496 TGATATCCGGGTTAAG
1 T-ATATCCGGGCTAAG
36030512 TCTCGTAGGC
Statistics
Matches: 77, Mismatches: 16, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
39 1 0.01
40 76 0.99
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCG
Found at i:36043890 original size:28 final size:28
Alignment explanation
Indices: 36043829--36043926 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
36043819 TCACAAATTG
** * *
36043829 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
36043858 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
36043886 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
36043914 GCACTAAGTGTGC
1 GCACTAAGTGTGC
36043927 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:36045600 original size:15 final size:15
Alignment explanation
Indices: 36045576--36045607 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
36045566 CTTTGTTATA
36045576 TTCTACTCTACTCTG
1 TTCTACTCTACTCTG
*
36045591 TTCTATTCTACTCTG
1 TTCTACTCTACTCTG
36045606 TT
1 TT
36045608 TGAATTGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.28, G:0.06, T:0.53
Consensus pattern (15 bp):
TTCTACTCTACTCTG
Found at i:36045770 original size:22 final size:22
Alignment explanation
Indices: 36045745--36045789 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
36045735 ATGATTTATA
36045745 TATCACTTTTGTTTATTTGTAT
1 TATCACTTTTGTTTATTTGTAT
36045767 TATCACTTTTGTTTATTTGTAT
1 TATCACTTTTGTTTATTTGTAT
36045789 T
1 T
36045790 TAAGTTTGGT
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:0.18, C:0.09, G:0.09, T:0.64
Consensus pattern (22 bp):
TATCACTTTTGTTTATTTGTAT
Found at i:36046309 original size:19 final size:18
Alignment explanation
Indices: 36046287--36046328 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
36046277 AAGTATTTAT
36046287 AGTAAAAAT-AATAATCAAA
1 AGTAAAAATGAATAA-C-AA
*
36046306 AGTAATAATGAATAACAA
1 AGTAAAAATGAATAACAA
36046324 AGTAA
1 AGTAA
36046329 TTAAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 7 0.33
19 9 0.43
20 5 0.24
ACGTcount: A:0.64, C:0.05, G:0.10, T:0.21
Consensus pattern (18 bp):
AGTAAAAATGAATAACAA
Found at i:36046908 original size:2 final size:2
Alignment explanation
Indices: 36046901--36046936 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
36046891 AGTAGACTCC
36046901 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36046937 GGGAGATTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36047017 original size:24 final size:24
Alignment explanation
Indices: 36046990--36047048 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
36046980 GGTTACAAAG
36046990 AGATGAAAGGTG-AAGAGTTAAGGA
1 AGATGAAAGGTGAAAG-GTTAAGGA
36047014 AGATGAAAGGTGAAAGGTTAAGGA
1 AGATGAAAGGTGAAAGGTTAAGGA
36047038 AGATGAAAGGT
1 AGATGAAAGGT
36047049 TGAACATCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 31 0.91
25 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.37, T:0.17
Consensus pattern (24 bp):
AGATGAAAGGTGAAAGGTTAAGGA
Found at i:36049485 original size:49 final size:49
Alignment explanation
Indices: 36049408--36049533 Score: 146
Period size: 49 Copynumber: 2.6 Consensus size: 49
36049398 AGATGTTGAC
* * *
36049408 GCCATGTCCCAGATATGGTCTTATACTGGCTTTTATATAGCGAG-GCCGAT
1 GCCATGTCCCAGATA-GGTCTTACACTGGCTCTCATATAGC-AGTGCCGAT
* * * *
36049458 GCCATGTCCCAAATAGGTCTTACACTGGCTCTCATCTATCAGTGTCGAT
1 GCCATGTCCCAGATAGGTCTTACACTGGCTCTCATATAGCAGTGCCGAT
* *
36049507 GCCATGTCCTAGACAGGTCTTACACTG
1 GCCATGTCCCAGATAGGTCTTACACTG
36049534 ACACATCACA
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
48 2 0.03
49 49 0.75
50 14 0.22
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.30
Consensus pattern (49 bp):
GCCATGTCCCAGATAGGTCTTACACTGGCTCTCATATAGCAGTGCCGAT
Found at i:36049619 original size:48 final size:48
Alignment explanation
Indices: 36049553--36049672 Score: 156
Period size: 48 Copynumber: 2.5 Consensus size: 48
36049543 AAGCTGACGC
* **
36049553 CATGTCAC-AGACAGGTCTTACACTAGCTTGTATATCGT-GAGGCCGATG
1 CATGTC-CTAGACATGTCTTACACTAGCTTAAATATC-TCGAGGCCGATG
*
36049601 CATGTCCTAGACATGTCTTACACTAGCTTAAATATCTCGAGGCTGATG
1 CATGTCCTAGACATGTCTTACACTAGCTTAAATATCTCGAGGCCGATG
36049649 CATGTCCCTA-ACATGTCTTACACT
1 CATGT-CCTAGACATGTCTTACACT
36049673 GGCTCTCATG
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
47 2 0.03
48 59 0.91
49 4 0.06
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (48 bp):
CATGTCCTAGACATGTCTTACACTAGCTTAAATATCTCGAGGCCGATG
Found at i:36049750 original size:16 final size:16
Alignment explanation
Indices: 36049729--36049761 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
36049719 AGCACACATA
36049729 TCACCCATTATCACGG
1 TCACCCATTATCACGG
36049745 TCACCCATTATCACGG
1 TCACCCATTATCACGG
36049761 T
1 T
36049762 ACAAATATCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.36, G:0.12, T:0.27
Consensus pattern (16 bp):
TCACCCATTATCACGG
Found at i:36055574 original size:2 final size:2
Alignment explanation
Indices: 36055567--36055595 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
36055557 GAGACTAGTC
36055567 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
36055596 CACATGTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.