Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold_44 ID=scaffold_44-JGI_221_v2.0
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: 48438
ACGTcount: A:0.15, C:0.12, G:0.10, T:0.15
Warning! 23481 characters in sequence are not A, C, G, or T
Found at i:315 original size:122 final size:122
Alignment explanation
Indices: 1--1834 Score: 2713
Period size: 122 Copynumber: 15.0 Consensus size: 122
* * *
1 TGAGGCTGCACTTAGGCTTTTTTA-AGTGCCCCTAAAATATAGGCAAC-ATCTTAGATGTCGGCT
1 TGAGGCTGCACTTAGGC-TTTTTAGAATGCCCCTAAAATATAGGCAACAACCAT-GATGTCGGCT
* * * *
64 TATAGATATATATGTATATCTTTATTAATAAAA-AGCCTAACTACCTTCGGTTTGTACAAAC
64 AATAAATATATATGTATATATTTATT-ATAAAATAGCCTATCTACC-TCGGTTTGT-CAAAC
* *
125 TGAGGCTGCACTTAGGTACTTTTT-GAATGCCCCTAAAATATAGGCAAC-ATCTTAGATGTCGGC
1 TGAGGCTGCACTTAGG--CTTTTTAGAATGCCCCTAAAATATAGGCAACAACCAT-GATGTCGGC
* *
188 AAATAAATATATATGTATATATTTATTATAAAATAGCCTAACTACCTCGGTTTGTCAAAC
63 TAATAAATATATATGTATATATTTATTATAAAATAGCCTATCTACCTCGGTTTGTCAAAC
248 TGAGGCTGCACTTAGGCTTTTTAGAATGCCCCTAAAATATAGGCAACAACCATGATGTCGGCTAA
1 TGAGGCTGCACTTAGGCTTTTTAGAATGCCCCTAAAATATAGGCAACAACCATGATGTCGGCTAA
313 TAAATATATATGTATATATTTATTATAAAATAGCCTATCTACCTCGGTTTGTCAAAC
66 TAAATATATATGTATATATTTATTATAAAATAGCCTATCTACCTCGGTTTGTCAAAC
* * *
370 TGAGGCTGCACTTAGGCATTTTAGAATGCCCCTAAAATATAGGCAAC-ATCTTAGATGTCGGCTA
1 TGAGGCTGCACTTAGGCTTTTTAGAATGCCCCTAAAATATAGGCAACAACCAT-GATGTCGGCTA
* *
434 ATAGATATATATGTATATATTTATTATAAAATAGCCTAACTACCTCGGTTTGTCAAAC
65 ATAAATATATATGTATATATTTATTATAAAATAGCCTATCTACCTCGGTTTGTCAAAC
* * * * *
492 TGGGGCTGCACTTAGGCATTTTAGAATGCCCCTAAAATATAGGCAACATCCATGATGTCGGTTTA
1 TGAGGCTGCACTTAGGCTTTTTAGAATGCCCCTAAAATATAGGCAACAACCATGATGTCGGCTAA
* *
557 TAAATATATATGTATATATTTATTATAAAAAAGCCTAACTACCTCGGTTTGTCAAAC
66 TAAATATATATGTATATATTTATTATAAAATAGCCTATCTACCTCGGTTTGTCAAAC
* * *
614 TGAGGCTGCATTTAGGCTTTTTAGAATGCCCCTAAAATATAGGCAAC-ATCTTAGATGTCGGCTA
1 TGAGGCTGCACTTAGGCTTTTTAGAATGCCCCTAAAATATAGGCAACAACCAT-GATGTCGGCTA
* *
678 ATAAATATATATGTATATATTTATTATGAAATAGCCTAACTACCTCGGTTTGTCAAAC
65 ATAAATATATATGTATATATTTATTATAAAATAGCCTATCTACCTCGGTTTGTCAAAC
* * *
736 TGAGGCTGCATTTAGGCTTTTTAGAATGCCCCTAAAATATAGGCAAC-ATCTTAGATGTCGGCTA
1 TGAGGCTGCACTTAGGCTTTTTAGAATGCCCCTAAAATATAGGCAACAACCAT-GATGTCGGCTA
*
800 ATAGATATATATGTATATATTTATTATAAAATAGCCTATCTACCTCGGTTTGTCAAAC
65 ATAAATATATATGTATATATTTATTATAAAATAGCCTATCTACCTCGGTTTGTCAAAC
* * * *
858 TGAGGCTGCACTTAGGCTTTTTTGAATGCCCCTAAAATATAGGCAAC-ATCTTAGATGTCGGCAA
1 TGAGGCTGCACTTAGGCTTTTTAGAATGCCCCTAAAATATAGGCAACAACCAT-GATGTCGGCTA
* *
922 ATAAATATATATATGTATATATTTATTATAAAATAGCCTAACTACCTCGGTTTGTCGAAC
65 AT-AA-ATATATATGTATATATTTATTATAAAATAGCCTATCTACCTCGGTTTGTCAAAC
982 TGAGGCTGCACTTAGGCTTTTTAGAATGCCCCTAAAATATAGGCAACAACCATGATGTCGGCTAA
1 TGAGGCTGCACTTAGGCTTTTTAGAATGCCCCTAAAATATAGGCAACAACCATGATGTCGGCTAA
1047 TAAATATATATGTATATATTTATTATAAAATAGCCTATCTACCTCGGTTTGTCAAAC
66 TAAATATATATGTATATATTTATTATAAAATAGCCTATCTACCTCGGTTTGTCAAAC
* * * * *
1104 TGAGGCTGCACTTAGGCTTTTTA-AGTGCCCCCAAAATATAGGCAACATCCATGATGTCGGTTTA
1 TGAGGCTGCACTTAGGCTTTTTAGAATGCCCCTAAAATATAGGCAACAACCATGATGTCGGCTAA
* *
1168 TAAATATATATGTATATATTTATTATAAAAAAGCCTAACTACCTCGGTTTGTCAAAC
66 TAAATATATATGTATATATTTATTATAAAATAGCCTATCTACCTCGGTTTGTCAAAC
* *
1225 TGAGGCTGCATTTAGGCTTTTTAGAATGCCCCTAAAATATAGGCAACATCCATGATGTCGGCTAA
1 TGAGGCTGCACTTAGGCTTTTTAGAATGCCCCTAAAATATAGGCAACAACCATGATGTCGGCTAA
* * *
1290 TAAATATATATGTATATATTTATTATGAAATCGCCTATCTACCTCGGTTTGACAAAC
66 TAAATATATATGTATATATTTATTATAAAATAGCCTATCTACCTCGGTTTGTCAAAC
* * * * * *
1347 TCAGGATGCACTTAGCCTATTTT-GAATGCCCCTAAAATTTAGGCAACATCCATGATGTTGGCTA
1 TGAGGCTGCACTTAGGCT-TTTTAGAATGCCCCTAAAATATAGGCAACAACCATGATGTCGGCTA
*
1411 ATAAATATATATGTATATATTTATTATAAAATAGCCTATCTACCTCGGTTTGACAAAC
65 ATAAATATATATGTATATATTTATTATAAAATAGCCTATCTACCTCGGTTTGTCAAAC
* * * * *
1469 TCAGGATGCACTTAGGCTTTTTAGAATGCCCCTAAAATTTAGGCAACATCCATGATGTCGGATAA
1 TGAGGCTGCACTTAGGCTTTTTAGAATGCCCCTAAAATATAGGCAACAACCATGATGTCGGCTAA
*
1534 TAAATATATATGTATATATTTATTATAAAATAGCTTATCTACCTCGGTTTGTCAAAC
66 TAAATATATATGTATATATTTATTATAAAATAGCCTATCTACCTCGGTTTGTCAAAC
* * * *
1591 TGAGGCTGCACTTAGGCATTTCAGAATGCCCCTAAAATATAGGCAACATCCAAGATGTCGGCTAA
1 TGAGGCTGCACTTAGGCTTTTTAGAATGCCCCTAAAATATAGGCAACAACCATGATGTCGGCTAA
*
1656 TAAATATATATGTATATATTTATTAT-AAATAGCTTATCTACCTCGGTTTGTCAAAC
66 TAAATATATATGTATATATTTATTATAAAATAGCCTATCTACCTCGGTTTGTCAAAC
* * * ** * *
1712 TGTGGATGCACTTAGCCTATTTT-GAATGCCCCTAAAATATAGGCAACATTCAAGATGTCGGCTC
1 TGAGGCTGCACTTAGGCT-TTTTAGAATGCCCCTAAAATATAGGCAACAACCATGATGTCGGCTA
* ** * *
1776 ATATATATATATGTATATCGTTATTATGAAATAGCCTATCTACCTCGGTTTGACAAAC
65 ATAAATATATATGTATATATTTATTATAAAATAGCCTATCTACCTCGGTTTGTCAAAC
1834 T
1 T
1835 CAATAGCCTA
Statistics
Matches: 1597, Mismatches: 96, Indels: 36
0.92 0.06 0.02
Matches are distributed among these distances:
121 235 0.15
122 1107 0.69
123 33 0.02
124 141 0.09
125 80 0.05
126 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.34
Consensus pattern (122 bp):
TGAGGCTGCACTTAGGCTTTTTAGAATGCCCCTAAAATATAGGCAACAACCATGATGTCGGCTAA
TAAATATATATGTATATATTTATTATAAAATAGCCTATCTACCTCGGTTTGTCAAAC
Found at i:2111 original size:107 final size:111
Alignment explanation
Indices: 1858--2163 Score: 304
Period size: 115 Copynumber: 2.7 Consensus size: 111
1848 AATATATATG
** *
1858 TATATATATATTACGAAATAGCCTATCTACCTCGGTTTGACAAACTCAGGCTGCACTTAGGCTGT
1 TATATA-ATATTATTAAATAGCCTATCTACCTCGGTTTGACAAACTCAGGCTGCAC-TAGGCTAT
* * * * * * * *
1923 TTGGAATTCCCCTTGAATATAGGTGACATCTTAGATGTCGGCTTATATACA
64 CTAGAATGCCTC-TGAATAAAGGAGACA-CTTAGACGACGGCTTATATA-A
1974 TATATAATATTATTAAATAGCCTATCTACCTCGGTTTGACAAACTCAGGCTGCACATAGGCTATC
1 TATATAATATTATTAAATAGCCTATCTACCTCGGTTTGACAAACTCAGGCTGCAC-TAGGCTATC
2039 TAGAATGCCTCTGAATAAAGGCAG-CA-TTA-ACGAC-GCTTGAT-T-A
65 TAGAATGCCTCTGAATAAAGG-AGACACTTAGACGACGGCTT-ATATAA
* * * *
2082 TATATGCATA-T-TTAAATAGCCTATCTACCTTGGTTTGACAAACTCGGGCTGCACTGAGGCTTT
1 TATAT-AATATTATTAAATAGCCTATCTACCTCGGTTTGACAAACTCAGGCTGCACT-AGGCTAT
* *
2145 GTAGAATGCCCTTTGAATA
64 CTAGAATG-CCTCTGAATA
2164 TTGGCAACAT
Statistics
Matches: 167, Mismatches: 18, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
106 1 0.01
107 54 0.32
108 16 0.10
109 3 0.02
110 5 0.03
111 5 0.03
112 3 0.02
114 11 0.07
115 63 0.38
116 6 0.04
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (111 bp):
TATATAATATTATTAAATAGCCTATCTACCTCGGTTTGACAAACTCAGGCTGCACTAGGCTATCT
AGAATGCCTCTGAATAAAGGAGACACTTAGACGACGGCTTATATAA
Found at i:2496 original size:39 final size:39
Alignment explanation
Indices: 2434--2518 Score: 111
Period size: 39 Copynumber: 2.2 Consensus size: 39
2424 ATTGGATGCG
*
2434 GCGTTGCCAAATTTCCTGCAAAATCCCTAATTAAACGC-
1 GCGTTGCCAAATTTACTGCAAAATCCCTAATTAAACGCT
* *
2472 GACGTTGCCAAATTTACT-CGAAAATGCGTAATTAAACGCT
1 G-CGTTGCCAAATTTACTGC-AAAATCCCTAATTAAACGCT
2512 GCGTTGC
1 GCGTTGC
2519 ATAATCTACG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 2 0.05
39 38 0.93
40 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (39 bp):
GCGTTGCCAAATTTACTGCAAAATCCCTAATTAAACGCT
Found at i:2573 original size:195 final size:196
Alignment explanation
Indices: 2262--2653 Score: 707
Period size: 195 Copynumber: 2.0 Consensus size: 196
2252 CGGGGGAATG
* * **
2262 CCCTAATTTAAGCGCGGCGTTGCCAAATTTACCGGAAAATGCGTGCTTAAACGCTGCGTTGCATA
1 CCCTAATTTAAACGCGACGTTGCCAAATTTACCGGAAAATGCGTAATTAAACGCTGCGTTGCATA
*
2327 ATCTACGCTTAAGAACTGGAAATAAACCCCCGATTACCGAATTTCGCGCACAAGTCCTAACGAGA
66 ATCTACGCTTAAGAACTGGAAATAAACCCCCGATTACCGAATTTAGCGCACAAGTCCTAACGAGA
2392 GGATCCTCGACGGGAGCCCGGGGAGATCGCGGATTGGATGCGGCGTTGCCAAATTTCCTGCAAAA
131 GGATCCTCGACGGGAGCCCGGGGAGATCGCGGATTGGATGCGGCGTTGCCAAATTTCCTGCAAAA
2457 T
196 T
2458 CCCTAA-TTAAACGCGACGTTGCCAAATTTACTC-GAAAATGCGTAATTAAACGCTGCGTTGCAT
1 CCCTAATTTAAACGCGACGTTGCCAAATTTAC-CGGAAAATGCGTAATTAAACGCTGCGTTGCAT
2521 AATCTACGCTTAAGAACTGGAAATAAACCCCCGATTACCGAATTTAGCGCACAAGTCCTAACGAG
65 AATCTACGCTTAAGAACTGGAAATAAACCCCCGATTACCGAATTTAGCGCACAAGTCCTAACGAG
*
2586 AGGATCCTCGACGGGAGCCCGGGGAGATCGCTGATTGGATGCGGCGTTGCCAAATTTCCTGCAAA
130 AGGATCCTCGACGGGAGCCCGGGGAGATCGCGGATTGGATGCGGCGTTGCCAAATTTCCTGCAAA
2651 AT
195 AT
2653 C
1 C
2654 GCTGATAAAA
Statistics
Matches: 189, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
195 182 0.96
196 7 0.04
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (196 bp):
CCCTAATTTAAACGCGACGTTGCCAAATTTACCGGAAAATGCGTAATTAAACGCTGCGTTGCATA
ATCTACGCTTAAGAACTGGAAATAAACCCCCGATTACCGAATTTAGCGCACAAGTCCTAACGAGA
GGATCCTCGACGGGAGCCCGGGGAGATCGCGGATTGGATGCGGCGTTGCCAAATTTCCTGCAAAA
T
Found at i:2702 original size:195 final size:195
Alignment explanation
Indices: 2274--2703 Score: 661
Period size: 195 Copynumber: 2.2 Consensus size: 195
2264 CTAATTTAAG
* * * **
2274 CGCGGCGTTGCCAAATTTAC-CGGAAAATGCGTGCTTAAACGCTGCGTTGCATAATCTACGCTTA
1 CGCGACGTTGCCAAATCTACGC-GAAAATACGTAATTAAACGCTGCGTTGCATAATCTACGCTTA
*
2338 AGAACTGGAAATAAACCCCCGATTACCGAATTTCGCGCACAAGTCCTAACGAGAGGATCCTCGAC
65 AGAACTGGAAATAAACCCCCGATTACCGAATTTAGCGCACAAGTCCTAACGAGAGGATCCTCGAC
*
2403 GGGAGCCCGGGGAGATCGCGGATTGGATGCGGCGTTGCCAAATTTCCTGCAAAATCCCTAATTAA
130 GGGAGCCCGGGGAGATCGCGGATTGGATGCGGCGTTGCCAAATTTCCTGCAAAATCCCTAATAAA
2468 A
195 A
* * *
2469 CGCGACGTTGCCAAATTTACTCGAAAATGCGTAATTAAACGCTGCGTTGCATAATCTACGCTTAA
1 CGCGACGTTGCCAAATCTACGCGAAAATACGTAATTAAACGCTGCGTTGCATAATCTACGCTTAA
2534 GAACTGGAAATAAACCCCCGATTACCGAATTTAGCGCACAAGTCCTAACGAGAGGATCCTCGACG
66 GAACTGGAAATAAACCCCCGATTACCGAATTTAGCGCACAAGTCCTAACGAGAGGATCCTCGACG
* * *
2599 GGAGCCCGGGGAGATCGCTGATTGGATGCGGCGTTGCCAAATTTCCTGCAAAATCGCTGATAAAA
131 GGAGCCCGGGGAGATCGCGGATTGGATGCGGCGTTGCCAAATTTCCTGCAAAATCCCTAATAAAA
* *
2664 CGCCG-CGTTG-CATTATCTACGCTAAAATAC-TGAATTAAAC
1 CG-CGACGTTGCCA-AATCTACGCGAAAATACGT-AATTAAAC
2704 TCCCGATTAC
Statistics
Matches: 218, Mismatches: 13, Indels: 8
0.91 0.05 0.03
Matches are distributed among these distances:
194 3 0.01
195 212 0.97
196 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (195 bp):
CGCGACGTTGCCAAATCTACGCGAAAATACGTAATTAAACGCTGCGTTGCATAATCTACGCTTAA
GAACTGGAAATAAACCCCCGATTACCGAATTTAGCGCACAAGTCCTAACGAGAGGATCCTCGACG
GGAGCCCGGGGAGATCGCGGATTGGATGCGGCGTTGCCAAATTTCCTGCAAAATCCCTAATAAAA
Found at i:2857 original size:39 final size:39
Alignment explanation
Indices: 2771--2858 Score: 106
Period size: 39 Copynumber: 2.3 Consensus size: 39
2761 GCGAACAGTC
* *
2771 CGCGCCGTTGCCAAATTTCCGGAAAAATCGCTAAGTAAG
1 CGCGGCGTTGCCAAATTTCCGGAAAAATCGCTAAGTAAA
* * *
2810 CGCGGCGTTGCCAAATTTCGGGGAAAAT-GCGTAATTAAA
1 CGCGGCGTTGCCAAATTTCCGGAAAAATCGC-TAAGTAAA
*
2849 CGCTGCGTTG
1 CGCGGCGTTG
2859 TTGCAGAGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 2 0.05
39 40 0.95
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
CGCGGCGTTGCCAAATTTCCGGAAAAATCGCTAAGTAAA
Found at i:2973 original size:342 final size:345
Alignment explanation
Indices: 2275--3104 Score: 945
Period size: 342 Copynumber: 2.4 Consensus size: 345
2265 TAATTTAAGC
*
2275 GCGGCGTTGCCAAATTTACC-GGAAAAT-GCGTGCTTAAACGCTGCGTTGCATAATCTACGCTTA
1 GCGGCGTTGCCAAATTT-CCTGGAAAATCGC-TGATTAAACGCTGCGTTGCATAATCTACGCTTA
* * * *
2338 AGAACTGGAAATAAACCCCCGATTACCGAATTTCGCGCACAAGTCCTAACGAGAGGATCCTCGAC
64 AAAACT-GAAATAAACTCCCGATTACCGAATTTCGCGCACACGTCCTAACGAGAGGAGCCTCGAC
* * * * * *
2403 GGGAGC-CCGGGGAGATCGCGGATTGGATGCGGCGTTGCCAAATTTCCTGCAAAATCCCTAATTA
128 GGG-GCTCC-GCGAGA-C-C-GA-TGGACGCGCCGTTGCCAAATTTCCGGAAAAATCCCTAAGTA
* * *
2467 AACGCGACGTTGCCAAATTTACTCGAAAATGCGTAATTAAACGCTGCGTTGCATAATCTACGCTT
187 AACGCGACGTTGCCAAATTTACGCGAAAATGCGTAATTAAACGCTGCGTTGCAGAATATACGCTT
*** *
2532 AAGAACTGGAAATAAACCCCCGATTACCGAATTTAGCGCACAAGTCCTAACGAGAGGATCCTCGA
252 AAGAACCCCAAATAAAACCCCGATTACCGAATTTAGCGCACAAGTCCTAACGAGAGGATCCTCGA
* *
2597 CGGGAGCCCGGGGAGATCGCTGATTGGAT
317 AGGGAGCCCGGGGAGATCGCTGATCGGAT
* * * *
2626 GCGGCGTTGCCAAATTTCCTGCAAAATCGCTGATAAAACGCCGCGTTGCATTATCTACGC-TAAA
1 GCGGCGTTGCCAAATTTCCTGGAAAATCGCTGATTAAACGCTGCGTTGCATAATCTACGCTTAAA
* *
2690 ATACTGAATTAAACTCCCGATTACCGAATTTCGCGCACACGTCCTAACGAGTGGAGCCTCGACGG
66 A-ACTGAAATAAACTCCCGATTACCGAATTTCGCGCACACGTCCTAACGAGAGGAGCCTCGACGG
** * * *
2755 GGCTCCGCGA-A-C-A-GTCCGCGCCGTTGCCAAATTTCCGGAAAAATCGCTAAGTAAGCGCGGC
130 GGCTCCGCGAGACCGATGGACGCGCCGTTGCCAAATTTCCGGAAAAATCCCTAAGTAAACGCGAC
* * **
2816 GTTGCCAAATTT-CGGGGAAAATGCGTAATTAAACGCTGCGTTGTTGCAGAGTAT-C-CTTTGGA
195 GTTGCCAAATTTAC-GCGAAAATGCGTAATTAAACGCTGC---GTTGCAGAATATACGCTTAAGA
* * *
2878 ACCCCAAA-AGAAACCCCGATTACCGAGTTTCGCGCACAAGTCCTAACGGGAGGATCCTCGAAGG
256 ACCCCAAATA-AAACCCCGATTACCGAATTTAGCGCACAAGTCCTAACGAGAGGATCCTCGAAGG
*
2942 GA-CTCCGGGGATG-TCGGC-GATCGGGT
320 GAGC-CCGGGGA-GATC-GCTGATCGGAT
** * * *
2968 GCGGCGTTGCCAAATTTCCTGGAAAATCAATAATTAAACGCTGCCTAGCATAATCTACGCTTAAA
1 GCGGCGTTGCCAAATTTCCTGGAAAATCGCTGATTAAACGCTGCGTTGCATAATCTACGCTTAAA
* * *
3033 AACTGACAAAAAACGT-CCGATTACCGAATTTCGCGCACGCGTCCTAACGAGAGGAGCCTCGAGG
66 AACTGA-AATAAAC-TCCCGATTACCGAATTTCGCGCACACGTCCTAACGAGAGGAGCCTCGACG
3097 GGGCTCCG
129 GGGCTCCG
3105 GGGATATCGG
Statistics
Matches: 411, Mismatches: 53, Indels: 38
0.82 0.11 0.08
Matches are distributed among these distances:
340 1 0.00
341 75 0.18
342 132 0.32
343 68 0.17
344 10 0.02
345 1 0.00
348 1 0.00
349 5 0.01
350 64 0.16
351 52 0.13
352 2 0.00
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.21
Consensus pattern (345 bp):
GCGGCGTTGCCAAATTTCCTGGAAAATCGCTGATTAAACGCTGCGTTGCATAATCTACGCTTAAA
AACTGAAATAAACTCCCGATTACCGAATTTCGCGCACACGTCCTAACGAGAGGAGCCTCGACGGG
GCTCCGCGAGACCGATGGACGCGCCGTTGCCAAATTTCCGGAAAAATCCCTAAGTAAACGCGACG
TTGCCAAATTTACGCGAAAATGCGTAATTAAACGCTGCGTTGCAGAATATACGCTTAAGAACCCC
AAATAAAACCCCGATTACCGAATTTAGCGCACAAGTCCTAACGAGAGGATCCTCGAAGGGAGCCC
GGGGAGATCGCTGATCGGAT
Found at i:3106 original size:156 final size:156
Alignment explanation
Indices: 2888--3248 Score: 537
Period size: 156 Copynumber: 2.3 Consensus size: 156
2878 ACCCCAAAAG
* * *
2888 AAACC-CCGATTACCGAGTTTCGCGCACAAGTCCTAACGGGAGGATCCTCGAAGGGACTCCGGGG
1 AAACCTCCGATTACCGAATTTCGCGCACGAGTCCTAACGAGAGGATCCTCGAAGGGACTCCGGGG
* *
2952 ATGTCGGCGATCGGGTGCGGCGTTGCCAAATTTCCTGGAAAATCAATAATTAAACGCTG-CCTAG
66 ATATCGGCGATCGGGTGCGGCGTTGCCAAATTTCCTGGAAAATCAATAATTAAACGC-GACCTAC
3016 CATAATCTACGCTTAAAAACTGACAAA
130 CATAATCTACGCTTAAAAACTGACAAA
* * * * *
3043 AAACGTCCGATTACCGAATTTCGCGCACGCGTCCTAACGAGAGGAGCCTCGAGGGGGCTCCGGGG
1 AAACCTCCGATTACCGAATTTCGCGCACGAGTCCTAACGAGAGGATCCTCGAAGGGACTCCGGGG
* ** * *
3108 ATATCGGCGATCTGGTGCGGCGTTGCCAAATTTCCTGGAAAATCGTTAATTAAACGCGACGTTCC
66 ATATCGGCGATCGGGTGCGGCGTTGCCAAATTTCCTGGAAAATCAATAATTAAACGCGACCTACC
* *
3173 ATCATCTGCGCTTAAAAACTGACAAA
131 ATAATCTACGCTTAAAAACTGACAAA
*
3199 AAACCTCCGATTACCGAATTTCGCGCACGAGTCCTACCGAGAGGATCCTC
1 AAACCTCCGATTACCGAATTTCGCGCACGAGTCCTAACGAGAGGATCCTC
3249 CCGCAGACTC
Statistics
Matches: 183, Mismatches: 21, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
155 5 0.03
156 178 0.97
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.21
Consensus pattern (156 bp):
AAACCTCCGATTACCGAATTTCGCGCACGAGTCCTAACGAGAGGATCCTCGAAGGGACTCCGGGG
ATATCGGCGATCGGGTGCGGCGTTGCCAAATTTCCTGGAAAATCAATAATTAAACGCGACCTACC
ATAATCTACGCTTAAAAACTGACAAA
Found at i:3580 original size:1 final size:1
Alignment explanation
Indices: 3574--3600 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
3564 ATAATACCAC
3574 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
3601 GAGTCCACGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:4566 original size:16 final size:15
Alignment explanation
Indices: 4520--4586 Score: 68
Period size: 15 Copynumber: 4.5 Consensus size: 15
4510 TACGGAGGGT
*
4520 AAAAAATAAAAA-TA
1 AAAAAAAAAAAATTA
4534 AAAAAACGAAAAAA--A
1 AAAAAA--AAAAAATTA
*
4549 AAAAAAAAAAATTTA
1 AAAAAAAAAAAATTA
*
4564 AAAATAAAAAAATTA
1 AAAAAAAAAAAATTA
4579 AAAAAAAA
1 AAAAAAAA
4587 TCCAACTTTC
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
13 5 0.11
14 6 0.14
15 28 0.64
16 5 0.11
ACGTcount: A:0.85, C:0.01, G:0.01, T:0.12
Consensus pattern (15 bp):
AAAAAAAAAAAATTA
Found at i:4566 original size:27 final size:27
Alignment explanation
Indices: 4520--4587 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
4510 TACGGAGGGT
* **
4520 AAAAAATAAAAATAAAAAAACGAAAAAA
1 AAAAAAAAAAAATTTAAAAA-GAAAAAA
*
4548 AAAAAAAAAAAATTTAAAAATAAAAAA
1 AAAAAAAAAAAATTTAAAAAGAAAAAA
**
4575 ATTAAAAAAAAAT
1 AAAAAAAAAAAAT
4588 CCAACTTTCG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 17 0.50
28 17 0.50
ACGTcount: A:0.84, C:0.01, G:0.01, T:0.13
Consensus pattern (27 bp):
AAAAAAAAAAAATTTAAAAAGAAAAAA
Found at i:5019 original size:185 final size:185
Alignment explanation
Indices: 4697--5082 Score: 515
Period size: 185 Copynumber: 2.1 Consensus size: 185
4687 AATAAATATC
* *
4697 GACCGATTGGAACCGTTTCCAAGAGGCGAAAACTATTTTTGAGAATGATTTTTTTATCTGAACTC
1 GACCG-TTGAAACCGTTTCCAAGAAGCGAAAACTATTTTTGAGAATGATTTTTTTATCTGAACTC
* * * * *
4762 CAAGAAATCCCGACTTTTGAGCTCCCGTTCGGAACTAAAACTCTAATAACTTTCGCAATAATCCT
65 CAAGAAATCCCGACTTTTAAGCGCCCGATCGAAACTAAAACTCTAATAACTTTCGAAATAATCCT
* * *
4827 TCCTTAAGTGGCAGAGCAGTTTCTCTAACTACTACTAACTTTGAAATATACTTCTT
130 ACCTTAAGTGGCAGAGCAGTTTCTCTAACTACTACTAACATTGAAATATACTTATT
*
4883 GACCGTTGAAACCGTTTCCGAA-AAGC-AACAACTATTTTTGAGAATTATTTTTTTATCTGAACT
1 GACCGTTGAAACCGTTTCC-AAGAAGCGAA-AACTATTTTTGAGAATGATTTTTTTATCTGAACT
* * * * * * *
4946 CCACGAAATCCCGACTTTTAAGCGCCTGATCGAAACTGAAAGTGTAATAATTTTTGAAATAATCC
64 CCAAGAAATCCCGACTTTTAAGCGCCCGATCGAAACTAAAACTCTAATAACTTTCGAAATAATCC
* * * * * *
5011 TACCTTAAGTGGCAGAGCGGTTTCTTTAGCTAGTGCTAACATTGAAATATGCTTATT
129 TACCTTAAGTGGCAGAGCAGTTTCTCTAACTACTACTAACATTGAAATATACTTATT
5068 GACCGTTGAAACCGT
1 GACCGTTGAAACCGT
5083 ACTCCTTCGT
Statistics
Matches: 174, Mismatches: 24, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
184 2 0.01
185 165 0.95
186 7 0.04
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (185 bp):
GACCGTTGAAACCGTTTCCAAGAAGCGAAAACTATTTTTGAGAATGATTTTTTTATCTGAACTCC
AAGAAATCCCGACTTTTAAGCGCCCGATCGAAACTAAAACTCTAATAACTTTCGAAATAATCCTA
CCTTAAGTGGCAGAGCAGTTTCTCTAACTACTACTAACATTGAAATATACTTATT
Found at i:5669 original size:186 final size:186
Alignment explanation
Indices: 5412--6041 Score: 898
Period size: 186 Copynumber: 3.4 Consensus size: 186
5402 AAGTAGATAA
* * *
5412 AAATGATGGGAGATGGCTGAGAAATTTTTTATTGCTGGATCAGTTTCAGGGAGGTCTTGAAATTT
1 AAATGATGGGAGACGGCTCAGAATTTTTTTATTGCTGGATCAGTTTCAGGGAGGTCTTGAAATTT
5477 TACGCATTTCGATGAATCGAGATTTAATATCACACCTTTTCTGCCTCTGGAGAGAAATGAGAGTT
66 TACGCATTTCGATGAATCGAGATTTAATATCACACCTTTTCTGCCTCTGGAGAGAAATGAGAGTT
5542 GTTTTAAAGCTTAATCCAGGTAATTTAGGATTGTTGAAGTCAGAGGGAGCTCACAC
131 GTTTTAAAGCTTAATCCAGGTAATTTAGGATTGTTGAAGTCAGAGGGAGCTCACAC
*
5598 AAATGATGGGAGACGGCTCCGAATTTTTTTATTGCTGGATCAGTTTCAGGGAGGTCTTGAAATTT
1 AAATGATGGGAGACGGCTCAGAATTTTTTTATTGCTGGATCAGTTTCAGGGAGGTCTTGAAATTT
5663 TACGCATTTCGATGAATCGAGATTTAATATCACACCTTTTCTGCCTCTGGAGAGAAATGAGAGTT
66 TACGCATTTCGATGAATCGAGATTTAATATCACACCTTTTCTGCCTCTGGAGAGAAATGAGAGTT
5728 GTTTTAAAGCTTAATCCAGGTAATTTAGGATTGTTGAAGTCAGAGGGAGCTCACAC
131 GTTTTAAAGCTTAATCCAGGTAATTTAGGATTGTTGAAGTCAGAGGGAGCTCACAC
* * * * *
5784 AAATGATGGGAGACGGCTCAGAATTTTTTTATTACTGGAACACTATCGTCA-GGA-GT-TT-CAG
1 AAATGATGGGAGACGGCTCAGAATTTTTTTATTGCTGGATCAGT-T--TCAGGGAGGTCTTGAAA
*** * * *** * * * *
5845 TTTTTTTCATTTTTC-A-GATTTTGCTTTTTAAAATGACACCTTTTCGGTCTCTGGAGAGAAATG
63 TTTTACGCA--TTTCGATGA-ATCGAGATTTAATATCACACCTTTTCTGCCTCTGGAGAGAAATG
* * * *
5908 AGAGATGTTTTAAAGCTTAATCTATGTAATTTAAGG-TAAG-TGAAGTCAGAGGGAGCTCACAC
125 AGAGTTGTTTTAAAGCTTAATCCAGGTAATTT-AGGAT-TGTTGAAGTCAGAGGGAGCTCACAC
*
5970 AAATGATGGGAGACGGCTCCGAATTTTTTTATTGCTGGATCAGTTTCAGGGAGGTCTTGAAATTT
1 AAATGATGGGAGACGGCTCAGAATTTTTTTATTGCTGGATCAGTTTCAGGGAGGTCTTGAAATTT
6035 TACGCAT
66 TACGCAT
6042 NNNNNNNNNN
Statistics
Matches: 397, Mismatches: 35, Indels: 25
0.87 0.08 0.05
Matches are distributed among these distances:
183 3 0.01
184 3 0.01
185 13 0.03
186 354 0.89
187 18 0.05
188 3 0.01
189 3 0.01
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (186 bp):
AAATGATGGGAGACGGCTCAGAATTTTTTTATTGCTGGATCAGTTTCAGGGAGGTCTTGAAATTT
TACGCATTTCGATGAATCGAGATTTAATATCACACCTTTTCTGCCTCTGGAGAGAAATGAGAGTT
GTTTTAAAGCTTAATCCAGGTAATTTAGGATTGTTGAAGTCAGAGGGAGCTCACAC
Found at i:6454 original size:93 final size:93
Alignment explanation
Indices: 6295--6760 Score: 772
Period size: 93 Copynumber: 4.9 Consensus size: 93
6285 ATAAAGGAAG
6295 AAACCACAAACTGACTCCCTACTAACTTAACCTAAGCCGAAGGTAACTTATTACTCCGCGCGTAA
1 AAACCACAAACTGACTCCCTACTAACTTAACCTAAGCCGAAGGTAACTTATTACTCCGCGCGTAA
*
6360 AAGGGCATATCTTGACTCCGTCTGCGAA
66 AAGGGCATATCTTGACTCCGCCTGCGAA
6388 AAACCACAAACTGACTCCCTACTAACTTAACCTAAGCCGAAGGTAACTTATTACTCCGCGCGTAA
1 AAACCACAAACTGACTCCCTACTAACTTAACCTAAGCCGAAGGTAACTTATTACTCCGCGCGTAA
6453 AAGGGCATATCTTGACTCCGCCTGCGAA
66 AAGGGCATATCTTGACTCCGCCTGCGAA
6481 AAACCACAAACTGACTCCCTACTAACTTAACCTAAGCCGAAGGTAACTTATTACTCCGCGCGTAA
1 AAACCACAAACTGACTCCCTACTAACTTAACCTAAGCCGAAGGTAACTTATTACTCCGCGCGTAA
6546 AAGGGCATATCTTGACTCCGCCTGCGAA
66 AAGGGCATATCTTGACTCCGCCTGCGAA
*
6574 AAACCACAAACTGACTCCCTACTAACTTAACCTAAGCCGAAGGTAACTTATTACTCCGCGCGTGA
1 AAACCACAAACTGACTCCCTACTAACTTAACCTAAGCCGAAGGTAACTTATTACTCCGCGCGTAA
**
6639 AAGGGCATATCTTGACTCCGGCCGAAAATATAGAA
66 AAGGGCATATCTTGACTCC-GCC-----T-GCGAA
* *
6674 TGAAACCACAAACTGAC-CCCTTACTAACTTAACCTAAACCGAAGATAACTTATTACTCCGCGCG
1 --AAACCACAAACTGACTCCC-TACTAACTTAACCTAAGCCGAAGGTAACTTATTACTCCGCGCG
*
6738 TGAAAGGGCATATCTTGACTCCG
63 TAAAAGGGCATATCTTGACTCCG
6761 GTCGGAAAAA
Statistics
Matches: 357, Mismatches: 6, Indels: 12
0.95 0.02 0.03
Matches are distributed among these distances:
93 268 0.75
94 3 0.01
99 1 0.00
100 3 0.01
101 4 0.01
102 78 0.22
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (93 bp):
AAACCACAAACTGACTCCCTACTAACTTAACCTAAGCCGAAGGTAACTTATTACTCCGCGCGTAA
AAGGGCATATCTTGACTCCGCCTGCGAA
Found at i:6532 original size:186 final size:189
Alignment explanation
Indices: 6235--6760 Score: 837
Period size: 186 Copynumber: 2.7 Consensus size: 189
6225 TAAGCTACAC
6235 GTAACTTATTACTCCGCGCGTGAAAGGGCATATCTTGACTCCGGCCGAAAATAAAGGAAGAAACC
1 GTAACTTATTACTCCGCGCGTGAAAGGGCATATCTTGACTCCGGCC----AT--AGGAAGAAACC
6300 ACAAACTGACTCCCTACTAACTTAACCTAAGCCGAAGGTAACTTATTACTCCGCGCGTAAAAGGG
60 ACAAACTGACTCCCTACTAACTTAACCTAAGCCGAAGGTAACTTATTACTCCGCGCGTAAAAGGG
*
6365 CATATCTTGACTCCGTCTGCGAAAAACCACAAACTGACTCCCTACTAACTTAACCTAAGCCGAAG
125 CATATCTTGACTCCGCCTGCGAAAAACCACAAACTGACTCCCTACTAACTTAACCTAAGCCGAAG
*
6430 GTAACTTATTACTCCGCGCGTAAAAGGGCATATCTTGACTCC-GCC-T-GCGAA-AAACCACAAA
1 GTAACTTATTACTCCGCGCGTGAAAGGGCATATCTTGACTCCGGCCATAG-GAAGAAACCACAAA
6491 CTGACTCCCTACTAACTTAACCTAAGCCGAAGGTAACTTATTACTCCGCGCGTAAAAGGGCATAT
65 CTGACTCCCTACTAACTTAACCTAAGCCGAAGGTAACTTATTACTCCGCGCGTAAAAGGGCATAT
6556 CTTGACTCCGCCTGCGAAAAACCACAAACTGACTCCCTACTAACTTAACCTAAGCCGAAG
130 CTTGACTCCGCCTGCGAAAAACCACAAACTGACTCCCTACTAACTTAACCTAAGCCGAAG
*
6616 GTAACTTATTACTCCGCGCGTGAAAGGGCATATCTTGACTCCGGCCGAAAATATAGAATGAAACC
1 GTAACTTATTACTCCGCGCGTGAAAGGGCATATCTTGACTCCGGCC----ATA-GGAA-GAAACC
* * *
6681 ACAAACTGAC-CCCTTACTAACTTAACCTAAACCGAAGATAACTTATTACTCCGCGCGTGAAAGG
60 ACAAACTGACTCCC-TACTAACTTAACCTAAGCCGAAGGTAACTTATTACTCCGCGCGTAAAAGG
6745 GCATATCTTGACTCCG
124 GCATATCTTGACTCCG
6761 GTCGGAAAAA
Statistics
Matches: 312, Mismatches: 7, Indels: 24
0.91 0.02 0.07
Matches are distributed among these distances:
186 176 0.56
187 6 0.02
189 1 0.00
192 1 0.00
193 3 0.01
194 6 0.02
195 119 0.38
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (189 bp):
GTAACTTATTACTCCGCGCGTGAAAGGGCATATCTTGACTCCGGCCATAGGAAGAAACCACAAAC
TGACTCCCTACTAACTTAACCTAAGCCGAAGGTAACTTATTACTCCGCGCGTAAAAGGGCATATC
TTGACTCCGCCTGCGAAAAACCACAAACTGACTCCCTACTAACTTAACCTAAGCCGAAG
Found at i:6750 original size:102 final size:102
Alignment explanation
Indices: 6574--6761 Score: 342
Period size: 102 Copynumber: 1.8 Consensus size: 102
6564 CGCCTGCGAA
* *
6574 AAACCACAAACTGACTCCCTACTAACTTAACCTAAGCCGAAGGTAACTTATTACTCCGCGCGTGA
1 AAACCACAAACTGACTCCCTACTAACTTAACCTAAACCGAAGATAACTTATTACTCCGCGCGTGA
6639 AAGGGCATATCTTGACTCCGGCCGAAAATATAGAATG
66 AAGGGCATATCTTGACTCCGGCCGAAAATATAGAATG
6676 AAACCACAAACTGAC-CCCTTACTAACTTAACCTAAACCGAAGATAACTTATTACTCCGCGCGTG
1 AAACCACAAACTGACTCCC-TACTAACTTAACCTAAACCGAAGATAACTTATTACTCCGCGCGTG
6740 AAAGGGCATATCTTGACTCCGG
65 AAAGGGCATATCTTGACTCCGG
6762 TCGGAAAAAA
Statistics
Matches: 83, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
101 3 0.04
102 80 0.96
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (102 bp):
AAACCACAAACTGACTCCCTACTAACTTAACCTAAACCGAAGATAACTTATTACTCCGCGCGTGA
AAGGGCATATCTTGACTCCGGCCGAAAATATAGAATG
Found at i:6923 original size:95 final size:96
Alignment explanation
Indices: 6750--6951 Score: 257
Period size: 95 Copynumber: 2.1 Consensus size: 96
6740 AAAGGGCATA
* *
6750 TCTTGACTCCGGTCGGAAAAAAAACCCTAACCCGCAACCTAACCTTACCTAACCTAAGCTAGAGG
1 TCTTGACTCCGGTCGGAAAAAAAAACCTAACCCGCAACCTAACCTAACCTAACCTAAGCTAGAGG
* * * *
6815 TAACTTCTTACTCCCCGCGCGCAAGCGTTTC
66 TAACTTATGACTCCCCGCCCGCAAGCGTCTC
* *
6846 TCTTGACTCCGGTCGGAAAAAAAATACC-AACCCGACTA-CTCA-CTAACCTAACCTAAGCTAGA
1 TCTTGACTCCGGTCGGAAAAAAAA-ACCTAACCCG-CAACCTAACCTAACCTAACCTAAGCTAGA
* * *
6908 GGTAACTTATGACTCCGCGCCCTCCAGCGTCTC
64 GGTAACTTATGACTCCCCGCCCGCAAGCGTCTC
*
6941 TATTGACTCCG
1 TCTTGACTCCG
6952 CCTTAAGGGG
Statistics
Matches: 92, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
95 55 0.60
96 33 0.36
97 4 0.04
ACGTcount: A:0.28, C:0.34, G:0.16, T:0.22
Consensus pattern (96 bp):
TCTTGACTCCGGTCGGAAAAAAAAACCTAACCCGCAACCTAACCTAACCTAACCTAAGCTAGAGG
TAACTTATGACTCCCCGCCCGCAAGCGTCTC
Found at i:10860 original size:64 final size:64
Alignment explanation
Indices: 10781--11032 Score: 432
Period size: 64 Copynumber: 3.9 Consensus size: 64
10771 GATCTTCATC
* ** *
10781 CAGTGTCAAACGATTCGTGCCATATTTTTAAAAATTGAACTGTCTTTGTGTAGGTTAGGTTATT
1 CAGTGTCAAACGATTCGTGCCATATTTTTAAAAATTAAACTGTCCGTGTGTAGGTTAGATTATT
10845 CAGTGTCAAACGATTCGTGCCATATTTTTAAAAATTAAACTGTCCGTGTGTAGGTTAGATTATT
1 CAGTGTCAAACGATTCGTGCCATATTTTTAAAAATTAAACTGTCCGTGTGTAGGTTAGATTATT
10909 CAGTGTCAAACGATTCGTGCCATATTTTTAAAAATTAAACTGTCCGTGTGTAGGTTAGATTATT
1 CAGTGTCAAACGATTCGTGCCATATTTTTAAAAATTAAACTGTCCGTGTGTAGGTTAGATTATT
* *
10973 CAGTGTCAAACGATTCGTGCCACATTTTTTAAAAAATTAAACTGTCTGTGTGTAGGTTAG
1 CAGTGTCAAACGATTCGTGCCATA-TTTTT-AAAAATTAAACTGTCCGTGTGTAGGTTAG
11033 GTTAACTCTA
Statistics
Matches: 180, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
64 147 0.82
65 5 0.03
66 28 0.16
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (64 bp):
CAGTGTCAAACGATTCGTGCCATATTTTTAAAAATTAAACTGTCCGTGTGTAGGTTAGATTATT
Found at i:11310 original size:11 final size:11
Alignment explanation
Indices: 11281--11320 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
11271 GATTTTACCG
*
11281 ATTTTCCTGGT
1 ATTTTCCTGAT
*
11292 ATTCTCCTGAT
1 ATTTTCCTGAT
*
11303 TTTTTCCTGAT
1 ATTTTCCTGAT
11314 ATTTTCC
1 ATTTTCC
11321 GGTTCTTCCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.12, C:0.23, G:0.10, T:0.55
Consensus pattern (11 bp):
ATTTTCCTGAT
Found at i:38511 original size:64 final size:64
Alignment explanation
Indices: 38410--38652 Score: 302
Period size: 64 Copynumber: 3.9 Consensus size: 64
38400 ATCCTGCCAT
* * * *
38410 CCCCCTCTTTTTCCAGCGTCTCCGTCTGGTGAAGAAGCCCAAAAGAACTGTTGGTGCCCGCCCGC
1 CCCCCT-TTTTTGCAGCGTCTCCATCTAGAGAAGAAGCCCAAAAGAACTGTTGGTGCCCGCCCGC
*
38475 CCCCCTTTTTTGCAGCGTCTACATCTAGAGAAGAAGCCCAAAAGAACTGTTGGTGCCCGCCCG-
1 CCCCCTTTTTTGCAGCGTCTCCATCTAGAGAAGAAGCCCAAAAGAACTGTTGGTGCCCGCCCGC
* * *
38538 CCCCCTTTTTTGGAGCGTCTCCATTTAGAGAAGAAGCCCATAAGAACTGTTGGT----GCCCGC
1 CCCCCTTTTTTGCAGCGTCTCCATCTAGAGAAGAAGCCCAAAAGAACTGTTGGTGCCCGCCCGC
* * * *
38598 CCCCCTTTTTTGCAGCGTAC-CCATCTGGTA-AAGAGGCCCAAACGAACCGTTGGTG
1 CCCCCTTTTTTGCAGCGT-CTCCATCTAG-AGAAGAAGCCCAAAAGAACTGTTGGTG
38653 AGGAATAAGA
Statistics
Matches: 158, Mismatches: 16, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
59 5 0.03
60 43 0.27
61 2 0.01
63 50 0.32
64 52 0.33
65 6 0.04
ACGTcount: A:0.21, C:0.32, G:0.23, T:0.24
Consensus pattern (64 bp):
CCCCCTTTTTTGCAGCGTCTCCATCTAGAGAAGAAGCCCAAAAGAACTGTTGGTGCCCGCCCGC
Found at i:38574 original size:63 final size:63
Alignment explanation
Indices: 38410--38615 Score: 292
Period size: 63 Copynumber: 3.3 Consensus size: 63
38400 ATCCTGCCAT
* * * * *
38410 CCCCCTCTTTTTCCAGCGTCTCCGTCTGGTGAAGAAGCCCAAAAGAACTGTTGGTGCCCGCCCG
1 CCCCCT-TTTTTGCAGCGTCTACATCTAGAGAAGAAGCCCAAAAGAACTGTTGGTGCCCGCCCG
38474 CCCCCCTTTTTTGCAGCGTCTACATCTAGAGAAGAAGCCCAAAAGAACTGTTGGTGCCCGCCCG
1 -CCCCCTTTTTTGCAGCGTCTACATCTAGAGAAGAAGCCCAAAAGAACTGTTGGTGCCCGCCCG
* * * *
38538 CCCCCTTTTTTGGAGCGTCTCCATTTAGAGAAGAAGCCCATAAGAACTGTTGGTGCCCG--C-
1 CCCCCTTTTTTGCAGCGTCTACATCTAGAGAAGAAGCCCAAAAGAACTGTTGGTGCCCGCCCG
38598 CCCCCTTTTTTGCAGCGT
1 CCCCCTTTTTTGCAGCGT
38616 ACCCATCTGG
Statistics
Matches: 131, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
60 17 0.13
61 1 0.01
63 55 0.42
64 52 0.40
65 6 0.05
ACGTcount: A:0.19, C:0.33, G:0.22, T:0.25
Consensus pattern (63 bp):
CCCCCTTTTTTGCAGCGTCTACATCTAGAGAAGAAGCCCAAAAGAACTGTTGGTGCCCGCCCG
Found at i:38637 original size:60 final size:60
Alignment explanation
Indices: 38410--38652 Score: 274
Period size: 63 Copynumber: 3.9 Consensus size: 60
38400 ATCCTGCCAT
* * * *
38410 CCCCCTCTTTTTCCAGCGTCTCCGTCTGGTGAAGAAGCCCAAAAGAACTGTTGGTGCCCGCCCGC
1 CCCCCT-TTTTTGCAGCGTCTCCATCTAGAGAAGAAGCCCAAAAGAACTGTTGGT----GCCCGC
*
38475 CCCCCTTTTTTGCAGCGTCTACATCTAGAGAAGAAGCCCAAAAGAACTGTTGGTGCCCGCCC
1 CCCCCTTTTTTGCAGCGTCTCCATCTAGAGAAGAAGCCCAAAAGAACTGTTGGTGCCCG--C
* * *
38537 GCCCCCTTTTTTGGAGCGTCTCCATTTAGAGAAGAAGCCCATAAGAACTGTTGGTGCCCGC
1 -CCCCCTTTTTTGCAGCGTCTCCATCTAGAGAAGAAGCCCAAAAGAACTGTTGGTGCCCGC
* * * *
38598 CCCCCTTTTTTGCAGCGTAC-CCATCTGGTA-AAGAGGCCCAAACGAACCGTTGGTG
1 CCCCCTTTTTTGCAGCGT-CTCCATCTAG-AGAAGAAGCCCAAAAGAACTGTTGGTG
38653 AGGAATAAGA
Statistics
Matches: 157, Mismatches: 16, Indels: 15
0.84 0.09 0.08
Matches are distributed among these distances:
60 49 0.31
61 3 0.02
62 1 0.01
63 55 0.35
64 43 0.27
65 6 0.04
ACGTcount: A:0.21, C:0.32, G:0.23, T:0.24
Consensus pattern (60 bp):
CCCCCTTTTTTGCAGCGTCTCCATCTAGAGAAGAAGCCCAAAAGAACTGTTGGTGCCCGC
Found at i:39231 original size:186 final size:184
Alignment explanation
Indices: 38956--39616 Score: 794
Period size: 186 Copynumber: 3.6 Consensus size: 184
38946 ATTTTTGGGC
** ** * * * * * * *
38956 TAATCGTTCCATGAGTGTCAGAGATGATCCTCTAGCTAGTACTAACAGTAAAATAAACTTATTGA
1 TAATCGTTCTTTGAGTGTGGGAGATGTTTCTCTAGCTAATACAAACTGTAAAATATACTTATTAA
* *
39021 CGGTTGAAACCGATTGCAAGAGTCTTAGAGTATTTTTAAATATCATTTTTTAACGCGACTTGGAA
66 CAGTTGAATCCGATTGCAAGAGTCTTAGAGTATTTTTAAATATCATTTTTTAACGCGACTTGGAA
* * ** ***
39086 GAAATCGAAGCTTTTCACAAGCTCAT-TCGAAAGTAAAAGCT-TAATAACT-TTTCAAA
131 GAAATCGAAG-TTTT-ACATGCT-TTGTCGAAACCAAAAG-TGTAATAACTCGGAC-AA
*
39142 TAAACGTTCCTTT-AGTGTGGGAGATGTTTCTCTAGCTAATACAAACTGTAAAATATACTTATTA
1 TAATCGTT-CTTTGAGTGTGGGAGATGTTTCTCTAGCTAATACAAACTGTAAAATATACTTATTA
* *
39206 ACAGTTGAATCCTATTGCAAGAGTCTTAGAGTATTTTTAAATATCATTTTTTAACGCGACTTGCC
65 ACAGTTGAATCCGATTGCAAGAGTCTTAGAGTATTTTTAAATATCATTTTTTAACGCGACTTG-G
* *** *
39271 AAAAAATCTTGGTTTTACTTGCTTTGTCGAAACCAAAAGTGTAATAACTCGGACAA
129 AAGAAATCGAAGTTTTACATGCTTTGTCGAAACCAAAAGTGTAATAACTCGGACAA
* * * *
39327 TAATCGTTCTTTGAGTGTGGGAGATGTTTCTCCAGCTAGTA-ATAACCGTGAAATATACTTATTA
1 TAATCGTTCTTTGAGTGTGGGAGATGTTTCTCTAGCTAATACA-AACTGTAAAATATACTTATTA
* * * * * *
39391 ACGGTTGAATCCGATTGCAAGTGTCTTAGAGTATTTCTAATTTTCATTTTCTT-ACGCGGCTTGG
65 ACAGTTGAATCCGATTGCAAGAGTCTTAGAGTATTTTTAAATATCATTTT-TTAACGCGACTTGG
* * *
39455 GAGAAATCGGAGTTTGTGACATCCTTTGTCGAAACCAAAAGTGTAATAACTCGGACAA
129 AAGAAATCGAAGTTT-T-ACATGCTTTGTCGAAACCAAAAGTGTAATAACTCGGACAA
39513 TAATCGTTCTTTGAGTGTGGGAGATGTTTCTCTAGCTAATACAAACTGTAAAATATACTTATTAA
1 TAATCGTTCTTTGAGTGTGGGAGATGTTTCTCTAGCTAATACAAACTGTAAAATATACTTATTAA
* *
39578 CAGTTGAATCCTATTGCAAGTGTCTTAGAGTATTTTTAA
66 CAGTTGAATCCGATTGCAAGAGTCTTAGAGTATTTTTAA
39617 TAATAACTTT
Statistics
Matches: 409, Mismatches: 55, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
184 17 0.04
185 132 0.32
186 249 0.61
187 11 0.03
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (184 bp):
TAATCGTTCTTTGAGTGTGGGAGATGTTTCTCTAGCTAATACAAACTGTAAAATATACTTATTAA
CAGTTGAATCCGATTGCAAGAGTCTTAGAGTATTTTTAAATATCATTTTTTAACGCGACTTGGAA
GAAATCGAAGTTTTACATGCTTTGTCGAAACCAAAAGTGTAATAACTCGGACAA
Found at i:45199 original size:110 final size:110
Alignment explanation
Indices: 44888--45415 Score: 803
Period size: 110 Copynumber: 4.8 Consensus size: 110
44878 TAGGCTTATA
* * * * *
44888 TACCTGAGTTTGACAAACTTAGGCTTTATTTAAATTAATTAAAGTGCCCCTGCAATATAGGCAAC
1 TACCTCAGTTTGACAAACTTAGGC--TATTTAAAATATTTAAAGCGCCCCTTCAATATAGGCAAC
*
44953 CCCTTTAAAAATAGTGAATCATACTTTACTATGGAATAAAGCCTATT
64 CCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCTATT
* * *
45000 TACCTCAG-TTGACAAACTTAGGC-GTCTATAAATCGATTTAAAGTGCCCCTTCAATATAGGCAA
1 TACCTCAGTTTGACAAACTTAGGCTATTTA-AAAT--ATTTAAAGCGCCCCTTCAATATAGGCAA
45063 CCCCTTTAAAAATAGTGAAT-ACTACTTTACTATGGAATATAGCCTATT
63 CCCCTTTAAAAATAGTGAATCA-TACTTTACTATGGAATATAGCCTATT
* * *
45111 TACGTCAGTTTGACAAACATAGGCTATTTAAAATATTTAAAGCGCCCCTTCAATATAGGCCACCC
1 TACCTCAGTTTGACAAACTTAGGCTATTTAAAATATTTAAAGCGCCCCTTCAATATAGGCAACCC
45176 CTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCTATT
66 CTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCTATT
* *
45221 TACCTAAGTTTGACAAACTTAGGCTATTTAAAATATTTAGAA-CGCCCCTTCAATGTAGGCAACC
1 TACCTCAGTTTGACAAACTTAGGCTATTTAAAATATTTA-AAGCGCCCCTTCAATATAGGCAACC
* *
45285 CCTTTAAAAACAGTGAATCATACTTTACTTTGGAATATAGCCTATT
65 CCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCTATT
*
45331 TACCTCAGTTTGACAAACTTAGGCTATTTAAAATATTTAAAGCGCCCCTTCAATATAGGCTACCC
1 TACCTCAGTTTGACAAACTTAGGCTATTTAAAATATTTAAAGCGCCCCTTCAATATAGGCAACCC
*
45396 CTTTAAAAATGGTGAATCAT
66 CTTTAAAAATAGTGAATCAT
45416 NNNNNNNNNN
Statistics
Matches: 382, Mismatches: 25, Indels: 20
0.89 0.06 0.05
Matches are distributed among these distances:
108 3 0.01
109 5 0.01
110 250 0.65
111 96 0.25
112 25 0.07
113 3 0.01
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (110 bp):
TACCTCAGTTTGACAAACTTAGGCTATTTAAAATATTTAAAGCGCCCCTTCAATATAGGCAACCC
CTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCTATT
Found at i:45807 original size:110 final size:110
Alignment explanation
Indices: 45534--48438 Score: 4264
Period size: 110 Copynumber: 26.2 Consensus size: 110
45524 TTATTAAGAA
* *
45534 CGCCCCTTCAATGTAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTACGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
*
45599 ATTTACCTCAGTTTGACAAACATAGGCT-TTTAAAA-A-TTACCACGAG
66 ATTTACCTCAGTTTGACAAACTTAGGCTATTTAAAATATTTA--A--AG
*
45645 TGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
45710 ATTTACCTCAGTTTGACAAACTTAGGCTATTTAAAATATTTAAAG
66 ATTTACCTCAGTTTGACAAACTTAGGCTATTTAAAATATTTAAAG
*
45755 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTGTACTATGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
* * *
45820 ATTTACCTAAGTTTGACAAACTTAGGC-ATTTTATAAT-TATTAAGAA
66 ATTTACCTCAGTTTGACAAACTTAGGCTA-TTTAAAATAT-TTAA-AG
45866 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
* * *
45931 ATTTACCTCAGTTTGACAAACTTAGGCTTTTTAAAAT-TACTATGAG
66 ATTTACCTCAGTTTGACAAACTTAGGCTATTTAAAATAT-TTA-AAG
* *
45977 CGCCCCTTCAATATAGGCTACCCCTTTAAAAATAGTGAATCAAACTTTACTATGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
*
46042 ATTTACCTCAGTTTGACAAACTTAGGCTTTTTAAAATATTTAAAG
66 ATTTACCTCAGTTTGACAAACTTAGGCTATTTAAAATATTTAAAG
*
46087 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATACCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
* * *
46152 ATTTACCTCAGTTTGACAATCTTAGGC-ATTTTATAATGATTCAAAG
66 ATTTACCTCAGTTTGACAAACTTAGGCTA-TTTAAAAT-ATTTAAAG
* * * * *
46198 GGCCCCTTCAATATGGGCAACCCCTTTAAAAATGGTGAATCATACTTTACTACGGAATATAGCCA
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
* *
46263 ATTTACCTCAGTTTGACAAACTTAGGC-ATGTCTATAAT-TATTAAGAA
66 ATTTACCTCAGTTTGACAAACTTAGGCTAT-T-TAAAATAT-TTAA-AG
* * * *
46310 CGCCCCTTCAATATCGGCAACCCCTTTAAAAATAGTGATTGCA-ACTTTACAATGAAATATATGC
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAAT-CATACTTTACTATGGAATATA-GC
** * *
46374 CTATTTACCTCATGTTTGACAAACAAAGGCTGTTCTATAATTATTTAGAAG
64 CTATTTACCTCA-GTTTGACAAACTTAGGCTATT-TA-AAATATTTA-AAG
* *
46425 CGCCCTTTCAATGTAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
46490 ATTTACCTCAGTTTGACAAACTTAGGCTATTTAAAATATTTAGAA-
66 ATTTACCTCAGTTTGACAAACTTAGGCTATTTAAAATATTTA-AAG
*
46535 CGCCCCTTCAATGTAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
* * * *
46600 ATTTACCTCAGTTTGAGAAACTTAGGCGT-TCTATAAT-TATTAAGAA
66 ATTTACCTCAGTTTGACAAACTTAGGC-TATTTAAAATAT-TTAA-AG
* * *
46646 CGCCCCTTCAATGTAGGAAACCCCTTTAAAAATAGTGAATCTTACTTTACTATGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
* * *
46711 ATTTACCT-ATGTTTGACAAACTTAGGCTTTTTAAAAT-TACTATGAG
66 ATTTACCTCA-GTTTGACAAACTTAGGCTATTTAAAATAT-TTA-AAG
*
46757 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTAGTATGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
* * *
46822 ATTTACCTCAGTTTGACAAACTTAGGC-ATTGTATAATTATTAAAAA
66 ATTTACCTCAGTTTGACAAACTTAGGCTATT-TA-AAATATTTAAAG
* *
46868 CGCCCCTTCAATATAGGCCACCCCTTTAAAAATAGTGAATCATACTCTACTATGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
* * *
46933 ATTTACCTCAGTTTGACAAACTTAGGCTTTTTAAAAT-TACTATGAG
66 ATTTACCTCAGTTTGACAAACTTAGGCTATTTAAAATAT-TTA-AAG
* *
46979 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTCTATTATGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
** * *
47044 ATTTACCTCAGTTTGACAAACAAAGGCGT-TCTATAATTATTTAGAA-
66 ATTTACCTCAGTTTGACAAACTTAGGC-TATTTA-AAATATTTA-AAG
* *
47090 CGCCCTTTCAATGTAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
47155 ATTTACCTCAGTTTGACAAACTTAGGCTATTTAAAATATTTAGAA-
66 ATTTACCTCAGTTTGACAAACTTAGGCTATTTAAAATATTTA-AAG
* *
47200 CGCCCCTTCAATGTAGGCAACCCCTTTAAAAATAGTTAATCATACTTTACTATGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
* * * * *
47265 ATTTACCTCAGTTTGAGAATCTTAGGCGT-TCTATAAT-TATTAAGAA
66 ATTTACCTCAGTTTGACAAACTTAGGC-TATTTAAAATAT-TTAA-AG
*
47311 CGCCCCTTCAATGTAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
*
47376 ATTTACCTAAGTTTGACAAACTTAGGC-ATTTTAAAATATTTAAAG
66 ATTTACCTCAGTTTGACAAACTTAGGCTA-TTTAAAATATTTAAAG
* *
47421 CGCCCCTTCAATATAGGCCACCCCTTTAAAAATAGTGAATCATACTTTACTATGAAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
*
47486 ATTTACCTAAGTTTGACAAACTTAGGCTATTTAAAATATTTAAAG
66 ATTTACCTCAGTTTGACAAACTTAGGCTATTTAAAATATTTAAAG
* * * *
47531 CGCCCCTTCAATATAGGCCACCCCTTTAAAAATAGTGAATCATCCTCTACCATGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
*
47596 ATTTACCTCAGTTTGACAAACTTAGGC-ATTATATAAT-TATTAAGAG
66 ATTTACCTCAGTTTGACAAACTTAGGCTATT-TAAAATAT-TTAA-AG
* * *
47642 TGCCCCTTCAAAATAGGCAACCCCTTTAAAAATAGTGAATCATACTCTACTATGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
47707 ATTTACCTCAGTTTGACAAACTTAGGCTATTTAAAATATTTAGAA-
66 ATTTACCTCAGTTTGACAAACTTAGGCTATTTAAAATATTTA-AAG
* *
47752 CGCCCCTTCAATGTAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTTTGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
* *
47817 ATTTACCTCAGTTTGACAACCTTCGGCTATTTAAAATATTTAAAG
66 ATTTACCTCAGTTTGACAAACTTAGGCTATTTAAAATATTTAAAG
* * *
47862 CGCCCCTTCAATGTAGGCCACCCCTTTAAAAATAGTGAATCATACTGTACTATGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
* * **
47927 ATTTAACTAAGTTTGACAAACTTAGGC-ATTTTTTAATATTTAAAG
66 ATTTACCTCAGTTTGACAAACTTAGGCTA-TTTAAAATATTTAAAG
47972 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
48037 ATTTACCTCAGTTTGACAAACTTAGGCTATTTAAAATATTTAAAG
66 ATTTACCTCAGTTTGACAAACTTAGGCTATTTAAAATATTTAAAG
* * *
48082 CGCCCCTTCAATATAGGCCACCCCTTTAACAATAGTGAATCATACTGTACTATGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
*
48147 ATTTACCTTAGTTTGACAAACTTAGGCTATTTAAAATATTTAAAG
66 ATTTACCTCAGTTTGACAAACTTAGGCTATTTAAAATATTTAAAG
* *
48192 TGCCCCTTCAATATAGGCAACCTCTTTAAAAATAGTGAAT-ACTACTTTACTATGGAATATAGCC
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCA-TACTTTACTATGGAATATAGCC
* * *
48256 TATTTACGTCAGTTTGACAAACATAGGCTATTTAAAATATTCAAAG
65 TATTTACCTCAGTTTGACAAACTTAGGCTATTTAAAATATTTAAAG
*
48302 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTCTACTATGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
48367 ATTTACCTCAGTTTGACAAACTTAGGCTATTTAAAATATTTAAAG
66 ATTTACCTCAGTTTGACAAACTTAGGCTATTTAAAATATTTAAAG
48412 CGCCCCTTCAATATAGGCAACCCCTTT
1 CGCCCCTTCAATATAGGCAACCCCTTT
Statistics
Matches: 2556, Mismatches: 178, Indels: 121
0.90 0.06 0.04
Matches are distributed among these distances:
109 15 0.01
110 1255 0.49
111 1062 0.42
112 89 0.03
113 36 0.01
114 38 0.01
115 59 0.02
116 2 0.00
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (110 bp):
CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
ATTTACCTCAGTTTGACAAACTTAGGCTATTTAAAATATTTAAAG
Found at i:45917 original size:221 final size:219
Alignment explanation
Indices: 45534--48438 Score: 4257
Period size: 221 Copynumber: 13.1 Consensus size: 219
45524 TTATTAAGAA
* *
45534 CGCCCCTTCAATGTAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTACGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
* *
45599 ATTTACCTCAGTTTGACAAACATAGGCTTTTAAAA-ATTACCACGAGTGCCCCTTCAATATAGGC
66 ATTTACCTCAGTTTGACAAACTTAGGCTTTTAAAATATTA--A-GAGCGCCCCTTCAATATAGGC
45663 AACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCTATTTACCTCAGTTTGACA
128 AACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCTATTTACCTCAGTTTGACA
45728 AACTTAGGCTATTTAAAATATTTAAAG
193 AACTTAGGCTATTTAAAATATTTAAAG
*
45755 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTGTACTATGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
* * *
45820 ATTTACCTAAGTTTGACAAACTTAGGCATTTTATAATTATTAAGAACGCCCCTTCAATATAGGCA
66 ATTTACCTCAGTTTGACAAACTTAGGC-TTTTA-AAATATTAAGAGCGCCCCTTCAATATAGGCA
45885 ACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCTATTTACCTCAGTTTGACAA
129 ACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCTATTTACCTCAGTTTGACAA
* * *
45950 ACTTAGGCTTTTTAAAAT-TACTATGAG
194 ACTTAGGCTATTTAAAATAT-TTA-AAG
* *
45977 CGCCCCTTCAATATAGGCTACCCCTTTAAAAATAGTGAATCAAACTTTACTATGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
46042 ATTTACCTCAGTTTGACAAACTTAGGCTTTTTAAAATATTTAA-AGCGCCCCTTCAATATAGGCA
66 ATTTACCTCAGTTTGACAAACTTAGGC-TTTTAAAATA-TTAAGAGCGCCCCTTCAATATAGGCA
*
46106 ACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATACCCTATTTACCTCAGTTTGACAA
129 ACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCTATTTACCTCAGTTTGACAA
* * *
46171 TCTTAGGC-ATTTTATAATGATTCAAAG
194 ACTTAGGCTA-TTTAAAAT-ATTTAAAG
* * * * *
46198 GGCCCCTTCAATATGGGCAACCCCTTTAAAAATGGTGAATCATACTTTACTACGGAATATAGCCA
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
* * * *
46263 ATTTACCTCAGTTTGACAAACTTAGGCATGTCTATAATTATTAAGAACGCCCCTTCAATATCGGC
66 ATTTACCTCAGTTTGACAAACTTAGGC-T-TTTA-AAATATTAAGAGCGCCCCTTCAATATAGGC
* * *
46328 AACCCCTTTAAAAATAGTGATTGCA-ACTTTACAATGAAATATATGCCTATTTACCTCATGTTTG
128 AACCCCTTTAAAAATAGTGAAT-CATACTTTACTATGGAATATA-GCCTATTTACCTCA-GTTTG
** * *
46392 ACAAACAAAGGCTGTTCTATAATTATTTAGAAG
190 ACAAACTTAGGCTATT-TA-AAATATTTA-AAG
* *
46425 CGCCCTTTCAATGTAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
* * *
46490 ATTTACCTCAGTTTGACAAACTTAGGCTATTTAAAATATTTAGAACGCCCCTTCAATGTAGGCAA
66 ATTTACCTCAGTTTGACAAACTTAGGCT-TTTAAAATATTAAGAGCGCCCCTTCAATATAGGCAA
*
46555 CCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCTATTTACCTCAGTTTGAGAAA
130 CCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCTATTTACCTCAGTTTGACAAA
* * *
46620 CTTAGGCGT-TCTATAAT-TATTAAGAA
195 CTTAGGC-TATTTAAAATAT-TTAA-AG
* * *
46646 CGCCCCTTCAATGTAGGAAACCCCTTTAAAAATAGTGAATCTTACTTTACTATGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
* *
46711 ATTTACCT-ATGTTTGACAAACTTAGGCTTTTTAAAATTACTATGAGCGCCCCTTCAATATAGGC
66 ATTTACCTCA-GTTTGACAAACTTAGGC-TTTTAAAA-TATTAAGAGCGCCCCTTCAATATAGGC
*
46775 AACCCCTTTAAAAATAGTGAATCATACTTTAGTATGGAATATAGCCTATTTACCTCAGTTTGACA
128 AACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCTATTTACCTCAGTTTGACA
* * *
46840 AACTTAGGC-ATTGTATAATTATTAAAAA
193 AACTTAGGCTATT-TA-AAATATTTAAAG
* *
46868 CGCCCCTTCAATATAGGCCACCCCTTTAAAAATAGTGAATCATACTCTACTATGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
* *
46933 ATTTACCTCAGTTTGACAAACTTAGGCTTTTTAAAATTACTATGAGCGCCCCTTCAATATAGGCA
66 ATTTACCTCAGTTTGACAAACTTAGGC-TTTTAAAA-TATTAAGAGCGCCCCTTCAATATAGGCA
* *
46998 ACCCCTTTAAAAATAGTGAATCATACTCTATTATGGAATATAGCCTATTTACCTCAGTTTGACAA
129 ACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCTATTTACCTCAGTTTGACAA
** * *
47063 ACAAAGGCGT-TCTATAATTATTTAGAA-
194 ACTTAGGC-TATTTA-AAATATTTA-AAG
* *
47090 CGCCCTTTCAATGTAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
* * *
47155 ATTTACCTCAGTTTGACAAACTTAGGCTATTTAAAATATTTAGAACGCCCCTTCAATGTAGGCAA
66 ATTTACCTCAGTTTGACAAACTTAGGCT-TTTAAAATATTAAGAGCGCCCCTTCAATATAGGCAA
* * *
47220 CCCCTTTAAAAATAGTTAATCATACTTTACTATGGAATATAGCCTATTTACCTCAGTTTGAGAAT
130 CCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCTATTTACCTCAGTTTGACAAA
* * *
47285 CTTAGGCGT-TCTATAAT-TATTAAGAA
195 CTTAGGC-TATTTAAAATAT-TTAA-AG
*
47311 CGCCCCTTCAATGTAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
* *
47376 ATTTACCTAAGTTTGACAAACTTAGGCATTTTAAAATATTTAA-AGCGCCCCTTCAATATAGGCC
66 ATTTACCTCAGTTTGACAAACTTAGGC-TTTTAAAATA-TTAAGAGCGCCCCTTCAATATAGGCA
* *
47440 ACCCCTTTAAAAATAGTGAATCATACTTTACTATGAAATATAGCCTATTTACCTAAGTTTGACAA
129 ACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCTATTTACCTCAGTTTGACAA
47505 ACTTAGGCTATTTAAAATATTTAAAG
194 ACTTAGGCTATTTAAAATATTTAAAG
* * * *
47531 CGCCCCTTCAATATAGGCCACCCCTTTAAAAATAGTGAATCATCCTCTACCATGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
* * * *
47596 ATTTACCTCAGTTTGACAAACTTAGGCATTATATAATTATTAAGAGTGCCCCTTCAAAATAGGCA
66 ATTTACCTCAGTTTGACAAACTTAGGC-TTTTA-AAATATTAAGAGCGCCCCTTCAATATAGGCA
*
47661 ACCCCTTTAAAAATAGTGAATCATACTCTACTATGGAATATAGCCTATTTACCTCAGTTTGACAA
129 ACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCTATTTACCTCAGTTTGACAA
47726 ACTTAGGCTATTTAAAATATTTAGAA-
194 ACTTAGGCTATTTAAAATATTTA-AAG
* *
47752 CGCCCCTTCAATGTAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTTTGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
* * * *
47817 ATTTACCTCAGTTTGACAACCTTCGGCTATTTAAAATATTTAA-AGCGCCCCTTCAATGTAGGCC
66 ATTTACCTCAGTTTGACAAACTTAGGCT-TTTAAAATA-TTAAGAGCGCCCCTTCAATATAGGCA
* * *
47881 ACCCCTTTAAAAATAGTGAATCATACTGTACTATGGAATATAGCCTATTTAACTAAGTTTGACAA
129 ACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCTATTTACCTCAGTTTGACAA
**
47946 ACTTAGGC-ATTTTTTAATATTTAAAG
194 ACTTAGGCTA-TTTAAAATATTTAAAG
47972 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
*
48037 ATTTACCTCAGTTTGACAAACTTAGGCTATTTAAAATATTTAA-AGCGCCCCTTCAATATAGGCC
66 ATTTACCTCAGTTTGACAAACTTAGGCT-TTTAAAATA-TTAAGAGCGCCCCTTCAATATAGGCA
* * *
48101 ACCCCTTTAACAATAGTGAATCATACTGTACTATGGAATATAGCCTATTTACCTTAGTTTGACAA
129 ACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCTATTTACCTCAGTTTGACAA
48166 ACTTAGGCTATTTAAAATATTTAAAG
194 ACTTAGGCTATTTAAAATATTTAAAG
* *
48192 TGCCCCTTCAATATAGGCAACCTCTTTAAAAATAGTGAAT-ACTACTTTACTATGGAATATAGCC
1 CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCA-TACTTTACTATGGAATATAGCC
* *
48256 TATTTACGTCAGTTTGACAAACATAGGCTATTTAAAATATTCAA-AGCGCCCCTTCAATATAGGC
65 TATTTACCTCAGTTTGACAAACTTAGGCT-TTTAAAATATT-AAGAGCGCCCCTTCAATATAGGC
*
48320 AACCCCTTTAAAAATAGTGAATCATACTCTACTATGGAATATAGCCTATTTACCTCAGTTTGACA
128 AACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCTATTTACCTCAGTTTGACA
48385 AACTTAGGCTATTTAAAATATTTAAAG
193 AACTTAGGCTATTTAAAATATTTAAAG
48412 CGCCCCTTCAATATAGGCAACCCCTTT
1 CGCCCCTTCAATATAGGCAACCCCTTT
Statistics
Matches: 2451, Mismatches: 181, Indels: 105
0.90 0.07 0.04
Matches are distributed among these distances:
219 8 0.00
220 650 0.27
221 972 0.40
222 519 0.21
223 86 0.04
224 37 0.02
225 79 0.03
226 10 0.00
227 90 0.04
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (219 bp):
CGCCCCTTCAATATAGGCAACCCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCT
ATTTACCTCAGTTTGACAAACTTAGGCTTTTAAAATATTAAGAGCGCCCCTTCAATATAGGCAAC
CCCTTTAAAAATAGTGAATCATACTTTACTATGGAATATAGCCTATTTACCTCAGTTTGACAAAC
TTAGGCTATTTAAAATATTTAAAG
Done.