Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 267 of 345
Found at i:79337924 original size:14 final size:15
Alignment explanation
Indices: 79337907--79337935 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
79337897 TCACGAAAAT
79337907 TTCACACAT-ATAAA
1 TTCACACATAATAAA
79337921 TTCACACATAATAAA
1 TTCACACATAATAAA
79337936 CAGTGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:79340559 original size:29 final size:30
Alignment explanation
Indices: 79340526--79340585 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
79340516 TCCTTAACTC
*
79340526 AAACTTTTG-AAAATTTCAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* *
79340555 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
79340585 A
1 A
79340586 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:79346546 original size:14 final size:15
Alignment explanation
Indices: 79346529--79346557 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
79346519 TCACGAAAAT
79346529 TTCACACAT-ATAAA
1 TTCACACATAATAAA
79346543 TTCACACATAATAAA
1 TTCACACATAATAAA
79346558 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:79356078 original size:57 final size:57
Alignment explanation
Indices: 79355999--79356240 Score: 353
Period size: 57 Copynumber: 4.2 Consensus size: 57
79355989 TGATTCATTT
* * * *
79355999 CACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTTGGTTACGAAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
*
79356058 CATACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* * *
79356115 CACACACAGTGCCTCAACAACCGATCTCACACACACAGTGCTTGGTTATGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* * *
79356172 CACACACAGTGCCTCAACAACTGATCTCGCACACAGAGTGCTCGGTTATGGAACT--
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
79356227 CACACACAGTGCCT
1 CACACACAGTGCCT
79356241 ATGTTCACTT
Statistics
Matches: 170, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
55 14 0.08
57 150 0.88
59 6 0.04
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.19
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
Found at i:79356093 original size:29 final size:29
Alignment explanation
Indices: 79356054--79356212 Score: 142
Period size: 29 Copynumber: 5.6 Consensus size: 29
79356044 GGTTACGAAA
*
79356054 CTCGCATACACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
**** * *
79356083 CTCGCACACACAGTG-CTCGGTTACGGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
79356111 CTCGCACACACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
* ***** ** *
79356140 CTCACACACACAGTG-CTTGGTTATGGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
*
79356168 CTCGCACACACAGTGCCTCAACAACTGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
*
79356197 CTCGCACACAGAGTGC
1 CTCGCACACACAGTGC
79356213 TCGGTTATGG
Statistics
Matches: 96, Mismatches: 32, Indels: 4
0.73 0.24 0.03
Matches are distributed among these distances:
28 41 0.43
29 55 0.57
ACGTcount: A:0.29, C:0.35, G:0.18, T:0.18
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCAACAACCGAT
Found at i:79356119 original size:28 final size:28
Alignment explanation
Indices: 79356029--79356238 Score: 145
Period size: 28 Copynumber: 7.5 Consensus size: 28
79356019 AACCGATCTT
* *
79356029 GCACACACAGTGCTTGGTTACGAAACTC
1 GCACACACAGTGCTCGGTTACGGAACTC
* **** * *
79356057 GCATACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGGTTACGGAACTC
79356086 GCACACACAGTGCTCGGTTACGGAACTC
1 GCACACACAGTGCTCGGTTACGGAACTC
**** * *
79356114 GCACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGGTTACGGAACTC
* * *
79356143 ACACACACAGTGCTTGGTTATGGAACTC
1 GCACACACAGTGCTCGGTTACGGAACTC
**** * *
79356171 GCACACACAGTGCCTCAACAACTGATCTC
1 GCACACACAGTG-CTCGGTTACGGAACTC
* *
79356200 GCACACAGAGTGCTCGGTTATGGAACT-
1 GCACACACAGTGCTCGGTTACGGAACTC
79356227 -CACACACAGTGC
1 GCACACACAGTGC
79356239 CTATGTTCAC
Statistics
Matches: 130, Mismatches: 49, Indels: 8
0.70 0.26 0.04
Matches are distributed among these distances:
26 11 0.08
28 60 0.46
29 59 0.45
ACGTcount: A:0.29, C:0.33, G:0.20, T:0.19
Consensus pattern (28 bp):
GCACACACAGTGCTCGGTTACGGAACTC
Found at i:79358113 original size:26 final size:26
Alignment explanation
Indices: 79358084--79358143 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
79358074 TCCCTTTGAA
* * *
79358084 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
79358110 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
79358138 CCATTC
1 TCATTC
79358144 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:79358129 original size:28 final size:28
Alignment explanation
Indices: 79358098--79358169 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
79358088 TCGATATTTT
*
79358098 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
79358126 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
79358154 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
79358170 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:79362617 original size:68 final size:67
Alignment explanation
Indices: 79362545--79362694 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
79362535 CATCATGTGT
* * * *
79362545 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
79362607 ATGTAG
62 ATGTAG
** * *
79362613 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
79362678 AG
66 AG
79362680 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
79362695 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:79362650 original size:64 final size:64
Alignment explanation
Indices: 79362569--79362752 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
79362559 AGACATTATG
* *
79362569 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
79362633 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
79362698 AA
63 AA
* * * *
79362700 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
79362753 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:79367065 original size:68 final size:67
Alignment explanation
Indices: 79366993--79367142 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
79366983 CATCATGTGT
* * * *
79366993 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
79367055 ATGTAG
62 ATGTAG
** * *
79367061 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
79367126 AG
66 AG
79367128 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
79367143 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:79367098 original size:64 final size:64
Alignment explanation
Indices: 79367017--79367200 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
79367007 AGACATTATG
* *
79367017 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
79367081 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
79367146 AA
63 AA
* * * *
79367148 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
79367201 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:79371513 original size:68 final size:67
Alignment explanation
Indices: 79371441--79371590 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
79371431 CATCATGTGT
* * * *
79371441 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
79371503 ATGTAG
62 ATGTAG
** * *
79371509 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
79371574 AG
66 AG
79371576 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
79371591 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:79371546 original size:64 final size:64
Alignment explanation
Indices: 79371465--79371648 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
79371455 AGACATTATG
* *
79371465 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
79371529 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
79371594 AA
63 AA
* * * *
79371596 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
79371649 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:79382147 original size:14 final size:14
Alignment explanation
Indices: 79382128--79382158 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
79382118 TATCTAAACT
79382128 ATTGGATTAGCGGC
1 ATTGGATTAGCGGC
*
79382142 ATTGGATTAGTGGC
1 ATTGGATTAGCGGC
79382156 ATT
1 ATT
79382159 ATAATTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.10, G:0.32, T:0.35
Consensus pattern (14 bp):
ATTGGATTAGCGGC
Found at i:79407573 original size:14 final size:15
Alignment explanation
Indices: 79407554--79407582 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
79407544 AAATGACAAT
79407554 TTCACACA-AATAAA
1 TTCACACATAATAAA
79407568 TTCACACATAATAAA
1 TTCACACATAATAAA
79407583 CACAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:79408431 original size:15 final size:16
Alignment explanation
Indices: 79408411--79408448 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
79408401 ACTAACCATT
*
79408411 AATTCAAT-TAATTAA
1 AATTCAATCAAATTAA
79408426 AATTC-ATCAAATTAA
1 AATTCAATCAAATTAA
79408441 AATTCAAT
1 AATTCAAT
79408449 ATAAAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 16 0.80
16 2 0.10
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (16 bp):
AATTCAATCAAATTAA
Found at i:79415064 original size:16 final size:16
Alignment explanation
Indices: 79415016--79415066 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
79415006 TTGGGGGGGG
* *
79415016 AATGGAATAGGGCTAT
1 AATGGAATAGAGCTGT
79415032 AATGGAATAGAGCTGT
1 AATGGAATAGAGCTGT
* *
79415048 AATGGAGTAGAGTTGT
1 AATGGAATAGAGCTGT
79415064 AAT
1 AAT
79415067 TAGTAATTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.37, C:0.04, G:0.31, T:0.27
Consensus pattern (16 bp):
AATGGAATAGAGCTGT
Found at i:79415133 original size:44 final size:46
Alignment explanation
Indices: 79415055--79415143 Score: 130
Period size: 44 Copynumber: 2.0 Consensus size: 46
79415045 TGTAATGGAG
* *
79415055 TAGAGTTGTAATTAGTAATTCATTTGTTTGGTTGAATGGAATAGAA
1 TAGAGATGTAATTAGTAATTCATTTGTTTGGTTGAACGGAATAGAA
79415101 TAGAGATGTAA-TAGT-ATTC-TTGTGTTTGGTTGAACGGAATAGA
1 TAGAGATGTAATTAGTAATTCATT-TGTTTGGTTGAACGGAATAGA
79415144 TGTTGTAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
43 2 0.05
44 24 0.60
45 4 0.10
46 10 0.25
ACGTcount: A:0.31, C:0.03, G:0.26, T:0.39
Consensus pattern (46 bp):
TAGAGATGTAATTAGTAATTCATTTGTTTGGTTGAACGGAATAGAA
Found at i:79415605 original size:94 final size:94
Alignment explanation
Indices: 79415496--79415684 Score: 351
Period size: 94 Copynumber: 2.0 Consensus size: 94
79415486 TTAATTATCT
*
79415496 TCTATAAATTAATCTTTCGATAAATTAATCTCAATTTTATGGTTTCATCTAAAGTTTCATTTAGA
1 TCTATAAATTAATCTTCCGATAAATTAATCTCAATTTTATGGTTTCATCTAAAGTTTCATTTAGA
*
79415561 CTGTAATAACTTGTGTCATTATCTTCCTA
66 CTATAATAACTTGTGTCATTATCTTCCTA
*
79415590 TCTATAAATTAATCTTCCTATAAATTAATCTCAATTTTATGGTTTCATCTAAAGTTTCATTTAGA
1 TCTATAAATTAATCTTCCGATAAATTAATCTCAATTTTATGGTTTCATCTAAAGTTTCATTTAGA
79415655 CTATAATAACTTGTGTCATTATCTTCCTA
66 CTATAATAACTTGTGTCATTATCTTCCTA
79415684 T
1 T
79415685 AAATTTATCC
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 92 1.00
ACGTcount: A:0.31, C:0.15, G:0.07, T:0.46
Consensus pattern (94 bp):
TCTATAAATTAATCTTCCGATAAATTAATCTCAATTTTATGGTTTCATCTAAAGTTTCATTTAGA
CTATAATAACTTGTGTCATTATCTTCCTA
Found at i:79417289 original size:17 final size:17
Alignment explanation
Indices: 79417267--79417302 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
79417257 GAGCTGGTGA
79417267 AATATCTAAATCAAGTG
1 AATATCTAAATCAAGTG
79417284 AATATCTAAATCAAGTG
1 AATATCTAAATCAAGTG
79417301 AA
1 AA
79417303 ATTAAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.28
Consensus pattern (17 bp):
AATATCTAAATCAAGTG
Found at i:79420064 original size:40 final size:40
Alignment explanation
Indices: 79420009--79420121 Score: 190
Period size: 40 Copynumber: 2.8 Consensus size: 40
79419999 AATTATTGAA
79420009 TGATTGCACATACGTGCCCCTGTTCGTACTTCGATACCCT
1 TGATTGCACATACGTGCCCCTGTTCGTACTTCGATACCCT
*
79420049 TGATTGTACATACGTGCCCCTGTTCGTACTTCGATACCCT
1 TGATTGCACATACGTGCCCCTGTTCGTACTTCGATACCCT
* **
79420089 TGATTGCACATATGTGCCCCTGTTTTTACTTCG
1 TGATTGCACATACGTGCCCCTGTTCGTACTTCG
79420122 GTAGCCCCGA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.17, C:0.29, G:0.18, T:0.36
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTGTTCGTACTTCGATACCCT
Found at i:79424025 original size:40 final size:40
Alignment explanation
Indices: 79423981--79424062 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
79423971 TTTCATAAAT
79423981 CTAATGTGTATTTATAATAGATAACGTATGATTTTTTTCC
1 CTAATGTGTATTTATAATAGATAACGTATGATTTTTTTCC
79424021 CTAATGTGTATTTATAATAGATAACGTATGATTTTTTTCC
1 CTAATGTGTATTTATAATAGATAACGTATGATTTTTTTCC
79424061 CT
1 CT
79424063 GTGTAGCAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.48
Consensus pattern (40 bp):
CTAATGTGTATTTATAATAGATAACGTATGATTTTTTTCC
Found at i:79425705 original size:13 final size:13
Alignment explanation
Indices: 79425687--79425741 Score: 58
Period size: 13 Copynumber: 3.9 Consensus size: 13
79425677 AGCCTGATAA
79425687 TTTAAATAATTTT
1 TTTAAATAATTTT
79425700 TTTAAATAATTTAAT
1 TTTAAATAATTT--T
79425715 GATTTAAA-AATTTTT
1 --TTTAAATAA-TTTT
79425730 TTTAAATAATTT
1 TTTAAATAATTT
79425742 AATAATTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 21 0.58
14 2 0.06
15 2 0.06
16 2 0.06
17 9 0.25
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (13 bp):
TTTAAATAATTTT
Found at i:79425721 original size:30 final size:30
Alignment explanation
Indices: 79425686--79425744 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
79425676 AAGCCTGATA
79425686 ATTTAAATAA-TTTTTTTAAATAATTTAATG
1 ATTTAAA-AATTTTTTTTAAATAATTTAATG
79425716 ATTTAAAAATTTTTTTTAAATAATTTAAT
1 ATTTAAAAATTTTTTTTAAATAATTTAAT
79425745 AATTATTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (30 bp):
ATTTAAAAATTTTTTTTAAATAATTTAATG
Found at i:79426366 original size:14 final size:14
Alignment explanation
Indices: 79426347--79426378 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
79426337 TTTGTTTACT
79426347 AAAAATAATTTTTA
1 AAAAATAATTTTTA
79426361 AAAAATAATTTTTA
1 AAAAATAATTTTTA
79426375 AAAA
1 AAAA
79426379 GTGATTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AAAAATAATTTTTA
Found at i:79427234 original size:15 final size:17
Alignment explanation
Indices: 79427213--79427260 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 17
79427203 TATACTACAA
79427213 AATATTTATTATTAA-T
1 AATATTTATTATTAATT
*
79427229 -ATATTTATAATTGTAATT
1 AATATTTATTA-T-TAATT
79427247 AATATTTATTATTA
1 AATATTTATTATTA
79427261 GAATATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
15 9 0.35
16 1 0.04
17 5 0.19
18 2 0.08
19 9 0.35
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
AATATTTATTATTAATT
Found at i:79431366 original size:13 final size:15
Alignment explanation
Indices: 79431335--79431367 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
79431325 TTAAGGTTTA
79431335 AATTAACTAAAACCT
1 AATTAACTAAAACCT
79431350 AATTAA-TAAAA-CT
1 AATTAACTAAAACCT
79431363 AATTA
1 AATTA
79431368 GCTTTTAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 5 0.28
15 6 0.33
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (15 bp):
AATTAACTAAAACCT
Found at i:79431596 original size:14 final size:14
Alignment explanation
Indices: 79431577--79431606 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
79431567 GCTAGCACAT
79431577 ATACCAATTTTAAA
1 ATACCAATTTTAAA
79431591 ATACCAATTTTAAA
1 ATACCAATTTTAAA
79431605 AT
1 AT
79431607 TGTTAGAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (14 bp):
ATACCAATTTTAAA
Found at i:79442379 original size:21 final size:20
Alignment explanation
Indices: 79442335--79442377 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
79442325 TAAAGAAATT
79442335 AAATGCAATGAAAAATAATG
1 AAATGCAATGAAAAATAATG
79442355 AAATGCAAATGAAAAATAA-G
1 AAATGC-AATGAAAAATAATG
79442375 AAA
1 AAA
79442378 ATTTGAAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.65, C:0.05, G:0.14, T:0.16
Consensus pattern (20 bp):
AAATGCAATGAAAAATAATG
Found at i:79442845 original size:15 final size:16
Alignment explanation
Indices: 79442825--79442854 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
79442815 TGGTGCCTAG
79442825 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
79442840 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
79442855 AACATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:79445425 original size:20 final size:20
Alignment explanation
Indices: 79445400--79445446 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
79445390 AAGGACTAAA
* *
79445400 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
* *
79445420 ATGAAAAATTCTGAAATTTT
1 ATGAAAAATTCTAAAATTTG
79445440 ATGAAAA
1 ATGAAAA
79445447 CATGTGCTGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.49, C:0.02, G:0.15, T:0.34
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:79447087 original size:145 final size:145
Alignment explanation
Indices: 79446824--79447113 Score: 553
Period size: 145 Copynumber: 2.0 Consensus size: 145
79446814 AGTTAATCCA
79446824 AGGTAAATTTATAATCATTTATGCATGTAGTGGTATGCCTTGTTAAATGATGAATTTGCCTACTT
1 AGGTAAATTTATAATCATTTATGCATGTAGTGGTATGCCTTGTTAAATGATGAATTTGCCTACTT
*
79446889 TAAATACTTGAAATGGCTGGATTTGGTTGAATGTTTTATGTACAGGTTTTTCGGTAAATTTGGGT
66 TAAATACTTGAAATGGCTGGAATTGGTTGAATGTTTTATGTACAGGTTTTTCGGTAAATTTGGGT
79446954 GAGAAATGAAGCTAG
131 GAGAAATGAAGCTAG
79446969 AGGTAAATTTATAATCATTTATGCATGTAGTGGTATGCCTTGTTAAATGATGAATTTGCCTACTT
1 AGGTAAATTTATAATCATTTATGCATGTAGTGGTATGCCTTGTTAAATGATGAATTTGCCTACTT
* *
79447034 TAAATACTTGAAATGGCTGGAATTGGTTGAGTGTTTTATGTACATGTTTTTCGGTAAATTTGGGT
66 TAAATACTTGAAATGGCTGGAATTGGTTGAATGTTTTATGTACAGGTTTTTCGGTAAATTTGGGT
79447099 GAGAAATGAAGCTAG
131 GAGAAATGAAGCTAG
79447114 GAAATGGCTT
Statistics
Matches: 142, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
145 142 1.00
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.39
Consensus pattern (145 bp):
AGGTAAATTTATAATCATTTATGCATGTAGTGGTATGCCTTGTTAAATGATGAATTTGCCTACTT
TAAATACTTGAAATGGCTGGAATTGGTTGAATGTTTTATGTACAGGTTTTTCGGTAAATTTGGGT
GAGAAATGAAGCTAG
Found at i:79452300 original size:21 final size:21
Alignment explanation
Indices: 79452276--79452316 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
79452266 ACCATATGAT
79452276 AACTCAATCATATAACATTTC
1 AACTCAATCATATAACATTTC
* * *
79452297 AACTCACTTATTTAACATTT
1 AACTCAATCATATAACATTT
79452317 TATTACCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (21 bp):
AACTCAATCATATAACATTTC
Found at i:79454247 original size:25 final size:26
Alignment explanation
Indices: 79454217--79454286 Score: 65
Period size: 25 Copynumber: 2.7 Consensus size: 26
79454207 TAAGATGGTT
79454217 TTAGGTCACGTGTGTAGTACCAAAT-G
1 TTAGGTCAC-TGTGTAGTACCAAATAG
* * *
79454243 -TAGGTTACTATGT-GTACCAGATAG
1 TTAGGTCACTGTGTAGTACCAAATAG
*
79454267 TTAGGTCGCATGTGTAGTAC
1 TTAGGTCAC-TGTGTAGTAC
79454287 TAAGTGCAGG
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
23 8 0.24
24 5 0.15
25 13 0.38
26 4 0.12
27 4 0.12
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (26 bp):
TTAGGTCACTGTGTAGTACCAAATAG
Found at i:79454302 original size:50 final size:50
Alignment explanation
Indices: 79454171--79454465 Score: 279
Period size: 50 Copynumber: 5.9 Consensus size: 50
79454161 ATTGTGAGAA
* *** *
79454171 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG--TTAGGT
* * * * *
79454223 CACGTGTGTAGTACCAAATGTAGGTTACTATGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* * * * * * *
79454273 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGACAACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA-TAGTTAGGT
** * *
79454324 CATGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* * ** * *
79454374 CACGTGTGTAATACTAAGTGCAGGCTACTACATGTA-CTGA-AGTGTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGT-TAGGT
* *
79454423 CACATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
79454466 ACTTTGGTTA
Statistics
Matches: 192, Mismatches: 47, Indels: 9
0.77 0.19 0.04
Matches are distributed among these distances:
48 2 0.01
49 37 0.19
50 78 0.41
51 41 0.21
52 34 0.18
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
Found at i:79454429 original size:101 final size:100
Alignment explanation
Indices: 79454226--79454465 Score: 279
Period size: 101 Copynumber: 2.4 Consensus size: 100
79454216 TTTAGGTCAC
* * * * *
79454226 GTGTGTAGTACCAAATGTAGGTTACTATGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGATAGTTAGGTCACATGTGTAATACTAAG
**
79454291 TGCAGGCTACTATGCGTACCTGACAACTTCGATCA
66 TGCAGGCTACTACACGTACCTGACAACTTCGATCA
* * * *
79454326 TGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGTCACGTGTGTAATACTAA
1 -GTGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGATAGTTAGGTCACATGTGTAATACTAA
* * * *
79454391 GTGCAGGCTACTACATGTA-CTG--AAGTGTTGGTCA
65 GTGCAGGCTACTACACGTACCTGACAACT-TCGATCA
* *
79454425 CATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 -GTGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGATA
79454466 ACTTTGGTTA
Statistics
Matches: 117, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
98 3 0.03
99 40 0.34
100 3 0.03
101 71 0.61
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (100 bp):
GTGTGTAGTACTAAGTGTAGGCTACTATGTGTACCAGATAGTTAGGTCACATGTGTAATACTAAG
TGCAGGCTACTACACGTACCTGACAACTTCGATCA
Found at i:79454498 original size:150 final size:152
Alignment explanation
Indices: 79454175--79454469 Score: 380
Period size: 150 Copynumber: 1.9 Consensus size: 152
79454165 TGAGAACACA
* * *
79454175 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTACCAA
1 TGTGTAGTAATATGTGCAGGCTACTATGTGTATAAGATGG-TTTAGGTCACGTGTGTAATACCAA
* * ** *
79454240 ATGTAGGTTACTATGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
65 ATGCAGGCTACTACATGTACCAGATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATG
* *
79454305 CGTACCTGACAACTTCGATCATG
130 CGTACCAGACAACTTCGATCAAG
* * * * *
79454328 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGG-TTAGGTCACGTGTGTAATACTAAG
1 TGTGTAGTAATATGTGCAGGCTACTATGTGTATAAGATGGTTTAGGTCACGTGTGTAATACCAAA
* * *
79454392 TGCAGGCTACTACATGTA-CTGA-AGTGTTGGTCACATGTGTAGTACTAAGTGTAGGCTACTATG
66 TGCAGGCTACTACATGTACCAGATAGT-TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATG
*
79454455 CGTACCAGATAACTT
130 CGTACCAGACAACTT
79454470 TGGTTACAAG
Statistics
Matches: 125, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
149 3 0.02
150 50 0.40
151 35 0.28
153 37 0.30
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (152 bp):
TGTGTAGTAATATGTGCAGGCTACTATGTGTATAAGATGGTTTAGGTCACGTGTGTAATACCAAA
TGCAGGCTACTACATGTACCAGATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGC
GTACCAGACAACTTCGATCAAG
Found at i:79460754 original size:17 final size:19
Alignment explanation
Indices: 79460712--79460755 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
79460702 ATGAAGTTTT
*
79460712 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
79460731 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
79460749 AA-TATTA
1 AATTATTA
79460756 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:79462291 original size:17 final size:19
Alignment explanation
Indices: 79462249--79462292 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
79462239 ATGAAATTTT
*
79462249 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
79462268 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
79462286 AA-TATTA
1 AATTATTA
79462293 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:79463292 original size:8 final size:8
Alignment explanation
Indices: 79463279--79463326 Score: 96
Period size: 8 Copynumber: 6.0 Consensus size: 8
79463269 CTAGATCGGT
79463279 AAAAGCCG
1 AAAAGCCG
79463287 AAAAGCCG
1 AAAAGCCG
79463295 AAAAGCCG
1 AAAAGCCG
79463303 AAAAGCCG
1 AAAAGCCG
79463311 AAAAGCCG
1 AAAAGCCG
79463319 AAAAGCCG
1 AAAAGCCG
79463327 GCATTTAAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 40 1.00
ACGTcount: A:0.50, C:0.25, G:0.25, T:0.00
Consensus pattern (8 bp):
AAAAGCCG
Found at i:79463979 original size:20 final size:20
Alignment explanation
Indices: 79463936--79463981 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
79463926 ACTGTTCTGT
79463936 TATGGGCCAACTGTATTGAA
1 TATGGGCCAACTGTATTGAA
*
79463956 -ATGGGCCTAACTGTGTT-AA
1 TATGGGCC-AACTGTATTGAA
79463975 TATGGGC
1 TATGGGC
79463982 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (20 bp):
TATGGGCCAACTGTATTGAA
Found at i:79464122 original size:27 final size:28
Alignment explanation
Indices: 79464070--79464122 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
79464060 TTACTGTAAG
* *
79464070 GGGCTATGGCCCAGATTAATACTGATAT
1 GGGCTAAGGCCCAGATTAACACTGATAT
*
79464098 GGGCTAAGGCCTAG-TTAACACTGAT
1 GGGCTAAGGCCCAGATTAACACTGAT
79464123 TTCTGAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAACACTGATAT
Found at i:79476970 original size:40 final size:40
Alignment explanation
Indices: 79476770--79476956 Score: 279
Period size: 40 Copynumber: 4.7 Consensus size: 40
79476760 ATTCGGATTG
*
79476770 ATAACGGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
79476809 ATATCCGGGCTAAGTCCCGAA-GCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
79476848 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
79476888 ATAACCGAGTTATGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
79476928 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
79476957 AGCAAGAAGC
Statistics
Matches: 131, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 48 0.37
40 83 0.63
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:79481973 original size:40 final size:40
Alignment explanation
Indices: 79481907--79482073 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
79481897 AAATTGAATG
* * *
79481907 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
79481946 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
79481986 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
79482026 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
79482066 ATATCCGG
1 ATATCCGG
79482074 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:79489181 original size:40 final size:40
Alignment explanation
Indices: 79489122--79489263 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
79489112 AAATTGAATG
* * *
79489122 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
79489162 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
79489202 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
79489242 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
79489264 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:79489264 original size:40 final size:39
Alignment explanation
Indices: 79489161--79489289 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
79489151 TGCTGGAAAT
* * *
79489161 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
79489201 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
79489241 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
79489281 TATATCCGG
1 TATATCCGG
79489290 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:79505105 original size:38 final size:38
Alignment explanation
Indices: 79505054--79505130 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
79505044 TGGTAATTAT
79505054 AAGGGTGATGGATGTTGTTTCATGCTAAATCTAGATGA
1 AAGGGTGATGGATGTTGTTTCATGCTAAATCTAGATGA
79505092 AAGGGTGATGGATGTTGTTTCATGCTAAATCTAGATGA
1 AAGGGTGATGGATGTTGTTTCATGCTAAATCTAGATGA
79505130 A
1 A
79505131 CAATGTTAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.30, C:0.08, G:0.29, T:0.34
Consensus pattern (38 bp):
AAGGGTGATGGATGTTGTTTCATGCTAAATCTAGATGA
Found at i:79507285 original size:27 final size:27
Alignment explanation
Indices: 79507254--79507414 Score: 214
Period size: 27 Copynumber: 6.0 Consensus size: 27
79507244 TTCTACCCTA
*
79507254 CAAGGGTATTTCGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
79507281 AAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
79507308 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
79507335 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
79507362 TAAGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
79507389 TAAGGGTATTTTGGTAATTTTGTAAA
1 CAAGGGTATTTTGGTAATTTTATAAA
79507415 TTGAAGGTAA
Statistics
Matches: 115, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 115 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:79507324 original size:54 final size:54
Alignment explanation
Indices: 79507254--79507409 Score: 240
Period size: 54 Copynumber: 2.9 Consensus size: 54
79507244 TTCTACCCTA
*
79507254 CAAGGGTATTTCGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAAC
* * *
79507308 CAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAAC
* * * *
79507362 TAAGGGTATTTTGGTGATTTTATAAACTAAGGGTATTTTGGTAATTTT
1 CAAGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTT
79507410 GTAAATTGAA
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 92 1.00
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAAC
Found at i:79507345 original size:81 final size:81
Alignment explanation
Indices: 79507254--79507414 Score: 241
Period size: 81 Copynumber: 2.0 Consensus size: 81
79507244 TTCTACCCTA
* * *
79507254 CAAGGGTATTTCGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTT
1 CAAGGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
79507319 TGGTAATTTTGTAAAC
66 TGGTAATTTTGTAAAC
* * * * * *
79507335 CAAGGGTATTTTAGTAATTTTACAAACTAAGGGTATTTTGGTGATTTTATAAACTAAGGGTATTT
1 CAAGGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
79507400 TGGTAATTTTGTAAA
66 TGGTAATTTTGTAAA
79507415 TTGAAGGTAA
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 71 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (81 bp):
CAAGGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
TGGTAATTTTGTAAAC
Found at i:79507431 original size:27 final size:27
Alignment explanation
Indices: 79507401--79507650 Score: 311
Period size: 27 Copynumber: 9.3 Consensus size: 27
79507391 AGGGTATTTT
* *
79507401 GGTAATTTTGTAAATTGAAGGTAAAAC
1 GGTAATTCTGTAAATTGAGGGTAAAAC
*
79507428 GGTAATTCTGTAAACTGAGGGTAAAAC
1 GGTAATTCTGTAAATTGAGGGTAAAAC
* * *
79507455 GGTAATTCTATAAATCGAGGGTAAAAT
1 GGTAATTCTGTAAATTGAGGGTAAAAC
* * *
79507482 AGTAATTCTGTAAACTGAGGGGAAAAC
1 GGTAATTCTGTAAATTGAGGGTAAAAC
* * * *
79507509 AGTAATTCTGTAAATCGAGGATAAAAT
1 GGTAATTCTGTAAATTGAGGGTAAAAC
* *
79507536 AGTAATTCTGTAAACTGAGGGTAAAAC
1 GGTAATTCTGTAAATTGAGGGTAAAAC
*
79507563 GGTAATTCTGTAAATCGAGGGTAAAAC
1 GGTAATTCTGTAAATTGAGGGTAAAAC
* * *
79507590 AGTAATTCTGTAAACTGAGGGTAAAAT
1 GGTAATTCTGTAAATTGAGGGTAAAAC
* *
79507617 GGTAATTCTGTAAATCGAGGGTAAAAT
1 GGTAATTCTGTAAATTGAGGGTAAAAC
79507644 GGTAATT
1 GGTAATT
79507651 TTACAAGTCG
Statistics
Matches: 191, Mismatches: 32, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 191 1.00
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
GGTAATTCTGTAAATTGAGGGTAAAAC
Found at i:79507443 original size:81 final size:81
Alignment explanation
Indices: 79507265--79507450 Score: 203
Period size: 81 Copynumber: 2.3 Consensus size: 81
79507255 AAGGGTATTT
* *
79507265 CGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTG
1 CGGTAATTTTATAAACTAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTG
***
79507330 TAAACCAAGGGTATTT
66 TAAACCAAGGGTAAAA
** * * * * *
79507346 TAGTAATTTTACAAACTAAGGGTATTTTGGTGATTTTATAAACTAAGGGTATTTTGGTAATTTTG
1 CGGTAATTTTATAAACTAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTG
**
79507411 TAAATTGAA-GGTAAAA
66 TAAA-CCAAGGGTAAAA
* * *
79507427 CGGTAATTCTGTAAACTGAGGGTA
1 CGGTAATTTTATAAACTAAGGGTA
79507451 AAACGGTAAT
Statistics
Matches: 84, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
81 82 0.98
82 2 0.02
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (81 bp):
CGGTAATTTTATAAACTAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTG
TAAACCAAGGGTAAAA
Found at i:79507664 original size:54 final size:54
Alignment explanation
Indices: 79507401--79507650 Score: 392
Period size: 54 Copynumber: 4.6 Consensus size: 54
79507391 AGGGTATTTT
* * * **
79507401 GGTAATTTTGTAAATTGAAGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
* *
79507455 GGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGGAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
* *
79507509 AGTAATTCTGTAAATCGAGGATAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
* *
79507563 GGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAAT
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
*
79507617 GGTAATTCTGTAAATCGAGGGTAAAATGGTAATT
1 GGTAATTCTGTAAATCGAGGGTAAAATAGTAATT
79507651 TTACAAGTCG
Statistics
Matches: 179, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 179 1.00
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (54 bp):
GGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAAC
Found at i:79507664 original size:81 final size:81
Alignment explanation
Indices: 79507400--79507650 Score: 355
Period size: 81 Copynumber: 3.1 Consensus size: 81
79507390 AAGGGTATTT
* * * * * *
79507400 TGGTAATTTTGTAAATTGAAGGTAAAACGGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTA
1 TGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAATGGTAATTCTG
79507465 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * * *
79507481 TAGTAATTCTGTAAA-CTGAGGGGAAAACAGTAATTCTGTAAA-TCGAGGATAAAATAGTAATTC
1 TGGTAATTCTGTAAATC-GAGGGTAAAACAGTAATTCTGTAAACT-GAGGGTAAAATGGTAATTC
79507544 TGTAAA-CTGAGGGTAAAA
64 TGTAAATC-GAGGGTAAAA
*
79507562 CGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAATGGTAATTCTG
1 TGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAATGGTAATTCTG
79507627 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
79507643 TGGTAATT
1 TGGTAATT
79507651 TTACAAGTCG
Statistics
Matches: 148, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
80 2 0.01
81 143 0.97
82 3 0.02
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (81 bp):
TGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAACTGAGGGTAAAATGGTAATTCTG
TAAATCGAGGGTAAAA
Found at i:79520506 original size:2 final size:2
Alignment explanation
Indices: 79520499--79520527 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
79520489 ACATTCATTA
79520499 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
79520528 ATTAATCAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:79527709 original size:40 final size:39
Alignment explanation
Indices: 79527652--79527738 Score: 120
Period size: 40 Copynumber: 2.2 Consensus size: 39
79527642 TAACGACTTA
**
79527652 TCGGCTAAAATGGCACTTAGTGTGCGGTTTGAAATAGCT
1 TCGGCTAAAATGGCACTTAGTGTGCAATTTGAAATAGCT
* * *
79527691 TTGGCTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCT
1 TCGGCTAAAA-TGGCACTTAGTGTGCAATTTGAAATAGCT
79527731 TCGGCTAA
1 TCGGCTAA
79527739 CTTAGTGTGC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
39 9 0.22
40 32 0.78
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (39 bp):
TCGGCTAAAATGGCACTTAGTGTGCAATTTGAAATAGCT
Found at i:79532605 original size:14 final size:14
Alignment explanation
Indices: 79532586--79532616 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
79532576 TGCTACTATT
79532586 TTACTATTATGTTG
1 TTACTATTATGTTG
*
79532600 TTACTATTTTGTTG
1 TTACTATTATGTTG
79532614 TTA
1 TTA
79532617 TTGTTTGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.13, T:0.61
Consensus pattern (14 bp):
TTACTATTATGTTG
Found at i:79533120 original size:9 final size:9
Alignment explanation
Indices: 79533075--79533126 Score: 50
Period size: 9 Copynumber: 5.3 Consensus size: 9
79533065 TTTAAATTTT
79533075 AAAAATTCAA
1 AAAAATT-AA
* *
79533085 AAAATTTAT
1 AAAAATTAA
79533094 AAAAATTAA
1 AAAAATTAA
79533103 TTTAAAAATTAA
1 ---AAAAATTAA
79533115 AAAAATTAA
1 AAAAATTAA
79533124 AAA
1 AAA
79533127 TATAAAAGCG
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
9 20 0.57
10 6 0.17
12 9 0.26
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (9 bp):
AAAAATTAA
Found at i:79533764 original size:16 final size:17
Alignment explanation
Indices: 79533732--79533764 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
79533722 TTTGTTTGGA
79533732 TATTGTATAACTTTGTT
1 TATTGTATAACTTTGTT
*
79533749 TATTGT-TAATTTTGTT
1 TATTGTATAACTTTGTT
79533765 ACTATTTTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.21, C:0.03, G:0.12, T:0.64
Consensus pattern (17 bp):
TATTGTATAACTTTGTT
Found at i:79537432 original size:35 final size:35
Alignment explanation
Indices: 79537357--79537483 Score: 155
Period size: 35 Copynumber: 3.6 Consensus size: 35
79537347 GTACATCGTC
* * *
79537357 AATCCAACCAAAACACACCAAATTCTCATAAGAGCC
1 AATCCAACCGAAACACACC-AATGCTCATAAGAGCT
* *
79537393 AATCCAATCGAAATACACCAATGCTCATAAGAGCT
1 AATCCAACCGAAACACACCAATGCTCATAAGAGCT
** * *
79537428 AATCCCTCCTAAACACACCAATGCTCACAAGAGCT
1 AATCCAACCGAAACACACCAATGCTCATAAGAGCT
*
79537463 AGTCCAACCGAAACACACCAA
1 AATCCAACCGAAACACACCAA
79537484 ACAGAGAGTA
Statistics
Matches: 76, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
35 60 0.79
36 16 0.21
ACGTcount: A:0.43, C:0.33, G:0.09, T:0.15
Consensus pattern (35 bp):
AATCCAACCGAAACACACCAATGCTCATAAGAGCT
Found at i:79540035 original size:20 final size:20
Alignment explanation
Indices: 79539999--79540036 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
79539989 CGATAGATAC
*
79539999 ATGTGATTTCTCGTATGTGA
1 ATGTGATTTCTCATATGTGA
79540019 ATGTGA-TTCTGCATATGT
1 ATGTGATTTCT-CATATGT
79540037 TGCAGATAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.21, C:0.11, G:0.24, T:0.45
Consensus pattern (20 bp):
ATGTGATTTCTCATATGTGA
Found at i:79544379 original size:29 final size:28
Alignment explanation
Indices: 79544345--79544418 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 28
79544335 TAATCAACCA
*
79544345 CGCACACTTAGTGCCATGTACTTT-AAAC
1 CGCACACTTAGTGCCATGCA-TTTCAAAC
*
79544373 TCGCACACTTAGTGCCATGCATTTCAAGC
1 -CGCACACTTAGTGCCATGCATTTCAAAC
79544402 CTGCACACTTAGTGCCA
1 C-GCACACTTAGTGCCA
79544419 ATCTCACAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 4 0.10
29 37 0.90
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCCATGCATTTCAAAC
Found at i:79552268 original size:29 final size:29
Alignment explanation
Indices: 79552229--79552307 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
79552219 CTTAATAATC
*
79552229 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
79552259 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
79552288 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
79552308 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:79553515 original size:11 final size:12
Alignment explanation
Indices: 79553488--79553517 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
79553478 CCCAAACTTT
79553488 CCTATTTTTATA
1 CCTATTTTTATA
79553500 CCTATTTTTATA
1 CCTATTTTTATA
79553512 -CTATTT
1 CCTATTT
79553518 GGTCCTTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.33
12 12 0.67
ACGTcount: A:0.23, C:0.17, G:0.00, T:0.60
Consensus pattern (12 bp):
CCTATTTTTATA
Found at i:79557657 original size:27 final size:26
Alignment explanation
Indices: 79557609--79557660 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
79557599 GCGAGGCTGC
*
79557609 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
79557635 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
79557661 TTATAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:79560545 original size:43 final size:43
Alignment explanation
Indices: 79560407--79560558 Score: 180
Period size: 43 Copynumber: 3.6 Consensus size: 43
79560397 CATACATTAT
* * * ** * *
79560407 GAACTCGGACCACTCAACGAGCTCGGATGCTCGCATCCATAAT
1 GAACTCGGACCACTCAACGAGCTCAGATACTCACATATATCAC
*
79560450 GAACTCAGACCACTCAACGAGCTCAGATACT-ACATATATCAC
1 GAACTCGGACCACTCAACGAGCTCAGATACTCACATATATCAC
* * * *
79560492 GAACTTGGACCACTCAACAAGTTCAGATTCTCACATATATCAC
1 GAACTCGGACCACTCAACGAGCTCAGATACTCACATATATCAC
*
79560535 GAACTCGGACCACTCAATGAGCTC
1 GAACTCGGACCACTCAACGAGCTC
79560559 GAATTTCTTA
Statistics
Matches: 91, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 32 0.35
43 59 0.65
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (43 bp):
GAACTCGGACCACTCAACGAGCTCAGATACTCACATATATCAC
Found at i:79566859 original size:25 final size:25
Alignment explanation
Indices: 79566831--79566933 Score: 67
Period size: 25 Copynumber: 4.2 Consensus size: 25
79566821 TATAACTAGC
79566831 AGCTCCGAA-GAGCCATTAATCAGGA
1 AGCTCC-AATGAGCCATTAATCAGGA
*
79566856 AGCTCTGAATG-GCCA-TATATC-GAGA
1 AGCTC-CAATGAGCCATTA-ATCAG-GA
* * *
79566881 AG-TTCAAGTGAGCCAAT-ATTAGGA
1 AGCTCCAA-TGAGCCATTAATCAGGA
79566905 AGCTCCAGA-GAGCCATTAATCAGGA
1 AGCTCCA-ATGAGCCATTAATCAGGA
79566930 AGCT
1 AGCT
79566934 TACAAAGAGC
Statistics
Matches: 60, Mismatches: 7, Indels: 22
0.67 0.08 0.25
Matches are distributed among these distances:
23 2 0.03
24 19 0.32
25 36 0.60
26 3 0.05
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.20
Consensus pattern (25 bp):
AGCTCCAATGAGCCATTAATCAGGA
Found at i:79568352 original size:29 final size:30
Alignment explanation
Indices: 79568319--79568375 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
79568309 AAACCGGTTT
* *
79568319 TCAAA-CCTAGGGGTAAAATGGTCATTTTG
1 TCAAAGCCTAGAGGCAAAATGGTCATTTTG
*
79568348 TCAAAGTCTAGAGGCAAAATGGTCATTT
1 TCAAAGCCTAGAGGCAAAATGGTCATTT
79568376 CACCGGAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (30 bp):
TCAAAGCCTAGAGGCAAAATGGTCATTTTG
Found at i:79568904 original size:46 final size:44
Alignment explanation
Indices: 79568727--79568934 Score: 116
Period size: 46 Copynumber: 4.5 Consensus size: 44
79568717 TGTGTGAGCT
* * * * * *
79568727 AGTGTAAGACATGTCTGGGACATGCATCAACCACATTATGA-GAGCA
1 AGTGTAAGACATGTCTGGGACATCCATCGACCTC--GA-GACGTGCC
* * * * *
79568773 AGTGTAAGACCATGTCTGGGACATGGCATC-AGCATTGAGACGAGTTCT
1 AGTGTAAGA-CATGTCTGGGACAT-CCATCGA-CCTCGAGAC--GTGCC
* * * *
79568821 AGAGTAAGACATGTCTGGGACATGCTTTGACCTCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATCCATCGACCTCGAGACGT--GCC
* * *
79568867 AGTGTAAGACATGTCTGGGACATCCATCG-GCTACGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATCCATCGACCT-CGAGACGTGCC
*
79568911 AGTGTAAGACCATGTCTAGGACAT
1 AGTGTAAGA-CATGTCTGGGACAT
79568935 GGCATTGGCA
Statistics
Matches: 129, Mismatches: 22, Indels: 23
0.74 0.13 0.13
Matches are distributed among these distances:
44 13 0.10
45 17 0.13
46 53 0.41
47 30 0.23
48 16 0.12
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATCCATCGACCTCGAGACGTGCC
Found at i:79572070 original size:6 final size:6
Alignment explanation
Indices: 79572061--79572091 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
79572051 TTTTATTTTC
*
79572061 TTTATT TTTACT TTTATT TTTATT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT TTTATT T
79572092 CTTCTTCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTATT
Found at i:79574653 original size:43 final size:43
Alignment explanation
Indices: 79574497--79574654 Score: 128
Period size: 43 Copynumber: 3.7 Consensus size: 43
79574487 ATGTGATATT
* *
79574497 ATGTAAGACCACGTCTGGGACGTTGGCATCGACT-TATGATTTAC
1 ATGTAAGACCACGTCTGGAACGTTGGCATCGA-TATTTGA-TTAC
* * * * * * *
79574541 ATGTAAGAGCATGTTTGGGACATTGACATCG-TATTTGATTTC
1 ATGTAAGACCACGTCTGGAACGTTGGCATCGATATTTGATTAC
* *
79574583 GTGTAAGACC-CTGTCAGAGATA-G-TGGCATCGATATTTGATTAC
1 ATGTAAGACCAC-GTCTG-GA-ACGTTGGCATCGATATTTGATTAC
*
79574626 ATGTAAGACCACGTCTGCAACGTTGGCAT
1 ATGTAAGACCACGTCTGGAACGTTGGCAT
79574655 TGTATGAGCT
Statistics
Matches: 87, Mismatches: 19, Indels: 17
0.71 0.15 0.14
Matches are distributed among these distances:
41 1 0.01
42 24 0.28
43 34 0.39
44 28 0.32
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
ATGTAAGACCACGTCTGGAACGTTGGCATCGATATTTGATTAC
Found at i:79582149 original size:22 final size:22
Alignment explanation
Indices: 79582121--79582166 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
79582111 GAGGGTGAAT
79582121 TGCCGATGCCATGTTCCAAACA
1 TGCCGATGCCATGTTCCAAACA
*
79582143 TGCCGATTCCATGTTCCAAACA
1 TGCCGATGCCATGTTCCAAACA
79582165 TG
1 TG
79582167 GTCTTATACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.26
Consensus pattern (22 bp):
TGCCGATGCCATGTTCCAAACA
Found at i:79582206 original size:48 final size:48
Alignment explanation
Indices: 79582144--79582320 Score: 203
Period size: 48 Copynumber: 3.7 Consensus size: 48
79582134 TTCCAAACAT
* * *
79582144 GCCGATTCCATGTTCCAAACATGGTCTTATACTGGCTCACATGTTGAG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATGTTGAG
* * * * * ** *
79582192 GCTGATGCCATGTTCCAAACATGGTCTTACACTAGTTCTCGTCTCAAT
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATGTTGAG
*
79582240 GCCGATGCCATG-TCCAAGACATGGTCTTACACTGGCTCTCATGTTGTG
1 GCCGATGCCATGTTCCAA-ACATGGTCTTACACTGGCTCTCATGTTGAG
* * *
79582288 GCCGATGCCATGTCCCAGACACGGTCTTACACT
1 GCCGATGCCATGTTCCAAACATGGTCTTACACT
79582321 AGCACACATA
Statistics
Matches: 104, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
47 5 0.05
48 96 0.92
49 3 0.03
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.29
Consensus pattern (48 bp):
GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATGTTGAG
Found at i:79582314 original size:96 final size:96
Alignment explanation
Indices: 79582142--79582322 Score: 274
Period size: 96 Copynumber: 1.9 Consensus size: 96
79582132 TGTTCCAAAC
* * * *
79582142 ATGCCGATTCCATGTTCCAAACATGGTCTTATACTGGCTCACATGTTGAGGCTGATGCCATGTTC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTTGAGGCCGATGCCATGTCC
*
79582207 CAAACATGGTCTTACACTAGTTCTCGTCTCA
66 CAAACACGGTCTTACACTAGTTCTCGTCTCA
* *
79582238 ATGCCGATGCCATG-TCCAAGACATGGTCTTACACTGGCTCTCATGTTGTGGCCGATGCCATGTC
1 ATGCCGATGCCATGTTCCAA-ACATGGTCTTACACTGGCTCACATGTTGAGGCCGATGCCATGTC
*
79582302 CCAGACACGGTCTTACACTAG
65 CCAAACACGGTCTTACACTAG
79582323 CACACATATC
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
95 5 0.07
96 71 0.93
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (96 bp):
ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTTGAGGCCGATGCCATGTCC
CAAACACGGTCTTACACTAGTTCTCGTCTCA
Found at i:79582344 original size:96 final size:96
Alignment explanation
Indices: 79582142--79582344 Score: 246
Period size: 96 Copynumber: 2.1 Consensus size: 96
79582132 TGTTCCAAAC
* * * * *
79582142 ATGCCGATTCCATGTTCCAAACATGGTCTTATACTGGCTCACATGTTGAGGCTGATGCCATGTTC
1 ATGCCAATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTTGAGGCCGATGCCATGTCC
* ** * * *
79582207 CAAACATGGTCTTACACTAGTTCTCGTCTCA
66 CAAACACGGTCTTACACTAGCACACATATCA
* * *
79582238 ATGCCGATGCCATG-TCCAAGACATGGTCTTACACTGGCTCTCATGTTGTGGCCGATGCCATGTC
1 ATGCCAATGCCATGTTCCAA-ACATGGTCTTACACTGGCTCACATGTTGAGGCCGATGCCATGTC
*
79582302 CCAGACACGGTCTTACACTAGCACACATATCA
65 CCAAACACGGTCTTACACTAGCACACATATCA
*
79582334 ATGCTAATGCC
1 ATGCCAATGCC
79582345 TCACAACATC
Statistics
Matches: 91, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
95 5 0.05
96 86 0.95
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (96 bp):
ATGCCAATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTTGAGGCCGATGCCATGTCC
CAAACACGGTCTTACACTAGCACACATATCA
Found at i:79585474 original size:43 final size:42
Alignment explanation
Indices: 79585326--79585482 Score: 138
Period size: 43 Copynumber: 3.7 Consensus size: 42
79585316 TGTGATATCG
* * *
79585326 TGTAAGACCACGTCTGGGACGTTGGCATCGACT-TATGATTTACA
1 TGTAAGACCAAGTCTGGGATGTTGGCATC-A-TATTTGA-TTACA
* * ** * * *
79585370 TGTAAGACTATGTCTGGGACATCGACATCATATTTGATTTCA
1 TGTAAGACCAAGTCTGGGATGTTGGCATCATATTTGATTACA
**
79585412 TGTAAGACCCTGTCTGGGATAG-TGGCATCAATATTTGATTACA
1 TGTAAGACCAAGTCTGGGAT-GTTGGCATC-ATATTTGATTACA
*
79585455 TGTAAGACCAAGTTTGGGATGTTGGCAT
1 TGTAAGACCAAGTCTGGGATGTTGGCAT
79585483 TGTGTAAGCT
Statistics
Matches: 92, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 28 0.30
43 40 0.43
44 24 0.26
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (42 bp):
TGTAAGACCAAGTCTGGGATGTTGGCATCATATTTGATTACA
Found at i:79587973 original size:5 final size:5
Alignment explanation
Indices: 79587963--79587988 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
79587953 CTCATGCTCT
79587963 TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA T
79587989 AATTCAAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:79600059 original size:16 final size:17
Alignment explanation
Indices: 79600035--79600066 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
79600025 AATTATTAAT
79600035 AATTCAAATAATTGAAG
1 AATTCAAATAATTGAAG
79600052 AATT-AAATAATTGAA
1 AATTCAAATAATTGAA
79600067 TAAAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.56, C:0.03, G:0.09, T:0.31
Consensus pattern (17 bp):
AATTCAAATAATTGAAG
Found at i:79600841 original size:25 final size:24
Alignment explanation
Indices: 79600813--79600864 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
79600803 ATCCTAATTC
*
79600813 TATA-TAAAGTTGATAATAATTAATA
1 TATATTAAAGTGGAT-ATAATT-ATA
*
79600838 TATATTATAGTGGATATAATTATA
1 TATATTAAAGTGGATATAATTATA
79600862 TAT
1 TAT
79600865 TAATAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.25
25 10 0.42
26 8 0.33
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (24 bp):
TATATTAAAGTGGATATAATTATA
Found at i:79603368 original size:29 final size:29
Alignment explanation
Indices: 79603289--79603370 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
79603279 TATATATGTG
*
79603289 AATTATCGAGCACTAAGTGTGCGAAGTAA
1 AATTATCGAGCACTAAGTGTGTGAAGTAA
* *
79603318 AATTATTGAGCACTAAATGTGTGAAGTAA
1 AATTATCGAGCACTAAGTGTGTGAAGTAA
79603347 AATTATCGAGCACTAAGTGTGTGA
1 AATTATCGAGCACTAAGTGTGTGA
79603371 GTGTAACACC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (29 bp):
AATTATCGAGCACTAAGTGTGTGAAGTAA
Found at i:79605226 original size:43 final size:43
Alignment explanation
Indices: 79605177--79605286 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 43
79605167 CCGGCATTTC
**
79605177 GCCTGCTAGGCTTGAAGC-CTGATATCAT-TT-CGTCAGCATTATA
1 GCCTGCTAGGCCCGAAGCTC-GATATCATCTTAC--CAGCATTATA
*
79605220 GCCTGCTAGGCCCGAAGCTCGATATTATCTTACCAGCATTATA
1 GCCTGCTAGGCCCGAAGCTCGATATCATCTTACCAGCATTATA
* * *
79605263 ACCTGCTAGGCCCAAAGCCCGATA
1 GCCTGCTAGGCCCGAAGCTCGATA
79605287 ATATTATTCA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
43 54 0.93
44 3 0.05
45 1 0.02
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (43 bp):
GCCTGCTAGGCCCGAAGCTCGATATCATCTTACCAGCATTATA
Found at i:79605318 original size:44 final size:43
Alignment explanation
Indices: 79605210--79605318 Score: 123
Period size: 43 Copynumber: 2.5 Consensus size: 43
79605200 ATCATTTCGT
* * * * *
79605210 CAGCATTATAGCCTGCTAGGCCCGAAGCTCGATATTATCTTAC
1 CAGCATTATAACCTGCTAGGCCCAAAGCCCGATAATATATTAC
79605253 CAGCATTATAACCTGCTAGGCCCAAAGCCCGATAATATTATTCAC
1 CAGCATTATAACCTGCTAGGCCCAAAGCCCGATAATA-TATT-AC
*
79605298 CAGC-TTA-AAGCTTGCTAGGCC
1 CAGCATTATAA-CCTGCTAGGCC
79605319 GAGGCCCGAA
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
43 35 0.61
44 16 0.28
45 6 0.11
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (43 bp):
CAGCATTATAACCTGCTAGGCCCAAAGCCCGATAATATATTAC
Found at i:79607923 original size:26 final size:27
Alignment explanation
Indices: 79607894--79607947 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
79607884 TCACACAAGT
*
79607894 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
79607920 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
79607947 T
1 T
79607948 GGCAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:79608007 original size:21 final size:21
Alignment explanation
Indices: 79607983--79608022 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
79607973 TCGGTAATTC
*
79607983 TACCTTACAAGGGTATTTCAA
1 TACCCTACAAGGGTATTTCAA
*
79608004 TACCCTACAGGGGTATTTC
1 TACCCTACAAGGGTATTTC
79608023 GGTAATTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.33
Consensus pattern (21 bp):
TACCCTACAAGGGTATTTCAA
Found at i:79608034 original size:27 final size:27
Alignment explanation
Indices: 79607951--79608059 Score: 106
Period size: 27 Copynumber: 4.3 Consensus size: 27
79607941 GCAAAATGGC
* * *
79607951 AATTTTACCCCACAAGGGTATCTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
*
79607978 AATTCTACCTTACAAGGGTATTTC---
1 AATTCTACCCTACAAGGGTATTTCGGT
*
79608002 AA---TACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
* *
79608026 AATTCTACCTTACAAGGGT-TTTCGAT
1 AATTCTACCCTACAAGGGTATTTCGGT
79608052 AATTCTAC
1 AATTCTAC
79608060 AACTTATCAA
Statistics
Matches: 67, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
21 17 0.25
24 4 0.06
26 14 0.21
27 32 0.48
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.34
Consensus pattern (27 bp):
AATTCTACCCTACAAGGGTATTTCGGT
Found at i:79608055 original size:26 final size:27
Alignment explanation
Indices: 79607962--79608059 Score: 111
Period size: 27 Copynumber: 3.9 Consensus size: 27
79607952 ATTTTACCCC
*
79607962 ACAAGGGTATCTCGGTAATTCTACCTT
1 ACAAGGGTATTTCGGTAATTCTACCTT
*
79607989 ACAAGGGTATTTC---AA---TACCCT
1 ACAAGGGTATTTCGGTAATTCTACCTT
*
79608010 ACAGGGGTATTTCGGTAATTCTACCTT
1 ACAAGGGTATTTCGGTAATTCTACCTT
*
79608037 ACAAGGGT-TTTCGATAATTCTAC
1 ACAAGGGTATTTCGGTAATTCTAC
79608060 AACTTATCAA
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
21 17 0.29
24 4 0.07
26 14 0.24
27 24 0.41
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (27 bp):
ACAAGGGTATTTCGGTAATTCTACCTT
Found at i:79608060 original size:48 final size:48
Alignment explanation
Indices: 79607956--79608048 Score: 152
Period size: 48 Copynumber: 2.0 Consensus size: 48
79607946 ATGGCAATTT
* *
79607956 TACCCCACAAGGGTATCTCGGTAATTCTACCTTACAAGGGTATTTCAA
1 TACCCTACAGGGGTATCTCGGTAATTCTACCTTACAAGGGTATTTCAA
*
79608004 TACCCTACAGGGGTATTTCGGTAATTCTACCTTACAAGGGT-TTTC
1 TACCCTACAGGGGTATCTCGGTAATTCTACCTTACAAGGGTATTTC
79608049 GATAATTCTA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (48 bp):
TACCCTACAGGGGTATCTCGGTAATTCTACCTTACAAGGGTATTTCAA
Found at i:79614031 original size:46 final size:46
Alignment explanation
Indices: 79613964--79614184 Score: 279
Period size: 46 Copynumber: 4.8 Consensus size: 46
79613954 TGTAACCCGC
* * *
79613964 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
* *
79614010 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
*
79614056 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCGCAT
* * *
79614106 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
*
79614149 CCATAAGTGAACTCGGAATCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
79614185 ACGCTCAACC
Statistics
Matches: 153, Mismatches: 13, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
44 2 0.01
45 2 0.01
46 104 0.68
47 28 0.18
48 3 0.02
49 2 0.01
50 4 0.03
51 2 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
Found at i:79616374 original size:16 final size:16
Alignment explanation
Indices: 79616353--79616386 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
79616343 CAATTCCTGT
79616353 TAATTTTCCCTAAAAA
1 TAATTTTCCCTAAAAA
*
79616369 TAATTTTCCCTGAAAA
1 TAATTTTCCCTAAAAA
79616385 TA
1 TA
79616387 GACTCATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (16 bp):
TAATTTTCCCTAAAAA
Found at i:79617456 original size:40 final size:41
Alignment explanation
Indices: 79617412--79617489 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 41
79617402 ACCGGCATTT
** *
79617412 AGCCTACTAGGTTTTAAACCTGAATTCA-TCACCGGCACGA
1 AGCCTACTAGACTTTAAACCTGAACTCATTCACCGGCACGA
* **
79617452 AGCCTGCTAGACTTTAAGTCTGAACTCATTCACCGGCA
1 AGCCTACTAGACTTTAAACCTGAACTCATTCACCGGCA
79617490 TTTCGCCTAC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
40 22 0.71
41 9 0.29
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (41 bp):
AGCCTACTAGACTTTAAACCTGAACTCATTCACCGGCACGA
Found at i:79617555 original size:43 final size:43
Alignment explanation
Indices: 79617480--79617590 Score: 163
Period size: 43 Copynumber: 2.6 Consensus size: 43
79617470 TCTGAACTCA
*
79617480 TTCACCGGCATT-TCGCCTACTAGGCTTCAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTACTAGGCTTCAAGCCCGATATCAT
* *
79617522 TTCACCGGCATTATAGCCTGCTAGGC-TCGAAGCCCGATATTAT
1 TTCACCGGCATTATAGCCTACTAGGCTTC-AAGCCCGATATCAT
*
79617565 TTCACCAGCATTATAGCCTACTAGGC
1 TTCACCGGCATTATAGCCTACTAGGC
79617591 CCAAAAACTG
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
42 14 0.23
43 48 0.77
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTACTAGGCTTCAAGCCCGATATCAT
Found at i:79624466 original size:40 final size:40
Alignment explanation
Indices: 79624429--79624653 Score: 174
Period size: 40 Copynumber: 5.7 Consensus size: 40
79624419 GCTACTCGTT
*
79624429 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
*
79624469 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* ***
79624509 CAAATGCCTTC-GGATCTTAGTACGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAACTCGCA
* * ** * *
79624549 CGAATGCCTTC-GGATC-TTAGTCAGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAACTCGCA
* * ** * * *
79624588 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
79624629 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
79624654 CATCATTCGA
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 36 0.23
40 110 0.69
41 13 0.08
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:79624647 original size:79 final size:78
Alignment explanation
Indices: 79624429--79624649 Score: 257
Period size: 79 Copynumber: 2.8 Consensus size: 78
79624419 GCTACTCGTT
* * * * *
79624429 CAAATGCCTTCGGGA-CATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTAACTCGCACAAA-GCCTTCGGGACTT-AGCCA
*
79624493 GATTTAGTAACTCGCA
63 GATTTAGTAACTAGCA
* * * *
79624509 CAAATGCCTTCGGATCTTAGTACGGATTTAGTAACTCGCACGAATGCCTTC-GGATCTTAGTCAG
1 CAAATGCCTTCGGATCTTAGTCCGGATATAGTAACTCGCAC-AAAGCCTTCGGGA-CTTAGCCAG
79624573 ATTTAGTAACTAGCA
64 ATTTAGTAACTAGCA
* * *
79624588 CGAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGATCTTAGTCCGGATATAGTAAC-TCGCACAAAGCCTTCGGGACTTAGCC
79624650 CGGACATCAT
Statistics
Matches: 119, Mismatches: 17, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
79 68 0.57
80 49 0.41
81 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (78 bp):
CAAATGCCTTCGGATCTTAGTCCGGATATAGTAACTCGCACAAAGCCTTCGGGACTTAGCCAGAT
TTAGTAACTAGCA
Found at i:79634199 original size:40 final size:40
Alignment explanation
Indices: 79634143--79634242 Score: 103
Period size: 40 Copynumber: 2.5 Consensus size: 40
79634133 GGATATAGCG
* * * *
79634143 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGG-TTATAATA
1 ACTCGCACAAATGCCTTCGGGACATAACCCGGATT-TAAGA
* * * **
79634183 GCTCGCACAAATGCCTTCAGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACATAACCCGGATTTAAGA
79634223 ACTCGCACAAATGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
79634243 ATCTTAGTCT
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
40 46 0.96
41 2 0.04
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACATAACCCGGATTTAAGA
Found at i:79638194 original size:29 final size:29
Alignment explanation
Indices: 79638160--79638237 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
79638150 GTGACGAGAT
* *
79638160 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
79638189 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
79638218 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
79638238 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:79646020 original size:29 final size:29
Alignment explanation
Indices: 79645987--79646088 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
79645977 TGACGAGATC
79645987 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
79646016 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
** * *
79646045 GGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
79646074 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
79646089 AGCTCGGAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:79659735 original size:42 final size:42
Alignment explanation
Indices: 79659628--79659745 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 42
79659618 CGGAAAGCTC
* * * *
79659628 ATACAATGCCAACGTCCCAGAC-GTGGTCTTACATGTAATCAA
1 ATACGATGCCAATGTCCCAGACAG-GGTCTTACACGAAATCAA
* *
79659670 ATATCGATGCCACTGTCCTAGACAGGGTCTTACACGAAATCAA
1 ATA-CGATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAA
79659713 ATACGATGCCAATGTCCCAGACATGGG-CTTACA
1 ATACGATGCCAATGTCCCAGACA-GGGTCTTACA
79659746 TGTGACAGCC
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 27 0.42
43 37 0.57
44 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACAGGGTCTTACACGAAATCAA
Found at i:79661471 original size:27 final size:28
Alignment explanation
Indices: 79661415--79661484 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
79661405 AAAATTGTAC
79661415 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
79661443 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
79661470 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
79661485 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:79661495 original size:27 final size:27
Alignment explanation
Indices: 79661415--79661496 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
79661405 AAAATTGTAC
* *
79661415 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
79661443 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
79661470 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
79661497 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:79669255 original size:15 final size:15
Alignment explanation
Indices: 79669235--79669267 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
79669225 AAGTATTGAA
79669235 TGAAAAGAAAAGAGG
1 TGAAAAGAAAAGAGG
*
79669250 TGAAAAGAAAAGTGG
1 TGAAAAGAAAAGAGG
79669265 TGA
1 TGA
79669268 TGTATGTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.33, T:0.12
Consensus pattern (15 bp):
TGAAAAGAAAAGAGG
Found at i:79669276 original size:4 final size:4
Alignment explanation
Indices: 79669267--79669305 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
79669257 AAAAGTGGTG
79669267 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
79669306 GAATTAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:79670323 original size:8 final size:8
Alignment explanation
Indices: 79670310--79670334 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
79670300 AAATTAGCCC
79670310 TCACATTT
1 TCACATTT
79670318 TCACATTT
1 TCACATTT
79670326 TCACATTT
1 TCACATTT
79670334 T
1 T
79670335 GACACTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (8 bp):
TCACATTT
Found at i:79680123 original size:49 final size:49
Alignment explanation
Indices: 79680043--79680171 Score: 188
Period size: 49 Copynumber: 2.6 Consensus size: 49
79680033 GATGCCAACG
* *
79680043 CCATGTCCCAAACATGGTCTTACACTAGCTTTCATATAGTGAG-GTTGATT
1 CCATGTCCCAAACA-GGTCTTACACTAGCTTTCATATA-TCAGTGTCGATT
* *
79680093 CCATGTCCCAAACAGGTCTTACACTGGCTTTCATCTATCAGTGTCGATT
1 CCATGTCCCAAACAGGTCTTACACTAGCTTTCATATATCAGTGTCGATT
*
79680142 CCATGTCCCAGACAGGTCTTACACTAGCTT
1 CCATGTCCCAAACAGGTCTTACACTAGCTT
79680172 GTATATCGCG
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
48 3 0.04
49 55 0.76
50 14 0.19
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (49 bp):
CCATGTCCCAAACAGGTCTTACACTAGCTTTCATATATCAGTGTCGATT
Found at i:79680252 original size:46 final size:46
Alignment explanation
Indices: 79680187--79680309 Score: 149
Period size: 46 Copynumber: 2.7 Consensus size: 46
79680177 TCGCGGGACC
* * *
79680187 GATGCATGTCCCATACATGTCTTACACTAGCTCTCGTCTCAATGCTT
1 GATGAATGTCCCAGACATGTCTTACACTAGCTCTCATCT-AATGCTT
* * ** *
79680234 -ATGAATGTCCCAGACATGTCTTACACTGGCTCTCATGTTGTGGTT
1 GATGAATGTCCCAGACATGTCTTACACTAGCTCTCATCTAATGCTT
*
79680279 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGAATGTCCCAGACATGTCTTACACTAGC
79680310 ACACATATCA
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
45 4 0.06
46 61 0.94
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.33
Consensus pattern (46 bp):
GATGAATGTCCCAGACATGTCTTACACTAGCTCTCATCTAATGCTT
Found at i:79682454 original size:21 final size:24
Alignment explanation
Indices: 79682425--79682470 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
79682415 TTTTACCTAA
*
79682425 AACATGTTTTTC-TAAAAAT-ACG
1 AACATGTTTTCCTTAAAAATGACG
79682447 AACA-GTTTTCCTTAAAAATGACG
1 AACATGTTTTCCTTAAAAATGACG
79682470 A
1 A
79682471 TTTTTCCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 6 0.29
22 11 0.52
23 4 0.19
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (24 bp):
AACATGTTTTCCTTAAAAATGACG
Found at i:79689717 original size:29 final size:29
Alignment explanation
Indices: 79689676--79689731 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
79689666 AAAGATAACA
*
79689676 AGAAAACCGAATAAAGAAATCCAAGATTG
1 AGAAAACCAAATAAAGAAATCCAAGATTG
*
79689705 AGAAACCCAAATAAAGAAATCCAAGAT
1 AGAAAACCAAATAAAGAAATCCAAGAT
79689732 AGATACTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.57, C:0.16, G:0.14, T:0.12
Consensus pattern (29 bp):
AGAAAACCAAATAAAGAAATCCAAGATTG
Found at i:79689728 original size:14 final size:14
Alignment explanation
Indices: 79689675--79689728 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
79689665 TAAAGATAAC
* *
79689675 AAGAAAACCGAATA
1 AAGAAATCCAAATA
*
79689689 AAGAAATCCAAGATT
1 AAGAAATCCAA-ATA
* *
79689704 GAGAAACCCAAATA
1 AAGAAATCCAAATA
79689718 AAGAAATCCAA
1 AAGAAATCCAA
79689729 GATAGATACT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
14 20 0.65
15 11 0.35
ACGTcount: A:0.59, C:0.17, G:0.13, T:0.11
Consensus pattern (14 bp):
AAGAAATCCAAATA
Found at i:79692667 original size:42 final size:42
Alignment explanation
Indices: 79692621--79692734 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 42
79692611 TGTAACCCGC
*
79692621 CCATAAGTGAACTCGGACTCAACTCAGCTCAGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAGCTCAGACATTCGCAT
* * **
79692663 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCAGATGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACT---C-AGCTCAGACATTCGCAT
79692709 CCATAAGTGAACTCGGACTCAACTCA
1 CCATAAGTGAACTCGGACTCAACTCA
79692735 ACGAGTTTGG
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
42 24 0.39
43 1 0.02
45 1 0.02
46 36 0.58
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.22
Consensus pattern (42 bp):
CCATAAGTGAACTCGGACTCAACTCAGCTCAGACATTCGCAT
Found at i:79696948 original size:20 final size:21
Alignment explanation
Indices: 79696911--79696958 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
79696901 ATATATGTAT
*
79696911 TTAATTATTAATAGATATTTA
1 TTAATTATTAAAAGATATTTA
79696932 TTAATTA-TAAAAGATATTTA
1 TTAATTATTAAAAGATATTTA
79696952 TTAATTA
1 TTAATTA
79696959 AATAATTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (21 bp):
TTAATTATTAAAAGATATTTA
Found at i:79699761 original size:35 final size:35
Alignment explanation
Indices: 79699670--79699767 Score: 108
Period size: 35 Copynumber: 2.8 Consensus size: 35
79699660 GATGCTCATA
* * * *
79699670 AAGAGCCAATCCAACCGAAACTCACCAATGCTTAT
1 AAGAGCTAATCCAACCGAAACACACCAATGATTAC
* * *
79699705 AAGAACTAATGCC-TCCTAAACACACCAATGATTAC
1 AAGAGCTAAT-CCAACCGAAACACACCAATGATTAC
*
79699740 AAGAGCTAGTCCAACCGAAACACACCAA
1 AAGAGCTAATCCAACCGAAACACACCAA
79699768 ACAGAGAGTA
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
34 2 0.04
35 46 0.92
36 2 0.04
ACGTcount: A:0.43, C:0.31, G:0.11, T:0.15
Consensus pattern (35 bp):
AAGAGCTAATCCAACCGAAACACACCAATGATTAC
Found at i:79703819 original size:16 final size:16
Alignment explanation
Indices: 79703800--79703832 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
79703790 ATTTTAACTT
79703800 AGTTTTATTTATTATA
1 AGTTTTATTTATTATA
79703816 AGTTTTATTTATTATA
1 AGTTTTATTTATTATA
79703832 A
1 A
79703833 CCTTATTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (16 bp):
AGTTTTATTTATTATA
Found at i:79708629 original size:41 final size:42
Alignment explanation
Indices: 79708566--79708686 Score: 140
Period size: 41 Copynumber: 2.9 Consensus size: 42
79708556 ATGCTATCTC
* * * *
79708566 ATATC-ATGCCACTGTCCTAGACAAGGTCTTACACGAATCAA
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAACCAA
* * *
79708607 ATAT-GACT-TCGATGTCCCAGACATGGTCTTACACGTAACCAC
1 ATATCGA-TGCCAATGTCCCAGACATGGTCTTACACG-AACCAA
79708649 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAA
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAA
79708687 AACACATATT
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
41 27 0.41
42 12 0.18
43 27 0.41
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (42 bp):
ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAACCAA
Found at i:79708671 original size:43 final size:43
Alignment explanation
Indices: 79708529--79708695 Score: 155
Period size: 43 Copynumber: 4.0 Consensus size: 43
79708519 ATATCATACA
* * * * *
79708529 ATGCCAACGTCCTAGACGTGGTCTTACATGCT-ATCTCATATC-
1 ATGCCAATGTCCCAGACATGGTCTTACACG-TAATCACATATCG
* * * *
79708571 ATGCCACTGTCCTAGACAAGGTCTTACACG-AATCAAATAT-G
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * *
79708612 ACT-TCGATGTCCCAGACATGGTCTTACACGTAACCACATATCG
1 A-TGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
* *
79708655 ATGCCAATGTCCCAGACATGGTCTTACACGAAAACACATAT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT
79708696 TGGATCCTAT
Statistics
Matches: 101, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
41 30 0.30
42 35 0.35
43 36 0.36
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:79720103 original size:39 final size:39
Alignment explanation
Indices: 79720037--79720196 Score: 257
Period size: 39 Copynumber: 4.1 Consensus size: 39
79720027 AATTATATTA
* * *
79720037 CCAGCACAAAGTCTGCGGGACTTTAGCCCAGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
79720076 CCAACACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
79720115 CCAGCACGAAGCCTGCGGGACTTTAGCCCGAATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
79720154 CCAGCACGAAGCCTGCGGGACTTTAGCCTGGATACATCT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
79720193 CCAG
1 CCAG
79720197 TGTCTTGAAT
Statistics
Matches: 112, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 112 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:79723351 original size:13 final size:13
Alignment explanation
Indices: 79723333--79723357 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79723323 TAATGGTATA
79723333 TTGAATCCATGAT
1 TTGAATCCATGAT
79723346 TTGAATCCATGA
1 TTGAATCCATGA
79723358 AAATTTAGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:79724920 original size:48 final size:48
Alignment explanation
Indices: 79724861--79725370 Score: 966
Period size: 48 Copynumber: 10.6 Consensus size: 48
79724851 AAAGTGTAAT
79724861 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
*
79724909 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
79724957 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
*
79725005 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
79725053 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
79725101 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
79725149 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
*
79725197 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGTTATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
79725245 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
* * *
79725293 TATGTGGTAAAGCAGAATGGCTAATGTGAAATATATGTGTGATATGAA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
79725341 TATGTGGTAAAGCCGAATGGCTAATGTGAA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAA
79725371 TGTTGTAACA
Statistics
Matches: 452, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 452 1.00
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.32
Consensus pattern (48 bp):
TATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATGTA
Found at i:79725464 original size:36 final size:37
Alignment explanation
Indices: 79725415--79725499 Score: 154
Period size: 36 Copynumber: 2.3 Consensus size: 37
79725405 GGAAATATAT
*
79725415 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTATG
79725452 T-CGGGTAAGACCCGATGACTACGTGTAGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTATG
79725488 TCCGGGTAAGAC
1 TCCGGGTAAGAC
79725500 TTCGTAATAA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
36 35 0.76
37 11 0.24
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTAGAGATTATG
Found at i:79727466 original size:40 final size:40
Alignment explanation
Indices: 79727420--79727680 Score: 271
Period size: 40 Copynumber: 6.5 Consensus size: 40
79727410 TGAATGATAC
** *
79727420 CCGGGCTAAGTCCCGAAG-GCATTTATGCTAGTGAATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG-ATGTAT
* * * * *
79727460 CCGGGCTAAGACCCGAAG-GCATTTGTG-TGAGTTGTTATAC
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AG-TGATGTAT
* *
79727500 CCGGGTTAAGACCCGAAG-GCAATT-GTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGC-ATTCGTGCTAGTGATGTAT
* *
79727539 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
* * * *
79727579 CCGGACTAAGTTCTGAGGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
* * *
79727619 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGCAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
79727659 CCGGGCTAGGTCCCGAAGAGCA
1 CCGGGCTAAGTCCCGAAGAGCA
79727681 ATCATGCTGG
Statistics
Matches: 195, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
39 23 0.12
40 166 0.85
41 6 0.03
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
Found at i:79729840 original size:13 final size:13
Alignment explanation
Indices: 79729822--79729846 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79729812 TAATGGTATA
79729822 TTGAATCCATGAT
1 TTGAATCCATGAT
79729835 TTGAATCCATGA
1 TTGAATCCATGA
79729847 AAATTTAGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Done.