Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 237 of 322
Found at i:78919196 original size:23 final size:22
Alignment explanation
Indices: 78919144--78919196 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
78919134 TCCACGTCTT
*
78919144 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
78919166 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
78919189 TTTCTTTT
1 TTTCTTTT
78919197 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:78945552 original size:18 final size:19
Alignment explanation
Indices: 78945531--78945570 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
78945521 TTTCCACTCG
78945531 TTTCTTTTTCAAC-TTCTC
1 TTTCTTTTTCAACATTCTC
*
78945549 TTTCTTTTTCCACATTCTC
1 TTTCTTTTTCAACATTCTC
78945568 TTT
1 TTT
78945571 GTTTGTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.10, C:0.28, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTCTTTTTCAACATTCTC
Found at i:78945702 original size:18 final size:17
Alignment explanation
Indices: 78945643--78945703 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
78945633 GCACTCTTTC
*
78945643 TTTTCTTTCTCCAATCTTT
1 TTTTCTTT-TTCAAT-TTT
*
78945662 TTCTCTTTTTCAATTTT
1 TTTTCTTTTTCAATTTT
*
78945679 TGTTTCTTTTTCGATTTCT
1 T-TTTCTTTTTCAATTT-T
78945698 TTTTCT
1 TTTTCT
78945704 CTCGTCACTC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 4 0.11
18 23 0.64
19 9 0.25
ACGTcount: A:0.08, C:0.20, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTTCTTTTTCAATTTT
Found at i:78946675 original size:28 final size:27
Alignment explanation
Indices: 78946629--78946683 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
78946619 CTAGCTCTCT
78946629 TTTTTTTTTCAAATCTTTTTTTCACAA
1 TTTTTTTTTCAAATCTTTTTTTCACAA
*
78946656 TTTTTTTTTCAAATTTTTTTTTTCACAA
1 TTTTTTTTTCAAA-TCTTTTTTTCACAA
78946684 CTTGATATCC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 13 0.50
28 13 0.50
ACGTcount: A:0.22, C:0.13, G:0.00, T:0.65
Consensus pattern (27 bp):
TTTTTTTTTCAAATCTTTTTTTCACAA
Found at i:78946680 original size:14 final size:13
Alignment explanation
Indices: 78946629--78946677 Score: 80
Period size: 13 Copynumber: 3.7 Consensus size: 13
78946619 CTAGCTCTCT
78946629 TTTTTTTTTCAAA
1 TTTTTTTTTCAAA
*
78946642 TCTTTTTTTCACAA
1 TTTTTTTTTCA-AA
78946656 TTTTTTTTTCAAA
1 TTTTTTTTTCAAA
78946669 TTTTTTTTT
1 TTTTTTTTT
78946678 TCACAACTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
13 21 0.64
14 12 0.36
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTTTTTTCAAA
Found at i:78946740 original size:12 final size:12
Alignment explanation
Indices: 78946723--78946766 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
78946713 GAAACTAGTT
78946723 TTTTTTTTCGAA
1 TTTTTTTTCGAA
*
78946735 TTTTTTTTTTGAA
1 -TTTTTTTTCGAA
*
78946748 TTTTTTTTCGAG
1 TTTTTTTTCGAA
78946760 TTTTTTT
1 TTTTTTT
78946767 CGAGAAACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 17 0.61
13 11 0.39
ACGTcount: A:0.11, C:0.05, G:0.09, T:0.75
Consensus pattern (12 bp):
TTTTTTTTCGAA
Found at i:78946740 original size:13 final size:13
Alignment explanation
Indices: 78946722--78946766 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
78946712 GGAAACTAGT
78946722 TTTTTTTTTCGAA
1 TTTTTTTTTCGAA
*
78946735 TTTTTTTTTTGAA
1 TTTTTTTTTCGAA
*
78946748 -TTTTTTTTCGAG
1 TTTTTTTTTCGAA
78946760 TTTTTTT
1 TTTTTTT
78946767 CGAGAAACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 10 0.36
13 18 0.64
ACGTcount: A:0.11, C:0.04, G:0.09, T:0.76
Consensus pattern (13 bp):
TTTTTTTTTCGAA
Found at i:78960228 original size:58 final size:58
Alignment explanation
Indices: 78960138--78960247 Score: 220
Period size: 58 Copynumber: 1.9 Consensus size: 58
78960128 AGGATTTGTT
78960138 GGAGGCCTATATAAGCATTGGCCAGCCACCCTTTGTAAAAAGATCTTATTATCTATCA
1 GGAGGCCTATATAAGCATTGGCCAGCCACCCTTTGTAAAAAGATCTTATTATCTATCA
78960196 GGAGGCCTATATAAGCATTGGCCAGCCACCCTTTGTAAAAAGATCTTATTAT
1 GGAGGCCTATATAAGCATTGGCCAGCCACCCTTTGTAAAAAGATCTTATTAT
78960248 TATTTTTTTC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (58 bp):
GGAGGCCTATATAAGCATTGGCCAGCCACCCTTTGTAAAAAGATCTTATTATCTATCA
Found at i:78962601 original size:23 final size:22
Alignment explanation
Indices: 78962550--78962601 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
78962540 CCTCGTCTTT
*
78962550 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
78962572 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
78962595 TTCTTTT
1 TTCTTTT
78962602 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:78971978 original size:23 final size:22
Alignment explanation
Indices: 78971926--78971978 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
78971916 TCCTTGTCTT
*
78971926 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
* *
78971948 CTTATTTTCTCTTCTTTCTTC-AA
1 TTTCTTTTCT-TTCTTT-TTCTAA
78971971 TTTCTTTT
1 TTTCTTTT
78971979 TCACTTTTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 7 0.29
23 14 0.58
24 3 0.12
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:78971992 original size:18 final size:18
Alignment explanation
Indices: 78971971--78972010 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
78971961 CTTTCTTCAA
* * *
78971971 TTTCTTTTTCACTTTTCT
1 TTTCTGTTTCACATTCCT
78971989 TTTCTGTTTCACATTCCT
1 TTTCTGTTTCACATTCCT
78972007 TTTC
1 TTTC
78972011 ACTCTCAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.07, C:0.25, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTCTGTTTCACATTCCT
Found at i:78973846 original size:91 final size:91
Alignment explanation
Indices: 78973691--78973874 Score: 323
Period size: 91 Copynumber: 2.0 Consensus size: 91
78973681 ATCTGAAATA
* * *
78973691 AAATCCCCAAATTAGCAAAGAATCAAATTGAGAATAGAAATACGTGTTAATAAGGGTTCTTGAAA
1 AAATCCCCAAATCAACAAAGAATCAAATTGAGAATAGAAATAAGTGTTAATAAGGGTTCTTGAAA
*
78973756 CCCTAAAGGAGATTGCGATTCTGTCC
66 CCCTAAAGGAGATTGCGATTCTGCCC
78973782 AAATCCCCAAATCAACAAAGAATCAAATTGAGAATAGAAATAAGTGTTAATAAGGGTTCTTGAAA
1 AAATCCCCAAATCAACAAAGAATCAAATTGAGAATAGAAATAAGTGTTAATAAGGGTTCTTGAAA
*
78973847 CCTTAAAGGAGATTGCGATTCTGCCC
66 CCCTAAAGGAGATTGCGATTCTGCCC
78973873 AA
1 AA
78973875 TTGAACACCA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 88 1.00
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.24
Consensus pattern (91 bp):
AAATCCCCAAATCAACAAAGAATCAAATTGAGAATAGAAATAAGTGTTAATAAGGGTTCTTGAAA
CCCTAAAGGAGATTGCGATTCTGCCC
Found at i:78980814 original size:23 final size:23
Alignment explanation
Indices: 78980784--78980872 Score: 160
Period size: 23 Copynumber: 3.9 Consensus size: 23
78980774 ATGGTTTGGG
*
78980784 TTTGGTACGAAATGGTAATGTAA
1 TTTGGTACGAAATGGAAATGTAA
78980807 TTTGGTACGAAATGGAAATGTAA
1 TTTGGTACGAAATGGAAATGTAA
78980830 TTTGGTACGAAATGGAAATGTAA
1 TTTGGTACGAAATGGAAATGTAA
*
78980853 TTTGGTTCGAAATGGAAATG
1 TTTGGTACGAAATGGAAATG
78980873 GTTCAAAAAG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 64 1.00
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.33
Consensus pattern (23 bp):
TTTGGTACGAAATGGAAATGTAA
Found at i:78982001 original size:45 final size:45
Alignment explanation
Indices: 78981934--78982079 Score: 238
Period size: 45 Copynumber: 3.2 Consensus size: 45
78981924 CGGCATGAAA
*
78981934 TTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGGAGAAT
1 TTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAAT
*
78981979 TTGAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAAT
1 TTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAAT
* * * *
78982024 TTAAGGAAGCATTTGGCCAACATCATGCATAATTTATGGAACAAA
1 TTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAAT
78982069 TTAAGGAAGCA
1 TTAAGGAAGCA
78982080 CCATGGCCGA
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 94 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (45 bp):
TTAAGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAAT
Found at i:78982373 original size:24 final size:24
Alignment explanation
Indices: 78982341--78982390 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
78982331 GAGGTTCCTA
78982341 TCATACTTGATAGTGGGTCAAGGT
1 TCATACTTGATAGTGGGTCAAGGT
78982365 TCATACTTGATAGTGGGTCAAGGT
1 TCATACTTGATAGTGGGTCAAGGT
78982389 TC
1 TC
78982391 CATTCTATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (24 bp):
TCATACTTGATAGTGGGTCAAGGT
Found at i:78986332 original size:79 final size:81
Alignment explanation
Indices: 78986196--78986380 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
78986186 TTGAATGATG
* * *
78986196 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGCGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
78986260 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
78986275 TTCCGGGCTAAG-CCCGAAGGCATTTGCGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGCGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
78986337 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
78986355 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
78986381 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 32 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGCGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:78986387 original size:40 final size:39
Alignment explanation
Indices: 78986197--78986380 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
78986187 TGAATGATGT
* * * *
78986197 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
78986237 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
78986277 CCGGGCTAAG-CCCGAAGGCATTTGCGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
78986315 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
78986356 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
78986381 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:78986402 original size:79 final size:79
Alignment explanation
Indices: 78986249--78986413 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
78986239 GGACTAAGAT
* * **
78986249 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGCGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
78986314 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
78986328 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
78986391 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
78986407 CCGAAGG
1 CCGAAGG
78986414 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:78994032 original size:93 final size:93
Alignment explanation
Indices: 78993873--78994072 Score: 256
Period size: 93 Copynumber: 2.2 Consensus size: 93
78993863 CACGGGCGTC
* * * * *
78993873 TGACACGACCATGCCCACCTACCATGGTCGAGCCTGTCAAAATAACACGGGCGTGCACCTGCATA
1 TGACACGACCGTGCCCACCGACCATGGTCGAGCCTATCAAAATAACACGGGCGTACACCTCCATA
*
78993938 CACGGGCGTGGGAGAGGATAACGAAGAT
66 CACGGGCGTGGGAGAGGAGAACGAAGAT
* * * **
78993966 TGACAAGACCGTGCCCACCGATCGTGGTCGAGCCTATCAAAATAACACGGGCGTATGCCTCCATA
1 TGACACGACCGTGCCCACCGACCATGGTCGAGCCTATCAAAATAACACGGGCGTACACCTCCATA
* * * *
78994031 CATGGGTGTTGGAGAGGCGAACGAAGAT
66 CACGGGCGTGGGAGAGGAGAACGAAGAT
*
78994059 TGACACGGCCGTGC
1 TGACACGACCGTGC
78994073 AACATGGCTG
Statistics
Matches: 90, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
93 90 1.00
ACGTcount: A:0.28, C:0.27, G:0.29, T:0.17
Consensus pattern (93 bp):
TGACACGACCGTGCCCACCGACCATGGTCGAGCCTATCAAAATAACACGGGCGTACACCTCCATA
CACGGGCGTGGGAGAGGAGAACGAAGAT
Found at i:78996643 original size:27 final size:27
Alignment explanation
Indices: 78996613--78996679 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
78996603 CTAAGACAAA
78996613 TCTAAGATGTTTTGTATTCATTATTCT
1 TCTAAGATGTTTTGTATTCATTATTCT
78996640 TCTAAGATGTTTTGTATTCATTATTCT
1 TCTAAGATGTTTTGTATTCATTATTCT
*
78996667 TCTGAGATGTTTT
1 TCTAAGATGTTTT
78996680 ATTAATCTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.21, C:0.10, G:0.13, T:0.55
Consensus pattern (27 bp):
TCTAAGATGTTTTGTATTCATTATTCT
Found at i:79004073 original size:38 final size:38
Alignment explanation
Indices: 79004031--79004106 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
79004021 CAAGAACTCC
79004031 TTCCTCCTTCCTTAG-ATATTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAAT-TTTCGGCCAAAAGAAATGAA
*
79004069 TTCCTCCTTCCTTAGAATTTTCGGGCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
79004107 AAAGGATGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
38 34 0.94
39 2 0.06
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:79010805 original size:40 final size:41
Alignment explanation
Indices: 79010759--79010863 Score: 122
Period size: 41 Copynumber: 2.6 Consensus size: 41
79010749 CTCGCACAAG
* * * * **
79010759 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAATT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTTAGCACAAAA
* * *
79010799 GCCTTCGGGACTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTTAGCACAAAA
79010840 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
79010864 CATTCGAGTA
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
40 24 0.45
41 29 0.55
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.27
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTTAGCACAAAA
Found at i:79012094 original size:38 final size:38
Alignment explanation
Indices: 79012052--79012127 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
79012042 CAAGAACTCC
79012052 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
*
79012090 TTCCTCCTTCCTTAGAATTTTCGGGCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
79012128 AAAGGATGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:79016676 original size:47 final size:47
Alignment explanation
Indices: 79016616--79016781 Score: 198
Period size: 47 Copynumber: 3.6 Consensus size: 47
79016606 ATCCATAAGT
* *
79016616 GAACTCGGGCTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATCTCAC
* * * *
79016663 GAACTCAGACTCAACTCAACGAGTTCAGA---C--GTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT-C-TCA-C
*
79016709 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATCTCAC
79016756 GAACTCGGACTCAACTCAACGAGTTC
1 GAACTCGGACTCAACTCAACGAGTTC
79016782 GGACGTTTGC
Statistics
Matches: 99, Mismatches: 11, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 2 0.02
46 27 0.27
47 52 0.53
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:79016702 original size:93 final size:93
Alignment explanation
Indices: 79016570--79016834 Score: 433
Period size: 93 Copynumber: 2.9 Consensus size: 93
79016560 CGCCCATAAG
* * *
79016570 CGAACTCAGACTCAACT-AACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGGCTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
79016634 ACGAGCTCAGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
79016662 CGAACTCAGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
79016727 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* * *
79016755 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTTGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
79016820 ACAAGCTCGGATGCC
66 ACGAGCTCGGATGCC
79016835 CAAATATCCG
Statistics
Matches: 160, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
92 17 0.11
93 143 0.89
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:79016830 original size:46 final size:46
Alignment explanation
Indices: 79016563--79016830 Score: 217
Period size: 46 Copynumber: 5.8 Consensus size: 46
79016553 TGTAACCCGC
* *
79016563 CCATAAGCGAACTCAGACTCAACT-AACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACGTTTGCAT
* * * * * *
79016608 CCATAAGTGAACTCGGGCTCAACTCAACGAGCTCAGATGCCTAGTTACAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGA--CGT--TTGCAT
* * * *
79016658 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCAGACGTTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACGTTTGCAT
* * * * *
79016701 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGA--CGT--TTGCAT
* * *
79016751 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTTGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACGTTTGCAT
* *
79016794 CCATAAGTGAACTCAGACTCAACTCAACAAGCTCGGA
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGA
79016831 TGCCCAAATA
Statistics
Matches: 176, Mismatches: 32, Indels: 29
0.74 0.14 0.12
Matches are distributed among these distances:
43 9 0.05
44 2 0.01
45 29 0.16
46 63 0.36
47 55 0.31
48 8 0.05
49 2 0.01
50 8 0.05
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACGTTTGCAT
Found at i:79022756 original size:21 final size:21
Alignment explanation
Indices: 79022723--79022773 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
79022713 TCCATAATTC
*
79022723 TTTAGCTTAAACTATTTAAATA
1 TTTA-CTTGAACTATTTAAATA
79022745 TTTACTTGAACTATTTAAATA
1 TTTACTTGAACTATTTAAATA
79022766 TTTACTTG
1 TTTACTTG
79022774 TGAACTTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 24 0.86
22 4 0.14
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.49
Consensus pattern (21 bp):
TTTACTTGAACTATTTAAATA
Found at i:79023338 original size:39 final size:39
Alignment explanation
Indices: 79023214--79023338 Score: 111
Period size: 39 Copynumber: 3.4 Consensus size: 39
79023204 TGGTAATTCT
* * *
79023214 AACTAGAGCTGGGCTCACTATTTATTCGTCGATTTATCC
1 AACTAGAGCTGGGCTCACTAATTATTCGTTGGTTTATCC
* * * *
79023253 AACT--AGCTAGG-TGGA--AA-TA-TCATTGGTATATCC
1 AACTAGAGCTGGGCT-CACTAATTATTCGTTGGTTTATCC
*
79023286 AACTAGAGTTGGGCTCACTAATTATTCGTTGGTTTATCC
1 AACTAGAGCTGGGCTCACTAATTATTCGTTGGTTTATCC
*
79023325 AACTAGCGCTGGGC
1 AACTAGAGCTGGGC
79023339 GCAACTTTCA
Statistics
Matches: 64, Mismatches: 14, Indels: 16
0.68 0.15 0.17
Matches are distributed among these distances:
33 14 0.22
34 2 0.03
35 7 0.11
36 2 0.03
37 9 0.14
38 2 0.03
39 28 0.44
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.33
Consensus pattern (39 bp):
AACTAGAGCTGGGCTCACTAATTATTCGTTGGTTTATCC
Found at i:79027167 original size:40 final size:39
Alignment explanation
Indices: 79027123--79027227 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
79027113 AGTGACCATA
*
79027123 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
79027163 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
79027201 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
79027228 AACGAGTAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:79027184 original size:39 final size:40
Alignment explanation
Indices: 79027083--79027246 Score: 169
Period size: 40 Copynumber: 4.1 Consensus size: 40
79027073 TTGAATGATG
* *
79027083 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
79027123 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
79027162 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* * **
79027202 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATA
79027242 TCCGG
1 TCCGG
79027247 TTAAATTCCG
Statistics
Matches: 106, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
39 36 0.34
40 59 0.56
41 10 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:79027246 original size:79 final size:80
Alignment explanation
Indices: 79027083--79027233 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
79027073 TTGAATGATG
*
79027083 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
79027148 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
79027163 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
79027225 TTGAACGAG
64 TTGAACGAG
79027234 TAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:79029649 original size:21 final size:21
Alignment explanation
Indices: 79029623--79029687 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
79029613 TGAGATGATG
79029623 TGGGCCGGTCTAGAGGCACTT
1 TGGGCCGGTCTAGAGGCACTT
** * *
79029644 TGGGCCTTTTTA-A-G-A-TG
1 TGGGCCGGTCTAGAGGCACTT
79029661 TGGGCCGGTCTAGAGGCACTT
1 TGGGCCGGTCTAGAGGCACTT
*
79029682 CGGGCC
1 TGGGCC
79029688 TTTTTAGACG
Statistics
Matches: 31, Mismatches: 9, Indels: 8
0.65 0.19 0.17
Matches are distributed among these distances:
17 10 0.32
18 2 0.06
19 2 0.06
20 2 0.06
21 15 0.48
ACGTcount: A:0.14, C:0.23, G:0.37, T:0.26
Consensus pattern (21 bp):
TGGGCCGGTCTAGAGGCACTT
Found at i:79029661 original size:38 final size:38
Alignment explanation
Indices: 79029619--79029693 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
79029609 ATTTTGAGAT
*
79029619 GATGTGGGCCGGTCTAGAGGCACTTTGGGCCTTTTTAA
1 GATGTGGGCCGGTCTAGAGGCACTTCGGGCCTTTTTAA
79029657 GATGTGGGCCGGTCTAGAGGCACTTCGGGCCTTTTTA
1 GATGTGGGCCGGTCTAGAGGCACTTCGGGCCTTTTTA
79029694 GACGAGATCG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.15, C:0.20, G:0.35, T:0.31
Consensus pattern (38 bp):
GATGTGGGCCGGTCTAGAGGCACTTCGGGCCTTTTTAA
Found at i:79035548 original size:40 final size:40
Alignment explanation
Indices: 79035484--79035735 Score: 310
Period size: 40 Copynumber: 6.3 Consensus size: 40
79035474 CATTTGAATG
* * *
79035484 ATATCCGGGCTAAGTCCCGGAGGCATTTGCGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
79035524 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
79035564 TTATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
79035604 TTATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * *
79035644 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * * *
79035684 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
79035724 ATATCC-GGCTAA
1 ATATCCGGGCTAA
79035736 ATTCCGAAGA
Statistics
Matches: 187, Mismatches: 23, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
39 7 0.04
40 177 0.95
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:79046370 original size:37 final size:37
Alignment explanation
Indices: 79046320--79046398 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
79046310 TTATTACGAA
* * * *
79046320 GTCTTACCCGGACATAATCTCCACACGAATTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
79046357 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
79046394 GTCTT
1 GTCTT
79046399 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:79053146 original size:21 final size:21
Alignment explanation
Indices: 79053121--79053160 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
79053111 CTTGCGTTTG
*
79053121 TTCATT-TTTTCCTCTATTTTC
1 TTCATTCTTTTACT-TATTTTC
79053142 TTCATTCTTTTACTTATTT
1 TTCATTCTTTTACTTATTT
79053161 CATGATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.12, C:0.20, G:0.00, T:0.68
Consensus pattern (21 bp):
TTCATTCTTTTACTTATTTTC
Found at i:79058698 original size:44 final size:44
Alignment explanation
Indices: 79058647--79058734 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
79058637 ATATATATAA
79058647 GGCATCCGAGCTCGTTGAGTTGGTCCAAGTTCACT-ATGGATGCG
1 GGCATCCGAGCTCGTTGAGTTGGTCCAAGTTCA-TAATGGATGCG
*
79058691 GGCATCCGAGCTCGTTGAGTTGGTCCGAGTTCATAATGGATGCG
1 GGCATCCGAGCTCGTTGAGTTGGTCCAAGTTCATAATGGATGCG
79058735 ATACAAGTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
43 1 0.02
44 41 0.98
ACGTcount: A:0.18, C:0.22, G:0.33, T:0.27
Consensus pattern (44 bp):
GGCATCCGAGCTCGTTGAGTTGGTCCAAGTTCATAATGGATGCG
Found at i:79062907 original size:64 final size:63
Alignment explanation
Indices: 79062724--79062908 Score: 174
Period size: 67 Copynumber: 2.9 Consensus size: 63
79062714 CATATAGTTC
* * * * * *
79062724 AGCTCTCTTGTACACATGGTGAACACTAAGTACCACCCATGTGACCTAGCCA-ATTTATCTCGT
1 AGCTCTCTTGTATACATGGTGTACACT-AGTACCACCCATGCGACCTAGCTACATATATCCCGT
* * * * * * * *
79062787 AGCTCTTTTGTCTACATGCTGTCCTTCACCTGGAACCACACATGCGACCTACCTACATATATCCC
1 AGCTCTCTTGTATACATG--GT-GTACA-CTAGTACCACCCATGCGACCTAGCTACATATATCCC
79062852 GT
62 GT
*
79062854 AGCTCTCTTGTATACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 AGCTCTCTTGTATACATGGTGTACAC-TAGTACCACCCATGCGACCTAGCTACAT
79062909 CATAATGTCT
Statistics
Matches: 93, Mismatches: 23, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
63 16 0.17
64 26 0.28
65 4 0.04
66 20 0.22
67 27 0.29
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.29
Consensus pattern (63 bp):
AGCTCTCTTGTATACATGGTGTACACTAGTACCACCCATGCGACCTAGCTACATATATCCCGT
Found at i:79072462 original size:21 final size:21
Alignment explanation
Indices: 79072438--79072478 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
79072428 CTTCAATCTG
*
79072438 TCCTCTTCCTTCCCCTCCTCT
1 TCCTCTTCCTCCCCCTCCTCT
79072459 TCCTCTTCCTCCCCCTCCTC
1 TCCTCTTCCTCCCCCTCCTC
79072479 CTTCTCCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (21 bp):
TCCTCTTCCTCCCCCTCCTCT
Found at i:79076978 original size:18 final size:19
Alignment explanation
Indices: 79076941--79076978 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
79076931 GCTTTATACA
79076941 AAGTCAAAAATTCTATATG
1 AAGTCAAAAATTCTATATG
79076960 AAGTCAAAAATTCTA-ATG
1 AAGTCAAAAATTCTATATG
79076978 A
1 A
79076979 GTCCTTGGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.29
Consensus pattern (19 bp):
AAGTCAAAAATTCTATATG
Found at i:79081698 original size:19 final size:19
Alignment explanation
Indices: 79081671--79081709 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
79081661 CGTCACACAC
*
79081671 GGCCTAGCCACATGCCCGT
1 GGCCAAGCCACATGCCCGT
79081690 GGCCAAGCCACATGCCCGT
1 GGCCAAGCCACATGCCCGT
79081709 G
1 G
79081710 TGTCTAACTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.18, C:0.41, G:0.28, T:0.13
Consensus pattern (19 bp):
GGCCAAGCCACATGCCCGT
Found at i:79084448 original size:22 final size:22
Alignment explanation
Indices: 79084423--79084490 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
79084413 ACTCACAAAG
79084423 TCCATTGTTACTCTTTCCCACT
1 TCCATTGTTACTCTTTCCCACT
* ** *
79084445 TCCATAGCGGAAT-TTT--CAC-
1 TCCATTG-TTACTCTTTCCCACT
*
79084464 TCCATTGTTCCTCTTTCCCACT
1 TCCATTGTTACTCTTTCCCACT
79084486 TCCAT
1 TCCAT
79084491 AGCGGAATTT
Statistics
Matches: 32, Mismatches: 9, Indels: 10
0.63 0.18 0.20
Matches are distributed among these distances:
18 1 0.03
19 9 0.28
20 3 0.09
21 3 0.09
22 14 0.44
23 2 0.06
ACGTcount: A:0.16, C:0.35, G:0.07, T:0.41
Consensus pattern (22 bp):
TCCATTGTTACTCTTTCCCACT
Found at i:79084480 original size:41 final size:41
Alignment explanation
Indices: 79084423--79084504 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
79084413 ACTCACAAAG
79084423 TCCATTGTTACTCTTTCCCACTTCCATAGCGGAATTTTCAC
1 TCCATTGTTACTCTTTCCCACTTCCATAGCGGAATTTTCAC
*
79084464 TCCATTGTTCCTCTTTCCCACTTCCATAGCGGAATTTTCAC
1 TCCATTGTTACTCTTTCCCACTTCCATAGCGGAATTTTCAC
79084505 AGGTTGCAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.18, C:0.33, G:0.10, T:0.39
Consensus pattern (41 bp):
TCCATTGTTACTCTTTCCCACTTCCATAGCGGAATTTTCAC
Found at i:79084502 original size:22 final size:22
Alignment explanation
Indices: 79084436--79084502 Score: 52
Period size: 22 Copynumber: 3.2 Consensus size: 22
79084426 ATTGTTACTC
79084436 TTTCCCACTTCCATAGCGGAAT
1 TTTCCCACTTCCATAGCGGAAT
* ****
79084458 TTT--CAC-TCCATTG-TTCCT
1 TTTCCCACTTCCATAGCGGAAT
79084476 CTTTCCCACTTCCATAGCGGAAT
1 -TTTCCCACTTCCATAGCGGAAT
79084499 TTTC
1 TTTC
79084503 ACAGGTTGCA
Statistics
Matches: 30, Mismatches: 10, Indels: 10
0.60 0.20 0.20
Matches are distributed among these distances:
18 1 0.03
19 9 0.30
20 3 0.10
21 3 0.10
22 13 0.43
23 1 0.03
ACGTcount: A:0.18, C:0.33, G:0.10, T:0.39
Consensus pattern (22 bp):
TTTCCCACTTCCATAGCGGAAT
Found at i:79089621 original size:52 final size:51
Alignment explanation
Indices: 79089543--79089647 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 51
79089533 TACTGAGATC
79089543 TCTTCCGATGTCCTACAATTGATTAGCATAGTTCTTATTTACAAACCATAA
1 TCTTCCGATGTCCTACAATTGATTAGCATAGTTCTTATTTACAAACCATAA
*
79089594 NTCTTCCGATGTCCTACGATTGATTAGCATAGTTCTTATTTACAAACCATAA
1 -TCTTCCGATGTCCTACAATTGATTAGCATAGTTCTTATTTACAAACCATAA
79089646 TC
1 TC
79089648 ACTAAACCCC
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 2 0.04
52 50 0.96
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.37
Consensus pattern (51 bp):
TCTTCCGATGTCCTACAATTGATTAGCATAGTTCTTATTTACAAACCATAA
Found at i:79093028 original size:17 final size:18
Alignment explanation
Indices: 79092998--79093033 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
79092988 AAATAATTGA
79092998 TTAATATTGAAAATAAAT
1 TTAATATTGAAAATAAAT
*
79093016 TTAA-ATTGGAAATAAAT
1 TTAATATTGAAAATAAAT
79093033 T
1 T
79093034 CAGAATTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TTAATATTGAAAATAAAT
Found at i:79093891 original size:15 final size:16
Alignment explanation
Indices: 79093866--79093898 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
79093856 ATTTAATATA
79093866 AAATCAAAAATAAAAT
1 AAATCAAAAATAAAAT
79093882 AAAT-AAAAATAAAAT
1 AAATCAAAAATAAAAT
79093897 AA
1 AA
79093899 GATTTTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (16 bp):
AAATCAAAAATAAAAT
Found at i:79096293 original size:47 final size:47
Alignment explanation
Indices: 79096187--79096542 Score: 184
Period size: 47 Copynumber: 7.6 Consensus size: 47
79096177 GCACCACTGC
* * * *
79096187 AAGA-CATGTTTGGGACAT-GCTTCGGCCATATTATGAGAGCCAGTGT
1 AAGACCATGTCTGGGACATGGCATCGG-CATATGATGAGAGCCAATGT
* * * *
79096233 AAGACCATTTCTGGGACATGGCATCGGTATCCA-GATGAGGGCTAATGT
1 AAGACCATGTCTGGGACATGGCATCGGCAT--ATGATGAGAGCCAATGT
* * *
79096281 AAGA-CATGTCTGGGACAT-GCATCAGCCATATTATGAGAGCCAGTGT
1 AAGACCATGTCTGGGACATGGCATC-GGCATATGATGAGAGCCAATGT
* * * *
79096327 AAGACCATGTCTGGGACATGGCATCGGCACAGAGATAAGCGCCAGA-GT
1 AAGACCATGTCTGGGACATGGCATCGGCATA-TGATGAGAGCCA-ATGT
* * ** * *
79096375 AAGA-CATGTTTGGGACAT-GCATCGGCCTCGACAAAGATAGCCAATGT
1 AAGACCATGTCTGGGACATGGCATCGGCAT--ATGATGAGAGCCAATGT
* * * * * * * *
79096422 AAGA-CGTGTCTGGGACA-CGCTTCGGC-TAAGA-GTTGTGCTAGTGT
1 AAGACCATGTCTGGGACATGGCATCGGCATATGATG-AGAGCCAATGT
* * *
79096466 AAGA-TATGTCTGGGACAT-ACATCAGCACGCATAT-ATGAGAGCCAGTGT
1 AAGACCATGTCTGGGACATGGCATC-G---GCATATGATGAGAGCCAATGT
* *
79096514 AAGACCATGTTTGGGACATGGAATCGGCA
1 AAGACCATGTCTGGGACATGGCATCGGCA
79096543 ATTTATCCCA
Statistics
Matches: 233, Mismatches: 53, Indels: 48
0.70 0.16 0.14
Matches are distributed among these distances:
43 1 0.00
44 26 0.11
45 2 0.01
46 37 0.16
47 91 0.39
48 56 0.24
49 17 0.07
50 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
AAGACCATGTCTGGGACATGGCATCGGCATATGATGAGAGCCAATGT
Found at i:79096348 original size:94 final size:92
Alignment explanation
Indices: 79096187--79096540 Score: 326
Period size: 94 Copynumber: 3.8 Consensus size: 92
79096177 GCACCACTGC
* * * *
79096187 AAGACATGTTTGGGACATGCTTCGGCCATATTATGAGAGCCAGTGTAAGACCATTTCTGGGACAT
1 AAGACATGTCTGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTGGGACAT
*
79096252 GGCATCGGTATCCAGATGAGGGCTAATGT
66 GGCATCGGTA--CAGATGAGCGCTAATGT
79096281 AAGACATGTCTGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTGGGACAT
1 AAGACATGTCTGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTGGGACAT
* * *
79096346 GGCATCGGCACAGAGATAAGCGCCAGA-GT
66 GGCATCGGTAC--AGATGAGCGCTA-ATGT
* * ** * * * *
79096375 AAGACATGTTTGGGACATGCATCGGCC-TCGACAAAGATAGCCAATGTAAGA-CGTGTCTGGGAC
1 AAGACATGTCTGGGACATGCATCAGCCAT--ATTATGAGAGCCAGTGTAAGACCATGTCTGGGAC
* * * * *
79096438 A-CGCTTCGGCTA-AGA-GTTGTGCTAGTGT
64 ATGGCATCGG-TACAGATG-AGCGCTAATGT
* * *
79096466 AAGATATGTCTGGGACATACATCAGCACGCATA-TATGAGAGCCAGTGTAAGACCATGTTTGGGA
1 AAGACATGTCTGGGACATGCATCAG--C-CATATTATGAGAGCCAGTGTAAGACCATGTCTGGGA
*
79096530 CATGGAATCGG
63 CATGGCATCGG
79096541 CAATTTATCC
Statistics
Matches: 209, Mismatches: 37, Indels: 28
0.76 0.14 0.10
Matches are distributed among these distances:
91 30 0.14
92 16 0.08
93 20 0.10
94 125 0.60
95 18 0.09
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (92 bp):
AAGACATGTCTGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTGGGACAT
GGCATCGGTACAGATGAGCGCTAATGT
Found at i:79103992 original size:94 final size:92
Alignment explanation
Indices: 79103831--79104275 Score: 485
Period size: 94 Copynumber: 4.8 Consensus size: 92
79103821 ATTTGTGCGA
* * * * * * * *
79103831 TAGTGCAAGACATGTCTAGGACATGCTTCAGCCACATAATGGGAGCCAGTATAAGACCATGTCTG
1 TAGTGTAAGACATGTTTGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTG
* *
79103896 GGACATGGCGTCGG-TATCCAGACG-AGGGC
66 GGACATGGCTTCGGCTA---AGA-GTAGTGC
79103925 TAGTGTAAGACATGTTTGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTG
1 TAGTGTAAGACATGTTTGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTG
*
79103990 GGACATGGCATCGGC-ACAGAGATGAGTGC
66 GGACATGGCTTCGGCTA-AGAG-T-AGTGC
* * * * * ** *
79104019 CAGAGTAAGACATGTCTAGGACATGCATCGGCC-TCAACA-GAGATAGCCAGTGTAAGA-CGTGT
1 TAGTGTAAGACATGTTTGGGACATGCATCAGCCAT-ATTATGAG--AGCCAGTGTAAGACCATGT
* *
79104081 CTGGGACA-CGCTTCGGCTAAGAGTTGTGC
63 CTGGGACATGGCTTCGGCTAAGAGTAGTGC
* *
79104110 TAGTGTAAGACATGTTTGGGACATGCATCAGCCATATTATGATAGCCAGTGTAAGA-CGTGTCTG
1 TAGTGTAAGACATGTTTGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTG
* *
79104174 GGACA-CGCTTCGGCTAAGAGTTGTGC
66 GGACATGGCTTCGGCTAAGAGTAGTGC
*
79104200 TAGTGTAAGACATGTTTGGGACATGCATCAGCACACATATATGAGAGCCAGTGTAAGACCATGTC
1 TAGTGTAAGACATGTTTGGGACATGCATCAGC-CATAT-TATGAGAGCCAGTGTAAGACCATGTC
79104265 TGGGACATGGC
64 TGGGACATGGC
79104276 ATTGGCAATT
Statistics
Matches: 304, Mismatches: 33, Indels: 28
0.83 0.09 0.08
Matches are distributed among these distances:
90 79 0.26
91 39 0.13
92 26 0.09
93 27 0.09
94 120 0.39
95 13 0.04
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (92 bp):
TAGTGTAAGACATGTTTGGGACATGCATCAGCCATATTATGAGAGCCAGTGTAAGACCATGTCTG
GGACATGGCTTCGGCTAAGAGTAGTGC
Found at i:79104130 original size:44 final size:44
Alignment explanation
Indices: 79104067--79104222 Score: 179
Period size: 44 Copynumber: 3.5 Consensus size: 44
79104057 AGAGATAGCC
*
79104067 AGTGTAAGACGTGTCTGGGACACGCTTCGGCTAAGAGTTGTGCT
1 AGTGTAAGACATGTCTGGGACACGCTTCGGCTAAGAGTTGTGCT
* * * * * * * *
79104111 AGTGTAAGACATGTTTGGGACATGCATCAGC-CATATTATGATAGCC
1 AGTGTAAGACATGTCTGGGACACGCTTCGGCTAAGAGT-TG-T-GCT
*
79104157 AGTGTAAGACGTGTCTGGGACACGCTTCGGCTAAGAGTTGTGCT
1 AGTGTAAGACATGTCTGGGACACGCTTCGGCTAAGAGTTGTGCT
*
79104201 AGTGTAAGACATGTTTGGGACA
1 AGTGTAAGACATGTCTGGGACA
79104223 TGCATCAGCA
Statistics
Matches: 88, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
43 3 0.03
44 50 0.57
45 2 0.02
46 30 0.34
47 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.28
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACACGCTTCGGCTAAGAGTTGTGCT
Found at i:79104159 original size:185 final size:183
Alignment explanation
Indices: 79103837--79104271 Score: 519
Period size: 185 Copynumber: 2.4 Consensus size: 183
79103827 GCGATAGTGC
* * *
79103837 AAGACATGTCTAGGACATGCTTCAGC-CACATA-ATGGGAGCCAGTATAAGACCATGTCTGGGAC
1 AAGACATGTCTAGGACATGCATCAGCACACATACATGAGAGCCAGTGTAAGACCATGTCTGGGAC
* * * *
79103900 ATGGCGTCGG-TATCCAGACG-AGGGCTAGTGTAAGACATGTTTGGGACATGCATCAGCCATATT
66 A-CGCTTCGGCTA---AGA-GTTGTGCTAGTGTAAGACATGTTTGGGACATGCATCAGCCATATT
*
79103963 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACAGAGATGAGTGCCAGAGT
126 ATGAGAGCCAGTGTAAGA-CATGTCTGGGACA-CGCATCGGCTA-AGAG-T-AGTGCCAGAGT
* * *
79104025 AAGACATGTCTAGGACATGCATCGGC-CTCA-ACA-GAGATAGCCAGTGTAAGA-CGTGTCTGGG
1 AAGACATGTCTAGGACATGCATCAGCACACATACATGAG--AGCCAGTGTAAGACCATGTCTGGG
79104086 ACACGCTTCGGCTAAGAGTTGTGCTAGTGTAAGACATGTTTGGGACATGCATCAGCCATATTATG
64 ACACGCTTCGGCTAAGAGTTGTGCTAGTGTAAGACATGTTTGGGACATGCATCAGCCATATTATG
* * * * * *
79104151 ATAGCCAGTGTAAGACGTGTCTGGGACACGCTTCGGCTAAGAGTTGTGCTAGTGT
129 AGAGCCAGTGTAAGACATGTCTGGGACACGCATCGGCTAAGAGTAGTGCCAGAGT
* * *
79104206 AAGACATGTTTGGGACATGCATCAGCACACATATATGAGAGCCAGTGTAAGACCATGTCTGGGAC
1 AAGACATGTCTAGGACATGCATCAGCACACATACATGAGAGCCAGTGTAAGACCATGTCTGGGAC
79104271 A
66 A
79104272 TGGCATTGGC
Statistics
Matches: 214, Mismatches: 23, Indels: 25
0.82 0.09 0.10
Matches are distributed among these distances:
181 31 0.14
182 17 0.08
183 25 0.12
184 17 0.08
185 61 0.29
187 9 0.04
188 42 0.20
189 12 0.06
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (183 bp):
AAGACATGTCTAGGACATGCATCAGCACACATACATGAGAGCCAGTGTAAGACCATGTCTGGGAC
ACGCTTCGGCTAAGAGTTGTGCTAGTGTAAGACATGTTTGGGACATGCATCAGCCATATTATGAG
AGCCAGTGTAAGACATGTCTGGGACACGCATCGGCTAAGAGTAGTGCCAGAGT
Found at i:79112292 original size:40 final size:40
Alignment explanation
Indices: 79112237--79112398 Score: 211
Period size: 40 Copynumber: 4.0 Consensus size: 40
79112227 TGGATGATAA
* * *
79112237 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
79112277 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
79112317 CCGGGCTAAGTCCCGAAGGCATTGGTTCGAGTTTCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
79112357 CCGGGCTACGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
79112397 CC
1 CC
79112399 AGTTAAATCC
Statistics
Matches: 109, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 2 0.02
40 107 0.98
ACGTcount: A:0.21, C:0.25, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:79114563 original size:57 final size:58
Alignment explanation
Indices: 79114468--79114590 Score: 151
Period size: 57 Copynumber: 2.1 Consensus size: 58
79114458 TACCAATCTA
* * * * *
79114468 GGCTAAATCCTATCCATAGCATATGCTTTAAAGAGCTTAATTTTG-ATTACCCGTCCG
1 GGCTAAATCCAATCCATAACATAAGCTTTAAAGAGCTTAAATTAGAATTACCCGTCCG
* * *
79114525 GGTTAAATCCAATCTATAACATAAGC-TTAAGAGGGCTTAAATTAGAATTACCCGTCCG
1 GGCTAAATCCAATCCATAACATAAGCTTTAA-AGAGCTTAAATTAGAATTACCCGTCCG
79114583 GGCTAAAT
1 GGCTAAAT
79114591 TCTATTTGCA
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
56 4 0.07
57 32 0.58
58 19 0.35
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (58 bp):
GGCTAAATCCAATCCATAACATAAGCTTTAAAGAGCTTAAATTAGAATTACCCGTCCG
Found at i:79121721 original size:31 final size:31
Alignment explanation
Indices: 79121678--79121739 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
79121668 CACCCGAATA
*
79121678 CCCTCTGTAAATGCAACATGTCTAAGGAAAC
1 CCCTCTGCAAATGCAACATGTCTAAGGAAAC
*
79121709 CCCTCTGCAAATGCATCATGTCTAAGGAAAC
1 CCCTCTGCAAATGCAACATGTCTAAGGAAAC
79121740 TAACATCCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (31 bp):
CCCTCTGCAAATGCAACATGTCTAAGGAAAC
Found at i:79133413 original size:11 final size:11
Alignment explanation
Indices: 79133397--79133425 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
79133387 TTTCAACAAC
79133397 TTAACGAATTT
1 TTAACGAATTT
79133408 TTAACGAATTT
1 TTAACGAATTT
79133419 TTAACGA
1 TTAACGA
79133426 GGATCCTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (11 bp):
TTAACGAATTT
Found at i:79149232 original size:26 final size:26
Alignment explanation
Indices: 79149193--79149508 Score: 542
Period size: 26 Copynumber: 12.2 Consensus size: 26
79149183 TGATACAAAT
*
79149193 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
79149219 TGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
79149245 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
79149271 TGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
79149297 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
79149323 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
79149349 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
79149375 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
79149401 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
79149427 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
79149453 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
79149479 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
79149505 TGAT
1 TGAT
79149509 GGGAATTTCA
Statistics
Matches: 279, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 279 1.00
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:79150372 original size:28 final size:26
Alignment explanation
Indices: 79150340--79150403 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
79150330 AAACCCTAAA
* *
79150340 ATACCCCTATGTATGGAAAATTACTGTT
1 ATACCCCTA-G-ATGCAAAATTACCGTT
*
79150368 ATACCCCTAGGTGCAAAATTACCGTT
1 ATACCCCTAGATGCAAAATTACCGTT
79150394 ATACCCCTAG
1 ATACCCCTAG
79150404 GGTTAATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 23 0.70
27 1 0.03
28 9 0.27
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCGTT
Found at i:79150548 original size:27 final size:27
Alignment explanation
Indices: 79150507--79150619 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
79150497 GAGGAAGCGT
*
79150507 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
79150534 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
79150561 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
79150589 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
79150615 TCTGG
1 TCTGG
79150620 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:79150612 original size:54 final size:54
Alignment explanation
Indices: 79150505--79150619 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
79150495 TGGAGGAAGC
*
79150505 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
79150559 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
79150613 GTTCTGG
1 GTTCTGG
79150620 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:79155723 original size:80 final size:79
Alignment explanation
Indices: 79155639--79155810 Score: 211
Period size: 79 Copynumber: 2.2 Consensus size: 79
79155629 GGACTAAGAT
*
79155639 CCGAAGGCATTTGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATGACAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
79155703 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * ** * * * *
79155719 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
79155784 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
79155798 CCGAAGGCATTTG
1 CCGAAGGCATTTG
79155811 AACGAGGAGC
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 38 0.49
80 37 0.47
81 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:79155790 original size:39 final size:39
Alignment explanation
Indices: 79155586--79155808 Score: 200
Period size: 40 Copynumber: 5.6 Consensus size: 39
79155576 TTGAATGCTG
* * * * *
79155586 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
79155626 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
79155665 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* **
79155706 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
79155746 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
79155785 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
79155809 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
39 39 0.25
40 102 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:79155828 original size:79 final size:80
Alignment explanation
Indices: 79155666--79155843 Score: 198
Period size: 79 Copynumber: 2.2 Consensus size: 80
79155656 AGATACAAAT
* * * *
79155666 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** ** *
79155731 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * * * *
79155746 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
79155810 GAACGAGGAGCTATA
66 GAACGAGGAGCTAAA
*
79155825 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
79155844 TACGTGATTT
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.17
79 49 0.60
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGAGCTAAA
Found at i:79166131 original size:40 final size:40
Alignment explanation
Indices: 79166048--79166350 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
79166038 TTGAATGCTG
* * * * * *
79166048 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
79166088 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
79166128 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
79166168 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
79166208 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
79166248 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
79166288 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
79166327 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
79166351 TGAACGAGGA
Statistics
Matches: 241, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 35 0.15
40 198 0.82
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:79174372 original size:99 final size:93
Alignment explanation
Indices: 79174160--79174380 Score: 238
Period size: 99 Copynumber: 2.3 Consensus size: 93
79174150 TGTATGTGCT
79174160 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCACATTATGAAATGCCAGTGTAAGACATGTCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAAATGCCAGTGTAAGACATGTCT
* *
79174223 GGGACATGCATCGGCTACGAGATGAGTC
66 GGGACATGCATCGCCTACAAGATGAGTC
* * * * *
79174251 AGTATAAGACCATGTCTAGGACATGGCATCGG-CACGGATATATGAGA-GCTAGTGTAAGACCAT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC--AT-TATGAAATGCCAGTGTAAGA-CAT
*
79174314 GTCTGGGACATGGCGTCAGCCT-CAATTTCGAT-AGTC
62 GTCTGGGACAT-GCATC-GCCTACAA----GATGAGTC
79174350 AGTGTAAGACCATGTTTGGGACATGGCATCG
1 AGTGTAAGACCATGTTTGGGACATGGCATCG
79174381 ACTTGATGGA
Statistics
Matches: 107, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
91 8 0.07
92 15 0.14
93 7 0.07
94 13 0.12
95 20 0.19
96 6 0.06
97 3 0.03
99 32 0.30
100 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (93 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAAATGCCAGTGTAAGACATGTCT
GGGACATGCATCGCCTACAAGATGAGTC
Found at i:79176065 original size:47 final size:49
Alignment explanation
Indices: 79175840--79176361 Score: 866
Period size: 49 Copynumber: 10.9 Consensus size: 49
79175830 NNNNNNNNNN
*
79175840 TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
*
79175889 TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
*
79175938 TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
79175987 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT-
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
* * * * * * *
79176035 T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--A
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
*
79176081 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
*
79176130 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
79176179 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--A
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
79176226 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--A
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
79176273 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--A
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
79176320 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
79176362 CTATCATTTC
Statistics
Matches: 454, Mismatches: 15, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
46 1 0.00
47 212 0.47
48 1 0.00
49 240 0.53
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
Found at i:79176176 original size:192 final size:192
Alignment explanation
Indices: 79175840--79176358 Score: 898
Period size: 192 Copynumber: 2.7 Consensus size: 192
79175830 NNNNNNNNNN
79175840 TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATACACTTTCACA
1 TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACA
* *
79175905 TTCATCACGTCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACGTCGGCCA
64 TTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCA
*
79175970 TTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
129 TTAGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
* * * * * * *
79176034 TTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACTTTCACATT
1 TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
*
79176099 CATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
66 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
79176164 AGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
131 AGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
*
79176226 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
1 TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
79176291 CATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATT
66 CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
79176354 AGGCC
131 AGGCC
79176359 TTACTATCAT
Statistics
Matches: 305, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
190 40 0.13
192 226 0.74
194 39 0.13
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (192 bp):
TATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
CATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT
AGGCCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
Found at i:79180318 original size:12 final size:12
Alignment explanation
Indices: 79180301--79180325 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
79180291 GCTTGGAAAA
79180301 TAGTCTAAGTGT
1 TAGTCTAAGTGT
79180313 TAGTCTAAGTGT
1 TAGTCTAAGTGT
79180325 T
1 T
79180326 GGCCACACGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (12 bp):
TAGTCTAAGTGT
Found at i:79182509 original size:36 final size:36
Alignment explanation
Indices: 79182448--79182565 Score: 137
Period size: 36 Copynumber: 3.3 Consensus size: 36
79182438 TTTATCAGTT
* *
79182448 TCATTTAGTAACATTCAATTATTCAGTAGCAATTAG
1 TCATTTAGTAACAATCAATTATTCAGTAGCAATCAG
* * *
79182484 TTATTTAGTAACAATCATTTGTTCAGTAGCAATCAG
1 TCATTTAGTAACAATCAATTATTCAGTAGCAATCAG
* * * **
79182520 TCATTCAGTAACGATCAATTATTCAGTAACAGCCAG
1 TCATTTAGTAACAATCAATTATTCAGTAGCAATCAG
*
79182556 TCATTCAGTA
1 TCATTTAGTA
79182566 CTTTTATTTA
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 69 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.36
Consensus pattern (36 bp):
TCATTTAGTAACAATCAATTATTCAGTAGCAATCAG
Found at i:79182548 original size:18 final size:18
Alignment explanation
Indices: 79182454--79182550 Score: 95
Period size: 18 Copynumber: 5.4 Consensus size: 18
79182444 AGTTTCATTT
*
79182454 AGTAACATTCAATTATTC
1 AGTAACAATCAATTATTC
* * * *
79182472 AGTAGCAATTAGTTATTT
1 AGTAACAATCAATTATTC
* *
79182490 AGTAACAATCATTTGTTC
1 AGTAACAATCAATTATTC
* * *
79182508 AGTAGCAATCAGTCATTC
1 AGTAACAATCAATTATTC
*
79182526 AGTAACGATCAATTATTC
1 AGTAACAATCAATTATTC
79182544 AGTAACA
1 AGTAACA
79182551 GCCAGTCATT
Statistics
Matches: 60, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 60 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
AGTAACAATCAATTATTC
Found at i:79182561 original size:18 final size:18
Alignment explanation
Indices: 79182517--79182565 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
79182507 CAGTAGCAAT
*
79182517 CAGTCATTCAGTAACGAT
1 CAGTCATTCAGTAACGAC
* *
79182535 CAATTATTCAGTAAC-AGC
1 CAGTCATTCAGTAACGA-C
79182553 CAGTCATTCAGTA
1 CAGTCATTCAGTA
79182566 CTTTTATTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 1 0.04
18 24 0.96
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (18 bp):
CAGTCATTCAGTAACGAC
Found at i:79188795 original size:18 final size:18
Alignment explanation
Indices: 79188772--79188874 Score: 71
Period size: 18 Copynumber: 5.4 Consensus size: 18
79188762 ACATCGTGAT
79188772 CTGAAGCCCGAAGTCTAA
1 CTGAAGCCCGAAGTCTAA
**
79188790 CTGAAGCACATAAGTGCTAAA
1 CTGAAGC-CCGAAGT-CT-AA
* *
79188811 CGGAAGCCCGAAGGCTAA
1 CTGAAGCCCGAAGTCTAA
** *
79188829 CTGAAGCACATAAGTGATAAA
1 CTGAAGC-CCGAAGT-CT-AA
* *
79188850 CGGAAGCCCGAAGGCTAA
1 CTGAAGCCCGAAGTCTAA
79188868 CTGAAGC
1 CTGAAGC
79188875 TCACCAGAGC
Statistics
Matches: 62, Mismatches: 17, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
18 23 0.37
19 12 0.19
20 11 0.18
21 16 0.26
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.14
Consensus pattern (18 bp):
CTGAAGCCCGAAGTCTAA
Found at i:79188816 original size:21 final size:21
Alignment explanation
Indices: 79188792--79188856 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
79188782 AAGTCTAACT
79188792 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACG
** *
79188813 GAAGC-CCGAAG-GCT-AACT
1 GAAGCACATAAGTGCTAAACG
*
79188831 GAAGCACATAAGTGATAAACG
1 GAAGCACATAAGTGCTAAACG
79188852 GAAGC
1 GAAGC
79188857 CCGAAGGCTA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 8 0.24
19 7 0.21
20 6 0.18
21 13 0.38
ACGTcount: A:0.42, C:0.20, G:0.26, T:0.12
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAACG
Found at i:79188829 original size:39 final size:39
Alignment explanation
Indices: 79188774--79188874 Score: 184
Period size: 39 Copynumber: 2.6 Consensus size: 39
79188764 ATCGTGATCT
* *
79188774 GAAGCCCGAAGTCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGATAAACG
79188813 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGATAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGATAAACG
79188852 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
79188875 TCACCAGAGC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 60 1.00
ACGTcount: A:0.39, C:0.23, G:0.26, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGATAAACG
Found at i:79194033 original size:51 final size:49
Alignment explanation
Indices: 79193908--79194102 Score: 264
Period size: 49 Copynumber: 3.9 Consensus size: 49
79193898 TCTATTATGA
* * * *
79193908 GGTCACATGTGTAGTACTAAATGCAGGCTACTATGTGTACCGGATTATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
* *
79193957 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TT
* * * * *
79194007 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
*
79194057 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
79194103 GCTTTGGCTA
Statistics
Matches: 126, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 82 0.65
50 4 0.03
51 40 0.32
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT
Found at i:79194088 original size:100 final size:100
Alignment explanation
Indices: 79193910--79194102 Score: 323
Period size: 100 Copynumber: 1.9 Consensus size: 100
79193900 TATTATGAGG
* * *
79193910 TCACATGTGTAGTACTAAATGCAGGCTACTATGTGTACCGGATTATTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
79193975 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
* * *
79194010 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAATTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
79194075 AAGTGCAGGCTACTATGCGTACCAGATA
66 AAGTGCAGGCTACTATGCGTACCAGATA
79194103 GCTTTGGCTA
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 86 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCAGATAACTTCGA
Found at i:79197054 original size:80 final size:79
Alignment explanation
Indices: 79196970--79197141 Score: 211
Period size: 79 Copynumber: 2.2 Consensus size: 79
79196960 GGACTAAGAT
*
79196970 CCGAAGGCATTTGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATGACAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
79197034 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * ** * * * *
79197050 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
79197115 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
79197129 CCGAAGGCATTTG
1 CCGAAGGCATTTG
79197142 AACGAGGAGC
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 38 0.49
80 37 0.47
81 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:79197121 original size:39 final size:39
Alignment explanation
Indices: 79196917--79197139 Score: 200
Period size: 40 Copynumber: 5.6 Consensus size: 39
79196907 TTGAATGCTG
* * * * *
79196917 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
79196957 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
79196996 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* **
79197037 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
79197077 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
79197116 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
79197140 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
39 39 0.25
40 102 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:79197159 original size:79 final size:80
Alignment explanation
Indices: 79196997--79197174 Score: 198
Period size: 79 Copynumber: 2.2 Consensus size: 80
79196987 AGATACAAAT
* * * *
79196997 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** ** *
79197062 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * * * *
79197077 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
79197141 GAACGAGGAGCTATA
66 GAACGAGGAGCTAAA
*
79197156 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
79197175 TACGTGATTT
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.17
79 49 0.60
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGAGCTAAA
Found at i:79203626 original size:15 final size:16
Alignment explanation
Indices: 79203606--79203635 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
79203596 ACAAATAGTA
79203606 AAATA-TTAAAAAAAT
1 AAATATTTAAAAAAAT
79203621 AAATATTTAAAAAAA
1 AAATATTTAAAAAAA
79203636 CACATGACAA
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:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AAATATTTAAAAAAAT
Found at i:79206058 original size:31 final size:31
Alignment explanation
Indices: 79205994--79206058 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
79205984 AACCATTTAA
* * *
79205994 TGACCAAAATAGAAACGATTTAAAACATGAG
1 TGACCAAAATAAAAACGATCTAAAAAATGAG
*
79206025 TGACCAAAATAAAAATGATCTAAAATAAT-AG
1 TGACCAAAATAAAAACGATCTAAAA-AATGAG
79206056 TGA
1 TGA
79206059 TTAAATTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 27 0.93
32 2 0.07
ACGTcount: A:0.54, C:0.11, G:0.14, T:0.22
Consensus pattern (31 bp):
TGACCAAAATAAAAACGATCTAAAAAATGAG
Found at i:79206377 original size:21 final size:21
Alignment explanation
Indices: 79206351--79206392 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
79206341 TCATTTAATT
* *
79206351 AATTTTT-TAAAATATTTTTA
1 AATTTTTAAAAAATAATTTTA
79206371 AATTTTTAAAAAATAATTTTA
1 AATTTTTAAAAAATAATTTTA
79206392 A
1 A
79206393 TGAATTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AATTTTTAAAAAATAATTTTA
Found at i:79206809 original size:12 final size:12
Alignment explanation
Indices: 79206792--79206825 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
79206782 CGGCCCACCC
79206792 ATATTAATTTTT
1 ATATTAATTTTT
*
79206804 ATATTATTTTTT
1 ATATTAATTTTT
79206816 ATA-TAATTTT
1 ATATTAATTTT
79206826 AAAAAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:79206850 original size:18 final size:18
Alignment explanation
Indices: 79206827--79206866 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
79206817 TATAATTTTA
*
79206827 AAAAATA-TATAATACATC
1 AAAAATACTA-AAAACATC
79206845 AAAAATACTAAAAACATC
1 AAAAATACTAAAAACATC
79206863 AAAA
1 AAAA
79206867 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATACTAAAAACATC
Found at i:79206984 original size:30 final size:30
Alignment explanation
Indices: 79206948--79207010 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
79206938 ACTTAAATAG
*
79206948 CAAATGTCTCTAAAATAATAATAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
79206978 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
79207008 CAA
1 CAA
79207011 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:79219298 original size:46 final size:45
Alignment explanation
Indices: 79219246--79219416 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 45
79219236 TCATCTCATA
* *
79219246 GCCGATGCATGTCCTAGACATGTCTTACATTGGCTTACGTCTTAAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTCTTAAG
* * ** * *
79219292 GTCGATGCATGTCCCAAACATGTCTTACACTAACTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TCGTCTTAAG
*
79219338 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TC-TCATAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTCGTCTTAA---G
79219386 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
79219417 AGCTCACAAA
Statistics
Matches: 104, Mismatches: 15, Indels: 12
0.79 0.11 0.09
Matches are distributed among these distances:
45 4 0.04
46 54 0.52
47 28 0.27
48 18 0.17
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTCGTCTTAAG
Found at i:79219401 original size:94 final size:92
Alignment explanation
Indices: 79219198--79219417 Score: 250
Period size: 94 Copynumber: 2.3 Consensus size: 92
79219188 TGGGTAAGGT
* * * *
79219198 GCCGATGCCATGTCCCAAACACGGTCTTGCACTGACTATCATCTCATAGCCGATGCATGTCCTAG
1 GCCGATG-CATGTCCCAAACA-TGTCTTACACTAACTATCATCTCATAGCCGATGCATGTCCCAG
* *
79219263 ACATGTCTTACATTGGCTTACGTCTTAAG
64 ACATGTCTTACACTGGCTTACGTCATAAG
* * *
79219292 GTCGATGCATGTCCCAAACATGTCTTACACTAACTCTCGTCTCA-ATGCCGATGCCATGTCCCAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTAACTATCATCTCATA-GCCGATG-CATGTCCCAG
79219356 ACATGGTCTTACACTGGC-T-C-TCATAATGTG
64 ACAT-GTCTTACACTGGCTTACGTCATAA---G
*
79219386 GCCGATGCATGTCCCAGACATGTCTTACACTA
1 GCCGATGCATGTCCCAAACATGTCTTACACTA
79219418 GCTCACAAAC
Statistics
Matches: 109, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
91 6 0.06
92 27 0.25
93 27 0.25
94 49 0.45
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (92 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTAACTATCATCTCATAGCCGATGCATGTCCCAGAC
ATGTCTTACACTGGCTTACGTCATAAG
Found at i:79226816 original size:47 final size:47
Alignment explanation
Indices: 79226710--79226835 Score: 143
Period size: 47 Copynumber: 2.7 Consensus size: 47
79226700 TGGGTAAGGT
* *
79226710 GCTGATGCCATATCCCAGACACGGTCTTACACTGACTTACATCTCAA
1 GCTGATGCCATGTCCCAGACACAGTCTTACACTGACTTACATCTCAA
* **
79226757 G-TCGATGCCATGTCCTAGACACAGTCTTACACTGAC-TATCATCTTGTA
1 GCT-GATGCCATGTCCCAGACACAGTCTTACACTGACTTA-CATC-TCAA
*
79226805 GCTGATG-CATGTCCCAGACA-TGTCTTACACT
1 GCTGATGCCATGTCCCAGACACAGTCTTACACT
79226836 AGCTCTCGTC
Statistics
Matches: 68, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
46 13 0.19
47 47 0.69
48 7 0.10
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (47 bp):
GCTGATGCCATGTCCCAGACACAGTCTTACACTGACTTACATCTCAA
Found at i:79226863 original size:47 final size:45
Alignment explanation
Indices: 79226811--79226934 Score: 128
Period size: 47 Copynumber: 2.7 Consensus size: 45
79226801 TGTAGCTGAT
*
79226811 GCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAA-T-GCCGAC
1 GCATGTCCCAGACATGTCTTACACTAGCTCTC--AT-AAGTGGCCGAC
* *
79226857 GCCATGTCCCAGGCATGATCTTACACTGAG-TCTCATAATGTGGCCGAT
1 G-CATGTCCCAGACATG-TCTTACACT-AGCTCTCATAA-GTGGCCGAC
*
79226905 GCATGTCCCAAACATGTCTTACACTAGCTC
1 GCATGTCCCAGACATGTCTTACACTAGCTC
79226935 ACAAACAAAT
Statistics
Matches: 66, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
45 4 0.06
46 13 0.20
47 28 0.42
48 19 0.29
49 2 0.03
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (45 bp):
GCATGTCCCAGACATGTCTTACACTAGCTCTCATAAGTGGCCGAC
Found at i:79246056 original size:40 final size:40
Alignment explanation
Indices: 79246012--79246104 Score: 143
Period size: 40 Copynumber: 2.3 Consensus size: 40
79246002 GCTACTCATT
* *
79246012 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGTA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
*
79246052 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
79246092 CAAATGCCTTCGG
1 CAAATGCCTTCGG
79246105 ATCTTAGTTC
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:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:79246118 original size:40 final size:39
Alignment explanation
Indices: 79246012--79246157 Score: 132
Period size: 40 Copynumber: 3.6 Consensus size: 39
79246002 GCTACTCATT
* * * *
79246012 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGTA
1 CAAATGCCTTC-GGACTTAACCCGGATATAGTAACTCGCA
*
79246052 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAACCCGGATATAGTAACTCGCA
*** * * *
79246092 CAAATGCCTTCGGATCTTAGTTCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAACCCGGATATAGTAAC-TCGCA
*
79246133 CAAA-GCCTTCGGCACTTAGCCCGGA
1 CAAATGCCTTCGG-ACTTAACCCGGA
79246158 CATCGTTCAA
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
39 3 0.03
40 77 0.87
41 9 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAACCCGGATATAGTAACTCGCA
Found at i:79246633 original size:150 final size:150
Alignment explanation
Indices: 79246362--79246662 Score: 593
Period size: 150 Copynumber: 2.0 Consensus size: 150
79246352 TTACCTCGGG
79246362 TGTTGTCGAACGATTCCGATAGCTATTCGACCACTATTTCCTTCCCTTTATCGGATTTAGTTCCC
1 TGTTGTCGAACGATTCCGATAGCTATTCGACCACTATTTCCTTCCCTTTATCGGATTTAGTTCCC
79246427 CTTTGCTCTTGAGCTTAATTAAACAAATAAATTGATTTAATCATTTGAGCATCGAAAAGAGGAAC
66 CTTTGCTCTTGAGCTTAATTAAACAAATAAATTGATTTAATCATTTGAGCATCGAAAAGAGGAAC
79246492 ACAAGGCACTTAGCCCATAT
131 ACAAGGCACTTAGCCCATAT
*
79246512 TGTTGTCGAACGATTCCGATAGCTATTCGACCACTTTTTCCTTCCCTTTATCGGATTTAGTTCCC
1 TGTTGTCGAACGATTCCGATAGCTATTCGACCACTATTTCCTTCCCTTTATCGGATTTAGTTCCC
79246577 CTTTGCTCTTGAGCTTAATTAAACAAATAAATTGATTTAATCATTTGAGCATCGAAAAGAGGAAC
66 CTTTGCTCTTGAGCTTAATTAAACAAATAAATTGATTTAATCATTTGAGCATCGAAAAGAGGAAC
79246642 ACAAGGCACTTAGCCCATAT
131 ACAAGGCACTTAGCCCATAT
79246662 T
1 T
79246663 TATACATTAG
Statistics
Matches: 150, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 150 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (150 bp):
TGTTGTCGAACGATTCCGATAGCTATTCGACCACTATTTCCTTCCCTTTATCGGATTTAGTTCCC
CTTTGCTCTTGAGCTTAATTAAACAAATAAATTGATTTAATCATTTGAGCATCGAAAAGAGGAAC
ACAAGGCACTTAGCCCATAT
Found at i:79247857 original size:75 final size:75
Alignment explanation
Indices: 79247772--79247918 Score: 267
Period size: 75 Copynumber: 2.0 Consensus size: 75
79247762 GCAATCGACT
79247772 AAATCGAAGCTTGAAATTTTCACACATTCATAATTACATATTCTAGACAATAAATATCACATTCA
1 AAATCGAAGCTTGAAATTTTCACACATTCATAATTACATATTCTAGACAATAAATATCACATTCA
79247837 AACATTTCGC
66 AACATTTCGC
* * *
79247847 AAATTGAAGCTTGAAATTTTCACACATTCATTATTACATATTCTAGACAATAAGTATCACATTCA
1 AAATCGAAGCTTGAAATTTTCACACATTCATAATTACATATTCTAGACAATAAATATCACATTCA
79247912 AACATTT
66 AACATTT
79247919 TAGTGACTCG
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 69 1.00
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (75 bp):
AAATCGAAGCTTGAAATTTTCACACATTCATAATTACATATTCTAGACAATAAATATCACATTCA
AACATTTCGC
Found at i:79253384 original size:74 final size:74
Alignment explanation
Indices: 79253261--79253407 Score: 240
Period size: 74 Copynumber: 2.0 Consensus size: 74
79253251 CCCTAATCTG
* * *
79253261 AAAACGGAGATGAGTTAGGGGTGTTACATCAATGCCCAAAATCACTGTACATATAGTTGAGTACT
1 AAAACAGAGACGAGTTAGGGGTGTTACATCAATGCCCAAAATCACTGTACATATAGGTGAGTACT
79253326 CACAATTCA
66 CACAATTCA
* *
79253335 AAAACAGAGACGAGTTAGGGGTGTTACATCAATGCCCAAAATCATTGTACATATAGGTGAGTGCT
1 AAAACAGAGACGAGTTAGGGGTGTTACATCAATGCCCAAAATCACTGTACATATAGGTGAGTACT
*
79253400 CATAATTC
66 CACAATTC
79253408 TATGGCATGC
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 67 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (74 bp):
AAAACAGAGACGAGTTAGGGGTGTTACATCAATGCCCAAAATCACTGTACATATAGGTGAGTACT
CACAATTCA
Found at i:79253677 original size:25 final size:22
Alignment explanation
Indices: 79253631--79253677 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
79253621 CATCTCAATT
*
79253631 CACATATTCACAAACACATAAG
1 CACATATTCACAAAAACATAAG
79253653 CACATAGTTCACAAGATAACATAAG
1 CACATA-TTCACAA-A-AACATAAG
79253678 TATGAGAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 7 0.33
24 1 0.05
25 7 0.33
ACGTcount: A:0.49, C:0.23, G:0.09, T:0.19
Consensus pattern (22 bp):
CACATATTCACAAAAACATAAG
Found at i:79256186 original size:39 final size:40
Alignment explanation
Indices: 79255982--79256204 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
79255972 TTGAATGCTG
* * * * * *
79255982 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
79256022 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
79256062 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
79256102 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
79256142 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
79256181 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
79256205 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:79256224 original size:79 final size:80
Alignment explanation
Indices: 79256057--79256239 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
79256047 GTGCGAGATA
* * *
79256057 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
79256122 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
79256137 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
79256201 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
79256216 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
79256240 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:79256624 original size:74 final size:73
Alignment explanation
Indices: 79256535--79256681 Score: 285
Period size: 74 Copynumber: 2.0 Consensus size: 73
79256525 TTGCTCAAAA
79256535 CTTACTAAGCATAAATTGCTTACTTCGTTCCATTGCTCCTCTGTTTTATAGATTTTTTTGGTTCT
1 CTTACTAAGCATAAATTGCTTACTTCGTTCCATTGCTCCTCTGTTTTATAGA-TTTTTTGGTTCT
79256600 CCAGCTATC
65 CCAGCTATC
79256609 CTTACTAAGCATAAATTGCTTACTTCGTTCCATTGCTCCTCTGTTTTATAGATTTTTTGGTTCTC
1 CTTACTAAGCATAAATTGCTTACTTCGTTCCATTGCTCCTCTGTTTTATAGATTTTTTGGTTCTC
79256674 CAGCTATC
66 CAGCTATC
79256682 GGACTCGGGA
Statistics
Matches: 73, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
73 21 0.29
74 52 0.71
ACGTcount: A:0.19, C:0.23, G:0.12, T:0.46
Consensus pattern (73 bp):
CTTACTAAGCATAAATTGCTTACTTCGTTCCATTGCTCCTCTGTTTTATAGATTTTTTGGTTCTC
CAGCTATC
Found at i:79258534 original size:86 final size:86
Alignment explanation
Indices: 79258386--79258552 Score: 289
Period size: 86 Copynumber: 1.9 Consensus size: 86
79258376 ACGGAACCAT
* **
79258386 GAGGTTGTGCATTGACTATCGTCAACTAAATAAAGTGACGATAAAGAATAAGTATCTGTTACCGC
1 GAGGTTGTGCATTGACTATCGTCAACTAAATAAAGTGACGATAAAGAATAAATATCCATTACCGC
79258451 GTATTGATGATCTGTTCTATC
66 GTATTGATGATCTGTTCTATC
*
79258472 GAGGTTGTGCATTGACTATCGTCAACTGAATAAAGTGACGATAAAGAATAAATATCCATTACCGC
1 GAGGTTGTGCATTGACTATCGTCAACTAAATAAAGTGACGATAAAGAATAAATATCCATTACCGC
*
79258537 GTATTGATGATTTGTT
66 GTATTGATGATCTGTT
79258553 TGATCAACTA
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
86 76 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.32
Consensus pattern (86 bp):
GAGGTTGTGCATTGACTATCGTCAACTAAATAAAGTGACGATAAAGAATAAATATCCATTACCGC
GTATTGATGATCTGTTCTATC
Found at i:79262058 original size:27 final size:28
Alignment explanation
Indices: 79261977--79262071 Score: 129
Period size: 27 Copynumber: 3.4 Consensus size: 28
79261967 GAGATTGGCG
* * * *
79261977 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
79262006 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
79262034 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
79262061 CTGAGTGTGCG
1 CTAAGTGTGCG
79262072 GACTTAATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.39
28 22 0.36
29 15 0.25
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:79262082 original size:27 final size:27
Alignment explanation
Indices: 79262002--79262084 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
79261992 TAAATTGTAC
* *
79262002 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
79262030 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
79262057 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
79262084 A
1 A
79262085 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:79263398 original size:38 final size:38
Alignment explanation
Indices: 79263347--79263423 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
79263337 AGTGTAGTCG
*
79263347 CACCCTGTAATAGGGGATAATTTAACTAATAAACTGTA
1 CACCCTGTAATAGGGGATAACTTAACTAATAAACTGTA
79263385 CACCCTGTAATAGGGGATAACTTAACTAATAAACTGTA
1 CACCCTGTAATAGGGGATAACTTAACTAATAAACTGTA
79263423 C
1 C
79263424 TAATTGGCCC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (38 bp):
CACCCTGTAATAGGGGATAACTTAACTAATAAACTGTA
Found at i:79265231 original size:26 final size:26
Alignment explanation
Indices: 79265201--79265281 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
79265191 CAATAGTCTG
*
79265201 TACACGTAGTAGCTTGCACTTAGTAC
1 TACACGTAGTAGCCTGCACTTAGTAC
* * * *
79265227 TACACAT-GT-GACCT-CAC-CATCTAA
1 TACACGTAGTAG-CCTGCACTTA-GTAC
79265251 TACACGTAGTAGCCTGCACTTAGTAC
1 TACACGTAGTAGCCTGCACTTAGTAC
79265277 TACAC
1 TACAC
79265282 ACGTGATCAC
Statistics
Matches: 40, Mismatches: 9, Indels: 12
0.66 0.15 0.20
Matches are distributed among these distances:
23 1 0.03
24 12 0.30
25 9 0.22
26 17 0.43
27 1 0.03
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (26 bp):
TACACGTAGTAGCCTGCACTTAGTAC
Found at i:79265271 original size:50 final size:48
Alignment explanation
Indices: 79265160--79265345 Score: 182
Period size: 50 Copynumber: 3.8 Consensus size: 48
79265150 CTGGTACGCA
* *
79265160 TAGTAGCCTGCACTTAGTACTACACATGCGACAAT-A-GTCTGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGAC-CTCACATCTGTACACG
* * *
79265207 TAGTAGCTTGCACTTAGTACTACACATGTGACCTCACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTCA-CATCT-GTACACG
* * * * *
79265257 TAGTAGCCTGCACTTAGTACTACACACGTGA--TCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTCACA----TC-TGTACACG
79265308 TAGTAGCCTGCACTTAGTACTACACATGCGACCTCACA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTCACA
79265346 ATAGATCATT
Statistics
Matches: 115, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
46 1 0.01
47 33 0.29
48 3 0.03
49 3 0.03
50 35 0.30
51 35 0.30
53 5 0.04
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.26
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTCACATCTGTACACG
Found at i:79265334 original size:101 final size:97
Alignment explanation
Indices: 79265160--79265344 Score: 253
Period size: 101 Copynumber: 1.9 Consensus size: 97
79265150 CTGGTACGCA
* * * *
79265160 TAGTAGCCTGCACTTAGTACTACACATGCGACAATAGTCTGTACACGTAGTAGCTTGCACTTAGT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACAATAGTCGGTACACATAGTAGCCTGCACTTAGT
*
79265225 ACTACACATGTGACCTCACCATCTAATACACG
66 ACTACACATGCGACCTCACCATCTAATACACG
* ** *
79265257 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CA-A-TAGTC-GGTACACATAGTAGCCTGCACT
79265322 TAGTACTACACATGCGACCTCAC
62 TAGTACTACACATGCGACCTCAC
79265345 AATAGATCAT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
97 29 0.39
98 2 0.03
99 1 0.01
100 3 0.04
101 40 0.53
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (97 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACAATAGTCGGTACACATAGTAGCCTGCACTTAGT
ACTACACATGCGACCTCACCATCTAATACACG
Found at i:79269972 original size:29 final size:28
Alignment explanation
Indices: 79269936--79270013 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
79269926 TCATGAGATT
79269936 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
79269966 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
79269993 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
79270014 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:79270231 original size:174 final size:174
Alignment explanation
Indices: 79269966--79270293 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
79269956 AAATTGTACA
79269966 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
79270031 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCAAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCAAGTCAA
79270096 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
79270140 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
79270205 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCAAGTCAA
79270270 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
79270294 ACCTTGAGTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCAAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:79277643 original size:29 final size:28
Alignment explanation
Indices: 79277607--79277684 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
79277597 TCATGAGATT
79277607 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
79277637 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
79277664 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
79277685 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:79277902 original size:174 final size:174
Alignment explanation
Indices: 79277637--79277964 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
79277627 AAATTGTACA
79277637 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
79277702 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCAAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCAAGTCAA
79277767 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
79277811 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
79277876 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCAAGTCAA
79277941 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
79277965 ACCTTGAGTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCAAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:79290600 original size:25 final size:22
Alignment explanation
Indices: 79290554--79290600 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
79290544 CATCTCAATT
*
79290554 CACATATTCACAAACACATAAG
1 CACATATTCACAAAAACATAAG
79290576 CACATAGTTCACAAGATAACATAAG
1 CACATA-TTCACAA-A-AACATAAG
79290601 TATGAGAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 7 0.33
24 1 0.05
25 7 0.33
ACGTcount: A:0.49, C:0.23, G:0.09, T:0.19
Consensus pattern (22 bp):
CACATATTCACAAAAACATAAG
Found at i:79293090 original size:28 final size:28
Alignment explanation
Indices: 79293052--79293233 Score: 294
Period size: 28 Copynumber: 6.5 Consensus size: 28
79293042 TAAATTGTAC
*
79293052 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
79293080 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
79293108 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
79293136 AGCACTAGGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
79293164 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
79293192 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
79293219 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
79293234 GACTTAATAT
Statistics
Matches: 147, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
27 24 0.16
28 123 0.84
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:79293786 original size:57 final size:56
Alignment explanation
Indices: 79293699--79293809 Score: 204
Period size: 57 Copynumber: 2.0 Consensus size: 56
79293689 GCGTTTCCTT
79293699 GTCACCTATTTAGGTTTCTTGGACTCGTCTCTTCTTGCGTGATCGGGCCGTCATTG
1 GTCACCTATTTAGGTTTCTTGGACTCGTCTCTTCTTGCGTGATCGGGCCGTCATTG
*
79293755 GTCACCTATTCTAGGTTTCTTGGACTCGTCTCTTTTTGCGTGATCGGGCCGTCAT
1 GTCACCTATT-TAGGTTTCTTGGACTCGTCTCTTCTTGCGTGATCGGGCCGTCAT
79293810 CGGAGTCATC
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
56 10 0.19
57 43 0.81
ACGTcount: A:0.11, C:0.25, G:0.24, T:0.40
Consensus pattern (56 bp):
GTCACCTATTTAGGTTTCTTGGACTCGTCTCTTCTTGCGTGATCGGGCCGTCATTG
Found at i:79300019 original size:71 final size:70
Alignment explanation
Indices: 79299869--79300029 Score: 196
Period size: 71 Copynumber: 2.3 Consensus size: 70
79299859 TGAGCCTATG
* * * * * *
79299869 GGCCACACGGGCGTGCGGGTTTTTGGGCTATGCCGTGTGGGCCACACGGGTAAGGCAAATCTGGT
1 GGCCACACGGGCGTGTGGGGTTTTGAGCTAGGCCGTATGGGCCACACAGGTAAGGCAAATCTGGT
*
79299934 TGTGT
66 TGTAT
* * * *
79299939 GTGCTACACGGGTGTGTGGGGTTTTGAGCTAGGCTGTATGGGCCACACAGGTAAGGCCAATCTGG
1 G-GCCACACGGGCGTGTGGGGTTTTGAGCTAGGCCGTATGGGCCACACAGGTAAGGCAAATCTGG
79300004 TTGTAT
65 TTGTAT
*
79300010 AGGCCACACGAGCGTGTGGG
1 -GGCCACACGGGCGTGTGGG
79300030 CCCAAACAGG
Statistics
Matches: 75, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
70 1 0.01
71 73 0.97
72 1 0.01
ACGTcount: A:0.17, C:0.20, G:0.39, T:0.24
Consensus pattern (70 bp):
GGCCACACGGGCGTGTGGGGTTTTGAGCTAGGCCGTATGGGCCACACAGGTAAGGCAAATCTGGT
TGTAT
Found at i:79303527 original size:19 final size:21
Alignment explanation
Indices: 79303505--79303544 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
79303495 CGTTCTGGCA
*
79303505 GCCTCGCTACA-A-TCTGGTG
1 GCCTCGCCACATACTCTGGTG
79303524 GCCTCGCCACATACTCTGGTG
1 GCCTCGCCACATACTCTGGTG
79303545 ACTTCGTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 1 0.06
21 7 0.39
ACGTcount: A:0.15, C:0.35, G:0.25, T:0.25
Consensus pattern (21 bp):
GCCTCGCCACATACTCTGGTG
Found at i:79310982 original size:27 final size:26
Alignment explanation
Indices: 79310938--79310989 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
79310928 CTCGCTGCAA
*
79310938 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
79310965 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
79310990 GCAGCCTCGC
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:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:79311501 original size:79 final size:79
Alignment explanation
Indices: 79311344--79311494 Score: 266
Period size: 79 Copynumber: 1.9 Consensus size: 79
79311334 CATTGAGTTT
* * *
79311344 ACCGAACTCGCCCTTTATTTTCATCTCTGCAGGAAATCCCCAACCATAATGGGCTTGGAACTGTG
1 ACCGAACTCACCCTTTATTTTCATCTCTGCAGGAAATCCCCAACCATAATGGGCTTAGAACTATG
79311409 AGGGATTCAGAGTG
66 AGGGATTCAGAGTG
*
79311423 ACCGAACTCACCCTTTATTTTCATCTCTGCAGGAAATCCCCAACCATAGTGGGCTTAGAACTATG
1 ACCGAACTCACCCTTTATTTTCATCTCTGCAGGAAATCCCCAACCATAATGGGCTTAGAACTATG
79311488 AGGGATT
66 AGGGATT
79311495 TGGAGTGGCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 68 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (79 bp):
ACCGAACTCACCCTTTATTTTCATCTCTGCAGGAAATCCCCAACCATAATGGGCTTAGAACTATG
AGGGATTCAGAGTG
Found at i:79314766 original size:47 final size:47
Alignment explanation
Indices: 79314708--79315337 Score: 1161
Period size: 47 Copynumber: 13.4 Consensus size: 47
79314698 CAGCCAAGAC
*
79314708 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
79314755 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
79314802 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
79314849 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
79314896 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
79314943 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
79314990 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
79315037 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
79315084 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
79315131 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
79315178 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
79315225 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * * * * * *
79315272 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
79315319 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
79315338 TCCCGAAGGG
Statistics
Matches: 570, Mismatches: 13, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 570 1.00
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:79315512 original size:37 final size:37
Alignment explanation
Indices: 79315456--79315534 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
79315446 CCGAGCTCTA
* *
79315456 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
79315493 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
79315530 AAGAC
1 AAGAC
79315535 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:79320172 original size:32 final size:32
Alignment explanation
Indices: 79320122--79320184 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
79320112 CACACGGGCT
79320122 AGGCCAAGCTGAGCGTGTAGGCCACATGGGTA
1 AGGCCAAGCTGAGCGTGTAGGCCACATGGGTA
*
79320154 AGGCCAATCTG-GCTGTGTAGGCCACATGGGT
1 AGGCCAAGCTGAGC-GTGTAGGCCACATGGGT
79320185 GTGTGGGCCC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 2 0.07
32 27 0.93
ACGTcount: A:0.22, C:0.22, G:0.37, T:0.19
Consensus pattern (32 bp):
AGGCCAAGCTGAGCGTGTAGGCCACATGGGTA
Found at i:79323919 original size:49 final size:49
Alignment explanation
Indices: 79323838--79323960 Score: 133
Period size: 49 Copynumber: 2.5 Consensus size: 49
79323828 CTTGTTGTGT
*** * *
79323838 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGA
1 GTCAGTGTAAGACCTGTCTGGGACACAACATCGAC-CTCAATAGATGAAA
* * *
79323887 G-CTAGTGTAAGACCTGTCTGGGATACAACATCGGCCTCAATATATGAAA
1 GTC-AGTGTAAGACCTGTCTGGGACACAACATCGACCTCAATAGATGAAA
*
79323936 GTCAGTGTAAGACCTCTCTGGGACA
1 GTCAGTGTAAGACCTGTCTGGGACA
79323961 TGATATCAAC
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
48 2 0.03
49 58 0.95
50 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTGGGACACAACATCGACCTCAATAGATGAAA
Done.