Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 185 of 186
Found at i:61237080 original size:20 final size:21
Alignment explanation
Indices: 61237039--61237081 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
61237029 GTTACAGTAT
61237039 ATCTATCAACAAACATTCAAA
1 ATCTATCAACAAACATTCAAA
**
61237060 ATCTATCATTAAACA-TCAAA
1 ATCTATCAACAAACATTCAAA
61237080 AT
1 AT
61237082 ACTCATGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.51, C:0.21, G:0.00, T:0.28
Consensus pattern (21 bp):
ATCTATCAACAAACATTCAAA
Found at i:61242064 original size:13 final size:13
Alignment explanation
Indices: 61242046--61242092 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
61242036 TAGTTTGACC
61242046 AATTGATTCTAGT
1 AATTGATTCTAGT
**
61242059 AATTGATT-TGACC
1 AATTGATTCT-AGT
61242072 AATTGATTCTAGT
1 AATTGATTCTAGT
*
61242085 AACTGATT
1 AATTGATT
61242093 TGACCAACTA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
12 1 0.04
13 25 0.93
14 1 0.04
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.43
Consensus pattern (13 bp):
AATTGATTCTAGT
Found at i:61242068 original size:26 final size:26
Alignment explanation
Indices: 61242039--61242115 Score: 118
Period size: 26 Copynumber: 3.0 Consensus size: 26
61242029 CAGTGGCTAG
*
61242039 TTTGACCAATTGATTCTAGTAATTGA
1 TTTGACCAATTGATTCTAGTAACTGA
61242065 TTTGACCAATTGATTCTAGTAACTGA
1 TTTGACCAATTGATTCTAGTAACTGA
* * *
61242091 TTTGACCAACTAATTCTATTAACTG
1 TTTGACCAATTGATTCTAGTAACTG
61242116 TTTATTTAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (26 bp):
TTTGACCAATTGATTCTAGTAACTGA
Found at i:61246051 original size:46 final size:45
Alignment explanation
Indices: 61245998--61246167 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 45
61245988 GTGTGTGCTA
61245998 GTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCT
1 GTGTAAGACATGTCTGGGACATGCATCGGCC-CATTATGAGAGCCT
*
61246044 GTGTAAGACCATGTCTGGGACATGGCATCGG--CATTGA-GACGAGAGCT
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATT-ATGA-GAG-CCT
* * *
61246091 AGTGTAAGACATGTCTGGGACATGCATTGGCCTCGA-GATGTA-AGCCA
1 -GTGTAAGACATGTCTGGGACATGCATCGGCC-C-ATTATG-AGAGCCT
61246138 GTGTAAGACATGTCTGGGACATGCATCGGC
1 GTGTAAGACATGTCTGGGACATGCATCGGC
61246168 TACGAGGTGT
Statistics
Matches: 106, Mismatches: 6, Indels: 24
0.78 0.04 0.18
Matches are distributed among these distances:
45 6 0.06
46 47 0.44
47 31 0.29
48 18 0.17
49 2 0.02
50 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (45 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCCCATTATGAGAGCCT
Found at i:61246228 original size:140 final size:140
Alignment explanation
Indices: 61245997--61246255 Score: 362
Period size: 140 Copynumber: 1.8 Consensus size: 140
61245987 TGTGTGTGCT
* * *
61245997 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCTGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACA-GAGGAGAGCCAGTGTAAGACCATGTCTGG
*
61246062 GACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGA-CATGTCTGGGACATGCATTGGCCTCG
65 GACATGGCATCGACATTGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGCATTGGCCTCG
61246126 AGATGTAAGCC
130 AGATGTAAGCC
* * * *
61246137 AGTGTAAGACATGTCTGGGACATGCATCGGCTAC-GAGGTGTGTCAGTGTAAGACCATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAGAGGAGAGCCAGTGTAAGACCATGTCTGGG
* * *
61246201 ACATGGCATCGACA-TGTATATGTGAGAGCTAGTGTAAGACCATGTTTGGGACATG
66 ACATGGCATCGACATTG-AGA--CGAGAGCTAGTGTAAGACCATGTCTGGGACATG
61246256 GAGTCAGCCT
Statistics
Matches: 104, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
137 2 0.02
138 39 0.38
140 49 0.47
141 14 0.13
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.24
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACAGAGGAGAGCCAGTGTAAGACCATGTCTGGG
ACATGGCATCGACATTGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGCATTGGCCTCGA
GATGTAAGCC
Found at i:61246236 original size:94 final size:93
Alignment explanation
Indices: 61245988--61246255 Score: 266
Period size: 94 Copynumber: 2.9 Consensus size: 93
61245978 TGGGCGATGT
* * *
61245988 GTGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCA-CAT-TATGAGAGCCT-GTGTAA
1 GTGTGT-CTAGTGTAAGACATGTCTGGGACATGCATC-GACATGATATGTGAGAG-CTAGTGTAA
61246050 GACCATGTCTGGGACATGGCATCGGCATTGA-GAC
63 GACCATGTCTGGGACAT-GCATCGGC--T-ACGAC
* * * * * * *
61246084 GAGAG-CTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATGT-A-AGCCAGTGTAAGA
1 GTGTGTCTAGTGTAAGACATGTCTGGGACATGCATCGACAT-GATATGTGAGAGCTAGTGTAAGA
*
61246146 -CATGTCTGGGACATGCATCGGCTACGAG
65 CCATGTCTGGGACATGCATCGGCTACGAC
61246174 GTGTGTC-AGTGTAAGACCATGTCTGGGACATGGCATCGACATGTATATGTGAGAGCTAGTGTAA
1 GTGTGTCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACATG-ATATGTGAGAGCTAGTGTAA
*
61246238 GACCATGTTTGGGACATG
63 GACCATGTCTGGGACATG
61246256 GAGTCAGCCT
Statistics
Matches: 142, Mismatches: 18, Indels: 25
0.77 0.10 0.14
Matches are distributed among these distances:
89 1 0.01
90 15 0.11
91 16 0.11
92 20 0.14
93 18 0.13
94 51 0.36
95 16 0.11
96 5 0.04
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (93 bp):
GTGTGTCTAGTGTAAGACATGTCTGGGACATGCATCGACATGATATGTGAGAGCTAGTGTAAGAC
CATGTCTGGGACATGCATCGGCTACGAC
Found at i:61256509 original size:34 final size:34
Alignment explanation
Indices: 61256462--61256528 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
61256452 TACCTCCAGT
61256462 TATAAAAAATTTAGTGACTGTTGCTCAGGAAGTC
1 TATAAAAAATTTAGTGACTGTTGCTCAGGAAGTC
*
61256496 TATAAAAACTTTAGTGACTGTTGCTCAGGAAGT
1 TATAAAAAATTTAGTGACTGTTGCTCAGGAAGT
61256529 TAGCTTATAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (34 bp):
TATAAAAAATTTAGTGACTGTTGCTCAGGAAGTC
Found at i:61257098 original size:40 final size:40
Alignment explanation
Indices: 61257040--61257526 Score: 762
Period size: 40 Copynumber: 12.2 Consensus size: 40
61257030 ATTTGAATGA
* * *
61257040 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
61257080 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
61257120 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
61257160 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
61257200 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
61257240 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
61257280 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
61257320 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
*
61257360 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
* * * * *
61257400 TTTCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * * *
61257440 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * * * *
61257480 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
61257520 TATCCGG
1 TATCCGG
61257527 CTAAATTTCG
Statistics
Matches: 428, Mismatches: 16, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
39 2 0.00
40 423 0.99
41 3 0.01
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.31
Consensus pattern (40 bp):
TATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:61262529 original size:40 final size:40
Alignment explanation
Indices: 61262462--61262708 Score: 268
Period size: 40 Copynumber: 6.2 Consensus size: 40
61262452 CCTTCGGAGT
** * *
61262462 TTAG-CCGGATATAGCCACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
61262501 TTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
61262541 TTAGCCTGG-TATAATAACTCGCACAAATGCCTTCAGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * **
61262580 TTAGCCCGGATATAATAGCTCGCACAAACACCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
61262620 TTAGCCCGGATATAGTAGCTCGCACGAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* ** * *
61262660 TTAGCCC-GAAATTAGCCACTAGCTCAAATG-CTCTCGGGAC
1 TTAGCCCGGATA-TAGTAACTCGCACAAATGCCT-TCGGGAC
61262700 TTAGCCCGG
1 TTAGCCCGG
61262709 TTATCATCCG
Statistics
Matches: 178, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
39 44 0.25
40 133 0.75
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:61262583 original size:79 final size:80
Alignment explanation
Indices: 61262485--61262667 Score: 260
Period size: 79 Copynumber: 2.3 Consensus size: 80
61262475 GCCACTAGCT
* * * ** *
61262485 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCTGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACACCTTCGGGACTTAGCCCGG
61262550 -TATAATAACTCGCA
66 ATATAATAACTCGCA
* *
61262564 CAAATGCCTTCAGGACTTAGCCCGGATATAATAGCTCGCACAAACACCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACACCTTCGGGACTTAGCCCGG
* *
61262629 ATATAGTAGCTCGCA
66 ATATAATAACTCGCA
*
61262644 CGAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
61262668 AAATTAGCCA
Statistics
Matches: 91, Mismatches: 12, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
79 57 0.63
80 34 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACACCTTCGGGACTTAGCCCGG
ATATAATAACTCGCA
Found at i:61269576 original size:28 final size:26
Alignment explanation
Indices: 61269487--61269595 Score: 119
Period size: 27 Copynumber: 4.0 Consensus size: 26
61269477 AAGCGTCCTA
* * *
61269487 GTGGCTATGCCACAATTATCTGATCTA
1 GTGGCTCTGCCAC-ATTATCTGTTCTG
*
61269514 GTGGCTCTACCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGTTCTG
*
61269541 GTGGCTCTGCCACGATTATTTGTATCTG
1 GTGGCTCTGCCAC-ATTATCTGT-TCTG
* *
61269569 GTGACTCTGTCACATTATCTGTTCTG
1 GTGGCTCTGCCACATTATCTGTTCTG
61269595 G
1 G
61269596 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
26 7 0.10
27 46 0.66
28 17 0.24
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGTTCTG
Found at i:61269588 original size:54 final size:54
Alignment explanation
Indices: 61269487--61269595 Score: 139
Period size: 54 Copynumber: 2.0 Consensus size: 54
61269477 AAGCGTCCTA
*
61269487 GTGGCTATGCCACAATTATCTGATCTAGTGGCTCTACCACATATATCTGTTCTG
1 GTGGCTATGCCACAATTATCTGATCTAGTGACTCTACCACATATATCTGTTCTG
* * * * **
61269541 GTGGCTCTGCCACGATTATTTGTATCTGGTGACTCTGTCACAT-TATCTGTTCTG
1 GTGGCTATGCCACAATTATCTG-ATCTAGTGACTCTACCACATATATCTGTTCTG
61269595 G
1 G
61269596 CAGCCATGCT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 31 0.66
55 16 0.34
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (54 bp):
GTGGCTATGCCACAATTATCTGATCTAGTGACTCTACCACATATATCTGTTCTG
Found at i:61273390 original size:26 final size:25
Alignment explanation
Indices: 61273361--61273418 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
61273351 ATAAAACCTA
*
61273361 AAAATGAAATAGTA-TTAAAGGAAAAT
1 AAAAT-AAAAAGTACTTAAA-GAAAAT
*
61273387 AAAATAAAAAGTACTTAAAGAAGAT
1 AAAATAAAAAGTACTTAAAGAAAAT
61273412 -AAATAAA
1 AAAATAAA
61273419 GATAAAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 7 0.24
25 12 0.41
26 10 0.34
ACGTcount: A:0.66, C:0.02, G:0.12, T:0.21
Consensus pattern (25 bp):
AAAATAAAAAGTACTTAAAGAAAAT
Found at i:61273413 original size:25 final size:25
Alignment explanation
Indices: 61273361--61273425 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 25
61273351 ATAAAACCTA
*
61273361 AAAATGAAATAGTATTAAAGGAAAAT
1 AAAAT-AAAAAGTATTAAAGGAAAAT
61273387 AAAATAAAAAGTACTTAAAGAAGATAAAT
1 AAAATAAAAAGTA-TTAAAG--GA-AAAT
61273416 AAAGATAAAA
1 AAA-ATAAAA
61273426 GTGAAAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 7 0.21
26 11 0.33
28 2 0.06
29 7 0.21
30 6 0.18
ACGTcount: A:0.66, C:0.02, G:0.12, T:0.20
Consensus pattern (25 bp):
AAAATAAAAAGTATTAAAGGAAAAT
Found at i:61287975 original size:43 final size:42
Alignment explanation
Indices: 61287913--61288051 Score: 113
Period size: 43 Copynumber: 3.2 Consensus size: 42
61287903 GTACAATTCC
*
61287913 ATATCCCAGATATGGTCTTAAATGTAAATACAT-AT-CGATGCCA
1 ATATCCCAGA-AAGGTCTTAAATG-AAAT-CATAATACGATGCCA
* * *
61287956 CTATCCCAGACAAGGTCTTACATGAAATTATAATACGATGCCA
1 ATATCCCAGA-AAGGTCTTAAATGAAATCATAATACGATGCCA
* * * * *
61287999 ATGTCCCAGAAATGGTCTTACACGTAATC-TCAATACAATGCCA
1 ATATCCCAGAAA-GGTCTTAAATGAAATCAT-AATACGATGCCA
*
61288042 ATGTCCCAGA
1 ATATCCCAGA
61288052 CTTGGTCTTA
Statistics
Matches: 81, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
41 2 0.02
42 9 0.11
43 70 0.86
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (42 bp):
ATATCCCAGAAAGGTCTTAAATGAAATCATAATACGATGCCA
Found at i:61288058 original size:43 final size:43
Alignment explanation
Indices: 61287987--61288070 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
61287977 ATGAAATTAT
*
61287987 AATACGATGCCAATGTCCCAGAAATGGTCTTACACGTAATCTC
1 AATACAATGCCAATGTCCCAGAAATGGTCTTACACGTAATCTC
** *
61288030 AATACAATGCCAATGTCCCAGACTTGGTCTTACATGTAATC
1 AATACAATGCCAATGTCCCAGAAATGGTCTTACACGTAATC
61288071 ACATCTCGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.27
Consensus pattern (43 bp):
AATACAATGCCAATGTCCCAGAAATGGTCTTACACGTAATCTC
Found at i:61289917 original size:34 final size:34
Alignment explanation
Indices: 61289873--61289969 Score: 88
Period size: 34 Copynumber: 3.1 Consensus size: 34
61289863 TATATAGTTA
61289873 AATTTGTGTATATGAAAGCGTGGTAAGTAATGTG
1 AATTTGTGTATATGAAAGCGTGGTAAGTAATGTG
* * * *
61289907 AATTTTTGTATAT---A---T-AT-A-TAGT-TA
1 AATTTGTGTATATGAAAGCGTGGTAAGTAATGTG
61289931 AATTTGTGTATATGAAAGCGTGGTAAGTAATGTG
1 AATTTGTGTATATGAAAGCGTGGTAAGTAATGTG
61289965 AATTT
1 AATTT
61289970 TTGTTTGTGC
Statistics
Matches: 45, Mismatches: 8, Indels: 20
0.62 0.11 0.27
Matches are distributed among these distances:
24 13 0.29
25 3 0.07
26 1 0.02
27 2 0.04
28 1 0.02
30 1 0.02
31 2 0.04
32 1 0.02
33 3 0.07
34 18 0.40
ACGTcount: A:0.34, C:0.02, G:0.23, T:0.41
Consensus pattern (34 bp):
AATTTGTGTATATGAAAGCGTGGTAAGTAATGTG
Found at i:61289927 original size:58 final size:58
Alignment explanation
Indices: 61289859--61289973 Score: 230
Period size: 58 Copynumber: 2.0 Consensus size: 58
61289849 AATGGTATGC
61289859 TATATATATAGTTAAATTTGTGTATATGAAAGCGTGGTAAGTAATGTGAATTTTTGTA
1 TATATATATAGTTAAATTTGTGTATATGAAAGCGTGGTAAGTAATGTGAATTTTTGTA
61289917 TATATATATAGTTAAATTTGTGTATATGAAAGCGTGGTAAGTAATGTGAATTTTTGT
1 TATATATATAGTTAAATTTGTGTATATGAAAGCGTGGTAAGTAATGTGAATTTTTGT
61289974 TTGTGCATGA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.34, C:0.02, G:0.21, T:0.43
Consensus pattern (58 bp):
TATATATATAGTTAAATTTGTGTATATGAAAGCGTGGTAAGTAATGTGAATTTTTGTA
Found at i:61295516 original size:40 final size:40
Alignment explanation
Indices: 61295417--61295641 Score: 222
Period size: 40 Copynumber: 5.7 Consensus size: 40
61295407 TTGAATGCTG
* * * * *
61295417 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * * *
61295457 TCCGGACTAAGAT-CTGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
61295497 TCTGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* **
61295537 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
61295577 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
61295616 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
61295642 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
39 34 0.22
40 115 0.73
41 8 0.05
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:61295659 original size:79 final size:80
Alignment explanation
Indices: 61295492--61295674 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
61295482 GTGCGAGATA
* * * *
61295492 CTAAATCTGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
61295557 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
61295572 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
61295636 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
61295651 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
61295675 TACGTAATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 26 0.30
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:61303522 original size:39 final size:40
Alignment explanation
Indices: 61303318--61303540 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
61303308 TTGAATGCTG
* * * * * *
61303318 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
61303358 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
61303398 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* **
61303438 TCCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
61303478 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
61303517 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
61303541 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 36 0.22
40 117 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:61303560 original size:79 final size:80
Alignment explanation
Indices: 61303393--61303575 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
61303383 GTGCGAGATA
* * *
61303393 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*** **
61303458 CATTCGTGTGAGTTG
66 CATTCGAACGAGGAG
* * * *
61303473 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
61303537 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
61303552 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
61303576 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:61304972 original size:20 final size:20
Alignment explanation
Indices: 61304925--61304972 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
61304915 CGGGGTGTTA
* *
61304925 CACATGACATGTATGCTATG
1 CACATGATATGTATGATATG
61304945 CACATGATATGTATGATATG
1 CACATGATATGTATGATATG
61304965 CACATGAT
1 CACATGAT
61304973 GTGTTCATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (20 bp):
CACATGATATGTATGATATG
Found at i:61305053 original size:24 final size:24
Alignment explanation
Indices: 61305021--61305126 Score: 151
Period size: 24 Copynumber: 4.4 Consensus size: 24
61305011 GGAGAAAGTG
*
61305021 CAAAAGGGCTTATTCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
61305045 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
61305069 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
61305092 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
61305116 TAAAAGAGGCT
1 CAAAAG-GGCT
61305127 AGACCTCCAG
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
23 22 0.29
24 50 0.66
25 4 0.05
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:61305097 original size:47 final size:47
Alignment explanation
Indices: 61305023--61305119 Score: 167
Period size: 47 Copynumber: 2.1 Consensus size: 47
61305013 AGAAAGTGCA
*
61305023 AAAGGGCTTATTCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
* *
61305070 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
61305117 AAA
1 AAA
61305120 AGAGGCTAGA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:61305368 original size:31 final size:31
Alignment explanation
Indices: 61305333--61305394 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
61305323 GTTTACAGTG
*
61305333 AAGGCTTCGGCCCAGTAATATGAAATATGAA
1 AAGGCTTCGGCCCAATAATATGAAATATGAA
**
61305364 AAGGCTTCGGCCCAATGTTATGAAATATGAA
1 AAGGCTTCGGCCCAATAATATGAAATATGAA
61305395 GTGTGAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (31 bp):
AAGGCTTCGGCCCAATAATATGAAATATGAA
Found at i:61313070 original size:11 final size:11
Alignment explanation
Indices: 61313016--61313071 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
61313006 CATGGTATGT
61313016 ATGATATGCAC
1 ATGATATGCAC
* *
61313027 ATGACATG--T
1 ATGATATGCAC
*
61313036 ATGCTATGCAC
1 ATGATATGCAC
61313047 ATGATATG-A-
1 ATGATATGCAC
61313056 ATGATATGCAC
1 ATGATATGCAC
61313067 ATGAT
1 ATGAT
61313072 GTGTTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 14 0.40
10 2 0.06
11 19 0.54
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:61313071 original size:20 final size:20
Alignment explanation
Indices: 61313005--61313071 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
61312995 ATTTTAGTAA
*
61313005 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
61313025 ACATGACATGTATGCTATGC
1 ACATGATATGTATGATATGC
*
61313045 ACATGATATGAATGATATGC
1 ACATGATATGTATGATATGC
61313065 ACATGAT
1 ACATGAT
61313072 GTGTTCATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:61313147 original size:24 final size:24
Alignment explanation
Indices: 61313120--61313197 Score: 95
Period size: 24 Copynumber: 3.2 Consensus size: 24
61313110 GGAGGAAGTG
*
61313120 CAAAAGGGTTTATGCCCCAATTAT
1 CAAAAGGGTTTATGCCCCAGTTAT
*
61313144 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGTTTATGCCCCAGTTAT
* *
61313168 TAAAAGGGCTTT-TGCCTCAGTTAT
1 CAAAAGGG-TTTATGCCCCAGTTAT
*
61313192 TAAAAG
1 CAAAAG
61313198 AGGATAGGCC
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 46 0.96
25 2 0.04
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (24 bp):
CAAAAGGGTTTATGCCCCAGTTAT
Found at i:61313445 original size:31 final size:31
Alignment explanation
Indices: 61313410--61313470 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
61313400 TTTACAGTAC
61313410 AGGCTTCGGCCCAGTAATATGAAATATGAAA
1 AGGCTTCGGCCCAGTAATATGAAATATGAAA
* ** *
61313441 AGGCTTCGGCTCAGTGTTATGACATATGAA
1 AGGCTTCGGCCCAGTAATATGAAATATGAA
61313471 GTGTGAAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (31 bp):
AGGCTTCGGCCCAGTAATATGAAATATGAAA
Found at i:61319705 original size:22 final size:22
Alignment explanation
Indices: 61319671--61319715 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
61319661 TGCTGCGGTA
*
61319671 TCTATGGCATTGAGTCC-TCCTG
1 TCTACGGCATTGAG-CCATCCTG
*
61319693 TCTACGGCGTTGAGCCATCCTG
1 TCTACGGCATTGAGCCATCCTG
61319715 T
1 T
61319716 TGACTTAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.13, C:0.29, G:0.24, T:0.33
Consensus pattern (22 bp):
TCTACGGCATTGAGCCATCCTG
Found at i:61322348 original size:45 final size:44
Alignment explanation
Indices: 61322283--61322372 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 44
61322273 CACACCCTTC
61322283 TTTATTGGAAGTCGAAAAAAGCCAAAAAGTCGAAACCTCGGCAT
1 TTTATTGGAAGTCGAAAAAAGCCAAAAAGTCGAAACCTCGGCAT
61322327 TNTTATTGGAAGTCGAAAAAAGCCAAAAAGTCGAAACCTCGGCAT
1 T-TTATTGGAAGTCGAAAAAAGCCAAAAAGTCGAAACCTCGGCAT
61322372 T
1 T
61322373 CGGGGCCTCA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 1 0.02
45 44 0.98
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.21
Consensus pattern (44 bp):
TTTATTGGAAGTCGAAAAAAGCCAAAAAGTCGAAACCTCGGCAT
Found at i:61323205 original size:33 final size:33
Alignment explanation
Indices: 61323163--61323260 Score: 105
Period size: 33 Copynumber: 3.1 Consensus size: 33
61323153 GAGTCTAATA
61323163 CTAATTCTGTACTGGGATTAGGCCCACCTGATT
1 CTAATTCTGTACTGGGATTAGGCCCACCTGATT
* * ** * *
61323196 CTAATTCTGT-CT-GCA-TA-TCTGTATCTGATA
1 CTAATTCTGTACTGGGATTAGGC-CCACCTGATT
61323226 CTAATTCTGTACTGGGATTAGGCCCACCTGATT
1 CTAATTCTGTACTGGGATTAGGCCCACCTGATT
61323259 CT
1 CT
61323261 GTTAATGGGC
Statistics
Matches: 48, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
29 1 0.02
30 18 0.38
31 4 0.08
32 4 0.08
33 20 0.42
34 1 0.02
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.37
Consensus pattern (33 bp):
CTAATTCTGTACTGGGATTAGGCCCACCTGATT
Found at i:61325448 original size:48 final size:48
Alignment explanation
Indices: 61325374--61325468 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
61325364 ATTTGAGCTA
* * *
61325374 TGTAGGAGGTTGAGTTGGACTGGAACTCTGTGGTTGAAGTGGTCATAG
1 TGTAGGAGGTGGAGTTGGAATAGAACTCTGTGGTTGAAGTGGTCATAG
61325422 TGTAGGAGGTGGAGTTGGAATAGAACTCTGTGGTTGAAGTGGTCATA
1 TGTAGGAGGTGGAGTTGGAATAGAACTCTGTGGTTGAAGTGGTCATA
61325469 TAAAAATAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.23, C:0.07, G:0.39, T:0.31
Consensus pattern (48 bp):
TGTAGGAGGTGGAGTTGGAATAGAACTCTGTGGTTGAAGTGGTCATAG
Found at i:61329562 original size:55 final size:55
Alignment explanation
Indices: 61329478--61329583 Score: 151
Period size: 55 Copynumber: 1.9 Consensus size: 55
61329468 CAAAGATGTA
*
61329478 CACGGGTAGGCCACACGGGCGTGCGCCATGGCCGTGTTAAAAAGACAGTGTCGTC
1 CACGGGCAGGCCACACGGGCGTGCGCCATGGCCGTGTTAAAAAGACAGTGTCGTC
* * * *
61329533 CACGGGCAGG-CAGCACGGGTGTGTGCCATGGCCGTGTTAATAAGTCAGTGT
1 CACGGGCAGGCCA-CACGGGCGTGCGCCATGGCCGTGTTAAAAAGACAGTGT
61329584 TGCCTAATGT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
54 2 0.04
55 43 0.96
ACGTcount: A:0.21, C:0.25, G:0.36, T:0.19
Consensus pattern (55 bp):
CACGGGCAGGCCACACGGGCGTGCGCCATGGCCGTGTTAAAAAGACAGTGTCGTC
Found at i:61344657 original size:42 final size:42
Alignment explanation
Indices: 61344593--61344677 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
61344583 TGTGTGACTT
*
61344593 GGCCCTGTGACTTCAATTTGTTGATGATGTCATAAACAGAGA
1 GGCCCTGTGACTTCAATTTGTTGATGACGTCATAAACAGAGA
* * *
61344635 GGCCTTGTGACTTCAATTTGTTGATTACGTCATAAATAGAGA
1 GGCCCTGTGACTTCAATTTGTTGATGACGTCATAAACAGAGA
61344677 G
1 G
61344678 TTACAAGGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (42 bp):
GGCCCTGTGACTTCAATTTGTTGATGACGTCATAAACAGAGA
Found at i:61346918 original size:54 final size:55
Alignment explanation
Indices: 61346833--61346942 Score: 186
Period size: 54 Copynumber: 2.0 Consensus size: 55
61346823 ATGTTAGCTC
* * *
61346833 AGAATTGTATAAGAAAAGGCTATGAAGCTTATCAAGCTTGTGTGCTGAATACAAA
1 AGAATTGTATAAGAAAAGACTATGAAACTTATCAAGCTTATGTGCTGAATACAAA
61346888 AGAA-TGTATAAGAAAAGACTATGAAACTTATCAAGCTTATGTGCTGAATACAAA
1 AGAATTGTATAAGAAAAGACTATGAAACTTATCAAGCTTATGTGCTGAATACAAA
61346942 A
1 A
61346943 AAGTCTGAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
54 48 0.92
55 4 0.08
ACGTcount: A:0.44, C:0.11, G:0.19, T:0.26
Consensus pattern (55 bp):
AGAATTGTATAAGAAAAGACTATGAAACTTATCAAGCTTATGTGCTGAATACAAA
Found at i:61349804 original size:41 final size:40
Alignment explanation
Indices: 61349751--61349915 Score: 133
Period size: 41 Copynumber: 4.0 Consensus size: 40
61349741 AGTCCGACTC
*
61349751 TTAG-CACCGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* * *
61349790 TTAGACTACTGGCTCGAAGGCCCTTCG-GAACTAAG-TCCGG-
1 TTAGAC-ACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGA
* * * * *
61349830 TTATGACACTGGCTCTAAAAAGCCTTTCAAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTC--AAAAGCCCTTCGAGACCAAGCTCGG--A
*
61349875 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
61349914 TT
1 TT
61349916 TAAACCTCGA
Statistics
Matches: 99, Mismatches: 15, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
39 7 0.07
40 14 0.14
41 47 0.47
42 17 0.17
43 10 0.10
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Found at i:61358173 original size:41 final size:41
Alignment explanation
Indices: 61358072--61358218 Score: 126
Period size: 41 Copynumber: 3.6 Consensus size: 41
61358062 TCTGACTCTT
* * *
61358072 AGCACCGGCTCAAAAGCCCTTCGAGACCAAG-CTCGGATTA-G
1 AGCACTGGCTCAAAAGCCCTTCGAAACTAAGTC-CGG-TTATG
** *
61358113 A-CTACTGGCTTGAAGGCCCTTC-AGAACTAAGTCCGGTTATG
1 AGC-ACTGGCTCAAAAGCCCTTCGA-AACTAAGTCCGGTTATG
* *
61358154 A-CACT-GCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTATT
1 AGCACTGGCTC--AAAAGCCCTTCGAAACTAAGTCCGGTTATG
61358195 AGCACTGGCTCAAAAGCCCTTCGA
1 AGCACTGGCTCAAAAGCCCTTCGA
61358219 GACCAAGCTC
Statistics
Matches: 86, Mismatches: 11, Indels: 18
0.75 0.10 0.16
Matches are distributed among these distances:
39 3 0.03
40 8 0.09
41 65 0.76
42 6 0.07
43 4 0.05
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (41 bp):
AGCACTGGCTCAAAAGCCCTTCGAAACTAAGTCCGGTTATG
Found at i:61379658 original size:40 final size:40
Alignment explanation
Indices: 61379610--61379876 Score: 462
Period size: 40 Copynumber: 6.7 Consensus size: 40
61379600 GCAAACACAT
* *
61379610 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
61379650 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
** *
61379690 TTGCCTTCGGGTCACAGCCCGGTTATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
61379730 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
61379770 TTGCCTTTGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
61379810 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
61379850 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
61379877 ATCCAATGCT
Statistics
Matches: 214, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 214 1.00
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:61387478 original size:40 final size:40
Alignment explanation
Indices: 61387430--61387777 Score: 615
Period size: 40 Copynumber: 8.7 Consensus size: 40
61387420 GCAAACACAT
* * *
61387430 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
61387470 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
** *
61387510 TTGCCTTCGGGTCACAGCCCGGATATATCAACTCGCATAG
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
61387550 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
61387590 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
61387630 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
61387670 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
61387710 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
61387750 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
61387778 TCCAATGCTC
Statistics
Matches: 293, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 293 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:61390116 original size:18 final size:18
Alignment explanation
Indices: 61390085--61390156 Score: 58
Period size: 18 Copynumber: 3.8 Consensus size: 18
61390075 ATATGTTTTC
* *
61390085 TTTATTTTCA-TTTTGGT
1 TTTATTTTTATTTTTGCT
61390102 TTTATTTTTATTTTT-CT
1 TTTATTTTTATTTTTGCT
*
61390119 TCTTATTTTTAGTTATTTTGTT
1 T-TTATTTTTA--T-TTTTGCT
61390141 TTTATTTTTTATTTTT
1 TTTA-TTTTTATTTTT
61390157 TTAGGTTTCT
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
17 11 0.24
18 13 0.29
19 4 0.09
20 2 0.04
21 7 0.16
22 8 0.18
ACGTcount: A:0.12, C:0.04, G:0.06, T:0.78
Consensus pattern (18 bp):
TTTATTTTTATTTTTGCT
Found at i:61390137 original size:22 final size:21
Alignment explanation
Indices: 61390094--61390149 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 21
61390084 CTTTATTTTC
*
61390094 ATTTTGGTTTTATTTTTA--T
1 ATTTTGTTTTTATTTTTAGTT
* *
61390113 -TTTTCTTCTTATTTTTAGTT
1 ATTTTGTTTTTATTTTTAGTT
61390133 ATTTTGTTTTTATTTTT
1 ATTTTGTTTTTATTTTT
61390150 TATTTTTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 14 0.48
20 1 0.03
21 14 0.48
ACGTcount: A:0.12, C:0.04, G:0.07, T:0.77
Consensus pattern (21 bp):
ATTTTGTTTTTATTTTTAGTT
Found at i:61390143 original size:28 final size:28
Alignment explanation
Indices: 61390103--61390156 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
61390093 CATTTTGGTT
61390103 TTATTTTTATTTT-TCTTCTTATTTTTAG
1 TTATTTTTATTTTAT-TTCTTATTTTTAG
*
61390131 TTATTTTGT-TTTTATTTTTTATTTTT
1 TTATTTT-TATTTTATTTCTTATTTTT
61390157 TTAGGTTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
28 21 0.91
29 2 0.09
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.80
Consensus pattern (28 bp):
TTATTTTTATTTTATTTCTTATTTTTAG
Found at i:61391671 original size:27 final size:27
Alignment explanation
Indices: 61391609--61391676 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
61391599 ACAATGCATG
**
61391609 ATTGTTTGCAAATTATTTTAAGACATT
1 ATTGTTTGTGAATTATTTTAAGACATT
61391636 ATTGTTTGTGAATTATTTTAAGACATT
1 ATTGTTTGTGAATTATTTTAAGACATT
61391663 ATTGTTTGTGAATT
1 ATTGTTTGTGAATT
61391677 GACAAGTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.29, C:0.04, G:0.15, T:0.51
Consensus pattern (27 bp):
ATTGTTTGTGAATTATTTTAAGACATT
Found at i:61391927 original size:30 final size:30
Alignment explanation
Indices: 61391891--61392011 Score: 170
Period size: 30 Copynumber: 4.0 Consensus size: 30
61391881 TAGATCTCAA
* *
61391891 GAGCCACATGGGCTAGACACACGGCCATGT
1 GAGCCACACGGGCTAGACACATGGCCATGT
61391921 GAGCCACACGGGCTAGACACATGGCCATGT
1 GAGCCACACGGGCTAGACACATGGCCATGT
* * *
61391951 GAGCCATACGGGCTGGACACATTGCCATGT
1 GAGCCACACGGGCTAGACACATGGCCATGT
* * *
61391981 GAGCCATACGGGCTGGACACATTGCCATGT
1 GAGCCACACGGGCTAGACACATGGCCATGT
61392011 G
1 G
61392012 CTAGGCTGTG
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 86 1.00
ACGTcount: A:0.25, C:0.28, G:0.31, T:0.17
Consensus pattern (30 bp):
GAGCCACACGGGCTAGACACATGGCCATGT
Found at i:61393852 original size:341 final size:341
Alignment explanation
Indices: 61393229--61393910 Score: 1364
Period size: 341 Copynumber: 2.0 Consensus size: 341
61393219 TGGAAGGACT
61393229 ATGGATTCAAGCCAATACAAAATTAACATCTTGACCCTCTTTTGCACCAATCCTAATGGACACGT
1 ATGGATTCAAGCCAATACAAAATTAACATCTTGACCCTCTTTTGCACCAATCCTAATGGACACGT
61393294 ATAAAATATGAATTTATATTTAATATATTGAGAGTGTATATATAATTGTATACTACACAGCTAAT
66 ATAAAATATGAATTTATATTTAATATATTGAGAGTGTATATATAATTGTATACTACACAGCTAAT
61393359 TTTAAAGATATCTTGATCTAATACAGTAAAACATTGATACATATATATTTGAATTCAAAATTTAT
131 TTTAAAGATATCTTGATCTAATACAGTAAAACATTGATACATATATATTTGAATTCAAAATTTAT
61393424 CAAATATAAGTTTATATACTCGATCAAAATTAAAGCCAAAATATAATTGATACTTCTTCTTTATT
196 CAAATATAAGTTTATATACTCGATCAAAATTAAAGCCAAAATATAATTGATACTTCTTCTTTATT
61393489 ACTTTTTAAACAAGAAAGAAATTAATAGGAAATCGAAGGAGATATAGGTAAGAACTATTGGATGC
261 ACTTTTTAAACAAGAAAGAAATTAATAGGAAATCGAAGGAGATATAGGTAAGAACTATTGGATGC
61393554 TTTACAACTCCATATC
326 TTTACAACTCCATATC
61393570 ATGGATTCAAGCCAATACAAAATTAACATCTTGACCCTCTTTTGCACCAATCCTAATGGACACGT
1 ATGGATTCAAGCCAATACAAAATTAACATCTTGACCCTCTTTTGCACCAATCCTAATGGACACGT
61393635 ATAAAATATGAATTTATATTTAATATATTGAGAGTGTATATATAATTGTATACTACACAGCTAAT
66 ATAAAATATGAATTTATATTTAATATATTGAGAGTGTATATATAATTGTATACTACACAGCTAAT
61393700 TTTAAAGATATCTTGATCTAATACAGTAAAACATTGATACATATATATTTGAATTCAAAATTTAT
131 TTTAAAGATATCTTGATCTAATACAGTAAAACATTGATACATATATATTTGAATTCAAAATTTAT
61393765 CAAATATAAGTTTATATACTCGATCAAAATTAAAGCCAAAATATAATTGATACTTCTTCTTTATT
196 CAAATATAAGTTTATATACTCGATCAAAATTAAAGCCAAAATATAATTGATACTTCTTCTTTATT
61393830 ACTTTTTAAACAAGAAAGAAATTAATAGGAAATCGAAGGAGATATAGGTAAGAACTATTGGATGC
261 ACTTTTTAAACAAGAAAGAAATTAATAGGAAATCGAAGGAGATATAGGTAAGAACTATTGGATGC
61393895 TTTACAACTCCATATC
326 TTTACAACTCCATATC
61393911 CTTATATATA
Statistics
Matches: 341, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
341 341 1.00
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.34
Consensus pattern (341 bp):
ATGGATTCAAGCCAATACAAAATTAACATCTTGACCCTCTTTTGCACCAATCCTAATGGACACGT
ATAAAATATGAATTTATATTTAATATATTGAGAGTGTATATATAATTGTATACTACACAGCTAAT
TTTAAAGATATCTTGATCTAATACAGTAAAACATTGATACATATATATTTGAATTCAAAATTTAT
CAAATATAAGTTTATATACTCGATCAAAATTAAAGCCAAAATATAATTGATACTTCTTCTTTATT
ACTTTTTAAACAAGAAAGAAATTAATAGGAAATCGAAGGAGATATAGGTAAGAACTATTGGATGC
TTTACAACTCCATATC
Found at i:61402792 original size:22 final size:22
Alignment explanation
Indices: 61402763--61402815 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
61402753 AATCTCACGA
*
61402763 ATTT-GAATTATCCTACTCATG
1 ATTTGGAATTATCCGACTCATG
61402784 ATTTGGAATTATCCGACTCATG
1 ATTTGGAATTATCCGACTCATG
61402806 ATTTGGAATT
1 ATTTGGAATT
61402816 GGCTGTGGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 4 0.13
22 26 0.87
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (22 bp):
ATTTGGAATTATCCGACTCATG
Found at i:61404727 original size:40 final size:40
Alignment explanation
Indices: 61404662--61404829 Score: 250
Period size: 40 Copynumber: 4.2 Consensus size: 40
61404652 GAACTTTAAG
* * * *
61404662 CCCGGATATA-A-TATCAGCACTAAGCCTGTGGGATTTAA
1 CCCGGATATACATTACCAGCACGAAGCCTGCGGGATTTGA
*
61404700 CCCGGATATACATTACCAGCACGAAGCCTGCTGGATTTGA
1 CCCGGATATACATTACCAGCACGAAGCCTGCGGGATTTGA
*
61404740 CCCGGATATACATTACCAGCACGAAGCCTACGGGATTTGA
1 CCCGGATATACATTACCAGCACGAAGCCTGCGGGATTTGA
*
61404780 CCCGGATATACATTACCAGCACAAAGCCTGCGGGATTTGA
1 CCCGGATATACATTACCAGCACGAAGCCTGCGGGATTTGA
*
61404820 CCCAGATATA
1 CCCGGATATA
61404830 TATAATATAT
Statistics
Matches: 118, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
38 10 0.08
39 1 0.01
40 107 0.91
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (40 bp):
CCCGGATATACATTACCAGCACGAAGCCTGCGGGATTTGA
Found at i:61412775 original size:40 final size:40
Alignment explanation
Indices: 61412673--61412830 Score: 185
Period size: 40 Copynumber: 4.0 Consensus size: 40
61412663 CCGAATCCCG
* * * * *
61412673 TTACTAGCTCAAAGTCTGCGGAACTTTAAGCCTGGATATA-A
1 TTACCAGCACAAAGCCTGCGGGA-TTTAA-CCCGGATATACA
* * *
61412714 -TACTAGCACCAAGCCTACGGGATTTAACCCGGATATACA
1 TTACCAGCACAAAGCCTGCGGGATTTAACCCGGATATACA
*
61412753 TTACCAGCACAAAGCCTGCGGGATTTGACCCGGATATACA
1 TTACCAGCACAAAGCCTGCGGGATTTAACCCGGATATACA
* *
61412793 TTACCAGCACGAAGCCTGCGGGATTTGACCCGGATATA
1 TTACCAGCACAAAGCCTGCGGGATTTAACCCGGATATA
61412831 TATAATATAT
Statistics
Matches: 104, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
38 9 0.09
39 6 0.06
40 89 0.86
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (40 bp):
TTACCAGCACAAAGCCTGCGGGATTTAACCCGGATATACA
Found at i:61417215 original size:40 final size:40
Alignment explanation
Indices: 61417167--61418114 Score: 1842
Period size: 40 Copynumber: 23.7 Consensus size: 40
61417157 GCAAACACAT
* * * *
61417167 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
61417207 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
* *
61417247 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
61417287 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
61417327 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
61417367 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
61417407 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
61417447 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
61417487 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
61417527 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
61417567 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
61417607 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
61417647 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
61417687 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
61417727 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
61417767 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
61417807 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
61417847 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
61417887 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
61417927 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
61417967 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
61418007 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
61418047 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
61418087 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
61418115 TCCAATGCTC
Statistics
Matches: 900, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 900 1.00
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.32
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
Found at i:61426279 original size:40 final size:40
Alignment explanation
Indices: 61426179--61426443 Score: 259
Period size: 40 Copynumber: 6.7 Consensus size: 40
61426169 GCTCCTCGTT
* * * *
61426179 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
61426219 C-AATGCCTTCGGGACATAACCCGAATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
61426258 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * *
61426298 TGAATGCCTTCGGGATTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
61426338 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
61426378 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
61426419 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
61426444 CAGCATTCAA
Statistics
Matches: 191, Mismatches: 28, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
39 38 0.20
40 138 0.72
41 15 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:61426327 original size:80 final size:79
Alignment explanation
Indices: 61426146--61426443 Score: 255
Period size: 80 Copynumber: 3.8 Consensus size: 79
61426136 AAATCACGTA
* ** ** * * *
61426146 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTTTAG
1 CCTTCGGGATTTAACCCGGATTTAGCAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAG
* *
61426210 TAACTCACACAATG
66 TAACTCGCAAAATG
** * * * *
61426224 CCTTCGGGACATAACCCGAATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAA
1 CCTTCGGGATTTAACCCGGATTTAGCAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAG
*
61426289 TAACTCGCATGAATG
66 TAACTCGCA-AAATG
* * * *
61426304 CCTTCGGGATTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT-
1 CCTTCGGGATTTAACCCGGATTTAGCAACTCGCACAAATGCCTTCGGGACTTAACCCGG-ATTTA
*
61426368 GTATCTCGCACAAATG
65 GTAACTCGCA-AAATG
** * * * *
61426384 CCTTC-GGATCTTAGTCCGGATATATTC-ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGAT-TTAACCCGGATTTA-GCAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGA
61426444 CAGCATTCAA
Statistics
Matches: 176, Mismatches: 38, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
78 12 0.07
79 51 0.29
80 101 0.57
81 12 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (79 bp):
CCTTCGGGATTTAACCCGGATTTAGCAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAG
TAACTCGCAAAATG
Found at i:61426452 original size:41 final size:41
Alignment explanation
Indices: 61426375--61426452 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
61426365 TTTGTATCTC
* * *
61426375 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
61426416 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
61426453 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:61431230 original size:27 final size:27
Alignment explanation
Indices: 61431199--61431376 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
61431189 TAAATTGTAC
*
61431199 AGCACTAAGTGTGCGATTTAACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
61431226 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61431252 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
61431280 GGCACTAAGTCTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
61431308 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61431335 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
61431362 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61431377 GACTCAATAT
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.83
28 22 0.17
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:61431315 original size:82 final size:81
Alignment explanation
Indices: 61431200--61431355 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
61431190 AAATTGTACA
* * *
61431200 GCACTAAGTGTGCGATTTAACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTCTGCGATTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
61431264 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
61431281 GCACTAAGTCTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTCTGCGA-TTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
61431346 TGCGAGTTGA
65 TGCGAATTGA
61431356 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 14 0.22
82 50 0.77
83 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (81 bp):
GCACTAAGTCTGCGATTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:61431367 original size:82 final size:81
Alignment explanation
Indices: 61431196--61431376 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
61431186 GATTAAATTG
* *
61431196 TACAGCACTAAGTGTGCGATTTAACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
61431261 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * * ** *
61431277 TGCGGCACTAAGTCTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
61431341 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
61431359 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
61431377 GACTCAATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 17 0.21
82 64 0.79
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:61435633 original size:22 final size:22
Alignment explanation
Indices: 61435608--61435653 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
61435598 ATTACTTTCA
61435608 TAGTATTTTCAATTTCAGAAAC
1 TAGTATTTTCAATTTCAGAAAC
61435630 TAGTATTTTCAATTTCAGAAAC
1 TAGTATTTTCAATTTCAGAAAC
61435652 TA
1 TA
61435654 TCTTAGGATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (22 bp):
TAGTATTTTCAATTTCAGAAAC
Found at i:61437062 original size:46 final size:48
Alignment explanation
Indices: 61437009--61437131 Score: 151
Period size: 46 Copynumber: 2.6 Consensus size: 48
61436999 GTATGTGAGG
*
61437009 AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACA-A-GAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACATACAAGCT
* * * * * *
61437055 AGTGTAAGACATGTTTGGGACATGTATTGGCCTTGGGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACATACAAGCT
*
61437103 AGTGTAAGACCTGTCTGGGACATAGCATC
1 AGTGTAAGACATGTCTGGGACAT-GCATC
61437132 AGCTTGTTGT
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
46 34 0.54
47 1 0.02
48 25 0.40
49 3 0.05
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACATACAAGCT
Found at i:61437887 original size:20 final size:20
Alignment explanation
Indices: 61437862--61437901 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
61437852 CACTTGAAAC
61437862 AGGGCAAACA-CCCGTGTGGA
1 AGGGC-AACAGCCCGTGTGGA
61437882 AGGGCAACATGCCCGTGTGG
1 AGGGCAACA-GCCCGTGTGG
61437902 CCCTGTTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 5 0.28
21 9 0.50
ACGTcount: A:0.25, C:0.25, G:0.38, T:0.12
Consensus pattern (20 bp):
AGGGCAACAGCCCGTGTGGA
Found at i:61439200 original size:20 final size:20
Alignment explanation
Indices: 61439162--61439201 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
61439152 GTCAACAGGG
61439162 CCACACGGGCATGTTGCCCTT
1 CCACACGGG-ATGTTGCCCTT
61439183 CCACACGGG-TGTTTGCCCT
1 CCACACGGGATG-TTGCCCT
61439202 GTTTCAAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 7 0.39
21 9 0.50
ACGTcount: A:0.12, C:0.38, G:0.25, T:0.25
Consensus pattern (20 bp):
CCACACGGGATGTTGCCCTT
Found at i:61445569 original size:46 final size:46
Alignment explanation
Indices: 61445512--61445645 Score: 166
Period size: 46 Copynumber: 2.9 Consensus size: 46
61445502 CATCGGGTGG
* *
61445512 TATGTGAGCCAGTATAAGACATGTCTGGGACATGCATCGGCCACAT
1 TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAT
* *
61445558 TATGGGAGCCAGTGTAAGACATGTCTGGGAAATGCATC-G--ACAT
1 TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAT
* *
61445601 TGAAACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC
1 T---ATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCC
61445646 TCGGGATATA
Statistics
Matches: 75, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
43 5 0.07
45 1 0.01
46 68 0.91
47 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.22
Consensus pattern (46 bp):
TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAT
Found at i:61461646 original size:28 final size:29
Alignment explanation
Indices: 61461607--61461662 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
61461597 ACACGGGCGA
*
61461607 GGACACGAGCGTGT-CTAGGTCGTGTGAG
1 GGACACGAGCGTGTGCTAGGCCGTGTGAG
* *
61461635 GGACACGGGCGTGTGCTCGGCCGTGTGA
1 GGACACGAGCGTGTGCTAGGCCGTGTGA
61461663 AAACCCATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.14, C:0.21, G:0.45, T:0.20
Consensus pattern (29 bp):
GGACACGAGCGTGTGCTAGGCCGTGTGAG
Found at i:61472733 original size:14 final size:14
Alignment explanation
Indices: 61472714--61472741 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
61472704 ATAAATCTCT
61472714 AGTTAATGGTTCAA
1 AGTTAATGGTTCAA
61472728 AGTTAATGGTTCAA
1 AGTTAATGGTTCAA
61472742 CATACTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
AGTTAATGGTTCAA
Found at i:61476740 original size:48 final size:48
Alignment explanation
Indices: 61476669--61476883 Score: 235
Period size: 48 Copynumber: 4.6 Consensus size: 48
61476659 GCCTCATGTT
* * * **
61476669 GATGCCATGTACCAGACATGGTCTTGCACTGGCTCATATAATGATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGCC
* *
61476717 GATGCCATGTCCCAAACATGGTCTTACATTGGCTCACATAACAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGCC
* * * *
61476765 AATGCCATGTCCCAGGCATGGTCTTACACTGGCTCACATAACAATACT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGCC
* * * *
61476813 GATGCCATGTCCCAGACATGGTATTATAC-GG----GATCAC-ATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGCC
* *
61476855 GATGCCATATCCCAGATATGGTCTTACAC
1 GATGCCATGTCCCAGACATGGTCTTACAC
61476884 GGTTACACAT
Statistics
Matches: 142, Mismatches: 25, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
42 28 0.20
43 4 0.03
47 2 0.01
48 108 0.76
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACAATGCC
Found at i:61483490 original size:45 final size:45
Alignment explanation
Indices: 61483438--61483584 Score: 138
Period size: 45 Copynumber: 3.2 Consensus size: 45
61483428 CCCAGACATG
61483438 GTCTTACATGGGATCACACATATCGAAGCTGATAACCCAGCTATA
1 GTCTTACATGGGATCACACATATCGAAGCTGATAACCCAGCTATA
* ** * * ** *
61483483 GTCTTACA--CGATGTTCTCATATCGATGCCAATGCCATGTCCCAGAC-ATG
1 GTCTTACATGGGAT-CACACATATCGAAG-C--TG--ATAACCCAG-CTATA
61483532 GTCTTACATGGGATCACACATATCGAAGCTGATAACCCAGCTATA
1 GTCTTACATGGGATCACACATATCGAAGCTGATAACCCAGCTATA
61483577 GTCTTACA
1 GTCTTACA
61483585 CGATGTTCTC
Statistics
Matches: 76, Mismatches: 16, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
43 3 0.04
44 11 0.14
45 26 0.34
47 4 0.05
49 18 0.24
50 11 0.14
51 3 0.04
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (45 bp):
GTCTTACATGGGATCACACATATCGAAGCTGATAACCCAGCTATA
Found at i:61483518 original size:94 final size:94
Alignment explanation
Indices: 61483408--61483642 Score: 454
Period size: 94 Copynumber: 2.5 Consensus size: 94
61483398 TGGGACCACT
61483408 TATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATATCGAAGCTGATAA
1 TATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATATCGAAGCTGATAA
61483473 CCCAGCTATAGTCTTACACGATGTTCTCA
66 CCCAGCTATAGTCTTACACGATGTTCTCA
61483502 TATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATATCGAAGCTGATAA
1 TATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATATCGAAGCTGATAA
61483567 CCCAGCTATAGTCTTACACGATGTTCTCA
66 CCCAGCTATAGTCTTACACGATGTTCTCA
*
61483596 TATCGATGCCAATGCCATGTCCCAAACATGGTCTTACAT-GGATCACA
1 TATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
61483643 TAACGATGCC
Statistics
Matches: 140, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
93 8 0.06
94 132 0.94
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (94 bp):
TATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATATCGAAGCTGATAA
CCCAGCTATAGTCTTACACGATGTTCTCA
Found at i:61483653 original size:47 final size:48
Alignment explanation
Indices: 61483366--61483735 Score: 289
Period size: 48 Copynumber: 7.8 Consensus size: 48
61483356 CATAGTAGGG
* * * ** * *
61483366 TGCCAATGCCATATCCCGGATATGGTCTTTTATGGGACCACTTATCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGA
61483414 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATATCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT--CACATATCGA
* ** * * * * *
61483464 AG-C--TG--ATAACCCAG-CTATAGTCTTACACGATGTTCTCATATCGA
1 TGCCAATGCCATGTCCCAGAC-ATGGTCTTACATG-GGATCACATATCGA
61483508 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATATCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT--CACATATCGA
* ** * * * * *
61483558 AG-C--TG--ATAACCCAG-CTATAGTCTTACACGATGTTCTCATATCGA
1 TGCCAATGCCATGTCCCAGAC-ATGGTCTTACATG-GGATCACATATCGA
* *
61483602 TGCCAATGCCATGTCCCAAACATGGTCTTACAT-GGATCACATAACGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGA
61483649 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGA
* ** * * * *
61483697 TTCTGATGCCATATCCCAGATATGGTCTTATACGGGATC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
61483736 TCATCAACCT
Statistics
Matches: 251, Mismatches: 50, Indels: 42
0.73 0.15 0.12
Matches are distributed among these distances:
44 22 0.09
45 38 0.15
46 4 0.02
47 50 0.20
48 79 0.31
49 36 0.14
50 22 0.09
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (48 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGA
Found at i:61484564 original size:21 final size:21
Alignment explanation
Indices: 61484538--61484580 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
61484528 CTAAAGAGAG
*
61484538 AGGAAGATGGACACCATTTTA
1 AGGAAGATGGACACAATTTTA
61484559 AGGAAGATGGACACAATTTTA
1 AGGAAGATGGACACAATTTTA
61484580 A
1 A
61484581 CTTATTTTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (21 bp):
AGGAAGATGGACACAATTTTA
Found at i:61485365 original size:104 final size:103
Alignment explanation
Indices: 61485095--61485633 Score: 440
Period size: 104 Copynumber: 5.2 Consensus size: 103
61485085 GATGAACTTA
* * * ** * * * *
61485095 GGTTGTGATCTTAACTCAACTAACCTTTAAACATCAGCTGGGAATGTAAGTCCACCGAGTTGTTT
1 GGTTGCGAGCTTAACTC-ACTAACCTTTAAGCATCAGCTGGGAACATAGGTCCA-CAAGCTATTT
61485160 TAGAGTTGCGAGCTTAACTT-AGCTAACTCAAATAACTAAG
64 TAGAGTTGCGAGCTTAA-TTCAGCTAACTCAAATAACTAAG
* *** * * *****
61485200 GGTTGTGAGCTTAACTCAGCTAACCTTTAAGCATCAG-TTAAAACTGTAGATTTGTGAGCTATTT
1 GGTTGCGAGCTTAACTCA-CTAACCTTTAAGCATCAGCTGGGAAC-ATAGGTCCACAAGCTATTT
* * * * * **
61485264 TAGAGTTGTGAGCTTGATTCAGTTAACTAAAATAAATTTG
64 TAGAGTTGCGAGCTTAATTCAGCTAACTCAAATAACTAAG
* * * **
61485304 GATTGCAAGCTTAACTCATCTAATCTTTAAGCATCAGCTGGGAACATAGGTCCACGGGCTATTTT
1 GGTTGCGAGCTTAACTCA-CTAACCTTTAAGCATCAGCTGGGAACATAGGTCCACAAGCTATTTT
* * **
61485369 AGAGTTACGAGCTTAACTCAGCTAACTCAAATAACTGGG
65 AGAGTTGCGAGCTTAATTCAGCTAACTCAAATAACTAAG
* * * * * * * *
61485408 GGTTGTGAGCTTAACTTAGCTAACCTTTAAGCATCAGCTGCGAACGTTGGTCCGCAAGCTGTTTC
1 GGTTGCGAGCTTAACTCA-CTAACCTTTAAGCATCAGCTGGGAACATAGGTCCACAAGCTATTTT
*
61485473 GGAGTTGCGAGCTTAACTT-AGCTAACTCAAATAACTAAG
65 AGAGTTGCGAGCTTAA-TTCAGCTAACTCAAATAACTAAG
* **** * *
61485512 GGTTGCGAGCTTAACTCGACTAACCTTTAAGCATTAGCTGGGAACATAGGTCTTTGAGTTGTTTT
1 GGTTGCGAGCTTAACTC-ACTAACCTTTAAGCATCAGCTGGGAACATAGGTCCACAAGCTATTTT
* * *
61485577 GGAGTTGCGAGTTTAATGT-AGCTAACTCAAATAACT-GG
65 AGAGTTGCGAGCTTAAT-TCAGCTAACTCAAATAACTAAG
*
61485615 AGGTTGCAAGCTTAACTCA
1 -GGTTGCGAGCTTAACTCA
61485634 AGTAACTTAA
Statistics
Matches: 347, Mismatches: 79, Indels: 18
0.78 0.18 0.04
Matches are distributed among these distances:
103 5 0.01
104 299 0.86
105 43 0.12
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (103 bp):
GGTTGCGAGCTTAACTCACTAACCTTTAAGCATCAGCTGGGAACATAGGTCCACAAGCTATTTTA
GAGTTGCGAGCTTAATTCAGCTAACTCAAATAACTAAG
Found at i:61485525 original size:208 final size:207
Alignment explanation
Indices: 61485095--61485633 Score: 589
Period size: 208 Copynumber: 2.6 Consensus size: 207
61485085 GATGAACTTA
* * * ** *
61485095 GGTTGTGATCTTAACTCAACTAACCTTTAAACATCAGCTGGGAATGTAAGTCCACCGAGTTGTTT
1 GGTTGCGAGCTTAACTC-ACTAACCTTTAAGCATCAGCTGGGAACATAGGTCCA-CGAGTTGTTT
**
61485160 TAGAGTTGCGAGCTTAACTTAGCTAACTCAAATAACTAAGGGTTGTGAGCTTAACTCAGCTAACC
64 TAGAGTTGCGAGCTTAACTTAGCTAACTCAAATAACTGGGGGTTGTGAGCTTAACTCAGCTAACC
* ** ** * * * *
61485225 TTTAAGCATCAGTTAAAACTGTAGATTTGTGAGCTATTTTAGAGTTGTGAGCTTGATTCAGTTAA
129 TTTAAGCATCAGTGAAAACTGTAGATCCGCAAGCTATTTCAGAGTTGCGAGCTTAATTCAGCTAA
**
61485290 CTAAAATAAATTTG
194 CTAAAATAAATAAG
* * * * * *
61485304 GATTGCAAGCTTAACTCATCTAATCTTTAAGCATCAGCTGGGAACATAGGTCCACGGGCTATTTT
1 GGTTGCGAGCTTAACTCA-CTAACCTTTAAGCATCAGCTGGGAACATAGGTCCACGAGTTGTTTT
* * *
61485369 AGAGTTACGAGCTTAACTCAGCTAACTCAAATAACTGGGGGTTGTGAGCTTAACTTAGCTAACCT
65 AGAGTTGCGAGCTTAACTTAGCTAACTCAAATAACTGGGGGTTGTGAGCTTAACTCAGCTAACCT
** * * * *
61485434 TTAAGCATCAGCTGCGAAC-GTTGGTCCGCAAGCTGTTTCGGAGTTGCGAGCTTAACTT-AGCTA
130 TTAAGCATCAG-TGAAAACTGTAGATCCGCAAGCTATTTCAGAGTTGCGAGCTTAA-TTCAGCTA
* *
61485497 ACTCAAATAACTAAG
193 ACTAAAATAAATAAG
* ***
61485512 GGTTGCGAGCTTAACTCGACTAACCTTTAAGCATTAGCTGGGAACATAGGTCTTTGAGTTGTTTT
1 GGTTGCGAGCTTAACTC-ACTAACCTTTAAGCATCAGCTGGGAACATAGGTCCACGAGTTGTTTT
* * * **
61485577 GGAGTTGCGAGTTTAA-TGTAGCTAACTCAAATAACTGGAGGTTGCAAGCTTAACTCA
65 AGAGTTGCGAGCTTAACT-TAGCTAACTCAAATAACTGGGGGTTGTGAGCTTAACTCA
61485634 AGTAACTTAA
Statistics
Matches: 271, Mismatches: 54, Indels: 11
0.81 0.16 0.03
Matches are distributed among these distances:
207 1 0.00
208 220 0.81
209 50 0.18
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (207 bp):
GGTTGCGAGCTTAACTCACTAACCTTTAAGCATCAGCTGGGAACATAGGTCCACGAGTTGTTTTA
GAGTTGCGAGCTTAACTTAGCTAACTCAAATAACTGGGGGTTGTGAGCTTAACTCAGCTAACCTT
TAAGCATCAGTGAAAACTGTAGATCCGCAAGCTATTTCAGAGTTGCGAGCTTAATTCAGCTAACT
AAAATAAATAAG
Found at i:61501948 original size:24 final size:24
Alignment explanation
Indices: 61501916--61501967 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
61501906 GATCAATATC
* *
61501916 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
61501940 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATACT
61501964 AAAT
1 AAAT
61501968 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:61508947 original size:17 final size:18
Alignment explanation
Indices: 61508915--61508949 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
61508905 CCATGTGGCC
*
61508915 TGCCCGTGTGGGCCCACA
1 TGCCCATGTGGGCCCACA
61508933 TGCCCATGT-GGCCCACA
1 TGCCCATGTGGGCCCACA
61508950 CGACCCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.14, C:0.40, G:0.29, T:0.17
Consensus pattern (18 bp):
TGCCCATGTGGGCCCACA
Found at i:61522192 original size:29 final size:29
Alignment explanation
Indices: 61522147--61522209 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
61522137 AGCTTGGAAC
*
61522147 TGATTCGGGCCAGATGGGCCATATGAATG
1 TGATTCGGGCCAGATGGGCCATACGAATG
*
61522176 TGATTTGGGCCTA-ATGGGCCATACGAATG
1 TGATTCGGGCC-AGATGGGCCATACGAATG
61522205 TGATT
1 TGATT
61522210 GGACTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 30 0.97
30 1 0.03
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.29
Consensus pattern (29 bp):
TGATTCGGGCCAGATGGGCCATACGAATG
Found at i:61526020 original size:29 final size:29
Alignment explanation
Indices: 61525979--61526045 Score: 111
Period size: 29 Copynumber: 2.3 Consensus size: 29
61525969 ACATGGCTTG
61525979 GAAT-TGATTTGGGCC-AGATGGGCCATAT
1 GAATGTGATTTGGGCCTA-ATGGGCCATAT
61526007 GAATGTGATTTGGGCCTAATGGGCCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAT
61526036 GAATGTGATT
1 GAATGTGATT
61526046 GGACTTATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
28 4 0.11
29 32 0.86
30 1 0.03
ACGTcount: A:0.25, C:0.12, G:0.31, T:0.31
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGCCATAT
Found at i:61527373 original size:16 final size:17
Alignment explanation
Indices: 61527341--61527373 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
61527331 TTTAAAGAAG
61527341 GGTTTTCAATGAAAACAA
1 GGTTTTCAA-GAAAACAA
61527359 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
61527374 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.27
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAA
Found at i:61528042 original size:198 final size:199
Alignment explanation
Indices: 61527694--61528091 Score: 717
Period size: 198 Copynumber: 2.0 Consensus size: 199
61527684 GGTATCATCT
*
61527694 CAGGCTAAAGAAAATCTGAAGGCACTAGATGCTCACCGTTCACTTGCTGACAAATAAAAAACTTT
1 CAGGCTAAAGAAAATCTGAAGGCACTAGATGCTCACCATTCACTTGCTGACAAATAAAAAACTTT
*
61527759 GATACAAAATCAGAAATTTCTCATTTCATACTCGACCACCAATACGACTTCTTCAAATAATTGTA
66 GATACAAAATCAGAAATTTCTCATTTCATACCCGACCACCAATACGACTTCTTCAAATAATTGTA
*
61527824 CATTTTGGTACTCTCCGGGTGAACAGATAAACTACTACTATGTGCCTCGTGCAAAATTTTCTGAA
131 CATTTTGGTACTCTCCGGGTGAACAGATAAACTACTACTATATGCCTCGTGCAAAATTTTCTGAA
61527889 TCAA
196 TCAA
* * * *
61527893 CAGGCTAAA-AAAATCTGAAGGCACTTGATGCTCAGCATTCACTTGCTGAGAAATCAAAAACTTT
1 CAGGCTAAAGAAAATCTGAAGGCACTAGATGCTCACCATTCACTTGCTGACAAATAAAAAACTTT
*
61527957 GATACAAAATCAGAAATTTCTCATTTCATACCCGACCACCAATACGACTTCTTCAAATCATTGTA
66 GATACAAAATCAGAAATTTCTCATTTCATACCCGACCACCAATACGACTTCTTCAAATAATTGTA
61528022 CATTTTGGTACTCTCCGGGTGAACAGATAAACTACTACTATATGCCTCGTGCAAAATTTTCTGAA
131 CATTTTGGTACTCTCCGGGTGAACAGATAAACTACTACTATATGCCTCGTGCAAAATTTTCTGAA
61528087 TCAA
196 TCAA
61528091 C
1 C
61528092 TCTAGATTTT
Statistics
Matches: 191, Mismatches: 8, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
198 182 0.95
199 9 0.05
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.29
Consensus pattern (199 bp):
CAGGCTAAAGAAAATCTGAAGGCACTAGATGCTCACCATTCACTTGCTGACAAATAAAAAACTTT
GATACAAAATCAGAAATTTCTCATTTCATACCCGACCACCAATACGACTTCTTCAAATAATTGTA
CATTTTGGTACTCTCCGGGTGAACAGATAAACTACTACTATATGCCTCGTGCAAAATTTTCTGAA
TCAA
Found at i:61535724 original size:29 final size:30
Alignment explanation
Indices: 61535690--61535762 Score: 93
Period size: 29 Copynumber: 2.5 Consensus size: 30
61535680 TAATCAACCG
61535690 CGCACACTTAGTGCCATGTAC-TTT-AAAC
1 CGCACACTTAGTGCCATGTACATTTAAAAC
61535718 TCGCACACTTAGTG-C-TGTACAATTTAAAAC
1 -CGCACACTTAGTGCCATGTAC-ATTTAAAAC
61535748 CGCACA-TTAGTGCCA
1 CGCACACTTAGTGCCA
61535763 ATCTCATGAC
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
27 5 0.13
28 7 0.18
29 23 0.59
30 4 0.10
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (30 bp):
CGCACACTTAGTGCCATGTACATTTAAAAC
Found at i:61544231 original size:93 final size:93
Alignment explanation
Indices: 61544120--61544292 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
61544110 CGCCCATAAG
* * *
61544120 CGAACTCAGACTCAACTCAATGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCAGACTCAACTCAACGAGCTC-GGACGTTCGCATCCATAAGTGAAATCAGACTCAACTC
61544184 AACGAGTTCGGATGCCAAGTTACATTTCA
65 AACGAGTTCGGATGCCAAGTTACATTTCA
* *
61544213 CGAACTCAGACTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGTGAAATCAGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAAATCAGACTCAACTCA
*
61544278 ATGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
61544293 CAAATATCCG
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAAATCAGACTCAACTCA
ACGAGTTCGGATGCCAAGTTACATTTCA
Found at i:61544285 original size:46 final size:46
Alignment explanation
Indices: 61544113--61544290 Score: 177
Period size: 46 Copynumber: 3.8 Consensus size: 46
61544103 TGTAACTCGC
* * *
61544113 CCATAAGCGAACTCAGACTCAACTCAATGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTC-GGATGTTCGCAT
* *
61544159 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG--C-CAAGTT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGATGTTCGC-A--T
* *
61544205 ACATTTCA-CGAACTCAGACTCAACTCAACGAGTTCGGATGTTCGCAT
1 CCA--TAAGCGAACTCAGACTCAACTCAACGAGTTCGGATGTTCGCAT
* * *
61544252 CCATAAGTGAAATCAGACTCAACTCAATGAGTTCGGATG
1 CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGATG
61544291 CCCAAATATC
Statistics
Matches: 108, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 4 0.04
46 63 0.58
47 33 0.31
48 2 0.02
49 2 0.02
50 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCAGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:61556365 original size:85 final size:85
Alignment explanation
Indices: 61556222--61556400 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
61556212 GGCCGGCCAT
61556222 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACAAGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACAAGTTGGGGTAGTGCATTAT
61556287 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
61556307 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACAAGTTGGGGTAGTGCATTAT
61556372 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
61556392 GAGCATGGG
1 GAGCATGGG
61556401 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACAAGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:61557230 original size:40 final size:41
Alignment explanation
Indices: 61557124--61557216 Score: 145
Period size: 40 Copynumber: 2.3 Consensus size: 41
61557114 NNNNNNNNNN
* *
61557124 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTT
1 CCGAAGGCATTTGTGCGAGTTACTATAATCCGGGCTAAGTC
*
61557164 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTATAATCCGGGCTAAGTC
61557204 CCGAAGGCATTTG
1 CCGAAGGCATTTG
61557217 AACGAGTAGC
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
40 47 0.96
41 2 0.04
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (41 bp):
CCGAAGGCATTTGTGCGAGTTACTATAATCCGGGCTAAGTC
Found at i:61563317 original size:85 final size:85
Alignment explanation
Indices: 61563174--61563777 Score: 1190
Period size: 85 Copynumber: 7.1 Consensus size: 85
61563164 GGCCGGCCAT
*
61563174 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAATATGTCATAAACATGTTGGGGTAGTGCATTAT
61563239 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
61563259 GAGCATGGGTGGACAAGATGTTATGGCTAAAAATATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAATATGTCATAAACATGTTGGGGTAGTGCATTAT
61563324 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
61563344 GAGCATGGGCGGACAAGATGTTATGGCTAAAAATATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAATATGTCATAAACATGTTGGGGTAGTGCATTAT
61563409 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
61563429 GAGCATGGGTGGACAAGATGTTATGGCTAAAAATATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAATATGTCATAAACATGTTGGGGTAGTGCATTAT
61563494 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
61563514 GAGCATGGGTGGACAAGATGTTATGGCTAAAAATATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAATATGTCATAAACATGTTGGGGTAGTGCATTAT
61563579 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
61563599 GAGCATGGGTGGACAAGATGTTATGGCTAAAAATATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAATATGTCATAAACATGTTGGGGTAGTGCATTAT
61563664 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
61563684 GAGCATGGGTGGACAAGATGTTATGGCTAAAAATATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAATATGTCATAAACATGTTGGGGTAGTGCATTAT
61563749 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
61563769 GAGCATGGG
1 GAGCATGGG
61563778 CAATAAAATA
Statistics
Matches: 516, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 516 1.00
ACGTcount: A:0.39, C:0.07, G:0.26, T:0.28
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAATATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:61565080 original size:79 final size:81
Alignment explanation
Indices: 61564944--61565126 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
61564934 TCGAATGATG
* *
61564944 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
61565008 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
61565023 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
61565085 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
61565103 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
61565127 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:61565142 original size:40 final size:40
Alignment explanation
Indices: 61564945--61565128 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
61564935 CGAATGATGT
* * * *
61564945 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
61564985 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
61565025 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
61565063 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
61565104 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
61565129 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:61565150 original size:79 final size:79
Alignment explanation
Indices: 61564997--61565161 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
61564987 GGACTAAGAT
* **
61564997 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
61565062 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
61565076 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
61565139 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
61565155 CCGAAGG
1 CCGAAGG
61565162 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:61567845 original size:47 final size:47
Alignment explanation
Indices: 61567791--61567984 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
61567781 TTAGGATTTT
** * *
61567791 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
61567838 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
61567885 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
61567932 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
61567979 ATGTGA
1 ATGTGA
61567985 AATATGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:61567866 original size:25 final size:25
Alignment explanation
Indices: 61567838--61567916 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
61567828 CGAATGGCCA
61567838 ATGTGATGAATGTGAGCATGCATAT
1 ATGTGATGAATGTGAGCATGCATAT
* * *
61567863 ATGTGAT-AA-G-GCCGAATGGC-CA-
1 ATGTGATGAATGTG-AGCAT-GCATAT
61567885 ATGTGATGAATGTGAGCATGCATAT
1 ATGTGATGAATGTGAGCATGCATAT
*
61567910 GTGTGAT
1 ATGTGAT
61567917 AAGGCCGAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
22 8 0.20
23 9 0.22
24 9 0.22
25 14 0.35
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.29
Consensus pattern (25 bp):
ATGTGATGAATGTGAGCATGCATAT
Found at i:61567891 original size:22 final size:22
Alignment explanation
Indices: 61567820--61567891 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
61567810 GTATATATGA
61567820 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
61567842 GATGAATGTG-AGCAT-GCATATATGT
1 GAT-AA-G-GCCGAATGGC-CA-ATGT
61567867 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
61567889 GAT
1 GAT
61567892 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.32, C:0.14, G:0.31, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:61567940 original size:25 final size:25
Alignment explanation
Indices: 61567865--61567940 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
61567855 ATGCATATAT
61567865 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
61567890 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
61567912 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
61567937 GTGA
1 GTGA
61567941 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:61568018 original size:48 final size:48
Alignment explanation
Indices: 61567955--61568090 Score: 211
Period size: 50 Copynumber: 2.8 Consensus size: 48
61567945 GAACATGCAT
61567955 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
* *
61568003 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGT
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATGC
*
61568053 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
61568091 GGCGATGTGC
Statistics
Matches: 80, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
47 1 0.01
48 33 0.41
49 4 0.05
50 41 0.51
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.30
Consensus pattern (48 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:61568105 original size:50 final size:50
Alignment explanation
Indices: 61567949--61568111 Score: 201
Period size: 50 Copynumber: 3.3 Consensus size: 50
61567939 GAATATGAAC
*
61567949 ATGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
*
61567999 ATGC--ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGAT
1 ATGCGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGAT
* * *
61568049 AT--GTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGCGAT
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
*
61568097 GTGCGTATATTGTGG
1 ATGCGTATA-TGTGG
61568112 CCGAACGACC
Statistics
Matches: 98, Mismatches: 6, Indels: 17
0.81 0.05 0.14
Matches are distributed among these distances:
47 1 0.01
48 38 0.39
49 4 0.04
50 49 0.50
51 6 0.06
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (50 bp):
ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
Found at i:61568344 original size:37 final size:37
Alignment explanation
Indices: 61568236--61568344 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
61568226 GGAAATATAT
*
61568236 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
61568273 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
61568310 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
61568345 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:61572507 original size:68 final size:68
Alignment explanation
Indices: 61572424--61572557 Score: 250
Period size: 68 Copynumber: 2.0 Consensus size: 68
61572414 CCCAAATCGC
* *
61572424 ATCCTTCTTACTTGCTGACAATGGCAGTCCGGACACAAAGTCTATTGTGACTCGATCCCATTTCC
1 ATCCTTCTTACTTGCTAACAATGGCAGTCCGGACACAAAGTCCATTGTGACTCGATCCCATTTCC
61572489 AAT
66 AAT
61572492 ATCCTTCTTACTTGCTAACAATGGCAGTCCGGACACAAAGTCCATTGTGACTCGATCCCATTTCC
1 ATCCTTCTTACTTGCTAACAATGGCAGTCCGGACACAAAGTCCATTGTGACTCGATCCCATTTCC
61572557 A
66 A
61572558 CTCGGGTATC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (68 bp):
ATCCTTCTTACTTGCTAACAATGGCAGTCCGGACACAAAGTCCATTGTGACTCGATCCCATTTCC
AAT
Found at i:61572920 original size:99 final size:99
Alignment explanation
Indices: 61572808--61573001 Score: 316
Period size: 99 Copynumber: 2.0 Consensus size: 99
61572798 ACTTCTAAAC
* * *
61572808 CTCAAACAATCATCATCATCCATTCGAAACTCCGATTCCTTGTTCGGAACACACTCAGCCCGTTT
1 CTCAAACAATCATCATCATCAATTCGAAACTCCGATTCCATATTCGGAACACACTCAGCCCGTTT
61572873 TGCAACCAATTCATCATCGACTTTCTGAGCGAAT
66 TGCAACCAATTCATCATCGACTTTCTGAGCGAAT
* * * *
61572907 CTCAAACAATCATCATCATCAATTTGAAATTCGGATTCCATATTCGGAACACATTCAGCCCGTTT
1 CTCAAACAATCATCATCATCAATTCGAAACTCCGATTCCATATTCGGAACACACTCAGCCCGTTT
*
61572972 TGCAACCAATTCATCGTCGACTTTCTGAGC
66 TGCAACCAATTCATCATCGACTTTCTGAGC
61573002 TTCACGAATT
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
99 87 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (99 bp):
CTCAAACAATCATCATCATCAATTCGAAACTCCGATTCCATATTCGGAACACACTCAGCCCGTTT
TGCAACCAATTCATCATCGACTTTCTGAGCGAAT
Found at i:61576971 original size:270 final size:270
Alignment explanation
Indices: 61576490--61577029 Score: 1071
Period size: 270 Copynumber: 2.0 Consensus size: 270
61576480 TTAAAAATCA
61576490 TATCTTGAGTTCTGAAACTCGAAATCCAGTTCCGTAAATTTTCCCTGGAACTAGACTCATATACC
1 TATCTTGAGTTCTGAAACTCGAAATCCAGTTCCGTAAATTTTCCCTGGAACTAGACTCATATACC
61576555 TATATGGTAGAATTTTTTTAGAATTTTTGGTCACGCCAATTAGTACAGTTTATTAGTCAAAGGCT
66 TATATGGTAGAATTTTTTTAGAATTTTTGGTCACGCCAATTAGTACAGTTTATTAGTCAAAGGCT
61576620 CCCATGTTACAGGGATCAACTACACTGACCCTTGCGCATTACGAATTGGATATCTCCCTGCACAG
131 CCCATGTTACAGGGATCAACTACACTGACCCTTGCGCATTACGAATTGGATATCTCCCTGCACAG
61576685 AGCTTCAATACTGATGTCGTTCCTTTCTATAGAAACTAGACTCAGAGAGGAATCTGTACATATAT
196 AGCTTCAATACTGATGTCGTTCCTTTCTATAGAAACTAGACTCAGAGAGGAATCTGTACATATAT
61576750 GAAATGACTC
261 GAAATGACTC
61576760 TATCTTGAGTTCTGAAACTCGAAATCCAGTTCCGTAAATTTTCCCTGGAACTAGACTCATATACC
1 TATCTTGAGTTCTGAAACTCGAAATCCAGTTCCGTAAATTTTCCCTGGAACTAGACTCATATACC
61576825 TATATGGTAGAATTTTTTTAGAATTTTTGGTCACGCCAATTAGTACAGTTTATTAGTCAAAGGCT
66 TATATGGTAGAATTTTTTTAGAATTTTTGGTCACGCCAATTAGTACAGTTTATTAGTCAAAGGCT
61576890 CCCATGTTACAGGGATCAACTACACTGACCCTTGCGCATTACGAATTGGATATCTCCCTGCACAG
131 CCCATGTTACAGGGATCAACTACACTGACCCTTGCGCATTACGAATTGGATATCTCCCTGCACAG
61576955 AGCTTCAATACTGATGTCGTTCCTTTCTATAGAAACTAGACTCAGAGAGGAATCTGTACATATAT
196 AGCTTCAATACTGATGTCGTTCCTTTCTATAGAAACTAGACTCAGAGAGGAATCTGTACATATAT
*
61577020 GTAATGACTC
261 GAAATGACTC
61577030 CTAATTATCT
Statistics
Matches: 269, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
270 269 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (270 bp):
TATCTTGAGTTCTGAAACTCGAAATCCAGTTCCGTAAATTTTCCCTGGAACTAGACTCATATACC
TATATGGTAGAATTTTTTTAGAATTTTTGGTCACGCCAATTAGTACAGTTTATTAGTCAAAGGCT
CCCATGTTACAGGGATCAACTACACTGACCCTTGCGCATTACGAATTGGATATCTCCCTGCACAG
AGCTTCAATACTGATGTCGTTCCTTTCTATAGAAACTAGACTCAGAGAGGAATCTGTACATATAT
GAAATGACTC
Found at i:61586484 original size:21 final size:20
Alignment explanation
Indices: 61586445--61586485 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
61586435 GTCACTTGAA
*
61586445 AAGGGCACACGTCCATGTGG
1 AAGGGCACACGCCCATGTGG
*
61586465 AAGGGCAACACGCCCGTGTGG
1 AAGGGC-ACACGCCCATGTGG
61586486 CCCTGTTGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.24, C:0.27, G:0.37, T:0.12
Consensus pattern (20 bp):
AAGGGCACACGCCCATGTGG
Found at i:61587832 original size:49 final size:49
Alignment explanation
Indices: 61587727--61587901 Score: 160
Period size: 49 Copynumber: 3.6 Consensus size: 49
61587717 AGATGCTGAC
* * * * *
61587727 GCCATGTCCCAGACATGGTCTTACACTGGCTAGCACAT-TAAAGTC-AAT
1 GCCATGTCCCAGACA-GGTCTTACACTGACTATCATATATCAAGGCTAAT
* * *
61587775 GCCGTGTCCCAGACAGGTCTTACATTGACTTTCATATATCAAGGCTAAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTATCATATATCAAGGCTAAT
* * * **
61587824 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATC-AGTG-TCGGT
1 GCCATGTCCCAGACAGGTCTTACACTGACTATCATATATCAAG-GCT-AAT
* *
61587873 ACCATGTCCCAGACAGGTCTTACATTGAC
1 GCCATGTCCCAGACAGGTCTTACACTGAC
61587902 ACACAACAAG
Statistics
Matches: 105, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
47 17 0.16
48 22 0.21
49 66 0.63
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGACTATCATATATCAAGGCTAAT
Found at i:61590805 original size:256 final size:256
Alignment explanation
Indices: 61590350--61590862 Score: 999
Period size: 256 Copynumber: 2.0 Consensus size: 256
61590340 TGGAAATTCC
61590350 TATAGGCACCAAAAAAGAAAGATGAAGTAGAGATCCTGGAGAGTATATTCCTCAATTTAGAATCA
1 TATAGGCACCAAAAAAGAAAGATGAAGTAGAGATCCTGGAGAGTATATTCCTCAATTTAGAATCA
*
61590415 AGAAATTGATATATGGAAGTGAAGAAAAATAGAAGAAAAGAGAAGGATAGTGATGAAGTTGATAA
66 AGAAATTGATATATGGAAGTGAAGAAAAATAGAAGAAAAGAGAAGGATAGTGATGAAGTTGAGAA
61590480 AGAAATAGAAGAGAAGCAACTGAGGTGAAATTCTTGTAAAAAGAGGTAAGTGTTCATTTCAATCT
131 AGAAATAGAAGAGAAGCAACTGAGGTGAAATTCTTGTAAAAAGAGGTAAGTGTTCATTTCAATCT
*
61590545 CATTAATATTCAAAGTATTAAGTTAAGGTATGTAATAACTTGAGTGTGTAATTTTTGAATT
196 CATTAATATTCAAAGTATTAAGTTAAGGTATGTAATAACTTGAGTGTGTAATTTCTGAATT
61590606 TATAGGCACCAAAAAAGAAAGATGAAGTAGAGATCCTGGAGAGTATATTCCTCAATTTAGAATCA
1 TATAGGCACCAAAAAAGAAAGATGAAGTAGAGATCCTGGAGAGTATATTCCTCAATTTAGAATCA
61590671 AGAAATTGATATATGGAAGTGAAGAAAAATAGAAGAAAAGAGAAGGATAGTGATGAAGTTGAGAA
66 AGAAATTGATATATGGAAGTGAAGAAAAATAGAAGAAAAGAGAAGGATAGTGATGAAGTTGAGAA
*
61590736 AGAAATAGAAGAGAAGCAACTGAGGTGAAATTCTTGTAAAAAGAGGTAAGTGTTCATTTTAATCT
131 AGAAATAGAAGAGAAGCAACTGAGGTGAAATTCTTGTAAAAAGAGGTAAGTGTTCATTTCAATCT
61590801 CATTAATATTCAAAGTATTAAGTTAAGGTATGTAATAACTTGAGTGTGTAATTTCTGAATT
196 CATTAATATTCAAAGTATTAAGTTAAGGTATGTAATAACTTGAGTGTGTAATTTCTGAATT
61590862 T
1 T
61590863 TATTTAAGTA
Statistics
Matches: 254, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
256 254 1.00
ACGTcount: A:0.43, C:0.07, G:0.22, T:0.28
Consensus pattern (256 bp):
TATAGGCACCAAAAAAGAAAGATGAAGTAGAGATCCTGGAGAGTATATTCCTCAATTTAGAATCA
AGAAATTGATATATGGAAGTGAAGAAAAATAGAAGAAAAGAGAAGGATAGTGATGAAGTTGAGAA
AGAAATAGAAGAGAAGCAACTGAGGTGAAATTCTTGTAAAAAGAGGTAAGTGTTCATTTCAATCT
CATTAATATTCAAAGTATTAAGTTAAGGTATGTAATAACTTGAGTGTGTAATTTCTGAATT
Found at i:61600293 original size:10 final size:11
Alignment explanation
Indices: 61600269--61600306 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
61600259 GATACTTAAA
*
61600269 ATAAAAATGAA
1 ATAAAAATGAT
61600280 ATAAAAA-GAT
1 ATAAAAATGAT
61600290 ATAAAAATGAT
1 ATAAAAATGAT
61600301 ATAAAA
1 ATAAAA
61600307 CAAGCTCGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (11 bp):
ATAAAAATGAT
Found at i:61601838 original size:42 final size:42
Alignment explanation
Indices: 61601775--61601860 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
61601765 TTTATTTTGC
* *
61601775 ACATTGTCCCTAATTTGCACCTTATAGATAAGAGAGGAGACT
1 ACATTGTCCCTAATCTACACCTTATAGATAAGAGAGGAGACT
61601817 ACATTGTCCCTAATCTACACCTTATAGATAAGAGAGGAGACT
1 ACATTGTCCCTAATCTACACCTTATAGATAAGAGAGGAGACT
61601859 AC
1 AC
61601861 CCGATTTTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (42 bp):
ACATTGTCCCTAATCTACACCTTATAGATAAGAGAGGAGACT
Found at i:61628981 original size:15 final size:16
Alignment explanation
Indices: 61628947--61628984 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
61628937 TATTGTATGT
*
61628947 AAAATTAAAATATTTA
1 AAAATTAAAATAATTA
*
61628963 AAAATTAAAA-AATTC
1 AAAATTAAAATAATTA
61628978 AAAATTA
1 AAAATTA
61628985 TTTGAATCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
AAAATTAAAATAATTA
Found at i:61628981 original size:16 final size:16
Alignment explanation
Indices: 61628947--61628981 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
61628937 TATTGTATGT
* *
61628947 AAAATTAAAATATTTA
1 AAAATTAAAAAATTCA
61628963 AAAATTAAAAAATTCA
1 AAAATTAAAAAATTCA
61628979 AAA
1 AAA
61628982 TTATTTGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATTAAAAAATTCA
Found at i:61629477 original size:16 final size:16
Alignment explanation
Indices: 61629456--61629504 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
61629446 TGACAAACTG
61629456 AAAAATTAAGTGTTGA
1 AAAAATTAAGTGTTGA
61629472 AAAAATTAAGTGTTG-
1 AAAAATTAAGTGTTGA
*
61629487 -AAAATTAAGTATTGA
1 AAAAATTAAGTGTTGA
61629502 AAA
1 AAA
61629505 TTTAAGTACT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 13 0.43
16 17 0.57
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (16 bp):
AAAAATTAAGTGTTGA
Found at i:61629490 original size:14 final size:14
Alignment explanation
Indices: 61629457--61629511 Score: 74
Period size: 14 Copynumber: 3.7 Consensus size: 14
61629447 GACAAACTGA
61629457 AAAATTAAGTGTTG
1 AAAATTAAGTGTTG
61629471 AAAAAATTAAGTGTTG
1 --AAAATTAAGTGTTG
*
61629487 AAAATTAAGTATTG
1 AAAATTAAGTGTTG
61629501 AAAATTTAAGT
1 AAAA-TTAAGT
61629512 ACTAAATTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
14 17 0.46
15 6 0.16
16 14 0.38
ACGTcount: A:0.49, C:0.00, G:0.16, T:0.35
Consensus pattern (14 bp):
AAAATTAAGTGTTG
Found at i:61629724 original size:5 final size:5
Alignment explanation
Indices: 61629698--61629742 Score: 56
Period size: 5 Copynumber: 9.0 Consensus size: 5
61629688 TTTTTATAGG
* *
61629698 ATAAC ATAAT ATAAGA AT-AA ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAA-A ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
61629743 TTGAAAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
4 3 0.08
5 31 0.86
6 2 0.06
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (5 bp):
ATAAA
Found at i:61629881 original size:17 final size:19
Alignment explanation
Indices: 61629845--61629887 Score: 65
Period size: 17 Copynumber: 2.4 Consensus size: 19
61629835 ATTTTTGAAT
61629845 TATTAAA-CATGTGTAAAA
1 TATTAAACCATGTGTAAAA
61629863 TATTAAACCAT-TG-AAAA
1 TATTAAACCATGTGTAAAA
61629880 TATTAAAC
1 TATTAAAC
61629888 TTAGGTTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.50
18 9 0.38
19 3 0.12
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (19 bp):
TATTAAACCATGTGTAAAA
Found at i:61633141 original size:24 final size:24
Alignment explanation
Indices: 61633114--61633173 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
61633104 CACTTTTTTC
61633114 TTTTCTGTCTCTTTTTCT-TTCATA
1 TTTTCT-TCTCTTTTTCTCTTCATA
*
61633138 TTTTCTTTTCTTTTTCTCTTCAT-
1 TTTTCTTCTCTTTTTCTCTTCATA
*
61633161 TTCTTCTCCTCTT
1 TT-TTCTTCTCTT
61633174 ACTAATAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 12 0.39
24 19 0.61
ACGTcount: A:0.05, C:0.25, G:0.02, T:0.68
Consensus pattern (24 bp):
TTTTCTTCTCTTTTTCTCTTCATA
Found at i:61635333 original size:7 final size:7
Alignment explanation
Indices: 61635323--61635347 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
61635313 ATACTTTTAA
61635323 TTTTAGT
1 TTTTAGT
61635330 TTTTAGT
1 TTTTAGT
61635337 TTTTAGT
1 TTTTAGT
61635344 TTTT
1 TTTT
61635348 TTTTCATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (7 bp):
TTTTAGT
Found at i:61635480 original size:13 final size:13
Alignment explanation
Indices: 61635462--61635487 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61635452 CACGCTTCAA
61635462 TTTAATTATTAAT
1 TTTAATTATTAAT
61635475 TTTAATTATTAAT
1 TTTAATTATTAAT
61635488 GAACGTTCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTAATTATTAAT
Found at i:61637706 original size:15 final size:15
Alignment explanation
Indices: 61637688--61637720 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
61637678 AAAATTTTTT
61637688 TAAGGATTTGAATGG
1 TAAGGATTTGAATGG
61637703 TAAGGATTTGAATGG
1 TAAGGATTTGAATGG
61637718 TAA
1 TAA
61637721 TTATACCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.33
Consensus pattern (15 bp):
TAAGGATTTGAATGG
Found at i:61640242 original size:40 final size:40
Alignment explanation
Indices: 61640187--61640266 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
61640177 GAAATTGATG
61640187 AATGAATTGATTGATATAAATGGATGCTAAATGGCTATGT
1 AATGAATTGATTGATATAAATGGATGCTAAATGGCTATGT
61640227 AATGAATTGATTGATATAAATGGATGCTAAATGGCTATGT
1 AATGAATTGATTGATATAAATGGATGCTAAATGGCTATGT
61640267 TACAAGTTAT
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:0.38, C:0.05, G:0.23, T:0.35
Consensus pattern (40 bp):
AATGAATTGATTGATATAAATGGATGCTAAATGGCTATGT
Found at i:61641986 original size:100 final size:100
Alignment explanation
Indices: 61641866--61642049 Score: 298
Period size: 100 Copynumber: 1.8 Consensus size: 100
61641856 GAAGCTATCT
* * *
61641866 GGTATGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAATAA-TCTGGTACACGTAGTACC
1 GGTACGCATAGTAGCATGCACTTAGTACTACACATGCGACCAATAATTC-AGTACACGTAGTACC
61641930 CTGCACTTAGTACTACACACGTGATCACAGTTTTCG
65 CTGCACTTAGTACTACACACGTGATCACAGTTTTCG
* * *
61641966 GGTACGCATAGTAGCATGCACTTAGTACTACACATGTGACCAATTATTCAGTACACGTAGTAGCC
1 GGTACGCATAGTAGCATGCACTTAGTACTACACATGCGACCAATAATTCAGTACACGTAGTACCC
61642031 TGCACTTAGTACTACACAC
66 TGCACTTAGTACTACACAC
61642050 ATGACCTCAC
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
100 75 0.97
101 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (100 bp):
GGTACGCATAGTAGCATGCACTTAGTACTACACATGCGACCAATAATTCAGTACACGTAGTACCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:61642055 original size:49 final size:50
Alignment explanation
Indices: 61641874--61642055 Score: 208
Period size: 49 Copynumber: 3.7 Consensus size: 50
61641864 CTGGTATGCA
* * * * *
61641874 TAGTAGCTTGCACTTAGTACTACACATGCGACCAA-TAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATTCGGGTACACG
* * * *
61641923 TAGTACCCTGCACTTAGTACTACACACGTGATCACAGTT-TTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATTCGGGTACACG
* * *
61641974 TAGTAGCATGCACTTAGTACTACACATGTGACCAATTATTC-AGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATTCGGGTACACG
*
61642023 TAGTAGCCTGCACTTAGTACTACACACATGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
61642056 TCACAATAGT
Statistics
Matches: 110, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
49 66 0.60
50 5 0.05
51 38 0.35
52 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATTCGGGTACACG
Found at i:61652012 original size:47 final size:49
Alignment explanation
Indices: 61651895--61652073 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 49
61651885 TGTAACCCGC
* * *
61651895 CCATAAGCAAACTCGGACTCAACTCAACGAGCTCGG--G-C-GTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTT-ACAT
* * * *
61651941 CCATGAGTGAACTCAGATTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACAT
* *
61651991 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
*
61652034 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
61652074 TCAACCATCC
Statistics
Matches: 108, Mismatches: 14, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
43 7 0.06
44 2 0.02
45 2 0.02
46 59 0.55
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
Found at i:61652063 original size:93 final size:93
Alignment explanation
Indices: 61651904--61652073 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 93
61651894 CCCATAAGCA
* * * * *
61651904 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCAGATTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAAC
61651969 GAGTTCGGATGCCTAGTTACATCTCACG
66 GAGTTCGGATGCCTAGTTACATCTCACG
* * *
61651997 AACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAAC
61652062 GAGTTCGGATGC
66 GAGTTCGGATGC
61652074 TCAACCATCC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACG
Found at i:61655079 original size:40 final size:40
Alignment explanation
Indices: 61655001--61655224 Score: 292
Period size: 40 Copynumber: 5.5 Consensus size: 40
61654991 ACCCAAGTAT
* *
61655001 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
61655040 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
61655080 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
61655120 CTTCGGGACTTAGCTCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
61655163 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
61655203 CTTCGGGACTTAGCCTGGATAT
1 CTTCGGGACTTAGCCCGGATAT
61655225 CTCGGTTCCA
Statistics
Matches: 163, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 12 0.07
40 115 0.71
41 1 0.01
43 35 0.21
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:61655185 original size:83 final size:80
Alignment explanation
Indices: 61655001--61655224 Score: 292
Period size: 83 Copynumber: 2.8 Consensus size: 80
61654991 ACCCAAGTAT
* * *
61655001 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
**
61655064 TCACTAGCATGAATGC
65 TCACTAGCACAAATGC
* *
61655080 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCTCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
61655144 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* * *
61655163 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCTGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
61655225 CTCGGTTCCA
Statistics
Matches: 127, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
79 13 0.10
80 48 0.38
81 1 0.01
83 65 0.51
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:61657318 original size:5 final size:5
Alignment explanation
Indices: 61657308--61657337 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
61657298 CAATTTGTGA
61657308 AAAAT AAAAT AAAAT AAAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT -AAAAT AAAAT AAAA
61657338 AACATACAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:61657327 original size:11 final size:11
Alignment explanation
Indices: 61657308--61657338 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
61657298 CAATTTGTGA
61657308 AAAAT-AAAAT
1 AAAATAAAAAT
61657318 AAAATAAAAAT
1 AAAATAAAAAT
61657329 AAAATAAAAA
1 AAAATAAAAA
61657339 ACATACAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAATAAAAAT
Done.