Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 185 of 203
Found at i:58822965 original size:131 final size:131
Alignment explanation
Indices: 58822326--58822950 Score: 943
Period size: 131 Copynumber: 4.8 Consensus size: 131
58822316 CTGCAACCTC
* * * *
58822326 AGGG-AGATAAGATTTGCCATTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAT
1 AGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
*
58822390 TTCCAACCTATTCCACTGCTGACCAGGGAGATAGCACTTGTGGCTTAAATCTGCTTCCCTACTCC
66 TTCCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCC
58822455 T
131 T
* *
58822456 AGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATGAGATCTTTAAT
1 AGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
**
58822521 TTCCAACCTATTCCACTGCTGACCAGGGAGATAATACTTGTGGCTTAAATCTGCTTCCCTACTCC
66 TTCCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCC
58822586 T
131 T
* * * * *
58822587 AGGGACGATAAGATTTGCCGTCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGGTCTATAAT
1 AGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
* * *
58822652 CTT-CAACCTATTCCACTGCTGTCCAGGGAGATA-GAGTTTGTTGCTTAAATCTGCTTCCCTACT
66 -TTCCAACCTATTCCACTGCTGACCAGGGAGATAGGA-CTTGTGGCTTAAATCTGCTTCCCTACT
58822715 CCT
129 CCT
* * * * *
58822718 GGGGGAGATAAGATTCGCCATCTTTGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
1 AGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
* *
58822783 TTCCAACCTATTCCAGTGCTGACCAGGGAGATAGGACTTATGGCTTAAATCTGCTTCCCTACTCC
66 TTCCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCC
58822848 T
131 T
* ** * *
58822849 GGGGAAGATAAGATTCGTTGTCTTCGATCTACTCCACTACTGGTTAGGGAGATAAGATCTGTAAT
1 AGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
58822914 TT-CAACCTATTCCACTGCTGACCAGGGAGATAGGACT
66 TTCCAACCTATTCCACTGCTGACCAGGGAGATAGGACT
58822951 CACAATCTTC
Statistics
Matches: 448, Mismatches: 42, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
130 41 0.09
131 403 0.90
132 4 0.01
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.31
Consensus pattern (131 bp):
AGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
TTCCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTCCCTACTCC
T
Found at i:58823101 original size:393 final size:393
Alignment explanation
Indices: 58822327--58823074 Score: 958
Period size: 393 Copynumber: 1.9 Consensus size: 393
58822317 TGCAACCTCA
*
58822327 GGGAGATAAGATTTGCCATTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTT
1 GGGAGATAAGATTCGCCATTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTT
*
58822392 CCAACCTATTCCACTGCTGACCAGGGAGATAGCACTTGTGGCTTAAATCTGCTTCCCTACTCCTA
66 CCAACCTATTCCACTGCTGACCAGGGAGATAGCACTTATGGCTTAAATCTGCTTCCCTACTCCTA
* * *
58822457 GGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATGAGATCTTTAATT
131 GGGAAGATAAGATTCGCCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
* **** * *
58822522 TCCAACCTATTCCACTGCTGACCAGGGAGATAATACTTGTGGCTTAAATCTGCTTCCCTACTCCT
196 TCCAACCTATTCCACTGCTGACCAGGGAGATAAGACTACAAGCTTAAATCTGATTCCCTACTCCC
* * * * * * *
58822587 AGGGACGATAAGATTTGCCGTCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGGTCTATAAT
261 AGGGACGATAAGAATTGCCATCTTCGATCTACTCTACTACTGCTCAGGAAGACAAGATCTATAAT
* ** * *
58822652 CTTCAACCTATTCCACTGCTGTCCAGGGAGATAGAGTTTGTTGCTTAAATCTGCTTCCCTACTCC
326 CTTCAACCTACTCCACTGCTAACCAGGGAGACAGAGTGTGTTGCTTAAATCTGCTTCCCTACTCC
58822717 TGG
391 TGG
* *
58822720 GGGAGATAAGATTCGCCATCTTT-GATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
1 GGGAGATAAGATTCGCCAT-TTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATT
* *
58822784 TCCAACCTATTCCAGTGCTGACCAGGGAGATAGGACTTATGGCTTAAATCTGCTTCCCTACTCCT
65 TCCAACCTATTCCACTGCTGACCAGGGAGATAGCACTTATGGCTTAAATCTGCTTCCCTACTCCT
* ** *
58822849 GGGGAAGATAAGATTCGTTGTCTTCGATCTACTCCACTACTGGTTAGGGAGATAAGATCTGTAAT
130 AGGGAAGATAAGATTCGCCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
* * * *
58822914 TT-CAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATCTTCAATCT-ATTCCACTGCT
195 TTCCAACCTATTCCACTGCTGACCAGGGAGATAAGACT-ACAAGCTTAAATCTGATTCC-CTACT
** * *
58822977 GCCCAGGGA-GAT-AGAATTGGTATCTTCGATCTACT-T-C-GCTGTCCATGCAGGAAGGCAAGA
258 -CCCAGGGACGATAAGAATTGCCATCTTCGATCTACTCTACTACTG--C-T-CAGGAAGACAAGA
* *
58823037 TCTGCT-ATCTTCAACCTGCTCCACTGC-AACCGAGGGAG
318 TCT-ATAATCTTCAACCTACTCCACTGCTAACC-AGGGAG
58823075 GCAGGGCTAG
Statistics
Matches: 305, Mismatches: 40, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
389 3 0.01
390 1 0.00
391 2 0.01
392 58 0.19
393 230 0.75
394 11 0.04
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (393 bp):
GGGAGATAAGATTCGCCATTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTT
CCAACCTATTCCACTGCTGACCAGGGAGATAGCACTTATGGCTTAAATCTGCTTCCCTACTCCTA
GGGAAGATAAGATTCGCCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
TCCAACCTATTCCACTGCTGACCAGGGAGATAAGACTACAAGCTTAAATCTGATTCCCTACTCCC
AGGGACGATAAGAATTGCCATCTTCGATCTACTCTACTACTGCTCAGGAAGACAAGATCTATAAT
CTTCAACCTACTCCACTGCTAACCAGGGAGACAGAGTGTGTTGCTTAAATCTGCTTCCCTACTCC
TGG
Found at i:58825252 original size:13 final size:12
Alignment explanation
Indices: 58825234--58825268 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
58825224 TGGACTCTCC
58825234 TTTTTCTTTTCCT
1 TTTTTCTTTT-CT
58825247 TTTTTCTTTTCT
1 TTTTTCTTTTCT
*
58825259 TTTTTATTTT
1 TTTTTCTTTT
58825269 TATCATTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTCTTTTCT
Found at i:58825322 original size:15 final size:16
Alignment explanation
Indices: 58825298--58825375 Score: 54
Period size: 18 Copynumber: 4.8 Consensus size: 16
58825288 CTCATTTTGA
58825298 TTTTGATTTTTTCTTT
1 TTTTGATTTTTTCTTT
*
58825314 TTTTGTTTTTGTTCATTT
1 TTTTGATTTT-TTC-TTT
* *
58825332 TTTT--TATTTTCATT
1 TTTTGATTTTTTCTTT
58825346 TTTTGATTGATTTT-TTT
1 TTTTGATT--TTTTCTTT
*
58825363 ATTTCGATTTTTT
1 -TTTTGATTTTTT
58825376 TATTGATTGA
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 6 0.12
15 3 0.06
16 17 0.35
17 5 0.10
18 18 0.37
ACGTcount: A:0.10, C:0.05, G:0.08, T:0.77
Consensus pattern (16 bp):
TTTTGATTTTTTCTTT
Found at i:58825341 original size:26 final size:27
Alignment explanation
Indices: 58825319--58825375 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
58825309 TCTTTTTTTG
58825319 TTTTTG-TTCATTTTTTTTATTTTCAT
1 TTTTTGATTCATTTTTTTTATTTTCAT
*
58825345 TTTTTGATTGA-TTTTTTTA-TTTCGAT
1 TTTTTGATTCATTTTTTTTATTTTC-AT
58825371 TTTTT
1 TTTTT
58825376 TATTGATTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 4 0.14
26 21 0.75
27 3 0.11
ACGTcount: A:0.12, C:0.05, G:0.07, T:0.75
Consensus pattern (27 bp):
TTTTTGATTCATTTTTTTTATTTTCAT
Found at i:58825358 original size:12 final size:12
Alignment explanation
Indices: 58825343--58825383 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
58825333 TTTTATTTTC
*
58825343 ATTTTTTGATTG
1 ATTTTTTTATTG
58825355 ATTTTTTTATTTCG
1 ATTTTTTTA-TT-G
58825369 ATTTTTTTATTG
1 ATTTTTTTATTG
58825381 ATT
1 ATT
58825384 GAATCCGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 12 0.46
13 4 0.15
14 10 0.38
ACGTcount: A:0.17, C:0.02, G:0.10, T:0.71
Consensus pattern (12 bp):
ATTTTTTTATTG
Found at i:58825371 original size:14 final size:14
Alignment explanation
Indices: 58825330--58825379 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
58825320 TTTTGTTCAT
58825330 TTTTTTTATTTTC-A
1 TTTTTTTA-TTTCGA
*
58825344 TTTTTTGA-TT-GA
1 TTTTTTTATTTCGA
58825356 TTTTTTTATTTCGA
1 TTTTTTTATTTCGA
58825370 TTTTTTTATT
1 TTTTTTTATT
58825380 GATTGAATCC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 10 0.32
13 2 0.06
14 19 0.61
ACGTcount: A:0.14, C:0.04, G:0.06, T:0.76
Consensus pattern (14 bp):
TTTTTTTATTTCGA
Found at i:58825380 original size:26 final size:26
Alignment explanation
Indices: 58825330--58825383 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
58825320 TTTTGTTCAT
58825330 TTTTTTTATTTTCATTTTTTGATTGA
1 TTTTTTTATTTTCATTTTTTGATTGA
*
58825356 TTTTTTTA-TTTCGATTTTTTTATTGA
1 TTTTTTTATTTTC-ATTTTTTGATTGA
58825382 TT
1 TT
58825384 GAATCCGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 4 0.15
26 22 0.85
ACGTcount: A:0.15, C:0.04, G:0.07, T:0.74
Consensus pattern (26 bp):
TTTTTTTATTTTCATTTTTTGATTGA
Found at i:58830155 original size:17 final size:17
Alignment explanation
Indices: 58830133--58830170 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
58830123 TAGAATTGGG
58830133 TTAAGAAAATT-ATTTAA
1 TTAAG-AAATTAATTTAA
*
58830150 TTAAGAAATTAATTTAG
1 TTAAGAAATTAATTTAA
58830167 TTAA
1 TTAA
58830171 TTTGATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (17 bp):
TTAAGAAATTAATTTAA
Found at i:58832846 original size:15 final size:15
Alignment explanation
Indices: 58832826--58832854 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
58832816 GTATTATTGC
58832826 TTGATAACACGGTGA
1 TTGATAACACGGTGA
58832841 TTGATAACACGGTG
1 TTGATAACACGGTG
58832855 TGTGAAGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (15 bp):
TTGATAACACGGTGA
Found at i:58840562 original size:16 final size:16
Alignment explanation
Indices: 58840537--58840570 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
58840527 AGGAATATAT
* *
58840537 ATGTGTAAATGTGATA
1 ATGTGCAAATATGATA
58840553 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
58840569 AT
1 AT
58840571 TAGATATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:58845391 original size:16 final size:16
Alignment explanation
Indices: 58845370--58845437 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
58845360 TTTGGTTCGC
58845370 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
58845386 TGTATTGGATTAGAGT
1 TGTATTGGATTAGAGG
58845402 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
58845418 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
58845434 TGTA
1 TGTA
58845438 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.26, C:0.00, G:0.34, T:0.40
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:58845821 original size:14 final size:15
Alignment explanation
Indices: 58845772--58845823 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
58845762 ATAAAATATA
58845772 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
58845787 TATTAAATATATTAT
1 AATTAAATATATTAT
58845802 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
58845815 AATTTAATA
1 AATTAAATA
58845824 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:58845825 original size:59 final size:58
Alignment explanation
Indices: 58845656--58845952 Score: 164
Period size: 59 Copynumber: 5.0 Consensus size: 58
58845646 ATCATATTTA
* * *
58845656 AACATAATTATTATTAGATATATTATAATTAAAATATA-GAATTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATG-ATTTAATAAAA-TATAAAT
* * * * *
58845715 AATCA-ATATTCTTATATGAATTTACTCA-AA-TAATAATATATGATACT-ATAAAATATAAATT
1 AA-CATA-ATTATTAT-TAAATATA-TTATAATTAA-AATATATGAT-TTAATAAAATATAAA-T
* * *
58845776 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAA-TATAAAT
* * * * * * * *
58845835 AA-TTAA-TATTCTTATATGA-ATTTACTCAAATCATAATATATGATACT-ATAAAAGATAATTT
1 AACATAATTATTATTAAAT-ATA-TTA-T--AATTAAAATATATGAT-TTAATAAAATATAA-AT
* * *
58845896 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTTAAA
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATATAAA
58845953 ATAATTATAA
Statistics
Matches: 176, Mismatches: 38, Indels: 49
0.67 0.14 0.19
Matches are distributed among these distances:
57 10 0.06
58 11 0.06
59 53 0.30
60 34 0.19
61 46 0.26
62 13 0.07
63 9 0.05
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.42
Consensus pattern (58 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAAATATAAAT
Found at i:58845871 original size:120 final size:121
Alignment explanation
Indices: 58845656--58845948 Score: 491
Period size: 120 Copynumber: 2.4 Consensus size: 121
58845646 ATCATATTTA
* *
58845656 AACATAATTATTATTAGATATATTATAATTAAAATATAGAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
58845721 TATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAAGATAAATTG
*
58845776 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
* *
58845841 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAAGATAAATTG
* * *
58845897 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
58845949 TAAAATAATT
Statistics
Matches: 163, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
120 161 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATAATAATATATGATACTATAAAAGATAAATTG
Found at i:58848763 original size:15 final size:15
Alignment explanation
Indices: 58848743--58848772 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
58848733 GGAGGGTAAA
58848743 ACAGAGAGCAAATCG
1 ACAGAGAGCAAATCG
58848758 ACAGAGAGCAAATCG
1 ACAGAGAGCAAATCG
58848773 GCCGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.27, T:0.07
Consensus pattern (15 bp):
ACAGAGAGCAAATCG
Found at i:58852335 original size:12 final size:12
Alignment explanation
Indices: 58852314--58852406 Score: 62
Period size: 12 Copynumber: 7.8 Consensus size: 12
58852304 AAGACAAAAT
*
58852314 TGAAGGTGGAGA
1 TGAAGATGGAGA
58852326 TGAAGATGGAGA
1 TGAAGATGGAGA
*
58852338 CGATAG-TGGAGA
1 TGA-AGATGGAGA
* *
58852350 TCAAGATGAAGA
1 TGAAGATGGAGA
* * *
58852362 CGACGGTGGAGA
1 TGAAGATGGAGA
* *
58852374 TCAAGATGAAGA
1 TGAAGATGGAGA
* * *
58852386 TGATGGTGGGGA
1 TGAAGATGGAGA
58852398 TGAAGATGG
1 TGAAGATGG
58852407 GTACATGGAT
Statistics
Matches: 57, Mismatches: 22, Indels: 4
0.69 0.27 0.05
Matches are distributed among these distances:
11 2 0.04
12 53 0.93
13 2 0.04
ACGTcount: A:0.35, C:0.05, G:0.42, T:0.17
Consensus pattern (12 bp):
TGAAGATGGAGA
Found at i:58852346 original size:24 final size:24
Alignment explanation
Indices: 58852318--58852405 Score: 113
Period size: 24 Copynumber: 3.7 Consensus size: 24
58852308 CAAAATTGAA
* *
58852318 GGTGGAGATGAAGATGGAGACGAT
1 GGTGGAGATCAAGATGAAGACGAT
* *
58852342 AGTGGAGATCAAGATGAAGACGAC
1 GGTGGAGATCAAGATGAAGACGAT
*
58852366 GGTGGAGATCAAGATGAAGATGAT
1 GGTGGAGATCAAGATGAAGACGAT
* *
58852390 GGTGGGGATGAAGATG
1 GGTGGAGATCAAGATG
58852406 GGTACATGGA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 55 1.00
ACGTcount: A:0.35, C:0.06, G:0.42, T:0.17
Consensus pattern (24 bp):
GGTGGAGATCAAGATGAAGACGAT
Found at i:58860454 original size:22 final size:22
Alignment explanation
Indices: 58860412--58860456 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
58860402 TATAACAAAA
**
58860412 TTTTAATTTAACATGTTTAATT
1 TTTTAATTTAACATGAATAATT
58860434 TTTTAATTTAAC-TCGAATAATT
1 TTTTAATTTAACAT-GAATAATT
58860456 T
1 T
58860457 CACTCGATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (22 bp):
TTTTAATTTAACATGAATAATT
Found at i:58861768 original size:8 final size:9
Alignment explanation
Indices: 58861749--58861785 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
58861739 GATTTTCATG
58861749 ATTTTAAAA
1 ATTTTAAAA
58861758 ATTTT-AAA
1 ATTTTAAAA
58861766 ATTTTAAAA
1 ATTTTAAAA
58861775 ATTTTAAAA
1 ATTTTAAAA
58861784 AT
1 AT
58861786 GTCAATGTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.30
9 19 0.70
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:58861771 original size:17 final size:17
Alignment explanation
Indices: 58861749--58861783 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
58861739 GATTTTCATG
58861749 ATTTTAAAAATTTTAAA
1 ATTTTAAAAATTTTAAA
58861766 ATTTTAAAAATTTTAAA
1 ATTTTAAAAATTTTAAA
58861783 A
1 A
58861784 ATGTCAATGT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATTTTAAAAATTTTAAA
Found at i:58865259 original size:76 final size:76
Alignment explanation
Indices: 58865124--58865350 Score: 287
Period size: 76 Copynumber: 3.0 Consensus size: 76
58865114 TGATATAACA
* * * *
58865124 CACCAGCATAAAGCCTACTAGGCACAAAA-CTCGAATATCACCAGCATAAAGCCTACTAGGCAAA
1 CACCGGCACAAAGCCTACTAGGCACAAAACCT-GAATATCACCAGCACAAAGCCTGCTAGGCAAA
58865188 GAGCCCGAATAT
65 GAGCCCGAATAT
* * * * *
58865200 CACCGGTACAAAGCCTGCTAGGTACAAAACCTGAATATCACCGGCACAAAGTCTGCTAGG-AACA
1 CACCGGCACAAAGCCTACTAGGCACAAAACCTGAATATCACCAGCACAAAGCCTGCTAGGCAA-A
*
58865264 AAGCCCGAATAT
65 GAGCCCGAATAT
** * * *
58865276 CATTGGCACAAAGCCTACTAGGCACATAGCCTGAATATCACCAGCACAAAGCCTGCTAGGCATAG
1 CACCGGCACAAAGCCTACTAGGCACAAAACCTGAATATCACCAGCACAAAGCCTGCTAGGCAAAG
58865341 AGCCCGAATA
66 AGCCCGAATA
58865351 ACATTACGTT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
75 2 0.02
76 122 0.96
77 3 0.02
ACGTcount: A:0.37, C:0.29, G:0.19, T:0.15
Consensus pattern (76 bp):
CACCGGCACAAAGCCTACTAGGCACAAAACCTGAATATCACCAGCACAAAGCCTGCTAGGCAAAG
AGCCCGAATAT
Found at i:58865350 original size:38 final size:38
Alignment explanation
Indices: 58865124--58865350 Score: 240
Period size: 38 Copynumber: 6.0 Consensus size: 38
58865114 TGATATAACA
* * *
58865124 CACCAGCATAAAGCCTACTAGGCACAAAACTCGAATAT
1 CACCAGCACAAAGCCTACTAGGCACAAAGCCCGAATAT
*
58865162 CACCAGCATAAAGCCTACTAGGCA-AAGAGCCCGAATAT
1 CACCAGCACAAAGCCTACTAGGCACAA-AGCCCGAATAT
* * * * * *
58865200 CACCGGTACAAAGCCTGCTAGGTACAAAACCTGAATAT
1 CACCAGCACAAAGCCTACTAGGCACAAAGCCCGAATAT
* * * *
58865238 CACCGGCACAAAGTCTGCTAGGAACAAAGCCCGAATAT
1 CACCAGCACAAAGCCTACTAGGCACAAAGCCCGAATAT
*** * *
58865276 CATTGGCACAAAGCCTACTAGGCACATAGCCTGAATAT
1 CACCAGCACAAAGCCTACTAGGCACAAAGCCCGAATAT
* * *
58865314 CACCAGCACAAAGCCTGCTAGGCATAGAGCCCGAATA
1 CACCAGCACAAAGCCTACTAGGCACAAAGCCCGAATA
58865351 ACATTACGTT
Statistics
Matches: 159, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
37 2 0.01
38 155 0.97
39 2 0.01
ACGTcount: A:0.37, C:0.29, G:0.19, T:0.15
Consensus pattern (38 bp):
CACCAGCACAAAGCCTACTAGGCACAAAGCCCGAATAT
Found at i:58868594 original size:27 final size:27
Alignment explanation
Indices: 58868564--58868633 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
58868554 ACCGGATACA
58868564 AAACATGAGATAGTCTGACAGGACATT
1 AAACATGAGATAGTCTGACAGGACATT
* * *
58868591 AAACATGGGATA-TCCCGACGGGACATT
1 AAACATGAGATAGT-CTGACAGGACATT
58868618 AAACATTGA-ATAGTCT
1 AAACA-TGAGATAGTCT
58868634 ATATGGACAG
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
26 1 0.03
27 31 0.89
28 3 0.09
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (27 bp):
AAACATGAGATAGTCTGACAGGACATT
Found at i:58878406 original size:38 final size:37
Alignment explanation
Indices: 58878348--58878421 Score: 103
Period size: 38 Copynumber: 2.0 Consensus size: 37
58878338 ATAGAAACAT
* *
58878348 GATGCTATTCGGGCTATGTGCCTAGCAGGCTCTGTGCC
1 GATGCTATTCAGGCTATGTGCCTAGCAAGCT-TGTGCC
* *
58878386 GATGTTATTCAGGCTTTGTGCCTAGCAAGCTTGTGC
1 GATGCTATTCAGGCTATGTGCCTAGCAAGCTTGTGC
58878422 AGGTGTATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 5 0.16
38 27 0.84
ACGTcount: A:0.15, C:0.23, G:0.30, T:0.32
Consensus pattern (37 bp):
GATGCTATTCAGGCTATGTGCCTAGCAAGCTTGTGCC
Found at i:58880124 original size:21 final size:21
Alignment explanation
Indices: 58880091--58880131 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
58880081 ATTGATACTT
58880091 TTTAAAAAATATCGATACTCA
1 TTTAAAAAATATCGATACTCA
* *
58880112 TTTACAAAGTATCGATACTC
1 TTTAAAAAATATCGATACTC
58880132 GTCGGGTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.34
Consensus pattern (21 bp):
TTTAAAAAATATCGATACTCA
Found at i:58881622 original size:21 final size:21
Alignment explanation
Indices: 58881596--58881639 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
58881586 GAGAAGAGAC
58881596 ATAGATGTATTCATTGATAGA
1 ATAGATGTATTCATTGATAGA
*
58881617 ATAGATGTATTCATTGGTAGA
1 ATAGATGTATTCATTGATAGA
58881638 AT
1 AT
58881640 GATACATTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.39
Consensus pattern (21 bp):
ATAGATGTATTCATTGATAGA
Found at i:58885868 original size:20 final size:20
Alignment explanation
Indices: 58885845--58885882 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
58885835 TAAAGAAAGT
58885845 AAATGC-AATGGAAAGTAATG
1 AAATGCAAAT-GAAAGTAATG
58885865 AAATGCAAATGAAAGTAA
1 AAATGCAAATGAAAGTAA
58885883 GAAGATTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.55, C:0.05, G:0.21, T:0.18
Consensus pattern (20 bp):
AAATGCAAATGAAAGTAATG
Found at i:58887331 original size:15 final size:15
Alignment explanation
Indices: 58887297--58887343 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
58887287 AATTTTCAAC
*
58887297 CGATAACCTTTCTAAT
1 CGATAACCTTT-TCAT
58887313 CGATAACCTTTTCAT
1 CGATAACCTTTTCAT
58887328 CGATAACCTTTTCAT
1 CGATAACCTTTTCAT
58887343 C
1 C
58887344 CATTTTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 19 0.63
16 11 0.37
ACGTcount: A:0.28, C:0.28, G:0.06, T:0.38
Consensus pattern (15 bp):
CGATAACCTTTTCAT
Found at i:58896073 original size:46 final size:46
Alignment explanation
Indices: 58896002--58896221 Score: 264
Period size: 46 Copynumber: 4.8 Consensus size: 46
58895992 GGCTATTGTT
58896002 GTGTAGGTTCAACCCTAACGGGTGACCAGGCACTATTATC-GTATTC
1 GTGTAGGTTCAACCCTAACGGGTGACCAGGCACTATTATCTG-ATTC
* * *
58896048 GTGTAGGTTCAACCCTAACGAGTGACTAGGCATTATTATCTGATTC
1 GTGTAGGTTCAACCCTAACGGGTGACCAGGCACTATTATCTGATTC
** *
58896094 GTGTAGGTTCAACCCTAACGGGTGACCATTCAGTATTATCTGATTC
1 GTGTAGGTTCAACCCTAACGGGTGACCAGGCACTATTATCTGATTC
* * ** * * *
58896140 GTATAAGTTCAACCCTAATAGGTGACCAGGCATTGTCAT-TCGATTC
1 GTGTAGGTTCAACCCTAACGGGTGACCAGGCACTATTATCT-GATTC
* * *
58896186 ATGTAGGTTTAACCCTAACGGGTAACCAGGCACTAT
1 GTGTAGGTTCAACCCTAACGGGTGACCAGGCACTAT
58896222 GATTCATTGT
Statistics
Matches: 146, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
45 1 0.01
46 144 0.99
47 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (46 bp):
GTGTAGGTTCAACCCTAACGGGTGACCAGGCACTATTATCTGATTC
Found at i:58898985 original size:36 final size:36
Alignment explanation
Indices: 58898924--58898996 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
58898914 CTCTGATGCC
* *
58898924 TTTAGGCTTAGCACTTCGGTTCTTTCTGGTGTATTT
1 TTTAGGCTTAGCACTTAGGTGCTTTCTGGTGTATTT
* * * *
58898960 TTTAGGGTTAGCACTTATGTGCTTTCTTGTGTGTTT
1 TTTAGGCTTAGCACTTAGGTGCTTTCTGGTGTATTT
58898996 T
1 T
58898997 AGAGAGATGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.11, C:0.14, G:0.23, T:0.52
Consensus pattern (36 bp):
TTTAGGCTTAGCACTTAGGTGCTTTCTGGTGTATTT
Found at i:58900074 original size:18 final size:18
Alignment explanation
Indices: 58900051--58900088 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
58900041 ATGTAGAATG
58900051 TATTTGAAATAAATTTTT
1 TATTTGAAATAAATTTTT
58900069 TATTTGAAATAAATTTTT
1 TATTTGAAATAAATTTTT
58900087 TA
1 TA
58900089 CTCCAAGGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (18 bp):
TATTTGAAATAAATTTTT
Found at i:58900272 original size:13 final size:13
Alignment explanation
Indices: 58900233--58900285 Score: 70
Period size: 13 Copynumber: 4.1 Consensus size: 13
58900223 AGTTCTTCAT
58900233 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
58900246 TACTATGGAAAAG
1 TGCTTTTGAAAAG
*
58900259 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
58900272 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
58900285 T
1 T
58900286 TTGGTTTAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.32, C:0.08, G:0.25, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:58901471 original size:33 final size:33
Alignment explanation
Indices: 58901416--58901481 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
58901406 GGGTAAGACA
*
58901416 TTTTCCACAGCTCATCTCTTCACTCTCTTCACC
1 TTTTCCACAGCTCATCTCTTCACTCTCCTCACC
* * *
58901449 TTTTCCACTGCTCCTCTTTTCACTCTCCTCACC
1 TTTTCCACAGCTCATCTCTTCACTCTCCTCACC
58901482 CTAACGATTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.12, C:0.44, G:0.03, T:0.41
Consensus pattern (33 bp):
TTTTCCACAGCTCATCTCTTCACTCTCCTCACC
Found at i:58904640 original size:35 final size:36
Alignment explanation
Indices: 58904592--58904660 Score: 122
Period size: 35 Copynumber: 1.9 Consensus size: 36
58904582 ATTTGTTAGA
58904592 TATTGATTATGTTTTAACCTTGTTGGATATTGAATT
1 TATTGATTATGTTTTAACCTTGTTGGATATTGAATT
*
58904628 TATT-ATTATGTTTTAAGCTTGTTGGATATTGAA
1 TATTGATTATGTTTTAACCTTGTTGGATATTGAA
58904661 ATGATTGACA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 28 0.88
36 4 0.12
ACGTcount: A:0.26, C:0.04, G:0.17, T:0.52
Consensus pattern (36 bp):
TATTGATTATGTTTTAACCTTGTTGGATATTGAATT
Found at i:58906035 original size:34 final size:35
Alignment explanation
Indices: 58905982--58906048 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
58905972 CAAACGCCAG
*
58905982 AAAATATTTTCCAATAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAATAAATCATTTTACAGAAAAGT
* *
58906017 AAAACATTTTTCAA-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAATAAATCATTTTACAGAAAA
58906049 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAATAAATCATTTTACAGAAAAGT
Found at i:58911414 original size:15 final size:15
Alignment explanation
Indices: 58911394--58911424 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
58911384 GACAACCCAT
58911394 TGAAAATTTTCATAA
1 TGAAAATTTTCATAA
*
58911409 TGAAAATTTTTATAA
1 TGAAAATTTTCATAA
58911424 T
1 T
58911425 TTAATATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (15 bp):
TGAAAATTTTCATAA
Found at i:58912340 original size:45 final size:44
Alignment explanation
Indices: 58912276--58912360 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 44
58912266 ATTGTTAATA
* * *
58912276 GTAAGAGTTCTAGTATAAATGCTCC-ACTAGAAGGTTAATAGGACT
1 GTAAGACTTCTAGGATAAATAC-CCTACTAG-AGGTTAATAGGACT
*
58912321 GTAAGACTTTTAGGATAAATACCCTACTAGAGGTTAATAG
1 GTAAGACTTCTAGGATAAATACCCTACTAGAGGTTAATAG
58912361 AATAAGGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
44 12 0.34
45 23 0.66
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.29
Consensus pattern (44 bp):
GTAAGACTTCTAGGATAAATACCCTACTAGAGGTTAATAGGACT
Found at i:58919302 original size:8 final size:8
Alignment explanation
Indices: 58919289--58919317 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
58919279 AAGTATACAA
58919289 AAAATTAC
1 AAAATTAC
58919297 AAAATTAC
1 AAAATTAC
58919305 AAAATTAC
1 AAAATTAC
58919313 AAAAT
1 AAAAT
58919318 AACATAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.66, C:0.10, G:0.00, T:0.24
Consensus pattern (8 bp):
AAAATTAC
Found at i:58920941 original size:25 final size:26
Alignment explanation
Indices: 58920894--58920953 Score: 95
Period size: 25 Copynumber: 2.3 Consensus size: 26
58920884 AATTTTTTCG
*
58920894 AAATTTTACCAAGGGTAAAATCATCA
1 AAATTTTACCAAGGGTAAAATCATAA
58920920 AAATTTTACCAA-GGTAAAATCATAA
1 AAATTTTACCAAGGGTAAAATCATAA
*
58920945 AAAATTTAC
1 AAATTTTAC
58920954 TGGAGTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 20 0.62
26 12 0.38
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.28
Consensus pattern (26 bp):
AAATTTTACCAAGGGTAAAATCATAA
Found at i:58922318 original size:37 final size:37
Alignment explanation
Indices: 58922208--58922322 Score: 169
Period size: 37 Copynumber: 3.1 Consensus size: 37
58922198 TGTTCTGGCG
* *
58922208 TGTTATCGGGTGGATTAGCTCTTATGAGCATCTGGCA
1 TGTTATCGGGTGGATTAGCTCTTATGAGCATATGACA
* *
58922245 TATTATCAGGTGGATTAGCTCTTATGAGCATATGACA
1 TGTTATCGGGTGGATTAGCTCTTATGAGCATATGACA
*
58922282 TGTTATCGGGTGGATTAGCTCTTACGAGCGAT-TGACA
1 TGTTATCGGGTGGATTAGCTCTTATGAGC-ATATGACA
58922319 TGTT
1 TGTT
58922323 TTAGTTGGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
37 68 0.97
38 2 0.03
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.36
Consensus pattern (37 bp):
TGTTATCGGGTGGATTAGCTCTTATGAGCATATGACA
Found at i:58926697 original size:17 final size:17
Alignment explanation
Indices: 58926656--58926689 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
58926646 GTGTGTGAGT
*
58926656 GAGTGAGTGAGAGAGAG
1 GAGTGAGAGAGAGAGAG
*
58926673 GAGAGAGAGAGAGAGAG
1 GAGTGAGAGAGAGAGAG
58926690 ATGTGAGAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.53, T:0.06
Consensus pattern (17 bp):
GAGTGAGAGAGAGAGAG
Found at i:58929257 original size:55 final size:56
Alignment explanation
Indices: 58929159--58929264 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 56
58929149 ACACGGCTTG
* *
58929159 GCAACACGGTCGTGTGACCACTACATCGAGCTATACATAGTTTGG-CACACAATCT
1 GCAACACGATCGTGTGACCACTACATCGAGCTATACACAGTTTGGCCACACAATCT
* ** * * *
58929214 GCAACACGATCGTGTGACCCCTATTTCGAGCTGTACCCGGTTTGGCCACAC
1 GCAACACGATCGTGTGACCACTACATCGAGCTATACACAGTTTGGCCACAC
58929265 GGCAATGTCT
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
55 37 0.88
56 5 0.12
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (56 bp):
GCAACACGATCGTGTGACCACTACATCGAGCTATACACAGTTTGGCCACACAATCT
Found at i:58933591 original size:35 final size:35
Alignment explanation
Indices: 58933543--58933615 Score: 121
Period size: 35 Copynumber: 2.1 Consensus size: 35
58933533 TCAAATATAT
58933543 TGACAATAATTGTGCCCTACACTGGTC-GAATAAAC
1 TGACAATAATTGTGCCCTACACTGGTCAG-ATAAAC
*
58933578 TGACAATAGTTGTGCCCTACACTGGTCAGATAAAC
1 TGACAATAATTGTGCCCTACACTGGTCAGATAAAC
58933613 TGA
1 TGA
58933616 GGATGTTATG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 35 0.97
36 1 0.03
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (35 bp):
TGACAATAATTGTGCCCTACACTGGTCAGATAAAC
Found at i:58939781 original size:23 final size:23
Alignment explanation
Indices: 58939719--58939859 Score: 185
Period size: 23 Copynumber: 6.2 Consensus size: 23
58939709 AGTGCCACAT
* *
58939719 TGATATGTAGCTGAAGCTGCCAC
1 TGATATGTAGCCGAAGCTACCAC
*
58939742 TGATA-GTAGCCGTAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
* *
58939764 TGAAATGTAGCCAAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
* *
58939787 TGATATGTAGTCGTAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
* *
58939810 TGAAATGTAGCCGAAGCTATCAC
1 TGATATGTAGCCGAAGCTACCAC
*
58939833 TGATATGTAGCCGTAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
58939856 TGAT
1 TGAT
58939860 CAATAACACT
Statistics
Matches: 100, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
22 18 0.18
23 82 0.82
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (23 bp):
TGATATGTAGCCGAAGCTACCAC
Found at i:58939818 original size:46 final size:46
Alignment explanation
Indices: 58939723--58939858 Score: 220
Period size: 46 Copynumber: 3.0 Consensus size: 46
58939713 CCACATTGAT
* *
58939723 ATGTAGCTGAAGCTGCCACTGATA-GTAGCCGTAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTACCACTGAA
* *
58939768 ATGTAGCCAAAGCTACCACTGATATGTAGTCGTAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTACCACTGAA
*
58939814 ATGTAGCCGAAGCTATCACTGATATGTAGCCGTAGCTACCACTGA
1 ATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTACCACTGA
58939859 TCAATAACAC
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
45 21 0.25
46 62 0.75
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (46 bp):
ATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTACCACTGAA
Found at i:58940342 original size:30 final size:30
Alignment explanation
Indices: 58940308--58940369 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
58940298 TCCTTGACTC
58940308 AAACTTTGGAAAAATTACAATTTTTCCCCT
1 AAACTTTGGAAAAATTACAATTTTTCCCCT
* * * * *
58940338 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTGGAAAAATTACAATTTTTCCCCT
58940368 AA
1 AA
58940370 GCTCGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTTCCCCT
Found at i:58948701 original size:14 final size:15
Alignment explanation
Indices: 58948675--58948703 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
58948665 TCCACATCTC
58948675 ATTTCATTATTTCAT
1 ATTTCATTATTTCAT
58948690 ATTTCA-TATTTCAT
1 ATTTCATTATTTCAT
58948704 CTCTCATCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.28, C:0.14, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTCATTATTTCAT
Found at i:58959697 original size:19 final size:19
Alignment explanation
Indices: 58959663--58959713 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
58959653 AATACTTGAA
*
58959663 CTCATTTCAAAATTCACAT
1 CTCATTTCATAATTCACAT
* **
58959682 CTCATTTCATATTTCATTT
1 CTCATTTCATAATTCACAT
*
58959701 CTCATCTCATAAT
1 CTCATTTCATAAT
58959714 CATTTCTCAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.29, C:0.25, G:0.00, T:0.45
Consensus pattern (19 bp):
CTCATTTCATAATTCACAT
Found at i:58961572 original size:16 final size:15
Alignment explanation
Indices: 58961551--58961584 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
58961541 TCTCTTATTC
58961551 AAAATCACATCTCTGA
1 AAAATCACATCTCT-A
58961567 AAAATCACATCTCTA
1 AAAATCACATCTCTA
58961582 AAA
1 AAA
58961585 CTGAAATCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.50, C:0.24, G:0.03, T:0.24
Consensus pattern (15 bp):
AAAATCACATCTCTA
Found at i:58965110 original size:18 final size:18
Alignment explanation
Indices: 58965084--58965131 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
58965074 AAAATATGAG
* *
58965084 AAATAATGTTCACATTTT
1 AAATGATGTTCACATTTC
58965102 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
58965120 AAATGATGTTCA
1 AAATGATGTTCA
58965132 AATTAATGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:58970695 original size:50 final size:48
Alignment explanation
Indices: 58970640--58970833 Score: 154
Period size: 50 Copynumber: 3.9 Consensus size: 48
58970630 CATTGAGATT
* *
58970640 ATGAGAGGTTCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGC-TTGGCACT-AC
** * * * *
58970690 ATGAGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATGAGCACCAAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCTTG-GCA-CTAC
** * * * * *
58970740 ATGAGAACTCCCATGTAAAACCATATCTGGAATATGGCATTGGCAGTAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGC-TTGGCACTAC
* * ** *
58970789 AAGAAACATCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGC-TTGGCA
58970834 TGTTATTATC
Statistics
Matches: 111, Mismatches: 30, Indels: 7
0.75 0.20 0.05
Matches are distributed among these distances:
49 38 0.34
50 70 0.63
51 3 0.03
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (48 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCTTGGCACTAC
Found at i:58972061 original size:11 final size:11
Alignment explanation
Indices: 58972037--58972099 Score: 58
Period size: 11 Copynumber: 5.7 Consensus size: 11
58972027 TAAAAATTTT
58972037 TTTTAAAAAGTA
1 TTTTAAAAA-TA
58972049 TTTTAAAAATA
1 TTTTAAAAATA
58972060 TTTT-AAAAT-
1 TTTTAAAAATA
***
58972069 TAAAAAAAAGTA
1 TTTTAAAAA-TA
*
58972081 TTTTAGAAATA
1 TTTTAAAAATA
58972092 TTTTAAAA
1 TTTTAAAA
58972100 TTAAAAAAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
9 1 0.03
10 9 0.22
11 16 0.40
12 14 0.35
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (11 bp):
TTTTAAAAATA
Found at i:58972082 original size:32 final size:32
Alignment explanation
Indices: 58972041--58972108 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
58972031 AATTTTTTTT
58972041 AAAAAGTATTTTAAAAATATTTTAAAATTAAA
1 AAAAAGTATTTTAAAAATATTTTAAAATTAAA
*
58972073 AAAAAGTATTTTAGAAATATTTTAAAATTAAA
1 AAAAAGTATTTTAAAAATATTTTAAAATTAAA
58972105 AAAA
1 AAAA
58972109 TAAAAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (32 bp):
AAAAAGTATTTTAAAAATATTTTAAAATTAAA
Found at i:58972151 original size:41 final size:42
Alignment explanation
Indices: 58972070--58972149 Score: 151
Period size: 42 Copynumber: 1.9 Consensus size: 42
58972060 TTTTAAAATT
*
58972070 AAAAAAAAGTATTTTAGAAATATTTTAAAATTAAAAAAATAA
1 AAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATAA
58972112 AAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAA
1 AAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAA
58972150 TATATATTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (42 bp):
AAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATAA
Found at i:58974086 original size:24 final size:25
Alignment explanation
Indices: 58974044--58974104 Score: 90
Period size: 24 Copynumber: 2.5 Consensus size: 25
58974034 CTTCTCCTCT
*
58974044 TCTC-TTTTTTTCCCAAAGCTTTTC
1 TCTCTTTTTTTTTCCAAAGCTTTTC
*
58974068 TCT-TTTTTTTTTCCGAAGCTTTTC
1 TCTCTTTTTTTTTCCAAAGCTTTTC
58974092 TCTCTTTTTTTTT
1 TCTCTTTTTTTTT
58974105 GAATTTCGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
24 24 0.73
25 9 0.27
ACGTcount: A:0.08, C:0.23, G:0.05, T:0.64
Consensus pattern (25 bp):
TCTCTTTTTTTTTCCAAAGCTTTTC
Found at i:58974340 original size:29 final size:29
Alignment explanation
Indices: 58974308--58974386 Score: 86
Period size: 30 Copynumber: 2.7 Consensus size: 29
58974298 GGCCAAAGTG
**
58974308 TAATTTTGAGAAAATTTAGGATCAAAATT
1 TAATTTTGAGAAAATTTAGGATCAAAACA
** * *
58974337 TAATTTCAAGAAATTTTAGGGGTCAAAACA
1 TAATTTTGAGAAAATTTA-GGATCAAAACA
*
58974367 TAATTTTGAGAAAGTTTAGG
1 TAATTTTGAGAAAATTTAGG
58974387 GGTTGAAATA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
29 17 0.43
30 23 0.57
ACGTcount: A:0.42, C:0.05, G:0.18, T:0.35
Consensus pattern (29 bp):
TAATTTTGAGAAAATTTAGGATCAAAACA
Found at i:58974371 original size:30 final size:30
Alignment explanation
Indices: 58974316--58974455 Score: 140
Period size: 30 Copynumber: 4.7 Consensus size: 30
58974306 TGTAATTTTG
* * *
58974316 AGAAAATTTA-GGATCAAAATTTAATTTCA
1 AGAAAGTTTAGGGGTCAAAATATAATTTCA
* * **
58974345 AGAAATTTTAGGGGTCAAAACATAATTTTG
1 AGAAAGTTTAGGGGTCAAAATATAATTTCA
** *
58974375 AGAAAGTTTAGGGGTTGAAATATAATTTTA
1 AGAAAGTTTAGGGGTCAAAATATAATTTCA
*
58974405 AGAAAGTTTAGGGGTTAAAATATAATTTCAA
1 AGAAAGTTTAGGGGTCAAAATATAATTTC-A
* *
58974436 AAAAAG-TTGGGGGTCAAAAT
1 AGAAAGTTTAGGGGTCAAAAT
58974456 CCAAATTTTT
Statistics
Matches: 93, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
29 9 0.10
30 78 0.84
31 6 0.06
ACGTcount: A:0.44, C:0.04, G:0.20, T:0.32
Consensus pattern (30 bp):
AGAAAGTTTAGGGGTCAAAATATAATTTCA
Found at i:58974417 original size:60 final size:59
Alignment explanation
Indices: 58974308--58974432 Score: 160
Period size: 60 Copynumber: 2.1 Consensus size: 59
58974298 GGCCAAAGTG
* *
58974308 TAATTTTGAGAAAATTTAGGATCAAAATTTAATTTCAAGAAATTTTAGGGGTCAAAACA
1 TAATTTTGAGAAAATTTAGGATCAAAATATAATTTCAAGAAAGTTTAGGGGTCAAAACA
* * ** * * *
58974367 TAATTTTGAGAAAGTTTAGGGGTTGAAATATAATTTTAAGAAAGTTTAGGGGTTAAAATA
1 TAATTTTGAGAAAATTTA-GGATCAAAATATAATTTCAAGAAAGTTTAGGGGTCAAAACA
58974427 TAATTT
1 TAATTT
58974433 CAAAAAAAGT
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
59 17 0.30
60 39 0.70
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.37
Consensus pattern (59 bp):
TAATTTTGAGAAAATTTAGGATCAAAATATAATTTCAAGAAAGTTTAGGGGTCAAAACA
Found at i:58974708 original size:8 final size:8
Alignment explanation
Indices: 58974697--58974723 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
58974687 TTAATTTTTG
58974697 TATTTAAA
1 TATTTAAA
58974705 TATTTAAA
1 TATTTAAA
58974713 TATTTAAA
1 TATTTAAA
58974721 TAT
1 TAT
58974724 AGTTTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TATTTAAA
Found at i:58974993 original size:19 final size:19
Alignment explanation
Indices: 58974965--58975008 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
58974955 TAACTTTTAT
58974965 ATTTAAATATT-TAAATATA
1 ATTTAAATATTCTAAATA-A
* *
58974984 ATTTATATATTCTAATTAA
1 ATTTAAATATTCTAAATAA
58975003 ATTTAA
1 ATTTAA
58975009 TAAATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTAAATATTCTAAATAA
Found at i:58975253 original size:13 final size:13
Alignment explanation
Indices: 58975235--58975272 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
58975225 ACATTCAAAT
58975235 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
58975248 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
58975261 TTTTCAAAAGCA
1 TTCTCAAAAGCA
58975273 ATGAAAACTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.39, C:0.26, G:0.08, T:0.26
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:58984711 original size:3 final size:3
Alignment explanation
Indices: 58984703--58984740 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
58984693 TTAAATAAGC
58984703 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
58984741 CAACTTGGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:58984929 original size:34 final size:34
Alignment explanation
Indices: 58984891--58984987 Score: 90
Period size: 34 Copynumber: 2.8 Consensus size: 34
58984881 AGAGCTTGCA
*
58984891 GGTGAGCTC-TCATGCTTGGTGAGCTTGTAC-TGTT
1 GGTGAGCTCAT-AT-CTTGGTGAGCTCGTACATGTT
* *
58984925 GGTGAGCTCATTATCTTAGTGAGCTCGTACATTTT
1 GGTGAGCTCA-TATCTTGGTGAGCTCGTACATGTT
* *
58984960 AGTGAGCTCGTAGTTCTTGGTGAGCTCG
1 GGTGAGCTCATA--TCTTGGTGAGCTCG
58984988 CTGTTCGCAG
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
34 25 0.48
35 13 0.25
36 14 0.27
ACGTcount: A:0.15, C:0.18, G:0.30, T:0.37
Consensus pattern (34 bp):
GGTGAGCTCATATCTTGGTGAGCTCGTACATGTT
Found at i:58984982 original size:18 final size:18
Alignment explanation
Indices: 58984938--58985022 Score: 59
Period size: 18 Copynumber: 4.7 Consensus size: 18
58984928 GAGCTCATTA
* *
58984938 TCTTAGTGAGCTCGTACAT
1 TCTTGGTGAGCTCGTA-GT
*
58984957 T-TTAGTGAGCTCGTAGT
1 TCTTGGTGAGCTCGTAGT
58984974 TCTTGGTGAGCTCGCT-GT
1 TCTTGGTGAGCTCG-TAGT
** * *
58984992 TCGCAGGCGAGCTCGTA-A
1 TC-TTGGTGAGCTCGTAGT
58985010 TCTTGGTGAGCTC
1 TCTTGGTGAGCTC
58985023 ACTATTTTGT
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
17 10 0.19
18 32 0.60
19 11 0.21
ACGTcount: A:0.15, C:0.21, G:0.29, T:0.34
Consensus pattern (18 bp):
TCTTGGTGAGCTCGTAGT
Found at i:58985022 original size:17 final size:17
Alignment explanation
Indices: 58984891--58985022 Score: 77
Period size: 17 Copynumber: 7.5 Consensus size: 17
58984881 AGAGCTTGCA
*
58984891 GGTGAGCTC-TCATGCTT
1 GGTGAGCTCGTAAT-CTT
* * *
58984908 GGTGAGCTTGTACTGTT
1 GGTGAGCTCGTAATCTT
* *
58984925 GGTGAGCTCATTATCTT
1 GGTGAGCTCGTAATCTT
* *
58984942 AGTGAGCTCGTACATTTT
1 GGTGAGCTCGTA-ATCTT
* *
58984960 AGTGAGCTCGTAGTTCTT
1 GGTGAGCTCGTA-ATCTT
** **
58984978 GGTGAGCTCGCTGTTCGCA
1 GGTGAGCTCG-TAATC-TT
*
58984997 GGCGAGCTCGTAATCTT
1 GGTGAGCTCGTAATCTT
58985014 GGTGAGCTC
1 GGTGAGCTC
58985023 ACTATTTTGT
Statistics
Matches: 85, Mismatches: 26, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
17 39 0.46
18 36 0.42
19 10 0.12
ACGTcount: A:0.15, C:0.20, G:0.30, T:0.35
Consensus pattern (17 bp):
GGTGAGCTCGTAATCTT
Found at i:58985085 original size:17 final size:17
Alignment explanation
Indices: 58985037--58985093 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 17
58985027 TTTTGTAGAG
*
58985037 CTCGCATATTTGGTGAA
1 CTCGCACATTTGGTGAA
* ** *
58985054 CTTGCAGGTTAGGTGAA
1 CTCGCACATTTGGTGAA
*
58985071 CTCGCACATTTGGTGAG
1 CTCGCACATTTGGTGAA
58985088 CTCGCA
1 CTCGCA
58985094 GCTCGCAGTT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (17 bp):
CTCGCACATTTGGTGAA
Found at i:58986838 original size:19 final size:17
Alignment explanation
Indices: 58986788--58986842 Score: 56
Period size: 19 Copynumber: 3.0 Consensus size: 17
58986778 CCAAAAAATA
*
58986788 AAAAATTAATTTTATGGTT
1 AAAAA-TAATTTT-TGGGT
*
58986807 TAAAATAATTTTTGGGT
1 AAAAATAATTTTTGGGT
58986824 AAAAATAAATATTTTGGGT
1 AAAAAT-AAT-TTTTGGGT
58986843 TAAATTGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 9 0.29
18 10 0.32
19 12 0.39
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.44
Consensus pattern (17 bp):
AAAAATAATTTTTGGGT
Found at i:58992921 original size:18 final size:17
Alignment explanation
Indices: 58992821--58992923 Score: 55
Period size: 17 Copynumber: 5.9 Consensus size: 17
58992811 GAGCTCGCAA
* *
58992821 GTGAGCTCTCATGCTTG
1 GTGAGCTCGCATTCTTG
* * * *
58992838 GTGAGTTTGCAGTGTTG
1 GTGAGCTCGCATTCTTG
* * *
58992855 GTGAGCTCACAATCTTT
1 GTGAGCTCGCATTCTTG
58992872 GTGAGCTCGTACATT-TTG
1 GTGAGCTCG--CATTCTTG
***
58992890 GTGAGCTTATAGTTCTTG
1 GTGAGCTCGCA-TTCTTG
58992908 GTGAGCTCGCAGTTCT
1 GTGAGCTCGCA-TTCT
58992924 AGTGAGCTAT
Statistics
Matches: 61, Mismatches: 21, Indels: 7
0.69 0.24 0.08
Matches are distributed among these distances:
16 1 0.02
17 32 0.52
18 25 0.41
19 3 0.05
ACGTcount: A:0.16, C:0.17, G:0.29, T:0.38
Consensus pattern (17 bp):
GTGAGCTCGCATTCTTG
Found at i:58993614 original size:21 final size:21
Alignment explanation
Indices: 58993576--58993615 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
58993566 GTCTTAATTT
* * *
58993576 ATCTAAATTTTTTTTAAGTTA
1 ATCTAAAATGTTTATAAGTTA
58993597 ATCTAAAATGTTTATAAGT
1 ATCTAAAATGTTTATAAGT
58993616 GTTTTAAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (21 bp):
ATCTAAAATGTTTATAAGTTA
Found at i:58999975 original size:51 final size:51
Alignment explanation
Indices: 58999911--59000253 Score: 288
Period size: 51 Copynumber: 6.8 Consensus size: 51
58999901 TATCGATGAA
*
58999911 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATGGT
* * * * * * * ** *
58999962 CACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGTTTTAGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATGGT
* * * * **
59000013 AACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAACGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATGGT
* * * * *
59000064 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA--TAATGGT
* * * * * *
59000115 CACGTATGTAGTACTATGTGAAGGCTACTATGTG-AACTG-TAAA-ACTTGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GATAAATAATGGT
* * * *
59000164 CACGTGTGTAGTACTATGTGAAGGCTACTACATG-AACTG-TAAA-ACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GATAAATA-ATGGT
*
59000214 CACGTGTGTAGTACTATGTGAAGCCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
59000254 ATGATAAAAG
Statistics
Matches: 231, Mismatches: 53, Indels: 16
0.77 0.18 0.05
Matches are distributed among these distances:
49 43 0.19
50 39 0.17
51 149 0.65
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATGGT
Found at i:59000088 original size:102 final size:100
Alignment explanation
Indices: 58999912--59000247 Score: 381
Period size: 102 Copynumber: 3.3 Consensus size: 100
58999902 ATCGATGAAC
* *
58999912 ACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACT
1 ACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGAT-AA-AATGGTCACATGTGTAGTACT
* *
58999977 AAGTGAAGGCTACAATGTGTACCGAGAAGTTTTAGTA
64 AAGTGAAGGCTACAATGTGTACCGAAAAGCTTTAGTA
59000014 ACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAACGATGGTCACATGTGTAGTACT
1 ACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAA--ATGGTCACATGTGTAGTACT
* * *
59000079 AAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGTC
64 AAGTGAAGGCTACAATGTGTACCGAAAAGCTTTAGTA
* * * * * * *
59000116 ACGTATGTAGTACTATGTGAAGGCTACTATGTGAACTG-TAAAACTTGACACGTGTGTAGTACTA
1 ACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAAA-TGGTCACATGTGTAGTACTA
* * ** * * * *
59000180 TGTGAAGGCTACTACATGAACTGTAAAA-CTTGA-TC
65 AGTGAAGGCTACAATGTGTACCG-AAAAGCTTTAGTA
* *
59000215 ACGTGTGTAGTACTATGTGAAGCCTACTACGTG
1 ACGTGTGTAGTACTGTGTGAAGGCTACTACGTG
59000248 TATCGAATGA
Statistics
Matches: 206, Mismatches: 24, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
99 33 0.16
100 39 0.19
101 10 0.05
102 124 0.60
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (100 bp):
ACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAAATGGTCACATGTGTAGTACTAA
GTGAAGGCTACAATGTGTACCGAAAAGCTTTAGTA
Found at i:59001528 original size:20 final size:19
Alignment explanation
Indices: 59001496--59001534 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
59001486 ATCATTCAAG
*
59001496 CATCTCTCTTCTCTCATTT
1 CATCTCTCATCTCTCATTT
59001515 CATCATCTCATCTCTCATTT
1 CATC-TCTCATCTCTCATTT
59001535 TCATTTCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.15, C:0.36, G:0.00, T:0.49
Consensus pattern (19 bp):
CATCTCTCATCTCTCATTT
Found at i:59002767 original size:20 final size:20
Alignment explanation
Indices: 59002742--59002810 Score: 84
Period size: 20 Copynumber: 3.2 Consensus size: 20
59002732 TAATACCTAC
59002742 ATTCGAATATATATATACAT
1 ATTCGAATATATATATACAT
*
59002762 ATTCGAATACATAGCTAATACAT
1 ATTCGAATATATA--T-ATACAT
59002785 ACATTCGAATATATATATACAT
1 --ATTCGAATATATATATACAT
59002807 ATTC
1 ATTC
59002811 ATCATATACA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
20 16 0.38
22 7 0.17
23 7 0.17
25 12 0.29
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.36
Consensus pattern (20 bp):
ATTCGAATATATATATACAT
Found at i:59002774 original size:45 final size:45
Alignment explanation
Indices: 59002721--59002810 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
59002711 ATTTATACCT
*
59002721 GAATACATAGCTAATACCTACATTCGAATATATATATACATATTC
1 GAATACATAGCTAATACATACATTCGAATATATATATACATATTC
59002766 GAATACATAGCTAATACATACATTCGAATATATATATACATATTC
1 GAATACATAGCTAATACATACATTCGAATATATATATACATATTC
59002811 ATCATATACA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (45 bp):
GAATACATAGCTAATACATACATTCGAATATATATATACATATTC
Found at i:59002793 original size:25 final size:25
Alignment explanation
Indices: 59002721--59002795 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 25
59002711 ATTTATACCT
*
59002721 GAATACATAGCTAATACCTACATTC
1 GAATACATAGCTAATACATACATTC
*
59002746 GAATATATA--T-ATACAT--ATTC
1 GAATACATAGCTAATACATACATTC
59002766 GAATACATAGCTAATACATACATTC
1 GAATACATAGCTAATACATACATTC
59002791 GAATA
1 GAATA
59002796 TATATATACA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
20 12 0.29
22 6 0.14
23 7 0.17
25 17 0.40
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (25 bp):
GAATACATAGCTAATACATACATTC
Found at i:59003262 original size:41 final size:41
Alignment explanation
Indices: 59003160--59003268 Score: 146
Period size: 41 Copynumber: 2.7 Consensus size: 41
59003150 ACCGGCTTTT
* * * * * *
59003160 AGCCTGCTAGACCTATAGTCCGAAATGTATCACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAATTATATCACCGGCATCA
*
59003201 AGCCTGCTAGACGTAAAGTCTGAATTATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAATTATATCACCGGCATCA
*
59003242 AGCCTGCTAGACGTAAAGTCTGTATTA
1 AGCCTGCTAGACGTAAAGTCTGAATTA
59003269 CATTCGATCA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAATTATATCACCGGCATCA
Found at i:59009127 original size:67 final size:65
Alignment explanation
Indices: 59009018--59009149 Score: 210
Period size: 67 Copynumber: 2.0 Consensus size: 65
59009008 TGCTTGCAGA
* *
59009018 AAGAAAATGTGTGTAAGATTTGTATGGCTTTTTGCCAAAATTACAGTTTAGTATTTTTCTTGATT
1 AAGAAAATGTGTGTAAGATTTATATGACTTTTTGCCAAAATTACAGTTTAGTATTTTTCTTGATT
* *
59009083 AAGAAAATGTGAGTGTAAGATTTATATGACTTTTTGTCATAATTACAGTTTAGTATTTTTCTTGA
1 AAGAAAATGT--GTGTAAGATTTATATGACTTTTTGCCAAAATTACAGTTTAGTATTTTTCTTGA
59009148 TT
64 TT
59009150 GAGTTTCGAA
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
65 10 0.16
67 51 0.84
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.45
Consensus pattern (65 bp):
AAGAAAATGTGTGTAAGATTTATATGACTTTTTGCCAAAATTACAGTTTAGTATTTTTCTTGATT
Found at i:59012793 original size:16 final size:17
Alignment explanation
Indices: 59012752--59012783 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
59012742 TGGTAGAGGT
59012752 TATTC-TGAACAACATC
1 TATTCTTGAACAACATC
59012768 TATTCTTGAACAACAT
1 TATTCTTGAACAACAT
59012784 TTGTCTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (17 bp):
TATTCTTGAACAACATC
Found at i:59017782 original size:10 final size:10
Alignment explanation
Indices: 59017769--59017819 Score: 54
Period size: 10 Copynumber: 5.4 Consensus size: 10
59017759 AGGAAATTTA
59017769 TAAAAATAAT
1 TAAAAATAAT
59017779 TAAAAATAA-
1 TAAAAATAAT
**
59017788 TAAAAATTGT
1 TAAAAATAAT
59017798 TAAAAAT-A-
1 TAAAAATAAT
*
59017806 TAAAATTAAT
1 TAAAAATAAT
59017816 TAAA
1 TAAA
59017820 TATGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 6 0.18
9 8 0.24
10 20 0.59
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (10 bp):
TAAAAATAAT
Found at i:59017792 original size:19 final size:18
Alignment explanation
Indices: 59017767--59017819 Score: 70
Period size: 19 Copynumber: 2.9 Consensus size: 18
59017757 TTAGGAAATT
59017767 TATAAAAATAATTAAAAA
1 TATAAAAATAATTAAAAA
**
59017785 TAATAAAAATTGTTAAAAA
1 T-ATAAAAATAATTAAAAA
*
59017804 TATAAAATTAATTAAA
1 TATAAAAATAATTAAA
59017820 TATGTATAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 13 0.45
19 16 0.55
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (18 bp):
TATAAAAATAATTAAAAA
Found at i:59019844 original size:19 final size:20
Alignment explanation
Indices: 59019806--59019847 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
59019796 CCCTAATCTA
*
59019806 TGCCCTGTTATGCACTTTGG
1 TGCCCTGTTATGCACGTTGG
59019826 TGCCCTGTT-TGCACGTTGG
1 TGCCCTGTTATGCACGTTGG
59019845 TGC
1 TGC
59019848 TCCTTAATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.07, C:0.26, G:0.29, T:0.38
Consensus pattern (20 bp):
TGCCCTGTTATGCACGTTGG
Found at i:59033995 original size:19 final size:19
Alignment explanation
Indices: 59033971--59034035 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
59033961 TTACTTTTGA
59033971 TTGCACATATGTGCCTTGT
1 TTGCACATATGTGCCTTGT
*
59033990 TTGCAC-TATGATGCCTCTGA
1 TTGCACATATG-TGCCT-TGT
* *
59034010 TTGCACATGTGTTCCTTGT
1 TTGCACATATGTGCCTTGT
59034029 TATGCAC
1 T-TGCAC
59034036 TCTGGTGCCC
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
18 4 0.11
19 14 0.37
20 17 0.45
21 3 0.08
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.40
Consensus pattern (19 bp):
TTGCACATATGTGCCTTGT
Found at i:59034011 original size:39 final size:39
Alignment explanation
Indices: 59033968--59034054 Score: 113
Period size: 39 Copynumber: 2.2 Consensus size: 39
59033958 ACATTACTTT
59033968 TGATTGCACATATGTGCCTTGTT-TGCACTATGATGCCTC
1 TGATTGCACATATGTGCCTTGTTATGCACTATGATGCC-C
* * * *
59034007 TGATTGCACATGTGTTCCTTGTTATGCACTCTGGTGCCC
1 TGATTGCACATATGTGCCTTGTTATGCACTATGATGCCC
*
59034046 TGCTTGCAC
1 TGATTGCAC
59034055 TTTGGTGCTC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
39 30 0.71
40 12 0.29
ACGTcount: A:0.15, C:0.25, G:0.22, T:0.38
Consensus pattern (39 bp):
TGATTGCACATATGTGCCTTGTTATGCACTATGATGCCC
Found at i:59034015 original size:20 final size:19
Alignment explanation
Indices: 59033967--59034027 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
59033957 TACATTACTT
59033967 TTGATTGCACATATGTGCC
1 TTGATTGCACATATGTGCC
*
59033986 TTGTTTGCAC-TATGATGCC
1 TTGATTGCACATATG-TGCC
* *
59034005 TCTGATTGCACATGTGTTCC
1 T-TGATTGCACATATGTGCC
59034025 TTG
1 TTG
59034028 TTATGCACTC
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 4 0.11
19 16 0.46
20 12 0.34
21 3 0.09
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.41
Consensus pattern (19 bp):
TTGATTGCACATATGTGCC
Found at i:59034055 original size:19 final size:18
Alignment explanation
Indices: 59034031--59034094 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 18
59034021 TTCCTTGTTA
59034031 TGCACTCTGGTGCCCTGCT
1 TGCACT-TGGTGCCCTGCT
* *
59034050 TGCACTTTGGTGCTCTTCT
1 TGCAC-TTGGTGCCCTGCT
*
59034069 ATGCACATTTGTGCCCTGCT
1 -TGCAC-TTGGTGCCCTGCT
59034089 TAGCAC
1 T-GCAC
59034095 ATCGGTGCTC
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
19 16 0.44
20 20 0.56
ACGTcount: A:0.11, C:0.31, G:0.22, T:0.36
Consensus pattern (18 bp):
TGCACTTGGTGCCCTGCT
Found at i:59034072 original size:39 final size:40
Alignment explanation
Indices: 59034029--59034104 Score: 102
Period size: 39 Copynumber: 1.9 Consensus size: 40
59034019 TGTTCCTTGT
* *
59034029 TATGCAC-TCTGGTGCCCTGCTT-GCACTTTGGTGCTCTTC
1 TATGCACAT-TGGTGCCCTGCTTAGCACATCGGTGCTCTTC
*
59034068 TATGCACATTTGTGCCCTGCTTAGCACATCGGTGCTC
1 TATGCACATTGGTGCCCTGCTTAGCACATCGGTGCTC
59034105 CCTGATACTG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 19 0.59
40 13 0.41
ACGTcount: A:0.12, C:0.30, G:0.22, T:0.36
Consensus pattern (40 bp):
TATGCACATTGGTGCCCTGCTTAGCACATCGGTGCTCTTC
Found at i:59034094 original size:20 final size:21
Alignment explanation
Indices: 59034038--59034096 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 21
59034028 TTATGCACTC
59034038 TGGTGCCCTGCTT-GCAC-TT
1 TGGTGCCCTGCTTAGCACATT
* *
59034057 TGGTGCTCTTC-TATGCACATT
1 TGGTGCCCTGCTTA-GCACATT
59034078 T-GTGCCCTGCTTAGCACAT
1 TGGTGCCCTGCTTAGCACAT
59034097 CGGTGCTCCC
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
18 1 0.03
19 9 0.28
20 17 0.53
21 5 0.16
ACGTcount: A:0.12, C:0.29, G:0.22, T:0.37
Consensus pattern (21 bp):
TGGTGCCCTGCTTAGCACATT
Found at i:59044546 original size:26 final size:27
Alignment explanation
Indices: 59044512--59044589 Score: 108
Period size: 26 Copynumber: 2.9 Consensus size: 27
59044502 CATTTCCATT
59044512 TTCA-TTTCCATTTTTGGAAACCTACA
1 TTCATTTTCCATTTTTGGAAACCTACA
59044538 TTC-TTTTCCAAATTTTTGGAAACCTACA
1 TTCATTTTCC--ATTTTTGGAAACCTACA
*
59044566 TTCATTTT-CATTTTTGAAAACCTA
1 TTCATTTTCCATTTTTGGAAACCTA
59044590 TTTCTCCATT
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
26 22 0.47
28 21 0.45
29 4 0.09
ACGTcount: A:0.28, C:0.21, G:0.06, T:0.45
Consensus pattern (27 bp):
TTCATTTTCCATTTTTGGAAACCTACA
Found at i:59044552 original size:28 final size:26
Alignment explanation
Indices: 59044512--59044589 Score: 104
Period size: 28 Copynumber: 2.9 Consensus size: 26
59044502 CATTTCCATT
*
59044512 TTCATTTCCATTTTTGGAAACCTACA
1 TTCATTTTCATTTTTGGAAACCTACA
59044538 TTC-TTTTCCAAATTTTTGGAAACCTACA
1 TTCATTTT-C--ATTTTTGGAAACCTACA
*
59044566 TTCATTTTCATTTTTGAAAACCTA
1 TTCATTTTCATTTTTGGAAACCTA
59044590 TTTCTCCATT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
25 3 0.07
26 18 0.39
28 21 0.46
29 4 0.09
ACGTcount: A:0.28, C:0.21, G:0.06, T:0.45
Consensus pattern (26 bp):
TTCATTTTCATTTTTGGAAACCTACA
Found at i:59049890 original size:3 final size:3
Alignment explanation
Indices: 59049882--59049917 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
59049872 GTATATATAG
*
59049882 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
59049918 CTTAATAACA
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:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:59051676 original size:20 final size:18
Alignment explanation
Indices: 59051651--59051687 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
59051641 ACCTAACACG
59051651 AATTAAATTTAAGCCATATT
1 AATTAAA-TTAAG-CATATT
59051671 AATTAAATTAAGCATAT
1 AATTAAATTAAGCATAT
59051688 CAACATCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 5 0.29
20 7 0.41
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (18 bp):
AATTAAATTAAGCATATT
Found at i:59054780 original size:3 final size:3
Alignment explanation
Indices: 59054772--59054807 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
59054762 GTATTTATAG
* *
59054772 TAA TAA TAA TAA TGA TAA TAA TAA CAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
59054808 CTTAATAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:59056600 original size:20 final size:18
Alignment explanation
Indices: 59056575--59056611 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
59056565 ACCTAACACG
59056575 AATTAAATTTAAGCCATATT
1 AATTAAA-TTAAG-CATATT
59056595 AATTAAATTAAGCATAT
1 AATTAAATTAAGCATAT
59056612 CAACATCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 5 0.29
20 7 0.41
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (18 bp):
AATTAAATTAAGCATATT
Found at i:59067023 original size:34 final size:34
Alignment explanation
Indices: 59066980--59067047 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
59066970 TCTTATACAA
59066980 TGGAATTCATAAGATCTATATTGATTAAGTTCAC
1 TGGAATTCATAAGATCTATATTGATTAAGTTCAC
*
59067014 TGGAATTCATAAGATTTATATTGATTAAGTTCAC
1 TGGAATTCATAAGATCTATATTGATTAAGTTCAC
59067048 AAGTGTGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (34 bp):
TGGAATTCATAAGATCTATATTGATTAAGTTCAC
Found at i:59070112 original size:26 final size:26
Alignment explanation
Indices: 59070072--59070129 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
59070062 CTCGATATAT
*
59070072 GGCTCTTCGTGAGCTTCCTGATTAAA
1 GGCTCTTCGTAAGCTTCCTGATTAAA
* *
59070098 GGCTCTTTGTAAGCTTCCTGATTAAT
1 GGCTCTTCGTAAGCTTCCTGATTAAA
59070124 GGCTCT
1 GGCTCT
59070130 CCAGAGCTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (26 bp):
GGCTCTTCGTAAGCTTCCTGATTAAA
Found at i:59077686 original size:16 final size:16
Alignment explanation
Indices: 59077665--59077695 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59077655 TCACTATTAC
*
59077665 GTCTTTTTTATTTTTT
1 GTCTTTTATATTTTTT
59077681 GTCTTTTATATTTTT
1 GTCTTTTATATTTTT
59077696 CATGCATAAC
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:0.10, C:0.06, G:0.06, T:0.77
Consensus pattern (16 bp):
GTCTTTTATATTTTTT
Found at i:59079127 original size:19 final size:17
Alignment explanation
Indices: 59079112--59079160 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 17
59079102 ATTTTAAGAG
59079112 TTTAATATTAAATTAAA
1 TTTAATATTAAATTAAA
**
59079129 TTTAATACTTATCTTATTAA
1 TTTAATA-TTAAATTA--AA
59079149 TTTAATATTAAA
1 TTTAATATTAAA
59079161 GTGGTTATCT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 7 0.28
18 6 0.24
19 3 0.12
20 9 0.36
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTAATATTAAATTAAA
Found at i:59085900 original size:48 final size:48
Alignment explanation
Indices: 59085846--59086072 Score: 285
Period size: 48 Copynumber: 4.7 Consensus size: 48
59085836 TGATTTGTAC
* *
59085846 AAAAATGGACAGCATTTAAGCACTAATTTGGACACCATTAATATACTT
1 AAAAATGGACAGCATTTAAGCACTAATTTGGACAACATTAATATGCTT
* * * *
59085894 AAAAATGGATAGCAATTAAGCA-TCAATTTAGACAACATTAATATGCTAAAA
1 AAAAATGGACAGCATTTAAGCACT-AATTTGGACAACATTAATATGCT---T
**
59085945 AAAAACAGACAGCATTTAAGCACTAATTTGGACAACATTAATATGCTT
1 AAAAATGGACAGCATTTAAGCACTAATTTGGACAACATTAATATGCTT
* * *
59085993 AAAAATGGACAACATTTAAGCACTAATTTGGACAGCATTAATATGCTC
1 AAAAATGGACAGCATTTAAGCACTAATTTGGACAACATTAATATGCTT
* * *
59086041 AAAAATGGACAGCAATTAAACACCAATTTGGA
1 AAAAATGGACAGCATTTAAGCACTAATTTGGA
59086073 TAGCATCTTA
Statistics
Matches: 153, Mismatches: 21, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
47 1 0.01
48 111 0.73
51 40 0.26
52 1 0.01
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.26
Consensus pattern (48 bp):
AAAAATGGACAGCATTTAAGCACTAATTTGGACAACATTAATATGCTT
Found at i:59085959 original size:99 final size:99
Alignment explanation
Indices: 59085853--59086045 Score: 298
Period size: 99 Copynumber: 1.9 Consensus size: 99
59085843 TACAAAAATG
* * *
59085853 GACAGCATTTAAGCACTAATTTGGACACCATTAATATACTTAAAAATGGATAGCAATTAAGCA-T
1 GACAGCATTTAAGCACTAATTTGGACAACATTAATATACTTAAAAATGGACAACAATTAAGCACT
59085917 CAATTTAGACAACATTAATATGCTAAAAAAAAACA
66 -AATTTAGACAACATTAATATGCTAAAAAAAAACA
* *
59085952 GACAGCATTTAAGCACTAATTTGGACAACATTAATATGCTTAAAAATGGACAACATTTAAGCACT
1 GACAGCATTTAAGCACTAATTTGGACAACATTAATATACTTAAAAATGGACAACAATTAAGCACT
* * *
59086017 AATTTGGACAGCATTAATATGCTCAAAAA
66 AATTTAGACAACATTAATATGCTAAAAAA
59086046 TGGACAGCAA
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
99 84 0.99
100 1 0.01
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.27
Consensus pattern (99 bp):
GACAGCATTTAAGCACTAATTTGGACAACATTAATATACTTAAAAATGGACAACAATTAAGCACT
AATTTAGACAACATTAATATGCTAAAAAAAAACA
Found at i:59085983 original size:23 final size:23
Alignment explanation
Indices: 59085952--59086031 Score: 72
Period size: 23 Copynumber: 3.4 Consensus size: 23
59085942 AAAAAAAACA
*
59085952 GACAGCATTTAAGCACTAATTTG
1 GACAACATTTAAGCACTAATTTG
* * **
59085975 GACAACATTAATATGC-TTAAAAATG
1 GACAACATT--TAAGCACT-AATTTG
59086000 GACAACATTTAAGCACTAATTTG
1 GACAACATTTAAGCACTAATTTG
*
59086023 GACAGCATT
1 GACAACATT
59086032 AATATGCTCA
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
23 24 0.56
24 2 0.05
25 17 0.40
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (23 bp):
GACAACATTTAAGCACTAATTTG
Found at i:59086054 original size:25 final size:25
Alignment explanation
Indices: 59085973--59086051 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
59085963 AGCACTAATT
*
59085973 TGGACAACATTAATATGCTTAAAAA
1 TGGACAACATTAATATGCTCAAAAA
* * * **
59085998 TGGACAACATT--TAAGCACTAATT
1 TGGACAACATTAATATGCTCAAAAA
*
59086021 TGGACAGCATTAATATGCTCAAAAA
1 TGGACAACATTAATATGCTCAAAAA
59086046 TGGACA
1 TGGACA
59086052 GCAATTAAAC
Statistics
Matches: 40, Mismatches: 12, Indels: 4
0.71 0.21 0.07
Matches are distributed among these distances:
23 16 0.40
25 24 0.60
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (25 bp):
TGGACAACATTAATATGCTCAAAAA
Found at i:59086737 original size:42 final size:43
Alignment explanation
Indices: 59086627--59086738 Score: 127
Period size: 42 Copynumber: 2.6 Consensus size: 43
59086617 CAATGTCATA
* ** *
59086627 TCCTAGATATGGTCTTACATGTTATAATATATCGATGCCAATG
1 TCCTAGACATGGTCTTACATGAAATCATATATCGATGCCAATG
* * * **
59086670 TCCCAGACAGGGTTTTACACAAAATCATATAT-GATGCCAATG
1 TCCTAGACATGGTCTTACATGAAATCATATATCGATGCCAATG
*
59086712 TTCTAGACATGGTCTTACATGAAATCA
1 TCCTAGACATGGTCTTACATGAAATCA
59086739 CACCTTAGAA
Statistics
Matches: 54, Mismatches: 15, Indels: 1
0.77 0.21 0.01
Matches are distributed among these distances:
42 31 0.57
43 23 0.43
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (43 bp):
TCCTAGACATGGTCTTACATGAAATCATATATCGATGCCAATG
Found at i:59089179 original size:20 final size:20
Alignment explanation
Indices: 59089154--59089192 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
59089144 TGAGTTATTT
59089154 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
59089174 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
59089193 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:59096153 original size:48 final size:48
Alignment explanation
Indices: 59096098--59096379 Score: 312
Period size: 48 Copynumber: 5.8 Consensus size: 48
59096088 TTGATTTGTA
* * * * * *
59096098 CAAAAATGGACAGTAGTTAAGCACCAATTTGGACAGCATCAATATACG
1 CAAAAATGGACAGCATTTAAGCACTAATTTGGACAACATCAATATGCT
* * * * *
59096146 CAAAAATGGATAGCAATTAAGCATTAATTTTGACAACATTAATATGCT
1 CAAAAATGGACAGCATTTAAGCACTAATTTGGACAACATCAATATGCT
* * *
59096194 CAAAAAAATGGACAACATTTAAGCACTAATTTGGACAGCATTAATATGCT
1 C--AAAAATGGACAGCATTTAAGCACTAATTTGGACAACATCAATATGCT
* * *
59096244 TAAAAATGGACAGCATTTAAGCACTAATTTAGACAACATTAATATGCT
1 CAAAAATGGACAGCATTTAAGCACTAATTTGGACAACATCAATATGCT
* * * * * *
59096292 AAAAAATGGACAACCTTTAAGCACTAACTTGGACAGCTTCAATATGCT
1 CAAAAATGGACAGCATTTAAGCACTAATTTGGACAACATCAATATGCT
* * *
59096340 AAAAAATGGACAGCAATTAAGCACCAATTTGGACAACATC
1 CAAAAATGGACAGCATTTAAGCACTAATTTGGACAACATC
59096380 TTATCATCAC
Statistics
Matches: 197, Mismatches: 35, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
48 156 0.79
50 41 0.21
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.25
Consensus pattern (48 bp):
CAAAAATGGACAGCATTTAAGCACTAATTTGGACAACATCAATATGCT
Found at i:59096235 original size:23 final size:23
Alignment explanation
Indices: 59096202--59096283 Score: 67
Period size: 23 Copynumber: 3.5 Consensus size: 23
59096192 CTCAAAAAAA
59096202 TGGACAACATTTAAGCACTAATT
1 TGGACAACATTTAAGCACTAATT
* * * **
59096225 TGGACAGCATTAATATGC-TTAAAAA
1 TGGACAACATT--TAAGCACT-AATT
*
59096250 TGGACAGCATTTAAGCACTAATT
1 TGGACAACATTTAAGCACTAATT
*
59096273 TAGACAACATT
1 TGGACAACATT
59096284 AATATGCTAA
Statistics
Matches: 44, Mismatches: 11, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
23 25 0.57
24 2 0.05
25 17 0.39
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (23 bp):
TGGACAACATTTAAGCACTAATT
Found at i:59096345 original size:96 final size:97
Alignment explanation
Indices: 59096082--59096378 Score: 375
Period size: 96 Copynumber: 3.1 Consensus size: 97
59096072 CAATATTCGA
* * * ** * * * * *
59096082 ACAACATTGATTTG-TACAAAAATGGACAGTAGTTAAGCACCAATTTGGACAGCATCAATATACG
1 ACAACATTAATATGCTAAAAAAATGGACAACATTTAAGCACTAATTTGGACAGCTTCAATATGCT
* * * *
59096146 CAAAAATGGATAGCAATTAAGCATTAATTTTG
66 AAAAAATGGACAGCAATTAAGCACTAATTTAG
59096178 ACAACATTAATATGCTCAAAAAAATGGACAACATTTAAGCACTAATTTGGACAGCATT-AATATG
1 ACAACATTAATATGCT-AAAAAAATGGACAACATTTAAGCACTAATTTGGACAGC-TTCAATATG
* *
59096242 CTTAAAAATGGACAGCATTTAAGCACTAATTTAG
64 CTAAAAAATGGACAGCAATTAAGCACTAATTTAG
* *
59096276 ACAACATTAATATGCT-AAAAAATGGACAACCTTTAAGCACTAACTTGGACAGCTTCAATATGCT
1 ACAACATTAATATGCTAAAAAAATGGACAACATTTAAGCACTAATTTGGACAGCTTCAATATGCT
* *
59096340 AAAAAATGGACAGCAATTAAGCACCAATTTGG
66 AAAAAATGGACAGCAATTAAGCACTAATTTAG
59096372 ACAACAT
1 ACAACAT
59096379 CTTATCATCA
Statistics
Matches: 176, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
95 2 0.01
96 90 0.51
97 1 0.01
98 82 0.47
99 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.26
Consensus pattern (97 bp):
ACAACATTAATATGCTAAAAAAATGGACAACATTTAAGCACTAATTTGGACAGCTTCAATATGCT
AAAAAATGGACAGCAATTAAGCACTAATTTAG
Found at i:59096967 original size:42 final size:41
Alignment explanation
Indices: 59096920--59097034 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 41
59096910 AGCTCGTACA
* * **
59096920 ATGCCATATCCCAGATATGGTCTTACATGTTATAATATATCG
1 ATGCCATGTCCCAGACATGGTCTTACATGACATAATATA-CG
* * * * *
59096962 ATGCCACTGTTCCAAACAGGGTCTTACACGACATCATATACG
1 ATGCCA-TGTCCCAGACATGGTCTTACATGACATAATATACG
59097004 ATGCCAATGTCCCAGACATGGTCTTACATGA
1 ATGCC-ATGTCCCAGACATGGTCTTACATGA
59097035 AATCACACCT
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
42 33 0.57
43 25 0.43
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (41 bp):
ATGCCATGTCCCAGACATGGTCTTACATGACATAATATACG
Found at i:59111108 original size:39 final size:40
Alignment explanation
Indices: 59110991--59111174 Score: 195
Period size: 40 Copynumber: 4.7 Consensus size: 40
59110981 GCTCCTCGTT
*
59110991 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGT-ATCTCGCA
* *
59111031 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
*
59111071 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
* * *
59111110 CAAATGCCTTC-GGATCTTAGTCCAGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGT-ATC-TCGCA
59111151 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59111175 CATCATTCAA
Statistics
Matches: 124, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
38 2 0.02
39 49 0.40
40 63 0.51
41 10 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
Found at i:59111168 original size:79 final size:81
Alignment explanation
Indices: 59110991--59111174 Score: 213
Period size: 79 Copynumber: 2.3 Consensus size: 81
59110981 GCTCCTCGTT
* * *
59110991 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCA
*
59111055 GATTTAGTAACTCGCA
66 GATTTAGTAACTAGCA
**
59111071 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
*
59111132 CAGATATT-GTCACTTAGCA
64 CAGAT-TTAGTAAC-TAGCA
59111151 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59111175 CATCATTCAA
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
78 14 0.15
79 55 0.60
80 22 0.24
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCA
GATTTAGTAACTAGCA
Found at i:59119469 original size:79 final size:82
Alignment explanation
Indices: 59119358--59119542 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
59119348 GCTACTCGTT
* *
59119358 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
59119421 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
59119438 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
59119501 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
59119518 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59119543 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:59119542 original size:40 final size:40
Alignment explanation
Indices: 59119339--59119542 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
59119329 CGGAATTTAA
** *
59119339 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
59119379 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
59119419 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
59119458 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
59119498 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
59119538 CCGGA
1 CCGGA
59119543 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:59123911 original size:16 final size:16
Alignment explanation
Indices: 59123890--59123936 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
59123880 CATCTTTTGT
59123890 TTAATTAACATTTAAC
1 TTAATTAACATTTAAC
*
59123906 TTAATTATTA-AATT-AC
1 TTAATTA--ACATTTAAC
59123922 TTAATTAACATTTAA
1 TTAATTAACATTTAA
59123937 AAATTATCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
14 1 0.04
15 3 0.12
16 17 0.68
17 3 0.12
18 1 0.04
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAATTAACATTTAAC
Found at i:59128784 original size:73 final size:73
Alignment explanation
Indices: 59128696--59128838 Score: 277
Period size: 73 Copynumber: 2.0 Consensus size: 73
59128686 ACACCCTACA
59128696 ATCATAAACCATTCATATACATGCATATTGTCCCTAAAACGAGCCTTTGAGGCCTTGAAAATAAC
1 ATCATAAACCATTCATATACATGCATATTGTCCCTAAAACGAGCCTTTGAGGCCTTGAAAATAAC
59128761 TTAAATAT
66 TTAAATAT
*
59128769 ATCATAAATCATTCATATACATGCATATTGTCCCTAAAACGAGCCTTTGAGGCCTTGAAAATAAC
1 ATCATAAACCATTCATATACATGCATATTGTCCCTAAAACGAGCCTTTGAGGCCTTGAAAATAAC
59128834 TTAAA
66 TTAAA
59128839 AGCAAATCAT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.30
Consensus pattern (73 bp):
ATCATAAACCATTCATATACATGCATATTGTCCCTAAAACGAGCCTTTGAGGCCTTGAAAATAAC
TTAAATAT
Found at i:59129751 original size:20 final size:20
Alignment explanation
Indices: 59129726--59129825 Score: 64
Period size: 20 Copynumber: 5.1 Consensus size: 20
59129716 AGAGTATAAA
*
59129726 CAGGGGCACGTATGTGCAAT
1 CAGGGGCACGTATGTACAAT
* * *
59129746 CAGGGGTACCG-AAGTACAAA
1 CAGGGGCA-CGTATGTACAAT
* *
59129766 C-GGGGCACGTATATACATT
1 CAGGGGCACGTATGTACAAT
* * *
59129785 CAGGGGTAC-TGAAGTACAAA
1 CAGGGGCACGT-ATGTACAAT
*
59129805 CAGGGGCACG-ATGTGCAAT
1 CAGGGGCACGTATGTACAAT
59129824 CA
1 CA
59129826 TACAATAATT
Statistics
Matches: 57, Mismatches: 18, Indels: 11
0.66 0.21 0.13
Matches are distributed among these distances:
18 2 0.04
19 20 0.35
20 33 0.58
21 2 0.04
ACGTcount: A:0.32, C:0.20, G:0.31, T:0.17
Consensus pattern (20 bp):
CAGGGGCACGTATGTACAAT
Found at i:59129788 original size:39 final size:40
Alignment explanation
Indices: 59129718--59129814 Score: 142
Period size: 39 Copynumber: 2.5 Consensus size: 40
59129708 AAGTTACTAG
* * *
59129718 AGTATAAACAGGGGCACGTATGTGCAATCAGGGGTACCGA
1 AGTACAAACAGGGGCACGTATATACAATCAGGGGTACCGA
* *
59129758 AGTACAAAC-GGGGCACGTATATACATTCAGGGGTACTGA
1 AGTACAAACAGGGGCACGTATATACAATCAGGGGTACCGA
59129797 AGTACAAACAGGGGCACG
1 AGTACAAACAGGGGCACG
59129815 ATGTGCAATC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.69
40 16 0.31
ACGTcount: A:0.34, C:0.19, G:0.31, T:0.16
Consensus pattern (40 bp):
AGTACAAACAGGGGCACGTATATACAATCAGGGGTACCGA
Found at i:59131466 original size:16 final size:17
Alignment explanation
Indices: 59131440--59131472 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
59131430 AAATAACTAG
*
59131440 ATGCAAAATTATCCTAA
1 ATGCAAAATTAACCTAA
59131457 ATGC-AAATTAACCTAA
1 ATGCAAAATTAACCTAA
59131473 GTGTGATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.48, C:0.18, G:0.06, T:0.27
Consensus pattern (17 bp):
ATGCAAAATTAACCTAA
Found at i:59132975 original size:14 final size:14
Alignment explanation
Indices: 59132956--59132984 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
59132946 AATTGCATAC
59132956 TTTACTAAATCATG
1 TTTACTAAATCATG
59132970 TTTACTAAATCATG
1 TTTACTAAATCATG
59132984 T
1 T
59132985 CTATTATCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (14 bp):
TTTACTAAATCATG
Found at i:59146453 original size:25 final size:25
Alignment explanation
Indices: 59146423--59146490 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
59146413 CCCTGTAATA
* *
59146423 CGCCACAAAGGCTTTTCAGTTATTT
1 CGCCACAAAGGCTTTTCAGGTATCT
**
59146448 TTCCACAAAGGCTTTTCAGGTATCT
1 CGCCACAAAGGCTTTTCAGGTATCT
59146473 CGCCACAAAGGCTTTTCA
1 CGCCACAAAGGCTTTTCA
59146491 ACTAATATGT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.32
Consensus pattern (25 bp):
CGCCACAAAGGCTTTTCAGGTATCT
Found at i:59150718 original size:839 final size:839
Alignment explanation
Indices: 59149100--59150778 Score: 3340
Period size: 839 Copynumber: 2.0 Consensus size: 839
59149090 AAAACTAAAA
59149100 TTAAATAAGTATTTTTAAACTTAAAACAAATTTTAAGATACAAAAATCATTCTTCAAAACACACA
1 TTAAATAAGTATTTTTAAACTTAAAACAAATTTTAAGATACAAAAATCATTCTTCAAAACACACA
59149165 TGAGGATTCGAACCCAAAACCTAGAGGTACACTAACACACCACCAACCACCAGACCAGCAGGCCC
66 TGAGGATTCGAACCCAAAACCTAGAGGTACACTAACACACCACCAACCACCAGACCAGCAGGCCC
59149230 ATTCTGACACTAAAATATGACAACAACCCCAATTGTCTGATCTAGCAACTGACCCTACCTAAAAA
131 ATTCTGACACTAAAATATGACAACAACCCCAATTGTCTGATCTAGCAACTGACCCTACCTAAAAA
59149295 TCTCAAAACTTCTAAACCTAAAATCTAGGGTGTTACAGACACTTATCATGCAACATCGTATTCAA
196 TCTCAAAACTTCTAAACCTAAAATCTAGGGTGTTACAGACACTTATCATGCAACATCGTATTCAA
59149360 ACAGCTATCAATACTCTTCTTTTACATCTATGTAGATATTTTCTCAATGAGACATGCTTATCTAC
261 ACAGCTATCAATACTCTTCTTTTACATCTATGTAGATATTTTCTCAATGAGACATGCTTATCTAC
59149425 AGAGGCATCAACCATTTATTTGAAATAAAATTATATACAGAAGTCAGTACTAGAAACTCACCGGA
326 AGAGGCATCAACCATTTATTTGAAATAAAATTATATACAGAAGTCAGTACTAGAAACTCACCGGA
59149490 AACTCACCTTTACCTCAACTCAGAATGTTTGTTCCAATCATCCTTCTCGATCTAGCAGCAACCAC
391 AACTCACCTTTACCTCAACTCAGAATGTTTGTTCCAATCATCCTTCTCGATCTAGCAGCAACCAC
59149555 TATTCAAAAGATCATAGAACCTCAATTAAAACCTTATTTACTGATAGGTTACTAATATGTCGTCT
456 TATTCAAAAGATCATAGAACCTCAATTAAAACCTTATTTACTGATAGGTTACTAATATGTCGTCT
59149620 ATACATGACCCTCATGTAGGGTCTTCCACTCAAAGCATATTGTTCTTACATCTTGTACACATCCC
521 ATACATGACCCTCATGTAGGGTCTTCCACTCAAAGCATATTGTTCTTACATCTTGTACACATCCC
59149685 TACTCATTACTGTCTTAACATGCAGAGCTATTGAACTTACCAGGAGGTTGAATCATCTACTAATT
586 TACTCATTACTGTCTTAACATGCAGAGCTATTGAACTTACCAGGAGGTTGAATCATCTACTAATT
59149750 TACAAAACCTTAGCTTTATCTTACCAAAGAATAATAAGAGAATGTTTAGAATGAAAAGAAGTAAC
651 TACAAAACCTTAGCTTTATCTTACCAAAGAATAATAAGAGAATGTTTAGAATGAAAAGAAGTAAC
59149815 CAGGATGCAATCAGGAAAGAAAAACCCTCTGAATGTACCCCTTCCCATGTATATATATACTCTCG
716 CAGGATGCAATCAGGAAAGAAAAACCCTCTGAATGTACCCCTTCCCATGTATATATATACTCTCG
* *
59149880 ATCCTTTATAGTGGATTTGACAAGTGGAAATATTATTTGAATTTGTCCCCCGGTTTCCC
781 ATCCTTTATAGTGGATTTGACAAGTGCAAATATTATTTGAATTTGTCCACCGGTTTCCC
59149939 TTAAATAAGTATTTTTAAACTTAAAACAAATTTTAAGATACAAAAATCATTCTTCAAAACACACA
1 TTAAATAAGTATTTTTAAACTTAAAACAAATTTTAAGATACAAAAATCATTCTTCAAAACACACA
59150004 TGAGGATTCGAACCCAAAACCTAGAGGTACACTAACACACCACCAACCACCAGACCAGCAGGCCC
66 TGAGGATTCGAACCCAAAACCTAGAGGTACACTAACACACCACCAACCACCAGACCAGCAGGCCC
59150069 ATTCTGACACTAAAATATGACAACAACCCCAATTGTCTGATCTAGCAACTGACCCTACCTAAAAA
131 ATTCTGACACTAAAATATGACAACAACCCCAATTGTCTGATCTAGCAACTGACCCTACCTAAAAA
59150134 TCTCAAAACTTCTAAACCTAAAATCTAGGGTGTTACAGACACTTATCATGCAACATCGTATTCAA
196 TCTCAAAACTTCTAAACCTAAAATCTAGGGTGTTACAGACACTTATCATGCAACATCGTATTCAA
59150199 ACAGCTATCAATACTCTTCTTTTACATCTATGTAGATATTTTCTCAATGAGACATGCTTATCTAC
261 ACAGCTATCAATACTCTTCTTTTACATCTATGTAGATATTTTCTCAATGAGACATGCTTATCTAC
59150264 AGAGGCATCAACCATTTATTTGAAATAAAATTATATACAGAAGTCAGTACTAGAAACTCACCGGA
326 AGAGGCATCAACCATTTATTTGAAATAAAATTATATACAGAAGTCAGTACTAGAAACTCACCGGA
59150329 AACTCACCTTTACCTCAACTCAGAATGTTTGTTCCAATCATCCTTCTCGATCTAGCAGCAACCAC
391 AACTCACCTTTACCTCAACTCAGAATGTTTGTTCCAATCATCCTTCTCGATCTAGCAGCAACCAC
59150394 TATTCAAAAGATCATAGAACCTCAATTAAAACCTTATTTACTGATAGGTTACTAATATGTCGTCT
456 TATTCAAAAGATCATAGAACCTCAATTAAAACCTTATTTACTGATAGGTTACTAATATGTCGTCT
59150459 ATACATGACCCTCATGTAGGGTCTTCCACTCAAAGCATATTGTTCTTACATCTTGTACACATCCC
521 ATACATGACCCTCATGTAGGGTCTTCCACTCAAAGCATATTGTTCTTACATCTTGTACACATCCC
59150524 TACTCATTACTGTCTTAACATGCAGAGCTATTGAACTTACCAGGAGGTTGAATCATCTACTAATT
586 TACTCATTACTGTCTTAACATGCAGAGCTATTGAACTTACCAGGAGGTTGAATCATCTACTAATT
59150589 TACAAAACCTTAGCTTTATCTTACCAAAGAATAATAAGAGAATGTTTAGAATGAAAAGAAGTAAC
651 TACAAAACCTTAGCTTTATCTTACCAAAGAATAATAAGAGAATGTTTAGAATGAAAAGAAGTAAC
59150654 CAGGATGCAATCAGGAAAGAAAAACCCTCTGAATGTACCCCTTCCCATGTATATATATACTCTCG
716 CAGGATGCAATCAGGAAAGAAAAACCCTCTGAATGTACCCCTTCCCATGTATATATATACTCTCG
59150719 ATCCTTTATAGTGGATTTGACAAGTGCAAATATTATTTGAATTTGTCCACCGGTTTCCC
781 ATCCTTTATAGTGGATTTGACAAGTGCAAATATTATTTGAATTTGTCCACCGGTTTCCC
59150778 T
1 T
59150779 ACAAAAATTT
Statistics
Matches: 838, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
839 838 1.00
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.29
Consensus pattern (839 bp):
TTAAATAAGTATTTTTAAACTTAAAACAAATTTTAAGATACAAAAATCATTCTTCAAAACACACA
TGAGGATTCGAACCCAAAACCTAGAGGTACACTAACACACCACCAACCACCAGACCAGCAGGCCC
ATTCTGACACTAAAATATGACAACAACCCCAATTGTCTGATCTAGCAACTGACCCTACCTAAAAA
TCTCAAAACTTCTAAACCTAAAATCTAGGGTGTTACAGACACTTATCATGCAACATCGTATTCAA
ACAGCTATCAATACTCTTCTTTTACATCTATGTAGATATTTTCTCAATGAGACATGCTTATCTAC
AGAGGCATCAACCATTTATTTGAAATAAAATTATATACAGAAGTCAGTACTAGAAACTCACCGGA
AACTCACCTTTACCTCAACTCAGAATGTTTGTTCCAATCATCCTTCTCGATCTAGCAGCAACCAC
TATTCAAAAGATCATAGAACCTCAATTAAAACCTTATTTACTGATAGGTTACTAATATGTCGTCT
ATACATGACCCTCATGTAGGGTCTTCCACTCAAAGCATATTGTTCTTACATCTTGTACACATCCC
TACTCATTACTGTCTTAACATGCAGAGCTATTGAACTTACCAGGAGGTTGAATCATCTACTAATT
TACAAAACCTTAGCTTTATCTTACCAAAGAATAATAAGAGAATGTTTAGAATGAAAAGAAGTAAC
CAGGATGCAATCAGGAAAGAAAAACCCTCTGAATGTACCCCTTCCCATGTATATATATACTCTCG
ATCCTTTATAGTGGATTTGACAAGTGCAAATATTATTTGAATTTGTCCACCGGTTTCCC
Done.