Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 267 of 378
Found at i:80148609 original size:98 final size:96
Alignment explanation
Indices: 80148493--80148732 Score: 399
Period size: 98 Copynumber: 2.5 Consensus size: 96
80148483 CCACACGTCC
* * * *
80148493 TACATACTTCACACTAGCCCTTCGGCTTTACCACATATACGTATCTCATACATATTTCACACTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
80148558 CCATTCGGCTTTACCACATATACATATCTCATA
66 CCATTCGGCTTTACCACATATACATATCTC--A
* * *
80148591 TATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
80148656 CCATTCGGCTTTACCACATATACATATCTCA
66 CCATTCGGCTTTACCACATATACATATCTCA
80148687 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
80148733 TTATCTTGTG
Statistics
Matches: 133, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
96 45 0.34
98 88 0.66
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (96 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
CCATTCGGCTTTACCACATATACATATCTCA
Found at i:80158599 original size:13 final size:13
Alignment explanation
Indices: 80158581--80158605 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
80158571 AAATAAAAAT
80158581 AAAAATAATATAC
1 AAAAATAATATAC
80158594 AAAAATAATATA
1 AAAAATAATATA
80158606 TAACCTAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAAATAATATAC
Found at i:80159321 original size:2 final size:2
Alignment explanation
Indices: 80159314--80159338 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
80159304 TTTATTATGA
80159314 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
80159339 AAATAATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:80159373 original size:12 final size:13
Alignment explanation
Indices: 80159313--80159379 Score: 57
Period size: 13 Copynumber: 5.2 Consensus size: 13
80159303 CTTTATTATG
80159313 AATATATATATATA
1 AATATATATATA-A
*
80159327 TATATATATATAA
1 AATATATATATAA
*
80159340 AATA-ATGTATAAA
1 AATATATATAT-AA
* *
80159353 AACATTTATATAA
1 AATATATATATAA
*
80159366 AATAT-TATACAA
1 AATATATATATAA
80159378 AA
1 AA
80159380 ATGTTAAAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
12 13 0.30
13 15 0.35
14 15 0.35
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.37
Consensus pattern (13 bp):
AATATATATATAA
Found at i:80160266 original size:47 final size:47
Alignment explanation
Indices: 80160206--80160305 Score: 193
Period size: 47 Copynumber: 2.1 Consensus size: 47
80160196 TTAGGCTCTC
80160206 ATCG-GTATCGTTTTAGGTATTTTTCCATTCTTCTCATGCGAAAGTG
1 ATCGCGTATCGTTTTAGGTATTTTTCCATTCTTCTCATGCGAAAGTG
80160252 ATCGCGTATCGTTTTAGGTATTTTTCCATTCTTCTCATGCGAAAGTG
1 ATCGCGTATCGTTTTAGGTATTTTTCCATTCTTCTCATGCGAAAGTG
80160299 ATCGCGT
1 ATCGCGT
80160306 GATTTCGTGA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 4 0.08
47 49 0.92
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (47 bp):
ATCGCGTATCGTTTTAGGTATTTTTCCATTCTTCTCATGCGAAAGTG
Found at i:80162806 original size:40 final size:40
Alignment explanation
Indices: 80162761--80162928 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
80162751 CGGAATATAA
80162761 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
80162801 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
80162841 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
80162881 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
80162921 CCGGATAT
1 CCGGATAT
80162929 CATTCAATTT
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 103 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:80162911 original size:80 final size:80
Alignment explanation
Indices: 80162777--80162926 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
80162767 ATAACCACGT
* *
80162777 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
80162842 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** * *
80162857 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
80162920 CCCGGAT
64 CCCGGAT
80162927 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:80170833 original size:40 final size:40
Alignment explanation
Indices: 80170788--80170955 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
80170778 CGGAATATAA
80170788 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
80170828 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
80170868 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
80170908 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
80170948 CCGGATAT
1 CCGGATAT
80170956 CATTCAATTT
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 103 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:80170938 original size:80 final size:80
Alignment explanation
Indices: 80170804--80170953 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
80170794 ATAACCACGT
* *
80170804 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
80170869 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** * *
80170884 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
80170947 CCCGGAT
64 CCCGGAT
80170954 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:80177342 original size:39 final size:39
Alignment explanation
Indices: 80177299--80177466 Score: 228
Period size: 39 Copynumber: 4.3 Consensus size: 39
80177289 GGTCTTTAAC
** * *
80177299 CCGGATATTTTTCCAGCACGTAGCCTGCGAACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * *
80177338 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * * *
80177377 CCGGATATATTTCTAGCGTATAGCCTGCGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
80177416 CTGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
80177455 CCGGATATTTTT
1 CCGGATATTTTT
80177467 AATCTCATAC
Statistics
Matches: 115, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 115 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:80188843 original size:16 final size:16
Alignment explanation
Indices: 80188822--80188852 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
80188812 ATATATTTTC
*
80188822 ATTTGTATCATATATA
1 ATTTGTATCACATATA
80188838 ATTTGTATCACATAT
1 ATTTGTATCACATAT
80188853 CAAATAGTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.48
Consensus pattern (16 bp):
ATTTGTATCACATATA
Found at i:80189074 original size:43 final size:43
Alignment explanation
Indices: 80189006--80189175 Score: 183
Period size: 43 Copynumber: 4.0 Consensus size: 43
80188996 AAATCGTACA
*
80189006 ATGCCAA-TG-CCCTAGACATGGTCTTACATGTAATCACATATCG
1 ATGCCAACTGTCCC-AGACATGGTCTTACACG-AATCACATATCG
* *
80189049 ATGCC-ACTATCCCAGACA-GGATCTTACACGAATCAAATA-CG
1 ATGCCAACTGTCCCAGACATGG-TCTTACACGAATCACATATCG
*
80189090 ATGCCGA-TGTCCCAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAACTGTCCCAGACATGGTCTTACACG-AATCACATATCG
* * *
80189133 ACGCCAAC-GTCCCAGACATGGTCTTACATGAGAACACATATCG
1 ATGCCAACTGTCCCAGACATGGTCTTACACGA-ATCACATATCG
80189176 GAAATCCTAT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
41 26 0.24
42 23 0.21
43 57 0.52
44 3 0.03
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (43 bp):
ATGCCAACTGTCCCAGACATGGTCTTACACGAATCACATATCG
Found at i:80189147 original size:84 final size:84
Alignment explanation
Indices: 80189006--80189160 Score: 226
Period size: 84 Copynumber: 1.8 Consensus size: 84
80188996 AAATCGTACA
* *
80189006 ATGCCAATGCCCTAGACATGGTCTTACATGTAATCACATATCGATGCCACTATCCCAGACA-GGA
1 ATGCCAATGCCCTAGACATGGTCTTACACGTAATCACATATCGACGCCACTATCCCAGACATGG-
80189070 TCTTACACGAATCAAATACG
65 TCTTACACGAATCAAATACG
* *
80189090 ATGCCGATGTCCC-AGACATGGTCTTACACGTAATCACATATCGACGCCAAC-GTCCCAGACATG
1 ATGCCAATG-CCCTAGACATGGTCTTACACGTAATCACATATCGACGCC-ACTATCCCAGACATG
80189153 GTCTTACA
64 GTCTTACA
80189161 TGAGAACACA
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
84 57 0.89
85 7 0.11
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (84 bp):
ATGCCAATGCCCTAGACATGGTCTTACACGTAATCACATATCGACGCCACTATCCCAGACATGGT
CTTACACGAATCAAATACG
Found at i:80191300 original size:28 final size:28
Alignment explanation
Indices: 80191253--80191338 Score: 136
Period size: 28 Copynumber: 3.1 Consensus size: 28
80191243 TTTGCACACT
* *
80191253 ATTCTCAATATCTCGCACACTAAGTGCC
1 ATTCTCAATATTTCGTACACTAAGTGCC
80191281 ATTCTCAATATTTCGTACACTAAGTGCC
1 ATTCTCAATATTTCGTACACTAAGTGCC
* *
80191309 ATTCTCAATATTCCGTACACTAAGTACC
1 ATTCTCAATATTTCGTACACTAAGTGCC
80191337 AT
1 AT
80191339 ATTTGATTGC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (28 bp):
ATTCTCAATATTTCGTACACTAAGTGCC
Found at i:80204162 original size:20 final size:18
Alignment explanation
Indices: 80204115--80204163 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
80204105 CAAGATAAAC
80204115 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
80204132 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
80204152 ATTAAATTAATA
1 ATTAAATTAATA
80204164 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:80206155 original size:32 final size:32
Alignment explanation
Indices: 80206119--80206182 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
80206109 ATTTTTATGT
*
80206119 TTTTGAGATCATAGTAACTTAATTTAGCTAGC
1 TTTTGAGATCATAGTAAATTAATTTAGCTAGC
80206151 TTTTGAGATCATAGTAAATTAATTTAGCTAGC
1 TTTTGAGATCATAGTAAATTAATTTAGCTAGC
80206183 CCGGGACTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.41
Consensus pattern (32 bp):
TTTTGAGATCATAGTAAATTAATTTAGCTAGC
Found at i:80213221 original size:19 final size:20
Alignment explanation
Indices: 80213183--80213221 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
80213173 TGGCAGAGTG
80213183 CCGAAGAAGCTACGTGAGAAC
1 CCGAAGAAGCTAC-TGAGAAC
*
80213204 CCGAGGAAGCTA-TGAGAA
1 CCGAAGAAGCTACTGAGAA
80213222 AACAGTACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
21 11 0.65
ACGTcount: A:0.38, C:0.21, G:0.31, T:0.10
Consensus pattern (20 bp):
CCGAAGAAGCTACTGAGAAC
Found at i:80217544 original size:19 final size:20
Alignment explanation
Indices: 80217509--80217546 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
80217499 GATAAAATTT
*
80217509 AATTTATTTTTAGTTAAAAA
1 AATTTATTTTTAATTAAAAA
80217529 AATTTA-TTTTAATTAAAA
1 AATTTATTTTTAATTAAAA
80217547 GATACTTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
AATTTATTTTTAATTAAAAA
Found at i:80217696 original size:20 final size:19
Alignment explanation
Indices: 80217648--80217698 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
80217638 TAGGAAAACG
* *
80217648 TAATATATAAA-TATTATT
1 TAATATATAAATTATCAAT
*
80217666 TAATATTTAAATTATCAAT
1 TAATATATAAATTATCAAT
80217685 TATATATATAAATT
1 TA-ATATATAAATT
80217699 TTTAAAATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 10 0.37
19 7 0.26
20 10 0.37
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATATATAAATTATCAAT
Found at i:80218792 original size:24 final size:26
Alignment explanation
Indices: 80218765--80218827 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
80218755 AGTTTAAGTT
*
80218765 ATAAAAATTATA-TATAAG-GTTATA
1 ATAAAAATTATATTATAAGTGTTAAA
*
80218789 ATAAAAAATTTATATTATAAGTTTTAAA
1 AT-AAAAA-TTATATTATAAGTGTTAAA
*
80218817 AAAAAAATTAT
1 ATAAAAATTAT
80218828 TCAACTTGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
24 2 0.06
25 5 0.16
26 9 0.28
27 11 0.34
28 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (26 bp):
ATAAAAATTATATTATAAGTGTTAAA
Found at i:80218821 original size:27 final size:26
Alignment explanation
Indices: 80218767--80218827 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
80218757 TTTAAGTTAT
*
80218767 AAAAA-TTATATATAAGGTTATAATA
1 AAAAATTTATATATAAGGTTATAAAA
*
80218792 AAAAATTTATATTATAA-GTTTTAAAA
1 AAAAATTTATA-TATAAGGTTATAAAA
*
80218818 AAAAAATTAT
1 AAAAATTTAT
80218828 TCAACTTGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.16
26 21 0.68
27 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (26 bp):
AAAAATTTATATATAAGGTTATAAAA
Found at i:80221234 original size:12 final size:11
Alignment explanation
Indices: 80221223--80221266 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
80221213 GGAGTTTTAT
80221223 TAATACAATTA
1 TAATACAATTA
* *
80221234 TAAGTATAATCA
1 TAA-TACAATTA
80221246 TAAATACAATTA
1 T-AATACAATTA
80221258 TAATACAAT
1 TAATACAAT
80221267 CATGTTTGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
11 11 0.41
12 14 0.52
13 2 0.07
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (11 bp):
TAATACAATTA
Found at i:80221256 original size:24 final size:23
Alignment explanation
Indices: 80221224--80221269 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
80221214 GAGTTTTATT
*
80221224 AATACAATTATAAGTATAATCATA
1 AATACAATTATAA-TACAATCATA
80221248 AATACAATTATAATACAATCAT
1 AATACAATTATAATACAATCAT
80221270 GTTTGTGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.33
Consensus pattern (23 bp):
AATACAATTATAATACAATCATA
Found at i:80226676 original size:10 final size:10
Alignment explanation
Indices: 80226663--80226713 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
80226653 AGCTTACTTG
80226663 AGCTCGTTTC
1 AGCTCGTTTC
*
80226673 AGCTCGTTTG
1 AGCTCGTTTC
* *
80226683 AGCTTGATTTT
1 AGCTCG-TTTC
80226694 AGCTCGTTTC
1 AGCTCGTTTC
*
80226704 AGCTCATTTC
1 AGCTCGTTTC
80226714 TTTTTCATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 26 0.76
11 8 0.24
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.43
Consensus pattern (10 bp):
AGCTCGTTTC
Found at i:80226699 original size:21 final size:20
Alignment explanation
Indices: 80226660--80226713 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
80226650 ATCAGCTTAC
80226660 TTGAGCTCGTTTCAGCTCGT
1 TTGAGCTCGTTTCAGCTCGT
* *
80226680 TTGAGCTTGATTTTAGCTCGT
1 TTGAGCTCG-TTTCAGCTCGT
* *
80226701 TTCAGCTCATTTC
1 TTGAGCTCGTTTC
80226714 TTTTTCATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.13, C:0.22, G:0.20, T:0.44
Consensus pattern (20 bp):
TTGAGCTCGTTTCAGCTCGT
Found at i:80242771 original size:2 final size:2
Alignment explanation
Indices: 80242766--80242816 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
80242756 TATATATATC
*
80242766 TG TG TG TG TA TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
80242808 TG TG TG TG T
1 TG TG TG TG T
80242817 TTGAATATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.02, C:0.00, G:0.47, T:0.51
Consensus pattern (2 bp):
TG
Found at i:80246764 original size:17 final size:18
Alignment explanation
Indices: 80246728--80246765 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
80246718 AACTTAAGAT
* *
80246728 AAATTATTAAAATTTTAA
1 AAATTATTAAAAGTTAAA
80246746 AAATT-TTAAAAGTTAAA
1 AAATTATTAAAAGTTAAA
80246763 AAA
1 AAA
80246766 AATTAAATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
AAATTATTAAAAGTTAAA
Found at i:80248302 original size:24 final size:25
Alignment explanation
Indices: 80248275--80248322 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
80248265 GCAAGGTGTA
* *
80248275 ATGTTATATAT-TAATTTTGATTTT
1 ATGTAATATATATAATTTTAATTTT
80248299 ATGTAATATATATAATTTTAATTT
1 ATGTAATATATATAATTTTAATTT
80248323 AATTAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (25 bp):
ATGTAATATATATAATTTTAATTTT
Found at i:80248323 original size:24 final size:24
Alignment explanation
Indices: 80248275--80248323 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
80248265 GCAAGGTGTA
* *
80248275 ATGTTATATATTAATTTTGATTTT
1 ATGTAATATATTAATTTTGAATTT
80248299 ATGTAATATATATAATTTT-AATTT
1 ATGTAATATAT-TAATTTTGAATTT
80248323 A
1 A
80248324 ATTAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (24 bp):
ATGTAATATATTAATTTTGAATTT
Found at i:80250438 original size:2 final size:2
Alignment explanation
Indices: 80250431--80250461 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
80250421 GTACTCAGGG
80250431 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
80250462 AGTTGAGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:80263309 original size:29 final size:29
Alignment explanation
Indices: 80263275--80263377 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 29
80263265 TAATCAGCCG
* *
80263275 CGCACACTTAGTGCCATATACTTT-AAATT
1 CGCACACTTAGTGCCATACA-TTTCAAACT
* *
80263304 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATACATTTCAAACT
* *
80263333 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATACATTTCAAACT
*
80263362 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
80263378 ATCTCTCAAC
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
28 3 0.04
29 65 0.96
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACATTTCAAACT
Found at i:80269840 original size:23 final size:23
Alignment explanation
Indices: 80269810--80269858 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
80269800 TCGATGCACA
* *
80269810 TTCTCATAGTTCCGTCTTTCTTT
1 TTCTCATAATTCCATCTTTCTTT
80269833 TTCTCATAATTCCATCTTTCTTT
1 TTCTCATAATTCCATCTTTCTTT
80269856 TTC
1 TTC
80269859 ACAAATAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.12, C:0.27, G:0.04, T:0.57
Consensus pattern (23 bp):
TTCTCATAATTCCATCTTTCTTT
Found at i:80275073 original size:68 final size:67
Alignment explanation
Indices: 80275001--80275150 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
80274991 CATCATGTGT
* * * *
80275001 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
80275063 ATGTAG
62 ATGTAG
** * *
80275069 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
80275134 AG
66 AG
80275136 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
80275151 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:80275106 original size:64 final size:64
Alignment explanation
Indices: 80275025--80275208 Score: 187
Period size: 67 Copynumber: 2.8 Consensus size: 64
80275015 AGACATTATG
* *
80275025 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
80275089 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
80275154 AA
63 AA
* * *
80275156 ACTG--GCTAGGTCAG-ATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTC-GCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
80275209 CGAACTATAT
Statistics
Matches: 98, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 15 0.15
67 32 0.33
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:80278362 original size:46 final size:44
Alignment explanation
Indices: 80278258--80278365 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
80278248 TGTCTTTGAC
** * * *
80278258 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
80278302 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
80278348 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
80278366 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:80280081 original size:17 final size:18
Alignment explanation
Indices: 80280054--80280099 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
80280044 AATACAACCC
80280054 AAAAT-AAAAAAT-AAAA
1 AAAATAAAAAAATGAAAA
*
80280070 AAAATAAAAAAATGAAGA
1 AAAATAAAAAAATGAAAA
*
80280088 AAAAGAAAAAAA
1 AAAATAAAAAAA
80280100 CCTAACCTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 5 0.19
17 7 0.27
18 14 0.54
ACGTcount: A:0.85, C:0.00, G:0.07, T:0.09
Consensus pattern (18 bp):
AAAATAAAAAAATGAAAA
Found at i:80281291 original size:19 final size:19
Alignment explanation
Indices: 80281267--80281304 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
80281257 TTGAGATTGC
*
80281267 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
80281286 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
80281305 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:80294741 original size:47 final size:46
Alignment explanation
Indices: 80294690--80294834 Score: 108
Period size: 47 Copynumber: 3.2 Consensus size: 46
80294680 GGCGGGGAGT
*
80294690 AGATCGAAGACATAGCTAATTTGGCTTTCACGTGTTTACGTTAAAGC
1 AGATCCAAGACATAGCT-ATTTGGCTTTCACGTGTTTACGTTAAAGC
* * * * *
80294737 AGATCCAAG--AT-G--ATTTGGC-ATCTC-TGTAT-CAGGTAGGGAGC
1 AGATCCAAGACATAGCTATTTGGCTTTCACGTGTTTAC-GTTA--AAGC
* *
80294778 AGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGC
1 AGATCCAAGACATAGCT-ATTTGGCTTTCACGTGTTTACGTTAAAGC
*
80294825 AAATCCAAGA
1 AGATCCAAGA
80294835 TGATTTGGCA
Statistics
Matches: 71, Mismatches: 15, Indels: 24
0.65 0.14 0.22
Matches are distributed among these distances:
38 1 0.01
39 7 0.10
40 3 0.04
41 18 0.25
43 2 0.03
44 2 0.03
45 2 0.03
47 26 0.37
48 3 0.04
49 6 0.08
50 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (46 bp):
AGATCCAAGACATAGCTATTTGGCTTTCACGTGTTTACGTTAAAGC
Found at i:80294800 original size:88 final size:87
Alignment explanation
Indices: 80294651--80294873 Score: 358
Period size: 88 Copynumber: 2.6 Consensus size: 87
80294641 AGCTGAAGAT
* *
80294651 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGTAGATCGAAGACATAGCTAATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGG-AGGGAGCAGATCGAAGACATAGCTAATTTGGCT
*
80294716 TTCACGTGTTTACGTTAAAGCAG
65 TTCACGTGTTTACGTTAAAGCAA
*
80294739 ATCCAAGATGATTTGGCATCTCTGTATCAGGTAGGGAGCAGATCGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGG-AGGGAGCAGATCGAAGACATAGCTAATTTGGCT
*
80294804 TTCACGTGTTTACGTTGAAGCAA
65 TTCACGTGTTTACGTTAAAGCAA
* *
80294827 ATCCAAGATGATTTGGCATCTCTGTAGC-GGCGGGAGCAGATCGAAGA
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGAGGGAGCAGATCGAAGA
80294874 TAACAGATTT
Statistics
Matches: 127, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
86 16 0.13
87 2 0.02
88 109 0.86
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.28
Consensus pattern (87 bp):
ATCCAAGATGATTTGGCATCTCTGTATCAGGAGGGAGCAGATCGAAGACATAGCTAATTTGGCTT
TCACGTGTTTACGTTAAAGCAA
Found at i:80294925 original size:44 final size:44
Alignment explanation
Indices: 80294836--80295585 Score: 1091
Period size: 44 Copynumber: 17.4 Consensus size: 44
80294826 AATCCAAGAT
*
80294836 GATTTGGCATCTCTGTAGCGGCGG-GAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
80294879 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
80294923 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
80294967 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
80295007 GATTTGGCATCTCTGTAACGGTGGAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
80295051 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
80295095 GATTTGGCGTATCTGTAGTGACGGAGAGCAGATCGAAGATAATA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
80295139 GATTTGGCATCTTTGTAGCTGCGGAGAGCAGATCAAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
80295179 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
80295223 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
80295267 GATTTGGCGTCTCTGTAACGGCGGAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
80295311 GATTTGGTGTCTCCGTAGCGGCGGAAAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
80295355 AATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
80295399 GATTTGGCGTCT-TCGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCT-GTAGCGGCGGAGAGCAGATCGAAGATAACA
*
80295443 -A----GCGTCTCTGTAGCGGCGGAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
80295482 GATTTGGCGTCTTTGTAGCGGCGGAGAGCAGATC-AAAATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
80295525 AATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
80295569 GATTTGGCGTCTCTGTA
1 GATTTGGCGTCTCTGTA
80295586 TTAGACGGGG
Statistics
Matches: 637, Mismatches: 53, Indels: 33
0.88 0.07 0.05
Matches are distributed among these distances:
39 34 0.05
40 74 0.12
43 64 0.10
44 465 0.73
ACGTcount: A:0.29, C:0.17, G:0.32, T:0.22
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:80295048 original size:172 final size:172
Alignment explanation
Indices: 80294822--80295585 Score: 1094
Period size: 172 Copynumber: 4.4 Consensus size: 172
80294812 TTTACGTTGA
* *
80294822 AGCAAATCCAAGATGATTTGGCATCTCTGTAGCGGCGG-GAGCAGATCGAAGATAACAGATTTGG
1 AGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGG
* *
80294886 CGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCAGAGAG
66 CGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
* * *
80294951 CAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCAGAG
131 CAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
* * *
80294993 AGCAGATCGAAGATGATTTGGCATCTCTGTAACGGTGGAGAGCAGATCAAAGATAACAGATTTGG
1 AGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGG
* * *
80295058 CGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTATCTGTAGTGACGGAGAG
66 CGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
* * * * *
80295123 CAGATCGAAGATAATAGATTTGGCATCTTTGTAGCTGCGGAG
131 CAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
*
80295165 AGCAGATCAAAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGG
1 AGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGG
* *
80295230 CGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAACGGCGGAGAG
66 CGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
* * *
80295295 CAGATCAAAGATAACAGATTTGGTGTCTCCGTAGCGGCGGAA
131 CAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
* * *
80295337 AGCAGATCGAAGATAACAAATTTGGCGTCTCTGTAGTGGCGGAGAGCAGATCGAAGATAACAGAT
1 AGCAGATCGAAGAT----GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGAT
*
80295402 TTGGCGTCT-TCGTAGCGGCAGAGAGCAGATCGAAGATAACA-A----GCGTCTCTGTAGCGGCG
62 TTGGCGTCTCT-GTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCG
*
80295461 GAGAGCAGATCAAAGATAACAGATTTGGCGTCTTTGTAGCGGCGGAG
126 GAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
* * * *
80295508 AGCAGATC-AAAATAACAAATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACAGAT
1 AGCAGATCGAAGAT----GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGAT
80295572 TTGGCGTCTCTGTA
62 TTGGCGTCTCTGTA
80295586 TTAGACGGGG
Statistics
Matches: 541, Mismatches: 45, Indels: 15
0.90 0.07 0.02
Matches are distributed among these distances:
170 65 0.12
171 102 0.19
172 289 0.53
175 2 0.00
176 83 0.15
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.22
Consensus pattern (172 bp):
AGCAGATCGAAGATGATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGG
CGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
CAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
Found at i:80297135 original size:19 final size:19
Alignment explanation
Indices: 80297111--80297148 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
80297101 TTGAGATTGC
*
80297111 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
80297130 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
80297149 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:80302166 original size:50 final size:51
Alignment explanation
Indices: 80302089--80302217 Score: 179
Period size: 50 Copynumber: 2.5 Consensus size: 51
80302079 GACCATGGCA
* * * * *
80302089 ACAAGTGATAAGCGATAGCTTTGGCTACACTTATCTGATCAAGGATAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGACAAATG
*
80302140 A-AAGTGATAAGTAATAGCTTCGGCTACACTTATCTAATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGACAAATG
* *
80302190 ACAAGTGAAAAGTGGTAGCTTCGGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
80302218 TTGATCAGTG
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 44 0.65
51 24 0.35
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGACAAATG
Found at i:80302231 original size:31 final size:31
Alignment explanation
Indices: 80302193--80302341 Score: 183
Period size: 31 Copynumber: 4.8 Consensus size: 31
80302183 ACAAATGACA
* *
80302193 AGTGAAAAGTGGTAGCTTCGGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTCGACTACCTGATC
* **
80302224 AGTGAAAAGCGGTAGCTTCTTCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGACTACCTGATC
* *
80302255 AGTGAAAAATGGTAGCTCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGACTACCTGATC
* * *
80302286 AGTAAAAAATGGTAGC-TCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GACTACCTGATC
*
80302317 AGTGAATAGTGGTAGCTTCGACTAC
1 AGTGAAAAGTGGTAGCTTCGACTAC
80302342 AAGTGACAAG
Statistics
Matches: 100, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
30 1 0.01
31 97 0.97
32 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGACTACCTGATC
Found at i:80302535 original size:49 final size:49
Alignment explanation
Indices: 80302443--80302544 Score: 152
Period size: 49 Copynumber: 2.1 Consensus size: 49
80302433 ATCAGTGAGG
* * *
80302443 TATGTGATTTGTGTAAGACCATAGCTGGGCTATGGCGTCGATATGTGA-
1 TATGTGATTTGTGTAAGACCATAGCTGGGCTATGACATCGATATATGAC
*
80302491 TATGTGATTATGTGTAAGACCATAGCTGGGCTATGACATTGATATATGAC
1 TATGTGATT-TGTGTAAGACCATAGCTGGGCTATGACATCGATATATGAC
80302541 TATG
1 TATG
80302545 GCATCGAGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
48 9 0.19
49 35 0.73
50 4 0.08
ACGTcount: A:0.26, C:0.12, G:0.27, T:0.34
Consensus pattern (49 bp):
TATGTGATTTGTGTAAGACCATAGCTGGGCTATGACATCGATATATGAC
Found at i:80303844 original size:28 final size:29
Alignment explanation
Indices: 80303803--80303858 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
80303793 TTTTGATTTC
80303803 TAAAAAGTAAAGGGACTAAATCCTAAAAA
1 TAAAAAGTAAAGGGACTAAATCCTAAAAA
* * *
80303832 TAAAAA-TATAGGGACTTAATTCTAAAA
1 TAAAAAGTAAAGGGACTAAATCCTAAAA
80303859 TTTTAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 18 0.75
29 6 0.25
ACGTcount: A:0.55, C:0.09, G:0.12, T:0.23
Consensus pattern (29 bp):
TAAAAAGTAAAGGGACTAAATCCTAAAAA
Found at i:80304705 original size:19 final size:19
Alignment explanation
Indices: 80304672--80304719 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
80304662 TAAACAATTC
80304672 AATAATATAAA--TAATAT
1 AATAATATAAATTTAATAT
*
80304689 AA-AATATGAAATTTAATTT
1 AATAATAT-AAATTTAATAT
80304708 AATAATATAAAT
1 AATAATATAAAT
80304720 AGTAGATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
19 11 0.42
20 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAATATAAATTTAATAT
Found at i:80304945 original size:7 final size:7
Alignment explanation
Indices: 80304933--80304958 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
80304923 TTTGGGTAGA
80304933 TGGGAGG
1 TGGGAGG
80304940 TGGGAGG
1 TGGGAGG
80304947 TGGGAGG
1 TGGGAGG
80304954 TGGGA
1 TGGGA
80304959 TGGGAAGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.69, T:0.15
Consensus pattern (7 bp):
TGGGAGG
Found at i:80305335 original size:18 final size:18
Alignment explanation
Indices: 80305309--80305343 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
80305299 ATTCGTGTTG
*
80305309 ACTCGAATAACTCGATTA
1 ACTCAAATAACTCGATTA
*
80305327 ACTCAAATAACTTGATT
1 ACTCAAATAACTCGATT
80305344 CGTTTAACTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (18 bp):
ACTCAAATAACTCGATTA
Found at i:80305923 original size:31 final size:31
Alignment explanation
Indices: 80305888--80305948 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
80305878 TATAAAAAGT
80305888 AATCAAAATTAAAATTTCATATATACATATG
1 AATCAAAATTAAAATTTCATATATACATATG
* * * * *
80305919 AATCACAATTTAAGTTTTATATATATATAT
1 AATCAAAATTAAAATTTCATATATACATAT
80305949 ATATATATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.41
Consensus pattern (31 bp):
AATCAAAATTAAAATTTCATATATACATATG
Found at i:80311840 original size:19 final size:19
Alignment explanation
Indices: 80311794--80311841 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
80311784 GTATATATTT
*
80311794 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAAGTAGA
*
80311812 TAAATCTTATTTAAGTAGA
1 TAAATTTTATTTAAGTAGA
*
80311831 TAAGTTTTATT
1 TAAATTTTATT
80311842 CATATTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAAGTAGA
Found at i:80311910 original size:42 final size:42
Alignment explanation
Indices: 80311858--80311946 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
80311848 CTAGGAATAT
* * * *
80311858 TTTTATTTTATCTTTTAGTAGTTTATTAGGACAAGGAAACTG
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAACAAGGAAACTA
* *
80311900 TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAGGGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAACAAGGAAACTA
80311942 TTTTC
1 TTTTC
80311947 CCAATTAGGA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.51
Consensus pattern (42 bp):
TTTTCTTTTATATTTTAGTAGTTTATTAGAACAAGGAAACTA
Found at i:80315716 original size:19 final size:19
Alignment explanation
Indices: 80315670--80315717 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
80315660 GTATATATTT
80315670 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
80315688 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
80315707 TAAGTTTTATT
1 TAAATTTTATT
80315718 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:80315801 original size:42 final size:42
Alignment explanation
Indices: 80315734--80315823 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
80315724 CTAGGAATAT
* * * *
80315734 TTTTATTTTATCTTTTAGTACTTTATTAGGACAAGGGAACTA
1 TTTTCTTTTATATTTTAATACTTTATTAGAACAAGGGAACTA
* *
80315776 TTTTCTTTTATATTTTAATAGTTTATTAGAATAAGGGAACTA
1 TTTTCTTTTATATTTTAATACTTTATTAGAACAAGGGAACTA
80315818 TTTTCT
1 TTTTCT
80315824 CAATTAGGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.29, C:0.08, G:0.12, T:0.51
Consensus pattern (42 bp):
TTTTCTTTTATATTTTAATACTTTATTAGAACAAGGGAACTA
Found at i:80316088 original size:2 final size:2
Alignment explanation
Indices: 80316083--80316121 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
80316073 GTATACATGC
80316083 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
80316122 AAAGACAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:80319362 original size:11 final size:10
Alignment explanation
Indices: 80319340--80319385 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
80319330 TAAAAAGAAT
80319340 AAAAAATA-C
1 AAAAAATATC
80319349 AAAAGAATATC
1 AAAA-AATATC
80319360 AAAAAA-ATC
1 AAAAAATATC
*
80319369 AGAAAAATATT
1 A-AAAAATATC
80319380 AAAAAA
1 AAAAAA
80319386 ATAAAAATCA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
9 8 0.25
10 16 0.50
11 8 0.25
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.15
Consensus pattern (10 bp):
AAAAAATATC
Found at i:80319377 original size:20 final size:21
Alignment explanation
Indices: 80319340--80319392 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
80319330 TAAAAAGAAT
80319340 AAAAAATACAAAAGAATATCA
1 AAAAAATACAAAAGAATATCA
*
80319361 AAAAAAT-CAGAAA-AATATTA
1 AAAAAATACA-AAAGAATATCA
80319381 AAAAAATA-AAAA
1 AAAAAATACAAAA
80319393 TCAGGAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 3 0.10
20 16 0.55
21 10 0.34
ACGTcount: A:0.75, C:0.06, G:0.04, T:0.15
Consensus pattern (21 bp):
AAAAAATACAAAAGAATATCA
Found at i:80319469 original size:2 final size:2
Alignment explanation
Indices: 80319464--80319501 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
80319454 ATATAATACA
80319464 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
80319502 GATATCAGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:80319613 original size:24 final size:24
Alignment explanation
Indices: 80319565--80319613 Score: 57
Period size: 24 Copynumber: 2.0 Consensus size: 24
80319555 ATCTTAACTC
*
80319565 TCTTTTACTATTTTTATTTTAATT
1 TCTTTTACTATTTTTATTTCAATT
80319589 TCTTCTTAC-ATTTTT-TTTCATATT
1 TCTT-TTACTATTTTTATTTCA-ATT
80319613 T
1 T
80319614 TCTCTTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 4 0.18
24 14 0.64
25 4 0.18
ACGTcount: A:0.18, C:0.12, G:0.00, T:0.69
Consensus pattern (24 bp):
TCTTTTACTATTTTTATTTCAATT
Found at i:80319729 original size:11 final size:10
Alignment explanation
Indices: 80319697--80319741 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
80319687 TTATATATAA
*
80319697 TTTTTTGATT
1 TTTTTTGAAT
*
80319707 TTTTTTTAAT
1 TTTTTTGAAT
80319717 TTTTTTGAGAT
1 TTTTTTGA-AT
*
80319728 TTTTATGAAT
1 TTTTTTGAAT
80319738 TTTT
1 TTTT
80319742 GACATATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
10 21 0.70
11 9 0.30
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (10 bp):
TTTTTTGAAT
Found at i:80322502 original size:5 final size:5
Alignment explanation
Indices: 80322481--80322516 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
80322471 TAAAATATTT
*
80322481 TTAAA TAAAA GTTAAA TTAAA TTAAA TTAAA TTAAA
1 TTAAA TTAAA -TTAAA TTAAA TTAAA TTAAA TTAAA
80322517 ATTGTTTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 24 0.86
6 4 0.14
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (5 bp):
TTAAA
Found at i:80322554 original size:19 final size:20
Alignment explanation
Indices: 80322505--80322562 Score: 75
Period size: 19 Copynumber: 3.0 Consensus size: 20
80322495 AATTAAATTA
80322505 AATTAAATTAAAATTGTTTC
1 AATTAAATTAAAATTGTTTC
* *
80322525 AATTGAGTTAAACA-T-TTTC
1 AATTAAATTAAA-ATTGTTTC
80322544 AATTAAATTAAAATTGTTT
1 AATTAAATTAAAATTGTTT
80322563 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 1 0.03
19 15 0.48
20 14 0.45
21 1 0.03
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (20 bp):
AATTAAATTAAAATTGTTTC
Found at i:80323329 original size:41 final size:39
Alignment explanation
Indices: 80323242--80323493 Score: 209
Period size: 41 Copynumber: 6.1 Consensus size: 39
80323232 GCAAAAATTG
*** *
80323242 TAAAACACAGAGCAATAGCGGCGTTTTTTACCAAAAACACCGC
1 TAAAA-ACA-AGCAATAGCGGCG-TTTTT-GGTAAAACGCCGC
* * *
80323285 TAAAAACGAAGCAATACCGGCGTTTTTTGTTAAAACGCCAC
1 TAAAAAC-AAGCAATAGCGGCG-TTTTTGGTAAAACGCCGC
* *
80323326 TAAAAACAGAGAAATAGCGGCGTTTTTGGTAAAATGCCGC
1 TAAAAACA-AGCAATAGCGGCGTTTTTGGTAAAACGCCGC
*
80323366 TAAAAAACAAAGCATTAGCGGCGTTTTTGGTAAAACGCCGC
1 T-AAAAAC-AAGCAATAGCGGCGTTTTTGGTAAAACGCCGC
* * * *
80323407 TAAAAGCCAGAGCATTAGCGGCGCTTTTGGTAAAATGCCGC
1 TAAAA-ACA-AGCAATAGCGGCGTTTTTGGTAAAACGCCGC
* * * *
80323448 TAAAAGCCGGAGCATTAGCGGCGCTTTTT-GTAAAACGCTGC
1 TAAAA-AC-AAGCAATAGCGGCG-TTTTTGGTAAAACGCCGC
80323489 TAAAA
1 TAAAA
80323494 GTCATATAAC
Statistics
Matches: 180, Mismatches: 21, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
40 22 0.12
41 127 0.71
42 25 0.14
43 6 0.03
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (39 bp):
TAAAAACAAGCAATAGCGGCGTTTTTGGTAAAACGCCGC
Found at i:80323494 original size:41 final size:41
Alignment explanation
Indices: 80323275--80323494 Score: 239
Period size: 41 Copynumber: 5.4 Consensus size: 41
80323265 TTTTTTACCA
* * * * * *
80323275 AAAACACCGCTAAAAACGA-AGCAATACCGGCGTTTTTTGTT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCG-TTTTTGGT
* * * *
80323316 AAAACGCCACTAAAA-ACAGAGAAATAGCGGCGTTTTTGGT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGTTTTTGGT
* ** *
80323356 AAAATGCCGCTAAAAAACAAAGCATTAGCGGCGTTTTTGGT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGTTTTTGGT
*
80323397 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGTTTTTGGT
* *
80323438 AAAATGCCGCTAAAAGCCGGAGCATTAGCGGCGCTTTTT-GT
1 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCG-TTTTTGGT
*
80323479 AAAACGCTGCTAAAAG
1 AAAACGCCGCTAAAAG
80323495 TCATATAACC
Statistics
Matches: 154, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
40 21 0.14
41 129 0.84
42 4 0.03
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (41 bp):
AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGTTTTTGGT
Found at i:80323860 original size:21 final size:20
Alignment explanation
Indices: 80323823--80323865 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
80323813 ATTATAGTTT
80323823 AGGGTTTACGTTATATGGTTA
1 AGGGTTTACGTT-TATGGTTA
*
80323844 AGGGTTTAATGTTTATGAGTTA
1 AGGGTTT-ACGTTTATG-GTTA
80323866 CTATTTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.26, C:0.02, G:0.28, T:0.44
Consensus pattern (20 bp):
AGGGTTTACGTTTATGGTTA
Found at i:80323924 original size:31 final size:31
Alignment explanation
Indices: 80323870--80323955 Score: 81
Period size: 31 Copynumber: 2.9 Consensus size: 31
80323860 GAGTTACTAT
* *
80323870 TTTAAGGTTTAGGGATTATGGTTTAAGTGTG
1 TTTAAGGGTTAGGGATTAAGGTTTAAGTGTG
* *
80323901 TTTAAGGGTTGGGGTTTAAGGTTT-AG-GTG
1 TTTAAGGGTTAGGGATTAAGGTTTAAGTGTG
* *
80323930 --TAAGGGGTTAGGGGTTAAGGGTTAAG
1 TTTAA-GGGTTAGGGATTAAGGTTTAAG
80323956 GGTTCATGAT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
27 3 0.07
28 16 0.35
29 5 0.11
30 2 0.04
31 20 0.43
ACGTcount: A:0.22, C:0.00, G:0.40, T:0.38
Consensus pattern (31 bp):
TTTAAGGGTTAGGGATTAAGGTTTAAGTGTG
Found at i:80323953 original size:14 final size:14
Alignment explanation
Indices: 80323902--80323959 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
80323892 TTAAGTGTGT
80323902 TTAAGGGTT-GGGG
1 TTAAGGGTTAGGGG
* *
80323915 TTTAAGGTTTAGGTG
1 -TTAAGGGTTAGGGG
80323930 -TAAGGGGTTAGGGG
1 TTAA-GGGTTAGGGG
*
80323944 TTAAGGGTTAAGGG
1 TTAAGGGTTAGGGG
80323958 TT
1 TT
80323960 CATGATTCAG
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
13 3 0.08
14 27 0.75
15 6 0.17
ACGTcount: A:0.21, C:0.00, G:0.45, T:0.34
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:80329384 original size:21 final size:21
Alignment explanation
Indices: 80329358--80329405 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
80329348 TCAACTTAGA
*
80329358 GCGGAGGCAGTAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
80329379 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
80329400 GCGGAG
1 GCGGAG
80329406 CAGAACAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.23, C:0.17, G:0.58, T:0.02
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGAGGGAG
Found at i:80329763 original size:43 final size:43
Alignment explanation
Indices: 80329702--80329969 Score: 378
Period size: 43 Copynumber: 6.3 Consensus size: 43
80329692 GGGCAAATTC
80329702 GCGGCGTTTTTTATAAAAGCGCCGCGAAAGGTCCCGGTCTTTA
1 GCGGCGTTTTTTATAAAAGCGCCGCGAAAGGTCCCGGTCTTTA
*
80329745 GCGGCGTTTTTTATAAAAGCGCCGCGAAAGGTCCCGGTATTTA
1 GCGGCGTTTTTTATAAAAGCGCCGCGAAAGGTCCCGGTCTTTA
* * *
80329788 GAGGCGTTTTTTAAAAAAGCGCCGCGAAAGGTCCCGATCTTTA
1 GCGGCGTTTTTTATAAAAGCGCCGCGAAAGGTCCCGGTCTTTA
*
80329831 GCGGCG-TTTTTATAAAAGCGCCGCGAAAGGTCCCAGTCTTTA
1 GCGGCGTTTTTTATAAAAGCGCCGCGAAAGGTCCCGGTCTTTA
* **
80329873 GCAGCG-TTTTTATAAAAGCATCGCGAAAGGTCCCGGTCTTTA
1 GCGGCGTTTTTTATAAAAGCGCCGCGAAAGGTCCCGGTCTTTA
** * * * ** *
80329915 GCGGCACTTTTTAAAAAAGCGCCGCTAAAAGTCTTGGTTTTTA
1 GCGGCGTTTTTTATAAAAGCGCCGCGAAAGGTCCCGGTCTTTA
80329958 GCGGCGTTTTTT
1 GCGGCGTTTTTT
80329970 TCGAAAAACG
Statistics
Matches: 199, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
42 75 0.38
43 124 0.62
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (43 bp):
GCGGCGTTTTTTATAAAAGCGCCGCGAAAGGTCCCGGTCTTTA
Found at i:80329862 original size:85 final size:85
Alignment explanation
Indices: 80329704--80329969 Score: 365
Period size: 85 Copynumber: 3.1 Consensus size: 85
80329694 GCAAATTCGC
80329704 GGCGTTTTTTATAAAAGCGCCGCGAAAGGTCCCGGTCTTTAGCGGCGTTTTTTATAAAAGCGCCG
1 GGCGTTTTTTATAAAAGCGCCGCGAAAGGTCCCGGTCTTTAGCGGCG-TTTTTATAAAAGCGCCG
80329769 CGAAAGGTCCCGGTATTTAGA
65 CGAAAGGTCCCGGTATTTAGA
* *
80329790 GGCGTTTTTTAAAAAAGCGCCGCGAAAGGTCCCGATCTTTAGCGGCGTTTTTATAAAAGCGCCGC
1 GGCGTTTTTTATAAAAGCGCCGCGAAAGGTCCCGGTCTTTAGCGGCGTTTTTATAAAAGCGCCGC
* *
80329855 GAAAGGTCCCAGTCTTTAGCA
66 GAAAGGTCCCGGTATTTAG-A
** * *
80329876 -GCG-TTTTTATAAAAGCATCGCGAAAGGTCCCGGTCTTTAGCGGCACTTTTTAAAAAAGCGCCG
1 GGCGTTTTTTATAAAAGCGCCGCGAAAGGTCCCGGTCTTTAGCGGC-GTTTTTATAAAAGCGCCG
* * ** * *
80329939 CTAAAAGTCTTGGTTTTTAGC
65 CGAAAGGTCCCGGTATTTAGA
80329960 GGCGTTTTTT
1 GGCGTTTTTT
80329970 TCGAAAAACG
Statistics
Matches: 159, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
84 37 0.23
85 71 0.45
86 51 0.32
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (85 bp):
GGCGTTTTTTATAAAAGCGCCGCGAAAGGTCCCGGTCTTTAGCGGCGTTTTTATAAAAGCGCCGC
GAAAGGTCCCGGTATTTAGA
Found at i:80333193 original size:3 final size:3
Alignment explanation
Indices: 80333185--80333245 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
80333175 GTAAGTACAT
80333185 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
80333233 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
80333246 GGGTAAAGTA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:80333482 original size:3 final size:3
Alignment explanation
Indices: 80333476--80333516 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
80333466 ACTAGGTAGT
* *
80333476 AGA AGA AGA AGA AGA AG- AGA AAA AGA AAA AGA AG- AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
80333517 ATGGAGATGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 28 0.88
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:80333501 original size:17 final size:17
Alignment explanation
Indices: 80333476--80333513 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
80333466 ACTAGGTAGT
* *
80333476 AGAAGAAGAAGAAGAAG
1 AGAAAAAGAAAAAGAAG
80333493 AGAAAAAGAAAAAGAAG
1 AGAAAAAGAAAAAGAAG
80333510 AGAA
1 AGAA
80333514 GAAATGGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (17 bp):
AGAAAAAGAAAAAGAAG
Found at i:80344119 original size:21 final size:22
Alignment explanation
Indices: 80344095--80344136 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
80344085 AATTGGGTCG
*
80344095 AATAAATTTGAATT-TTGATTA
1 AATAAATTTAAATTGTTGATTA
*
80344116 AATAGATTTAAATTGTTGATT
1 AATAAATTTAAATTGTTGATT
80344137 TTTATAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (22 bp):
AATAAATTTAAATTGTTGATTA
Found at i:80345128 original size:43 final size:43
Alignment explanation
Indices: 80345067--80345153 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
80345057 TTATTCCTTC
80345067 AACCAACAAACATTGCATTCTAATTTCTACCCTATTTGCATCA
1 AACCAACAAACATTGCATTCTAATTTCTACCCTATTTGCATCA
* *
80345110 AACCACCAAACATTGCATTCTAATTTCTGCCCTATTTGCATCA
1 AACCAACAAACATTGCATTCTAATTTCTACCCTATTTGCATCA
80345153 A
1 A
80345154 TTACAACAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.32
Consensus pattern (43 bp):
AACCAACAAACATTGCATTCTAATTTCTACCCTATTTGCATCA
Found at i:80347671 original size:15 final size:15
Alignment explanation
Indices: 80347651--80347690 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
80347641 TTTTTAATTC
80347651 TAAAAATACA-AAAAT
1 TAAAAATA-ATAAAAT
80347666 TAAAAATAATAAAAT
1 TAAAAATAATAAAAT
80347681 TAAAATATAA
1 TAAAA-ATAA
80347691 AGACTAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.04
15 18 0.78
16 4 0.17
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (15 bp):
TAAAAATAATAAAAT
Found at i:80354685 original size:4 final size:4
Alignment explanation
Indices: 80354676--80354783 Score: 58
Period size: 4 Copynumber: 26.8 Consensus size: 4
80354666 TTTTAATTCT
* * * *
80354676 TTTA TTTA TTCA TTTA TTTA TTTA CTTG TTTA TTTA TTCA -TTA TTCCT-
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA
* * * * * * * * *
80354724 TTTA TTTCA TTCA TTTG CTTG TTCA TTTA CTTA TTCA CTTG TTTA TTTA
1 TTTA TTT-A TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
80354773 TTTA TTTA TTT
1 TTTA TTTA TTT
80354784 TAATCCTTGT
Statistics
Matches: 75, Mismatches: 24, Indels: 10
0.69 0.22 0.09
Matches are distributed among these distances:
3 3 0.04
4 66 0.88
5 5 0.07
6 1 0.01
ACGTcount: A:0.19, C:0.11, G:0.04, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:80354691 original size:12 final size:12
Alignment explanation
Indices: 80354671--80354782 Score: 73
Period size: 12 Copynumber: 9.2 Consensus size: 12
80354661 TTTTATTTTA
*
80354671 ATTCTTTTATTT
1 ATTCATTTATTT
80354683 ATTCATTTATTT
1 ATTCATTTATTT
* * *
80354695 ATTTACTTGTTT
1 ATTCATTTATTT
* *
80354707 ATTTATTCA-TT
1 ATTCATTTATTT
*
80354718 ATTCCTTTTATTT
1 ATT-CATTTATTT
**
80354731 CATTCATTTGCTT
1 -ATTCATTTATTT
* *
80354744 GTTCATTTACTT
1 ATTCATTTATTT
* *
80354756 ATTCACTTGTTT
1 ATTCATTTATTT
*
80354768 ATTTATTTATTT
1 ATTCATTTATTT
80354780 ATT
1 ATT
80354783 TTAATCCTTG
Statistics
Matches: 75, Mismatches: 22, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
11 5 0.07
12 59 0.79
13 8 0.11
14 3 0.04
ACGTcount: A:0.20, C:0.12, G:0.04, T:0.65
Consensus pattern (12 bp):
ATTCATTTATTT
Found at i:80354887 original size:11 final size:11
Alignment explanation
Indices: 80354871--80354908 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
80354861 GCCTGCATTA
80354871 TTATTACTATT
1 TTATTACTATT
80354882 TTATTATCTA--
1 TTATTA-CTATT
80354892 TTATTACTATT
1 TTATTACTATT
80354903 TTATTA
1 TTATTA
80354909 TCATCTATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
9 3 0.12
10 6 0.25
11 12 0.50
12 3 0.12
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (11 bp):
TTATTACTATT
Found at i:80354917 original size:24 final size:21
Alignment explanation
Indices: 80354869--80354910 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
80354859 ATGCCTGCAT
80354869 TATTATTACTATTTTATTATC
1 TATTATTACTATTTTATTATC
80354890 TATTATTACTATTTTATTATC
1 TATTATTACTATTTTATTATC
80354911 ATCTATTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTATTACTATTTTATTATC
Found at i:80355016 original size:3 final size:3
Alignment explanation
Indices: 80355010--80355040 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
80355000 ATTCTTCTTG
*
80355010 TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
80355041 CACTTACCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:80359914 original size:3 final size:3
Alignment explanation
Indices: 80359899--80360056 Score: 71
Period size: 3 Copynumber: 52.7 Consensus size: 3
80359889 ATTTTTTACA
* *
80359899 TAT TAT TAA TAT TAT TAC TAT TAT T-T TAT T-T CTAT TAT TAT CT-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT
* ** * * *
80359943 TAT TAT TAT TGT TGG TAT TAT T-T TCAT TAC TAT TAT TTT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * * * *
80359988 CA- TAT TAAT TAT T-T TCT AACG TAT TAT TAT TACT AAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT
80360034 T-T CTAGT T-T TAT TAT TAT TAT TA
1 TAT -TA-T TAT TAT TAT TAT TAT TA
80360057 ATACTAGTGT
Statistics
Matches: 117, Mismatches: 22, Indels: 32
0.68 0.13 0.19
Matches are distributed among these distances:
2 12 0.10
3 93 0.79
4 11 0.09
5 1 0.01
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:80359976 original size:15 final size:14
Alignment explanation
Indices: 80359910--80359986 Score: 59
Period size: 14 Copynumber: 5.4 Consensus size: 14
80359900 ATTATTAATA
80359910 TTATTACTATTATT
1 TTATTACTATTATT
*
80359924 TTATTTCTATTATT
1 TTATTACTATTATT
* *
80359938 ATCTT--TATTATT
1 TTATTACTATTATT
* **
80359950 ATTGTTGGTATTATT
1 -TTATTACTATTATT
80359965 TTCATTACTATTATTT
1 TT-ATTACTATTA-TT
80359981 TTATTA
1 TTATTA
80359987 ACATATTAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
12 7 0.14
13 3 0.06
14 18 0.36
15 18 0.36
16 4 0.08
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (14 bp):
TTATTACTATTATT
Found at i:80360086 original size:17 final size:16
Alignment explanation
Indices: 80360064--80360095 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
80360054 TTAATACTAG
80360064 TGTATGTATATTATATA
1 TGTATGTATA-TATATA
80360081 TGTATGTATATATAT
1 TGTATGTATATATAT
80360096 TTATATATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (16 bp):
TGTATGTATATATATA
Found at i:80360271 original size:16 final size:15
Alignment explanation
Indices: 80360246--80360298 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 15
80360236 ATGTTATGTA
*
80360246 TATATGTTTTCAATAT
1 TATAT-TTTTTAATAT
80360262 TATATTTTTTATATAT
1 TATATTTTTTA-ATAT
80360278 TATTATATATTTTAATAT
1 TA-TAT-T-TTTTAATAT
80360296 TAT
1 TAT
80360299 TAGTTATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 5 0.16
16 11 0.34
17 4 0.12
18 7 0.22
19 5 0.16
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (15 bp):
TATATTTTTTAATAT
Found at i:80360295 original size:8 final size:9
Alignment explanation
Indices: 80360261--80360316 Score: 51
Period size: 9 Copynumber: 5.8 Consensus size: 9
80360251 GTTTTCAATA
*
80360261 TTATATTTT
1 TTATATATT
80360270 TTATATATT
1 TTATATATT
80360279 ATTATATATT
1 -TTATATATT
80360289 TTAATATTATT
1 TT-ATA-TATT
80360300 AGTTATATATT
1 --TTATATATT
80360311 TT-TATA
1 TTATATA
80360317 CTATTATATG
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
8 4 0.10
9 12 0.29
10 12 0.29
11 8 0.20
12 3 0.07
13 2 0.05
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (9 bp):
TTATATATT
Found at i:80360308 original size:22 final size:21
Alignment explanation
Indices: 80360259--80360375 Score: 114
Period size: 22 Copynumber: 5.5 Consensus size: 21
80360249 ATGTTTTCAA
*
80360259 TATTATAT-TTTTTATA-TAT
1 TATTATATATTTTAATACTAT
*
80360278 TATTATATATTTTAATATTAT
1 TATTATATATTTTAATACTAT
*
80360299 TAGTTATATATTTTTATACTAT
1 TA-TTATATATTTTAATACTAT
* *
80360321 TATATGTATATTTCTAATATTA-
1 TAT-TATATATTT-TAATACTAT
*
80360343 TATTGTATATTTCTAATACTAT
1 TATTATATATTT-TAATACTAT
80360365 TATTTATATAT
1 TA-TTATATAT
80360376 ATATATGTGT
Statistics
Matches: 83, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
19 8 0.10
20 7 0.08
21 23 0.28
22 32 0.39
23 13 0.16
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (21 bp):
TATTATATATTTTAATACTAT
Found at i:80360496 original size:24 final size:24
Alignment explanation
Indices: 80360459--80360600 Score: 89
Period size: 24 Copynumber: 5.8 Consensus size: 24
80360449 GTATATATTG
*
80360459 TATATGTTTTATA-TATGTTATGTA
1 TATAT-TTTTATACTATATTATGTA
*
80360483 TATATTTTTAATATTACTAATTA--TA
1 TATATTTTT-ATACTA-T-ATTATGTA
80360508 TATATTTCTTATAC-AT-TTCCATGTA
1 TATATTT-TTATACTATATT--ATGTA
* * *
80360533 CATATTTTTATACCATCTTATGTA
1 TATATTTTTATACTATATTATGTA
*
80360557 TATATTTTTAAATACTATATTGTGTA
1 TATATTTTT--ATACTATATTATGTA
* *
80360583 TATATATATATA-TATATT
1 TATATTTTTATACTATATT
80360601 CTTAATACCA
Statistics
Matches: 96, Mismatches: 9, Indels: 27
0.73 0.07 0.20
Matches are distributed among these distances:
21 2 0.02
23 12 0.12
24 31 0.32
25 24 0.25
26 24 0.25
27 3 0.03
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (24 bp):
TATATTTTTATACTATATTATGTA
Found at i:80370654 original size:46 final size:46
Alignment explanation
Indices: 80370594--80370813 Score: 278
Period size: 46 Copynumber: 5.0 Consensus size: 46
80370584 TTTGACATGA
* * * * * *
80370594 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
80370640 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
80370686 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
80370732 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C---TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
80370770 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
80370814 AGAGCACACT
Statistics
Matches: 154, Mismatches: 11, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
38 34 0.22
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 4 0.03
46 108 0.70
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:80370777 original size:38 final size:38
Alignment explanation
Indices: 80370726--80370801 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
80370716 ACATTTCATA
80370726 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
80370764 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
80370802 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:80376344 original size:26 final size:26
Alignment explanation
Indices: 80376313--80376420 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
80376303 TGAAATGCCC
*
80376313 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
80376339 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
80376365 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
80376391 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
80376417 ATCA
1 ATCA
80376421 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:80379694 original size:30 final size:30
Alignment explanation
Indices: 80379660--80379717 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
80379650 CCAGAAGAGA
80379660 ATGATCGCCGCTCATGATAAGAAGGTACAG
1 ATGATCGCCGCTCATGATAAGAAGGTACAG
80379690 ATGATCGCCGCTCATGATAAGAAGGTAC
1 ATGATCGCCGCTCATGATAAGAAGGTAC
80379718 GGCCAAGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.21
Consensus pattern (30 bp):
ATGATCGCCGCTCATGATAAGAAGGTACAG
Found at i:80380849 original size:2 final size:2
Alignment explanation
Indices: 80380842--80380869 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
80380832 AAGTGTTTAG
80380842 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
80380870 TAATAATGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:80382527 original size:47 final size:47
Alignment explanation
Indices: 80382473--80382666 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
80382463 TTAGGATTTT
** * *
80382473 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
80382520 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
80382567 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
80382614 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
80382661 ATGTGA
1 ATGTGA
80382667 AATATGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:80382573 original size:22 final size:22
Alignment explanation
Indices: 80382502--80382573 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
80382492 GTATATATGA
80382502 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
80382524 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
80382549 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
80382571 GAT
1 GAT
80382574 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:80382622 original size:25 final size:25
Alignment explanation
Indices: 80382547--80382622 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
80382537 ATGCATATAT
80382547 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
80382572 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
80382594 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
80382619 GTGA
1 GTGA
80382623 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:80382788 original size:50 final size:48
Alignment explanation
Indices: 80382636--80382772 Score: 229
Period size: 50 Copynumber: 2.8 Consensus size: 48
80382626 TGAACATGCA
80382636 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
80382684 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATG
* *
80382734 TATATGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
80382773 GGCGATGTGC
Statistics
Matches: 83, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
48 36 0.43
49 4 0.05
50 43 0.52
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:80383063 original size:37 final size:37
Alignment explanation
Indices: 80382920--80383062 Score: 232
Period size: 37 Copynumber: 3.9 Consensus size: 37
80382910 AAATATATTT
*
80382920 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
1 CGGGTAAGACCCGATGACCACGTGTGGAGATTATGTC
80382957 CGGGTAAGACCCGATGACCACGTGTGGAGATTATGTC
1 CGGGTAAGACCCGATGACCACGTGTGGAGATTATGTC
* *
80382994 CGGGTAAAACCCGATGACCACGTGTGGAGATTTTGTC
1 CGGGTAAGACCCGATGACCACGTGTGGAGATTATGTC
* **
80383031 CGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 CGGGTAAGACCCGATGACCACGTGTGGAGATT
80383063 TCGTCTGAGC
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (37 bp):
CGGGTAAGACCCGATGACCACGTGTGGAGATTATGTC
Found at i:80385084 original size:74 final size:74
Alignment explanation
Indices: 80384960--80385748 Score: 323
Period size: 75 Copynumber: 10.5 Consensus size: 74
80384950 TCTGTTTTTT
* * *
80384960 AAATCAACTCATTTTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTC-AATTGTT
1 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATT-CT
**
80385024 GTTTTTC-AAA
65 -ACTTTCAAAA
* * *
80385034 AAATCAACTCATGTTACGGGAGGTGAGTTGAGCCTCGGGGCATGCCGAGGTATTTTCAAATTCTA
1 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTCTA
80385099 CTTTCAAAA
66 CTTTCAAAA
* * ** * * * *
80385108 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG-TGTTGAGTCACTTTCAATTT
1 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCCG-AG-GT-ATTTTCAAATT
*****
80385172 CTGTTTTTATGTCTGTTTTTTT
63 C------TA---CT-TTCAAAA
* * * * * *
80385194 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTCT-
*
80385259 TCTTTCAAAAAA
65 ACTTTC--AAAA
* * * * * * * *
80385271 AAATCAACTCAAATTGCGAGAGGTGAGTTGAGCCTTGGGACATGCTGAGATAATTTT--TATT-T
1 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGT-ATTTTCAAATTCT
*
80385333 -CTGT-----
65 ACTTTCAAAA
* * * ** * ** * ** * *
80385337 -ATTCAACTCATACTACAAGAAGTGAGTTGAGCCTCAAGACACGTTGAAGTAATTTT-AATTTCT
1 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGT-ATTTTCAAATTCT
* *
80385400 GTCTTTTAAAAAA
65 -AC-TTT-CAAAA
* ** * *** * **
80385413 AAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTTAAGACACGTTGAGGTATTTT-AAATTTC
1 AAA-TCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAA-TTC
*
80385477 TGTCTTTCAAAA
64 T-ACTTTCAAAA
* ** * ** *
80385489 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTCT-
*
80385554 TCTTTCAAAA
65 ACTTTCAAAA
* * * ** * *** ** *** *
80385564 AATTCAACTCATACTACAAGAAGTGAGTTGAGCCTTAAGAAACGTTAAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTCT-
*
80385629 TCTTTC-AAA
65 ACTTTCAAAA
* * ** * * * *
80385638 AAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTCT-
*
80385703 TCTTTCAAAA
65 ACTTTCAAAA
* *
80385713 TAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTC
80385749 AGTGTAACGC
Statistics
Matches: 587, Mismatches: 92, Indels: 71
0.78 0.12 0.09
Matches are distributed among these distances:
65 43 0.07
66 2 0.00
67 1 0.00
69 1 0.00
70 2 0.00
73 8 0.01
74 158 0.27
75 173 0.29
76 23 0.04
77 57 0.10
78 57 0.10
82 2 0.00
84 11 0.02
85 4 0.01
86 43 0.07
87 2 0.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (74 bp):
AAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTCTA
CTTTCAAAA
Found at i:80385529 original size:75 final size:75
Alignment explanation
Indices: 80385194--80385749 Score: 643
Period size: 75 Copynumber: 7.5 Consensus size: 75
80385184 CTGTTTTTTT
* * *
80385194 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
80385259 TCTTTCAAAAAA
66 TCTTTC--AAAA
* *** * * * *
80385271 AAATCAACTCAAATTGCGAGAGGTGAGTTGAGCCTTGGGACATGCTGAGATAATTTT-TATTTCT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTCAATTTCT
80385335 G----T-----
65 GTCTTTCAAAA
* * * * * *
80385337 -ATTCAACTCATACTACAAGAAGTGAGTTGAGCCTCAAGACACGTTGAAGTAATTTT-AATTTCT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTCAATTTCT
*
80385400 GTCTTTTAAAAAA
65 GTC-TTT-CAAAA
* * * * *
80385413 AAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTTAAGACACGTTGAGGTATTTTAAATTTCT
1 AAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
80385478 GTCTTTCAAAA
65 GTCTTTCAAAA
80385489 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
80385554 TCTTTCAAAA
66 TCTTTCAAAA
* * * * * * * *
80385564 AATTCAACTCATACTACAAGAAGTGAGTTGAGCCTTAAGAAACGTTAAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
80385629 TCTTTC-AAA
66 TCTTTCAAAA
* * *
80385638 AAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
80385703 TCTTTCAAAA
66 TCTTTCAAAA
*
80385713 TAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
80385750 GTGTAACGCC
Statistics
Matches: 411, Mismatches: 52, Indels: 34
0.83 0.10 0.07
Matches are distributed among these distances:
65 50 0.12
70 1 0.00
73 1 0.00
74 63 0.15
75 168 0.41
76 7 0.02
77 62 0.15
78 59 0.14
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (75 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
TCTTTCAAAA
Found at i:80385696 original size:149 final size:148
Alignment explanation
Indices: 80385194--80385747 Score: 678
Period size: 149 Copynumber: 3.7 Consensus size: 148
80385184 CTGTTTTTTT
*
80385194 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG
* * * * * ** * * *
80385259 TCTTTCAAAAAAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGCCTTGGGACATGCTGAGATAA
66 TCTTTC--AAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTTAAGACACGTTGAGGT-A
*
80385324 TTTTTATTTCTG----T----
128 TTTTAATTTCTGTCTTTCAAA
* * * * * * * *
80385337 -ATTCAACTCATACTACAAGAAGTGAGTTGAGCCTCAAGACACGTTGAAGTAATTTTAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG
*
80385401 TCTTTTAAAAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTTAAGACACGTTGAGGTA
66 TC-TTT--CAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTTAAGACACGTTGAGGTA
80385466 TTTTAAATTTCTGTCTTTCAAAA
128 TTTT-AATTTCTGTCTTTC-AAA
* *
80385489 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG
* * *
80385554 TCTTTCAAAAAATTCAACTCATACTACAAGAAGTGAGTTGAGCCTTAAGAAACGTTAAGGTATTT
66 TCTTTCAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTTAAGACACGTTGAGGTATTT
80385619 TCAATTTCTGTCTTTCAAA
131 T-AATTTCTGTCTTTCAAA
*
80385638 AAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG
* * *
80385703 TCTTTCAAAATAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCT
66 TCTTTCAAAA-AATTCAACTCATACTGCAAGAAGTGAGTTGAGCCT
80385748 CAGTGTAACG
Statistics
Matches: 355, Mismatches: 41, Indels: 24
0.85 0.10 0.06
Matches are distributed among these distances:
142 62 0.17
143 55 0.15
147 1 0.00
149 103 0.29
150 73 0.21
152 3 0.01
153 58 0.16
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.32
Consensus pattern (148 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG
TCTTTCAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTTAAGACACGTTGAGGTATTT
TAATTTCTGTCTTTCAAA
Found at i:80385706 original size:224 final size:216
Alignment explanation
Indices: 80385194--80385749 Score: 735
Period size: 224 Copynumber: 2.5 Consensus size: 216
80385184 CTGTTTTTTT
*
80385194 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG
* *** *
80385259 TCTTTCAAAAAAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGCCTTGGGACATGCTGAGATAA
66 TCTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGATAA
* *
80385324 TTTTTATTTCTGTATTCAACTCATACTACAAGAAGTGAGTTGAGCCTCAAGACACGTTGAAGTAA
129 TTTTAATTTCTGTATTCAACTCATACTACAAGAAGTGAGTTGAGCCTCAAGAAACGTTGAAGTAA
80385389 TTTTAATTTCTGTCTTTTAAAAAA
194 TTTTAATTTCTGTCTTTT-AAAAA
* * * * * * *
80385413 AAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTTAAGACACGTTGAGGTATTTTAAATTTCT
1 AAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
* *
80385478 GTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT-AT
65 GTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGATAAT
*
80385542 TTTCAATTTCTGTCTTTCAAAAAATTCAACTCATACTACAAGAAGTGAGTTGAGCCTTAAGAAAC
130 TTT-AATTTCTG----T------ATTCAACTCATACTACAAGAAGTGAGTTGAGCCTCAAGAAAC
*
80385607 GTT-AAGGT-ATTTTCAATTTCTGTC-TTT-CAAA
184 GTTGAA-GTAATTTT-AATTTCTGTCTTTTAAAAA
*
80385638 AAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG
*
80385703 TCTTTCAAAATAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
66 TCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
80385750 GTGTAACGCC
Statistics
Matches: 295, Mismatches: 28, Indels: 23
0.85 0.08 0.07
Matches are distributed among these distances:
217 5 0.02
218 55 0.19
219 3 0.01
220 60 0.20
222 1 0.00
224 100 0.34
225 6 0.02
227 10 0.03
228 55 0.19
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (216 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG
TCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGATAATT
TTAATTTCTGTATTCAACTCATACTACAAGAAGTGAGTTGAGCCTCAAGAAACGTTGAAGTAATT
TTAATTTCTGTCTTTTAAAAA
Found at i:80387189 original size:40 final size:40
Alignment explanation
Indices: 80387131--80387355 Score: 276
Period size: 40 Copynumber: 5.7 Consensus size: 40
80387121 GGATATAACC
* * * *
80387131 ACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* * * *
80387170 ACTAGCATAAATGCCTTCGGGTCTTAGCCCGG-ATATAGCA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
80387210 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
80387250 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATTTGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
80387290 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * *
80387330 ACTAGCACACATGTCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
80387356 ACCCCGCTAG
Statistics
Matches: 165, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 6 0.04
40 157 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:80395538 original size:39 final size:39
Alignment explanation
Indices: 80395374--80395596 Score: 250
Period size: 40 Copynumber: 5.7 Consensus size: 39
80395364 GGATATAACC
* * * * *
80395374 ACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAAT-TAGTA
* * * * *
80395413 ACTAGCATAAATGCCTTCGGGTCTTAGCCCGGATATAGCA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAAT-TAGTA
80395453 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC-GAATTAGTA
* *
80395493 ACTCGCACCAATGCCTTCGGGACTTAGCCCGAATTTGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAATTAGTA
* * *
80395532 ACTCGCACAAATGCCTTCGGGACTTAGCCGGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAATTAGTA
* * *
80395571 ACTAGCACACATGTCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
80395597 ACCCCGTTAG
Statistics
Matches: 161, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
39 71 0.44
40 87 0.54
41 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGAATTAGTA
Found at i:80398350 original size:8 final size:8
Alignment explanation
Indices: 80398337--80398370 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
80398327 CTCAACTTTG
80398337 GCCACCAC
1 GCCACCAC
80398345 GCCACCAC
1 GCCACCAC
80398353 GCCACCAC
1 GCCACCAC
*
80398361 GCCCCCAC
1 GCCACCAC
80398369 GC
1 GC
80398371 GTCTGACACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.21, C:0.65, G:0.15, T:0.00
Consensus pattern (8 bp):
GCCACCAC
Found at i:80399411 original size:3 final size:3
Alignment explanation
Indices: 80399391--80399553 Score: 81
Period size: 3 Copynumber: 54.0 Consensus size: 3
80399381 TTTCAATTTT
* *
80399391 TTA TATA TTA TTA ATA TTA TTA CTA TTA TT- TTA TT- TCTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* * * *
80399436 TCT- TTA TTA TTA TTG TTA GTA TTA TT- TTCA TTA CTA TTA TTT TTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
** * * * *
80399481 TTA ACA -TA TTAA TTA TT- TTC TAA CGTA TTA TTA TTA CTAA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA -TTA TTA TTA TTA -TTA TTA TTA
80399527 TTA TT- TCTA GTT- TTA TTA TTA TTA TTA
1 TTA TTA T-TA -TTA TTA TTA TTA TTA TTA
80399554 ATACTAGTGT
Statistics
Matches: 121, Mismatches: 22, Indels: 34
0.68 0.12 0.19
Matches are distributed among these distances:
2 12 0.10
3 94 0.78
4 14 0.12
5 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:80399583 original size:17 final size:16
Alignment explanation
Indices: 80399561--80399592 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
80399551 TTAATACTAG
80399561 TGTATGTATATTATATA
1 TGTATGTAT-TTATATA
80399578 TGTATGTATTTATAT
1 TGTATGTATTTATAT
80399593 TTATATATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (16 bp):
TGTATGTATTTATATA
Found at i:80399609 original size:22 final size:21
Alignment explanation
Indices: 80399567--80399610 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
80399557 CTAGTGTATG
*
80399567 TATATTATATATGTATGTATT
1 TATATTATATATGTATCTATT
80399588 TATATTTATATATAGTA-CTATT
1 TATA-TTATATAT-GTATCTATT
80399610 T
1 T
80399611 TAATTACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 13 0.65
23 3 0.15
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.57
Consensus pattern (21 bp):
TATATTATATATGTATCTATT
Found at i:80399804 original size:8 final size:10
Alignment explanation
Indices: 80399789--80399857 Score: 54
Period size: 10 Copynumber: 6.8 Consensus size: 10
80399779 ATGTTTTCAA
80399789 TATTATAT-T
1 TATTATATAT
80399798 T-TTATATAT
1 TATTATATAT
80399807 TATTATATA-
1 TATTATATAT
*
80399816 TATTTTAATAT
1 TATTAT-ATAT
80399827 TATTAGTTATAT
1 TATTA--TATAT
* *
80399839 ATATTTTATAC
1 -TATTATATAT
80399850 TATTATAT
1 TATTATAT
80399858 GTATATTTCT
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
8 6 0.12
9 8 0.17
10 17 0.35
11 8 0.17
12 4 0.08
13 5 0.10
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (10 bp):
TATTATATAT
Found at i:80399854 original size:46 final size:44
Alignment explanation
Indices: 80399792--80399909 Score: 143
Period size: 44 Copynumber: 2.6 Consensus size: 44
80399782 TTTTCAATAT
80399792 TATATTTTTATA-TATTATTATATATATTT-TAATATTATTAGTTA
1 TATATTTTTATACTATTATTATATATATTTCTAATATTA-TA-TTA
* *
80399836 TATATATTTTATACTATTA-TATGTATATTTCTAATATTATATTG
1 TATAT-TTTTATACTATTATTATATATATTTCTAATATTATATTA
*
80399880 TATATTTCTAATACTATTATTTATATATAT
1 TATATTT-TTATACTATTA-TTATATATAT
80399910 ATATGTGTGT
Statistics
Matches: 64, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
43 2 0.03
44 22 0.34
45 19 0.30
46 21 0.33
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (44 bp):
TATATTTTTATACTATTATTATATATATTTCTAATATTATATTA
Found at i:80399864 original size:21 final size:20
Alignment explanation
Indices: 80399792--80399907 Score: 92
Period size: 21 Copynumber: 5.3 Consensus size: 20
80399782 TTTTCAATAT
80399792 TATAT-TTTTATATATTATTA
1 TATATATTTTATATATTA-TA
80399812 TATATATTTTAATATTATTAGTTA
1 TATATATTTT-ATA-TATTA--TA
80399836 TATATATTTTATACTATTATA
1 TATATATTTTATA-TATTATA
*
80399857 TGTATATTTCTA-ATATTATA
1 TATATATTT-TATATATTATA
* *
80399877 TTGTATATTTCTAATACTATTATT
1 -TATATATTT-T-ATA-TATTATA
80399901 TATATAT
1 TATATAT
80399908 ATATATGTGT
Statistics
Matches: 83, Mismatches: 4, Indels: 15
0.81 0.04 0.15
Matches are distributed among these distances:
20 12 0.14
21 26 0.31
22 6 0.07
23 20 0.24
24 19 0.23
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (20 bp):
TATATATTTTATATATTATA
Found at i:80399928 original size:16 final size:17
Alignment explanation
Indices: 80399907--80399941 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
80399897 TATTTATATA
80399907 TATATATGTGTGT-GTG
1 TATATATGTGTGTAGTG
*
80399923 TATATATTTGTGTAGTG
1 TATATATGTGTGTAGTG
80399940 TA
1 TA
80399942 CAAAGTAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (17 bp):
TATATATGTGTGTAGTG
Found at i:80399928 original size:18 final size:19
Alignment explanation
Indices: 80399905--80399940 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
80399895 ATTATTTATA
80399905 TATATATATGTGT-GTGTG
1 TATATATATGTGTAGTGTG
*
80399923 TATATATTTGTGTAGTGT
1 TATATATATGTGTAGTGT
80399941 ACAAAGTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (19 bp):
TATATATATGTGTAGTGTG
Found at i:80400027 original size:24 final size:23
Alignment explanation
Indices: 80399990--80400165 Score: 81
Period size: 24 Copynumber: 7.2 Consensus size: 23
80399980 GTATATATTG
80399990 TATATGTTTT-ATATATGTTATGTA
1 TATAT-TTTTAATATAT-TTATGTA
* *
80400014 TATATTTTTAATATTACTAAT-TA
1 TATATTTTTAATA-TATTTATGTA
* *
80400037 TATATATTTCTTATACATTTCCATGTA
1 TATAT-TTT-TAATATATTT--ATGTA
* *
80400064 CATATTTTT-ATACCATCTTATGTA
1 TATATTTTTAATA-TAT-TTATGTA
*
80400088 TATATTTTTAA-ATACTATATTGTA
1 TATATTTTTAATATA-TTTA-TGTA
* * * *
80400112 TATATATATATATATATATATATA
1 TATATTTTTA-ATATATTTATGTA
* *
80400136 TATATTCTTAATACCATATTATGTA
1 TATATTTTTAATA-TAT-TTATGTA
80400161 TATAT
1 TATAT
80400166 CATTATTACA
Statistics
Matches: 117, Mismatches: 19, Indels: 31
0.70 0.11 0.19
Matches are distributed among these distances:
23 17 0.15
24 58 0.50
25 26 0.22
26 10 0.09
27 6 0.05
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (23 bp):
TATATTTTTAATATATTTATGTA
Found at i:80400117 original size:2 final size:2
Alignment explanation
Indices: 80400110--80400140 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
80400100 TACTATATTG
80400110 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
80400141 TCTTAATACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:80407527 original size:12 final size:12
Alignment explanation
Indices: 80407510--80407534 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
80407500 CTGTATGTTC
80407510 TTTATTTTATTT
1 TTTATTTTATTT
80407522 TTTATTTTATTT
1 TTTATTTTATTT
80407534 T
1 T
80407535 CACAAAGGCA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:80408169 original size:27 final size:27
Alignment explanation
Indices: 80408131--80408186 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
80408121 TAATTTACAC
*
80408131 AATTATTTTATTTAAAGTGACTAACTT
1 AATTATTTTATTCAAAGTGACTAACTT
80408158 AATTATTTTATTCAAAGTGACTAACTT
1 AATTATTTTATTCAAAGTGACTAACTT
80408185 AA
1 AA
80408187 GAAAAAAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (27 bp):
AATTATTTTATTCAAAGTGACTAACTT
Found at i:80409252 original size:12 final size:12
Alignment explanation
Indices: 80409221--80409249 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
80409211 TTTATAATAT
80409221 ATAAAATATAAA
1 ATAAAATATAAA
80409233 ATAAAATA-AAA
1 ATAAAATATAAA
80409244 ATAAAA
1 ATAAAA
80409250 ATATGATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
ATAAAATATAAA
Found at i:80409624 original size:1 final size:1
Alignment explanation
Indices: 80409618--80409644 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
80409608 TTTCAGCAAC
80409618 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
80409645 CACCCAAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:80416368 original size:2 final size:2
Alignment explanation
Indices: 80416361--80416401 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
80416351 CATGGAACTT
80416361 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
80416402 CAACACCCTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.