Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 121 of 204
Found at i:37646665 original size:51 final size:51
Alignment explanation
Indices: 37646588--37646712 Score: 142
Period size: 51 Copynumber: 2.5 Consensus size: 51
37646578 GATTTACTGC
* * *
37646588 CTTTAGCTTTAATTTGCTCCACTGCAACATCAGAGAAACAAGATTCGCTAA
1 CTTTAGCTTTAATGTGCTCCACTGCAACACCAAAGAAACAAGATTCGCTAA
* * * * * * **
37646639 CTTTAGCTTTAATGTGTTCTATTGCAACGCCAAAGAGATAAGATTCGCTGC
1 CTTTAGCTTTAATGTGCTCCACTGCAACACCAAAGAAACAAGATTCGCTAA
*
37646690 CTTTAGCTTTAATCTGCTCCACT
1 CTTTAGCTTTAATGTGCTCCACT
37646713 TTAGCTTTAA
Statistics
Matches: 59, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (51 bp):
CTTTAGCTTTAATGTGCTCCACTGCAACACCAAAGAAACAAGATTCGCTAA
Found at i:37646731 original size:21 final size:21
Alignment explanation
Indices: 37646690--37646733 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
37646680 GATTCGCTGC
*
37646690 CTTTAGCTTTAATCTGCTCCA
1 CTTTAGCTTTAATCTACTCCA
*
37646711 CTTTAGCTTTAATCTATTCCA
1 CTTTAGCTTTAATCTACTCCA
37646732 CT
1 CT
37646734 GGAATGCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.27, G:0.07, T:0.45
Consensus pattern (21 bp):
CTTTAGCTTTAATCTACTCCA
Found at i:37647199 original size:24 final size:24
Alignment explanation
Indices: 37647167--37647224 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
37647157 CGGATTGCCC
*
37647167 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAAGTTCAAT
37647191 CCACTGTAATCTTCAAAGTTCAAT
1 CCACTGTAATCTTCAAAGTTCAAT
37647215 CCACTGTAAT
1 CCACTGTAAT
37647225 TTTGGGACAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (24 bp):
CCACTGTAATCTTCAAAGTTCAAT
Found at i:37670464 original size:12 final size:12
Alignment explanation
Indices: 37670449--37670474 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37670439 TATTCATGAA
37670449 TTTATACATTCT
1 TTTATACATTCT
37670461 TTTATACATTCT
1 TTTATACATTCT
37670473 TT
1 TT
37670475 GGTACTTGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTATACATTCT
Found at i:37673515 original size:44 final size:44
Alignment explanation
Indices: 37673449--37673997 Score: 249
Period size: 44 Copynumber: 11.8 Consensus size: 44
37673439 GGAAATGGTG
* * *
37673449 AATCTTATCTCCCTAATG-TTACAGTGGAGCAGATTAAAGCCAGA
1 AATCTTATCTCCCTGA-GATTACAGTGGAGCAGATTGAAGCTAGA
* ** * *
37673493 AATCTTATCTCCCAGAGATTACAACGAAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGA
* **
37673537 AATCCTATCTCCCTGAGATTACAGTGGAGC-GAATT-AAAATA-A
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAG-ATTGAAGCTAGA
* *
37673579 AGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGA
1 A--ATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAGCTAGA
* * *
37673635 AATCTTATCTCCCTAAGATTACAGTGGAGTAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGA
* * * * **
37673679 AATCCTATCTCTCTGAGATTATAGTGGAGCGGATT-AAAATA-A
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGA
* * *
37673721 AGGATCTTATCTCTCT-AAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGA
1 A--ATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAGCTAGA
*
37673777 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGA
* * * * ** **
37673821 AATCCTATCTTCTTGAGATTATAAG-GGAGTGGATT-AAAATA-A
1 AATCTTATCTCCCTGAGATTA-CAGTGGAGCAGATTGAAGCTAGA
* * *
37673863 AGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGT
1 A--ATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAGCTAGA
* * *
37673919 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGA
* * *
37673963 AATCCTATTTCCCTAAGATTACAGTGGAGCAGATT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATT
37673998 AAAATAAAGG
Statistics
Matches: 380, Mismatches: 72, Indels: 106
0.68 0.13 0.19
Matches are distributed among these distances:
42 3 0.01
43 20 0.05
44 240 0.63
45 2 0.01
47 6 0.02
49 12 0.03
51 6 0.02
54 72 0.19
55 14 0.04
56 5 0.01
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGA
Found at i:37674114 original size:142 final size:142
Alignment explanation
Indices: 37673478--37674132 Score: 990
Period size: 142 Copynumber: 4.6 Consensus size: 142
37673468 TACAGTGGAG
* * * *
37673478 CAGATTAAAGCCAGAAATCTTATCTCCCAGAGATTACAACGAAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* * *
37673543 ATCTCCCTGAGATTACAGTGGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATTTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAG
37673608 AGTAGATCGCAT
131 AGTAGATCGCAT
* * *
37673620 CAGATTGAAGCCAGAAATCTTATCTCCCTAAGATTACAGTGGAGTAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* * *
37673685 ATCTCTCTGAGATTATAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAG
66 ATTTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAG
37673750 AGTAGATCGCAT
131 AGTAGATCGCAT
*
37673762 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* * * *
37673827 ATCTT-CTTGAGATTATAAG-GGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGT
66 AT-TTCCCTGAGATTA-CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGT
37673890 AGAGTAGATCGCAT
129 AGAGTAGATCGCAT
* *
37673904 CAGATTGAAGCCAGTAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* * * *
37673969 ATTTCCCTAAGATTACAGTGGAGCAGATTAAAATAAAGGATTTTATCTCTCTAAAGTTATAGTAG
66 ATTTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAG
37674034 AGTAGATCGCAT
131 AGTAGATCGCAT
* * * **
37674046 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTATAGCGGAGTAGATTGAAGCCAGTAATTAT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
** *
37674111 ATTTCTTTGAGATTACGGTGGA
66 ATTTCCCTGAGATTACAGTGGA
37674133 ATAGACCGAA
Statistics
Matches: 470, Mismatches: 39, Indels: 8
0.91 0.08 0.02
Matches are distributed among these distances:
141 4 0.01
142 463 0.99
143 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (142 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
ATTTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAG
AGTAGATCGCAT
Found at i:37674240 original size:50 final size:50
Alignment explanation
Indices: 37674173--37674689 Score: 337
Period size: 50 Copynumber: 10.3 Consensus size: 50
37674163 CAAGCGGTGT
* * *
37674173 AGTGGAACAGATTAAAGCCACAATGGCGAATCTTGCTTCCCCGACATTGC
1 AGTGGAAAAGATTAAAGCCACAACGGCGAATCTTACTTCCCCGACATTGC
** * * *
37674223 AGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTT-CTC-A-AGTGGTGC
1 AGTGGAAAAGATTAAAGCCACAACGGCGAATCTTACTTCCCCGACA-T--TGC
* * * * * * * *
37674273 AGCGGAACAGATTAAAGCGACATCGGTGAATCTTGCTTCCCCAATATTGC
1 AGTGGAAAAGATTAAAGCCACAACGGCGAATCTTACTTCCCCGACATTGC
** * * * * * *
37674323 AGTTAAAAAGGTTAAAGCCACAGCGGTGAATCTTGCCT-CCCAAGC-TGTGC
1 AGTGGAAAAGATTAAAGCCACAACGGCGAATCTTACTTCCCCGA-CAT-TGC
* ** *** * * * **
37674373 AGTGGAACAGATTAAAGATACAGTAGCGAATCTTACCTCCCAGGCGGTGC
1 AGTGGAAAAGATTAAAGCCACAACGGCGAATCTTACTTCCCCGACATTGC
* *
37674423 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTACTTCCCCGACATTGC
1 AGTGGAAAAGATTAAAGCCACAACGGCGAATCTTACTTCCCCGACATTGC
** * * * * *
37674473 AGTTAAAAAGATTAAAGCTATAACGGCGAATCTTAC-TCCCTAGGCAGTGC
1 AGTGGAAAAGATTAAAGCCACAACGGCGAATCTTACTTCCC-CGACATTGC
* * * * * * * *
37674523 AATGGAACATATTAAAGCCATATCAGTGAATCTTGCTTCCCCGACATTGC
1 AGTGGAAAAGATTAAAGCCACAACGGCGAATCTTACTTCCCCGACATTGC
* * * * * * **
37674573 AGT-TAAAAGAATTAAAGCTATAACAGCGAATCTTATTTCCCCGGCGGTGC
1 AGTGGAAAAG-ATTAAAGCCACAACGGCGAATCTTACTTCCCCGACATTGC
* * *
37674623 AGTGGAACAGATTAAAGCCACAATGGCGAATCTTGCTTCCCCGACATTGC
1 AGTGGAAAAGATTAAAGCCACAACGGCGAATCTTACTTCCCCGACATTGC
**
37674673 AGTTAAAAAGATTAAAG
1 AGTGGAAAAGATTAAAG
37674690 TTGCGAGTTA
Statistics
Matches: 353, Mismatches: 100, Indels: 28
0.73 0.21 0.06
Matches are distributed among these distances:
47 1 0.00
48 2 0.01
49 15 0.04
50 320 0.91
51 12 0.03
52 2 0.01
53 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (50 bp):
AGTGGAAAAGATTAAAGCCACAACGGCGAATCTTACTTCCCCGACATTGC
Found at i:37674423 original size:150 final size:150
Alignment explanation
Indices: 37674181--37674539 Score: 398
Period size: 150 Copynumber: 2.4 Consensus size: 150
37674171 GTAGTGGAAC
* * ** * * ** * *
37674181 AGATTAAAGCCACAATGGCGAATCTTGCTTCCCCGA-CATTGCAGTTAAAAAGATTAAAGCTACA
1 AGATTAAAGCCACAACGGCGAATCTTAC-TCCCTAAGCAGTGCAATGGAACAGATTAAAGATACA
* * * * * *
37674245 ACAGCGAATCTTACTTCTCAAGTGGTGCAGCGGAACAGATTAAAGCGACATCGGTGAATCTTGCT
65 ACAGCGAATCTTACCTCCCAAGCGGTGCAGCGGAACAGATTAAAGCCACAACGGTGAATCTTACT
*
37674310 TCCCCAATATTGCAGTTAAAA
130 TCCCCAACATTGCAGTTAAAA
* * * * * *
37674331 AGGTTAAAGCCACAGCGGTGAATCTTGCCTCCC-AAGCTGTGCAGTGGAACAGATTAAAGATACA
1 AGATTAAAGCCACAACGGCGAATCTT-ACTCCCTAAGCAGTGCAATGGAACAGATTAAAGATACA
** * *
37674395 GTAGCGAATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTACT
65 ACAGCGAATCTTACCTCCCAAGCGGTGCAGCGGAACAGATTAAAGCCACAACGGTGAATCTTACT
*
37674460 TCCCCGACATTGCAGTTAAAA
130 TCCCCAACATTGCAGTTAAAA
* * * *
37674481 AGATTAAAGCTATAACGGCGAATCTTACTCCCTAGGCAGTGCAATGGAACATATTAAAG
1 AGATTAAAGCCACAACGGCGAATCTTACTCCCTAAGCAGTGCAATGGAACAGATTAAAG
37674540 CCATATCAGT
Statistics
Matches: 172, Mismatches: 34, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
149 6 0.03
150 165 0.96
151 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.23
Consensus pattern (150 bp):
AGATTAAAGCCACAACGGCGAATCTTACTCCCTAAGCAGTGCAATGGAACAGATTAAAGATACAA
CAGCGAATCTTACCTCCCAAGCGGTGCAGCGGAACAGATTAAAGCCACAACGGTGAATCTTACTT
CCCCAACATTGCAGTTAAAA
Found at i:37674474 original size:100 final size:99
Alignment explanation
Indices: 37674334--37674689 Score: 439
Period size: 100 Copynumber: 3.6 Consensus size: 99
37674324 GTTAAAAAGG
* * * ** * * * **
37674334 TTAAAGCCACAGCGGTGAATCTTGCCT-CCCAAGC-TGTGCAGTGGAACAGATTAAAGATACAGT
1 TTAAAGCCACAACGGTGAATCTTGCTTCCCCGA-CAT-TGCAGTTAAAAAGATTAAAGCTATAAC
37674397 AGCGAATCTTACCTCCCAGGCGGTGCAGTGGAACAGA
64 AGCGAATCTTA-CTCCCAGGCGGTGCAGTGGAACAGA
* *
37674434 TTAAAGCCACAACGGTGAATCTTACTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTATAACGG
1 TTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTATAACAG
* * *
37674499 CGAATCTTACTCCCTAGGCAGTGCAATGGAACATA
66 CGAATCTTACTCCC-AGGCGGTGCAGTGGAACAGA
* * *
37674534 TTAAAGCCATATCAGTGAATCTTGCTTCCCCGACATTGCAGTT-AAAAGAATTAAAGCTATAACA
1 TTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAG-ATTAAAGCTATAACA
* *
37674598 GCGAATCTTATTTCCCCGGCGGTGCAGTGGAACAGA
65 GCGAATCTTA-CTCCCAGGCGGTGCAGTGGAACAGA
* *
37674634 TTAAAGCCACAATGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAG
1 TTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAG
37674690 TTGCGAGTTA
Statistics
Matches: 220, Mismatches: 30, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
99 10 0.05
100 196 0.89
101 14 0.06
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.24
Consensus pattern (99 bp):
TTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTATAACAG
CGAATCTTACTCCCAGGCGGTGCAGTGGAACAGA
Found at i:37676044 original size:368 final size:366
Alignment explanation
Indices: 37675310--37676051 Score: 1263
Period size: 370 Copynumber: 2.0 Consensus size: 366
37675300 ATAAAAGCCC
* *
37675310 TTTTTTACGCATATTGAATAGAAGAAATAGAAAAATATTCAGAGAAAAAAATCGAAAGGTGAATA
1 TTTTTTACGCATATTGAATACAAGAAATAGAAAAATATTCAGAGAAAAAAATCAAAAGGTGAATA
* * *
37675375 GGAATTTTGCTTTGCTTTTCTGAGTTTTCTTTTGTTTTCCCTTCTCTGATTCCATTTTTTTACTC
66 GGAATTTTGCTTTGCTTTTCTAAGTTTTCTTTTGCTTTCCCTTCTCTGATTCCATTTCTTTACTC
* *
37675440 TGTGGTTCATCATTCGTGCACGATATTAAAAAAAAAAGATAGTAGAGTGTGCAGAGGTTACCTGG
131 TGTGGTTCATCATTCGTGCACGATATAAAAAAAAAAAGATAGTAAAGTGTGCAGAGGTTACCTGG
* *
37675505 TGGTCGGTTCTTCATTTTCTCCGTCGCAATCGGAGTAGGACGAGAACATAGTGGCCCTTGAATGG
196 TGGCCGGCTCTTCATTTTCTCCGTCGCAATCGGAGTAGGACGAGAACATAGTGGCCCTTGAATGG
*
37675570 CCAGTGTTGCGAACGGCGGCAGAAGCTAGGGCTAAACCCTAGCAGAGAAAAGGGCAGCAATCTTT
261 CCAGTGTTGCGAACGGCGGCAGAAGCTAGGGCAAAACCCTAGCAGAGAAAAGGGCAGCAATCTTT
*
37675635 TTTCTGGAAAACATATGCTGTTTCTTTTTTTTTAGAAATAT
326 TTTCTGGAAAACATATGCTGCTTCTTTTTTTTTAGAAATAT
37675676 TTTTTTACGCATATTGAATACAAGAAATAGAAAAATATTCAGAGAAAAAAAAATCAAAAGGTGAA
1 TTTTTTACGCATATTGAATACAAGAAATAGAAAAATATTCAGAG--AAAAAAATCAAAAGGTGAA
*
37675741 TAGGAATTTTTCTTTGCTTTTCTAAGTTTTCTTTTGCTTTCCCTTCTCTGATTCCATTTCTTTAC
64 TAGGAATTTTGCTTTGCTTTTCTAAGTTTTCTTTTGCTTTCCCTTCTCTGATTCCATTTCTTTAC
*
37675806 TCTGTGGTTCATCATTCGTGGACGATACTAAAAAAAATAAAGATAGTAAAGTGTGCAGAGGTTAC
129 TCTGTGGTTCATCATTCGTGCACGATA-TAAAAAAAA-AAAGATAGTAAAGTGTGCAGAGGTTAC
* * *
37675871 CTGGTGGCCGGCTCTTCATTTTCTCCTTCGCAATCGGAGTAGGATGAGGACATAGTGGCCCTTGA
192 CTGGTGGCCGGCTCTTCATTTTCTCCGTCGCAATCGGAGTAGGACGAGAACATAGTGGCCCTTGA
*
37675936 ATGGCCAGTGTTGCGAATGGCGGCAGAAGCTAGGGCAAAACCCTAGCAGAGAAAAGGGCAGCAAT
257 ATGGCCAGTGTTGCGAACGGCGGCAGAAGCTAGGGCAAAACCCTAGCAGAGAAAAGGGCAGCAAT
*
37676001 CTTTTTTCTGTAAAACATATGCTGCTTC-TTTTTTTT-GAAATAT
322 CTTTTTTCTGGAAAACATATGCTGCTTCTTTTTTTTTAGAAATAT
37676044 TTTGTTTA
1 TTT-TTTA
37676052 AATAATAAGC
Statistics
Matches: 353, Mismatches: 18, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
366 43 0.12
368 115 0.33
369 20 0.06
370 175 0.50
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (366 bp):
TTTTTTACGCATATTGAATACAAGAAATAGAAAAATATTCAGAGAAAAAAATCAAAAGGTGAATA
GGAATTTTGCTTTGCTTTTCTAAGTTTTCTTTTGCTTTCCCTTCTCTGATTCCATTTCTTTACTC
TGTGGTTCATCATTCGTGCACGATATAAAAAAAAAAAGATAGTAAAGTGTGCAGAGGTTACCTGG
TGGCCGGCTCTTCATTTTCTCCGTCGCAATCGGAGTAGGACGAGAACATAGTGGCCCTTGAATGG
CCAGTGTTGCGAACGGCGGCAGAAGCTAGGGCAAAACCCTAGCAGAGAAAAGGGCAGCAATCTTT
TTTCTGGAAAACATATGCTGCTTCTTTTTTTTTAGAAATAT
Found at i:37696183 original size:12 final size:12
Alignment explanation
Indices: 37696168--37696193 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37696158 TATTCATGAA
37696168 TTTATACATTCT
1 TTTATACATTCT
37696180 TTTATACATTCT
1 TTTATACATTCT
37696192 TT
1 TT
37696194 GGTACTTGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTATACATTCT
Found at i:37699228 original size:44 final size:44
Alignment explanation
Indices: 37699162--37699843 Score: 294
Period size: 44 Copynumber: 14.6 Consensus size: 44
37699152 GGAAATGGTG
* *
37699162 AATCTTATCTCCCTAATG-TTACAGTGGAGCAGATTAAAGCCAGA
1 AATCTTATCTCCCTGA-GATTACAGTGGAGCAGATTGAAGCCAGA
* * *
37699206 AATCTTATCTCCCTGAGATTACAG-CGAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * ***
37699249 AATCTTATCTCCCTGAAATTACAGTGGAGCGGATT-AAAATA-A
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
*
37699291 AGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGA
1 A--ATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAGCCAGA
* * *
37699347 AATCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * * * ***
37699391 AATCCTATCTCTCTGAGATTATAGTGGAGCGGATT-AAAATA-A
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
*
37699433 AGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGA
1 A--ATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAGCCAGA
* * * * *
37699489 AATGTTATCTCCCTGATATTACAGTGGAGCATATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * * ** * *** *
37699533 AATCCTATCTCCCTGAGATTATAATGGAGTGGATTAAAATAAAGG
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-GAAGCCAGA
* *
37699578 AA-CTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGT
1 AATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAGCCAGA
* * * *
37699631 AATCTTATCTCCCTGAGATTATAGCGGAGCAAATTGAAGCCAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * ***
37699675 AATCCTATTTCCCTGAGATTACAGTGGAGCAGATT-AAAATA-A
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * *
37699717 AGGAT-TTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATCAGATTGAAGCCAGA
1 A--ATCTTATCTCCCTG-AG--AT--TACAGT-G---G-AGCAGATTGAAGCCAGA
* * *
37699772 AATCTTATCTCCCTGAGATTATAGCGGAGCAGATTGAAGCCAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* *
37699816 AAT-TATATTTCCTTGAGATTACAGTGGA
1 AATCT-TATCTCCCTGAGATTACAGTGGA
37699844 ATAGACCGAA
Statistics
Matches: 481, Mismatches: 93, Indels: 128
0.69 0.13 0.18
Matches are distributed among these distances:
42 3 0.01
43 62 0.13
44 253 0.53
45 7 0.01
46 2 0.00
47 6 0.01
48 6 0.01
49 17 0.04
51 8 0.02
52 1 0.00
53 17 0.04
54 84 0.17
55 11 0.02
56 4 0.01
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
Found at i:37699446 original size:142 final size:142
Alignment explanation
Indices: 37699191--37699843 Score: 1040
Period size: 142 Copynumber: 4.6 Consensus size: 142
37699181 TACAGTGGAG
* *
37699191 CAGATTAAAGCCAGAAATCTTATCTCCCTGAGATTACAGC-GAGCAGATTGAAGCTAGTAATCTT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
*
37699255 ATCTCCCTGAAATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
37699320 AGTAGATCGCAT
131 AGTAGATCGCAT
* *
37699332 CAGATTGAAGCCAGAAATCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* *
37699397 ATCTCTCTGAGATTATAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
37699462 AGTAGATCGCAT
131 AGTAGATCGCAT
* * * *
37699474 CAGATTGAAGCCAGAAATGTTATCTCCCTGATATTACAGTGGAGCATATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* * * *
37699539 ATCTCCCTGAGATTATAATGGAGTGGATTAAAATAAAGGAACTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
37699604 AGTAGATCGCAT
131 AGTAGATCGCAT
* * * *
37699616 CAGATTGAAGCCAGTAATCTTATCTCCCTGAGATTATAGCGGAGCAAATTGAAGCCAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* * *
37699681 ATTTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGAT-TTATCTCTCTGAAGTTATAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
37699745 AGTAGATCGCAT
131 AGTAGATCGCAT
* * **
37699757 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTATAGCGGAGCAGATTGAAGCCAGTAATTAT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* *
37699822 ATTTCCTTGAGATTACAGTGGA
66 ATCTCCCTGAGATTACAGTGGA
37699844 ATAGACCGAA
Statistics
Matches: 477, Mismatches: 34, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
141 153 0.32
142 324 0.68
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (142 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
AGTAGATCGCAT
Found at i:37699951 original size:50 final size:50
Alignment explanation
Indices: 37699892--37700400 Score: 264
Period size: 50 Copynumber: 10.2 Consensus size: 50
37699882 GTAGTGGAAT
37699892 AGATTAAAGCCACAATGACGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAATGACGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * * * *
37699942 AGATTAAAGCTACAA-CAGCGAATCTTACTT-CTC-A-AGTGGTGCAG-CAGAAC
1 AGATTAAAGCCACAATGA-CGAATCTTGCTTCCCCGACA-T--TGCAGTTA-AAA
* ** * * *
37699992 AGATTAAAGCGAC-ATCGGTGAATGTTGCTTCCCCAATATTGCAGTTAAAA
1 AGATTAAAGCCACAAT-GACGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * ** ** * * * ** *
37700042 AGGTTAAAGGCACAGCGGTGAATCTTGCCTCCCAGGC-TATGCAGTGGAAC
1 AGATTAAAGCCACAATGACGAATCTTGCTTCCCCGACAT-TGCAGTTAAAA
** * * * * * ** ** *
37700092 AGATTAAAGATACAGT-AGCGAATCTTACCTCCCAGGCGGTGCAGTGGAAC
1 AGATTAAAGCCACAATGA-CGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* **
37700142 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAATGACGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * * * * ** *
37700192 AGATTAAAGCTATAACGACGAATCTTAC-TCCCCAGGCAGTGCAGTGGAAC
1 AGATTAAAGCCACAATGACGAATCTTGCTTCCCC-GACATTGCAGTTAAAA
* * * *
37700242 ATATTAAAGCCA-TATCAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAATGA-CGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * * * ** * ** ** *
37700292 GGATTAAAGCTATAACGGCGAATCTTATTTCCCCGGCGGTGCAGTGGAAC
1 AGATTAAAGCCACAATGACGAATCTTGCTTCCCCGACATTGCAGTTAAAA
*
37700342 AGATTAAAGCCACAATGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAATGACGAATCTTGCTTCCCCGACATTGCAGTTAAAA
37700392 AGATTAAAG
1 AGATTAAAG
37700401 TTGCGAGTTA
Statistics
Matches: 337, Mismatches: 102, Indels: 40
0.70 0.21 0.08
Matches are distributed among these distances:
47 1 0.00
48 2 0.01
49 13 0.04
50 309 0.92
51 9 0.03
52 2 0.01
53 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (50 bp):
AGATTAAAGCCACAATGACGAATCTTGCTTCCCCGACATTGCAGTTAAAA
Found at i:37700185 original size:100 final size:97
Alignment explanation
Indices: 37700045--37700400 Score: 421
Period size: 100 Copynumber: 3.6 Consensus size: 97
37700035 GTTAAAAAGG
* * * * * ** *
37700045 TTAAAGGCACAGCGGTGAATCTTGCCTCCCAGGC-TATGCAGTGGAACAGATTAAAGATACAGTA
1 TTAAAGCCACAACGGTGAATCTTGCTTCCCCGACAT-TGCAGTTAAAAAGATTAAAGATA-AG-A
37700109 GCGAATCTTACCTCCCAGGCGGTGCAGTGGAACAGA
63 GCGAATCTTA-CTCCCAGGCGGTGCAGTGGAACAGA
37700145 TTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTATAACGA
1 TTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAG--ATAA-GA
* *
37700210 -CGAATCTTACTCCCCAGGCAGTGCAGTGGAACATA
63 GCGAATCTTACT-CCCAGGCGGTGCAGTGGAACAGA
* * * *
37700245 TTAAAGCCATATCAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAGGATTAAAGCTATAACG-
1 TTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAG--ATAA-GA
* *
37700309 GCGAATCTTATTTCCCCGGCGGTGCAGTGGAACAGA
63 GCGAATCTTA-CTCCCAGGCGGTGCAGTGGAACAGA
* *
37700345 TTAAAGCCACAATGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAG
1 TTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAG
37700401 TTGCGAGTTA
Statistics
Matches: 225, Mismatches: 24, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
99 2 0.01
100 215 0.96
101 4 0.02
102 4 0.02
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (97 bp):
TTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGATAAGAGCG
AATCTTACTCCCAGGCGGTGCAGTGGAACAGA
Found at i:37700215 original size:150 final size:149
Alignment explanation
Indices: 37699892--37700250 Score: 398
Period size: 150 Copynumber: 2.4 Consensus size: 149
37699882 GTAGTGGAAT
* * * * * ** * *
37699892 AGATTAAAGCCACAATGACGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAA
1 AGATTAAAG-CACAACGACGAATCTTGCCTCCCAGGCAGTGCAGTGGAACAGATTAAAGATACAA
* * * * * *
37699957 CAGCGAATCTTACTTCTCAAGTGGTGCAGCAGAACAGATTAAAGCGACATCGGTGAATGTTGCTT
65 CAGCGAATCTTACCTCCCAAGCGGTGCAGCAGAACAGATTAAAGCCACAACGGTGAATCTTGCTT
*
37700022 CCCCAATATTGCAGTTAAAA
130 CCCCAACATTGCAGTTAAAA
* * **
37700042 AGGTTAAAGGCACAGCGGTGAATCTTGCCTCCCAGGCTA-TGCAGTGGAACAGATTAAAGATACA
1 AGATTAAA-GCACAACGACGAATCTTGCCTCCCAGGC-AGTGCAGTGGAACAGATTAAAGATACA
** * **
37700106 GTAGCGAATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCT
64 ACAGCGAATCTTACCTCCCAAGCGGTGCAGCAGAACAGATTAAAGCCACAACGGTGAATCTTGCT
*
37700171 TCCCCGACATTGCAGTTAAAA
129 TCCCCAACATTGCAGTTAAAA
* * *
37700192 AGATTAAAGCTATAACGACGAATCTT-ACTCCCCAGGCAGTGCAGTGGAACATATTAAAG
1 AGATTAAAGC-ACAACGACGAATCTTGCCT-CCCAGGCAGTGCAGTGGAACAGATTAAAG
37700251 CCATATCAGT
Statistics
Matches: 172, Mismatches: 32, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
149 5 0.03
150 165 0.96
151 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (149 bp):
AGATTAAAGCACAACGACGAATCTTGCCTCCCAGGCAGTGCAGTGGAACAGATTAAAGATACAAC
AGCGAATCTTACCTCCCAAGCGGTGCAGCAGAACAGATTAAAGCCACAACGGTGAATCTTGCTTC
CCCAACATTGCAGTTAAAA
Found at i:37700285 original size:150 final size:147
Alignment explanation
Indices: 37699988--37700367 Score: 336
Period size: 150 Copynumber: 2.5 Consensus size: 147
37699978 TGGTGCAGCA
* * * * * *
37699988 GAACAGATTAAAGCGACATCGGTGAATGTTGCTTCCCCAATATTGCAGTTAAAAAGGTTAAAGGC
1 GAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGGC
* ** *
37700053 ACAGCGGTGAATCTTGCCTCCCAGGCTATGCAGTGGAACAGATTAAAGATACAGTAGCGAATCTT
66 ACAACGACGAATCTTACCTCCCAGGCTATGCAGTGGAACAGATTAAAGATACAGTA--GAATCTT
* *
37700118 ACCTCCCAGGCGGTGCAGT
129 ACCTCCCAGACAGTGCAGT
37700137 GGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAA-G
1 -GAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGG
* *
37700201 CTATAACGACGAATCTTA-CTCCCCAGGC-AGTGCAGTGGAACATATTAAAGCCATATCAGT-GA
65 C-ACAACGACGAATCTTACCT-CCCAGGCTA-TGCAGTGGAACAGATTAAAG--ATA-CAGTAGA
* * * *
37700263 ATCTTGCTTCCCCGACATTGCAGT
124 ATCTTACCTCCCAGACAGTGCAGT
* * * * * ** * ** ** * *
37700287 TAAAAGGATTAAAGCTATAACGGCGAATCTTATTTCCCCGGCGGTGCAGTGGAACAGATTAAAGC
1 GAACA-GATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGG
* *
37700352 CACAATGGCGAATCTT
65 CACAACGACGAATCTT
37700368 GCTTCCCCGA
Statistics
Matches: 187, Mismatches: 35, Indels: 16
0.79 0.15 0.07
Matches are distributed among these distances:
149 8 0.04
150 171 0.91
151 1 0.01
152 3 0.02
153 4 0.02
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.23
Consensus pattern (147 bp):
GAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGGC
ACAACGACGAATCTTACCTCCCAGGCTATGCAGTGGAACAGATTAAAGATACAGTAGAATCTTAC
CTCCCAGACAGTGCAGT
Found at i:37701144 original size:25 final size:25
Alignment explanation
Indices: 37701090--37701144 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
37701080 GTGAATAGGA
* *
37701090 ATTTTGCTTTGCTTTTCTGAGTTTTC
1 ATTTTGCTTTCCTTTTCTGAG-TTCC
37701116 -TTTTGCTTTCCCTTTTCTGA-TTCC
1 ATTTTGCTTT-CCTTTTCTGAGTTCC
37701140 ATTTT
1 ATTTT
37701145 TTTACTCTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
24 3 0.12
25 13 0.52
26 9 0.36
ACGTcount: A:0.07, C:0.20, G:0.11, T:0.62
Consensus pattern (25 bp):
ATTTTGCTTTCCTTTTCTGAGTTCC
Found at i:37701489 original size:367 final size:364
Alignment explanation
Indices: 37701021--37701760 Score: 1189
Period size: 370 Copynumber: 2.0 Consensus size: 364
37701011 TAAAGGCCCT
*
37701021 TTTTTTTACGCATATTGAATAGAAGAAATAGAAAAATATTCAGAGAAAAAAATCGAAAGGTGAAT
1 TTTTTTTACGCATATTGAATACAAGAAATAGAAAAATATTCAGAGAAAAAAATCGAAAGGTGAAT
* * * * *
37701086 AGGAATTTTGCTTTGCTTTTCTGAGTTTTCTTTTGCTTTCCCTTTTCTGATTCCATTTTTTTACT
66 AGGAATTTTGCTTTACTTTTCTAAGTTTTCTTTTGCTTTCCCTTCTCTGATTCCATTTCTTTACC
* * * *
37701151 CTGTGGTTCATCATTCGTGCACGATA-T-TAAAAAA-AAAGGTAGTAGAGTGTGCAGAGGTTACC
131 CTGTGGTTCATCATTCGTGCACGATACTAAAAAAAATAAAGATACTAAAGTGTGCAGAGGTTACC
* *
37701213 TGGTGGTCGGTTCTTCATTTTCTCCGTCGCAATCGGAGTAGGACGAGAACATAGTGGCCCTTGAA
196 TGGTGGCCGGCTCTTCATTTTCTCCGTCGCAATCGGAGTAGGACGAGAACATAGTGGCCCTTGAA
37701278 TGGCCAGTGTTGCGAATGGCGGCAGAAGCTAGGACTAAACCCTAGCAGAGAAAAGGGCAGCAATC
261 TGGCCAGTGTTGCGAATGGCGGCAGAAGCTAGGACTAAACCCTAGCAGAGAAAAGGGCAGCAATC
37701343 CTTTTTCTGGAAAACATATGCTGCTTCCTTTTTTTTAGAAATA
326 CTTTTTCTGGAAAACATATGCTGC-T--TTTTTTTT-GAAATA
*
37701386 TTTTTTTACGCATATTGAATTCAAGAAATAGAAAAATATTCAGAGAAAAAAAAATCGAAAGGTGA
1 TTTTTTTACGCATATTGAATACAAGAAATAGAAAAATATTCAGAG--AAAAAAATCGAAAGGTGA
*
37701451 ATAGGAATTTTTCTTTACTTTTCTAAGTTTTCTTTTGCTTTCCCTTCTCTGATTCCATTTCTTTA
64 ATAGGAATTTTGCTTTACTTTTCTAAGTTTTCTTTTGCTTTCCCTTCTCTGATTCCATTTCTTTA
*
37701516 CCCTGTGGTTCATCATTCGTGGACGATACTAAAAAAAATAAAGATACTAAAGTGTGCAGAGGTTA
129 CCCTGTGGTTCATCATTCGTGCACGATACTAAAAAAAATAAAGATACTAAAGTGTGCAGAGGTTA
* * * *
37701581 CCTGGTGGCCGGCTCTTCATTTTCTCCGTCGCAATCGGAGTAGGATGAGGACATAGTGGTCTTTG
194 CCTGGTGGCCGGCTCTTCATTTTCTCCGTCGCAATCGGAGTAGGACGAGAACATAGTGGCCCTTG
*
37701646 AATGGCCAGTGTTGCGAATGGCGGCAGAAGCTAGGGCTAAACCCTAGCAGAGAAAAGGGCAGCAA
259 AATGGCCAGTGTTGCGAATGGCGGCAGAAGCTAGGACTAAACCCTAGCAGAGAAAAGGGCAGCAA
* * *
37701711 TCTTTTTTCTGTAAAACATATGTTGCTTTTTTTTTGAAATA
324 TCCTTTTTCTGGAAAACATATGCTGCTTTTTTTTTGAAATA
37701752 TTTTGTTTA
1 TTTT-TTTA
37701761 AATAATAAGA
Statistics
Matches: 346, Mismatches: 23, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
365 43 0.12
366 10 0.03
367 116 0.34
368 1 0.00
369 7 0.02
370 169 0.49
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (364 bp):
TTTTTTTACGCATATTGAATACAAGAAATAGAAAAATATTCAGAGAAAAAAATCGAAAGGTGAAT
AGGAATTTTGCTTTACTTTTCTAAGTTTTCTTTTGCTTTCCCTTCTCTGATTCCATTTCTTTACC
CTGTGGTTCATCATTCGTGCACGATACTAAAAAAAATAAAGATACTAAAGTGTGCAGAGGTTACC
TGGTGGCCGGCTCTTCATTTTCTCCGTCGCAATCGGAGTAGGACGAGAACATAGTGGCCCTTGAA
TGGCCAGTGTTGCGAATGGCGGCAGAAGCTAGGACTAAACCCTAGCAGAGAAAAGGGCAGCAATC
CTTTTTCTGGAAAACATATGCTGCTTTTTTTTTGAAATA
Found at i:37705142 original size:3 final size:3
Alignment explanation
Indices: 37705130--37705192 Score: 74
Period size: 3 Copynumber: 21.3 Consensus size: 3
37705120 AGGTAAATTG
* * * * *
37705130 ATA A-A ATA ATA ATA ATA CTA ATA ATA ATA ATA GTA GTA GTA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
37705177 ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
37705193 CAAGAGTATT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
2 2 0.04
3 53 0.96
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:37707093 original size:51 final size:51
Alignment explanation
Indices: 37707010--37707109 Score: 128
Period size: 51 Copynumber: 2.0 Consensus size: 51
37707000 GACAATATTC
* * * *
37707010 GCTTTAATCTATCCCATTGCAATGCCAGGGAAACAATATTCGCTACCTTTA
1 GCTTTAATCTATCCCACTGCAACGCCAAGGAAACAAGATTCGCTACCTTTA
* * * *
37707061 GCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTTGCTACCTT
1 GCTTTAATCTATCCCACTGCAACGCCAAGGAAACAAGATTCGCTACCTT
37707110 CAGTCTTAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (51 bp):
GCTTTAATCTATCCCACTGCAACGCCAAGGAAACAAGATTCGCTACCTTTA
Found at i:37707206 original size:87 final size:87
Alignment explanation
Indices: 37707030--37707196 Score: 226
Period size: 87 Copynumber: 1.9 Consensus size: 87
37707020 ATCCCATTGC
* * * ** * *
37707030 AATGCCAGGGAAACAATATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAAT
1 AATGCCAGGGAAACAACATTCACTACCTTCAGCTTTAATCTACTCCACTGCAACACCAAGGAAAC
37707095 AAGATTTGCTACCTTCAGTCTT
66 AAGATTTGCTACCTTCAGTCTT
* * * * *
37707117 AATGTCAGGGAAACAACATTCACTGCCTTCAGCTTTAATCTACTCCGCTGCAACATCAGGGAAAC
1 AATGCCAGGGAAACAACATTCACTACCTTCAGCTTTAATCTACTCCACTGCAACACCAAGGAAAC
37707182 AAGATTTGCTACCTT
66 AAGATTTGCTACCTT
37707197 TAGCTTTAAT
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
87 68 1.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (87 bp):
AATGCCAGGGAAACAACATTCACTACCTTCAGCTTTAATCTACTCCACTGCAACACCAAGGAAAC
AAGATTTGCTACCTTCAGTCTT
Found at i:37707362 original size:123 final size:124
Alignment explanation
Indices: 37707143--37707883 Score: 548
Period size: 123 Copynumber: 5.8 Consensus size: 124
37707133 CATTCACTGC
* * *
37707143 CTTCAGCTTTAATCTACTCCGCTGCAACA-TCAGGGAAACAAGATTTGCTACCTTTAGCTTTAAT
1 CTTCAGCTTTAATCTATTCCACTGCAACACTCAGGGAAACAAGATTCGCTACCTTTAGCTTTAAT
* * * * * *
37707207 CTATTCTAATGTAACGCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCACTCCA
66 CTATTCCACTGCAACGCCAAAGAAATAAGATTCGCTGCCTTCAGCTTTAATCCACTCCA
* *
37707266 CTTCAGCTTTACTCTATTCCACTGCAACACT-AGAGAAACAAGATTCGCTA-CTCTTAGCTTTAA
1 CTTCAGCTTTAATCTATTCCACTGCAACACTCAGGGAAACAAGATTCGCTACCT-TTAGCTTTAA
* * * ** * *
37707329 TCTGTTCTACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTTAG-TCTTAACGCCAGGGAGATA
65 TCTATTCCACTGCAACGCCAAAGAAATAAGATTCGCTGCCTTCAGCT-TTAA-TCC---------
*
37707393 AGATTTGCTGC-
119 --A----CTCCA
* ** * *
37707404 CTTCCGCTTTAATCTGCTCCACTGCAACA-TCAGGGCAATAAGATTCGCTACCTTTAGCTTTAAT
1 CTTCAGCTTTAATCTATTCCACTGCAACACTCAGGGAAACAAGATTCGCTACCTTTAGCTTTAAT
* * * **
37707468 CTATTCCACTGCAACGCCAAAGAGATAAGATTCACTGCCTTCAGTTTTAATCTGCTCCA
66 CTATTCCACTGCAACGCCAAAGAAATAAGATTCGCTGCCTTCAGCTTTAATCCACTCCA
** * *
37707527 CTTCAGCTTTAATCTATTCCACAACAACGC-CAGGGAAACAAGATTCGCTA-ATCTTAGCTTTAA
1 CTTCAGCTTTAATCTATTCCACTGCAACACTCAGGGAAACAAGATTCGCTACCT-TTAGCTTTAA
* * ** * * * * *
37707590 TCTGTTCTACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGCCTTAACACCAAGGAGATAA
65 TCTATTCCACTGCAACGCCAAAGAAATAAGATTCGCTGCCTTCAGCTTTAA-TCC----A-CT-C
*
37707655 GA
123 CA
* ** ** * * *
37707657 TTTGTTGCCTTTAGCTTGGATCTGCTCCACTGCAAC-GTCAGGGAAATAAGATTTGCTACCTTTA
1 --------CTTCAGCTTTAATCTATTCCACTGCAACACTCAGGGAAACAAGATTCGCTACCTTTA
* * * *
37707721 TCTTTAATCTGTTCCACTGCAACACCAAAGAAATAAGATTCGCTGCCTTCAGCTTTAATCCGCTC
58 GCTTTAATCTATTCCACTGCAACGCCAAAGAAATAAGATTCGCTGCCTTCAGCTTTAATCCACTC
37707786 CA
123 CA
* * * *
37707788 CTTCAGCTCTAATCTATTCCACTGGAACGCT-AGGGAAACAAGATTTGCTACCTTTAGCTTTAAT
1 CTTCAGCTTTAATCTATTCCACTGCAACACTCAGGGAAACAAGATTCGCTACCTTTAGCTTTAAT
* * *
37707852 CAATTCCACTACAACGCCAGAGAAATAAGATT
66 CTATTCCACTGCAACGCCAAAGAAATAAGATT
37707884 ATTGGCTTTA
Statistics
Matches: 479, Mismatches: 96, Indels: 86
0.72 0.15 0.13
Matches are distributed among these distances:
122 7 0.01
123 266 0.56
124 5 0.01
129 1 0.00
130 1 0.00
131 1 0.00
132 1 0.00
135 1 0.00
137 4 0.01
138 185 0.39
139 7 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (124 bp):
CTTCAGCTTTAATCTATTCCACTGCAACACTCAGGGAAACAAGATTCGCTACCTTTAGCTTTAAT
CTATTCCACTGCAACGCCAAAGAAATAAGATTCGCTGCCTTCAGCTTTAATCCACTCCA
Found at i:37707464 original size:51 final size:51
Alignment explanation
Indices: 37707387--37707528 Score: 160
Period size: 51 Copynumber: 2.8 Consensus size: 51
37707377 TAACGCCAGG
* * * **
37707387 GAGATAAGATTTGCTGCCTTCCGCTTTAATCTGCTCCACTGCAACATCAGG
1 GAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACACCAAA
* * ** *
37707438 GCA-ATAAGATTCGCTACCTTTAGCTTTAATCTATTCCACTGCAACGCCAAA
1 G-AGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACACCAAA
* *
37707489 GAGATAAGATTCACTGCCTTCAGTTTTAATCTGCTCCACT
1 GAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACT
37707529 TCAGCTTTAA
Statistics
Matches: 73, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
50 1 0.01
51 71 0.97
52 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (51 bp):
GAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACACCAAA
Found at i:37707508 original size:261 final size:261
Alignment explanation
Indices: 37707010--37707883 Score: 1176
Period size: 261 Copynumber: 3.3 Consensus size: 261
37707000 GACAATATTC
* * * * *
37707010 GCTTTAATCTATCCCATTGCAATGCCAGGGAAACAATATTCGCTACCTTTAGCTTTAATCTGTTC
1 GCTTTAATCTATTCCACTGCAACGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTC
* * * * * * * **
37707075 CACTGCAACGCCAAGGAAATAAGATTTGCTACCTTCAGTCTTAATGTCAGGGAAACAACATTCAC
66 CACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGTCTTAACGCCAGGGAGATAAGATTTGC
* * *
37707140 TGCCTTCAGCTTTAATCTACTCCGCTGCAACATCAGGGAAACAAGATTTGCTACCTTTAGCTTTA
131 TGCCTTCAGCTTTAATCTGCTCCACTGCAACATCAGGGAAATAAGATTTGCTACCTTTAGCTTTA
* * * * * *
37707205 ATCTATTCTAATGTAACGCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCACTCCACTTC
196 ATCTATTCCACTGCAACGCCAAAGAGATAAGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTTC
37707270 A
261 A
* * *
37707271 GCTTTACTCTATTCCACTGCAACACTAGAGAAACAAGATTCGCTA-CTCTTAGCTTTAATCTGTT
1 GCTTTAATCTATTCCACTGCAACGCTAGGGAAACAAGATTCGCTACCT-TTAGCTTTAATCTGTT
* * * *
37707335 CTACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTTAGTCTTAACGCCAGGGAGATAAGATTTG
65 CCACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGTCTTAACGCCAGGGAGATAAGATTTG
* * *
37707400 CTGCCTTCCGCTTTAATCTGCTCCACTGCAACATCAGGGCAATAAGATTCGCTACCTTTAGCTTT
130 CTGCCTTCAGCTTTAATCTGCTCCACTGCAACATCAGGGAAATAAGATTTGCTACCTTTAGCTTT
* * *
37707465 AATCTATTCCACTGCAACGCCAAAGAGATAAGATTCACTGCCTTCAGTTTTAATCTGCTCCACTT
195 AATCTATTCCACTGCAACGCCAAAGAGATAAGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTT
37707530 CA
260 CA
** * *
37707532 GCTTTAATCTATTCCACAACAACGCCAGGGAAACAAGATTCGCTA-ATCTTAGCTTTAATCTGTT
1 GCTTTAATCTATTCCACTGCAACGCTAGGGAAACAAGATTCGCTACCT-TTAGCTTTAATCTGTT
* * * *
37707596 CTACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGCCTTAACACCAAGGAGATAAGATTTG
65 CCACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGTCTTAACGCCAGGGAGATAAGATTTG
* * ** * *
37707661 TTGCCTTTAGCTTGGATCTGCTCCACTGCAACGTCAGGGAAATAAGATTTGCTACCTTTATCTTT
130 CTGCCTTCAGCTTTAATCTGCTCCACTGCAACATCAGGGAAATAAGATTTGCTACCTTTAGCTTT
* * *
37707726 AATCTGTTCCACTGCAACACCAAAGAAATAAGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTT
195 AATCTATTCCACTGCAACGCCAAAGAGATAAGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTT
37707791 CA
260 CA
* * * **
37707793 GCTCTAATCTATTCCACTGGAACGCTAGGGAAACAAGATTTGCTACCTTTAGCTTTAATCAATTC
1 GCTTTAATCTATTCCACTGCAACGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTC
* *
37707858 CACTACAACGCCAGAGAAATAAGATT
66 CACTGCAACGCCAGGGAAATAAGATT
37707884 ATTGGCTTTA
Statistics
Matches: 535, Mismatches: 76, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
260 2 0.00
261 532 0.99
262 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (261 bp):
GCTTTAATCTATTCCACTGCAACGCTAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTC
CACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGTCTTAACGCCAGGGAGATAAGATTTGC
TGCCTTCAGCTTTAATCTGCTCCACTGCAACATCAGGGAAATAAGATTTGCTACCTTTAGCTTTA
ATCTATTCCACTGCAACGCCAAAGAGATAAGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTTC
A
Found at i:37707547 original size:21 final size:21
Alignment explanation
Indices: 37707506--37707548 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
37707496 GATTCACTGC
* *
37707506 CTTCAGTTTTAATCTGCTCCA
1 CTTCAGCTTTAATCTACTCCA
*
37707527 CTTCAGCTTTAATCTATTCCA
1 CTTCAGCTTTAATCTACTCCA
37707548 C
1 C
37707549 AACAACGCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.30, G:0.07, T:0.42
Consensus pattern (21 bp):
CTTCAGCTTTAATCTACTCCA
Found at i:37707589 original size:72 final size:72
Alignment explanation
Indices: 37707459--37707593 Score: 164
Period size: 72 Copynumber: 1.9 Consensus size: 72
37707449 CGCTACCTTT
** * * * *
37707459 AGCTTTAATCTATTCCACTGCAACGCCAAAGAGATAAGATTCACTGCCTTCAGTTTTAATCTGCT
1 AGCTTTAATCTATTCCACAACAACGCCAAAGAAACAAGATTCACTACCTTCAGCTTTAATCTGCT
37707524 CCACTTC
66 CCACTTC
** * *
37707531 AGCTTTAATCTATTCCACAACAACGCCAGGGAAACAAGATTCGCTAATCTT-AGCTTTAATCTG
1 AGCTTTAATCTATTCCACAACAACGCCAAAGAAACAAGATTCACT-ACCTTCAGCTTTAATCTG
37707594 TTCTACTGCA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
72 49 0.94
73 3 0.06
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.30
Consensus pattern (72 bp):
AGCTTTAATCTATTCCACAACAACGCCAAAGAAACAAGATTCACTACCTTCAGCTTTAATCTGCT
CCACTTC
Found at i:37707731 original size:51 final size:51
Alignment explanation
Indices: 37707639--37707789 Score: 167
Period size: 51 Copynumber: 3.0 Consensus size: 51
37707629 CTTCAGCCTT
* * * **
37707639 AACACCAAGGAGATAAGATTTGTTGCCTTTAGCTTGGATCTGCTCCACTGC
1 AACACCAAAGAAATAAGATTTGCTGCCTTTAGCTTTAATCTGCTCCACTGC
** ** * * *
37707690 AACGTCAGGGAAATAAGATTTGCTACCTTTATCTTTAATCTGTTCCACTGC
1 AACACCAAAGAAATAAGATTTGCTGCCTTTAGCTTTAATCTGCTCCACTGC
* * *
37707741 AACACCAAAGAAATAAGATTCGCTGCCTTCAGCTTTAATCCGCTCCACT
1 AACACCAAAGAAATAAGATTTGCTGCCTTTAGCTTTAATCTGCTCCACT
37707790 TCAGCTCTAA
Statistics
Matches: 80, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 80 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (51 bp):
AACACCAAAGAAATAAGATTTGCTGCCTTTAGCTTTAATCTGCTCCACTGC
Found at i:37708277 original size:24 final size:24
Alignment explanation
Indices: 37708245--37708296 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
37708235 AGATTGCCCT
* *
37708245 CACTGTAATCTTCAAGGTTTAATC
1 CACTGTAATCTTCAAAGTTCAATC
37708269 CACTGTAATCTTCAAAGTTCAATC
1 CACTGTAATCTTCAAAGTTCAATC
37708293 CACT
1 CACT
37708297 ATCATTTTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.35
Consensus pattern (24 bp):
CACTGTAATCTTCAAAGTTCAATC
Found at i:37719562 original size:5 final size:5
Alignment explanation
Indices: 37719552--37719576 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
37719542 AAGTTCGAAG
37719552 AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA
37719577 TGCAACAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:37720670 original size:16 final size:15
Alignment explanation
Indices: 37720645--37720674 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
37720635 CAACTTCTGA
37720645 TTCGGATTGGGCTGT
1 TTCGGATTGGGCTGT
37720660 TTCGTGATTGGGCTG
1 TTCG-GATTGGGCTG
37720675 ATGGTTAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.07, C:0.13, G:0.40, T:0.40
Consensus pattern (15 bp):
TTCGGATTGGGCTGT
Found at i:37721190 original size:44 final size:44
Alignment explanation
Indices: 37721094--37721211 Score: 130
Period size: 44 Copynumber: 2.7 Consensus size: 44
37721084 ACTTGATGCG
* * * * *
37721094 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATGAATTCA
* * *
37721138 ATCCGCTCCACTACAACTTCAGGGAGATAGGAT-TATCGAATTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAT-GAATTCA
* *
37721182 ATCTGCTCCACTGCCACGTCAGGGAGATAA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAA
37721212 AATTTGCTTC
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 3 0.05
44 57 0.95
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATGAATTCA
Found at i:37721231 original size:44 final size:43
Alignment explanation
Indices: 37721183--37721299 Score: 101
Period size: 44 Copynumber: 2.7 Consensus size: 43
37721173 TCGAATTCAA
* *
37721183 TCTGCTCCACTGCCACGTCAGGGAGATAAAATTTGCTTCT-TAAG
1 TCTGCTCCACTGCAAC-TCAGGGAGATAAAACTTG-TTCTCTAAG
* ** * * * *
37721227 TCTGCCCCACTGTGACTTCAGGGGGATAATACTTGTTTTCTCAG
1 TCTGCTCCACTGCAAC-TCAGGGAGATAAAACTTGTTCTCTAAG
*
37721271 TCTGCTCCGCTGCAACTACAGGGAGATAA
1 TCTGCTCCACTGCAACT-CAGGGAGATAA
37721300 GACCCGATGC
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
43 4 0.07
44 53 0.93
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTCAGGGAGATAAAACTTGTTCTCTAAG
Found at i:37738269 original size:12 final size:12
Alignment explanation
Indices: 37738254--37738279 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37738244 TATTCATGAA
37738254 TTTATACATTCT
1 TTTATACATTCT
37738266 TTTATACATTCT
1 TTTATACATTCT
37738278 TT
1 TT
37738280 GGTACTTGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTATACATTCT
Found at i:37741315 original size:44 final size:44
Alignment explanation
Indices: 37741249--37741932 Score: 312
Period size: 44 Copynumber: 14.6 Consensus size: 44
37741239 GGAAATGGTG
* *
37741249 AATCTTATCTCCCTAATG-TTACAGTGGAGCAGATTAAAGCCAGA
1 AATCTTATCTCCCTGA-GATTACAGTGGAGCAGATTGAAGCCAGA
* * *
37741293 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * ***
37741337 AATCTTATCTCCCTGAAATTACAGTGGAGCGGATT-AAAATA-A
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
*
37741379 AGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGA
1 A--ATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAGCCAGA
* * *
37741435 AATCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * * * ***
37741479 AATCCTATCTCTCTGAGATTATAGTGGAGCGGATT-AAAATA-A
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
*
37741521 AGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGA
1 A--ATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAGCCAGA
* * * * *
37741577 AATGTTATCTCCCTGATATTACAGTGGAGCATATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * * ** * *** *
37741621 AATCCTATCTCCCTGAGATTATAATGGAGTGGATTAAAATAAAGG
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-GAAGCCAGA
* *
37741666 AA-CTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGT
1 AATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAGCCAGA
* * * *
37741719 AATCTTATCTCCCTGAGATTATAGCGGAGCAAATTGAAGCCAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * ***
37741763 AATCCTATTTCCCTGAGATTACAGTGGAGCAGATT-AAAATA-A
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* * *
37741805 AGGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATCAGATTGAAGCCAGA
1 A--ATCTTATCTCCCTG-AG--AT--TACAGT-G---G-AGCAGATTGAAGCCAGA
* * *
37741861 AATCTTATCTCCCTGAGATTATAGCGGAGCAGATTGAAGCCAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
* *
37741905 AAT-TATATTTCCTTGAGATTACAGTGGA
1 AATCT-TATCTCCCTGAGATTACAGTGGA
37741933 ATAGACCGAA
Statistics
Matches: 485, Mismatches: 93, Indels: 124
0.69 0.13 0.18
Matches are distributed among these distances:
42 3 0.01
43 16 0.03
44 300 0.62
45 9 0.02
47 8 0.02
48 1 0.00
49 21 0.04
50 1 0.00
51 8 0.02
53 9 0.02
54 91 0.19
55 12 0.02
56 6 0.01
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGA
Found at i:37741454 original size:142 final size:142
Alignment explanation
Indices: 37741278--37741932 Score: 1058
Period size: 142 Copynumber: 4.6 Consensus size: 142
37741268 TACAGTGGAG
* *
37741278 CAGATTAAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCTT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
*
37741343 ATCTCCCTGAAATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
37741408 AGTAGATCGCAT
131 AGTAGATCGCAT
* *
37741420 CAGATTGAAGCCAGAAATCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* *
37741485 ATCTCTCTGAGATTATAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
37741550 AGTAGATCGCAT
131 AGTAGATCGCAT
* * * *
37741562 CAGATTGAAGCCAGAAATGTTATCTCCCTGATATTACAGTGGAGCATATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* * * *
37741627 ATCTCCCTGAGATTATAATGGAGTGGATTAAAATAAAGGAACTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
37741692 AGTAGATCGCAT
131 AGTAGATCGCAT
* * * *
37741704 CAGATTGAAGCCAGTAATCTTATCTCCCTGAGATTATAGCGGAGCAAATTGAAGCCAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* * *
37741769 ATTTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGTAG
66 ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
37741834 AGTAGATCGCAT
131 AGTAGATCGCAT
* * **
37741846 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTATAGCGGAGCAGATTGAAGCCAGTAATTAT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* *
37741911 ATTTCCTTGAGATTACAGTGGA
66 ATCTCCCTGAGATTACAGTGGA
37741933 ATAGACCGAA
Statistics
Matches: 479, Mismatches: 34, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
142 479 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (142 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
ATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
AGTAGATCGCAT
Found at i:37742040 original size:50 final size:50
Alignment explanation
Indices: 37741981--37742489 Score: 264
Period size: 50 Copynumber: 10.2 Consensus size: 50
37741971 GTAGTGGAAT
37741981 AGATTAAAGCCACAATGACGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAATGACGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * * * *
37742031 AGATTAAAGCTACAA-CAGCGAATCTTACTT-CTC-A-AGTGGTGCAG-CAGAAC
1 AGATTAAAGCCACAATGA-CGAATCTTGCTTCCCCGACA-T--TGCAGTTA-AAA
* ** * * *
37742081 AGATTAAAGCGAC-ATCGGTGAATGTTGCTTCCCCAATATTGCAGTTAAAA
1 AGATTAAAGCCACAAT-GACGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * ** ** * * * ** *
37742131 AGGTTAAAGGCACAGCGGTGAATCTTGCCTCCCAGGC-TATGCAGTGGAAC
1 AGATTAAAGCCACAATGACGAATCTTGCTTCCCCGACAT-TGCAGTTAAAA
** * * * * * ** ** *
37742181 AGATTAAAGATACAGT-AGCGAATCTTACCTCCCAGGCGGTGCAGTGGAAC
1 AGATTAAAGCCACAATGA-CGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* **
37742231 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAATGACGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * * * * ** *
37742281 AGATTAAAGCTATAACGACGAATCTTAC-TCCCCAGGCAGTGCAGTGGAAC
1 AGATTAAAGCCACAATGACGAATCTTGCTTCCCC-GACATTGCAGTTAAAA
* * * *
37742331 ATATTAAAGCCA-TATCAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAATGA-CGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * * * ** * ** ** *
37742381 GGATTAAAGCTATAACGGCGAATCTTATTTCCCCGGCGGTGCAGTGGAAC
1 AGATTAAAGCCACAATGACGAATCTTGCTTCCCCGACATTGCAGTTAAAA
*
37742431 AGATTAAAGCCACAATGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAATGACGAATCTTGCTTCCCCGACATTGCAGTTAAAA
37742481 AGATTAAAG
1 AGATTAAAG
37742490 TTGCGAGTTA
Statistics
Matches: 337, Mismatches: 102, Indels: 40
0.70 0.21 0.08
Matches are distributed among these distances:
47 1 0.00
48 2 0.01
49 13 0.04
50 309 0.92
51 9 0.03
52 2 0.01
53 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (50 bp):
AGATTAAAGCCACAATGACGAATCTTGCTTCCCCGACATTGCAGTTAAAA
Found at i:37742274 original size:100 final size:97
Alignment explanation
Indices: 37742134--37742489 Score: 421
Period size: 100 Copynumber: 3.6 Consensus size: 97
37742124 GTTAAAAAGG
* * * * * ** *
37742134 TTAAAGGCACAGCGGTGAATCTTGCCTCCCAGGC-TATGCAGTGGAACAGATTAAAGATACAGTA
1 TTAAAGCCACAACGGTGAATCTTGCTTCCCCGACAT-TGCAGTTAAAAAGATTAAAGATA-AG-A
37742198 GCGAATCTTACCTCCCAGGCGGTGCAGTGGAACAGA
63 GCGAATCTTA-CTCCCAGGCGGTGCAGTGGAACAGA
37742234 TTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTATAACGA
1 TTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAG--ATAA-GA
* *
37742299 -CGAATCTTACTCCCCAGGCAGTGCAGTGGAACATA
63 GCGAATCTTACT-CCCAGGCGGTGCAGTGGAACAGA
* * * *
37742334 TTAAAGCCATATCAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAGGATTAAAGCTATAACG-
1 TTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAG--ATAA-GA
* *
37742398 GCGAATCTTATTTCCCCGGCGGTGCAGTGGAACAGA
63 GCGAATCTTA-CTCCCAGGCGGTGCAGTGGAACAGA
* *
37742434 TTAAAGCCACAATGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAG
1 TTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAG
37742490 TTGCGAGTTA
Statistics
Matches: 225, Mismatches: 24, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
99 2 0.01
100 215 0.96
101 4 0.02
102 4 0.02
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (97 bp):
TTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGATAAGAGCG
AATCTTACTCCCAGGCGGTGCAGTGGAACAGA
Found at i:37742304 original size:150 final size:149
Alignment explanation
Indices: 37741981--37742339 Score: 398
Period size: 150 Copynumber: 2.4 Consensus size: 149
37741971 GTAGTGGAAT
* * * * * ** * *
37741981 AGATTAAAGCCACAATGACGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAA
1 AGATTAAAG-CACAACGACGAATCTTGCCTCCCAGGCAGTGCAGTGGAACAGATTAAAGATACAA
* * * * * *
37742046 CAGCGAATCTTACTTCTCAAGTGGTGCAGCAGAACAGATTAAAGCGACATCGGTGAATGTTGCTT
65 CAGCGAATCTTACCTCCCAAGCGGTGCAGCAGAACAGATTAAAGCCACAACGGTGAATCTTGCTT
*
37742111 CCCCAATATTGCAGTTAAAA
130 CCCCAACATTGCAGTTAAAA
* * **
37742131 AGGTTAAAGGCACAGCGGTGAATCTTGCCTCCCAGGCTA-TGCAGTGGAACAGATTAAAGATACA
1 AGATTAAA-GCACAACGACGAATCTTGCCTCCCAGGC-AGTGCAGTGGAACAGATTAAAGATACA
** * **
37742195 GTAGCGAATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCT
64 ACAGCGAATCTTACCTCCCAAGCGGTGCAGCAGAACAGATTAAAGCCACAACGGTGAATCTTGCT
*
37742260 TCCCCGACATTGCAGTTAAAA
129 TCCCCAACATTGCAGTTAAAA
* * *
37742281 AGATTAAAGCTATAACGACGAATCTT-ACTCCCCAGGCAGTGCAGTGGAACATATTAAAG
1 AGATTAAAGC-ACAACGACGAATCTTGCCT-CCCAGGCAGTGCAGTGGAACAGATTAAAG
37742340 CCATATCAGT
Statistics
Matches: 172, Mismatches: 32, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
149 5 0.03
150 165 0.96
151 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (149 bp):
AGATTAAAGCACAACGACGAATCTTGCCTCCCAGGCAGTGCAGTGGAACAGATTAAAGATACAAC
AGCGAATCTTACCTCCCAAGCGGTGCAGCAGAACAGATTAAAGCCACAACGGTGAATCTTGCTTC
CCCAACATTGCAGTTAAAA
Found at i:37742374 original size:150 final size:147
Alignment explanation
Indices: 37742077--37742456 Score: 336
Period size: 150 Copynumber: 2.5 Consensus size: 147
37742067 TGGTGCAGCA
* * * * * *
37742077 GAACAGATTAAAGCGACATCGGTGAATGTTGCTTCCCCAATATTGCAGTTAAAAAGGTTAAAGGC
1 GAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGGC
* ** *
37742142 ACAGCGGTGAATCTTGCCTCCCAGGCTATGCAGTGGAACAGATTAAAGATACAGTAGCGAATCTT
66 ACAACGACGAATCTTACCTCCCAGGCTATGCAGTGGAACAGATTAAAGATACAGTA--GAATCTT
* *
37742207 ACCTCCCAGGCGGTGCAGT
129 ACCTCCCAGACAGTGCAGT
37742226 GGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAA-G
1 -GAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGG
* *
37742290 CTATAACGACGAATCTTA-CTCCCCAGGC-AGTGCAGTGGAACATATTAAAGCCATATCAGT-GA
65 C-ACAACGACGAATCTTACCT-CCCAGGCTA-TGCAGTGGAACAGATTAAAG--ATA-CAGTAGA
* * * *
37742352 ATCTTGCTTCCCCGACATTGCAGT
124 ATCTTACCTCCCAGACAGTGCAGT
* * * * * ** * ** ** * *
37742376 TAAAAGGATTAAAGCTATAACGGCGAATCTTATTTCCCCGGCGGTGCAGTGGAACAGATTAAAGC
1 GAACA-GATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGG
* *
37742441 CACAATGGCGAATCTT
65 CACAACGACGAATCTT
37742457 GCTTCCCCGA
Statistics
Matches: 187, Mismatches: 35, Indels: 16
0.79 0.15 0.07
Matches are distributed among these distances:
149 8 0.04
150 171 0.91
151 1 0.01
152 3 0.02
153 4 0.02
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.23
Consensus pattern (147 bp):
GAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGGC
ACAACGACGAATCTTACCTCCCAGGCTATGCAGTGGAACAGATTAAAGATACAGTAGAATCTTAC
CTCCCAGACAGTGCAGT
Found at i:37743229 original size:25 final size:25
Alignment explanation
Indices: 37743175--37743229 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
37743165 GTGAATAGGA
* *
37743175 ATTTTGCTTTGCTTTTCTGAGTTTTC
1 ATTTTGCTTTCCTTTTCTGAG-TTCC
37743201 -TTTTGCTTTCCCTTTTCTGA-TTCC
1 ATTTTGCTTT-CCTTTTCTGAGTTCC
37743225 ATTTT
1 ATTTT
37743230 TTTACTCTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
24 3 0.12
25 13 0.52
26 9 0.36
ACGTcount: A:0.07, C:0.20, G:0.11, T:0.62
Consensus pattern (25 bp):
ATTTTGCTTTCCTTTTCTGAGTTCC
Found at i:37743776 original size:370 final size:365
Alignment explanation
Indices: 37743107--37743823 Score: 1173
Period size: 370 Copynumber: 2.0 Consensus size: 365
37743097 GTAAAGGCCC
*
37743107 TTTTTTACGCATATTGAATAGAAGAAATAGAAAAATATTCAGAGAAAAAAATCGAAAGGTGAATA
1 TTTTTTACGCATATTGAATACAAGAAATAGAAAAATATTCAGAGAAAAAAATCGAAAGGTGAATA
* * * * *
37743172 GGAATTTTGCTTTGCTTTTCTGAGTTTTCTTTTGCTTTCCCTTTTCTGATTCCATTTTTTTACTC
66 GGAATTTTGCTTTACTTTTCTAAGTTTTCTTTTGCTTTCCCTTCTCTGATTCCATTTCTTTACCC
* * * * *
37743237 TGTGGTTCATCATTCGTGCACGATATTAAAAAAAAAGGTAGTAGAGTGTGTAGAGGTTACCTGGT
131 TGTGGTTCATCATTCGTGCACGATATAAAAAAAAAAGATACTAAAGTGTGCAGAGGTTACCTGGT
* *
37743302 GGTCGGTTCTTCATTTTCTCCGTCGCAATCGGAGTAGGACGAGAACATAGTGGCCCTTGAATGGC
196 GGCCGGCTCTTCATTTTCTCCGTCGCAATCGGAGTAGGACGAGAACATAGTGGCCCTTGAATGGC
37743367 CAGTGTTGCGAATGGCGGCAGAAGCTAGGACTAAACCCTAGCAGAGAAAAGGGCAGCAATCCTTT
261 CAGTGTTGCGAATGGCGGCAGAAGCTAGGACTAAACCCTAGCAGAGAAAAGGGCAGCAATCCTTT
37743432 TTCTGGAAAACATATGCTGCTTCCTTTTTTTTAGAAATAT
326 TTCTGGAAAACATATGCTGCTTCCTTTTTTTTAGAAATAT
*
37743472 TTTTTTACGCATATTGAATTCAAGAAATAGAAAAATATTCAGAGAAAAAAAAATCGAAAGGTGAA
1 TTTTTTACGCATATTGAATACAAGAAATAGAAAAATATTCAGAG--AAAAAAATCGAAAGGTGAA
*
37743537 TAGGAATTTTTCTTTACTTTTCTAAGTTTTCTTTTGCTTTCCCTTCTCTGATTCCATTTCTTTAC
64 TAGGAATTTTGCTTTACTTTTCTAAGTTTTCTTTTGCTTTCCCTTCTCTGATTCCATTTCTTTAC
*
37743602 CCTGTGGTTCATCATTCGTGGACGATACTAAAAAAAATAAAGATACTAAAGTGTGCAGAGGTTAC
129 CCTGTGGTTCATCATTCGTGCACGATA-T-AAAAAAA-AAAGATACTAAAGTGTGCAGAGGTTAC
* * * *
37743667 CTGGTGGCCGGCTCTTCATTTTCTCCGTCGCAATCGGAGTAGGATGAGGACATAGTGGTCTTTGA
191 CTGGTGGCCGGCTCTTCATTTTCTCCGTCGCAATCGGAGTAGGACGAGAACATAGTGGCCCTTGA
*
37743732 ATGGCCAGTGTTGCGAATGGCGGCAGAAGCTAGGGCTAAACCCTAGCAGAGAAAAGGGCAGCAAT
256 ATGGCCAGTGTTGCGAATGGCGGCAGAAGCTAGGACTAAACCCTAGCAGAGAAAAGGGCAGCAAT
* * *
37743797 CTTTTTTCTGTAAAACATATGTTGCTT
321 CCTTTTTCTGGAAAACATATGCTGCTT
37743824 TTTTTTGAAA
Statistics
Matches: 323, Mismatches: 24, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
365 42 0.13
367 104 0.32
368 1 0.00
369 6 0.02
370 170 0.53
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (365 bp):
TTTTTTACGCATATTGAATACAAGAAATAGAAAAATATTCAGAGAAAAAAATCGAAAGGTGAATA
GGAATTTTGCTTTACTTTTCTAAGTTTTCTTTTGCTTTCCCTTCTCTGATTCCATTTCTTTACCC
TGTGGTTCATCATTCGTGCACGATATAAAAAAAAAAGATACTAAAGTGTGCAGAGGTTACCTGGT
GGCCGGCTCTTCATTTTCTCCGTCGCAATCGGAGTAGGACGAGAACATAGTGGCCCTTGAATGGC
CAGTGTTGCGAATGGCGGCAGAAGCTAGGACTAAACCCTAGCAGAGAAAAGGGCAGCAATCCTTT
TTCTGGAAAACATATGCTGCTTCCTTTTTTTTAGAAATAT
Found at i:37747228 original size:3 final size:3
Alignment explanation
Indices: 37747220--37747274 Score: 65
Period size: 3 Copynumber: 18.3 Consensus size: 3
37747210 TTGATAAAAT
* * * * *
37747220 ATA ATA ATA CTA ATA ATA ATA ATA GTA GTA GTA GTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
37747268 ATA ATA A
1 ATA ATA A
37747275 CAAGAGTATT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:37749179 original size:50 final size:50
Alignment explanation
Indices: 37749097--37749195 Score: 126
Period size: 50 Copynumber: 2.0 Consensus size: 50
37749087 GACAATATTC
* * * *
37749097 GCTTTAATCTATCCCATTGCAATGCCAGGGAAACAATATTCGCTACCTTA
1 GCTTTAATCTATCCCACTGCAACGCCAAGGAAACAAGATTCGCTACCTTA
* * * *
37749147 GCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTTGCTACCTT
1 GCTTTAATCTATCCCACTGCAACGCCAAGGAAACAAGATTCGCTACCTT
37749196 CAGTCTTAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.30
Consensus pattern (50 bp):
GCTTTAATCTATCCCACTGCAACGCCAAGGAAACAAGATTCGCTACCTTA
Found at i:37749292 original size:87 final size:86
Alignment explanation
Indices: 37749117--37749282 Score: 224
Period size: 87 Copynumber: 1.9 Consensus size: 86
37749107 ATCCCATTGC
* * ** * *
37749117 AATGCCAGGGAAACAATATTCGCTACCTTAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATA
1 AATGCCAGGGAAACAACATTCACTACCTTAGCTTTAATCTACTCCACTGCAACACCAAGGAAACA
37749182 AGATTTGCTACCTTCAGTCTT
66 AGATTTGCTACCTTCAGTCTT
* * * * *
37749203 AATGTCAGGGAAACAACATTCACTGCCTTCAGCTTTAATCTACTCCGCTGCAACATCAGGGAAAC
1 AATGCCAGGGAAACAACATTCACTACCTT-AGCTTTAATCTACTCCACTGCAACACCAAGGAAAC
37749268 AAGATTTGCTACCTT
65 AAGATTTGCTACCTT
37749283 TAGCTTTAAT
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
86 25 0.37
87 43 0.63
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (86 bp):
AATGCCAGGGAAACAACATTCACTACCTTAGCTTTAATCTACTCCACTGCAACACCAAGGAAACA
AGATTTGCTACCTTCAGTCTT
Found at i:37749448 original size:123 final size:123
Alignment explanation
Indices: 37749229--37749716 Score: 411
Period size: 123 Copynumber: 3.9 Consensus size: 123
37749219 CATTCACTGC
* *
37749229 CTTCAGCTTTAATCTACTCCGCTGCAACA-TCAGGGAAACAAGATTTGCTAC-CTTTAGCTTTAA
1 CTTCAGCTTTAATCTACTCCACTGCAACACTCAGGGAAACAAGATTCGCTACTC-TTAGCTTTAA
* * * *
37749292 TCTATTCTAATGTAACGCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCACTCCA
65 TCTATTCTACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAG-TTTAATCCACTCCA
* * * *
37749352 CTTCAGCTTTACTCTATTCCACTGCAACACT-AGAGAAACAAGATTCACTACTCTTAGCTTTAAT
1 CTTCAGCTTTAATCTACTCCACTGCAACACTCAGGGAAACAAGATTCGCTACTCTTAGCTTTAAT
* * * *
37749416 CTATTCTACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTTAGTCTTAACGCCAGGGAGATAAG
66 CTATTCTACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGT-TTAA-TCC-----------
*
37749481 ATTTGCTGC-
118 A----CTCCA
* * * * *
37749490 CTTCCGCTTTAATCTGCTCCACTGC-ACACATCAGGGCAATAAGATTCGC-CCT-TTAGCTTTAA
1 CTTCAGCTTTAATCTACTCCACTGCAACAC-TCAGGGAAACAAGATTCGCTACTCTTAGCTTTAA
* * * * **
37749552 TCTATTCCACTGCAACGCCAAAGAGAT-AGA-TCACTGCCTTCAGTTTTAATCTGCTCCA
65 TCTATTCTACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAG-TTTAATCCACTCCA
* ** * *
37749610 CTTCAGCTTTAATCTATTCCACAACAACGC-CAGGGAAACAAGATTCGCTAATCTTAGCTTTAAT
1 CTTCAGCTTTAATCTACTCCACTGCAACACTCAGGGAAACAAGATTCGCTACTCTTAGCTTTAAT
* * *
37749674 CTGTTCTACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCA
66 CTATTCTACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCA
37749717 CCTTAACACC
Statistics
Matches: 285, Mismatches: 52, Indels: 56
0.73 0.13 0.14
Matches are distributed among these distances:
119 19 0.07
120 21 0.07
121 35 0.12
122 4 0.01
123 105 0.37
124 4 0.01
134 1 0.00
135 16 0.06
136 4 0.01
137 36 0.13
138 24 0.08
139 16 0.06
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (123 bp):
CTTCAGCTTTAATCTACTCCACTGCAACACTCAGGGAAACAAGATTCGCTACTCTTAGCTTTAAT
CTATTCTACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGTTTAATCCACTCCA
Found at i:37749630 original size:21 final size:21
Alignment explanation
Indices: 37749589--37749631 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
37749579 AGATCACTGC
* *
37749589 CTTCAGTTTTAATCTGCTCCA
1 CTTCAGCTTTAATCTACTCCA
*
37749610 CTTCAGCTTTAATCTATTCCA
1 CTTCAGCTTTAATCTACTCCA
37749631 C
1 C
37749632 AACAACGCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.30, G:0.07, T:0.42
Consensus pattern (21 bp):
CTTCAGCTTTAATCTACTCCA
Found at i:37749667 original size:258 final size:260
Alignment explanation
Indices: 37749097--37749791 Score: 880
Period size: 258 Copynumber: 2.7 Consensus size: 260
37749087 GACAATATTC
* * * * *
37749097 GCTTTAATCTATCCCATTGCAATGCCAGGGAAACAATATTCGCT-ACCTTAGCTTTAATCTGTTC
1 GCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTAATCTTAGCTTTAATCTGTTC
* * * * * * * * **
37749161 CACTGCAACGCCAAGGAAATAAGATTTGCTACCTTCAGTCTTAATGTCAGGGAAACAACATTCAC
66 TACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGTCTTAACGCCAGGGAGATAAGATTTGC
* * * *
37749226 TGCCTTCAGCTTTAATCTACTCCGCTGCAACATCAGGGAAACAAGATTTGCTACCTTTAGCTTTA
131 TGCCTTCAGCTTTAATCTGCTCCACTGCAACATCAGGGAAATAAGATTCGC-ACCTTTAGCTTTA
* * * *
37749291 ATCTATTCTAATGTAACGCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCACTCCACTTC
195 ATCTATTCCAATGCAACGCCAAAGAGATAGGATTCACTGCCTTCAGCTTTAATCCACTCCACTTC
37749356 A
260 A
* * * * * * *
37749357 GCTTTACTCTATTCCACTGCAACACTAGAGAAACAAGATTCACTACTCTTAGCTTTAATCTATTC
1 GCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTAATCTTAGCTTTAATCTGTTC
* * *
37749422 TACTGCAATGCCAGGGAAATAAGATTCGCTGCCTTTAGTCTTAACGCCAGGGAGATAAGATTTGC
66 TACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGTCTTAACGCCAGGGAGATAAGATTTGC
* *
37749487 TGCCTTCCGCTTTAATCTGCTCCACTGCACACATCAGGGCAATAAGATTCGC-CCTTTAGCTTTA
131 TGCCTTCAGCTTTAATCTGCTCCACTGCA-ACATCAGGGAAATAAGATTCGCACCTTTAGCTTTA
* * **
37749551 ATCTATTCCACTGCAACGCCAAAGAGATA-GA-TCACTGCCTTCAGTTTTAATCTGCTCCACTTC
195 ATCTATTCCAATGCAACGCCAAAGAGATAGGATTCACTGCCTTCAGCTTTAATCCACTCCACTTC
37749614 A
260 A
**
37749615 GCTTTAATCTATTCCACAACAACGCCAGGGAAACAAGATTCGCTAATCTTAGCTTTAATCTGTTC
1 GCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTAATCTTAGCTTTAATCTGTTC
* * *
37749680 TACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCA-CCTTAACACCAAAGGAGATAAGA-TTG
66 TACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGTCTTAACGCC-AGGGAGATAAGATTTG
* * ** *
37749743 TTGCCTTTAGCTTGGATCTGCTCCACTGCAACGTCAGGGAAATAAGATT
130 CTGCCTTCAGCTTTAATCTGCTCCACTGCAACATCAGGGAAATAAGATT
37749792 TNNNNNNNNN
Statistics
Matches: 371, Mismatches: 61, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
256 17 0.05
257 36 0.10
258 130 0.35
259 2 0.01
260 72 0.19
261 95 0.26
262 19 0.05
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (260 bp):
GCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTAATCTTAGCTTTAATCTGTTC
TACTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGTCTTAACGCCAGGGAGATAAGATTTGC
TGCCTTCAGCTTTAATCTGCTCCACTGCAACATCAGGGAAATAAGATTCGCACCTTTAGCTTTAA
TCTATTCCAATGCAACGCCAAAGAGATAGGATTCACTGCCTTCAGCTTTAATCCACTCCACTTCA
Found at i:37755415 original size:3 final size:3
Alignment explanation
Indices: 37755409--37755450 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
37755399 TAGTAGTAGT
37755409 ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
37755451 CAGTTTTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:37755415 original size:20 final size:20
Alignment explanation
Indices: 37755408--37755449 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
37755398 GTAGTAGTAG
37755408 TATAATAATAATAATAATAA
1 TATAATAATAATAATAATAA
37755428 TATAATAATAATAATAATAA
1 TATAATAATAATAATAATAA
37755448 TA
1 TA
37755450 ACAGTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TATAATAATAATAATAATAA
Found at i:37755432 original size:17 final size:17
Alignment explanation
Indices: 37755412--37755446 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
37755402 TAGTAGTATA
37755412 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
37755429 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
37755446 A
1 A
37755447 ATAACAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATAATAATAATAATAAT
Found at i:37773882 original size:40 final size:40
Alignment explanation
Indices: 37773838--37773935 Score: 169
Period size: 40 Copynumber: 2.5 Consensus size: 40
37773828 AGGTTCTGTT
*
37773838 TCTAGCAGGCTTATTGTCAGTGAAATTTTCAGACTTAATG
1 TCTAGCAGGCTTATTGCCAGTGAAATTTTCAGACTTAATG
37773878 TCTAGCAGGCTTATTGCCAGTGAAATTTTCAGACTTAATG
1 TCTAGCAGGCTTATTGCCAGTGAAATTTTCAGACTTAATG
* *
37773918 TGTAGCAGGCTTAATGCC
1 TCTAGCAGGCTTATTGCC
37773936 GGTGTCCTAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (40 bp):
TCTAGCAGGCTTATTGCCAGTGAAATTTTCAGACTTAATG
Found at i:37785017 original size:41 final size:40
Alignment explanation
Indices: 37784972--37785061 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
37784962 ATCGGCGCTT
*
37784972 TTAGCGGCGTTTGGACAAAAAACGCCACTAACA-ATCGAGCA
1 TTAGCGGCGTTT-GACAAAAAACGCC-CTAAAATATCGAGCA
* * * * *
37785013 TTAGCGACATTTTACGAAAAACGCCGTAAAATATCGAGCA
1 TTAGCGGCGTTTGACAAAAAACGCCCTAAAATATCGAGCA
37785053 TTAGCGGCG
1 TTAGCGGCG
37785062 CTACATAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
39 4 0.10
40 26 0.65
41 10 0.25
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (40 bp):
TTAGCGGCGTTTGACAAAAAACGCCCTAAAATATCGAGCA
Found at i:37785234 original size:113 final size:113
Alignment explanation
Indices: 37785102--37785439 Score: 559
Period size: 113 Copynumber: 3.0 Consensus size: 113
37785092 ATTAGCAGCG
*
37785102 TTTTACAAAAAGCGCCGCAATAGAGTAAGACAGAACGACGCCGTTTTCATATATTTGGGAACATT
1 TTTTACAAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAACATT
*
37785167 AGTGGTGGTTTTTCCCAAGCGCCGCTAATACTCCGTTCTTCAGCGGCA
66 AGTGGTGGTTTTGCCCAAGCGCCGCTAATACTCCGTTCTTCAGCGGCA
* * **
37785215 TTTTATAAAAAGCGCCGCAATGGAGTAACACAGAACGACATCGTTTTCATATATTTGGGAACATT
1 TTTTACAAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAACATT
* **
37785280 AGTGGCGGTTTTGCCCAAGCGCCGCTAATACTCCGTTCTTCAGCGGTG
66 AGTGGTGGTTTTGCCCAAGCGCCGCTAATACTCCGTTCTTCAGCGGCA
* * *
37785328 TTTTACAAATAGTGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAACACT
1 TTTTACAAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAACATT
*
37785393 AGTGGTGGTTTTGCCCAAACGCCGCTAATACTCCGTTCTTCAGCGGC
66 AGTGGTGGTTTTGCCCAAGCGCCGCTAATACTCCGTTCTTCAGCGGC
37785440 GTTTGGCATT
Statistics
Matches: 206, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
113 206 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (113 bp):
TTTTACAAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAACATT
AGTGGTGGTTTTGCCCAAGCGCCGCTAATACTCCGTTCTTCAGCGGCA
Found at i:37785621 original size:41 final size:41
Alignment explanation
Indices: 37785576--37785668 Score: 107
Period size: 41 Copynumber: 2.3 Consensus size: 41
37785566 GATGGAGAAT
* *
37785576 CGCCGCTAATGT-TCCGGTCTATAGCGGCGTTCCTGTAACAG
1 CGCCGCTAAT-TCTCCGGTCTATAGCGGCGTTCCTGTAAAAA
* ** **
37785617 CGCCGGTAATTCTTGGGTCTATAGCGGCGTTTGTGTAAAAA
1 CGCCGCTAATTCTCCGGTCTATAGCGGCGTTCCTGTAAAAA
37785658 CGCCGCTAATT
1 CGCCGCTAATT
37785669 AGAAAATCTA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
40 1 0.02
41 42 0.98
ACGTcount: A:0.19, C:0.25, G:0.27, T:0.29
Consensus pattern (41 bp):
CGCCGCTAATTCTCCGGTCTATAGCGGCGTTCCTGTAAAAA
Found at i:37785710 original size:8 final size:8
Alignment explanation
Indices: 37785697--37785758 Score: 61
Period size: 8 Copynumber: 7.1 Consensus size: 8
37785687 TTTCATTCTT
37785697 TTATATTA
1 TTATATTA
37785705 TTATATTA
1 TTATATTA
*
37785713 TTATAATAA
1 TTAT-ATTA
37785722 GTTATATTA
1 -TTATATTA
*
37785731 TTATGTTTGAA
1 TTAT-ATT--A
37785742 TTATATTA
1 TTATATTA
37785750 TTATATTA
1 TTATATTA
37785758 T
1 T
37785759 AAGTTATATA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
8 26 0.58
9 8 0.18
10 6 0.13
11 5 0.11
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (8 bp):
TTATATTA
Found at i:37785770 original size:19 final size:20
Alignment explanation
Indices: 37785705--37785772 Score: 83
Period size: 19 Copynumber: 3.6 Consensus size: 20
37785695 TTTTATATTA
37785705 TTATATTATTATA--ATAAG
1 TTATATTATTATATTATAAG
*
37785723 TTATATTATTATGTT-TGAA-
1 TTATATTATTATATTAT-AAG
37785742 TTATATTATTATATTATAAG
1 TTATATTATTATATTATAAG
37785762 TTATA-TATTAT
1 TTATATTATTAT
37785773 GAAGCATATA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
18 12 0.28
19 23 0.53
20 8 0.19
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (20 bp):
TTATATTATTATATTATAAG
Found at i:37785791 original size:39 final size:40
Alignment explanation
Indices: 37785701--37785796 Score: 101
Period size: 39 Copynumber: 2.4 Consensus size: 40
37785691 ATTCTTTTAT
* **
37785701 ATTAT-TATATTATTATAATAAGTTATATTATTATGTTTGA
1 ATTATATATATTA-TATTATAAGTTATATTATTATGTAAGA
*
37785741 ATTATAT-TATTATATTATAAGTTATA-TATTATG-AAGC
1 ATTATATATATTATATTATAAGTTATATTATTATGTAAGA
37785778 ATATATATATATTAATATT
1 AT-TATATATATT-ATATT
37785797 GTGTTAGTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
37 3 0.06
38 12 0.25
39 17 0.35
40 15 0.31
41 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.52
Consensus pattern (40 bp):
ATTATATATATTATATTATAAGTTATATTATTATGTAAGA
Found at i:37788157 original size:16 final size:16
Alignment explanation
Indices: 37788133--37788163 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37788123 ATTTTTCCTC
37788133 TTCTAAAATCCCTAAG
1 TTCTAAAATCCCTAAG
*
37788149 TTCTGAAATCCCTAA
1 TTCTAAAATCCCTAA
37788164 CTCCATTTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.32
Consensus pattern (16 bp):
TTCTAAAATCCCTAAG
Found at i:37789701 original size:14 final size:14
Alignment explanation
Indices: 37789682--37789719 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
37789672 TGACACCAAA
37789682 TAAATTTTAAACAT
1 TAAATTTTAAACAT
37789696 TAAATTTTAAACAT
1 TAAATTTTAAACAT
37789710 TAAATTTTAA
1 TAAATTTTAA
37789720 TTTTAAACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (14 bp):
TAAATTTTAAACAT
Found at i:37795730 original size:21 final size:21
Alignment explanation
Indices: 37795706--37795756 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
37795696 CTACAACTTA
*
37795706 AAGCAGATGCAGCAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
37795727 AAGCAGAGGCAGCAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
*
37795748 AAGCTGAGG
1 AAGCAGAGG
37795757 TTCAACGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.37, C:0.18, G:0.41, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGAG
Found at i:37795793 original size:87 final size:87
Alignment explanation
Indices: 37795640--37795819 Score: 256
Period size: 87 Copynumber: 2.1 Consensus size: 87
37795630 ACACAACTTA
* * *
37795640 AAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTT
1 AAGCAGAGGCAACAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAACAACTCCAGCTACAACTT
37795705 AAAGCAGATGCAGCAGCGAGAG
66 AAAGCAGATGCAGCAGCGAGAG
* * *
37795727 AAGCAGAGGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAG-TATGAACAACTCCAGC-AGCAGC
1 AAGCAGAGGCAACAGCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAACAACTCCAGCTA-CAAC
* *
37795790 TTAAAGCAGATGCGGCAGTGAGAG
64 TTAAAGCAGATGCAGCAGCGAGAG
37795814 AAGCAG
1 AAGCAG
37795820 CTACTGTAGC
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
86 1 0.01
87 78 0.94
88 4 0.05
ACGTcount: A:0.39, C:0.19, G:0.30, T:0.12
Consensus pattern (87 bp):
AAGCAGAGGCAACAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAACAACTCCAGCTACAACTT
AAAGCAGATGCAGCAGCGAGAG
Found at i:37796271 original size:43 final size:43
Alignment explanation
Indices: 37796224--37796614 Score: 345
Period size: 43 Copynumber: 9.1 Consensus size: 43
37796214 AAGCACCGCT
* *
37796224 AAAGACCAAGGTCTATAGCGGCGTTTGATGGGAAAGCGCCGTG
1 AAAGACCATGGTCTATAGCGGCGTTTGATGGAAAAGCGCCGTG
* * *
37796267 AAAGATCC-TGGTCTATAGCGGCGTTTTATGGTTAAA-CGCCGCG
1 AAAGA-CCATGGTCTATAGCGGCGTTTGATGG-AAAAGCGCCGTG
* * * * *
37796310 AAAGATCC-TGGTCTATAGCAGCATTTTATGGGAAAGCGCCGCG
1 AAAGA-CCATGGTCTATAGCGGCGTTTGATGGAAAAGCGCCGTG
* * *
37796353 AAAGATCC-TGGTCTATAGCGGCGTTTTATGAAAAAGCGCCGCG
1 AAAGA-CCATGGTCTATAGCGGCGTTTGATGGAAAAGCGCCGTG
* * **
37796396 AAAGATCC-TGGTCTATAGCAGCGTTTGACGGGTAAGCGCCGCT-
1 AAAGA-CCATGGTCTATAGCGGCGTTTGATGGAAAAGCGCCG-TG
* * *
37796439 AAAGACCATGGTCTATCGCGGCGTTTGATGCAAGAGCGCCGCT-
1 AAAGACCATGGTCTATAGCGGCGTTTGATGGAAAAGCGCCG-TG
* * *
37796482 AAAGACCACGGTCTATAGCGGCGTTTGATGCAAAAGCGCCCCT-
1 AAAGACCATGGTCTATAGCGGCGTTTGATGGAAAAGCG-CCGTG
* ** *
37796525 AAAGACCACGGTCTATAGCGGCGTTT-ATTTATAAGCGCCGCT-
1 AAAGACCATGGTCTATAGCGGCGTTTGATGGAAAAGCGCCG-TG
* *
37796567 AAAGACCATTGTCTATAGCGGCGTTT-ATTGTAAAAAGCGCCGTG
1 AAAGACCATGGTCTATAGCGGCGTTTGA-TG-GAAAAGCGCCGTG
37796611 AAAG
1 AAAG
37796615 TTACCGACGC
Statistics
Matches: 300, Mismatches: 38, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
41 2 0.01
42 39 0.13
43 239 0.80
44 20 0.07
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (43 bp):
AAAGACCATGGTCTATAGCGGCGTTTGATGGAAAAGCGCCGTG
Found at i:37796323 original size:86 final size:86
Alignment explanation
Indices: 37796194--37796614 Score: 407
Period size: 86 Copynumber: 4.9 Consensus size: 86
37796184 AACCATGAGG
* * * * *
37796194 TATAGCGGCGTTTGT-TTTTTAAGCACCGCTAAAGACCAAGGTCTATAGCGGCGTTTGATGGGAA
1 TATAGCGGCGTTT-TATGTTAAAGCGCCGCGAAAGACCATGGTCTATAGCGGCGTTTGATGGGAA
37796258 AGCGCCGTGAAAGATCC-TGGTC
65 AGCGCCGTGAAAGA-CCATGGTC
* * *
37796280 TATAGCGGCGTTTTATGGTTAAA-CGCCGCGAAAGATCC-TGGTCTATAGCAGCATTTTATGGGA
1 TATAGCGGCGTTTTAT-GTTAAAGCGCCGCGAAAGA-CCATGGTCTATAGCGGCGTTTGATGGGA
*
37796343 AAGCGCCGCGAAAGATCC-TGGTC
64 AAGCGCCGTGAAAGA-CCATGGTC
** * * *
37796366 TATAGCGGCGTTTTATGAAAAAGCGCCGCGAAAGATCC-TGGTCTATAGCAGCGTTTGACGGGTA
1 TATAGCGGCGTTTTATGTTAAAGCGCCGCGAAAGA-CCATGGTCTATAGCGGCGTTTGATGGGAA
37796430 AGCGCCGCT-AAAGACCATGGTC
65 AGCGCCG-TGAAAGACCATGGTC
* * * * * **
37796452 TATCGCGGCGTTTGATG-CAAGAGCGCCGCTAAAGACCACGGTCTATAGCGGCGTTTGATGCAAA
1 TATAGCGGCGTTTTATGTTAA-AGCGCCGCGAAAGACCATGGTCTATAGCGGCGTTTGATGGGAA
* *
37796516 AGCGCCCCT-AAAGACCACGGTC
65 AGCG-CCGTGAAAGACCATGGTC
* * **
37796538 TATAGCGGCG-TTTAT-TTATAAGCGCCGCTAAAGACCATTGTCTATAGCGGCGTTT-ATTGTAA
1 TATAGCGGCGTTTTATGTTA-AAGCGCCGCGAAAGACCATGGTCTATAGCGGCGTTTGA-TG-GG
37796600 AAAGCGCCGTGAAAG
63 AAAGCGCCGTGAAAG
37796615 TTACCGACGC
Statistics
Matches: 286, Mismatches: 35, Indels: 28
0.82 0.10 0.08
Matches are distributed among these distances:
84 1 0.00
85 54 0.19
86 223 0.78
87 8 0.03
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (86 bp):
TATAGCGGCGTTTTATGTTAAAGCGCCGCGAAAGACCATGGTCTATAGCGGCGTTTGATGGGAAA
GCGCCGTGAAAGACCATGGTC
Found at i:37796606 original size:129 final size:128
Alignment explanation
Indices: 37796171--37796608 Score: 408
Period size: 129 Copynumber: 3.4 Consensus size: 128
37796161 ATTTTTCTAA
* * * **** *
37796171 AAGCGCCGCTAAAAACCATGAG-GTATAGCGGCGTTTGTTTTTTAAGCACCGCTAAAGACCAAGG
1 AAGCGCCGCTAAAGACCATG-GTCTATAGCGGCGTTTATTGAAAAAGCGCCGCTAAAGACCAAGG
** *
37796235 TCTATAGCGGCGTTTGATGGGAAAGCG-CCGTGAAAGATCCTGGTCTATAGCGGCGTTTTATGGT
65 TCTATAGCGGCGTTTGATGAAAAAGCGCCCCT-AAAGATCCTGGTCTATAGCGGCG-TTTAT--T
37796299 TA-
126 TAT
* * * ** * *
37796301 AA-CGCCGCGAAAGATCC-TGGTCTATAGCAGCATTT-TATGGGAAAGCGCCGCGAAAGATCC-T
1 AAGCGCCGCTAAAGA-CCATGGTCTATAGCGGCGTTTAT-TGAAAAAGCGCCGCTAAAGA-CCAA
* * * * ***
37796362 GGTCTATAGCGGCGTTTTATGAAAAAGCGCCGCGAAAGATCCTGGTCTATAGCAGCGTTTGACGG
63 GGTCTATAGCGGCGTTTGATGAAAAAGCGCCCCTAAAGATCCTGGTCTATAGCGGCGTTT-ATTT
*
37796427 GT
127 AT
* * * *
37796429 AAGCGCCGCTAAAGACCATGGTCTATCGCGGCGTTTGA-TGCAAGAGCGCCGCTAAAGACCACGG
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTT-ATTGAAAAAGCGCCGCTAAAGACCAAGG
* *
37796493 TCTATAGCGGCGTTTGATGCAAAAGCGCCCCTAAAGA-CCACGGTCTATAGCGGCGTTTATTTAT
65 TCTATAGCGGCGTTTGATGAAAAAGCGCCCCTAAAGATCC-TGGTCTATAGCGGCGTTTATTTAT
*
37796557 AAGCGCCGCTAAAGACCATTGTCTATAGCGGCGTTTATTGTAAAAAGCGCCG
1 AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTATTG-AAAAAGCGCCG
37796609 TGAAAGTTAC
Statistics
Matches: 247, Mismatches: 46, Indels: 31
0.76 0.14 0.10
Matches are distributed among these distances:
127 1 0.00
128 51 0.21
129 188 0.76
130 7 0.03
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (128 bp):
AAGCGCCGCTAAAGACCATGGTCTATAGCGGCGTTTATTGAAAAAGCGCCGCTAAAGACCAAGGT
CTATAGCGGCGTTTGATGAAAAAGCGCCCCTAAAGATCCTGGTCTATAGCGGCGTTTATTTAT
Found at i:37809397 original size:11 final size:11
Alignment explanation
Indices: 37809383--37809415 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
37809373 TGTAATAGAT
37809383 TTAATATTTAA
1 TTAATATTTAA
37809394 TTAATATTTAA
1 TTAATATTTAA
*
37809405 TTTA-ATTTAA
1 TTAATATTTAA
37809415 T
1 T
37809416 GTTTATCTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TTAATATTTAA
Found at i:37819540 original size:808 final size:809
Alignment explanation
Indices: 37817972--37819591 Score: 2778
Period size: 808 Copynumber: 2.0 Consensus size: 809
37817962 TTAATCATAG
* * *
37817972 TTGACCTCTCTACACTCTCCCTATATAAAGAGAGTCTTGGGTCATTATATTTCACACATTTGAAT
1 TTGAACTCTCTAAACTCTCCCTATATAAAGAGAGTCTTGGGTCATTATATTTCACACACTTGAAT
37818037 TCAAGACAAAGTTGTACAGACAAAATTCCTTAAAGAAATTATTTCAAAAAATTTCTAGAGATAGT
66 TCAAGACAAAGTTGTACAGACAAAATTCCTTAAAGAAATTATTTCAAAAAATTTCTAGAGATAGT
** *
37818102 TTTATAATTTACAACTTGGCCCAAAAGTTTAGTGAAATTGCAAAATTACTCCACTGATAATTTTT
131 TTTATAATTTACAACTTGGCCCAAAAGTTTAGTGAAATTAAAAAATTACCCCACTGATAATTTTT
*
37818167 ATGTGAAATTTTCTAATTCGAAGCCAGCCCACACTCGAAAAAATATGAGCTTGAAGATAGCGGAG
196 ATGTGAAATTTTCTAATTCGAAGCCAGCCCACACTCGAAAAAACATGAGCTTGAAGATAGCGGAG
* * * *
37818232 AAGACTATTCGGTCGAAACGTTCATCCCAGACGAATCGAAAAGTTATAATTTTGATTGAATGTTT
261 AAGACAATTCGGTCGAAACGTTCATCCCAGACGAATCGAAAAGGTACAATTTTGATTAAATGTTT
* * *
37818297 ATTACTTTAGATATTATAACCAAGTTCTTATTCTGGAAAACTAATTTAAAACTTTAGCTTTTCCC
326 ATTACTTTAGATATCATAACCAAGTTCTTATTCTGGAAAAATAATTTAAAACTCTAGCTTTTCCC
*
37818362 TAAATTTATTTGATGTTGCGTTTTTCAAACCCGATTTTCCGACAAAAACAACATGTGTAGCATCA
391 TAAATTTATTTGATGTTGCGTTTTCCAAACCCGATTTTCCGACAAAAACAACATGTGTAGCATCA
*
37818427 ACATTTAGAGTATCTATTTCTCATAATCAAACTTATATAAACTAGCATTGTTATGTACTAATAAA
456 ACATTTAAAGTATCTATTTCTCATAATCAAACTTATATAAACTAGCATTGTTATGTACTAATAAA
* *
37818492 AGATTAAAATTCAACTTACAAAACTTCAGAGGCCAAATATCAATATACCAAAATGTCCTTTTATA
521 AGATTAAAATTCAACTTACAAAACTTCAGAGGCCAAATATCAATATACCAAAATGCCCTTTTAAA
* ** *
37818557 CAACATGACCAAAACAACTTAAGTGTGAGACCCCGGTATGTGACCCAATTGTCGAGTCCAAGCTA
586 CAACATGACCAAAACAACTTAAGTGTGAGACCCCGATACATGACCCAATCGTCGAGTCCAAGCTA
37818622 CAAGGTGCCACATTCATTCCGGGAGAAACTACATTTAACAAAATTCAACAAGTTTATCAATTTTA
651 CAAGGTGCCACATTCATTCCGGGAGAAACTACATTTAACAAAATTCAACAAGTTTATCAATTTTA
*
37818687 AAATTACACTACTGATCAGTAATTTTTATTTTAAACAATTCAATCCAACAAATTTTAGCATCACA
716 AAATTACACTACTGATCAGTAATTTTTATTTTAAACAAATCAATCCAACAAATTTTAGCATCACA
37818752 ATTGATGATATTAGTATGTAAGCAGAGAA
781 ATTGATGATATTAGTATGTAAGCAGAGAA
* *
37818781 TTGAACTCTCTAAACTCTTCCTATATAAAGAGAGTCTTGGGTCATTATTTTTCACACACTTGAAT
1 TTGAACTCTCTAAACTCTCCCTATATAAAGAGAGTCTTGGGTCATTATATTTCACACACTTGAAT
* * * *
37818846 TCAAGACAAAGTTGTAGAGACAAAATTCCTTGAAGAAATTATTTCAGAAAATTTTTAGAGATAGT
66 TCAAGACAAAGTTGTACAGACAAAATTCCTTAAAGAAATTATTTCAAAAAATTTCTAGAGATAGT
37818911 TTTATAATTTACAACTTGGCCCAAAAGTTTAGTGAAATTAAAAAATTACCCCACTGATAATTTTT
131 TTTATAATTTACAACTTGGCCCAAAAGTTTAGTGAAATTAAAAAATTACCCCACTGATAATTTTT
* *
37818976 GTGTGAAATTTTCTAATTCGAAGCCAGCCCACACTCG-ACAAACATGAGCTTGAAGATAGCGGAG
196 ATGTGAAATTTTCTAATTCGAAGCCAGCCCACACTCGAAAAAACATGAGCTTGAAGATAGCGGAG
* *
37819040 AAGACAATTCGGTCGAAACGTTCATCCTAGACGAGTCGAAAAGGTACAATTTTGATTAAATGTTT
261 AAGACAATTCGGTCGAAACGTTCATCCCAGACGAATCGAAAAGGTACAATTTTGATTAAATGTTT
*
37819105 ATTACTTTAGATATCATAACCAAGTTCTTATTCTGGAAAAATAATTTACAACTCTAGCTTTTCCC
326 ATTACTTTAGATATCATAACCAAGTTCTTATTCTGGAAAAATAATTTAAAACTCTAGCTTTTCCC
*
37819170 TAAATTTATTTGATGTTGCGTTTTCCAAACCCGATTTTCCGACAAAGACAACATGTGTAGCATCA
391 TAAATTTATTTGATGTTGCGTTTTCCAAACCCGATTTTCCGACAAAAACAACATGTGTAGCATCA
37819235 ACATTTAAAGTATCTATTTCTCATAATCAAACTTATATAAACTAGCATTGTTATGTACTAATAAA
456 ACATTTAAAGTATCTATTTCTCATAATCAAACTTATATAAACTAGCATTGTTATGTACTAATAAA
*
37819300 AGATTAAAATTCAACTTATC-AAACTTCATAGGCCAAATATCAATATACCAAAATGCCCTTTTAA
521 AGATTAAAATTCAACTTA-CAAAACTTCAGAGGCCAAATATCAATATACCAAAATGCCCTTTTAA
* *
37819364 ACAACATGATCAAAACAACTTAAGTGTGAGACCCCGATACATGACCCAATCGTCGAGTCCGAGCT
585 ACAACATGACCAAAACAACTTAAGTGTGAGACCCCGATACATGACCCAATCGTCGAGTCCAAGCT
* * * *
37819429 ACAAGTTGCCACATTCGTTTCC-GGAGCAACTATATTTAACAAAATTCAACAAGTTTATCAATTT
650 ACAAGGTGCCACATTC-ATTCCGGGAGAAACTACATTTAACAAAATTCAACAAGTTTATCAATTT
* * *
37819493 TAAAATTGCATTACTGATCAGTAATTTTTATTTTAAACAAATCAATCCAACAAGTTTTAGCATCA
714 TAAAATTACACTACTGATCAGTAATTTTTATTTTAAACAAATCAATCCAACAAATTTTAGCATCA
* *
37819558 CGATTGATGATATTATTATGTAAGCAGAGAA
779 CAATTGATGATATTAGTATGTAAGCAGAGAA
37819589 TTG
1 TTG
37819592 GTCCTCAAGT
Statistics
Matches: 762, Mismatches: 47, Indels: 5
0.94 0.06 0.01
Matches are distributed among these distances:
808 538 0.71
809 224 0.29
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (809 bp):
TTGAACTCTCTAAACTCTCCCTATATAAAGAGAGTCTTGGGTCATTATATTTCACACACTTGAAT
TCAAGACAAAGTTGTACAGACAAAATTCCTTAAAGAAATTATTTCAAAAAATTTCTAGAGATAGT
TTTATAATTTACAACTTGGCCCAAAAGTTTAGTGAAATTAAAAAATTACCCCACTGATAATTTTT
ATGTGAAATTTTCTAATTCGAAGCCAGCCCACACTCGAAAAAACATGAGCTTGAAGATAGCGGAG
AAGACAATTCGGTCGAAACGTTCATCCCAGACGAATCGAAAAGGTACAATTTTGATTAAATGTTT
ATTACTTTAGATATCATAACCAAGTTCTTATTCTGGAAAAATAATTTAAAACTCTAGCTTTTCCC
TAAATTTATTTGATGTTGCGTTTTCCAAACCCGATTTTCCGACAAAAACAACATGTGTAGCATCA
ACATTTAAAGTATCTATTTCTCATAATCAAACTTATATAAACTAGCATTGTTATGTACTAATAAA
AGATTAAAATTCAACTTACAAAACTTCAGAGGCCAAATATCAATATACCAAAATGCCCTTTTAAA
CAACATGACCAAAACAACTTAAGTGTGAGACCCCGATACATGACCCAATCGTCGAGTCCAAGCTA
CAAGGTGCCACATTCATTCCGGGAGAAACTACATTTAACAAAATTCAACAAGTTTATCAATTTTA
AAATTACACTACTGATCAGTAATTTTTATTTTAAACAAATCAATCCAACAAATTTTAGCATCACA
ATTGATGATATTAGTATGTAAGCAGAGAA
Found at i:37827844 original size:15 final size:14
Alignment explanation
Indices: 37827823--37827858 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
37827813 ATAATCCTTA
*
37827823 ATAATTATCTTAAT
1 ATAATTATCCTAAT
37827837 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
37827852 ATAATTA
1 ATAATTA
37827859 AAATAGAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:37836234 original size:29 final size:29
Alignment explanation
Indices: 37836180--37836235 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
37836170 GCTTTTAAAG
* *
37836180 ATATTTACAAAAAGAGACAGCTAATTTCA
1 ATATTTACAAAAAGAGACACCAAATTTCA
*
37836209 ATATTTACAAAAATA-ACAACCAAATTT
1 ATATTTACAAAAAGAGAC-ACCAAATTT
37836236 TGTGAAAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 2 0.09
29 21 0.91
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.29
Consensus pattern (29 bp):
ATATTTACAAAAAGAGACACCAAATTTCA
Found at i:37841449 original size:27 final size:27
Alignment explanation
Indices: 37841430--37841600 Score: 206
Period size: 27 Copynumber: 6.4 Consensus size: 27
37841420 GGGTATAACA
*
37841430 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* * *
37841457 ATCATTTTACCCTATAAGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCG
37841484 GTCATTTTACCCTAT-GGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
*
37841510 GTCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
37841537 GTCATTTTACCCTATCA-GAGTATTTTG
1 GTCATTTTACCCTAT-AGGGGTATTTCG
* * *
37841564 ATCATTTTACCCTGT-GGGGACATTT-G
1 GTCATTTTACCCTATAGGGG-TATTTCG
37841590 GTCATTTTACC
1 GTCATTTTACC
37841601 TATTTTAGGG
Statistics
Matches: 126, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
26 37 0.29
27 88 0.70
28 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTCG
Found at i:37841523 original size:80 final size:80
Alignment explanation
Indices: 37841430--37841600 Score: 254
Period size: 80 Copynumber: 2.1 Consensus size: 80
37841420 GGGTATAACA
* * *
37841430 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAAGGGTATTTTGGTCATTTTACC
1 GTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATAAGAGTATTTTGATCATTTTACC
*
37841495 CTATGGGG-TATTTCG
66 CTATGGGGACATTT-G
* * *
37841510 GTCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTATCAGAGTATTTTGATCATTTTACC
1 GTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATAAGAGTATTTTGATCATTTTACC
*
37841575 CTGTGGGGACATTTG
66 CTATGGGGACATTTG
37841590 GTCATTTTACC
1 GTCATTTTACC
37841601 TATTTTAGGG
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
80 78 0.95
81 4 0.05
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.43
Consensus pattern (80 bp):
GTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATAAGAGTATTTTGATCATTTTACC
CTATGGGGACATTTG
Found at i:37841524 original size:53 final size:54
Alignment explanation
Indices: 37841430--37841576 Score: 233
Period size: 53 Copynumber: 2.7 Consensus size: 54
37841420 GGGTATAACA
*
37841430 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAAGGGTATTTTG
1 GTCATTTTACCCTATCGGGGTATTTCGATCATTTTACCCTATAAGGGTATTTTG
* *
37841484 GTCATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATCGGGGTATTTCGATCATTTTACCCTATAAGGGTATTTTG
* * *
37841537 GTCATTTTACCCTATCAGAGTATTTTGATCATTTTACCCT
1 GTCATTTTACCCTATCGGGGTATTTCGATCATTTTACCCT
37841577 GTGGGGACAT
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
53 51 0.59
54 35 0.41
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.44
Consensus pattern (54 bp):
GTCATTTTACCCTATCGGGGTATTTCGATCATTTTACCCTATAAGGGTATTTTG
Found at i:37841590 original size:53 final size:52
Alignment explanation
Indices: 37841430--37841600 Score: 227
Period size: 53 Copynumber: 3.2 Consensus size: 52
37841420 GGGTATAACA
*
37841430 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAAGGGTATTTTG
1 GTCATTTTACCCTAT-GGGGTATTTCGATCATTTTACCCTAT-AGGGGATTTTG
*
37841484 GTCATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATGGGGTATTTCGATCATTTTACCCTATAGGGG-ATTTTG
* * * * *
37841537 GTCATTTTACCCTATCAGAGTATTTTGATCATTTTACCCTGT-GGGGACATTTG
1 GTCATTTTACCCTAT-GGGGTATTTCGATCATTTTACCCTATAGGGGA-TTTTG
37841590 GTCATTTTACC
1 GTCATTTTACC
37841601 TATTTTAGGG
Statistics
Matches: 106, Mismatches: 8, Indels: 7
0.88 0.07 0.06
Matches are distributed among these distances:
52 5 0.05
53 65 0.61
54 36 0.34
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.43
Consensus pattern (52 bp):
GTCATTTTACCCTATGGGGTATTTCGATCATTTTACCCTATAGGGGATTTTG
Found at i:37852665 original size:28 final size:28
Alignment explanation
Indices: 37852631--37852756 Score: 180
Period size: 28 Copynumber: 4.5 Consensus size: 28
37852621 TGACTTTCGA
37852631 CACTAAGTGTGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* *
37852659 CTCTAAGTGTGCAAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* *
37852687 CACTAAGTGTGCGAGTTTAATGGAAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * **
37852715 CACTAAGTGTGCGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
37852743 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
37852757 ACTTATTAAA
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 86 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:37853524 original size:22 final size:22
Alignment explanation
Indices: 37853489--37853607 Score: 105
Period size: 23 Copynumber: 5.1 Consensus size: 22
37853479 TTATGCTTAA
37853489 ATGCTGCTCAATTTGTTGTATAT
1 ATGCTGC-CAATTTGTTGTATAT
*
37853512 TTGCTGCCAATTTGTTGTATAT
1 ATGCTGCCAATTTGTTGTATAT
* * *
37853534 AAGCTGTCCAATTT-TTGGTGCAAAA
1 ATGCTG-CCAATTTGTT-GT--ATAT
* *
37853559 ATGCTACTCAATATGTTGTATAT
1 ATGCTGC-CAATTTGTTGTATAT
*
37853582 ATGCTGCCTAAATTGTTGTATAT
1 ATGCTGCC-AATTTGTTGTATAT
37853605 ATG
1 ATG
37853608 ATGTCCAAAT
Statistics
Matches: 76, Mismatches: 13, Indels: 14
0.74 0.13 0.14
Matches are distributed among these distances:
22 22 0.29
23 38 0.50
24 1 0.01
25 13 0.17
26 2 0.03
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (22 bp):
ATGCTGCCAATTTGTTGTATAT
Found at i:37853576 original size:70 final size:71
Alignment explanation
Indices: 37853487--37853624 Score: 206
Period size: 70 Copynumber: 2.0 Consensus size: 71
37853477 TTTTATGCTT
* * * * * *
37853487 AAATGCTGCTCAATTTGTTGTATATTTGCTGCC-AATTTGTTGTATATAAGCTGTCCAATTTTTG
1 AAATGCTACTCAATATGTTGTATATATGCTGCCTAAATTGTTGTATATAAGATGTCCAAATTTTG
37853551 GTGCAA
66 GTGCAA
*
37853557 AAATGCTACTCAATATGTTGTATATATGCTGCCTAAATTGTTGTATATATGATGTCCAAATTTTG
1 AAATGCTACTCAATATGTTGTATATATGCTGCCTAAATTGTTGTATATAAGATGTCCAAATTTTG
37853622 GTG
66 GTG
37853625 TGAAATTGCT
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
70 30 0.50
71 30 0.50
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (71 bp):
AAATGCTACTCAATATGTTGTATATATGCTGCCTAAATTGTTGTATATAAGATGTCCAAATTTTG
GTGCAA
Found at i:37853617 original size:23 final size:23
Alignment explanation
Indices: 37853572--37853618 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
37853562 CTACTCAATA
*
37853572 TGTTGTATATATGCTGCCTAAAT
1 TGTTGTATATATGATGCCTAAAT
37853595 TGTTGTATATATGATGTCC-AAAT
1 TGTTGTATATATGATG-CCTAAAT
37853618 T
1 T
37853619 TTGGTGTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 20 0.91
24 2 0.09
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.45
Consensus pattern (23 bp):
TGTTGTATATATGATGCCTAAAT
Found at i:37854293 original size:41 final size:41
Alignment explanation
Indices: 37854191--37854340 Score: 151
Period size: 41 Copynumber: 3.7 Consensus size: 41
37854181 TTACAAAGAA
** * * *
37854191 GCGCTGCTAATGCTCAAGGATTTAGCGACATTTTTGAAAAA
1 GCGCTGCTAATGCTCTGGGCTTTAGCGACGTTTTTGAAAAG
* * *
37854232 GCGCCT-CTAATGCTCGGGGCTTTAGCGGCGTATTTGAAAAG
1 GCG-CTGCTAATGCTCTGGGCTTTAGCGACGTTTTTGAAAAG
* * * *
37854273 GCGCTGCTAATGCTTTGGGCTTTAGCAATGTTTTTGAAATG
1 GCGCTGCTAATGCTCTGGGCTTTAGCGACGTTTTTGAAAAG
*
37854314 GCGCCGCTAATGCT-TGGTGCTTTAGCG
1 GCGCTGCTAATGCTCTGG-GCTTTAGCG
37854341 GCATTTGTGA
Statistics
Matches: 90, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
40 5 0.06
41 83 0.92
42 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.31
Consensus pattern (41 bp):
GCGCTGCTAATGCTCTGGGCTTTAGCGACGTTTTTGAAAAG
Found at i:37854454 original size:41 final size:41
Alignment explanation
Indices: 37854387--37854574 Score: 184
Period size: 41 Copynumber: 4.6 Consensus size: 41
37854377 TAGTGGCGTT
* * *
37854387 TGCTCGGGGCTTTAGCGGTGTCTTTGAAAAAGCACTGCTAA
1 TGCTCGGGGATTTAGCGGCGTTTTTGAAAAAGCACTGCTAA
* ** *
37854428 TGCTTGGGGATTTAGCGGCGTTTTTGAGGAAGCGCAT-CTAA
1 TGCTCGGGGATTTAGCGGCGTTTTTGAAAAAGCAC-TGCTAA
* * * **
37854469 TGCTCGGGGACTTAGCAGCGCTTTTG-AAAAGCGTTGCTAA
1 TGCTCGGGGATTTAGCGGCGTTTTTGAAAAAGCACTGCTAA
* * *
37854509 TGCTCGGGGTTTTAGCGGCGTTTTTGATAAATCA-TCGCTAA
1 TGCTCGGGGATTTAGCGGCGTTTTTGAAAAAGCACT-GCTAA
* *
37854550 TGCTCGGGGTTTTAGCGGCATTTTT
1 TGCTCGGGGATTTAGCGGCGTTTTT
37854575 TGATAAAGTG
Statistics
Matches: 121, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
39 1 0.01
40 32 0.26
41 87 0.72
42 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.30, T:0.33
Consensus pattern (41 bp):
TGCTCGGGGATTTAGCGGCGTTTTTGAAAAAGCACTGCTAA
Found at i:37854565 original size:81 final size:82
Alignment explanation
Indices: 37854387--37854565 Score: 195
Period size: 81 Copynumber: 2.2 Consensus size: 82
37854377 TAGTGGCGTT
* * * *
37854387 TGCTCGGGGCTTTAGCGGTGTCTTTGAAAAAGCACTGCTAATGCTTGGGGATTTAGCGGCGTTTT
1 TGCTCGGGGATTTAGCAGCGTCTTTGAAAAAGCACTGCTAATGCTCGGGGATTTAGCGGCGTTTT
*
37854452 TGAGGAAGCGCATCTAA
66 TGAGGAAGAGCATCTAA
* ** *
37854469 TGCTCGGGGACTTAGCAGCG-CTTTTG-AAAAGCGTTGCTAATGCTCGGGGTTTTAGCGGCGTTT
1 TGCTCGGGGATTTAGCAGCGTC-TTTGAAAAAGCACTGCTAATGCTCGGGGATTTAGCGGCGTTT
* *
37854532 TTGA-TAA-ATCATCGCTAA
65 TTGAGGAAGAGCAT--CTAA
*
37854550 TGCTCGGGGTTTTAGC
1 TGCTCGGGGATTTAGC
37854566 GGCATTTTTT
Statistics
Matches: 81, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
79 3 0.04
80 2 0.02
81 56 0.69
82 20 0.25
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.32
Consensus pattern (82 bp):
TGCTCGGGGATTTAGCAGCGTCTTTGAAAAAGCACTGCTAATGCTCGGGGATTTAGCGGCGTTTT
TGAGGAAGAGCATCTAA
Found at i:37858366 original size:87 final size:87
Alignment explanation
Indices: 37858231--37858398 Score: 273
Period size: 87 Copynumber: 1.9 Consensus size: 87
37858221 AGGCAGCATT
37858231 GAGAGAAGCTGAGGTCCAAAGAAAATATGAAGAACTCCAACTACAACTTAAAGCAGATGCAGCAG
1 GAGAGAAGCTGAGGTCCAAAGAAAATATGAAGAACTCCAACTACAACTTAAAGCAGATGCAGCAG
*
37858296 CGAGGGAAGTAGAGGCAGGAGC
66 CGAGGGAAGCAGAGGCAGGAGC
* * * * * *
37858318 GAGAGAAGCTGATGTTCAAAGAAAATATGAAGAACTTCAGCTGCAACTTAAAGCTGATGCAGCAG
1 GAGAGAAGCTGAGGTCCAAAGAAAATATGAAGAACTCCAACTACAACTTAAAGCAGATGCAGCAG
37858383 CGAGGGAAGCAGAGGC
66 CGAGGGAAGCAGAGGC
37858399 TGCAGCACGG
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 74 1.00
ACGTcount: A:0.40, C:0.17, G:0.30, T:0.14
Consensus pattern (87 bp):
GAGAGAAGCTGAGGTCCAAAGAAAATATGAAGAACTCCAACTACAACTTAAAGCAGATGCAGCAG
CGAGGGAAGCAGAGGCAGGAGC
Found at i:37858762 original size:43 final size:42
Alignment explanation
Indices: 37858723--37858882 Score: 187
Period size: 43 Copynumber: 3.8 Consensus size: 42
37858713 TTAAAAAAAA
37858723 GCCGCTAAAAGTCATGATCTATAGCGGCGTTTGGGAAAAAAGT
1 GCCGCTAAAAGTCATGATCTATAGCGGCGTTTGGG-AAAAAGT
* * ** * * *
37858766 GCTGCTAAAAGTCATGATCTATAGCGGCATTTTTGTAAAGGC
1 GCCGCTAAAAGTCATGATCTATAGCGGCGTTTGGGAAAAAGT
*
37858808 GCCGCTAAAAGTTATGATCTATAGCGGCGTTTGCGGAAAAAGT
1 GCCGCTAAAAGTCATGATCTATAGCGGCGTTTG-GGAAAAAGT
** *
37858851 GCCGCTAATGGTCATGA-CTTTTAGCGGCGTTT
1 GCCGCTAAAAGTCATGATC-TATAGCGGCGTTT
37858883 ATTTATAAAA
Statistics
Matches: 96, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 34 0.35
43 62 0.65
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (42 bp):
GCCGCTAAAAGTCATGATCTATAGCGGCGTTTGGGAAAAAGT
Found at i:37860665 original size:17 final size:18
Alignment explanation
Indices: 37860643--37860690 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
37860633 ATTAAATTAA
*
37860643 TAAGATTTAATATT-TAT
1 TAAGATTTAATATTAGAT
*
37860660 TAAGA-TAAATATTAGAT
1 TAAGATTTAATATTAGAT
37860677 TAA-ATTTAATATTA
1 TAAGATTTAATATTA
37860691 AAGTGATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 8 0.31
17 18 0.69
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (18 bp):
TAAGATTTAATATTAGAT
Found at i:37862875 original size:29 final size:29
Alignment explanation
Indices: 37862842--37862919 Score: 86
Period size: 28 Copynumber: 2.7 Consensus size: 29
37862832 GATACATAGC
*
37862842 ACCTGAAACTGTAATCACCAGCACTAACT
1 ACCTGAAACTGTAATCACCAGCACAAACT
* ** * *
37862871 GCCTGAAACTGTAA-CACTGGTACAAAGT
1 ACCTGAAACTGTAATCACCAGCACAAACT
*
37862899 ACCTGATACTGTAATCACCAG
1 ACCTGAAACTGTAATCACCAG
37862920 AAACTAGTGC
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
28 21 0.55
29 17 0.45
ACGTcount: A:0.36, C:0.27, G:0.15, T:0.22
Consensus pattern (29 bp):
ACCTGAAACTGTAATCACCAGCACAAACT
Found at i:37875064 original size:43 final size:43
Alignment explanation
Indices: 37874913--37875064 Score: 130
Period size: 44 Copynumber: 3.5 Consensus size: 43
37874903 ATAAGATTCA
* * * *
37874913 GATATGTGATTTCGTGTAAGACCATGTCTGGGAC-GTTGGCATC
1 GATATTTGATTACATGTAAGACCATGTCTAGGACAG-TGGCATC
* * * * *
37874956 GAT-TTGAGATTTACGTGTAAGACCATGTCTAGGACATTGACATT
1 GATATT-TGA-TTACATGTAAGACCATGTCTAGGACAGTGGCATC
* * * * *
37875000 G-TATATGATTTCACGAAAGACCCTGTCTAGGACAGTGGCATC
1 GATATTTGATTACATGTAAGACCATGTCTAGGACAGTGGCATC
37875042 GATATTTGATTACATGTAAGACC
1 GATATTTGATTACATGTAAGACC
37875065 TCGTCTGGGA
Statistics
Matches: 83, Mismatches: 21, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
42 28 0.34
43 25 0.30
44 30 0.36
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
GATATTTGATTACATGTAAGACCATGTCTAGGACAGTGGCATC
Found at i:37879791 original size:27 final size:27
Alignment explanation
Indices: 37879761--37879934 Score: 197
Period size: 27 Copynumber: 6.4 Consensus size: 27
37879751 TGAGTCCGCT
* * * *
37879761 CACTCAGTGCTATATAATCAACTCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
* *
37879788 CACTTAGTGCTACGTAATCAAATCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
37879815 CACTTAGTGCTACATAGTCAAACTCGCA
1 CACTTAGTGCTACATAGTCAAA-TCGCA
** * *
37879843 CACTTAGTGCCGCATGGTCAATTCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
* **
37879870 CACTTAGTGC-ATCATATTCATTTCGCA
1 CACTTAGTGCTA-CATAGTCAAATCGCA
*
37879897 CACTTAGTGCAACATAGTCAAATCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
37879924 CACTTAGTGCT
1 CACTTAGTGCT
37879935 GTACAATTTA
Statistics
Matches: 126, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CACTTAGTGCTACATAGTCAAATCGCA
Found at i:37879903 original size:82 final size:81
Alignment explanation
Indices: 37879778--37879933 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
37879768 TGCTATATAA
* *
37879778 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
37879843 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
37879860 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
37879924 CACTTAGTGC
65 CACTTAGTGC
37879934 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:37887858 original size:27 final size:27
Alignment explanation
Indices: 37887828--37888001 Score: 197
Period size: 27 Copynumber: 6.4 Consensus size: 27
37887818 TGAGTCCGCT
* * * *
37887828 CACTCAGTGCTATATAATCAACTCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
* *
37887855 CACTTAGTGCTACGTAATCAAATCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
37887882 CACTTAGTGCTACATAGTCAAACTCGCA
1 CACTTAGTGCTACATAGTCAAA-TCGCA
** * *
37887910 CACTTAGTGCCGCATGGTCAATTCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
* **
37887937 CACTTAGTGC-ATCATATTCATTTCGCA
1 CACTTAGTGCTA-CATAGTCAAATCGCA
*
37887964 CACTTAGTGCAACATAGTCAAATCGCA
1 CACTTAGTGCTACATAGTCAAATCGCA
37887991 CACTTAGTGCT
1 CACTTAGTGCT
37888002 GTACAATTTA
Statistics
Matches: 126, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CACTTAGTGCTACATAGTCAAATCGCA
Found at i:37887970 original size:82 final size:81
Alignment explanation
Indices: 37887845--37888000 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
37887835 TGCTATATAA
* *
37887845 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
37887910 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
37887927 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
37887991 CACTTAGTGC
65 CACTTAGTGC
37888001 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:37895848 original size:43 final size:43
Alignment explanation
Indices: 37895702--37895852 Score: 134
Period size: 43 Copynumber: 3.5 Consensus size: 43
37895692 AATGTGATAT
* *
37895702 CGTGTAAGACCACGTCTGGGAC-GTTGGCATCGATTTG-AGATTTA
1 CGTGTAAGACCACGTCTGGGACAG-TGGCATCG-TTAGTTGA-TTA
* * * *
37895746 CGTGTAAGACCATGCCTGGGACA-TTGCAATCG-TA-TATGCTTA
1 CGTGTAAGACCACGTCTGGGACAGTGGC-ATCGTTAGT-TGATTA
*
37895788 CGTGTAAGACTC-TGTCTGGGACAGTGGCATCGTTAGTTGATTA
1 CGTGTAAGAC-CACGTCTGGGACAGTGGCATCGTTAGTTGATTA
*
37895831 CATGTAAGACCACGTCTGGGAC
1 CGTGTAAGACCACGTCTGGGAC
37895853 GTTGACATTG
Statistics
Matches: 87, Mismatches: 11, Indels: 19
0.74 0.09 0.16
Matches are distributed among these distances:
42 29 0.33
43 33 0.38
44 25 0.29
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACAGTGGCATCGTTAGTTGATTA
Found at i:37899328 original size:18 final size:18
Alignment explanation
Indices: 37899305--37899347 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
37899295 ACCCAATCAA
*
37899305 AACCCAAGTATCCAACCC
1 AACCCAAGTACCCAACCC
*
37899323 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
37899341 AACCCAA
1 AACCCAA
37899348 CCCAATCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.47, G:0.02, T:0.09
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:37899895 original size:20 final size:18
Alignment explanation
Indices: 37899871--37899922 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
37899861 AATAGTATTT
37899871 TATTAATTTAATATTAAA
1 TATTAATTTAATATTAAA
37899889 GTGATT-ATATTAATATTAAA
1 -T-ATTAAT-TTAATATTAAA
37899909 T-TTAATTTAATATT
1 TATTAATTTAATATT
37899923 TATCTTGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 10 0.33
18 2 0.07
19 4 0.13
20 14 0.47
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (18 bp):
TATTAATTTAATATTAAA
Found at i:37899963 original size:69 final size:68
Alignment explanation
Indices: 37899830--37899964 Score: 173
Period size: 69 Copynumber: 2.0 Consensus size: 68
37899820 TTTAATAGAT
* * *
37899830 TTAATATTAAATTAATTTTAATACTAATCCTAATAGTATTTTATTAATTTAATATTAAAGTGATT
1 TTAATATTAAATTAATTTTAATACTAATCCTAATAATATTGTATTAATTTAATATCAAAGTGATT
37899895 ATA
66 ATA
* * * * *
37899898 TTAATATTAAATTTAA-TTTAATATTTATCTTGATAAATATTGTATTAATTTAATATCAAATTGA
1 TTAATATTAAA-TTAATTTTAATACTAATCCTAAT-AATATTGTATTAATTTAATATCAAAGTGA
37899962 TTA
64 TTA
37899965 AGTCTAATCA
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
68 25 0.44
69 32 0.56
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (68 bp):
TTAATATTAAATTAATTTTAATACTAATCCTAATAATATTGTATTAATTTAATATCAAAGTGATT
ATA
Found at i:37900196 original size:36 final size:36
Alignment explanation
Indices: 37900142--37900214 Score: 130
Period size: 36 Copynumber: 2.0 Consensus size: 36
37900132 AAGTATAGAG
37900142 AAATTGCAAAAATTACCCTACTGGTAATTTTTGTGAA
1 AAATTGCAAAAATTACCCTACTGGTAA-TTTTGTGAA
37900179 AAATTGC-AAAATTACCCTACTGGTAATTTTGTGAA
1 AAATTGCAAAAATTACCCTACTGGTAATTTTGTGAA
37900214 A
1 A
37900215 GTTTTTCTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 10 0.28
36 19 0.53
37 7 0.19
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (36 bp):
AAATTGCAAAAATTACCCTACTGGTAATTTTGTGAA
Found at i:37905544 original size:26 final size:26
Alignment explanation
Indices: 37905329--37905541 Score: 207
Period size: 26 Copynumber: 8.2 Consensus size: 26
37905319 CAAGTTGCTG
*
37905329 AATTTGTTAGGTT-AGCCTGGTTGGTT
1 AATTTGTTAGGTTCA-CCAGGTTGGTT
* * *
37905355 AATCTATTAGGTTCGCCAGGTTGGTT
1 AATTTGTTAGGTTCACCAGGTTGGTT
* * ** *
37905381 AATCTGCTAGGTTTGCCAGGTTAGTT
1 AATTTGTTAGGTTCACCAGGTTGGTT
37905407 AATTTGTTAGGTTTC-CCAGGTTGGTT
1 AATTTGTTAGG-TTCACCAGGTTGGTT
*
37905433 AATTTGTTAGGTTCACCAGGTTGTTT
1 AATTTGTTAGGTTCACCAGGTTGGTT
* *
37905459 AATTTGTTAAGTTCACTAGGTTGGTT
1 AATTTGTTAGGTTCACCAGGTTGGTT
* * *
37905485 AATCTATTAGGTTCACCAAGTTGGTT
1 AATTTGTTAGGTTCACCAGGTTGGTT
* ** *
37905511 AACATT-TTAGGTTTTCCAGGTTTGTT
1 AA-TTTGTTAGGTTCACCAGGTTGGTT
37905537 AATTT
1 AATTT
37905542 TTTGAAGTGT
Statistics
Matches: 155, Mismatches: 28, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
25 5 0.03
26 147 0.95
27 3 0.02
ACGTcount: A:0.20, C:0.12, G:0.24, T:0.44
Consensus pattern (26 bp):
AATTTGTTAGGTTCACCAGGTTGGTT
Found at i:37908203 original size:16 final size:17
Alignment explanation
Indices: 37908166--37908205 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
37908156 TGATATAAGG
*
37908166 GTAAAAT-AGTAAAATA
1 GTAAAATAAGTAAAACA
37908182 GT-AAATAAGTAAAACA
1 GTAAAATAAGTAAAACA
37908198 -TAAAATAA
1 GTAAAATAA
37908206 AAATAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.65, C:0.03, G:0.10, T:0.23
Consensus pattern (17 bp):
GTAAAATAAGTAAAACA
Found at i:37913094 original size:26 final size:23
Alignment explanation
Indices: 37913054--37913113 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 23
37913044 TAGCCTTAGA
37913054 GTATTCGAAATTTTTGCG-TTATG
1 GTATTCGAAATTTTT-CGATTATG
37913077 GTATATCGATAATATTTTCGATTATG
1 GTAT-TCGA-AAT-TTTTCGATTATG
*
37913103 GTTTTCAGAAA
1 GTATTC-GAAA
37913114 ATCAAATCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
23 4 0.13
24 4 0.13
25 9 0.29
26 14 0.45
ACGTcount: A:0.28, C:0.08, G:0.18, T:0.45
Consensus pattern (23 bp):
GTATTCGAAATTTTTCGATTATG
Found at i:37921953 original size:27 final size:25
Alignment explanation
Indices: 37921913--37921968 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
37921903 ATTCAAAAAA
*
37921913 TAATATTATTTTAATAG-ATTTAATAT
1 TAATATTATCTTAATAGTATTT--TAT
37921939 TAATACTTATCTTAATAGTATTTTAT
1 TAATA-TTATCTTAATAGTATTTTAT
37921965 TAAT
1 TAAT
37921969 TTAATATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 12 0.44
27 11 0.41
28 4 0.15
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.54
Consensus pattern (25 bp):
TAATATTATCTTAATAGTATTTTAT
Found at i:37921986 original size:20 final size:20
Alignment explanation
Indices: 37921961--37922019 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 20
37921951 TAATAGTATT
37921961 TTATTAATTTAATATTAAAG
1 TTATTAATTTAATATTAAAG
*
37921981 TTATT-ATCTTAATATTAAAT
1 TTATTAAT-TTAATATTAAAG
37922001 TTAATTTAATTTAAT-TTAA
1 TT-A-TTAATTTAATATTAA
37922020 TATTAAAGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
19 2 0.06
20 18 0.53
21 5 0.15
22 7 0.21
23 2 0.06
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
TTATTAATTTAATATTAAAG
Found at i:37929635 original size:17 final size:17
Alignment explanation
Indices: 37929615--37929711 Score: 60
Period size: 17 Copynumber: 5.7 Consensus size: 17
37929605 ATTTTAATAG
37929615 ATTTAATATTTAATTTA
1 ATTTAATATTTAATTTA
*
37929632 ATTTAATGTTT-ATCTTA
1 ATTTAATATTTAAT-TTA
* *
37929649 A--TAGTATTTCA-TTA
1 ATTTAATATTTAATTTA
*
37929663 ATTTAATATTAAAGTGATT-
1 ATTTAATATTTAA-T--TTA
*
37929682 ATATTAATATTAAATTTA
1 AT-TTAATATTTAATTTA
*
37929700 ATTTAATGTTTA
1 ATTTAATATTTA
37929712 TCTCGTAGAT
Statistics
Matches: 62, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
14 4 0.06
15 6 0.10
16 10 0.16
17 24 0.39
18 2 0.03
19 3 0.05
20 13 0.21
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (17 bp):
ATTTAATATTTAATTTA
Found at i:37929754 original size:62 final size:59
Alignment explanation
Indices: 37929685--37929801 Score: 180
Period size: 62 Copynumber: 1.9 Consensus size: 59
37929675 AGTGATTATA
* * *
37929685 TTAATATTAAATTTAATTTAATGTTTATCTCGTAGATAAATATTCTATTAATTTAATAAGAC
1 TTAATATTAAATTTAATCTAATATTTATCT--T-GATAAATATTATATTAATTTAATAAGAC
37929747 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
37929802 TTAAAGTGAT
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
59 23 0.44
60 1 0.02
62 28 0.54
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAAGAC
Found at i:37933261 original size:13 final size:14
Alignment explanation
Indices: 37933237--37933285 Score: 59
Period size: 13 Copynumber: 3.6 Consensus size: 14
37933227 AATTCCACTA
37933237 AAAATTTAAAAAATT
1 AAAA-TTAAAAAATT
*
37933252 AAGA-T-AAAAATT
1 AAAATTAAAAAATT
37933264 AAAATTAAAAAA-T
1 AAAATTAAAAAATT
37933277 AAAATTAAA
1 AAAATTAAA
37933286 GAAAAATTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 10 0.33
13 12 0.40
14 5 0.17
15 3 0.10
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (14 bp):
AAAATTAAAAAATT
Found at i:37935936 original size:38 final size:39
Alignment explanation
Indices: 37935874--37935953 Score: 144
Period size: 38 Copynumber: 2.1 Consensus size: 39
37935864 CAACCCAACC
*
37935874 CTACCCAATTACCCAACCCAATAAAACTAAAACTAAAGT
1 CTACCCAATTACCCAACCCAATAAAAATAAAACTAAAGT
37935913 CTACCCAATTA-CCAACCCAATAAAAATAAAACTAAAGT
1 CTACCCAATTACCCAACCCAATAAAAATAAAACTAAAGT
37935951 CTA
1 CTA
37935954 ACTCTTAAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
38 29 0.73
39 11 0.28
ACGTcount: A:0.50, C:0.29, G:0.03, T:0.19
Consensus pattern (39 bp):
CTACCCAATTACCCAACCCAATAAAAATAAAACTAAAGT
Found at i:37936196 original size:9 final size:9
Alignment explanation
Indices: 37936156--37936195 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
37936146 GTAATGATTC
*
37936156 AATTCGGGT
1 AATTCGGTT
37936165 AATTCGGTT
1 AATTCGGTT
37936174 AATTCGGTT
1 AATTCGGTT
*
37936183 AATTTGGTT
1 AATTCGGTT
37936192 AATT
1 AATT
37936196 TTTAACCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.25, C:0.07, G:0.23, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:37943557 original size:105 final size:107
Alignment explanation
Indices: 37943276--37943558 Score: 345
Period size: 106 Copynumber: 2.7 Consensus size: 107
37943266 TAAAGTTGAT
* * *
37943276 GAAATTCTAAATAAACCAAACAAAACCCATCACTCATTTACAACTTTTTAGTCTTGCTTTCAGAA
1 GAAATTTTAAATAAACCAAACAAAACCCATCACTTATTTACAAC-TTTTAGTCTTCCTTTCAGAA
* * * * * *
37943341 TGTATCAAACCATGGAGGCTGCAATTGCAATGTCAGAGTTGAT
65 TGTATCAAACCATGGAAGCAGCAAATGCAATATCAGAGTTCAC
* * * * * * *
37943384 GAAATTTTAAAAAAACCAAACAAAACCAACCACTTATTTACTACATTTAGTCTTCCATTCAGTAT
1 GAAATTTTAAATAAACCAAACAAAACCCATCACTTATTTACAACTTTTAGTCTTCCTTTCAGAAT
* * *
37943449 GTATC-AACCATGGAATCAGCAAATGCAATATTATAGTTCAC
66 GTATCAAACCATGGAAGCAGCAAATGCAATATCAGAGTTCAC
* * *
37943490 GAAATTTTAAATAAACCAAGC-AAACCCATCACTTATTCACAACTTTTAGTCTTTCTTTCAGAAT
1 GAAATTTTAAATAAACCAAACAAAACCCATCACTTATTTACAACTTTTAGTCTTCCTTTCAGAAT
37943554 GTATC
66 GTATC
37943559 GGCCATGTAG
Statistics
Matches: 146, Mismatches: 29, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
105 40 0.27
106 46 0.32
107 22 0.15
108 38 0.26
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (107 bp):
GAAATTTTAAATAAACCAAACAAAACCCATCACTTATTTACAACTTTTAGTCTTCCTTTCAGAAT
GTATCAAACCATGGAAGCAGCAAATGCAATATCAGAGTTCAC
Found at i:37943606 original size:4 final size:4
Alignment explanation
Indices: 37943597--37943627 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
37943587 ACGAAATTAT
37943597 AAAC AAAC AAAC AAAC AAAC AAAC AAA- AAAC
1 AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC
37943628 CCATAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (4 bp):
AAAC
Found at i:37956061 original size:21 final size:21
Alignment explanation
Indices: 37956036--37956081 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
37956026 TGGTTTTTGC
*
37956036 CTTTAAACCTTTGTTTTATAA
1 CTTTAAACCCTTGTTTTATAA
*
37956057 CTTTAAACCCTTGTTTTATAC
1 CTTTAAACCCTTGTTTTATAA
37956078 CTTT
1 CTTT
37956082 TGATTGGTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.20, G:0.04, T:0.52
Consensus pattern (21 bp):
CTTTAAACCCTTGTTTTATAA
Found at i:37962729 original size:44 final size:44
Alignment explanation
Indices: 37962675--37962867 Score: 135
Period size: 44 Copynumber: 4.4 Consensus size: 44
37962665 GCCATCTTTG
*
37962675 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCA
* ** * * *
37962719 ATCTATTCCACTGTTGCCTAGGGAGAT-AGA-AT-TACTGGCTTCA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAAT--CTTCA
* * * * **** *
37962762 ATGTACTCCACTGTAAC--CTCAGGGAGGTAAAATCCACCATCTTCG
1 ATCTACTCCAC--T-ACTGCTTAGGGAGATAAGATCTGTAATCTTCA
*
37962807 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCA
* *
37962851 ATCTATTCCACTGCTGC
1 ATCTACTCCACTACTGC
37962868 CCAGGGAAGT
Statistics
Matches: 105, Mismatches: 34, Indels: 20
0.66 0.21 0.13
Matches are distributed among these distances:
41 3 0.03
42 3 0.03
43 18 0.17
44 64 0.61
45 16 0.15
47 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (44 bp):
ATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCA
Found at i:37962774 original size:43 final size:44
Alignment explanation
Indices: 37962714--37962907 Score: 121
Period size: 44 Copynumber: 4.4 Consensus size: 44
37962704 GATCTGTAAT
*
37962714 CTTCAATCTATTCCACTGTTGCCTAGGGAGATAGAAT-TACTGG
1 CTTCAATCTACTCCACTGTTGCCTAGGGAGATAGAATCTACTGG
* ** * * * ***
37962757 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCAT
1 CTTCAATCTACTCCACTGTTGCCT-AGGGAGATAGAATCTACTGG
* * ** * *
37962802 CTTCGATCTGCTCCACTACTGCTTAGGGAGATA-AGATCTGTAAT--
1 CTTCAATCTACTCCACTGTTGCCTAGGGAGATAGA-ATC--TACTGG
* * *
37962846 CTTCAATCTATTCCACTGCTGCCCAGGGA-AGTAGAAT-TACTGG
1 CTTCAATCTACTCCACTGTTGCCTAGGGAGA-TAGAATCTACTGG
*
37962889 CTTCAATGTACTCCACTGT
1 CTTCAATCTACTCCACTGT
37962908 AACCACAGGG
Statistics
Matches: 110, Mismatches: 32, Indels: 18
0.69 0.20 0.11
Matches are distributed among these distances:
41 3 0.03
43 38 0.35
44 49 0.45
45 19 0.17
46 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (44 bp):
CTTCAATCTACTCCACTGTTGCCTAGGGAGATAGAATCTACTGG
Found at i:37963160 original size:133 final size:133
Alignment explanation
Indices: 37962604--37964037 Score: 1999
Period size: 133 Copynumber: 10.8 Consensus size: 133
37962594 CCACTACCGA
* * * * * * *
37962604 CCAGGGAGATAGAATTATTGGCTACAATATACTCCGCTGCAACCTCAGGGAGGTAAAATCTGCCA
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCG
* * * ** **
37962669 TCTTTGATCTGC-TC-C--ACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCAC
66 TCTTCGATCTGCTTCGCTGTCTA-TGC--AGGAAGGCAAGATCTAAAATCTTCAATCTATTCCAC
*
37962730 TGTTGC
128 TGCTGC
* * ** *
37962736 CTAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCA
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCG
* * ** **
37962801 TCTTCGATCTGC-TC-C--ACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCAC
66 TCTTCGATCTGCTTCGCTGTCTA-TGC--AGGAAGGCAAGATCTAAAATCTTCAATCTATTCCAC
37962862 TGCTGC
128 TGCTGC
*
37962868 CCAGGGA-AGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCC
1 CCAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCC
* * * * * * ** * * * * *
37962932 ATCTTTGATCTGCTCCACT-ACTGTTTAGGGAGACAATATATGAAATCTTCAATCTATTCCACTG
65 GTCTTCGATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCTAAAATCTTCAATCTATTCCACTG
37962996 CTGC
130 CTGC
* *
37963000 CTAGGGA-AGTAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCC
1 CCAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCC
* * *
37963064 GTCTTCGACCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCTAAAATCTTTAGTCTATTCCACTG
65 GTCTTCGATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCTAAAATCTTCAATCTATTCCACTG
37963129 CTGC
130 CTGC
37963133 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCG
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCG
* *
37963198 TCTTCGATCTTCTTCGCTGTCTATGCAGGAGGGCAAGATCTAAAATCTTCAATCTATTCCACTGC
66 TCTTCGATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCTAAAATCTTCAATCTATTCCACTGC
37963263 TGC
131 TGC
* * *
37963266 CCAGTGAGATAGAATTATTGGTTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCG
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCG
* * * *
37963331 TCTTCGATCTTCTTCACTGTCTATGCATGAAGGCAAGATCTAAAATCTTCAGTCTATTCCACTGC
66 TCTTCGATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCTAAAATCTTCAATCTATTCCACTGC
37963396 TGC
131 TGC
* *
37963399 CCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCG
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCG
** * * * *
37963464 TCTTCGATCTTTTTCGTTGTCTATACAGGAAGGCAAGATCTAAAATCTTCAGTCTATTCCACTCC
66 TCTTCGATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCTAAAATCTTCAATCTATTCCACTGC
37963529 TGC
131 TGC
* *
37963532 CTAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCTG
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCG
* * *
37963597 TCTTCGACCTGCTTCGCTGTCTATGCAGGAAGGCAATATCTAAAATCTTCAGTCTATTCCACTGC
66 TCTTCGATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCTAAAATCTTCAATCTATTCCACTGC
37963662 TGC
131 TGC
* *
37963665 CCAGAGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCG
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCG
* *
37963730 TCTTCGATCTTCTTCGCTGTCTATGTAGGAAGGCAAGATCTAAAATCTTCAATCTATTCCACTGC
66 TCTTCGATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCTAAAATCTTCAATCTATTCCACTGC
37963795 TGC
131 TGC
* *
37963798 CCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCG
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCG
* * *
37963863 TCTTCGATCTTCTTCGCTGTCTATGCATGAAGGCAAGATCTAAAATCTTCAGTCTATTCCACTGC
66 TCTTCGATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCTAAAATCTTCAATCTATTCCACTGC
37963928 TGC
131 TGC
* *
37963931 CCAGGGAGATAGAATTAATGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCG
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCG
* *
37963996 TCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTA
66 TCTTCGATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCTA
37964038 TTATCATTAC
Statistics
Matches: 1202, Mismatches: 94, Indels: 11
0.92 0.07 0.01
Matches are distributed among these distances:
131 1 0.00
132 306 0.25
133 889 0.74
134 3 0.00
135 3 0.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (133 bp):
CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCG
TCTTCGATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCTAAAATCTTCAATCTATTCCACTGC
TGC
Found at i:37974397 original size:16 final size:18
Alignment explanation
Indices: 37974376--37974413 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
37974366 TAGGGGGAGC
*
37974376 GAATAAAA-AGTTGG-AT
1 GAATAAAATACTTGGAAT
37974392 GAATAAAATACTTGGAAT
1 GAATAAAATACTTGGAAT
37974410 GAAT
1 GAAT
37974414 TATTAGTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 5 0.26
18 6 0.32
ACGTcount: A:0.50, C:0.03, G:0.21, T:0.26
Consensus pattern (18 bp):
GAATAAAATACTTGGAAT
Found at i:37976529 original size:5 final size:5
Alignment explanation
Indices: 37976519--37976555 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
37976509 AAGTGTTTAG
* *
37976519 TAAAA TAAAA TAAAA TAAAA TAGAA TTAAA TAAAA TA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TA
37976556 CTAAAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (5 bp):
TAAAA
Found at i:37981160 original size:3 final size:3
Alignment explanation
Indices: 37981154--37981189 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
37981144 TATGTTTTTA
*
37981154 TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
37981190 AATAATCTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:37987011 original size:30 final size:30
Alignment explanation
Indices: 37986975--37987034 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
37986965 ATAACACCAA
*
37986975 AGATCATCATTTAGAAACCAGCAGTCTTTG
1 AGATCATCATTCAGAAACCAGCAGTCTTTG
*
37987005 AGATCATCATTCAGAAACTAGCAGTCTTTG
1 AGATCATCATTCAGAAACCAGCAGTCTTTG
37987035 TTTATAAGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (30 bp):
AGATCATCATTCAGAAACCAGCAGTCTTTG
Found at i:37994011 original size:45 final size:45
Alignment explanation
Indices: 37993926--37994011 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 45
37993916 TATACTATGA
* * * *
37993926 CAAGTTTTATCTCCCTAAAGTTGCAGTGGAGCATACTGAAGATAG
1 CAAGTCTTATCTCCCTAAAGTTGCAATGGAACAGACTGAAGATAG
* * *
37993971 CAAGTCTTATTTCCCTAAAGTTGCAATGGAATAGATTGAAG
1 CAAGTCTTATCTCCCTAAAGTTGCAATGGAACAGACTGAAG
37994012 CTATAAATAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 34 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (45 bp):
CAAGTCTTATCTCCCTAAAGTTGCAATGGAACAGACTGAAGATAG
Found at i:37994118 original size:44 final size:45
Alignment explanation
Indices: 37994067--37994263 Score: 192
Period size: 44 Copynumber: 4.5 Consensus size: 45
37994057 TCATATCAAA
* *
37994067 CCTTATCTCCCTGAAGTTACAGTGGAGTAGGTTGAAGATACCAAT
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAAT
*
37994112 -CTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGATACCAAT
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAAT
* * * * * * *
37994156 CCCTATCTCTCTGAAGTTGCAGTAGAGCA-GAT-CACAT--CAAA
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAAT
* * * *
37994197 CCTTATCTCCCTAAAGTTGCAGCGGAGCAGGTTCAAGCA-ACTAAT
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAG-ATACCAAT
* *
37994242 -CATATCTCCCTAAAGTTGCAGT
1 CCTTATCTCCCTGAAGTTGCAGT
37994264 ATTACATTTT
Statistics
Matches: 123, Mismatches: 23, Indels: 13
0.77 0.14 0.08
Matches are distributed among these distances:
41 27 0.22
42 2 0.02
43 4 0.03
44 64 0.52
45 26 0.21
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (45 bp):
CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAAT
Found at i:37994195 original size:130 final size:130
Alignment explanation
Indices: 37994029--37994263 Score: 355
Period size: 130 Copynumber: 1.8 Consensus size: 130
37994019 TAACATATCT
* * * *
37994029 TATCTCTCTAAATTTGCAGTAAAGCAGATCATATCAAACCTTATCTCCCTGAAGTTACAGTGGAG
1 TATCTCTCTAAAGTTGCAGTAAAGCAGATCACATCAAACCTTATCTCCCTAAAGTTACAGCGGAG
* * *
37994094 TAGGTTGAAG-ATACCAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCC
66 CAGGTTCAAGCA-ACCAATCATATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCC
37994158 C
130 C
* * *
37994159 TATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCAAACCTTATCTCCCTAAAGTTGCAGCGGAG
1 TATCTCTCTAAAGTTGCAGTAAAGCAGATCACATCAAACCTTATCTCCCTAAAGTTACAGCGGAG
*
37994224 CAGGTTCAAGCAACTAATCATATCTCCCTAAAGTTGCAGT
66 CAGGTTCAAGCAACCAATCATATCTCCCTAAAGTTGCAGT
37994264 ATTACATTTT
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
130 92 0.99
131 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (130 bp):
TATCTCTCTAAAGTTGCAGTAAAGCAGATCACATCAAACCTTATCTCCCTAAAGTTACAGCGGAG
CAGGTTCAAGCAACCAATCATATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCCC
Found at i:37994216 original size:41 final size:44
Alignment explanation
Indices: 37994114--37994264 Score: 130
Period size: 41 Copynumber: 3.5 Consensus size: 44
37994104 ATACCAATCT
* * * * *
37994114 TATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAG-ATACCAATCCC
1 TATCTCCCTAAAGTTGCAGTAGAGCAGGATCAAGCA-A-CAAACCA
* * * *
37994159 TATCTCTCTGAAGTTGCAGTAGAGCA-GATC-A-CATCAAACCT
1 TATCTCCCTAAAGTTGCAGTAGAGCAGGATCAAGCAACAAACCA
** * * *
37994200 TATCTCCCTAAAGTTGCAGCGGAGCAGGTTCAAGCAACTAATCA
1 TATCTCCCTAAAGTTGCAGTAGAGCAGGATCAAGCAACAAACCA
37994244 TATCTCCCTAAAGTTGCAGTA
1 TATCTCCCTAAAGTTGCAGTA
37994265 TTACATTTTT
Statistics
Matches: 83, Mismatches: 19, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
41 27 0.33
42 3 0.04
43 3 0.04
44 27 0.33
45 23 0.28
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (44 bp):
TATCTCCCTAAAGTTGCAGTAGAGCAGGATCAAGCAACAAACCA
Found at i:37995149 original size:15 final size:16
Alignment explanation
Indices: 37995129--37995158 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37995119 ATAATTTACA
37995129 AATTG-TTGCATATTG
1 AATTGTTTGCATATTG
37995144 AATTGTTTGCATATT
1 AATTGTTTGCATATT
37995159 TGAAGTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.07, G:0.17, T:0.50
Consensus pattern (16 bp):
AATTGTTTGCATATTG
Found at i:37996541 original size:11 final size:11
Alignment explanation
Indices: 37996521--37996556 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
37996511 AACCTGTCCC
*
37996521 ATATTAAATAT
1 ATATTTAATAT
37996532 ATATTTAATAT
1 ATATTTAATAT
*
37996543 ACATTTAATAT
1 ATATTTAATAT
37996554 ATA
1 ATA
37996557 ATTCGGGCCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (11 bp):
ATATTTAATAT
Done.