Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 46 of 193
Found at i:13958358 original size:30 final size:29
Alignment explanation
Indices: 13958206--13958367 Score: 184
Period size: 30 Copynumber: 5.4 Consensus size: 29
13958196 CTCAGGAGAT
*
13958206 CCCC-AAACTTTTTAAAAATTACATTTTAA
1 CCCCTAAAC-TTTCAAAAATTACATTTTAA
** *
13958235 CAAAC-AAACTTTATAAAAATTACATTTTAA
1 C-CCCTAAACTTT-CAAAAATTACATTTTAA
13958265 CCCCTAAACTTTCTAAAAATTACATTTTAA
1 CCCCTAAACTTTC-AAAAATTACATTTTAA
* *
13958295 CCCTTAAACTTTCCAAAAATTATATTTTAA
1 CCCCTAAACTTT-CAAAAATTACATTTTAA
*
13958325 CCCCTAAACTTCTCAAAAATTACATTTTGA
1 CCCCTAAACTT-TCAAAAATTACATTTTAA
*
13958355 CCCCTGAACTTTC
1 CCCCTAAACTTTC
13958368 TGAAACTTTA
Statistics
Matches: 116, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
29 7 0.06
30 107 0.92
31 2 0.02
ACGTcount: A:0.40, C:0.23, G:0.01, T:0.36
Consensus pattern (29 bp):
CCCCTAAACTTTCAAAAATTACATTTTAA
Found at i:13958388 original size:60 final size:60
Alignment explanation
Indices: 13958206--13958367 Score: 204
Period size: 60 Copynumber: 2.7 Consensus size: 60
13958196 CTCAGGAGAT
* ** ** *
13958206 CCCC-AAACTTTTTAAAAATTACATTTTAACAAAC-AAACTTTATAAAAATTACATTTTAA
1 CCCCTAAACTTTCTAAAAATTACATTTTAAC-CCCTAAACTTTCCAAAAATTATATTTTAA
*
13958265 CCCCTAAACTTTCTAAAAATTACATTTTAACCCTTAAACTTTCCAAAAATTATATTTTAA
1 CCCCTAAACTTTCTAAAAATTACATTTTAACCCCTAAACTTTCCAAAAATTATATTTTAA
* *
13958325 CCCCTAAAC-TTCTCAAAAATTACATTTTGACCCCTGAACTTTC
1 CCCCTAAACTTTCT-AAAAATTACATTTTAACCCCTAAACTTTC
13958368 TGAAACTTTA
Statistics
Matches: 90, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
59 8 0.09
60 82 0.91
ACGTcount: A:0.40, C:0.23, G:0.01, T:0.36
Consensus pattern (60 bp):
CCCCTAAACTTTCTAAAAATTACATTTTAACCCCTAAACTTTCCAAAAATTATATTTTAA
Found at i:13963252 original size:9 final size:9
Alignment explanation
Indices: 13963238--13963267 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
13963228 TTAATAATAA
13963238 AAAAGAAAG
1 AAAAGAAAG
13963247 AAAAGAAAG
1 AAAAGAAAG
13963256 AAAAG-AAG
1 AAAAGAAAG
13963264 AAAA
1 AAAA
13963268 AGGAAAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:13963268 original size:9 final size:8
Alignment explanation
Indices: 13963236--13963303 Score: 50
Period size: 9 Copynumber: 8.4 Consensus size: 8
13963226 ATTTAATAAT
13963236 AAAAAAGA
1 AAAAAAGA
13963244 AAGAAAAGA
1 AA-AAAAGA
13963253 AAGAAAAGA
1 AA-AAAAGA
13963262 AGAAAAAG-
1 A-AAAAAGA
*
13963270 GAAAAAG-
1 AAAAAAGA
*
13963277 AAAATAGA
1 AAAAAAGA
* *
13963285 AAAAACGG
1 AAAAAAGA
*
13963293 GAAAAAGA
1 AAAAAAGA
13963301 AAA
1 AAA
13963304 TGAGAGGTCG
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
7 11 0.23
8 14 0.30
9 21 0.45
10 1 0.02
ACGTcount: A:0.76, C:0.01, G:0.21, T:0.01
Consensus pattern (8 bp):
AAAAAAGA
Found at i:13963285 original size:23 final size:23
Alignment explanation
Indices: 13963252--13963304 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
13963242 GAAAGAAAAG
13963252 AAAG-AAA-AGAAGAAAA-AGGAA
1 AAAGAAAATAGAA-AAAACAGGAA
*
13963273 AAAGAAAATAGAAAAAACGGGAA
1 AAAGAAAATAGAAAAAACAGGAA
13963296 AAAGAAAAT
1 AAAGAAAAT
13963305 GAGAGGTCGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 4 0.14
22 7 0.25
23 17 0.61
ACGTcount: A:0.74, C:0.02, G:0.21, T:0.04
Consensus pattern (23 bp):
AAAGAAAATAGAAAAAACAGGAA
Found at i:13964327 original size:50 final size:49
Alignment explanation
Indices: 13964247--13964830 Score: 480
Period size: 50 Copynumber: 11.9 Consensus size: 49
13964237 AGAAAAACAC
* * * * * *
13964247 GAAGATTTGAAGGGAAAGGTTGAGGTCGCAACAGTGAACCCGGTACCTT
1 GAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCAT
* * * *
13964296 AAAAGATGTGACGGGAAAAGTTGAGGCCGCAATGGCGAACCCGGTACCAT
1 -GAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCAT
* ** * * * * * * * *
13964346 GAAGATTTGAAAGGAATGATTGAGACTGCGACAGG-GAATCTGGTACCTT
1 GAAGATGTGATGGGAAAGGTTGAGGCCGCAAC-GGCGAACCCGGTACCAT
* * * * * *
13964395 AAAAGATGTGATGGGAAAGATTGTGGTCGCAACGGCGAATCTGGTACCAT
1 -GAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCAT
* * *
13964445 G-A-ATGTGCTGGGAAAGGTTGAGGCCGCAACGGCGAATCTGGTACCAT
1 GAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCAT
* * * * *
13964492 GAA-ATGTGATGGGAGAGATTGAGGTCGCAACGGCGAATCTGGTACCAT
1 GAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCAT
* *
13964540 GAA-ATGTGATGGGAAAGGTTGAGGCCGCAACAGCGAACCCAGTACCAT
1 GAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCAT
* * * * * * *
13964588 GAAGATTTGAAGGGAAAGGTTAAGGTCGTAACGGCGAACCCGATACCTT
1 GAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCAT
* * * * * * * *
13964637 AAAAGATGTGACGAGAAAGGTTGAGTCCGTAACGGTGAACCTGATACC-T
1 -GAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCAT
* * * * *
13964686 CAGAAGATCTGATGGGAAAGATTGAGGTCGCAACGACGAATCCGGTACCAT
1 --GAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCAT
* * *
13964737 GAA-ATGTGATGGGAAAGGTTGAGGCCGCAATGGCGAACTCGATACCAT
1 GAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCAT
* * * **
13964785 GAAGATTTTAAGGGAAAGGTTGAGGCTTCAACGGCGAACCCGGTAC
1 GAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
13964831 GTTAGAAAAT
Statistics
Matches: 428, Mismatches: 97, Indels: 19
0.79 0.18 0.03
Matches are distributed among these distances:
47 42 0.10
48 127 0.30
49 108 0.25
50 150 0.35
51 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.32, T:0.19
Consensus pattern (49 bp):
GAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCAT
Found at i:13964426 original size:99 final size:98
Alignment explanation
Indices: 13964288--13964773 Score: 374
Period size: 99 Copynumber: 5.0 Consensus size: 98
13964278 CAGTGAACCC
* * * * *
13964288 GGTACCTTAAAAGATGTGACGGGAAA-AGTTGAGGCCGCAATGGCGAACCCGGTACCATGAAGAT
1 GGTACCTTAAAAGATGTGATGGGAAAGA-TTGAGGTCGCAACGGCGAATCTGGTACCATGAA-AT
* * * *
13964352 TTGAAAGGAATGATTGAGACTGCGACAGG-GAATCT
64 GTGAAAGGAAAGATTGAGACCGCAAC-GGCGAATCT
*
13964387 GGTACCTTAAAAGATGTGATGGGAAAGATTGTGGTCGCAACGGCGAATCTGGTACCATG-AATGT
1 GGTACCTTAAAAGATGTGATGGGAAAGATTGAGGTCGCAACGGCGAATCTGGTACCATGAAATGT
*** * *
13964451 GCTGGGAAAGGTTGAGGCCGCAACGGCGAATCT
66 GAAAGGAAAGATTGAGACCGCAACGGCGAATCT
* * *
13964484 GGTACCAT-GAA-ATGTGATGGGAGAGATTGAGGTCGCAACGGCGAATCTGGTACCATGAAATGT
1 GGTACCTTAAAAGATGTGATGGGAAAGATTGAGGTCGCAACGGCGAATCTGGTACCATGAAATGT
** * * * * *
13964547 GATGGGAAAGGTTGAGGCCGCAACAGCGAACCC
66 GAAAGGAAAGATTGAGACCGCAACGGCGAATCT
* * * * * * * * * * * * *
13964580 AGTACCAT-GAAGATTTGAAGGGAAAGGTTAAGGTCGTAACGGCGAACCCGATACCTTAAAAGAT
1 GGTACCTTAAAAGATGTGATGGGAAAGATTGAGGTCGCAACGGCGAATCTGGTACCAT-GAA-AT
* * * * * *
13964644 GTG-ACGAGAAAGGTTGAGTCCGTAACGGTGAACCT
64 GTGAAAG-GAAAGATTGAGACCGCAACGGCGAATCT
* * * * * *
13964679 GATACCTCAGAAGATCTGATGGGAAAGATTGAGGTCGCAACGACGAATCCGGTACCATGAAATGT
1 GGTACCTTAAAAGATGTGATGGGAAAGATTGAGGTCGCAACGGCGAATCTGGTACCATGAAATGT
** * * *
13964744 GATGGGAAAGGTTGAGGCCGCAATGGCGAA
66 GAAAGGAAAGATTGAGACCGCAACGGCGAA
13964774 CTCGATACCA
Statistics
Matches: 316, Mismatches: 62, Indels: 19
0.80 0.16 0.05
Matches are distributed among these distances:
95 44 0.14
96 48 0.15
97 67 0.21
98 30 0.09
99 86 0.27
100 41 0.13
ACGTcount: A:0.32, C:0.17, G:0.32, T:0.19
Consensus pattern (98 bp):
GGTACCTTAAAAGATGTGATGGGAAAGATTGAGGTCGCAACGGCGAATCTGGTACCATGAAATGT
GAAAGGAAAGATTGAGACCGCAACGGCGAATCT
Found at i:13964713 original size:197 final size:195
Alignment explanation
Indices: 13964456--13964826 Score: 541
Period size: 197 Copynumber: 1.9 Consensus size: 195
13964446 AATGTGCTGG
* * * *
13964456 GAAAGGTTGAGGCCGCAACGGCGAATCTGGTACCATGAAATGTGATGGGAGAGATTGAGGTCGCA
1 GAAAGGTTGAGGCCGCAACGGCGAACCTGATACCATGAAATCTGATGGGAAAGATTGAGGTCGCA
* *
13964521 ACGGCGAATCTGGTACCATGAAATGTGATGGGAAAGGTTGAGGCCGCAACAGCGAACCC-AGTAC
66 ACGACGAATCCGGTACCATGAAATGTGATGGGAAAGGTTGAGGCCGCAACAGCGAACCCGA-TAC
13964585 CATGAAGATTTGAAGGGAAAGGTTAAGGTCGT-AACGGCGAACCCGATACCTTAAAAGATGTGAC
130 CATGAAGATTTGAAGGGAAAGGTTAAGG-CGTCAACGGCGAACCCGATACCTTAAAAGATGTGAC
13964649 GA
194 GA
* * *
13964651 GAAAGGTTGAGTCCGTAACGGTGAACCTGATACC-TCAGAAGATCTGATGGGAAAGATTGAGGTC
1 GAAAGGTTGAGGCCGCAACGGCGAACCTGATACCAT--GAA-ATCTGATGGGAAAGATTGAGGTC
** *
13964715 GCAACGACGAATCCGGTACCATGAAATGTGATGGGAAAGGTTGAGGCCGCAATGGCGAACTCGAT
63 GCAACGACGAATCCGGTACCATGAAATGTGATGGGAAAGGTTGAGGCCGCAACAGCGAACCCGAT
* * *
13964780 ACCATGAAGATTTTAAGGGAAAGGTTGAGGCTTCAACGGCGAACCCG
128 ACCATGAAGATTTGAAGGGAAAGGTTAAGGCGTCAACGGCGAACCCG
13964827 GTACGTTAGA
Statistics
Matches: 156, Mismatches: 15, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
194 1 0.01
195 29 0.19
196 5 0.03
197 120 0.77
198 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.32, T:0.19
Consensus pattern (195 bp):
GAAAGGTTGAGGCCGCAACGGCGAACCTGATACCATGAAATCTGATGGGAAAGATTGAGGTCGCA
ACGACGAATCCGGTACCATGAAATGTGATGGGAAAGGTTGAGGCCGCAACAGCGAACCCGATACC
ATGAAGATTTGAAGGGAAAGGTTAAGGCGTCAACGGCGAACCCGATACCTTAAAAGATGTGACGA
Found at i:13965164 original size:39 final size:39
Alignment explanation
Indices: 13965115--13965854 Score: 384
Period size: 39 Copynumber: 18.7 Consensus size: 39
13965105 GAAGATTCCA
* *
13965115 ATCTCTTACCCCGATCCTAGGGCAGATTGTAGCCATCCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGTAGCCATCCG
* *
13965154 ATCTCTTACCCCGAGCCTGGGGCAGA-T-CA-CCATCAGTCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGTAGCCATC---CG
* * *
13965193 ATCTCTTACCTCGATCCT-GGGCAGATTGTAGCCATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGTAGCCATCCG
* * *** * *
13965231 ATATCTTACCCCGAGCCTTGGGCAGATCACCA-CCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGAT-TGTAGCCATCCG
** * * *
13965270 ATCTCTTACCCTAAGCTTGGGGAAGATTGTAGCCATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGTAGCCATCCG
* * * * *
13965309 ATCAT-TTACCCCGAG-CTTGGGAAAAAT-TA-CCATCAACCA
1 ATC-TCTTACCCCGAGCCTGGGGCAGATTGTAGCCAT---CCG
* **
13965348 ATCTCTTACCCTGATTCT-GGGCAGATTGTAGCCATCCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGTAGCCATCCG
* * * * *
13965386 ATCTTTTACCCCGAGCTTGGGGCAGATTGGATCCATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGTAGCCATCCG
* *
13965425 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGTAGCCATCCG
* *** ** * *
13965464 ATCTTTTACCCCGAGCCT-GGGCAGATCACAATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGTAGCCATCCG
* * *
13965502 ATCTCTTACCCCGAGCTTGAGGCAGATTGTAGCCATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGTAGCCATCCG
* * * * *
13965541 ATCTTTTACCCCAAGCCTGAGGCAGA-T-CA-CCATCAACCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGTAGCCAT---CCG
* * * * *
13965580 ATCTCTTACCCAGAGCTTGAGGTAGATTGTAGCCATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGTAGCCATCCG
* * * *
13965619 ATCTTTTACCCCGAGCCTGAGGCAGA-T-CA-CCATCAACCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGTAGCCAT---CCG
* * **
13965658 ATCTCTTA-CCCGAGCCTGGGGAAGATTGCAGCCATTTG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGTAGCCATCCG
* * * * *
13965696 ATCTTTTACCCCGAGCCTGGGTCCAAGCTTGGGGCAGATCACGATCAGCCA
1 ATCTCTTACCCCGAGCCTGGG-GC-AGATT---GTAG--C-C-AT---CCG
* * * **
13965747 ATCTCTTACCACCGAGCCTAGGGCAGATTGCATCCATTTG
1 ATCTCTTACC-CCGAGCCTGGGGCAGATTGTAGCCATCCG
* * * *
13965787 ATCTCTTACCCCGAGCTTGGGG-TGAATTGTGGCCATCCA
1 ATCTCTTACCCCGAGCCTGGGGCAG-ATTGTAGCCATCCG
* *
13965826 ATCTCTTACCCCGATCATGGGGCAGATTG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTG
13965855 CAGTAATCCA
Statistics
Matches: 525, Mismatches: 129, Indels: 94
0.70 0.17 0.13
Matches are distributed among these distances:
36 17 0.03
37 5 0.01
38 103 0.20
39 319 0.61
40 21 0.04
41 17 0.03
42 4 0.01
43 2 0.00
44 5 0.01
45 1 0.00
46 1 0.00
47 4 0.01
48 2 0.00
50 4 0.01
51 10 0.02
52 10 0.02
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATTGTAGCCATCCG
Found at i:13965369 original size:116 final size:114
Alignment explanation
Indices: 13965234--13965595 Score: 375
Period size: 116 Copynumber: 3.1 Consensus size: 114
13965224 CCATTCGATA
* ** *
13965234 TCTTACCCCGAGCCTTGGGCAGATCACCACCAGCCAATCTCTTACCCTAAGCTTGGGGAAGATTG
1 TCTTACCCCGAGCC-TGGGCAGATCACAACCAGCCAATCTCTTACCCCGAGCTTGGGGCAGATTG
* * *
13965299 TAGCCATTCGATCATTTACCCCGAGCTTGGGAAAAATTACCATCAACCAATC
65 TAGCCATTCGATC-TTTACCCCGAGCCTGGG-CAGATTACCATCAACCAATC
* ** *** * * * * *
13965351 TCTTACCCTGATTCTGGGCAGATTGTAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAGATTGG
1 TCTTACCCCGAGCCTGGGCAGATCACAACCAGCCAATCTCTTACCCCGAGCTTGGGGCAGATTGT
* * * ** *
13965416 ATCCATTCGATCTCTTACCCCGAGCCTGGGGCAGATT-GCAGCCATTCGATC
66 AGCCATTCGATCT-TTACCCCGAGCCT-GGGCAGATTACCA-TCAACCAATC
* * *
13965467 TTTTACCCCGAGCCTGGGCAGATCACAATCAGCCAATCTCTTACCCCGAGCTTGAGGCAGATTGT
1 TCTTACCCCGAGCCTGGGCAGATCACAACCAGCCAATCTCTTACCCCGAGCTTGGGGCAGATTGT
* *
13965532 AGCCATTCGATCTTTTACCCCAAGCCTGAGGCAGATCACCATCAACCAATC
66 AGCCATTCGATC-TTTACCCCGAGCCTG-GGCAGATTACCATCAACCAATC
*
13965583 TCTTACCCAGAGC
1 TCTTACCCCGAGC
13965596 TTGAGGTAGA
Statistics
Matches: 191, Mismatches: 48, Indels: 13
0.76 0.19 0.05
Matches are distributed among these distances:
115 4 0.02
116 170 0.89
117 17 0.09
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (114 bp):
TCTTACCCCGAGCCTGGGCAGATCACAACCAGCCAATCTCTTACCCCGAGCTTGGGGCAGATTGT
AGCCATTCGATCTTTACCCCGAGCCTGGGCAGATTACCATCAACCAATC
Found at i:13965714 original size:155 final size:152
Alignment explanation
Indices: 13965112--13965716 Score: 694
Period size: 155 Copynumber: 3.9 Consensus size: 152
13965102 ATTGAAGATT
* * * *
13965112 CCAATCTCTTACCCCGATCCT-AGGGCAGATTGTAGCCATCCGATCTCTTACCCCGAGCCTGGGG
1 CCAATCTCTTACCCAGAGCCTGA-GGCAGATTGTAGCCATTCGATCTTTTACCCCGAGCCT-GGG
** * * *
13965176 CAGATCACCATCAGTCAATCTCTTACCTCGATCCTGGGCAGATTGTAGCCATTCGATATCTTACC
64 CAGATCACCATCAACCAATCTCTTACC-CGAGCCTGGGCAGATTGTAGCCATTCGATCTTTTACC
* *
13965241 CCGAGCCTTGGGCAGATCACCACCAG
128 CCGAGCC-TGGGCAGATCACCATCAA
* * * * *
13965267 CCAATCTCTTACCCTA-AGCTTGGGGAAGATTGTAGCCATTCGATCATTTACCCCGAGCTTGGGA
1 CCAATCTCTTACCC-AGAGCCTGAGGCAGATTGTAGCCATTCGATCTTTTACCCCGAGCCTGGG-
* * * ** *
13965331 AAAATTACCATCAACCAATCTCTTACCCTGATTCTGGGCAGATTGTAGCCATCCGATCTTTTACC
64 CAGATCACCATCAACCAATCTCTTACCC-GAGCCTGGGCAGATTGTAGCCATTCGATCTTTTACC
* *** *
13965396 CCGAGCTTGGGGCAGAT-TGGATCCAT
128 CCGAGCCT-GGGCAGATCACCAT-CAA
* * * * *
13965422 TCGATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATTCGATCTTTTACCCCGAGCCTGGGCA
1 CCAATCTCTTACCCAGAGCCTGAGGCAGATTGTAGCCATTCGATCTTTTACCCCGAGCCTGGGCA
* * *
13965487 GATCACAATCAGCCAATCTCTTACCCCGAGCTTGAGGCAGATTGTAGCCATTCGATCTTTTACCC
66 GATCACCATCAACCAATCTCTTA-CCCGAGCCTG-GGCAGATTGTAGCCATTCGATCTTTTACCC
*
13965552 CAAGCCTGAGGCAGATCACCATCAA
129 CGAGCCTG-GGCAGATCACCATCAA
* *
13965577 CCAATCTCTTACCCAGAGCTTGAGGTAGATTGTAGCCATTCGATCTTTTACCCCGAGCCTGAGGC
1 CCAATCTCTTACCCAGAGCCTGAGGCAGATTGTAGCCATTCGATCTTTTACCCCGAGCCTG-GGC
* * *
13965642 AGATCACCATCAACCAATCTCTTACCCGAGCCTGGGGAAGATTGCAGCCATTTGATCTTTTACCC
65 AGATCACCATCAACCAATCTCTTACCCGAGCCT-GGGCAGATTGTAGCCATTCGATCTTTTACCC
13965707 CGAGCCTGGG
129 CGAGCCTGGG
13965717 TCCAAGCTTG
Statistics
Matches: 376, Mismatches: 61, Indels: 27
0.81 0.13 0.06
Matches are distributed among these distances:
154 33 0.09
155 315 0.84
156 28 0.07
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.25
Consensus pattern (152 bp):
CCAATCTCTTACCCAGAGCCTGAGGCAGATTGTAGCCATTCGATCTTTTACCCCGAGCCTGGGCA
GATCACCATCAACCAATCTCTTACCCGAGCCTGGGCAGATTGTAGCCATTCGATCTTTTACCCCG
AGCCTGGGCAGATCACCATCAA
Found at i:13965796 original size:91 final size:89
Alignment explanation
Indices: 13965639--13965807 Score: 257
Period size: 91 Copynumber: 1.9 Consensus size: 89
13965629 CCGAGCCTGA
* *
13965639 GGCAGATCACCATCAACCAATCTCTTACCCGAGCCTGGGGAAGATTGCAGCCATTTGATCTTTTA
1 GGCAGATCACCATCAACCAATCTCTTACCCGAGCCTAGGGAAGATTGCAGCCATTTGATCTCTTA
13965704 CCCCGAGCCTGGGTCCAAGCTTGG
66 CCCCGAGCCTGGGTCCAAGCTTGG
* * * *
13965728 GGCAGATCACGATCAGCCAATCTCTTACCACCGAGCCTAGGGCAGATTGCATCCATTTGATCTCT
1 GGCAGATCACCATCAACCAATCTCTTA-C-CCGAGCCTAGGGAAGATTGCAGCCATTTGATCTCT
*
13965793 TACCCCGAGCTTGGG
64 TACCCCGAGCCTGGG
13965808 GTGAATTGTG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
89 25 0.35
90 1 0.01
91 45 0.63
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.24
Consensus pattern (89 bp):
GGCAGATCACCATCAACCAATCTCTTACCCGAGCCTAGGGAAGATTGCAGCCATTTGATCTCTTA
CCCCGAGCCTGGGTCCAAGCTTGG
Found at i:13966099 original size:85 final size:84
Alignment explanation
Indices: 13965954--13966124 Score: 198
Period size: 85 Copynumber: 2.0 Consensus size: 84
13965944 ACTTTAAACC
* * * * *
13965954 CATCTTCCTGATGAGATACTGAGAAGTGGGTCAAAGCAATAAAATGGCCGTCTTCATGATGAGAA
1 CATCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATAAAACGGCCATCTTCATGATGAGAA
*
13966019 ACAGAGAAGTGGACCAAATT
66 ACAGAGAAGTAGACC-AATT
* * * * * * * *
13966039 CATCTTTCTGATGAGATACAGAGAAGTGGATTAAAATAATTAAGCGGTCATCTTCTTGATGAGAT
1 CATCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATAAAACGGCCATCTTCATGATGAGAA
*
13966104 ACTGAGAAGTAGACCAATT
66 ACAGAGAAGTAGACCAATT
13966123 CA
1 CA
13966125 ACGAAATGAA
Statistics
Matches: 71, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
84 6 0.08
85 65 0.92
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (84 bp):
CATCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATAAAACGGCCATCTTCATGATGAGAA
ACAGAGAAGTAGACCAATT
Found at i:13967990 original size:30 final size:30
Alignment explanation
Indices: 13967954--13968115 Score: 229
Period size: 30 Copynumber: 5.4 Consensus size: 30
13967944 AGAGGTTCCC
* *
13967954 AAACTTTTCAAAAATTACATTTTGACCTCT
1 AAACTTTCCAAAAATTACATTTTGACCCCT
* *
13967984 AAACTTTCCAAAAATTATATTTTGACCTCT
1 AAACTTTCCAAAAATTACATTTTGACCCCT
*
13968014 AAACTTTCCAAAAATTACATTTTGACCCTT
1 AAACTTTCCAAAAATTACATTTTGACCCCT
*
13968044 AAACTTTGCAAAAATTACA-TTTGACCCCT
1 AAACTTTCCAAAAATTACATTTTGACCCCT
*
13968073 AAAC-TTCTCAAAAATTACATTTTGACCCCC
1 AAACTTTC-CAAAAATTACATTTTGACCCCT
*
13968103 AAACTTTCTAAAA
1 AAACTTTCCAAAA
13968116 CTTTATTTTC
Statistics
Matches: 119, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
28 2 0.02
29 24 0.20
30 90 0.76
31 3 0.03
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.35
Consensus pattern (30 bp):
AAACTTTCCAAAAATTACATTTTGACCCCT
Found at i:13968096 original size:59 final size:59
Alignment explanation
Indices: 13967954--13968115 Score: 220
Period size: 59 Copynumber: 2.7 Consensus size: 59
13967944 AGAGGTTCCC
* *
13967954 AAACTTTTCAAAAATTACATTTTGA-CCTCTAAACTTTCCAAAAATTATATTTTGACCTCT
1 AAAC-TTTCAAAAATTACATTTTGACCCT-TAAACTTTCCAAAAATTACATTTTGACCCCT
*
13968014 AAACTTTCCAAAAATTACATTTTGACCCTTAAACTTTGCAAAAATTACA-TTTGACCCCT
1 AAACTTT-CAAAAATTACATTTTGACCCTTAAACTTTCCAAAAATTACATTTTGACCCCT
** *
13968073 AAACTTCTCAAAAATTACATTTTGACCCCCAAACTTTCTAAAA
1 AAACTT-TCAAAAATTACATTTTGACCCTTAAACTTTCCAAAA
13968116 CTTTATTTTC
Statistics
Matches: 92, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
59 49 0.53
60 40 0.43
61 3 0.03
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.35
Consensus pattern (59 bp):
AAACTTTCAAAAATTACATTTTGACCCTTAAACTTTCCAAAAATTACATTTTGACCCCT
Found at i:13981242 original size:21 final size:21
Alignment explanation
Indices: 13981202--13981242 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13981192 TTTTTCTGGT
* *
13981202 TTTCTCTTCTTCTTTGATTTC
1 TTTCTCTTCTTCTCTAATTTC
13981223 TTTCTCTTCTTCTCTAATTT
1 TTTCTCTTCTTCTCTAATTT
13981243 TATGTGTGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.07, C:0.24, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTCTCTTCTTCTCTAATTTC
Found at i:13981853 original size:18 final size:18
Alignment explanation
Indices: 13981824--13981867 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
13981814 AAATGTACTA
*
13981824 ACAAAT-AAAATGCAGTG
1 ACAAATAAAAATGCAATG
13981841 ACAAATAAAAATGCAATG
1 ACAAATAAAAATGCAATG
*
13981859 ACAATTAAA
1 ACAAATAAA
13981868 TGAGATGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.59, C:0.11, G:0.11, T:0.18
Consensus pattern (18 bp):
ACAAATAAAAATGCAATG
Found at i:13981996 original size:18 final size:19
Alignment explanation
Indices: 13981970--13982007 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
13981960 GCACTTTTCA
*
13981970 TTGTGCTTCAT-TTTCTTT
1 TTGTCCTTCATCTTTCTTT
*
13981988 TTGTCCTTCCTCTTTCTTT
1 TTGTCCTTCATCTTTCTTT
13982007 T
1 T
13982008 CTTATCCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.03, C:0.24, G:0.08, T:0.66
Consensus pattern (19 bp):
TTGTCCTTCATCTTTCTTT
Found at i:13982330 original size:18 final size:19
Alignment explanation
Indices: 13982299--13982335 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
13982289 CTTCTCCTCT
13982299 CTTCTCTCCTTCA-GTTTC
1 CTTCTCTCCTTCAGGTTTC
13982317 CTTCTTCTCC-TCAGGTTTC
1 CTTC-TCTCCTTCAGGTTTC
13982336 GCCTTCTCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.05, C:0.38, G:0.08, T:0.49
Consensus pattern (19 bp):
CTTCTCTCCTTCAGGTTTC
Found at i:13988509 original size:18 final size:18
Alignment explanation
Indices: 13988463--13988512 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
13988453 ACATTCGAGC
* *
13988463 TTGTGGTTGCATCTGGTT
1 TTGTGATTGCATCTGATT
* * *
13988481 ATATGAATGCATCTGATT
1 TTGTGATTGCATCTGATT
13988499 TTGTGATTGCATCT
1 TTGTGATTGCATCT
13988513 AGTCATGTGT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.18, C:0.12, G:0.24, T:0.46
Consensus pattern (18 bp):
TTGTGATTGCATCTGATT
Found at i:13992585 original size:17 final size:17
Alignment explanation
Indices: 13992547--13992606 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 17
13992537 ATTAAAATGG
*
13992547 AAATGCAACT-ACAAATGC
1 AAATGC-ACTAACAAAT-A
*
13992565 AAATGTACTAACAAATA
1 AAATGCACTAACAAATA
* *
13992582 AAATGCAGTGACAAATAA
1 AAATGCACTAACAAAT-A
13992600 AAATGCA
1 AAATGCA
13992607 ATGAAAACTA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 16 0.46
18 19 0.54
ACGTcount: A:0.55, C:0.15, G:0.12, T:0.18
Consensus pattern (17 bp):
AAATGCACTAACAAATA
Found at i:13992618 original size:18 final size:18
Alignment explanation
Indices: 13992575--13992610 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
13992565 AAATGTACTA
*
13992575 ACAAAT-AAAATGCAGTG
1 ACAAATAAAAATGCAATG
13992592 ACAAATAAAAATGCAATG
1 ACAAATAAAAATGCAATG
13992610 A
1 A
13992611 AAACTAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.58, C:0.11, G:0.14, T:0.17
Consensus pattern (18 bp):
ACAAATAAAAATGCAATG
Found at i:14012156 original size:14 final size:14
Alignment explanation
Indices: 14012137--14012167 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
14012127 AATAAAACCC
*
14012137 AAACAAGATAAAAT
1 AAACAAAATAAAAT
14012151 AAACAAAATAAAAT
1 AAACAAAATAAAAT
14012165 AAA
1 AAA
14012168 ATGAAAACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.06, G:0.03, T:0.13
Consensus pattern (14 bp):
AAACAAAATAAAAT
Found at i:14027793 original size:31 final size:31
Alignment explanation
Indices: 14027755--14027821 Score: 125
Period size: 31 Copynumber: 2.2 Consensus size: 31
14027745 CCCATCCTCA
*
14027755 TTGCCAAATATCTTTCTTGATATTAATGCCT
1 TTGCCAAATATCTTTCTTGATATCAATGCCT
14027786 TTGCCAAATATCTTTCTTGATATCAATGCCT
1 TTGCCAAATATCTTTCTTGATATCAATGCCT
14027817 TTGCC
1 TTGCC
14027822 TATTTCCTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.43
Consensus pattern (31 bp):
TTGCCAAATATCTTTCTTGATATCAATGCCT
Found at i:14027844 original size:30 final size:31
Alignment explanation
Indices: 14027755--14027844 Score: 112
Period size: 31 Copynumber: 2.9 Consensus size: 31
14027745 CCCATCCTCA
*
14027755 TTGCCAAATATCTTTCTTGATATTAATGCCT
1 TTGCCAAATATCCTTCTTGATATTAATGCCT
* *
14027786 TTGCCAAATATCTTTCTTGATATCAATGCCT
1 TTGCCAAATATCCTTCTTGATATTAATGCCT
* *
14027817 TTGCC-TATTTCCTTCTTGGA-ATTAATGC
1 TTGCCAAATATCCTTCTT-GATATTAATGC
14027845 TTCTTTTTCT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
30 16 0.30
31 37 0.70
ACGTcount: A:0.23, C:0.21, G:0.11, T:0.44
Consensus pattern (31 bp):
TTGCCAAATATCCTTCTTGATATTAATGCCT
Found at i:14029927 original size:371 final size:371
Alignment explanation
Indices: 14029244--14030357 Score: 2034
Period size: 371 Copynumber: 3.0 Consensus size: 371
14029234 ACCTGTGGTT
* * *
14029244 TATAGGTTTGAGTTTGGACTAGTTGTCCTACCATTGGGTGTGGAACATAATATCCTTGATCAGGA
1 TATAGGTTTGAGTTTGGACTAGTTATCCTACCATTGGGTATGGAACATAATATCCTTGATTAGGA
14029309 TAAAATGGTACTTGTGTAGGTATTCTTATAAAACCAGGACAAGGATTTCTTGGATTGAAATCATT
66 TAAAATGGTACTTGTGTAGGTATTCTTATAAAACCAGGACAAGGATTTCTTGGATTGAAATCATT
* * * * * *
14029374 TCGCTTTTTGCGAATCGTTGTCCATTGTTCGACTTTCTCTAAAGGTTGTTTACCTTTATCCGTAA
131 TCACTTTTTGTGAACCGTTGTCCATTCTCCGACTTTCTCTAAAGGTTGTTTACCTTTATCCATAA
* * *
14029439 GGCCTGCTAAGATAATCAGCAATAATATTGTCAATGCCTTTTACATATAAAACTTCAAAATTAAA
196 GGCCTGCTAAGATAATCAGCAATAATATTGTTAGTTCCTTTTACATATAAAACTTCAAAATTAAA
* *
14029504 AGTACATAACTCATTATACCATCTCATTCTTCCTGGTATTGTTTCTAAACTTTTATTAGTAAGAA
261 AGTACATAACTCATTATACCATCTTATTCTTCTTGGTATTGTTTCTAAACTTTTATTAGTAAGAA
14029569 ACTGTTTAACAGCCTGATTGTCTGTTTTTATGATAAATTTTTCAGG
326 ACTGTTTAACAGCCTGATTGTCTGTTTTTATGATAAATTTTTCAGG
*
14029615 TATAGGTTTGAGTTTGGACTAGTTATCCTACCATTGGGTATGGAACATAATATCATTGATTAGGA
1 TATAGGTTTGAGTTTGGACTAGTTATCCTACCATTGGGTATGGAACATAATATCCTTGATTAGGA
14029680 TAAAATGGTACTTGTGTAGGTATTCTTATAAAACCAGGACAAGGATTTCTTGGATTGAAATCATT
66 TAAAATGGTACTTGTGTAGGTATTCTTATAAAACCAGGACAAGGATTTCTTGGATTGAAATCATT
14029745 TCACTTTTTGTGAACCGTTGTCCATTCTCCGACTTTCTCTAAAGGTTGTTTACCTTTATCCATAA
131 TCACTTTTTGTGAACCGTTGTCCATTCTCCGACTTTCTCTAAAGGTTGTTTACCTTTATCCATAA
14029810 GGCCTGCTAAGATAATCAGCAATAATATTGTTAGTTCCTTTTACATATAAAACTTCAAAATTAAA
196 GGCCTGCTAAGATAATCAGCAATAATATTGTTAGTTCCTTTTACATATAAAACTTCAAAATTAAA
14029875 AGTACATAACTCATTATACCATCTTATTCTTCTTGGTATTGTTTCTAAACTTTTATTAGTAAGAA
261 AGTACATAACTCATTATACCATCTTATTCTTCTTGGTATTGTTTCTAAACTTTTATTAGTAAGAA
*
14029940 ACTGTTTAACAGCTTGATTGTCTGTTTTTATGATAAATTTTTCAGG
326 ACTGTTTAACAGCCTGATTGTCTGTTTTTATGATAAATTTTTCAGG
14029986 TATAGGTTTGAGTTTGGACTAGTTATCCTACCATTGGGTATGGAACATAATATCCTTGATTAGGA
1 TATAGGTTTGAGTTTGGACTAGTTATCCTACCATTGGGTATGGAACATAATATCCTTGATTAGGA
*
14030051 TAAAATGGTACTTGTGTAGGTATTCTTATAAAACCAGG-CAAAGGATTTTTTGGATTGAAATCAT
66 TAAAATGGTACTTGTGTAGGTATTCTTATAAAACCAGGAC-AAGGATTTCTTGGATTGAAATCAT
14030115 TTCACTTTTTGTGAACCGTTGTCCATTCTCCGACTTTCTCTAAAGGTTGTTTACCTTTATCCATA
130 TTCACTTTTTGTGAACCGTTGTCCATTCTCCGACTTTCTCTAAAGGTTGTTTACCTTTATCCATA
14030180 AGGCCTGCTAAGATAATCAGCAATAATATTGTTAGTGT-CTTTTACATATAAAACTTCAAAATTA
195 AGGCCTGCTAAGATAATCAGCAATAATATTGTTAGT-TCCTTTTACATATAAAACTTCAAAATTA
14030244 AAAGTACATAACTCATTATACCATCTTATTCTTCTTGGTATTGTTTCTAAACTTTTATTAGTAAG
259 AAAGTACATAACTCATTATACCATCTTATTCTTCTTGGTATTGTTTCTAAACTTTTATTAGTAAG
*
14030309 AAACTGTTTAACAGCCTGATTGTCTGTTTTTATGATAAATTTTTAAGG
324 AAACTGTTTAACAGCCTGATTGTCTGTTTTTATGATAAATTTTTCAGG
14030357 T
1 T
14030358 GCTAGATAAA
Statistics
Matches: 721, Mismatches: 20, Indels: 4
0.97 0.03 0.01
Matches are distributed among these distances:
370 1 0.00
371 719 1.00
372 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (371 bp):
TATAGGTTTGAGTTTGGACTAGTTATCCTACCATTGGGTATGGAACATAATATCCTTGATTAGGA
TAAAATGGTACTTGTGTAGGTATTCTTATAAAACCAGGACAAGGATTTCTTGGATTGAAATCATT
TCACTTTTTGTGAACCGTTGTCCATTCTCCGACTTTCTCTAAAGGTTGTTTACCTTTATCCATAA
GGCCTGCTAAGATAATCAGCAATAATATTGTTAGTTCCTTTTACATATAAAACTTCAAAATTAAA
AGTACATAACTCATTATACCATCTTATTCTTCTTGGTATTGTTTCTAAACTTTTATTAGTAAGAA
ACTGTTTAACAGCCTGATTGTCTGTTTTTATGATAAATTTTTCAGG
Found at i:14041384 original size:8 final size:8
Alignment explanation
Indices: 14041371--14041397 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
14041361 AAAATCTCGG
14041371 ATTGTACT
1 ATTGTACT
14041379 ATTGTACT
1 ATTGTACT
14041387 ATTGTACT
1 ATTGTACT
14041395 ATT
1 ATT
14041398 ATTGATAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.52
Consensus pattern (8 bp):
ATTGTACT
Found at i:14045059 original size:48 final size:48
Alignment explanation
Indices: 14044914--14045059 Score: 136
Period size: 48 Copynumber: 3.1 Consensus size: 48
14044904 ACTAACATTG
* * * *
14044914 ACAAATCTTTATCTCCCTAAAGTTACAGTGGAGCAAGATAAAGCCACA
1 ACAAATTTTTATCTCCCTGAAGTTACAGTGGAGCAAGATAAAGCTATA
* ** * * * *
14044962 CCAAA-TCCTATCTTCCTGAAGTTACAGTGAAGC-GGATTAAA-ATAGTA
1 ACAAATTTTTATCTCCCTGAAGTTACAGTGGAGCAAGA-TAAAGCTA-TA
* *
14045009 ACAAATTTTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTATA
1 ACAAATTTTTATCTCCCTGAAGTTACAGTGGAGCAAGATAAAGCTATA
14045057 ACA
1 ACA
14045060 CCAAATCCTA
Statistics
Matches: 73, Mismatches: 20, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
46 3 0.04
47 31 0.42
48 35 0.48
49 4 0.05
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (48 bp):
ACAAATTTTTATCTCCCTGAAGTTACAGTGGAGCAAGATAAAGCTATA
Found at i:14045140 original size:101 final size:100
Alignment explanation
Indices: 14044865--14045547 Score: 553
Period size: 98 Copynumber: 7.0 Consensus size: 100
14044855 AGTAAAATAG
* ** * * *
14044865 CAAATCCTATATCCCTAAAGTTGTAAGGAT-TAGATTAAAACTAACATTGACAAATCTTTATCTC
1 CAAATCCTATATTCCTAAAGTTACAGGGATCGA-ATTAAAACTAACATTGGCAAATCTTTATCTC
* * * *
14044929 CCTAAAGTTACAGTGGAGCAAGATAAAGC--CACAC
65 CCTGAAGTTGCAGTGGAGCAAGATGAAGCTAAACAC
* * * * * * ** *
14044963 CAAATCCTATCTTCCTGAAGTTACAGTGAAGCGGATTAAAA-T---AGTAACAAATTTTTATCTC
1 CAAATCCTATATTCCTAAAGTTACAG-GGATCGAATTAAAACTAACATTGGCAAATCTTTATCTC
14045024 CCTGAAGTTGCAGTGGAGCAAGATGAAGCTATAACAC
65 CCTGAAGTTGCAGTGGAGCAAGATGAAGCTA-AACAC
* ** *
14045061 CAAATCCTATATTCCTGAAGTTGTAGGGATTGAATTAAAACTAACATTGGCAAATCTTTATCTCC
1 CAAATCCTATATTCCTAAAGTTACAGGGATCGAATTAAAACTAACATTGGCAAATCTTTATCTCC
* * * *
14045126 CTGAAGTTGTAGTGGAGCAAGATAAAGC--CACAA
66 CTGAAGTTGCAGTGGAGCAAGATGAAGCTAAACAC
* * * * * * *
14045159 CAAATCCTATCTTCCTAAAGTTACAACGAAGCGAATT--AA--AACAGTAGAAAATCTTTATCTC
1 CAAATCCTATATTCCTAAAGTTAC-AGGGATCGAATTAAAACTAACATTGGCAAATCTTTATCTC
* *
14045220 CCTGAAGTTGCAGTGGAGTAATATGAAGCTACAACAC
65 CCTGAAGTTGCAGTGGAGCAAGATGAAGCTA-AACAC
* * * *
14045257 CAAATCCTATATCCCTAAAGTTACAAGGATCGGATTAAAACTAACATTGGTAAATCTTTATCTCC
1 CAAATCCTATATTCCTAAAGTTACAGGGATCGAATTAAAACTAACATTGGCAAATCTTTATCTCC
* * * *
14045322 CTAAAGTTGCAGTGGAGCAAAATGAAGC--CACAA
66 CTGAAGTTGCAGTGGAGCAAGATGAAGCTAAACAC
* ** * * * * *
14045355 CAAATCCTATGTTTGTAAAGTTACAGTGAAGT-GGATTAAAA-T---AGTAGCAAATATTTATCT
1 CAAATCCTATATTCCTAAAGTTACAG-GGA-TCGAATTAAAACTAACATTGGCAAATCTTTATCT
* * *
14045415 CCCTAAAGTTGTAGTAGAGCAAGATGAAGCTACAACAC
64 CCCTGAAGTTGCAGTGGAGCAAGATGAAGCTA-AACAC
* * * * * **
14045453 CAAATCCTATATCCCTGAAGTTATAGGGATCGAATTAACACTAATATTGGCAAATCTTTATCTAT
1 CAAATCCTATATTCCTAAAGTTACAGGGATCGAATTAAAACTAACATTGGCAAATCTTTATCTCC
* * *
14045518 TTGAAGTTGC-GATAGAGAAAGATGAAGCTA
66 CTGAAGTTGCAG-TGGAGCAAGATGAAGCTA
14045548 TGACATCAAG
Statistics
Matches: 461, Mismatches: 96, Indels: 53
0.76 0.16 0.09
Matches are distributed among these distances:
95 127 0.28
96 1 0.00
97 29 0.06
98 146 0.32
99 30 0.07
100 2 0.00
101 126 0.27
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.28
Consensus pattern (100 bp):
CAAATCCTATATTCCTAAAGTTACAGGGATCGAATTAAAACTAACATTGGCAAATCTTTATCTCC
CTGAAGTTGCAGTGGAGCAAGATGAAGCTAAACAC
Found at i:14045527 original size:196 final size:196
Alignment explanation
Indices: 14044865--14045515 Score: 926
Period size: 196 Copynumber: 3.3 Consensus size: 196
14044855 AGTAAAATAG
* * *
14044865 CAAATCCTATATCCCTAAAGTTGTAAGGAT-TAGATTAAAACTAACATTGACAAATCTTTATCTC
1 CAAATCCTATATCCCTAAAGTTATAAGGATCGA-ATTAAAACTAACATTGGCAAATCTTTATCTC
* * *
14044929 CCTAAAGTTACAGTGGAGCAAGATAAAGCCACACCAAATCCTATCTTCCTGAAGTTACAGTGAAG
65 CCTAAAGTTGCAGTGGAGCAAGATAAAGCCACAACAAATCCTATCTTCCTAAAGTTACAGTGAAG
* * *
14044994 CGGATTAAAATAGTAACAAATTTTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTATAAC
130 CGGATTAAAATAGTAGCAAATATTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAC
14045059 AC
195 AC
* * * * *
14045061 CAAATCCTATATTCCTGAAGTTGTAGGGATTGAATTAAAACTAACATTGGCAAATCTTTATCTCC
1 CAAATCCTATATCCCTAAAGTTATAAGGATCGAATTAAAACTAACATTGGCAAATCTTTATCTCC
* * **
14045126 CTGAAGTTGTAGTGGAGCAAGATAAAGCCACAACAAATCCTATCTTCCTAAAGTTACAACGAAGC
66 CTAAAGTTGCAGTGGAGCAAGATAAAGCCACAACAAATCCTATCTTCCTAAAGTTACAGTGAAGC
* * * * * *
14045191 GAATTAAAACAGTAGAAAATCTTTATCTCCCTGAAGTTGCAGTGGAGTAATATGAAGCTACAACA
131 GGATTAAAATAGTAGCAAATATTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAACA
14045256 C
196 C
* * *
14045257 CAAATCCTATATCCCTAAAGTTACAAGGATCGGATTAAAACTAACATTGGTAAATCTTTATCTCC
1 CAAATCCTATATCCCTAAAGTTATAAGGATCGAATTAAAACTAACATTGGCAAATCTTTATCTCC
* * * ** *
14045322 CTAAAGTTGCAGTGGAGCAAAATGAAGCCACAACAAATCCTATGTTTGTAAAGTTACAGTGAAGT
66 CTAAAGTTGCAGTGGAGCAAGATAAAGCCACAACAAATCCTATCTTCCTAAAGTTACAGTGAAGC
* * *
14045387 GGATTAAAATAGTAGCAAATATTTATCTCCCTAAAGTTGTAGTAGAGCAAGATGAAGCTACAACA
131 GGATTAAAATAGTAGCAAATATTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAACA
14045452 C
196 C
* * * *
14045453 CAAATCCTATATCCCTGAAGTTATAGGGATCGAATTAACACTAATATTGGCAAATCTTTATCT
1 CAAATCCTATATCCCTAAAGTTATAAGGATCGAATTAAAACTAACATTGGCAAATCTTTATCT
14045516 ATTTGAAGTT
Statistics
Matches: 400, Mismatches: 54, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
196 399 1.00
197 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (196 bp):
CAAATCCTATATCCCTAAAGTTATAAGGATCGAATTAAAACTAACATTGGCAAATCTTTATCTCC
CTAAAGTTGCAGTGGAGCAAGATAAAGCCACAACAAATCCTATCTTCCTAAAGTTACAGTGAAGC
GGATTAAAATAGTAGCAAATATTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAACA
C
Found at i:14057327 original size:22 final size:22
Alignment explanation
Indices: 14057269--14057329 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
14057259 GTTGATATGC
* *
14057269 TTTAAATGTTGTTAAAGCATGT
1 TTTAAATGTTGTCAAAACATGT
* * *
14057291 TTCAAATGCTATCAAAACATGT
1 TTTAAATGTTGTCAAAACATGT
*
14057313 TTTAAGTGTTGTCAAAA
1 TTTAAATGTTGTCAAAA
14057330 TTAGATATTT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (22 bp):
TTTAAATGTTGTCAAAACATGT
Found at i:14071710 original size:20 final size:20
Alignment explanation
Indices: 14071685--14071730 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
14071675 TAATTTTACG
14071685 TTTGTTAGT-GTTTCTATTTT
1 TTTGTTAGTAG-TTCTATTTT
*
14071705 TTTGTTATTAGTTCTATTTT
1 TTTGTTAGTAGTTCTATTTT
*
14071725 TGTGTT
1 TTTGTT
14071731 CATTACTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.11, C:0.04, G:0.15, T:0.70
Consensus pattern (20 bp):
TTTGTTAGTAGTTCTATTTT
Found at i:14071735 original size:21 final size:20
Alignment explanation
Indices: 14071696--14071735 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
14071686 TTGTTAGTGT
*
14071696 TTCTATTTTTTTGTTATTAG
1 TTCTATTTTTGTGTTATTAG
14071716 TTCTATTTTTGTGTTCATTA
1 TTCTATTTTTGTGTT-ATTA
14071736 CTTTTAGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.15, C:0.07, G:0.10, T:0.68
Consensus pattern (20 bp):
TTCTATTTTTGTGTTATTAG
Found at i:14073009 original size:17 final size:17
Alignment explanation
Indices: 14072987--14073045 Score: 118
Period size: 17 Copynumber: 3.5 Consensus size: 17
14072977 TGTTACTTGC
14072987 CCATGTGTAACACATGA
1 CCATGTGTAACACATGA
14073004 CCATGTGTAACACATGA
1 CCATGTGTAACACATGA
14073021 CCATGTGTAACACATGA
1 CCATGTGTAACACATGA
14073038 CCATGTGT
1 CCATGTGT
14073046 TAGCCCGTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 42 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (17 bp):
CCATGTGTAACACATGA
Found at i:14076227 original size:53 final size:53
Alignment explanation
Indices: 14076131--14076483 Score: 480
Period size: 53 Copynumber: 6.7 Consensus size: 53
14076121 CTACGCCAAA
* *
14076131 GATTAAAGGTCCGATGACTA--TGTCATTGTGAGTTATCTGAATCCTATCATG
1 GATTAAAGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCCTATCATG
*
14076182 GATTAAAGGTCCAATGACTATGTGTCATCGTGAGTTATATGAATCCTATCATG
1 GATTAAAGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCCTATCATG
* * * *
14076235 TATTAAAGGTCCGATGACTATGTGTCATCGTGAGTTATATAAATCCTATTACG
1 GATTAAAGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCCTATCATG
*
14076288 GATTAAGGGT-CGAATGACTATGTGTCATCGTGAGTTATATGAATCCTATCATG
1 GATTAAAGGTCCG-ATGACTATGTGTCATCGTGAGTTATATGAATCCTATCATG
* * ** *
14076341 GATTAAAGGTTCGATGATTATGTGTCATCGTGAGTTATCCGAATCCTATTATG
1 GATTAAAGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCCTATCATG
* * * * * *
14076394 GATTAAGGGTCCGATGACTTTGTGTCATTGTGAGATGTACGAATCC-ATCATG
1 GATTAAAGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCCTATCATG
* *
14076446 GATTAAAGGTCCGATGACTCTATGTCATCGTGAGTTAT
1 GATTAAAGGTCCGATGACTATGTGTCATCGTGAGTTAT
14076484 CAAATGTGAA
Statistics
Matches: 265, Mismatches: 33, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
51 19 0.07
52 39 0.15
53 205 0.77
54 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.35
Consensus pattern (53 bp):
GATTAAAGGTCCGATGACTATGTGTCATCGTGAGTTATATGAATCCTATCATG
Found at i:14090552 original size:23 final size:23
Alignment explanation
Indices: 14090526--14090578 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
14090516 CTATCACCAA
14090526 AAAACAGAAGC-AGTATTTGAGAG
1 AAAACAGAA-CAAGTATTTGAGAG
*
14090549 AAAACAAGAACAAGTTTTTGAGAG
1 AAAAC-AGAACAAGTATTTGAGAG
*
14090573 AGAACA
1 AAAACA
14090579 AAAGTTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.51, C:0.09, G:0.23, T:0.17
Consensus pattern (23 bp):
AAAACAGAACAAGTATTTGAGAG
Found at i:14094306 original size:24 final size:24
Alignment explanation
Indices: 14094274--14094336 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
14094264 TATCACCAAA
14094274 AAAAC-AGAAGTAGTTTTTGAGAG
1 AAAACAAGAAGTAGTTTTTGAGAG
**
14094297 AAAACAAGAACAAGTTTTTGAGAG
1 AAAACAAGAAGTAGTTTTTGAGAG
* *
14094321 AGAACAA-AAGTTGTTT
1 AAAACAAGAAGTAGTTT
14094337 CTTCTTCTCC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 11 0.33
24 22 0.67
ACGTcount: A:0.46, C:0.06, G:0.22, T:0.25
Consensus pattern (24 bp):
AAAACAAGAAGTAGTTTTTGAGAG
Found at i:14103234 original size:58 final size:58
Alignment explanation
Indices: 14103172--14103303 Score: 194
Period size: 58 Copynumber: 2.3 Consensus size: 58
14103162 AAACCCATCA
* *
14103172 ATAAACTAAACCCAAATATTTTTAAA-TCCAAATATAATTTCATTCTTAAAAAATATTC
1 ATAAACTAAACCCAAATATTTTTAAACT-CAAATATAATTTCATTCTTAAAAAACACTC
* *
14103230 ATAAACTAAACCCAATTATTTTTAAACTCAAATATAATTTTATTCTTAAAAAACACTC
1 ATAAACTAAACCCAAATATTTTTAAACTCAAATATAATTTCATTCTTAAAAAACACTC
* *
14103288 ATAAATTAAACTCAAA
1 ATAAACTAAACCCAAA
14103304 ATCAATTTTT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
58 65 0.98
59 1 0.02
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (58 bp):
ATAAACTAAACCCAAATATTTTTAAACTCAAATATAATTTCATTCTTAAAAAACACTC
Found at i:14103373 original size:24 final size:24
Alignment explanation
Indices: 14103345--14103394 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
14103335 AATTAAACCT
* *
14103345 CCATTTAATCGAAGAGACTAAAAC
1 CCATTTAATCAAAGAAACTAAAAC
*
14103369 CCATTTAGTCAAAGAAACTAAAAC
1 CCATTTAATCAAAGAAACTAAAAC
14103393 CC
1 CC
14103395 CTAAATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.46, C:0.24, G:0.10, T:0.20
Consensus pattern (24 bp):
CCATTTAATCAAAGAAACTAAAAC
Found at i:14103856 original size:34 final size:34
Alignment explanation
Indices: 14103799--14103883 Score: 118
Period size: 34 Copynumber: 2.5 Consensus size: 34
14103789 TTTAAACTGC
* * * *
14103799 AATTTTTGT-TTTGTACTGTAATACACAAAACTA
1 AATTTTAGTATTTGAACTGCAATACACAAAACAA
*
14103832 AATTTTAGTATTTGAACTGCAATACCCAAAACAA
1 AATTTTAGTATTTGAACTGCAATACACAAAACAA
14103866 AATTTTAGTATTTGAACT
1 AATTTTAGTATTTGAACT
14103884 AACAACTAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 8 0.17
34 38 0.83
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (34 bp):
AATTTTAGTATTTGAACTGCAATACACAAAACAA
Found at i:14110115 original size:28 final size:28
Alignment explanation
Indices: 14110084--14110143 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
14110074 TATAACAGGC
14110084 TTTTACAAGTGCCAACTTTTTAAAGATG
1 TTTTACAAGTGCCAACTTTTTAAAGATG
14110112 TTTTACAAGTGCCAACTTTTTAAAGATG
1 TTTTACAAGTGCCAACTTTTTAAAGATG
14110140 TTTT
1 TTTT
14110144 GTCAAAGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (28 bp):
TTTTACAAGTGCCAACTTTTTAAAGATG
Found at i:14113616 original size:7 final size:7
Alignment explanation
Indices: 14113604--14113637 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
14113594 TGTATTACGA
14113604 TTTTTAT
1 TTTTTAT
14113611 TTTTTAT
1 TTTTTAT
14113618 TTTTTAT
1 TTTTTAT
14113625 TTTTTAT
1 TTTTTAT
14113632 TTTTTA
1 TTTTTA
14113638 CATTCTGTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTAT
Found at i:14119981 original size:19 final size:19
Alignment explanation
Indices: 14119953--14119989 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14119943 CTGTTAACCA
*
14119953 TTGACCATTGATCGTTGAC
1 TTGACCATTGACCGTTGAC
*
14119972 TTGACTATTGACCGTTGA
1 TTGACCATTGACCGTTGA
14119990 TTGTTGACTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.38
Consensus pattern (19 bp):
TTGACCATTGACCGTTGAC
Found at i:14120008 original size:26 final size:26
Alignment explanation
Indices: 14119949--14120013 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
14119939 CAACCTGTTA
*
14119949 ACCATTGACCATTGATCGTTGACTTG
1 ACCATTGACCGTTGATCGTTGACTTG
* *
14119975 ACTATTGACCGTTGATTGTTGACTTG
1 ACCATTGACCGTTGATCGTTGACTTG
*
14120001 ACCGTTGACCGTT
1 ACCATTGACCGTT
14120014 AACTTGGTAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
ACCATTGACCGTTGATCGTTGACTTG
Found at i:14120037 original size:19 final size:19
Alignment explanation
Indices: 14119979--14120037 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
14119969 GACTTGACTA
* *
14119979 TTGACCGTTGATTGTTGAC
1 TTGACAGTTGACTGTTGAC
* * *
14119998 TTGACCGTTGACCGTTAAC
1 TTGACAGTTGACTGTTGAC
**
14120017 TTGGTAGTTGACTGTTGAC
1 TTGACAGTTGACTGTTGAC
14120036 TT
1 TT
14120038 TTTAGGTTGA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.17, C:0.17, G:0.25, T:0.41
Consensus pattern (19 bp):
TTGACAGTTGACTGTTGAC
Found at i:14122459 original size:3 final size:3
Alignment explanation
Indices: 14122395--14122441 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
14122385 GTAGTGGGGA
14122395 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
14122442 AATTTAATGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14125915 original size:24 final size:23
Alignment explanation
Indices: 14125883--14125937 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 23
14125873 AGTTTGTCTG
*
14125883 GGCTTGTAAGAGCTAATCATTCT
1 GGCTCGTAAGAGCTAATCATTCT
14125906 AGGCTCGTAAGAGCTAATCATTCT
1 -GGCTCGTAAGAGCTAATCATTCT
14125930 GAGCTCGT
1 G-GCTCGT
14125938 GTTGGCTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 1 0.03
24 28 0.97
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (23 bp):
GGCTCGTAAGAGCTAATCATTCT
Found at i:14129053 original size:14 final size:13
Alignment explanation
Indices: 14129030--14129085 Score: 62
Period size: 14 Copynumber: 4.3 Consensus size: 13
14129020 ACTCAACCCG
14129030 TTGATCGTTGACC
1 TTGATCGTTGACC
*
14129043 ATTGATAGTTGA-C
1 -TTGATCGTTGACC
*
14129056 TTGATCGTTAACC
1 TTGATCGTTGACC
14129069 GTTGATCGTTGA-C
1 -TTGATCGTTGACC
14129082 TTGA
1 TTGA
14129086 CCATTGACTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
12 13 0.36
13 3 0.08
14 20 0.56
ACGTcount: A:0.21, C:0.16, G:0.23, T:0.39
Consensus pattern (13 bp):
TTGATCGTTGACC
Found at i:14129063 original size:26 final size:26
Alignment explanation
Indices: 14129030--14129085 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
14129020 ACTCAACCCG
*
14129030 TTGATCGTTGACCATTGATAGTTGAC
1 TTGATCGTTAACCATTGATAGTTGAC
* *
14129056 TTGATCGTTAACCGTTGATCGTTGAC
1 TTGATCGTTAACCATTGATAGTTGAC
14129082 TTGA
1 TTGA
14129086 CCATTGACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.21, C:0.16, G:0.23, T:0.39
Consensus pattern (26 bp):
TTGATCGTTAACCATTGATAGTTGAC
Found at i:14129121 original size:19 final size:19
Alignment explanation
Indices: 14129077--14129121 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
14129067 CCGTTGATCG
* *
14129077 TTGACTTGACCATTGACTA
1 TTGACTTGACAATTGACCA
* *
14129096 TTAACTTGGCAATTGACCA
1 TTGACTTGACAATTGACCA
14129115 TTGACTT
1 TTGACTT
14129122 TTTGGGTTGA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.38
Consensus pattern (19 bp):
TTGACTTGACAATTGACCA
Found at i:14133227 original size:195 final size:192
Alignment explanation
Indices: 14132897--14133265 Score: 481
Period size: 195 Copynumber: 1.9 Consensus size: 192
14132887 TTTGTCCGTA
* * *
14132897 AACTGTTCTCTAACGATGCTGCTCACACGAGCTGTCGAGAATATCATTCAAGCATAAATCCCAGC
1 AACTGTTCCCTAACGATGCTACTCACACGAGCTATCGAGAATATCATTCAAGCATAAATCCCAGC
* * * ** *
14132962 CATCTTAGGGCGTATAATCCATTTTGGATTTCATATCTCTTTTTTGACTCACGATGCTGCTCACA
66 CATCGTAGGGCCTATAATCCATTATGGATTTCATATCTCTTTCCTGACTCACGATGCTACTCACA
** *
14133027 CGAGCTGTCGAGGACTCGCAACATATGTGGTATCTCAACCATCGATACACATCTATGCATAT
131 CGAGCTGTCGAGGACTCGCAACATATGCAGTACCTCAACCATCGATACACATCTATGCATAT
* * * * *
14133089 AACTGTTTCCCTAACGATGTTACTCACACGAGCTATTGAGAATGTGCACTT-ATGCATAAATCCT
1 AACTG-TTCCCTAACGATGCTACTCACACGAGCTATCGAGAATAT-CA-TTCAAGCATAAATCCC
* * * *
14133153 AGCCATCGTAGGGCCTGTAATCTATTCATGGA-TTCATTTCTCATTTCCTGACTCACGGTGCTAC
63 AGCCATCGTAGGGCCTATAATCCATT-ATGGATTTCATATCTC-TTTCCTGACTCACGATGCTAC
*
14133217 TCACACGAGCTGTCTAGGACTCGCAACATATGCAGTACCTCAACCATCG
126 TCACACGAGCTGTCGAGGACTCGCAACATATGCAGTACCTCAACCATCG
14133266 CGTCGGTTTC
Statistics
Matches: 150, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
192 5 0.03
193 33 0.22
194 44 0.29
195 68 0.45
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (192 bp):
AACTGTTCCCTAACGATGCTACTCACACGAGCTATCGAGAATATCATTCAAGCATAAATCCCAGC
CATCGTAGGGCCTATAATCCATTATGGATTTCATATCTCTTTCCTGACTCACGATGCTACTCACA
CGAGCTGTCGAGGACTCGCAACATATGCAGTACCTCAACCATCGATACACATCTATGCATAT
Found at i:14135590 original size:22 final size:22
Alignment explanation
Indices: 14135539--14135591 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
14135529 AATAATCCTG
* *
14135539 ATGGCATTCTTACCTAATATAT
1 ATGGCATGCTTACCTAATATAC
* *
14135561 ATGACATGCTTACACT-ATATGC
1 ATGGCATGCTTAC-CTAATATAC
14135583 ATGGCATGC
1 ATGGCATGC
14135592 GATGACAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
22 23 0.92
23 2 0.08
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (22 bp):
ATGGCATGCTTACCTAATATAC
Found at i:14141132 original size:61 final size:61
Alignment explanation
Indices: 14141054--14141170 Score: 198
Period size: 61 Copynumber: 1.9 Consensus size: 61
14141044 AATTAATCAC
* * * *
14141054 ATTAATATTATATTAATAAAATATTATCTAGATAAATATTAAATTAAATTTAATATCTCAT
1 ATTAATATCACATTAATAAAATACTATCTAGATAAATATTAAATTAAATTAAATATCTCAT
14141115 ATTAATATCACATTAATAAAATACTATCTAGATAAATATTAAATTAAATTAAATAT
1 ATTAATATCACATTAATAAAATACTATCTAGATAAATATTAAATTAAATTAAATAT
14141171 TAAATTCATT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (61 bp):
ATTAATATCACATTAATAAAATACTATCTAGATAAATATTAAATTAAATTAAATATCTCAT
Found at i:14142860 original size:62 final size:59
Alignment explanation
Indices: 14142744--14142860 Score: 171
Period size: 62 Copynumber: 1.9 Consensus size: 59
14142734 ATCACTTTAA
* * *
14142744 TATTAAATTAATATAATATTTATCAAGATAAATATTATATTAAATTTAAAATTAAATCT
1 TATTAAATTAATAGAATATTTATCAAGATAAACATTAAATTAAATTTAAAATTAAATCT
*
14142803 TATTAAATTAATAGAATATTTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAATTAATAGAATATTTA--T-CAAGATAAACATTAAATTAAATTTAAAATTAA
14142861 GATAATCACT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 21 0.41
61 1 0.02
62 29 0.57
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (59 bp):
TATTAAATTAATAGAATATTTATCAAGATAAACATTAAATTAAATTTAAAATTAAATCT
Found at i:14146011 original size:2 final size:2
Alignment explanation
Indices: 14146004--14146036 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
14145994 TTAAATTTAA
14146004 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 A
14146037 AATTAAGCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14146509 original size:46 final size:46
Alignment explanation
Indices: 14146442--14146578 Score: 154
Period size: 46 Copynumber: 3.0 Consensus size: 46
14146432 AGGAAAGTGT
* *
14146442 TAGGATATTATTATGTGATATTAACTTTTAGCAATTTGGTTCCTAA
1 TAGGATATTATTATGGGATATTAACTTTTAGCAATTTGATTCCTAA
* * *
14146488 TAGGATATTATTATGGGATATT-ATTTCTTAGTAATTTGATTTCTAA
1 TAGGATATTATTATGGGATATTAACTT-TTAGCAATTTGATTCCTAA
* * *
14146534 T-GAGATATTATTAT-GAACTATTATCTTTTAACAATTTGATTCCTA
1 TAG-GATATTATTATGGGA-TATTAACTTTTAGCAATTTGATTCCTA
14146579 CGTAACTACT
Statistics
Matches: 76, Mismatches: 11, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
45 6 0.08
46 68 0.89
47 2 0.03
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.47
Consensus pattern (46 bp):
TAGGATATTATTATGGGATATTAACTTTTAGCAATTTGATTCCTAA
Found at i:14150187 original size:56 final size:56
Alignment explanation
Indices: 14150125--14150274 Score: 214
Period size: 56 Copynumber: 2.7 Consensus size: 56
14150115 AAGGGGTGTT
14150125 AATATTATTATGGGATATTATCTTTCAACAATTTGATTCT-TAATAGGATATTATAG
1 AATATTATTATGGGATATTATCTTT-AACAATTTGATTCTCTAATAGGATATTATAG
* * * *
14150181 AATATTATTATGGGATATTATCTCTTAGCAATTTAATT-TCTAATGGGATATTGTAG
1 AATATTATTATGGGATATTATCT-TTAACAATTTGATTCTCTAATAGGATATTATAG
* *
14150237 GATATTATTATAGGATATTATCTTTAACAATTTGATTC
1 AATATTATTATGGGATATTATCTTTAACAATTTGATTC
14150275 CTACGTAACT
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
55 13 0.16
56 68 0.82
57 2 0.02
ACGTcount: A:0.34, C:0.07, G:0.13, T:0.45
Consensus pattern (56 bp):
AATATTATTATGGGATATTATCTTTAACAATTTGATTCTCTAATAGGATATTATAG
Found at i:14152556 original size:28 final size:28
Alignment explanation
Indices: 14152520--14152573 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
14152510 GTGTAAGGAT
14152520 TAAGGAAATCATTGAATCTACATAATTA
1 TAAGGAAATCATTGAATCTACATAATTA
14152548 TAAGGAAATCATTGAATCTACATAAT
1 TAAGGAAATCATTGAATCTACATAAT
14152574 CCTGGACTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.31
Consensus pattern (28 bp):
TAAGGAAATCATTGAATCTACATAATTA
Found at i:14154177 original size:6 final size:6
Alignment explanation
Indices: 14154166--14154193 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
14154156 AGTTTACCCA
14154166 TTTCAT TTTCAT TTTCAT TTTCAT TTTC
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTC
14154194 TTCCGTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.18, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTCAT
Found at i:14173233 original size:39 final size:39
Alignment explanation
Indices: 14173190--14173295 Score: 131
Period size: 39 Copynumber: 2.7 Consensus size: 39
14173180 GAGTCACCTG
*
14173190 CTTCAACTTCACTGCTTAACAGTGCTAAACCGGACTCTA
1 CTTCAACTTCACTGCTTAACAATGCTAAACCGGACTCTA
* * *
14173229 CTTCAAATTCACTGGTTAACAATGCTAATCCGGACTCTA
1 CTTCAACTTCACTGCTTAACAATGCTAAACCGGACTCTA
* * * * *
14173268 ATTCTACTTCATTGGTTATCAATGCTAA
1 CTTCAACTTCACTGCTTAACAATGCTAA
14173296 GCCAGAATCT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (39 bp):
CTTCAACTTCACTGCTTAACAATGCTAAACCGGACTCTA
Found at i:14182867 original size:19 final size:19
Alignment explanation
Indices: 14182846--14182930 Score: 66
Period size: 19 Copynumber: 4.6 Consensus size: 19
14182836 TTCTCACCCT
* *
14182846 CAAACCCTTTTACTTTCCT
1 CAAACCATTTTACTTTCCC
** * *
14182865 CAAAAAAATTTACTTCCCC
1 CAAACCATTTTACTTTCCC
*
14182884 CAAACCTTTTTACTTTCCC
1 CAAACCATTTTACTTTCCC
** *
14182903 CAAAAAAATTTAC-TTCCC
1 CAAACCATTTTACTTTCCC
14182921 CAAACC-TTTT
1 CAAACCATTTT
14182931 TTTTCTTTTA
Statistics
Matches: 48, Mismatches: 18, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
17 3 0.06
18 9 0.19
19 36 0.75
ACGTcount: A:0.32, C:0.33, G:0.00, T:0.35
Consensus pattern (19 bp):
CAAACCATTTTACTTTCCC
Found at i:14182932 original size:38 final size:38
Alignment explanation
Indices: 14182846--14182931 Score: 147
Period size: 38 Copynumber: 2.3 Consensus size: 38
14182836 TTCTCACCCT
* *
14182846 CAAACCCTTTTACTTTCCTCAAAAAAATTTACTTCCCC
1 CAAACCTTTTTACTTTCCCCAAAAAAATTTACTTCCCC
14182884 CAAACCTTTTTACTTTCCCCAAAAAAATTTACTT-CCC
1 CAAACCTTTTTACTTTCCCCAAAAAAATTTACTTCCCC
14182921 CAAACCTTTTT
1 CAAACCTTTTT
14182932 TTTCTTTTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
37 14 0.30
38 32 0.70
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.36
Consensus pattern (38 bp):
CAAACCTTTTTACTTTCCCCAAAAAAATTTACTTCCCC
Found at i:14192000 original size:31 final size:31
Alignment explanation
Indices: 14191965--14192027 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
14191955 ATTGTAGCTC
14191965 CAGTATCAAGTAAAACATGTAAAGAATATAT
1 CAGTATCAAGTAAAACATGTAAAGAATATAT
14191996 CAGTATCAAGTAAAACATGTAAAGAATATAT
1 CAGTATCAAGTAAAACATGTAAAGAATATAT
14192027 C
1 C
14192028 TTATATTCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.51, C:0.11, G:0.13, T:0.25
Consensus pattern (31 bp):
CAGTATCAAGTAAAACATGTAAAGAATATAT
Found at i:14193023 original size:29 final size:30
Alignment explanation
Indices: 14192991--14193076 Score: 115
Period size: 29 Copynumber: 3.0 Consensus size: 30
14192981 AATTCAAGGT
14192991 CGAAAAT-GTAATTTTTGGATGTTCGGGGG
1 CGAAAATGGTAATTTTTGGATGTTCGGGGG
* *
14193020 CG-AAATGGTAATTTTTGGATGTTTGAGGG
1 CGAAAATGGTAATTTTTGGATGTTCGGGGG
* *
14193049 -TAAAATGGTAATTTTTTGATGTTCGGGG
1 CGAAAATGGTAATTTTTGGATGTTCGGGG
14193077 AAAATTATAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.08
29 45 0.92
ACGTcount: A:0.24, C:0.05, G:0.33, T:0.38
Consensus pattern (30 bp):
CGAAAATGGTAATTTTTGGATGTTCGGGGG
Found at i:14193135 original size:30 final size:30
Alignment explanation
Indices: 14193101--14193208 Score: 128
Period size: 30 Copynumber: 3.6 Consensus size: 30
14193091 GGAGAATTTT
* *
14193101 GGGGTCAAAATGGGATTTTGAAAAAGTTTA
1 GGGGTTAAAATGTGATTTTGAAAAAGTTTA
* *
14193131 GGGGTTAAAATGTAATTTT-AGAGAAGTTTA
1 GGGGTTAAAATGTGATTTTGA-AAAAGTTTA
*
14193161 GGGGTTAAAATGTGATTTTGGAAAAGTTTA
1 GGGGTTAAAATGTGATTTTGAAAAAGTTTA
** *
14193191 GGGACTAAAATATGATTT
1 GGGGTTAAAATGTGATTT
14193209 ATGGAAAGTT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
29 1 0.02
30 65 0.98
ACGTcount: A:0.36, C:0.02, G:0.28, T:0.34
Consensus pattern (30 bp):
GGGGTTAAAATGTGATTTTGAAAAAGTTTA
Found at i:14193200 original size:60 final size:59
Alignment explanation
Indices: 14193087--14193201 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 59
14193077 AAAATTATAT
* * **
14193087 TTTTGGAGAATTTTGGGGTCAAAATGGGATTTTGAAAAAGTTTAGGGGTTAAAATGTAA
1 TTTTAGAGAATTTAGGGGTCAAAATGGGATTTTGAAAAAGTTTAGGGACTAAAATGTAA
* * *
14193146 TTTTAGAGAAGTTTAGGGGTTAAAATGTGATTTTGGAAAAGTTTAGGGACTAAAAT
1 TTTTAGAGAA-TTTAGGGGTCAAAATGGGATTTTGAAAAAGTTTAGGGACTAAAAT
14193202 ATGATTTATG
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
59 9 0.19
60 39 0.81
ACGTcount: A:0.35, C:0.02, G:0.28, T:0.36
Consensus pattern (59 bp):
TTTTAGAGAATTTAGGGGTCAAAATGGGATTTTGAAAAAGTTTAGGGACTAAAATGTAA
Found at i:14193217 original size:30 final size:29
Alignment explanation
Indices: 14193107--14193225 Score: 121
Period size: 30 Copynumber: 4.0 Consensus size: 29
14193097 TTTTGGGGTC
* * *
14193107 AAAATGGGATTTTGAAAAAGTTTAGGGGTT
1 AAAATGTGATTTTG-GAAAGTTTAGGGATT
* * *
14193137 AAAATGTAATTTTAGAGAAGTTTAGGGGTT
1 AAAATGTGATTTTGGA-AAGTTTAGGGATT
*
14193167 AAAATGTGATTTTGGAAAAGTTTAGGGACT
1 AAAATGTGATTTTGG-AAAGTTTAGGGATT
* *
14193197 AAAATATGATTTATGGAAAGTTCAGGGAT
1 AAAATGTGATTT-TGGAAAGTTTAGGGAT
14193226 CTACTGGGTA
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
29 1 0.01
30 70 0.93
31 4 0.05
ACGTcount: A:0.38, C:0.02, G:0.27, T:0.34
Consensus pattern (29 bp):
AAAATGTGATTTTGGAAAGTTTAGGGATT
Found at i:14193218 original size:60 final size:60
Alignment explanation
Indices: 14193101--14193223 Score: 149
Period size: 60 Copynumber: 2.0 Consensus size: 60
14193091 GGAGAATTTT
** * *
14193101 GGGGTCAAAATGGGATTTTGAAAAAGTTTAGGGGTTAAAATGTAATTTTAGAGAAGTTTA
1 GGGGTCAAAATGGGATTTTGAAAAAGTTTAGGGACTAAAATATAATTTTAGAGAAGTTCA
* * * * *
14193161 GGGGTTAAAATGTGATTTTGGAAAAGTTTAGGGACTAAAATATGATTTATGGA-AAGTTCA
1 GGGGTCAAAATGGGATTTTGAAAAAGTTTAGGGACTAAAATATAATTT-TAGAGAAGTTCA
14193221 GGG
1 GGG
14193224 ATCTACTGGG
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
60 50 0.94
61 3 0.06
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.33
Consensus pattern (60 bp):
GGGGTCAAAATGGGATTTTGAAAAAGTTTAGGGACTAAAATATAATTTTAGAGAAGTTCA
Found at i:14195883 original size:78 final size:78
Alignment explanation
Indices: 14195753--14196442 Score: 598
Period size: 78 Copynumber: 8.8 Consensus size: 78
14195743 AATGGTTGCA
* * * *
14195753 ATCTGCCCCAAGCTCGGGGTAAGAGATTAGCTGATGG-TG--ATCTG-CTCCAGGCTCGAGGTAA
1 ATCTGCCCCAGGCTCGGGGTAAAAGA-T--CGGATGGCTGCAATCTGCCT-CAGGCTCGGGGTAA
*
14195814 GAGATTGGCTGATGGTA
62 GAGATTGGCTGATGGTG
** * * * * * * * *
14195831 ATCTGCCTTAAGCTCGGGGTAAGAGATCGGATTGTTACAATCTACCTTAGGCTCGGAGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCTGCCTCAGGCTCGGGGTAAGAGA
* * *
14195896 TTGGCTTATAGTA
66 TTGGCTGATGGTG
* * * ** * * * *
14195909 ATCTGCCTCGGGCTCAGGGTAAAAGATCAAATGGTTGCAATCTGCCCCAAGCTCAGGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCTGCCTCAGGCTCGGGGTAAGAGA
14195974 TTGGCTGATGGTG
66 TTGGCTGATGGTG
* * * * * * * *
14195987 ATTTGCCCCAGGCTCAGGGTAAAAGATCAGATGGCTACAATCTTCTTTAGGCTCGAGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCTGCCTCAGGCTCGGGGTAAGAGA
* *
14196052 TTGGTTGACGGTG
66 TTGGCTGATGGTG
* * * ** *
14196065 ATATGCCTCTGGCTTAGGGTAAGAGATCGGATGGCTGCAATCTGCC-CTAGGCTCGGGGTAAGAG
1 ATCTGCCCCAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCTGCCTC-AGGCTCGGGGTAAGAG
* *
14196129 ATCGGATGATGGTG
65 ATTGGCTGATGGTG
* * * * * * * * *
14196143 ATCTACCCCATGCTCGAGGTAAGAGATCGAACGGCTGTAATCTACCTCAGGTTCGGGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCTGCCTCAGGCTCGGGGTAAGAGA
*
14196208 TTGACTGATGGTG
66 TTGGCTGATGGTG
* * ** * * * *
14196221 ATCTGCCCTAAGCTCGGGGTAAAAGATTAGATAGCTGTAATCTGTCTCAGGCTCGGGGTAAAAGA
1 ATCTGCCCCAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCTGCCTCAGGCTCGGGGTAAGAGA
*
14196286 TTGGCAGATGGTG
66 TTGGCTGATGGTG
* * * **
14196299 ATCTGCCCTAGGCTCGGGGTAAGAGATCGGATGACTATAATCTGCCTCAGGCTCGGGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCTGCCTCAGGCTCGGGGTAAGAGA
*
14196364 TTGGCTGATAGTG
66 TTGGCTGATGGTG
* * * ** * * *
14196377 ATCTGCCCCAAGCTTGGGGTAAAAGATCAGATGGCTGTGATCTGCCCCATGCTTGGGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCTGCCTCAGGCTCGGGGTAAGAGA
14196442 T
66 T
14196443 CGGAATCTTT
Statistics
Matches: 494, Mismatches: 112, Indels: 12
0.80 0.18 0.02
Matches are distributed among these distances:
75 5 0.01
76 1 0.00
77 1 0.00
78 484 0.98
79 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (78 bp):
ATCTGCCCCAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCTGCCTCAGGCTCGGGGTAAGAGA
TTGGCTGATGGTG
Found at i:14195897 original size:156 final size:156
Alignment explanation
Indices: 14195592--14196442 Score: 579
Period size: 156 Copynumber: 5.5 Consensus size: 156
14195582 TGTTGGATGG
** * * * * *
14195592 TTGTAATCTGCCCTTAGCTCGGGGTAAGAGATTGGCTGACGGTGATCTGCTCCATGATCGGGGTA
1 TTGTAATCTGCCCCAAGCTCGGGGTAAAAGATTAGCTGATGGTGATCTGCTCCAGGCTCGGGGTA
* ** * * ** * * * **** *
14195657 AAAGATTGAATGGTTGCAATCTGCCCCAAGTTCGGGCTAAGAGATTGG-CTGACGGTGATCTGCC
66 AGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGATCGGACTG-CTACAATCTACC
* * * ** *
14195721 TCATGATCGGGGTAAAAGATTGAATGG
130 TCAGGCTCGGGGTAAGAGATTGGCTGA
* * *
14195748 TTGCAATCTGCCCCAAGCTCGGGGTAAGAGATTAGCTGATGGTGATCTGCTCCAGGCTCGAGGTA
1 TTGTAATCTGCCCCAAGCTCGGGGTAAAAGATTAGCTGATGGTGATCTGCTCCAGGCTCGGGGTA
* ** * *
14195813 AGAGATTGGCTGATGGTAATCTGCCTTAAGCTCGGGGTAAGAGATCGGATTGTTACAATCTACCT
66 AGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGATCGGACTGCTACAATCTACCT
* * *
14195878 TAGGCTCGGAGTAAGAGATTGGCTTA
131 CAGGCTCGGGGTAAGAGATTGGCTGA
* * ** * * ** * * ** * * *
14195904 TAGTAATCTGCCTCGGGCTCAGGGTAAAAGATCAAATGGTTGCAATCTGCCCCAAGCTCAGGGTA
1 TTGTAATCTGCCCCAAGCTCGGGGTAAAAGATTAGCTGATGGTGATCTGCTCCAGGCTCGGGGTA
* * * * * * *
14195969 AGAGATTGGCTGATGGTGATTTGCCCCAGGCTCAGGGTAAAAGATCAGA-TGGCTACAATCTTCT
66 AGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGATCGGACT-GCTACAATCTACC
* * *
14196033 TTAGGCTCGAGGTAAGAGATTGGTTGA
130 TCAGGCTCGGGGTAAGAGATTGGCTGA
** * * * ** ** * *
14196060 CGGTGATATGCCTCTGGCTTAGGGTAAGAGA-T--CGGATGGCTGCAATCTGC-CCTAGGCTCGG
1 TTGTAATCTGCCCCAAGCTCGGGGTAAAAGATTAGCTGATGG-TG--ATCTGCTCC-AGGCTCGG
* * * * * * * **
14196121 GGTAAGAGATCGGATGATGGTGATCTACCCCATGCTCGAGGTAAGAGATCGAACGGCTGTAATCT
62 GGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGATCGGACTGCTACAATCT
* *
14196186 ACCTCAGGTTCGGGGTAAGAGATTGACTGA
127 ACCTCAGGCTCGGGGTAAGAGATTGGCTGA
* * * * * *
14196216 TGGTGATCTGCCCTAAGCTCGGGGTAAAAGATTAGATAGCT-GTAATCTG-TCTCAGGCTCGGGG
1 TTGTAATCTGCCCCAAGCTCGGGGTAAAAGATTAGCT-GATGGTGATCTGCTC-CAGGCTCGGGG
* * * * * *
14196279 TAAAAGATTGGCAGATGGTGATCTGCCCTAGGCTCGGGGTAAGAGATCGGA-TGACTATAATCTG
64 TAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGATCGGACTG-CTACAATCTA
14196343 CCTCAGGCTCGGGGTAAGAGATTGGCTGA
128 CCTCAGGCTCGGGGTAAGAGATTGGCTGA
* * * * * * * * *
14196372 TAGTGATCTGCCCCAAGCTTGGGGTAAAAGATCAGATGGCT-GTGATCTGCCCCATGCTTGGGGT
1 TTGTAATCTGCCCCAAGCTCGGGGTAAAAGATTAGCT-GATGGTGATCTGCTCCAGGCTCGGGGT
14196436 AAGAGAT
65 AAGAGAT
14196443 CGGAATCTTT
Statistics
Matches: 539, Mismatches: 141, Indels: 30
0.76 0.20 0.04
Matches are distributed among these distances:
153 3 0.01
155 4 0.01
156 523 0.97
157 5 0.01
158 1 0.00
159 1 0.00
160 2 0.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.26
Consensus pattern (156 bp):
TTGTAATCTGCCCCAAGCTCGGGGTAAAAGATTAGCTGATGGTGATCTGCTCCAGGCTCGGGGTA
AGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGATCGGACTGCTACAATCTACCT
CAGGCTCGGGGTAAGAGATTGGCTGA
Found at i:14196396 original size:39 final size:39
Alignment explanation
Indices: 14195594--14196403 Score: 425
Period size: 39 Copynumber: 20.8 Consensus size: 39
14195584 TTGGATGGTT
* *
14195594 GTAATCTGCCCTTA-GCTCGGGGTAAGAGATTGGCTGACG
1 GTAATCTGCCC-CAGGCTCGGGGTAAGAGATTGGCTGATG
* * * * * ** * *
14195633 GTGATCTGCTCCATGATCGGGGTAAAAGATTGAATGGTT
1 GTAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATG
* * * * *
14195672 GCAATCTGCCCCAAGTTCGGGCTAAGAGATTGGCTGACG
1 GTAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATG
* * * * * ** * *
14195711 GTGATCTGCCTCATGATCGGGGTAAAAGATTGAATGGTT
1 GTAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATG
* * *
14195750 GCAATCTGCCCCAAGCTCGGGGTAAGAGATTAGCTGATG
1 GTAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATG
* * *
14195789 GTGATCTGCTCCAGGCTCGAGGTAAGAGATTGGCTGATG
1 GTAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATG
** * * *
14195828 GTAATCTGCCTTAAGCTCGGGGTAAGAGATCGGAT--TG
1 GTAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATG
* * ** * * *
14195865 TTACAATCTACCTTAGGCTCGGAGTAAGAGATTGGCTTATA
1 GT--AATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATG
* * * * **** * *
14195906 GTAATCTGCCTCGGGCTCAGGGTAAAAGATCAAATGGTT
1 GTAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATG
* * *
14195945 GCAATCTGCCCCAAGCTCAGGGTAAGAGATTGGCTGATG
1 GTAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATG
* * * * *
14195984 GTGATTTGCCCCAGGCTCAGGGTAAAAGA-T--CAGATG
1 GTAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATG
* *** * * *
14196020 GCTACAATCTTCTTTAGGCTCGAGGTAAGAGATTGGTTGACG
1 G-T--AATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATG
* * * * ** * * *
14196062 GTGATATGCCTCTGGCTTAGGGTAAGAGATCGGATGGCT-
1 GTAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCT-GATG
* * * *
14196101 GCAATCTGCCCTAGGCTCGGGGTAAGAGATCGGATGATG
1 GTAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATG
* * * * * * * *
14196140 GTGATCTACCCCATGCTCGAGGTAAGAGATCGAACGGCT-
1 GTAATCTGCCCCAGGCTCGGGGTAAGAGATTG-GCTGATG
* * * *
14196179 GTAATCTACCTCAGGTTCGGGGTAAGAGATTGACTGATG
1 GTAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATG
* * * * * * *
14196218 GTGATCTGCCCTAAGCTCGGGGTAAAAGATTAGATAGCT-
1 GTAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCT-GATG
* * * *
14196257 GTAATCTGTCTCAGGCTCGGGGTAAAAGATTGGCAGATG
1 GTAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATG
* * * *
14196296 GTGATCTGCCCTAGGCTCGGGGTAAGAGATCGGATGACT-
1 GTAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGA-TG
* * *
14196335 ATAATCTGCCTCAGGCTCGGGGTAAGAGATTGGCTGATA
1 GTAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATG
* * * *
14196374 GTGATCTGCCCCAAGCTTGGGGTAAAAGAT
1 GTAATCTGCCCCAGGCTCGGGGTAAGAGAT
14196404 CAGATGGCTG
Statistics
Matches: 563, Mismatches: 189, Indels: 38
0.71 0.24 0.05
Matches are distributed among these distances:
36 6 0.01
37 4 0.01
38 11 0.02
39 528 0.94
40 7 0.01
41 3 0.01
42 4 0.01
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (39 bp):
GTAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATG
Found at i:14205157 original size:29 final size:30
Alignment explanation
Indices: 14205097--14205159 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
14205087 ATTAAAATCA
* *
14205097 AATTTTTGGAAAATTTGAGGTCGTAAATGT
1 AATTTTTGGAAAATTTGAGGGCGTAAAGGT
*
14205127 AATTTTTGG-AAATTTGGGGGCG-AAAGGGT
1 AATTTTTGGAAAATTTGAGGGCGTAAA-GGT
14205156 AATT
1 AATT
14205160 ATTAGATGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 3 0.10
29 17 0.59
30 9 0.31
ACGTcount: A:0.32, C:0.03, G:0.29, T:0.37
Consensus pattern (30 bp):
AATTTTTGGAAAATTTGAGGGCGTAAAGGT
Found at i:14205185 original size:29 final size:28
Alignment explanation
Indices: 14205144--14205209 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 28
14205134 GGAAATTTGG
* *
14205144 GGGCGAAAGGGTAATTATTAGATGTTTAA
1 GGGCAAAATGGTAATTATTAGATGTTT-A
* *
14205173 GGGTAAAATGGTAATTTTTAGATGTTTA
1 GGGCAAAATGGTAATTATTAGATGTTTA
14205201 GGGCAAAAT
1 GGGCAAAAT
14205210 CATAATTTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 9 0.28
29 23 0.72
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (28 bp):
GGGCAAAATGGTAATTATTAGATGTTTA
Found at i:14205215 original size:28 final size:29
Alignment explanation
Indices: 14205155--14205218 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
14205145 GGCGAAAGGG
* * **
14205155 TAATTATTAGATGTTTAAGGGTAAAATGG
1 TAATTTTTAGATGTTTAAGGGCAAAATCA
14205184 TAATTTTTAGATGTTT-AGGGCAAAATCA
1 TAATTTTTAGATGTTTAAGGGCAAAATCA
14205212 TAATTTT
1 TAATTTT
14205219 GGAGAAGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.36, C:0.03, G:0.19, T:0.42
Consensus pattern (29 bp):
TAATTTTTAGATGTTTAAGGGCAAAATCA
Found at i:14205228 original size:29 final size:29
Alignment explanation
Indices: 14205196--14205330 Score: 130
Period size: 30 Copynumber: 4.6 Consensus size: 29
14205186 ATTTTTAGAT
*
14205196 GTTTAGGG-CAAAATCATAATTTTGGAGAA
1 GTTTAGGGTTAAAAT-ATAATTTTGGAGAA
* *
14205225 GTTTGGGGTTAAAATATAA-TTTAGAGAA
1 GTTTAGGGTTAAAATATAATTTTGGAGAA
* *
14205253 GTTTAAGGGTTAAAATATAATTTTGAAAAA
1 GTTT-AGGGTTAAAATATAATTTTGGAGAA
** * *
14205283 GTTTAAGGGTTAAAATGCAATTTTAGATAA
1 GTTT-AGGGTTAAAATATAATTTTGGAGAA
*
14205313 GTTTAGGGACTAAAATAT
1 GTTTAGGG-TTAAAATAT
14205331 GAGTTTTGAA
Statistics
Matches: 87, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
28 12 0.14
29 29 0.33
30 46 0.53
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (29 bp):
GTTTAGGGTTAAAATATAATTTTGGAGAA
Found at i:14205238 original size:58 final size:58
Alignment explanation
Indices: 14205167--14205342 Score: 162
Period size: 58 Copynumber: 3.0 Consensus size: 58
14205157 ATTATTAGAT
* *
14205167 GTTTAAGGG-TAAAATGGTAATTTTTAGATGTTTAGGG-CAAAATCATAATTTTGGAGAA
1 GTTTAAGGGTTAAAAT-GTAATTTTTAGATGTTTAGGGTCAAAAT-ATAATTTTGAAAAA
* * ** * *
14205225 GTTT-GGGGTTAAAATATAATTTAGAGAAGTTTAAGGGTTAAAATATAATTTTGAAAAA
1 GTTTAAGGGTTAAAATGTAATTTTTAGATGTTT-AGGGTCAAAATATAATTTTGAAAAA
* * *
14205283 GTTTAAGGGTTAAAATGCAA-TTTTAGATAAGTTTAGGGACTAAAATATGAGTTTTGAAAA
1 GTTTAAGGGTTAAAATGTAATTTTTAGAT--GTTTAGGGTC-AAAATAT-AATTTTGAAAA
14205343 GTTCAGGGAC
Statistics
Matches: 93, Mismatches: 17, Indels: 13
0.76 0.14 0.11
Matches are distributed among these distances:
57 16 0.17
58 35 0.38
59 21 0.23
60 11 0.12
61 10 0.11
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.36
Consensus pattern (58 bp):
GTTTAAGGGTTAAAATGTAATTTTTAGATGTTTAGGGTCAAAATATAATTTTGAAAAA
Found at i:14205287 original size:30 final size:29
Alignment explanation
Indices: 14205196--14205350 Score: 120
Period size: 30 Copynumber: 5.3 Consensus size: 29
14205186 ATTTTTAGAT
* * *
14205196 GTTTAGGG-CAAAATCATAATTTTGGAGAA
1 GTTTAGGGTTAAAAT-ATAATTTTGAAAAA
* * *
14205225 GTTTGGGGTTAAAATATAATTTAG-AGAA
1 GTTTAGGGTTAAAATATAATTTTGAAAAA
14205253 GTTTAAGGGTTAAAATATAATTTTGAAAAA
1 GTTT-AGGGTTAAAATATAATTTTGAAAAA
** *
14205283 GTTTAAGGGTTAAAATGCAATTTT-AGATAA
1 GTTT-AGGGTTAAAATATAATTTTGA-AAAA
* *
14205313 GTTTAGGGACTAAAATATGAGTTTTG-AAAA
1 GTTTAGGG-TTAAAATAT-AATTTTGAAAAA
*
14205343 GTTCAGGG
1 GTTTAGGG
14205351 ACTTACTGGG
Statistics
Matches: 104, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
28 8 0.08
29 38 0.37
30 53 0.51
31 5 0.05
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.34
Consensus pattern (29 bp):
GTTTAGGGTTAAAATATAATTTTGAAAAA
Found at i:14206221 original size:17 final size:17
Alignment explanation
Indices: 14206199--14206234 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14206189 CTGTTTGTTT
*
14206199 TTTTTTGTTTTTATATA
1 TTTTTTATTTTTATATA
*
14206216 TTTTTTATTTTTATTTA
1 TTTTTTATTTTTATATA
14206233 TT
1 TT
14206235 ATTGATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.81
Consensus pattern (17 bp):
TTTTTTATTTTTATATA
Found at i:14208573 original size:24 final size:24
Alignment explanation
Indices: 14208544--14208600 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
14208534 AATATTCCAG
*
14208544 TTAAACTTTGTTTATTTGTTTCAA
1 TTAAACTCTGTTTATTTGTTTCAA
*
14208568 TTAAACTCTGTTTATTTGTTTCAG
1 TTAAACTCTGTTTATTTGTTTCAA
*
14208592 TCAAACTCT
1 TTAAACTCT
14208601 TATTAGTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.25, C:0.14, G:0.09, T:0.53
Consensus pattern (24 bp):
TTAAACTCTGTTTATTTGTTTCAA
Found at i:14209950 original size:16 final size:18
Alignment explanation
Indices: 14209919--14209951 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14209909 TAGAATTGAA
14209919 ATATATATATGTGTTGTC
1 ATATATATATGTGTTGTC
14209937 ATATATA-ATG-GTTGT
1 ATATATATATGTGTTGT
14209952 TGTTGACATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 3 0.20
18 7 0.47
ACGTcount: A:0.30, C:0.03, G:0.18, T:0.48
Consensus pattern (18 bp):
ATATATATATGTGTTGTC
Found at i:14210037 original size:37 final size:37
Alignment explanation
Indices: 14209995--14210101 Score: 144
Period size: 37 Copynumber: 2.9 Consensus size: 37
14209985 GCTTACAAAT
*
14209995 TTTTCAGGCTTTGTACCTAGTAGGCTTCGTGCCGATG
1 TTTTCAGGCTTTGTGCCTAGTAGGCTTCGTGCCGATG
*
14210032 TTTTCAGGCTTTGTGCCTAGTAGGCTTCGTGCCGGTG
1 TTTTCAGGCTTTGTGCCTAGTAGGCTTCGTGCCGATG
* * * *
14210069 TATTC-GAGCTATATGCCTAGTAGGCTTTGTGCC
1 TTTTCAG-GCTTTGTGCCTAGTAGGCTTCGTGCC
14210102 ATGATCCAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
36 1 0.02
37 62 0.98
ACGTcount: A:0.13, C:0.21, G:0.28, T:0.37
Consensus pattern (37 bp):
TTTTCAGGCTTTGTGCCTAGTAGGCTTCGTGCCGATG
Found at i:14218750 original size:39 final size:39
Alignment explanation
Indices: 14218597--14218773 Score: 167
Period size: 39 Copynumber: 4.5 Consensus size: 39
14218587 ATTGAACCGA
* * *
14218597 CAGTGACACTGTAAACACTGCAATGATATACCGAATTGG
1 CAGTGACACTGTAAACACTGCAATGATATACTGAACTAG
* * * * *
14218636 CAAGTAACACTATAAGCACCGCAATGATATACTGAATTAG
1 C-AGTGACACTGTAAACACTGCAATGATATACTGAACTAG
* * * *
14218676 CAATGACACTGTATACACTGCAATGCTATATTGAACTAG
1 CAGTGACACTGTAAACACTGCAATGATATACTGAACTAG
* * **
14218715 CGGTGACACTGTAAACA-TCGCAATGCTATACTGAACCCG
1 CAGTGACACTGTAAACACT-GCAATGATATACTGAACTAG
*
14218754 TAGTGACACTGTAAAACACT
1 CAGTGACACTGT-AAACACT
14218774 ACCATATTGT
Statistics
Matches: 111, Mismatches: 23, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
38 1 0.01
39 71 0.64
40 38 0.34
41 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.24
Consensus pattern (39 bp):
CAGTGACACTGTAAACACTGCAATGATATACTGAACTAG
Found at i:14218761 original size:78 final size:79
Alignment explanation
Indices: 14218589--14218773 Score: 185
Period size: 79 Copynumber: 2.3 Consensus size: 79
14218579 GGAAATTTAT
* * *
14218589 TGAACC-GACAGTGACACTGTAAACACTGCAATGATATACCGAATTGGCAAGTAACACTATAAGC
1 TGAACCAG-CAGTGACACTGTAAACACTGCAATGATATACCGAACTAGCAAGTAACACTATAAAC
14218653 ACCGCAATGATATAC
65 ACCGCAATGATATAC
** * * * ** * * *
14218668 TGAATTAGCAATGACACTGTATACACTGCAATGCTATATTGAACTAGC-GGTGACACTGTAAACA
1 TGAACCAGCAGTGACACTGTAAACACTGCAATGATATACCGAACTAGCAAGTAACACTATAAACA
* *
14218732 TCGCAATGCTATAC
66 CCGCAATGATATAC
* *
14218746 TGAACCCGTAGTGACACTGTAAAACACT
1 TGAACCAGCAGTGACACTGT-AAACACT
14218774 ACCATATTGT
Statistics
Matches: 83, Mismatches: 21, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
78 39 0.47
79 43 0.52
80 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (79 bp):
TGAACCAGCAGTGACACTGTAAACACTGCAATGATATACCGAACTAGCAAGTAACACTATAAACA
CCGCAATGATATAC
Found at i:14225997 original size:18 final size:18
Alignment explanation
Indices: 14225939--14225988 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
14225929 TAAAAGATTT
14225939 AATTATTTAATTATATTA
1 AATTATTTAATTATATTA
* **
14225957 AAGTAAATAATTATATTA
1 AATTATTTAATTATATTA
14225975 AATTATTTAATTAT
1 AATTATTTAATTAT
14225989 GTTTAATTAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
AATTATTTAATTATATTA
Found at i:14226046 original size:18 final size:18
Alignment explanation
Indices: 14225964--14226127 Score: 70
Period size: 18 Copynumber: 8.8 Consensus size: 18
14225954 TTAAAGTAAA
*
14225964 TAATTATATTAAAT-TATT
1 TAATTAT-TTAATTATATT
14225982 TAATTATGTTTAATTAGGTATT
1 TAATTA--TTTAATTA--TATT
** * *
14226004 TAATTATAAACAGTATCAAT
1 TAATTATTTA-ATTAT-ATT
14226024 TAATTATTTAATTATATT
1 TAATTATTTAATTATATT
*
14226042 T-A--ATTTAA-AATATT
1 TAATTATTTAATTATATT
*** ** *
14226056 TTCGTAAATAATTATATA
1 TAATTATTTAATTATATT
14226074 TAATTATTTAATT-TAATT
1 TAATTATTTAATTAT-ATT
14226092 TAATTATTTAATTGAAAATATT
1 TAATTATTTAATT----ATATT
14226114 TAATTATTTAATTA
1 TAATTATTTAATTA
14226128 ATAAAAACAG
Statistics
Matches: 108, Mismatches: 21, Indels: 34
0.66 0.13 0.21
Matches are distributed among these distances:
14 6 0.06
15 6 0.06
17 6 0.06
18 37 0.34
19 10 0.09
20 13 0.12
21 3 0.03
22 26 0.24
23 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (18 bp):
TAATTATTTAATTATATT
Found at i:14226100 original size:8 final size:8
Alignment explanation
Indices: 14226064--14226127 Score: 53
Period size: 8 Copynumber: 7.8 Consensus size: 8
14226054 TTTTCGTAAA
14226064 TAATTATAT
1 TAATTAT-T
14226073 ATAATTATT
1 -TAATTATT
14226082 TAATTTAATT
1 TAA-TT-ATT
14226092 TAATTATT
1 TAATTATT
14226100 TAATTGA--
1 TAATT-ATT
*
14226107 -AAATATT
1 TAATTATT
14226114 TAATTATT
1 TAATTATT
14226122 TAATTA
1 TAATTA
14226128 ATAAAAACAG
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
5 1 0.02
6 3 0.07
8 23 0.50
9 6 0.13
10 13 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (8 bp):
TAATTATT
Found at i:14226205 original size:31 final size:33
Alignment explanation
Indices: 14226149--14226215 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
14226139 CCAAATATTT
14226149 AAGTAAAATGTTGTCACTAATATATATATTTTA
1 AAGTAAAATGTTGTCACTAATATATATATTTTA
14226182 AAGTAAAATGTTGTCACTAATATATAT-TTTTA
1 AAGTAAAATGTTGTCACTAATATATATATTTTA
14226214 AA
1 AA
14226216 TTTAAATCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 7 0.21
33 27 0.79
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (33 bp):
AAGTAAAATGTTGTCACTAATATATATATTTTA
Found at i:14227193 original size:66 final size:66
Alignment explanation
Indices: 14227087--14227244 Score: 280
Period size: 66 Copynumber: 2.4 Consensus size: 66
14227077 GCAAATTGCT
14227087 CAACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGATGAACTCCACCT
1 CAACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGATGAACTCCACCT
14227152 A
66 A
* *
14227153 CAACTTAAAGAGGAGGCTGCAGTGAGAGAAGCAGAGGCTCAAAAAAAGTATGATGAACTCCACCT
1 CAACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGATGAACTCCACCT
14227218 A
66 A
* *
14227219 CAACTTAAAGTGGAGGCAGCAGCGAG
1 CAACTTAAAGAGGAGGCTGCAGCGAG
14227245 GTAAGCGGTA
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 87 1.00
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.14
Consensus pattern (66 bp):
CAACTTAAAGAGGAGGCTGCAGCGAGAGAAGCAGAGGCTCAAAAAAAATATGATGAACTCCACCT
A
Found at i:14227283 original size:24 final size:21
Alignment explanation
Indices: 14227232--14227303 Score: 85
Period size: 21 Copynumber: 3.4 Consensus size: 21
14227222 CTTAAAGTGG
*
14227232 AGGCAGCAGCGAGGTAAGCGGTA
1 AGGCAGCAGCGAGGCAAGC-G-A
*
14227255 A--CAGCAGCGAGGCAAGCGG
1 AGGCAGCAGCGAGGCAAGCGA
14227274 AGGCAGCAGCGAGGCAAGCGA
1 AGGCAGCAGCGAGGCAAGCGA
*
14227295 AGGAAGCAG
1 AGGCAGCAG
14227304 AGGCTACAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
19 1 0.02
20 1 0.02
21 40 0.93
23 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.43, T:0.03
Consensus pattern (21 bp):
AGGCAGCAGCGAGGCAAGCGA
Found at i:14227531 original size:15 final size:15
Alignment explanation
Indices: 14227511--14227543 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
14227501 ATTTGAAGTT
14227511 ATTGGTTGGATTTGA
1 ATTGGTTGGATTTGA
14227526 ATTGGTTGGATTTGA
1 ATTGGTTGGATTTGA
14227541 ATT
1 ATT
14227544 TACAGGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.48
Consensus pattern (15 bp):
ATTGGTTGGATTTGA
Found at i:14234119 original size:36 final size:36
Alignment explanation
Indices: 14234072--14234141 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
14234062 TTATAATCTG
14234072 ACTATCAACAACATTCGAGTTAATCACATAAGCCTA
1 ACTATCAACAACATTCGAGTTAATCACATAAGCCTA
14234108 ACTATCAACAACATTCGAGTTAATCACATAAGCC
1 ACTATCAACAACATTCGAGTTAATCACATAAGCC
14234142 AAAAAGGCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.41, C:0.26, G:0.09, T:0.24
Consensus pattern (36 bp):
ACTATCAACAACATTCGAGTTAATCACATAAGCCTA
Found at i:14250624 original size:27 final size:28
Alignment explanation
Indices: 14250594--14250656 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 28
14250584 TATATAGATA
*
14250594 AATAATATATTTTTATAATTATATTA-T
1 AATAATATATTTTTATAATTATAATATT
*
14250621 AAT-A-AT-TTTTTATGATTATAATATT
1 AATAATATATTTTTATAATTATAATATT
*
14250646 ACTAATATATT
1 AATAATATATT
14250657 AAGTAATGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
24 15 0.52
25 5 0.17
26 2 0.07
27 5 0.17
28 2 0.07
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (28 bp):
AATAATATATTTTTATAATTATAATATT
Found at i:14255261 original size:22 final size:22
Alignment explanation
Indices: 14255235--14255309 Score: 91
Period size: 22 Copynumber: 3.5 Consensus size: 22
14255225 GGTTATTGGC
14255235 TGCTGGTTTTCCAAGAAGGTGT
1 TGCTGGTTTTCCAAGAAGGTGT
* *
14255257 TGCTGGTATTT-CAAGAAGATGC
1 TGCTGGT-TTTCCAAGAAGGTGT
*
14255279 TGCTGGTTTTCCAAG-AGGGGT
1 TGCTGGTTTTCCAAGAAGGTGT
*
14255300 TGTTGGTTTT
1 TGCTGGTTTT
14255310 GTGTTTTGTT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
21 15 0.33
22 27 0.60
23 3 0.07
ACGTcount: A:0.17, C:0.12, G:0.32, T:0.39
Consensus pattern (22 bp):
TGCTGGTTTTCCAAGAAGGTGT
Found at i:14258043 original size:13 final size:13
Alignment explanation
Indices: 14258025--14258062 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
14258015 TTTCTATCTA
14258025 TATTATATATTTT
1 TATTATATATTTT
*
14258038 TATTATTGTATTTT
1 TATTA-TATATTTT
14258052 TATTA-ATATTT
1 TATTATATATTT
14258063 CCTGAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 5 0.23
13 5 0.23
14 12 0.55
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (13 bp):
TATTATATATTTT
Found at i:14268157 original size:26 final size:25
Alignment explanation
Indices: 14268120--14268213 Score: 86
Period size: 26 Copynumber: 3.6 Consensus size: 25
14268110 ACACGTAATT
*
14268120 AAATAATTTAAAAAAATAATTGAATC
1 AAATAATCTAAAAAAA-AATTGAATC
*
14268146 AAATAATCTAAAAAAAAA-AGAA--
1 AAATAATCTAAAAAAAAATTGAATC
*
14268168 AAGGTCAATCTTAAAAAAAACACTTGAATC
1 AA-AT-AATC-TAAAAAAAA-A-TTGAATC
14268198 AAATAATCTAAAAAAA
1 AAATAATCTAAAAAAA
14268214 GAGAGAAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
22 2 0.04
23 1 0.02
24 7 0.13
25 11 0.20
26 16 0.29
27 8 0.15
28 7 0.13
29 1 0.02
30 2 0.04
ACGTcount: A:0.64, C:0.09, G:0.05, T:0.22
Consensus pattern (25 bp):
AAATAATCTAAAAAAAAATTGAATC
Found at i:14268470 original size:58 final size:59
Alignment explanation
Indices: 14268396--14268509 Score: 160
Period size: 58 Copynumber: 1.9 Consensus size: 59
14268386 TTTAGAGTTG
* *
14268396 GATTTTGGTTTCGAGTTTTTGAA-TTTGGGGATTTTAATTTAGGATTTT-TTATTTTGGA
1 GATTTTGGTTTAGAG-TTTTCAATTTTGGGGATTTTAATTTAGGATTTTGTTATTTTGGA
* * *
14268454 GATTTTGGTTTAGAGTTTTCAATTTTTGGGATTTTTATTTAGGGTTTTGTTATTTT
1 GATTTTGGTTTAGAGTTTTCAATTTTGGGGATTTTAATTTAGGATTTTGTTATTTT
14268510 TAAGAGATTA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
57 6 0.12
58 36 0.73
59 7 0.14
ACGTcount: A:0.18, C:0.02, G:0.23, T:0.58
Consensus pattern (59 bp):
GATTTTGGTTTAGAGTTTTCAATTTTGGGGATTTTAATTTAGGATTTTGTTATTTTGGA
Found at i:14268509 original size:29 final size:28
Alignment explanation
Indices: 14268418--14268509 Score: 85
Period size: 29 Copynumber: 3.2 Consensus size: 28
14268408 GAGTTTTTGA
* *
14268418 ATTTGGGGATTTTAATTTAGGATTTTTT
1 ATTTTGGGATTTTAATTTAGGGTTTTTT
** * **
14268446 ATTTTGGAGATTTTGGTTTAGAGTTTTCA
1 ATTTTGG-GATTTTAATTTAGGGTTTTTT
*
14268475 ATTTTTGGGATTTTTATTTAGGGTTTTGTT
1 A-TTTTGGGATTTTAATTTAGGGTTTT-TT
14268505 ATTTT
1 ATTTT
14268510 TAAGAGATTA
Statistics
Matches: 49, Mismatches: 12, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
28 6 0.12
29 36 0.73
30 7 0.14
ACGTcount: A:0.18, C:0.01, G:0.22, T:0.59
Consensus pattern (28 bp):
ATTTTGGGATTTTAATTTAGGGTTTTTT
Found at i:14273935 original size:9 final size:9
Alignment explanation
Indices: 14273916--14273956 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
14273906 CATTCTCCTT
*
14273916 TTCTTTTTC
1 TTCTCTTTC
*
14273925 TTCTCTCTC
1 TTCTCTTTC
14273934 TTCCTCTTTC
1 TT-CTCTTTC
14273944 TTCTCTTTC
1 TTCTCTTTC
14273953 TTCT
1 TTCT
14273957 GGTCATCTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 20 0.71
10 8 0.29
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (9 bp):
TTCTCTTTC
Found at i:14279408 original size:50 final size:50
Alignment explanation
Indices: 14279297--14279438 Score: 144
Period size: 50 Copynumber: 2.8 Consensus size: 50
14279287 AACTAATGGA
* * *
14279297 TTACTAAATGCATGACT-TGATTTAATGATGCAAACTTTAATTAACATGGGAG
1 TTACTTAATGCATGA-TATGATTT-ATGATGCAAA-TTTAACTAACATGGAAG
* * * * *
14279349 TTACATAATGCATGATAGGATTTATGATGCATATTTAACTAATATGTAAG
1 TTACTTAATGCATGATATGATTTATGATGCAAATTTAACTAACATGGAAG
* *
14279399 TTACTTAATGCATG-TCATTATTTATGATGCAAACTTAACT
1 TTACTTAATGCATGAT-ATGATTTATGATGCAAATTTAACT
14279439 GATCATGAGA
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
49 1 0.01
50 46 0.61
51 10 0.13
52 18 0.24
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (50 bp):
TTACTTAATGCATGATATGATTTATGATGCAAATTTAACTAACATGGAAG
Found at i:14283144 original size:16 final size:16
Alignment explanation
Indices: 14283123--14283155 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
14283113 TGATGATTTT
*
14283123 AATGTTAAAGGACTAA
1 AATGTTAAAGGAATAA
14283139 AATGTTAAAGGAATAA
1 AATGTTAAAGGAATAA
14283155 A
1 A
14283156 TTTGTAAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.18, T:0.24
Consensus pattern (16 bp):
AATGTTAAAGGAATAA
Found at i:14283592 original size:18 final size:16
Alignment explanation
Indices: 14283569--14283604 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
14283559 CTTAGTAAAT
14283569 ATTAAATTGAGGAATGAA
1 ATTAAATTGA--AATGAA
14283587 ATTAAATTGAAATGAA
1 ATTAAATTGAAATGAA
14283603 AT
1 AT
14283605 GGTATTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
18 10 0.56
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (16 bp):
ATTAAATTGAAATGAA
Found at i:14284225 original size:52 final size:52
Alignment explanation
Indices: 14284147--14284384 Score: 377
Period size: 52 Copynumber: 4.6 Consensus size: 52
14284137 AATGCAAAAG
*
14284147 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCATTTACGGATTATAA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAA
*
14284199 GGTCCGATGACTATGTCTCATCGTGAGTATATGAATCCTTTACGGATTATAA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAA
* * *
14284251 GGTCCGATGACTATGTGTCATTGTGAGTATATGAATCTTTTACGGATTATGA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAA
* * * * * *
14284303 GGTTCGATGACTATGTGTCATCATGAGCATATGATTCCTTTTCGGATTATGA
1 GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAA
14284355 GGTCCGATGACTATGTGTCATCGTGAGTAT
1 GGTCCGATGACTATGTGTCATCGTGAGTAT
14284385 CAAATGAGAA
Statistics
Matches: 170, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 170 1.00
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (52 bp):
GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAA
Found at i:14288242 original size:12 final size:12
Alignment explanation
Indices: 14288219--14288248 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
14288209 GAGATGAATG
14288219 TTTTGG-AGTGT
1 TTTTGGAAGTGT
14288230 TTTTGGAAGTGT
1 TTTTGGAAGTGT
14288242 TTTTGGA
1 TTTTGGA
14288249 TGCACGAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.33
12 12 0.67
ACGTcount: A:0.13, C:0.00, G:0.33, T:0.53
Consensus pattern (12 bp):
TTTTGGAAGTGT
Found at i:14306166 original size:3 final size:3
Alignment explanation
Indices: 14306158--14306218 Score: 50
Period size: 3 Copynumber: 20.3 Consensus size: 3
14306148 GTGGGCTTGG
* * * * * * * *
14306158 TTA TTA TTA TTG TTA TTG TTA TTG TTA TTG TTC TTA TTG TTG TTG TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14306206 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
14306219 GGGATGAAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.20, C:0.02, G:0.11, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:14306173 original size:6 final size:6
Alignment explanation
Indices: 14306157--14306218 Score: 61
Period size: 6 Copynumber: 9.8 Consensus size: 6
14306147 GGTGGGCTTG
* *
14306157 GTTATT ATTATT GTTATT GTTATT GTTATT GTTCTTATT GTTGTT GTTATT
1 GTTATT GTTATT GTTATT GTTATT GTTATT G---TTATT GTTATT GTTATT
* *
14306208 ATTATT ATTAT
1 GTTATT GTTAT
14306219 GGGATGAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
6 42 0.88
9 6 0.12
ACGTcount: A:0.19, C:0.02, G:0.13, T:0.66
Consensus pattern (6 bp):
GTTATT
Found at i:14306357 original size:3 final size:3
Alignment explanation
Indices: 14306349--14306390 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
14306339 TTTGAAATAC
14306349 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14306391 GGGATGAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:14306383 original size:172 final size:172
Alignment explanation
Indices: 14306203--14306519 Score: 582
Period size: 172 Copynumber: 1.8 Consensus size: 172
14306193 ATTGTTGTTG
*
14306203 TTATTATTATTATTATGGGATGAAAATCGAAGCAAGGAGAAAATTGTGGAATAGTTCCTATACTT
1 TTATTATTATTATTATGGGATGAAAATCAAAGCAAGGAGAAAATTGTGGAATAGTTCCTATACTT
* * *
14306268 TGAGGATTATTGCAAATCAAT-CCGCTAAGTTCGTGTAGTAAAGTAATTGATTTAGTTTCTATAT
66 TGACGATTACTGCAAATCAATCCCG-TAAGTTCGTGCAGTAAAGTAATTGATTTAGTTTCTATAT
14306332 GTAAATTTTTGAAATACTATTATTATTATTATTATTATTATTA
130 GTAAATTTTTGAAATACTATTATTATTATTATTATTATTATTA
14306375 TTATTATTATTATTATGGGATGAAAATCAAAGCAAGGAGAAAATTGTGGAATAGTTCCTATACTT
1 TTATTATTATTATTATGGGATGAAAATCAAAGCAAGGAGAAAATTGTGGAATAGTTCCTATACTT
14306440 TGACGATTACTGCAAATCAATCCCGTAAGTTCGTGCAGTAAAGTAATTGATTTAGTTTCTATATG
66 TGACGATTACTGCAAATCAATCCCGTAAGTTCGTGCAGTAAAGTAATTGATTTAGTTTCTATATG
14306505 TAAATTTTTGAAATA
131 TAAATTTTTGAAATA
14306520 ATTTAGGTAT
Statistics
Matches: 140, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
172 137 0.98
173 3 0.02
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.39
Consensus pattern (172 bp):
TTATTATTATTATTATGGGATGAAAATCAAAGCAAGGAGAAAATTGTGGAATAGTTCCTATACTT
TGACGATTACTGCAAATCAATCCCGTAAGTTCGTGCAGTAAAGTAATTGATTTAGTTTCTATATG
TAAATTTTTGAAATACTATTATTATTATTATTATTATTATTA
Found at i:14307119 original size:19 final size:19
Alignment explanation
Indices: 14307083--14307269 Score: 214
Period size: 19 Copynumber: 9.8 Consensus size: 19
14307073 CTCTGAAGTA
*
14307083 ATACTGGCTCGTAGGAGCG
1 ATACTGGCTCGTAAGAGCG
* * *
14307102 ATATTGGCTGGTGAGAGCG
1 ATACTGGCTCGTAAGAGCG
* **
14307121 GTACTGGCTCGTCGGAGCG
1 ATACTGGCTCGTAAGAGCG
* *
14307140 ATACTGGCTCGTCAGAGTG
1 ATACTGGCTCGTAAGAGCG
*
14307159 ATACTGGCTCGTAA-AGGTG
1 ATACTGGCTCGTAAGA-GCG
* *
14307178 ATAGTGGCTCGTGAGAGCG
1 ATACTGGCTCGTAAGAGCG
* *
14307197 ATACTAGCTTGTAAGAGCG
1 ATACTGGCTCGTAAGAGCG
14307216 ATACTGGCTCGTAAGAGCG
1 ATACTGGCTCGTAAGAGCG
* *
14307235 TTACTGACTCGTAAGAGCG
1 ATACTGGCTCGTAAGAGCG
14307254 ATACTGGCTCGTAAGA
1 ATACTGGCTCGTAAGA
14307270 ACTAAAAATT
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
18 1 0.01
19 138 0.99
20 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.24
Consensus pattern (19 bp):
ATACTGGCTCGTAAGAGCG
Found at i:14309721 original size:21 final size:21
Alignment explanation
Indices: 14309682--14309721 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14309672 ATTCGACAAG
*
14309682 TAAATTCATATAATGAATATT
1 TAAATTCATATAATCAATATT
14309703 TAAATT-ATATAAGTCAATA
1 TAAATTCATATAA-TCAATA
14309722 ATAATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (21 bp):
TAAATTCATATAATCAATATT
Found at i:14312400 original size:11 final size:11
Alignment explanation
Indices: 14312369--14312432 Score: 57
Period size: 11 Copynumber: 6.0 Consensus size: 11
14312359 TTATTTTTAA
*
14312369 ATATATATATT
1 ATATATTTATT
14312380 AATATATTTACTT
1 -ATATATTTA-TT
14312393 AT-TATTTATT
1 ATATATTTATT
14312403 ATATA-TTA--
1 ATATATTTATT
14312411 ATATATTTATT
1 ATATATTTATT
14312422 A-ATAGTTTATT
1 ATATA-TTTATT
14312433 TATTATTTTC
Statistics
Matches: 45, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
8 5 0.11
9 3 0.07
10 10 0.22
11 15 0.33
12 10 0.22
13 2 0.04
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (11 bp):
ATATATTTATT
Found at i:14312436 original size:19 final size:19
Alignment explanation
Indices: 14312394--14312436 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
14312384 TATTTACTTA
14312394 TTATTTATTATATATTAAT
1 TTATTTATTATATATTAAT
* *
14312413 ATATTTATTA-ATAGTTTAT
1 TTATTTATTATATA-TTAAT
14312432 TTATT
1 TTATT
14312437 ATTTTCTACG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TTATTTATTATATATTAAT
Found at i:14312438 original size:34 final size:30
Alignment explanation
Indices: 14312372--14312432 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
14312362 TTTTTAAATA
14312372 TATATATTAATATATTTACTTATTATTTAT
1 TATATATTAATATATTTACTTATTATTTAT
*
14312402 TATATATTAATATATTTA-TTAATAGTTTAT
1 TATATATTAATATATTTACTTATTA-TTTAT
14312432 T
1 T
14312433 TATTATTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 5 0.17
30 24 0.83
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (30 bp):
TATATATTAATATATTTACTTATTATTTAT
Found at i:14312712 original size:14 final size:15
Alignment explanation
Indices: 14312682--14312715 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
14312672 GGATTTTTAA
*
14312682 AAAAACAAGAAAGAT
1 AAAAACAACAAAGAT
14312697 AAAAACAACAAA-AT
1 AAAAACAACAAAGAT
14312711 AAAAA
1 AAAAA
14312716 ATAGATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.79, C:0.09, G:0.06, T:0.06
Consensus pattern (15 bp):
AAAAACAACAAAGAT
Found at i:14313690 original size:13 final size:13
Alignment explanation
Indices: 14313672--14313696 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14313662 TTATTTTTAT
14313672 TTTTGTATATTTG
1 TTTTGTATATTTG
14313685 TTTTGTATATTT
1 TTTTGTATATTT
14313697 ATTATTCATG
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:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (13 bp):
TTTTGTATATTTG
Found at i:14322453 original size:37 final size:37
Alignment explanation
Indices: 14322402--14322472 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
14322392 AAGCGGTCAT
* *
14322402 CTTCCTGATAAGATACAGTGAAGTGAACCAAATCTGC
1 CTTCCTGATAAGATACAGAGAAGTAAACCAAATCTGC
*
14322439 CTTCCTGATGAGATACAGAGAAGTAAACCAAATC
1 CTTCCTGATAAGATACAGAGAAGTAAACCAAATC
14322473 AATGAAGCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (37 bp):
CTTCCTGATAAGATACAGAGAAGTAAACCAAATCTGC
Found at i:14322555 original size:161 final size:161
Alignment explanation
Indices: 14322278--14322785 Score: 739
Period size: 161 Copynumber: 3.1 Consensus size: 161
14322268 AAATGGTCAT
* * * * *
14322278 CTTCTTGATGAGATACAAAGAAGTAAACCAAAAT-AATAAAGCGAAGCCCAATGTGAGCAAAACT
1 CTTCCTGATGAGATACAGAGAAGTAAACC-AAATCAATGAAGCAAAGCTCAATGTGAGCAAAACT
* * **
14322342 TCAAATCCCCACCTTCCTGATGAGATACAGAGAAGTGGGTCAAAAAAATAAAGCGGTCATCTTCC
65 TCAAACCCCCACCTTCTTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCC
* * *
14322407 TGATAAGATACAGTGAAGTGAACCAAATCTGC
130 TGATGAGATACAGAGAAGTGGACCAAATCTGC
*
14322439 CTTCCTGATGAGATACAGAGAAGTAAACCAAATCAATGAAGCAAAGCTTAATGTGAGCAAAACTT
1 CTTCCTGATGAGATACAGAGAAGTAAACCAAATCAATGAAGCAAAGCTCAATGTGAGCAAAACTT
**
14322504 CAAACCCCCGTCTTCTTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCT
66 CAAACCCCCACCTTCTTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCT
14322569 GATGAGATACAGAGAAGTGGACCAAATCTGC
131 GATGAGATACAGAGAAGTGGACCAAATCTGC
** ** **
14322600 CTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCAAAGCTCAATGTGAGTGAAACTT
1 CTTCCTGATGAGATACAGAGAAGTAAACCAAATCAATGAAGCAAAGCTCAATGTGAGCAAAACTT
* * * *
14322665 CAAAACCCCAACCTTCTTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGAGGTCATCTTCT
66 C-AAACCCCCACCTTCTTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCC
* *
14322730 TGATGAGATACAGAAAAGTGGACCAAATCCGC
130 TGATGAGATACAGAGAAGTGGACCAAATCTGC
*
14322762 CTTCCTGATGAGATGCAGAGAAGT
1 CTTCCTGATGAGATACAGAGAAGT
14322786 GGATTAAATC
Statistics
Matches: 314, Mismatches: 31, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
160 4 0.01
161 200 0.64
162 110 0.35
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.21
Consensus pattern (161 bp):
CTTCCTGATGAGATACAGAGAAGTAAACCAAATCAATGAAGCAAAGCTCAATGTGAGCAAAACTT
CAAACCCCCACCTTCTTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCT
GATGAGATACAGAGAAGTGGACCAAATCTGC
Found at i:14322821 original size:85 final size:85
Alignment explanation
Indices: 14322676--14322843 Score: 205
Period size: 85 Copynumber: 2.0 Consensus size: 85
14322666 AAAACCCCAA
* * * * *
14322676 CCTTCTTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGAGGTCATCTTCTTGATGAGATAC
1 CCTTCCTGATGAGATACAGAGAAGTGGATCAAAGCAATAAAGAGGTCATCTTCCTAATGAGATAC
*
14322741 AGAA-AAGTGGACCAAATCCG
66 A-AAGAAGTAGACCAAATCCG
* * * * *
14322761 CCTTCCTGATGAGATGCAGAGAAGTGGATTAAATCAATGAAA-TGTTCATCTTCCTAATGAGATA
1 CCTTCCTGATGAGATACAGAGAAGTGGATCAAAGCAAT-AAAGAGGTCATCTTCCTAATGAGATA
14322825 CAAAGAAGTAGACCAAATC
65 CAAAGAAGTAGACCAAATC
14322844 AATGAAGCAA
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
84 2 0.03
85 65 0.93
86 3 0.04
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (85 bp):
CCTTCCTGATGAGATACAGAGAAGTGGATCAAAGCAATAAAGAGGTCATCTTCCTAATGAGATAC
AAAGAAGTAGACCAAATCCG
Found at i:14322950 original size:209 final size:210
Alignment explanation
Indices: 14322600--14322994 Score: 612
Period size: 209 Copynumber: 1.9 Consensus size: 210
14322590 CCAAATCTGC
* * * ** *
14322600 CTTCCTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCAAAGCTCAATGTGAGTGAAACTT
1 CTTCCTAATGAGATACAAAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATGTGAGTCAAACTT
* *
14322665 CAAAACCCCAACCTTCTTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGAGGTCATCTTCT
66 CAAAACCCCAACCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGAGATCATCTTCT
** * * **
14322730 TGATGAGATACAGAAAAGTGGACCAAATCCGCCTTCCTGATGAGATGCAGAGAAGTGGATTAAAT
131 TGACAAGATACAGAAAAGTGGACCAAATCCACCTTCCTAATGAGATAAAGAGAAGTGGATTAAAT
14322795 CAATGAAATGTTCAT
196 CAATGAAATGTTCAT
*
14322810 CTTCCTAATGAGATACAAAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATGTGAGTCAAAGTT
1 CTTCCTAATGAGATACAAAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATGTGAGTCAAACTT
* * *
14322875 C-AAACCCCCATCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGATCATCTTCT
66 CAAAACCCCAACCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGAGATCATCTTCT
*
14322939 TGACAAGATACAGAGAAGTGGACCAAATCCACCTTCCTAATGAGATAAAGAGAAGT
131 TGACAAGATACAGAAAAGTGGACCAAATCCACCTTCCTAATGAGATAAAGAGAAGT
14322995 AAACCAAATC
Statistics
Matches: 166, Mismatches: 19, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
209 107 0.64
210 59 0.36
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.23
Consensus pattern (210 bp):
CTTCCTAATGAGATACAAAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATGTGAGTCAAACTT
CAAAACCCCAACCTTCCTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGAGATCATCTTCT
TGACAAGATACAGAAAAGTGGACCAAATCCACCTTCCTAATGAGATAAAGAGAAGTGGATTAAAT
CAATGAAATGTTCAT
Found at i:14323097 original size:37 final size:37
Alignment explanation
Indices: 14323047--14323117 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
14323037 AAACCCCCAT
* * **
14323047 CTTCCTGATGAGATACAGAGAAGTGGACCAAATCCAC
1 CTTCCTAATGAGATAAAGAGAAGTAAACCAAATCCAC
14323084 CTTCCTAATGAGATAAAGAGAAGTAAACCAAATC
1 CTTCCTAATGAGATAAAGAGAAGTAAACCAAATC
14323118 AATGAAGCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.20
Consensus pattern (37 bp):
CTTCCTAATGAGATAAAGAGAAGTAAACCAAATCCAC
Found at i:14323129 original size:113 final size:113
Alignment explanation
Indices: 14322944--14323238 Score: 482
Period size: 113 Copynumber: 2.6 Consensus size: 113
14322934 CTTCTTGACA
14322944 AGATACAGAGAAGTGGACCAAATCCACCTTCCTAATGAGATAAAGAGAAGTAAACCAAATCAATG
1 AGATACAGAGAAGTGGACCAAATCCACCTTCCTAATGAGATAAAGAGAAGTAAACCAAATCAATG
*
14323009 AAGCAAAGCTTAATGTGAGTGAAACTTCAAACCCCCATCTTCCTGATG
66 AAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTGATG
14323057 AGATACAGAGAAGTGGACCAAATCCACCTTCCTAATGAGATAAAGAGAAGTAAACCAAATCAATG
1 AGATACAGAGAAGTGGACCAAATCCACCTTCCTAATGAGATAAAGAGAAGTAAACCAAATCAATG
*
14323122 AAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCTTGATG
66 AAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTGATG
* ** * * * ** **
14323170 AGATACAGATAAGTGGACCAAATCTGCCTTCTTGATGAGATATAGAGAAGTGGATTAAATCAATG
1 AGATACAGAGAAGTGGACCAAATCCACCTTCCTAATGAGATAAAGAGAAGTAAACCAAATCAATG
14323235 AAGC
66 AAGC
14323239 GGTCATCTTT
Statistics
Matches: 170, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
113 170 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (113 bp):
AGATACAGAGAAGTGGACCAAATCCACCTTCCTAATGAGATAAAGAGAAGTAAACCAAATCAATG
AAGCAAAGCTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTGATG
Done.