Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 157 of 343
Found at i:52070182 original size:21 final size:21
Alignment explanation
Indices: 52070143--52070182 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
52070133 CCCTTGACAT
* *
52070143 AGGGGCACACGCTCTTGTGAA
1 AGGGGCACACGCCCGTGTGAA
52070164 AGGGGCACACGCCCGTGTG
1 AGGGGCACACGCCCGTGTG
52070183 CTAGGCCGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.28, G:0.38, T:0.15
Consensus pattern (21 bp):
AGGGGCACACGCCCGTGTGAA
Found at i:52071120 original size:47 final size:48
Alignment explanation
Indices: 52071044--52071315 Score: 215
Period size: 46 Copynumber: 5.8 Consensus size: 48
52071034 AGGGTAAGGT
* * * *
52071044 GTCGATGCCATGTCCTAGACACAGCCTTACTCTGGCTCAT-ATCTCAA-
1 GTCGATGCCATGTCCCAGACA-TGTCTTACACTGGCTCATCATCTCAAG
* * **
52071091 GTCGATGCCATGTCCCAAACATGGTCTTACACTGGCT-ATCCTCTTGTA-
1 GTCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCATCATC-TCAAG
* * * *
52071139 GCCGATG-CATGTCCCAGACATGTCTTAAACTGGCTTA-CGTCTCAAG
1 GTCGATGCCATGTCCCAGACATGTCTTACACTGGCTCATCATCTCAAG
* * * * *
52071185 GTCGATG-CATGTCCCAAACATGTCTTACATTAGC-CCTCATCTCAAT
1 GTCGATGCCATGTCCCAGACATGTCTTACACTGGCTCATCATCTCAAG
* * **
52071231 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAAT-GTG
1 GTCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCATCAT-CTCAAG
* *
52071279 GCCGATG-CATGTCCCAGACATGTCTTACACTAGCTCA
1 GTCGATGCCATGTCCCAGACATGTCTTACACTGGCTCA
52071316 CACACGAATG
Statistics
Matches: 182, Mismatches: 32, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
45 2 0.01
46 74 0.41
47 74 0.41
48 30 0.16
49 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
GTCGATGCCATGTCCCAGACATGTCTTACACTGGCTCATCATCTCAAG
Found at i:52071243 original size:93 final size:94
Alignment explanation
Indices: 52071085--52071267 Score: 239
Period size: 93 Copynumber: 2.0 Consensus size: 94
52071075 CTGGCTCATA
* * * **
52071085 TCTCAAGTCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCCTCTTGTAGCCGATGCATG
1 TCTCAAGTCGATGCCATGTCCCAAACATGGTCTTACACTAGCCATCATCTAATAGCCGATGCATG
52071150 TCCCAGACAT-GTCTTAAACTGGCTTACG
66 TCCCAGACATGGTCTTAAACTGGCTTACG
* *
52071178 TCTCAAGGTCGATG-CATGTCCCAAACAT-GTCTTACATTAGCCCTCATCTCAAT-GCCGATGCC
1 TCTCAA-GTCGATGCCATGTCCCAAACATGGTCTTACACTAGCCATCATCT-AATAGCCGATG-C
*
52071240 ATGTCCCAGACATGGTCTTACACTGGCT
63 ATGTCCCAGACATGGTCTTAAACTGGCT
52071268 CTCATAATGT
Statistics
Matches: 78, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
92 23 0.29
93 35 0.45
94 20 0.26
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (94 bp):
TCTCAAGTCGATGCCATGTCCCAAACATGGTCTTACACTAGCCATCATCTAATAGCCGATGCATG
TCCCAGACATGGTCTTAAACTGGCTTACG
Found at i:52071300 original size:94 final size:92
Alignment explanation
Indices: 52071085--52071312 Score: 234
Period size: 94 Copynumber: 2.4 Consensus size: 92
52071075 CTGGCTCATA
* * ** * **
52071085 TCTCAA-GTCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCCTCT-TGTAGCCGATGCA
1 TCTCAAGGCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCCCTCATCTCAAT-GCCGATGCA
52071148 TGTCCCAGACATGTCTTAAACTGGCTTACG
63 TGTCCCAGACATGTCTTAAACTGGCTTACG
* *
52071178 TCTCAAGGTCGATGCATGTCCCAAACATGTCTTACATTAGCCCTCATCTCAATGCCGATGCCATG
1 TCTCAAGGCCGATGCATGTCCCAAACATGTCTTACACTAGCCCTCATCTCAATGCCGATG-CATG
*
52071243 TCCCAGACATGGTCTTACACTGGC-T-C-
65 TCCCAGACAT-GTCTTAAACTGGCTTACG
*
52071269 TCAT-AATGTGGCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 TC-TCAA---GGCCGATGCATGTCCCAAACATGTCTTACACTAGC
52071313 TCACACACGA
Statistics
Matches: 116, Mismatches: 11, Indels: 15
0.82 0.08 0.11
Matches are distributed among these distances:
91 4 0.03
92 25 0.22
93 36 0.31
94 51 0.44
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (92 bp):
TCTCAAGGCCGATGCATGTCCCAAACATGTCTTACACTAGCCCTCATCTCAATGCCGATGCATGT
CCCAGACATGTCTTAAACTGGCTTACG
Found at i:52078190 original size:21 final size:21
Alignment explanation
Indices: 52078139--52078193 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
52078129 GAAATTGCAG
*
52078139 CGAGGCTACCAGATATTGTGA
1 CGAGGCCACCAGATATTGTGA
* * *
52078160 CGAAGTCACCAGATATTGTGG
1 CGAGGCCACCAGATATTGTGA
*
52078181 CTAGGCCACCAGA
1 CGAGGCCACCAGA
52078194 ACAGTTATAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (21 bp):
CGAGGCCACCAGATATTGTGA
Found at i:52078450 original size:26 final size:27
Alignment explanation
Indices: 52078414--52078489 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 27
52078404 TAAAATTAAC
* *
52078414 CCTAAGGGTATATTGGTCATTTT-GTA
1 CCTAGGGGTATATTGGTCATTTTCCTA
* *
52078440 CCTAGGGGTATAATGGTAATTTTCCCTA
1 CCTAGGGGTATATTGGTCATTTT-CCTA
* * *
52078468 CTTAGGGGTATTTTAGTCATTT
1 CCTAGGGGTATATTGGTCATTT
52078490 CAACAATTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
26 20 0.51
28 19 0.49
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.42
Consensus pattern (27 bp):
CCTAGGGGTATATTGGTCATTTTCCTA
Found at i:52083475 original size:40 final size:40
Alignment explanation
Indices: 52083420--52083641 Score: 279
Period size: 40 Copynumber: 5.6 Consensus size: 40
52083410 TATTCGAATG
* *
52083420 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
52083460 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAAT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
52083500 ATATCCAGGCCAAGTCCCGAAGGTATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
52083540 ATATCCGGGCTAAGACCCGAAGTCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
** *
52083580 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
52083620 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
52083642 TACTTGGGTT
Statistics
Matches: 163, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
39 15 0.09
40 146 0.90
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:52083590 original size:120 final size:119
Alignment explanation
Indices: 52083420--52083643 Score: 308
Period size: 120 Copynumber: 1.9 Consensus size: 119
52083410 TATTCGAATG
* * **
52083420 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCGAGCGACTATATCCGGGCTAAAACCCGAAGGCA
* *
52083485 TTTGTGCTAG-TGAATATATCCAGGCCAAGTCCCGAAGGTATTTGTGCTATTGACT
66 TTTGTGCGAGTTG-ATATATCC-GGCCAAATCCCGAAGGTATTTGTGCTATTGACT
* * *
52083540 ATATCCGGGCTAAGACCCGAAGTCATTTGTGCGAGTTG-CTATATCCGGGCTAAAACCCGAAGGC
1 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCGAG-CGACTATATCCGGGCTAAAACCCGAAGGC
* *
52083604 ATTTGTGCGAGTTGCTATATCCGGCTAAATCCCGAAGGTA
65 ATTTGTGCGAGTTGATATATCCGGCCAAATCCCGAAGGTA
52083644 CTTGGGTTTG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
119 16 0.18
120 72 0.79
121 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.26
Consensus pattern (119 bp):
ATATCCGGGCTAAGACCCAAAGGCATTTGTGCGAGCGACTATATCCGGGCTAAAACCCGAAGGCA
TTTGTGCGAGTTGATATATCCGGCCAAATCCCGAAGGTATTTGTGCTATTGACT
Found at i:52086349 original size:46 final size:46
Alignment explanation
Indices: 52086296--52086509 Score: 157
Period size: 46 Copynumber: 4.6 Consensus size: 46
52086286 TGTGAGCTAG
* *
52086296 TGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAA
1 TGTAAGACATGTCTGGGACATGCATCGGCCACATGACGAGAGCCAA
* * * * * *
52086342 TGTAAGACCATGTCTGGGACATGGCATCAG-CA-TTGACACAAGGGCTAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATG--ACGAGAGCCAA
* * * * *
52086390 TGTAAGACATGTCTGGGACATGCATTGGCCTCAAGACGTA-AGTCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCCACATGACG-AGAGCCAA
* * * *
52086436 TGTAAGACATGTCTGGGACATGCATCGGCTACAGGATG-GTAGTCAA
1 TGTAAGACATGTCTGGGACATGCATCGGCCACATGACGAG-AGCCAA
* *
52086482 TGTAAAACCATGTATGGGACATGGCATC
1 TGTAAGA-CATGTCTGGGACAT-GCATC
52086510 AACTTGAGAT
Statistics
Matches: 132, Mismatches: 25, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
46 62 0.47
47 45 0.34
48 25 0.19
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCACATGACGAGAGCCAA
Found at i:52086549 original size:140 final size:140
Alignment explanation
Indices: 52086294--52086551 Score: 367
Period size: 140 Copynumber: 1.8 Consensus size: 140
52086284 TGTGTGAGCT
** * *
52086294 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAATGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAGGATGAGAGCCAATGTAAAACCATGTATGG
* * * *
52086359 GACATGGCATCAGCATTGACACAAGGGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCAA
66 GACATGGCATCAACATTGACACAAGAGCTAGTGTAAGACATGACTAGGACATGCATTGGCCTCAA
52086424 GACGTAAGTC
131 GACGTAAGTC
* *
52086434 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAGGATG-GTAGTCAATGTAAAACCATGTATG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAGGATGAG-AGCCAATGTAAAACCATGTATG
* * *
52086498 GGACATGGCATCAAC-TTGAGATATGAGCTAGTGTAAGACCATGACTAGGACATG
65 GGACATGGCATCAACATTGACACAAGAGCTAGTGTAAGA-CATGACTAGGACATG
52086552 GCATCGGTAC
Statistics
Matches: 103, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
139 20 0.19
140 83 0.81
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.23
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACAGGATGAGAGCCAATGTAAAACCATGTATGG
GACATGGCATCAACATTGACACAAGAGCTAGTGTAAGACATGACTAGGACATGCATTGGCCTCAA
GACGTAAGTC
Found at i:52090853 original size:53 final size:53
Alignment explanation
Indices: 52090785--52090992 Score: 186
Period size: 54 Copynumber: 3.8 Consensus size: 53
52090775 TTTCCTTTTT
* * *
52090785 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTAGAATCCTTGACTTAT-
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACAT-GAATCCTTGACTTATA
* * * * *
52090838 GAACTCACCAATGCCATGCCTTGGCATGGTATTACATTGGA-CCTTTGTCTTATA
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACA-TGAATCC-TTGACTTATA
* * ** * **
52090892 GTAACTAATCAATGCCATGTATTGACATGGTCTTACATGATTTCCTTTCCTTATA
1 G-AACTTACCAATGCCATGCCTTGACATGGTCTTACATGA-ATCCTTGACTTATA
* * *
52090947 GAACTTATCAATTCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGA-ATCCTT
52090993 ATCTTACCAA
Statistics
Matches: 125, Mismatches: 24, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
52 2 0.02
53 40 0.32
54 43 0.34
55 38 0.30
56 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (53 bp):
GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGAATCCTTGACTTATA
Found at i:52091251 original size:44 final size:44
Alignment explanation
Indices: 52091184--52091268 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
52091174 ATCCTTAACC
* *
52091184 GTCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTCT
1 GTCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTCT
* * *
52091228 GTCAATTCTTCCTTAATTTCCATGGTACAACCATGGACTTT
1 GTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
52091269 GAGATATCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.39
Consensus pattern (44 bp):
GTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTCT
Found at i:52100686 original size:21 final size:21
Alignment explanation
Indices: 52100656--52100695 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
52100646 CACTTGACAT
52100656 AGGGGCACACGCCCATGTGAA
1 AGGGGCACACGCCCATGTGAA
* *
52100677 AGGGGTACACGCCCGTGTG
1 AGGGGCACACGCCCATGTG
52100696 GCCAATTCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.28, G:0.38, T:0.12
Consensus pattern (21 bp):
AGGGGCACACGCCCATGTGAA
Found at i:52102013 original size:46 final size:46
Alignment explanation
Indices: 52101930--52102099 Score: 139
Period size: 46 Copynumber: 3.7 Consensus size: 46
52101920 CTCGTAGCTG
* * * *
52101930 ATGCATGTCCCAGACATGTCTTATACT-GGCTTACGTCTCGAGGCCA
1 ATGCATGTCCCAAACATGTCTTACACTAGCCCT-CGTCTCGAGGCCA
* *
52101976 ATGCATGTCCCAAACATGTCTTACACTAGCCCTCGTCTCAATG-CA
1 ATGCATGTCCCAAACATGTCTTACACTAGCCCTCGTCTCGAGGCCA
* * * * * **
52102021 GATGCTATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTGGCTG
1 -ATGC-ATGTCCCAAACAT-GTCTTACACTAGCCCTCGT-CTCGAGGCCA
* *
52102070 ATGCATATCCCAGACATGTCTTACACTAGC
1 ATGCATGTCCCAAACATGTCTTACACTAGC
52102100 TCACACACGA
Statistics
Matches: 100, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
45 2 0.02
46 49 0.49
47 27 0.27
48 21 0.21
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
ATGCATGTCCCAAACATGTCTTACACTAGCCCTCGTCTCGAGGCCA
Found at i:52104427 original size:6 final size:6
Alignment explanation
Indices: 52104413--52104500 Score: 95
Period size: 6 Copynumber: 14.7 Consensus size: 6
52104403 CACACGGCCA
* * * * *
52104413 ATATAT ATATGT ATATAT GTATAT ATGTAT ATATAC ATATAT ACATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * *
52104461 ATACAT ATATAC ATATAT ACATAT ATACAT ATATAT ATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATAT
52104501 TCCTTATCAT
Statistics
Matches: 64, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 64 1.00
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (6 bp):
ATATAT
Found at i:52104429 original size:8 final size:8
Alignment explanation
Indices: 52104416--52104446 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
52104406 ACGGCCAATA
52104416 TATATATG
1 TATATATG
52104424 TATATATG
1 TATATATG
52104432 TATATATG
1 TATATATG
52104440 TATATAT
1 TATATAT
52104447 ACATATATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.52
Consensus pattern (8 bp):
TATATATG
Found at i:52104452 original size:8 final size:8
Alignment explanation
Indices: 52104441--52104500 Score: 111
Period size: 8 Copynumber: 7.5 Consensus size: 8
52104431 GTATATATGT
52104441 ATATATAC
1 ATATATAC
52104449 ATATATAC
1 ATATATAC
52104457 ATATATAC
1 ATATATAC
52104465 ATATATAC
1 ATATATAC
52104473 ATATATAC
1 ATATATAC
52104481 ATATATAC
1 ATATATAC
*
52104489 ATATATAT
1 ATATATAC
52104497 ATAT
1 ATAT
52104501 TCCTTATCAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
8 51 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (8 bp):
ATATATAC
Found at i:52104452 original size:24 final size:24
Alignment explanation
Indices: 52104417--52104500 Score: 105
Period size: 24 Copynumber: 3.5 Consensus size: 24
52104407 CGGCCAATAT
* ** **
52104417 ATATATGTATATATGTATATATGT
1 ATATATATATATATACATATATAC
*
52104441 ATATATACATATATACATATATAC
1 ATATATATATATATACATATATAC
*
52104465 ATATATACATATATACATATATAC
1 ATATATATATATATACATATATAC
52104489 ATATATATATAT
1 ATATATATATAT
52104501 TCCTTATCAT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.46, C:0.07, G:0.04, T:0.43
Consensus pattern (24 bp):
ATATATATATATATACATATATAC
Found at i:52113093 original size:44 final size:44
Alignment explanation
Indices: 52113043--52113131 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
52113033 GACCGTCTAA
*
52113043 GTCAACCAACAACTACTTTATGTTTAAATTTTGTTTCTGATTTT
1 GTCAACCAACAACTACTTTATGTTTAAATTCTGTTTCTGATTTT
52113087 GTCAACCAACAACTACTTTATGTTTAAATTCTGTTTCTGATTTT
1 GTCAACCAACAACTACTTTATGTTTAAATTCTGTTTCTGATTTT
52113131 G
1 G
52113132 ATAAGGTTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.46
Consensus pattern (44 bp):
GTCAACCAACAACTACTTTATGTTTAAATTCTGTTTCTGATTTT
Found at i:52114373 original size:56 final size:56
Alignment explanation
Indices: 52114287--52114406 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
52114277 ACAAGGGATG
52114287 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
52114343 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
52114399 ATGGGCAA
1 ATGGGCAA
52114407 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:52116046 original size:47 final size:47
Alignment explanation
Indices: 52115995--52116264 Score: 398
Period size: 47 Copynumber: 5.7 Consensus size: 47
52115985 TTAGGATTCT
* * * *
52115995 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCAG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
* *
52116042 ATGTGATGAATGTGAAAGTGTATATATGTGATAAAGCCTAATGACCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
52116089 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
52116136 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
52116183 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
52116230 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
52116265 TCCCGAAGGG
Statistics
Matches: 204, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 1 0.00
47 203 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:52116439 original size:37 final size:37
Alignment explanation
Indices: 52116383--52116461 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
52116373 CCGAGCTCTA
* * *
52116383 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
52116420 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
52116457 AAGAC
1 AAGAC
52116462 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:52119980 original size:19 final size:19
Alignment explanation
Indices: 52119934--52119981 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
52119924 GTATATATTT
52119934 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
52119952 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
52119971 TAAATTTTATT
1 TAAATTTTATT
52119982 CATATTTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:52120063 original size:42 final size:42
Alignment explanation
Indices: 52120005--52120088 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
52119995 TATTTTTATT
*
52120005 TTATCTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTCCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGAGAACTATTTTCCC
*
52120047 TTATGTTTTAGTAGTTTATTAGAATAAGAGAACTATTTTCCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGAGAACTATTTTCCC
52120089 AATTAGGATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (42 bp):
TTATCTTTTAGTAGTTTATTAGAATAAGAGAACTATTTTCCC
Found at i:52127762 original size:35 final size:35
Alignment explanation
Indices: 52127723--52127892 Score: 200
Period size: 35 Copynumber: 4.9 Consensus size: 35
52127713 AAAGGTGACT
* *
52127723 TTAAAAAGGTTGGGATAGATTCGTCTAAGGCAACC
1 TTAAAAAGGTTGAGATAGACTCGTCTAAGGCAACC
* *
52127758 TTAAAAACGTTGAGATAGACCCGTCTAAGGCAACC
1 TTAAAAAGGTTGAGATAGACTCGTCTAAGGCAACC
* * * *
52127793 TTTAAAAGGCTGAGATAGACACGTCTATGGCAACC
1 TTAAAAAGGTTGAGATAGACTCGTCTAAGGCAACC
* *
52127828 TTAAAAAGGTTGGGATAGACAT-ATCTAAGGCAACC
1 TTAAAAAGGTTGAGATAGAC-TCGTCTAAGGCAACC
* *
52127863 TTAAAAAAGTTGAGATAAACAT-GTCTAAGG
1 TTAAAAAGGTTGAGATAGAC-TCGTCTAAGG
52127893 TATTTTTTTT
Statistics
Matches: 115, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
35 115 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (35 bp):
TTAAAAAGGTTGAGATAGACTCGTCTAAGGCAACC
Found at i:52128494 original size:19 final size:19
Alignment explanation
Indices: 52128470--52128562 Score: 81
Period size: 17 Copynumber: 5.1 Consensus size: 19
52128460 ATCTTTAAGT
* *
52128470 ATATGCAATCTCAGGTATG
1 ATATGCAATCTTAGATATG
*
52128489 ATATGCAATCTTATATATG
1 ATATGCAATCTTAGATATG
52128508 ATAT--AATCTTAGATATG
1 ATATGCAATCTTAGATATG
*
52128525 ATATG--AT-AT-GATATG
1 ATATGCAATCTTAGATATG
*
52128540 ATATACAATCTTGAAGATATG
1 ATATGCAATCTT--AGATATG
52128561 AT
1 AT
52128563 TTTATAATCT
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
15 10 0.17
16 1 0.02
17 20 0.33
18 1 0.02
19 20 0.33
21 8 0.13
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.38
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:52128527 original size:5 final size:5
Alignment explanation
Indices: 52128519--52128543 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
52128509 TATAATCTTA
52128519 GATAT GATAT GATAT GATAT GATAT
1 GATAT GATAT GATAT GATAT GATAT
52128544 ACAATCTTGA
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:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
GATAT
Found at i:52135366 original size:19 final size:21
Alignment explanation
Indices: 52135342--52135391 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
52135332 CTTCTATTTC
52135342 AAAAAAAAAGAA-AAA-AGAA
1 AAAAAAAAAGAATAAAGAGAA
* *
52135361 AAAAAATAATAATAAAGAGAA
1 AAAAAAAAAGAATAAAGAGAA
52135382 AAAAGAAAAA
1 AAAA-AAAAA
52135392 TGGAGAGGCC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 10 0.40
20 3 0.12
21 8 0.32
22 4 0.16
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (21 bp):
AAAAAAAAAGAATAAAGAGAA
Found at i:52136336 original size:44 final size:44
Alignment explanation
Indices: 52136262--52136726 Score: 288
Period size: 44 Copynumber: 10.6 Consensus size: 44
52136252 GGGACAATGT
* *
52136262 AGATCAAAGA-AACAAGATTTGGCATCCCTGTGTTTATAGGGAAC
1 AGATCGAAGATAAC-AGATCTGGCATCCCTGTGTTTATAGGGAAC
* ** * * * *
52136306 AGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGCGAAGC
1 AGATCGAAGATAACAGATCTGGCATCCCTGTGTTTATAGGGAA-C
** *
52136351 AGATCGAAGATTTCAG--CATGGCATCCCTATGTTTATAGGGAAC
1 AGATCGAAGATAACAGATC-TGGCATCCCTGTGTTTATAGGGAAC
** * *
52136394 A-AGTTAAAGACAACAGATTTGGCATCCCTGTGTTTATAGGGAAC
1 AGA-TCGAAGATAACAGATCTGGCATCCCTGTGTTTATAGGGAAC
* * * * * * *
52136438 AGATTGAAGATAATAGATCTGACACCCCTGTGCTTACAGTGAAGC
1 AGATCGAAGATAACAGATCTGGCATCCCTGTGTTTATAGGGAA-C
* **
52136483 AGATCGAGGATTTCAG--CATGGCATCCCTGTGTTTATAGGGAAC
1 AGATCGAAGATAACAGATC-TGGCATCCCTGTGTTTATAGGGAAC
* * * *
52136526 A-AGTTGAAGATAGCAGATTTGGCATCCCTATGTTTATAGGGAAC
1 AGA-TCGAAGATAACAGATCTGGCATCCCTGTGTTTATAGGGAAC
** * * * *
52136570 AGATCGAAGATAACAGATCTAACA-CTCCTGTGCTTACAGCGAAGT
1 AGATCGAAGATAACAGATCTGGCATC-CCTGTGTTTATAGGGAA-C
* * ** *
52136615 AAATCGAGGATTTCAG--CATGGCATCCCTGTGTTTATAGGGAAA
1 AGATCGAAGATAACAGATC-TGGCATCCCTGTGTTTATAGGGAAC
* * * * * * * *
52136658 AG-TTGAAGATAGCAGATTTGGCATCTCTGTATTGT-CAGAGAGC
1 AGATCGAAGATAACAGATCTGGCATCCCTGTGTT-TATAGGGAAC
* *
52136701 AGATCGAAGATACCAGATTTGGCATC
1 AGATCGAAGATAACAGATCTGGCATC
52136727 TCTATATTGA
Statistics
Matches: 316, Mismatches: 84, Indels: 42
0.71 0.19 0.10
Matches are distributed among these distances:
42 11 0.03
43 45 0.14
44 216 0.68
45 44 0.14
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (44 bp):
AGATCGAAGATAACAGATCTGGCATCCCTGTGTTTATAGGGAAC
Found at i:52136504 original size:132 final size:132
Alignment explanation
Indices: 52136267--52136718 Score: 649
Period size: 132 Copynumber: 3.4 Consensus size: 132
52136257 AATGTAGATC
* * *
52136267 AAAGA-AACAAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGATAT
1 AAAGATAAC-AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACAC
* *
52136331 TCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTATGTTTATAGGGAACAA
65 TCCTGTGCTTACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAA
52136396 GTT
130 GTT
* * * *
52136399 AAAGACAACAGATTTGGCATCCCTGTGTTTATAGGGAACAGATTGAAGATAATAGATCTGACACC
1 AAAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACT
*
52136464 CCTGTGCTTACAGTGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAG
66 CCTGTGCTTACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAG
52136529 TT
131 TT
* * * *
52136531 GAAGATAGCAGATTTGGCATCCCTATGTTTATAGGGAACAGATCGAAGATAACAGATCTAACACT
1 AAAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACT
* *
52136596 CCTGTGCTTACAGCGAAGTAAATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAA-AAG
66 CCTGTGCTTACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAG
52136660 TT
131 TT
* * * * * * * *
52136662 GAAGATAGCAGATTTGGCATCTCTGTATTGT-CAGAGAGCAGATCGAAGATACCAGAT
1 AAAGATAACAGATTTGGCATCCCTGTGTT-TATAGGGAACAGATCGAAGATAACAGAT
52136719 TTGGCATCTC
Statistics
Matches: 291, Mismatches: 27, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
131 53 0.18
132 235 0.81
133 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.26
Consensus pattern (132 bp):
AAAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACT
CCTGTGCTTACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAG
TT
Found at i:52136727 original size:44 final size:44
Alignment explanation
Indices: 52136662--52136754 Score: 150
Period size: 44 Copynumber: 2.1 Consensus size: 44
52136652 GGGAAAAGTT
* * * *
52136662 GAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATC
1 GAAGATACCAGATTTGGCATCTCTATATTGACAGAGAGCAAATC
52136706 GAAGATACCAGATTTGGCATCTCTATATTGACAGAGAGCAAATC
1 GAAGATACCAGATTTGGCATCTCTATATTGACAGAGAGCAAATC
52136750 GAAGA
1 GAAGA
52136755 CATAGCTGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (44 bp):
GAAGATACCAGATTTGGCATCTCTATATTGACAGAGAGCAAATC
Found at i:52137078 original size:205 final size:205
Alignment explanation
Indices: 52136741--52137455 Score: 1146
Period size: 205 Copynumber: 3.5 Consensus size: 205
52136731 TATTGACAGA
* *
52136741 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAACAAATCTAAGATGAT
* * * *
52136806 TTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCGACGGAGGACAGA
66 TTGGCATCTCTATATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGAAGGGCAGA
* * *
52136871 CACATAGCAAATCCAACCTTCAGATGTTTATACTGAATTAGATCCAAGATGGTTTGGCATCCTTG
131 CACATAGCAGATCCAAACTTCAGATGTTTATACTGAAATAGATCCAAGATGGTTTGGCATCCTTG
52136936 TGCTTACAAG
196 TGCTTACAAG
*
52136946 GAGCAAATCGAAGACATAGCTGATTTGACTTTCACGTGCTTACGTTGAAACAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAACAAATCTAAGATGAT
*
52137011 TTGGCATTTCTATATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGAAGGGCAGA
66 TTGGCATCTCTATATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGAAGGGCAGA
* * * * *
52137076 CACATAGCAGATCCAAACTTCAGATGTTTATACTGAAGTAGATCTAAGATGCTTTGACATTCTTG
131 CACATAGCAGATCCAAACTTCAGATGTTTATACTGAAATAGATCCAAGATGGTTTGGCATCCTTG
52137141 TGCTTACAAG
196 TGCTTACAAG
* * * *
52137151 GAGCAAATCGAAGACATAGCTGATTTGGTTTTCATGTGCTTAAGTTGAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAACAAATCTAAGATGAT
*
52137216 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGAC-AGAGGGCAG
66 TTGGCATCTCTATATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGA-AGGGCAG
* * *
52137280 ACACATAGCAGATCTAAACTTCAGATGTTTATACTGAAACAGGTCCAAGATGGTTTGGCATCCTT
130 ACACATAGCAGATCCAAACTTCAGATGTTTATACTGAAATAGATCCAAGATGGTTTGGCATCCTT
52137345 GTGCTTACAAG
195 GTGCTTACAAG
* *
52137356 GAGCAAATCGAAGATATAGTTGATTTGGCTTTCACGTGCTTACGTT-AAAGCAAATCTAAGATGA
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAA-CAAATCTAAGATGA
* *
52137420 TTTGGCATCTCTATATTGTTAGGGAACAAATCGAAG
65 TTTGGCATCTCTATATTGTCAGAGAACAAATCGAAG
52137456 AAGCAGATTT
Statistics
Matches: 469, Mismatches: 39, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
204 3 0.01
205 466 0.99
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (205 bp):
GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAACAAATCTAAGATGAT
TTGGCATCTCTATATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGAAGGGCAGA
CACATAGCAGATCCAAACTTCAGATGTTTATACTGAAATAGATCCAAGATGGTTTGGCATCCTTG
TGCTTACAAG
Found at i:52137612 original size:45 final size:45
Alignment explanation
Indices: 52137529--52137640 Score: 154
Period size: 45 Copynumber: 2.5 Consensus size: 45
52137519 GAGTTTGCAA
* * *
52137529 GGAGCAGATTGAAGA-AAAAAATTTAGCGTCTCTGTATTAGACGG
1 GGAGCAGATCGAAGATAACAGATTTAGCGTCTCTGTATTAGACGG
* *
52137573 GGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGATGG
1 GGAGCAGATCGAAGATAACAGATTTAGCGTCTCTGTATTAGACGG
* *
52137618 GGAGCAGATCAAAGATAGCAGAT
1 GGAGCAGATCGAAGATAACAGAT
52137641 ATCGCCTTCC
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
44 14 0.23
45 46 0.77
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.23
Consensus pattern (45 bp):
GGAGCAGATCGAAGATAACAGATTTAGCGTCTCTGTATTAGACGG
Found at i:52138020 original size:19 final size:19
Alignment explanation
Indices: 52137996--52138072 Score: 99
Period size: 19 Copynumber: 4.2 Consensus size: 19
52137986 AATCTTTAAG
52137996 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
52138015 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
52138034 GATATG--AT-AT-GATAT
1 GATATGCAATCTTAGATAT
52138049 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
52138070 GAT
1 GAT
52138073 TTTGTAATCT
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
15 11 0.22
16 1 0.02
17 4 0.08
18 1 0.02
19 25 0.50
21 8 0.16
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:52138037 original size:5 final size:5
Alignment explanation
Indices: 52138029--52138054 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
52138019 TGCAATCTTA
52138029 GATAT GATAT GATAT GATAT GATAT G
1 GATAT GATAT GATAT GATAT GATAT G
52138055 CAATCTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (5 bp):
GATAT
Found at i:52139053 original size:25 final size:25
Alignment explanation
Indices: 52139020--52139069 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
52139010 CAATTATTTC
52139020 GAGATTTCAAAACATAGTGTCCTAA
1 GAGATTTCAAAACATAGTGTCCTAA
52139045 GAGATTTCAAAACATAGTGTCCTAA
1 GAGATTTCAAAACATAGTGTCCTAA
52139070 CTTACTGGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (25 bp):
GAGATTTCAAAACATAGTGTCCTAA
Found at i:52141543 original size:19 final size:19
Alignment explanation
Indices: 52141521--52141557 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
52141511 AATAATATAT
*
52141521 ATATAGTAAAATATATAAC
1 ATATAATAAAATATATAAC
*
52141540 ATATAATAAAATTTATAA
1 ATATAATAAAATATATAA
52141558 ATAAAATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (19 bp):
ATATAATAAAATATATAAC
Found at i:52141548 original size:10 final size:10
Alignment explanation
Indices: 52141521--52141608 Score: 54
Period size: 11 Copynumber: 8.3 Consensus size: 10
52141511 AATAATATAT
*
52141521 ATATAGTAAA
1 ATATAATAAA
*
52141531 ATAT-ATAAC
1 ATATAATAAA
52141540 ATATAATAAA
1 ATATAATAAA
52141550 ATTTATAAATAAA
1 A--TAT-AATAAA
*
52141563 ATGT-ATAATA
1 ATATAATAA-A
*
52141573 ATATAAATAAT
1 ATAT-AATAAA
*
52141584 ATATAAATAAT
1 ATAT-AATAAA
52141595 ATATAAATAAA
1 ATAT-AATAAA
52141606 ATA
1 ATA
52141609 ATATATATAC
Statistics
Matches: 64, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
9 11 0.17
10 13 0.20
11 26 0.41
12 7 0.11
13 7 0.11
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.34
Consensus pattern (10 bp):
ATATAATAAA
Found at i:52141564 original size:32 final size:32
Alignment explanation
Indices: 52141517--52141609 Score: 91
Period size: 32 Copynumber: 2.9 Consensus size: 32
52141507 AAGGAATAAT
* *
52141517 ATATATATAGTAAAATATATAA-CATATAATAAA
1 ATATATA-AATAAAATATATAATAATATAA-AAA
* * *
52141550 ATTTATAAATAAAATGTATAATAATATAAATA
1 ATATATAAATAAAATATATAATAATATAAAAA
* *
52141582 ATATATAAATAATATATA-AATAAAATAA
1 ATATATAAATAAAATATATAATAATATAA
52141610 TATATATACT
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
31 9 0.18
32 29 0.58
33 12 0.24
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.34
Consensus pattern (32 bp):
ATATATAAATAAAATATATAATAATATAAAAA
Found at i:52141589 original size:11 final size:11
Alignment explanation
Indices: 52141567--52141604 Score: 67
Period size: 11 Copynumber: 3.4 Consensus size: 11
52141557 AATAAAATGT
52141567 ATAATAATATAA
1 ATAAT-ATATAA
52141579 ATAATATATAA
1 ATAATATATAA
52141590 ATAATATATAA
1 ATAATATATAA
52141601 ATAA
1 ATAA
52141605 AATAATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 21 0.81
12 5 0.19
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
ATAATATATAA
Found at i:52141589 original size:16 final size:16
Alignment explanation
Indices: 52141570--52141615 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 16
52141560 AAAATGTATA
52141570 ATAATATAAATAATAT
1 ATAATATAAATAATAT
52141586 ATAA-AT-AAT-ATAT
1 ATAATATAAATAATAT
52141599 A-AATA-AAATAATAT
1 ATAATATAAATAATAT
52141613 ATA
1 ATA
52141616 TACTATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
12 2 0.08
13 9 0.35
14 8 0.31
15 3 0.12
16 4 0.15
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
ATAATATAAATAATAT
Found at i:52146596 original size:30 final size:30
Alignment explanation
Indices: 52146552--52146744 Score: 199
Period size: 30 Copynumber: 6.4 Consensus size: 30
52146542 TTGTGTTTTC
* *
52146552 ACCATCCCTTTTCATAATTTGATATCCGAA
1 ACCATCCCTTTTCATAATTCGATAGCCGAA
* * *
52146582 ACTATCCCTCTTCATAATTCGATAGCCGGA
1 ACCATCCCTTTTCATAATTCGATAGCCGAA
* *
52146612 GCCATCCCTTTTCATAATTTGATAGCC-AA
1 ACCATCCCTTTTCATAATTCGATAGCCGAA
* * * **
52146641 AGCCATCCCTTTTCATAATTCAATGGTCGTC
1 A-CCATCCCTTTTCATAATTCGATAGCCGAA
52146672 ACCATCCCTTTTTCATAATTCGATAGCCGAA
1 ACCATCCC-TTTTCATAATTCGATAGCCGAA
* * * *
52146703 GCTATCCCTTTTCATATTTTGATAGCCGAA
1 ACCATCCCTTTTCATAATTCGATAGCCGAA
* *
52146733 GCCATCCTTTTT
1 ACCATCCCTTTT
52146745 TATTGGTCGA
Statistics
Matches: 132, Mismatches: 28, Indels: 6
0.80 0.17 0.04
Matches are distributed among these distances:
29 1 0.01
30 107 0.81
31 24 0.18
ACGTcount: A:0.25, C:0.28, G:0.11, T:0.36
Consensus pattern (30 bp):
ACCATCCCTTTTCATAATTCGATAGCCGAA
Found at i:52146649 original size:60 final size:60
Alignment explanation
Indices: 52146553--52146744 Score: 226
Period size: 60 Copynumber: 3.2 Consensus size: 60
52146543 TGTGTTTTCA
* * *
52146553 CCATCCCTTTTCATAATTTGATATCCGAAA-CTATCCCTCTTCATAATTCGATAGCCGGAG
1 CCATCCCTTTTCATAATTTGATAGCC-AAAGCTATCCCTTTTCATAATTCGATAGCCGAAG
* * * * *
52146613 CCATCCCTTTTCATAATTTGATAGCCAAAGCCATCCCTTTTCATAATTCAATGGTCGTCA-
1 CCATCCCTTTTCATAATTTGATAGCCAAAGCTATCCCTTTTCATAATTCGATAGCCG-AAG
* * * *
52146673 CCATCCCTTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATATTTTGATAGCCGAAG
1 CCATCCC-TTTTCATAATTTGATAGCCAAAGCTATCCCTTTTCATAATTCGATAGCCGAAG
*
52146734 CCATCCTTTTT
1 CCATCCCTTTT
52146745 TATTGGTCGA
Statistics
Matches: 111, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
59 3 0.03
60 59 0.53
61 49 0.44
ACGTcount: A:0.25, C:0.28, G:0.11, T:0.36
Consensus pattern (60 bp):
CCATCCCTTTTCATAATTTGATAGCCAAAGCTATCCCTTTTCATAATTCGATAGCCGAAG
Found at i:52147131 original size:31 final size:31
Alignment explanation
Indices: 52147096--52147159 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
52147086 CATGCAATTT
52147096 CACCCCTACCCAAGCCTAGCCGAATTTTATA
1 CACCCCTACCCAAGCCTAGCCGAATTTTATA
52147127 CACCCCTACCCAAGCCTAGCCGAATTTTATA
1 CACCCCTACCCAAGCCTAGCCGAATTTTATA
52147158 CA
1 CA
52147160 AACTCATAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.30, C:0.39, G:0.09, T:0.22
Consensus pattern (31 bp):
CACCCCTACCCAAGCCTAGCCGAATTTTATA
Found at i:52151959 original size:83 final size:83
Alignment explanation
Indices: 52151869--52152349 Score: 395
Period size: 84 Copynumber: 5.7 Consensus size: 83
52151859 ACCAATATCG
* * *
52151869 AATAAAATCTAGTTAAACGGCGAGAATAAATCCCAAAATAGATTTAATTTAATTTAATTCTAATT
1 AATAAAATCTTGTTAAACGGCGAGAATAAATCCCAAAACAGATTTTATTTAATTTAATTCTAATT
* * *
52151934 TAGAAATAAATATAATCA
66 TGGAAAAAAATAAAATCA
* * * ** * *
52151952 AACAAAATCTTGTTAAACGACGGGAATAAAT-CTTAAATATATTTTATTTAATTTAATTCTAATT
1 AATAAAATCTTGTTAAACGGCGAGAATAAATCCCAAAACAGATTTTATTTAATTTAATTCTAATT
*
52152016 TGGAAACAACATAAAATCA
66 TGGAAA-AAAATAAAATCA
*
52152035 AATAAAATCTTGTTAAACGGCG-GAAATAAATCTCAAAACAGATTTTATTTAATTTAATTCTAAT
1 AATAAAATCTTGTTAAACGGCGAG-AATAAATCCCAAAACAGATTTTATTTAATTTAATTCTAAT
52152099 TTGGAAAAAAAATAAAATCA
65 TTGG-AAAAAAATAAAATCA
* * *
52152119 AATAAAATCTTGTTAAATGGC-AGGAATAAATCCCAAAACAAATTTTATTTAACTTTGATTTCTC
1 AATAAAATCTTGTTAAACGGCGA-GAATAAATCCCAAAACAGATTTTATTTAA-TTT-A-AT-TC
** * **
52152183 TTTTTTGGCAACAAAATCAAAATGT
61 TAATTTGG-AAAAAAAT-AAAATCA
* * * *
52152208 AATAAATTCGTTGATCAA---CGAGAATAAATCCCGAAACAGATTTTAATTTAATTTTAGTAGTT
1 AATAAAATC-TTGTTAAACGGCGAGAATAAATCCCAAAACAGATTTT-ATTTAA-TTTA--A-TT
* **
52152270 GT--TTTGGAAAAAACATCAAAATTGG
60 CTAATTTGGAAAAAA-AT-AAAA-TCA
* * * * * *
52152295 AATAAAATC-CGTTGAACGGCGGGAATAAATCCCGAAATAAATTTTATTTTAATTT
1 AATAAAATCTTGTTAAACGGCGAGAATAAATCCCAAAACAGATTTTA-TTTAATTT
52152350 TAATACTTGT
Statistics
Matches: 329, Mismatches: 47, Indels: 40
0.79 0.11 0.10
Matches are distributed among these distances:
82 35 0.11
83 63 0.19
84 88 0.27
85 16 0.05
86 13 0.04
87 38 0.12
88 56 0.17
89 14 0.04
90 6 0.02
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (83 bp):
AATAAAATCTTGTTAAACGGCGAGAATAAATCCCAAAACAGATTTTATTTAATTTAATTCTAATT
TGGAAAAAAATAAAATCA
Found at i:52152114 original size:84 final size:84
Alignment explanation
Indices: 52151869--52152170 Score: 396
Period size: 84 Copynumber: 3.6 Consensus size: 84
52151859 ACCAATATCG
* * *
52151869 AATAAAATCTAGTTAAACGGC-GAGAATAAATCCCAAAATAGATTTAATTTAATTTAATTCTAAT
1 AATAAAATCTTGTTAAACGGCGGA-AATAAATCCCAAAACAGATTTTATTTAATTTAATTCTAAT
* * *
52151933 TTAG-AAATAAATATAATCA
65 TTGGAAAAAAAATAAAATCA
* * * ** * *
52151952 AACAAAATCTTGTTAAACGACGGGAATAAAT-CTTAAATATATTTTATTTAATTTAATTCTAATT
1 AATAAAATCTTGTTAAACGGCGGAAATAAATCCCAAAACAGATTTTATTTAATTTAATTCTAATT
* *
52152016 TGGAAACAACATAAAATCA
66 TGGAAAAAAAATAAAATCA
*
52152035 AATAAAATCTTGTTAAACGGCGGAAATAAATCTCAAAACAGATTTTATTTAATTTAATTCTAATT
1 AATAAAATCTTGTTAAACGGCGGAAATAAATCCCAAAACAGATTTTATTTAATTTAATTCTAATT
52152100 TGGAAAAAAAATAAAATCA
66 TGGAAAAAAAATAAAATCA
* *
52152119 AATAAAATCTTGTTAAATGGCAGG-AATAAATCCCAAAACAAATTTTATTTAA
1 AATAAAATCTTGTTAAACGGC-GGAAATAAATCCCAAAACAGATTTTATTTAA
52152171 CTTTGATTTC
Statistics
Matches: 189, Mismatches: 26, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
82 31 0.16
83 64 0.34
84 92 0.49
85 2 0.01
ACGTcount: A:0.48, C:0.10, G:0.09, T:0.33
Consensus pattern (84 bp):
AATAAAATCTTGTTAAACGGCGGAAATAAATCCCAAAACAGATTTTATTTAATTTAATTCTAATT
TGGAAAAAAAATAAAATCA
Found at i:52152245 original size:87 final size:87
Alignment explanation
Indices: 52152142--52152371 Score: 232
Period size: 88 Copynumber: 2.6 Consensus size: 87
52152132 TAAATGGCAG
* * * * *
52152142 GAATAAATCCCAAAACAAATTTTATTTAACTTTGATTTCTCTTTTTTGGCAACAAA-ATCAAAA-
1 GAATAAATCCCGAAACAAATTTTATTTAA-TTTGAGTACT-TGTTTTGG-AAAAAACATCAAAAT
* * *
52152205 TGTAAT-AAATTCGTTGATCAACGA
63 TGGAATAAAATCCGTTGAACAACGA
* * *
52152229 GAATAAATCCCGAAACAGATTTTAATTTAATTTTAGTAGTTGTTTTGGAAAAAACATCAAAATTG
1 GAATAAATCCCGAAACAAATTTT-ATTTAATTTGAGTACTTGTTTTGGAAAAAACATCAAAATTG
** *
52152294 GAATAAAATCCGTTGAACGGCGG
65 GAATAAAATCCGTTGAACAACGA
* * *
52152317 GAATAAATCCCGAAATAAATTTTATTTTAATTTTAATACTTGTTTTGGAATAAAA
1 GAATAAATCCCGAAACAAATTTTA-TTTAATTTGAGTACTTGTTTTGGAA-AAAA
52152372 TCGTTGAATA
Statistics
Matches: 119, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
85 5 0.04
86 14 0.12
87 33 0.28
88 63 0.53
89 4 0.03
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (87 bp):
GAATAAATCCCGAAACAAATTTTATTTAATTTGAGTACTTGTTTTGGAAAAAACATCAAAATTGG
AATAAAATCCGTTGAACAACGA
Found at i:52152569 original size:88 final size:87
Alignment explanation
Indices: 52152425--52152591 Score: 237
Period size: 88 Copynumber: 1.9 Consensus size: 87
52152415 CTCATTTTTG
* * * *
52152425 GAAATAAAATAAAAAAATTGAATAAAATCGTTGAACGGCAGGAATCAATCCTGAAACAGATTTTA
1 GAAATAAAATAAAAAAATGGAATAAAATCGTTAAACGGCAGGAATAAATCCCGAAACAGATTTTA
52152490 TTTACCTTTAATTTTCCATTTA
66 TTTACCTTTAATTTTCCATTTA
** *
52152512 GAAAT-AAATAAAAATAATGGAATAAAATCTGTTAAACGGGGGGAATAAATCCCGAAACGGATTT
1 GAAATAAAATAAAAA-AATGGAATAAAATC-GTTAAACGGCAGGAATAAATCCCGAAACAGATTT
*
52152576 TATTTACTTTTAATTT
64 TATTTACCTTTAATTT
52152592 GGAAACAAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
86 9 0.13
87 18 0.26
88 43 0.61
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.32
Consensus pattern (87 bp):
GAAATAAAATAAAAAAATGGAATAAAATCGTTAAACGGCAGGAATAAATCCCGAAACAGATTTTA
TTTACCTTTAATTTTCCATTTA
Found at i:52155443 original size:30 final size:30
Alignment explanation
Indices: 52155409--52155469 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
52155399 TCCGCCTCAC
52155409 CTCTTCTCTTACTCATACACCCACCACCAT
1 CTCTTCTCTTACTCATACACCCACCACCAT
* *
52155439 CTCTTCTCTTACTCTTACACCCACCGCCAT
1 CTCTTCTCTTACTCATACACCCACCACCAT
52155469 C
1 C
52155470 CAATCTCCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.20, C:0.48, G:0.02, T:0.31
Consensus pattern (30 bp):
CTCTTCTCTTACTCATACACCCACCACCAT
Found at i:52156844 original size:31 final size:31
Alignment explanation
Indices: 52156809--52156904 Score: 147
Period size: 31 Copynumber: 3.1 Consensus size: 31
52156799 TTATTCATAA
52156809 AACTCAAATCAACAATCATAATCAATTAAAC
1 AACTCAAATCAACAATCATAATCAATTAAAC
52156840 AACTCAAATCAACAATCATAATCAATTAAAC
1 AACTCAAATCAACAATCATAATCAATTAAAC
* * ** *
52156871 AACTCAAATCGACAATTATCTTCGATTAAAC
1 AACTCAAATCAACAATCATAATCAATTAAAC
52156902 AAC
1 AAC
52156905 ATAGAAACTA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 60 1.00
ACGTcount: A:0.51, C:0.23, G:0.02, T:0.24
Consensus pattern (31 bp):
AACTCAAATCAACAATCATAATCAATTAAAC
Found at i:52156880 original size:18 final size:18
Alignment explanation
Indices: 52156819--52156872 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
52156809 AACTCAAATC
52156819 AACAATCATAATCAATTA
1 AACAATCATAATCAATTA
52156837 AACAACTCA-AATC-----
1 AACAA-TCATAATCAATTA
52156850 AACAATCATAATCAATTA
1 AACAATCATAATCAATTA
52156868 AACAA
1 AACAA
52156873 CTCAAATCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 14
0.67 0.00 0.33
Matches are distributed among these distances:
12 3 0.10
13 9 0.31
18 14 0.48
19 3 0.10
ACGTcount: A:0.57, C:0.20, G:0.00, T:0.22
Consensus pattern (18 bp):
AACAATCATAATCAATTA
Found at i:52159136 original size:125 final size:125
Alignment explanation
Indices: 52158914--52159163 Score: 500
Period size: 125 Copynumber: 2.0 Consensus size: 125
52158904 TTATAGAAAA
52158914 AAAAATGCAATTTACCTATTTAAAGTCAATCCAACATGAATTTGCAAGTTAAATCGCACATTTAA
1 AAAAATGCAATTTACCTATTTAAAGTCAATCCAACATGAATTTGCAAGTTAAATCGCACATTTAA
52158979 TTCTGTGCTGGACTTTCCACAGATCAAACAACCTCAAACATCAAAAAAATAAAATTTAAG
66 TTCTGTGCTGGACTTTCCACAGATCAAACAACCTCAAACATCAAAAAAATAAAATTTAAG
52159039 AAAAATGCAATTTACCTATTTAAAGTCAATCCAACATGAATTTGCAAGTTAAATCGCACATTTAA
1 AAAAATGCAATTTACCTATTTAAAGTCAATCCAACATGAATTTGCAAGTTAAATCGCACATTTAA
52159104 TTCTGTGCTGGACTTTCCACAGATCAAACAACCTCAAACATCAAAAAAATAAAATTTAAG
66 TTCTGTGCTGGACTTTCCACAGATCAAACAACCTCAAACATCAAAAAAATAAAATTTAAG
52159164 GCCAATAGGC
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
125 125 1.00
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.28
Consensus pattern (125 bp):
AAAAATGCAATTTACCTATTTAAAGTCAATCCAACATGAATTTGCAAGTTAAATCGCACATTTAA
TTCTGTGCTGGACTTTCCACAGATCAAACAACCTCAAACATCAAAAAAATAAAATTTAAG
Found at i:52166342 original size:26 final size:27
Alignment explanation
Indices: 52166290--52166342 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
52166280 TTTCTATTTG
*
52166290 ATTTAAATTTTATTATATATGACTTTTT
1 ATTTAAATTTTA-TATATATGAATTTTT
52166318 ATTTAAATTTTA-ATATATGAATTTT
1 ATTTAAATTTTATATATATGAATTTT
52166343 GTTAAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 12 0.50
28 12 0.50
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (27 bp):
ATTTAAATTTTATATATATGAATTTTT
Found at i:52166347 original size:24 final size:27
Alignment explanation
Indices: 52166292--52166348 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 27
52166282 TCTATTTGAT
* *
52166292 TTAAATTTTATTATATATGACTTTTTAT
1 TTAAATTTTA-TATATATGACATTTTAG
52166320 TTAAATTTTA-ATATATGA-ATTTT-G
1 TTAAATTTTATATATATGACATTTTAG
52166344 TTAAA
1 TTAAA
52166349 AATAATTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 5 0.19
25 4 0.15
26 8 0.30
28 10 0.37
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (27 bp):
TTAAATTTTATATATATGACATTTTAG
Found at i:52174133 original size:50 final size:50
Alignment explanation
Indices: 52174010--52174193 Score: 226
Period size: 50 Copynumber: 3.7 Consensus size: 50
52174000 CTGGTACGCA
* * * *
52174010 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCAGGTACACG
** * *
52174059 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCAGGTACACG
* * * *
52174109 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-TTATCAGGTACACG
* *
52174160 TAGTAGCCTGCACTTAATACTACACAAGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
52174194 CACAATAAAT
Statistics
Matches: 114, Mismatches: 19, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
49 31 0.27
50 45 0.39
51 38 0.33
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCAGGTACACG
Found at i:52174181 original size:101 final size:99
Alignment explanation
Indices: 52174010--52174193 Score: 269
Period size: 101 Copynumber: 1.8 Consensus size: 99
52174000 CTGGTACGCA
* * **
52174010 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
* *
52174075 GTACTACACACGTGACCTAACCATCTGATACACG
66 ATACTACACAAGTGACCTAACCATCTGATACACG
* * *
52174109 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCAGGTACACATAGTAGCCTGCACT
52174174 TAATACTACACAAGTGACCT
64 TAATACTACACAAGTGACCT
52174194 CACAATAAAT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 29 0.39
100 3 0.04
101 42 0.57
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAGGTACACATAGTAGCCTGCACTTA
ATACTACACAAGTGACCTAACCATCTGATACACG
Found at i:52174469 original size:27 final size:27
Alignment explanation
Indices: 52174439--52174492 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
52174429 TCGTACAACC
*
52174439 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAATAATAATTTAACATTCAATT
**
52174466 CATGTAATAATAATTTGCCATTCAATT
1 CATGTAATAATAATTTAACATTCAATT
52174493 TCACATGACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (27 bp):
CATGTAATAATAATTTAACATTCAATT
Found at i:52177106 original size:26 final size:26
Alignment explanation
Indices: 52177077--52177180 Score: 199
Period size: 26 Copynumber: 4.0 Consensus size: 26
52177067 TGATACAAAT
52177077 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
52177103 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
52177129 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
52177155 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
52177181 CGATGGGAAT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:52182449 original size:13 final size:13
Alignment explanation
Indices: 52182433--52182466 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
52182423 ATAATTTCAT
52182433 GAAAATTTCGGTC
1 GAAAATTTCGGTC
* *
52182446 GAAAATTTCGTTT
1 GAAAATTTCGGTC
52182459 GAAAATTT
1 GAAAATTT
52182467 TGATGTTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (13 bp):
GAAAATTTCGGTC
Found at i:52183693 original size:43 final size:42
Alignment explanation
Indices: 52183554--52183715 Score: 166
Period size: 42 Copynumber: 3.8 Consensus size: 42
52183544 AGGGTTACTT
* * * *
52183554 AGATTACGTGTAAGATCATATTTGGGATATGGAATCGATATG
1 AGATTACGTGTAAGACCATAGTTGGGATATGGCATCGATAAG
* *
52183596 AGATTTCGTGTAAGACCAT-GTTTGGGATATGGCATCAATAAG
1 AGATTACGTGTAAGACCATAG-TTGGGATATGGCATCGATAAG
* * * * *
52183638 AGATTTCTTGTAAGACCATAGCTGGGCTATTGGCATCGATACG
1 AGATTACGTGTAAGACCATAGTTGGGATA-TGGCATCGATAAG
* *
52183681 AGATTACATGTAAGACCATA-TCTAGGATATGGCAT
1 AGATTACGTGTAAGACCATAGT-TGGGATATGGCAT
52183716 TGGTATTGTA
Statistics
Matches: 100, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
42 65 0.65
43 35 0.35
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (42 bp):
AGATTACGTGTAAGACCATAGTTGGGATATGGCATCGATAAG
Found at i:52190554 original size:18 final size:19
Alignment explanation
Indices: 52190519--52190556 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
52190509 AAACTATTCA
52190519 AATAACCTATGGCAAATCC
1 AATAACCTATGGCAAATCC
*
52190538 AATAACCTAT-TCAAATCC
1 AATAACCTATGGCAAATCC
52190556 A
1 A
52190557 TACCAAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.45, C:0.26, G:0.05, T:0.24
Consensus pattern (19 bp):
AATAACCTATGGCAAATCC
Found at i:52191406 original size:42 final size:43
Alignment explanation
Indices: 52191325--52191426 Score: 127
Period size: 42 Copynumber: 2.4 Consensus size: 43
52191315 TCCCGGACGT
* * ** *
52191325 GGTCTTACATGTAATTCAGTATCGATGCCTCTGTTCCAAACAG
1 GGTCTTACACGTAAATCAGTATCGATGCCGATGTCCCAAACAG
*
52191368 GGTCTTACACG-AAATCAG-ATACGATGCCGATGTCCCAAACAT
1 GGTCTTACACGTAAATCAGTAT-CGATGCCGATGTCCCAAACAG
52191410 GGTCTTACACGTAAATC
1 GGTCTTACACGTAAATC
52191427 TCAAATCGAG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
41 2 0.04
42 34 0.67
43 15 0.29
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (43 bp):
GGTCTTACACGTAAATCAGTATCGATGCCGATGTCCCAAACAG
Found at i:52198293 original size:64 final size:65
Alignment explanation
Indices: 52198212--52198383 Score: 179
Period size: 67 Copynumber: 2.7 Consensus size: 65
52198202 AGACATTATG
* *
52198212 ATGTAGCTAGGTCGCATGGGTGATAC-GATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACAGATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * * *
52198276 ATGTAGCTAGGTCGCATGCGTGGCTCCAGGTGAAGGACACCGTGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACAGATG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
52198341 AA
64 AA
* * * * *
52198343 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT
1 ATGTAGCTAGGTCGCATGGGTGATACAGATGTGTACACCATGT
52198384 GTGCAAGAGA
Statistics
Matches: 85, Mismatches: 20, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
63 8 0.09
64 21 0.25
65 7 0.08
66 18 0.21
67 31 0.36
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.23
Consensus pattern (65 bp):
ATGTAGCTAGGTCGCATGGGTGATACAGATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:52202687 original size:42 final size:43
Alignment explanation
Indices: 52202604--52202705 Score: 127
Period size: 42 Copynumber: 2.4 Consensus size: 43
52202594 TCTCAGACGT
* * *
52202604 GGTCTTACATGTAATTCAGTATCGATACCACTGTCCCAGACAG
1 GGTCTTACACGTAAATCAGTATCGATACCAATGTCCCAGACAG
* *
52202647 GGTCTTACACG-AAATCAG-ATACGATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAAATCAGTAT-CGATACCAATGTCCCAGACAG
*
52202689 GGTCTTACATGTAAATC
1 GGTCTTACACGTAAATC
52202706 TCAAATCGAG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
41 2 0.04
42 34 0.67
43 15 0.29
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGTAAATCAGTATCGATACCAATGTCCCAGACAG
Found at i:52208725 original size:47 final size:47
Alignment explanation
Indices: 52208613--52209230 Score: 995
Period size: 47 Copynumber: 13.1 Consensus size: 47
52208603 GAAATGATAG
*
52208613 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
52208662 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
52208709 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
52208756 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
52208803 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
52208852 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
52208899 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
52208946 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
52208993 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
52209040 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
52209087 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
52209134 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
** * * * * * * * *
52209181 -CGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
52209227 TAAG
1 TAAG
52209231 TCCCGAAGGG
Statistics
Matches: 545, Mismatches: 21, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
46 37 0.07
47 426 0.78
49 82 0.15
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:52208936 original size:190 final size:190
Alignment explanation
Indices: 52208613--52209180 Score: 1059
Period size: 190 Copynumber: 3.0 Consensus size: 190
52208603 GAAATGATAG
*
52208613 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
52208678 ATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
52208743 TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
131 TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
52208803 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
52208868 ATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
*
52208933 TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
131 TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
52208993 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* * *
52209056 ATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
* *
52209121 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
131 TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
52209181 CGGGCCGAGT
Statistics
Matches: 370, Mismatches: 8, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
188 146 0.39
190 224 0.61
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (190 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
TGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:52209405 original size:37 final size:37
Alignment explanation
Indices: 52209349--52209427 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
52209339 CCGAGCTCTA
* *
52209349 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
52209386 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
52209423 AAGAC
1 AAGAC
52209428 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:52225362 original size:43 final size:43
Alignment explanation
Indices: 52225301--52225386 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
52225291 CACAAGAATG
*
52225301 GTTGTACACATTTAAGCTAACGGAGCTTTTCTTTCAAATTCAT
1 GTTGTACACATTTAAGCTAACGAAGCTTTTCTTTCAAATTCAT
*
52225344 GTTGTACACATTTCAGCTAACGAAGCTTTTCTTTCAAATTCAT
1 GTTGTACACATTTAAGCTAACGAAGCTTTTCTTTCAAATTCAT
52225387 ACAATGAGGC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.40
Consensus pattern (43 bp):
GTTGTACACATTTAAGCTAACGAAGCTTTTCTTTCAAATTCAT
Found at i:52233453 original size:40 final size:40
Alignment explanation
Indices: 52233370--52233576 Score: 233
Period size: 40 Copynumber: 5.2 Consensus size: 40
52233360 CGGATGATAA
* * * **
52233370 CCGGGCTAAGTCCCG-AGAGTATTTGAGCTAGTGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGTTACTATA-T
* * *
52233410 CCGGGATAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
52233450 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
52233489 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * **
52233529 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
52233569 CC-GGCTAA
1 CCGGGCTAA
52233577 ACTCCAAAGG
Statistics
Matches: 145, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 43 0.30
40 99 0.68
41 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:52233575 original size:79 final size:80
Alignment explanation
Indices: 52233366--52233576 Score: 277
Period size: 79 Copynumber: 2.7 Consensus size: 80
52233356 TGTTCGGATG
* *
52233366 ATAACCGGGCTAAGTCCCG-AGAGTATTTGAGCTAGTGGCTA-ATTCCGGGATAAGTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGAGCTAGTGGCTATA-TCCGGGCTAAGTCCCGAAGG
*
52233429 CATTCGTGCGAGCTACT
64 CATTCGTGCAAGCTACT
* * * ***
52233446 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGGCTAAGTCCCGAAGGCA
* *
52233510 TTTGTGCAAGTTACT
66 TTCGTGCAAGCTACT
52233525 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGGCTAA
52233577 ACTCCAAAGG
Statistics
Matches: 111, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
79 75 0.68
80 33 0.30
81 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGGCTAAGTCCCGAAGGCA
TTCGTGCAAGCTACT
Found at i:52241522 original size:39 final size:40
Alignment explanation
Indices: 52241429--52241634 Score: 251
Period size: 39 Copynumber: 5.2 Consensus size: 40
52241419 CGGATGATAA
* * **
52241429 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGTTACTATA-T
*
52241469 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
52241508 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
52241547 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * **
52241587 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
52241627 CC-GGCTAA
1 CCGGGCTAA
52241635 ACTCCGAAGG
Statistics
Matches: 148, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
39 75 0.51
40 71 0.48
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:52241644 original size:79 final size:79
Alignment explanation
Indices: 52241425--52241634 Score: 293
Period size: 79 Copynumber: 2.7 Consensus size: 79
52241415 TGTTCGGATG
52241425 ATAACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATTCCGGGCTAAGTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGAGCTAGTGGCTATA-TCCGGGCTAAGTCCCGAAGG
*
52241488 CATTGTGCGAGCTACT
64 CATTGTGCAAGCTACT
* * * ***
52241504 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGGCTAAGTCCCGAAGGCA
*
52241568 TTTGTGCAAGTTACT
66 -TTGTGCAAGCTACT
52241583 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGGCTAA
52241635 ACTCCGAAGG
Statistics
Matches: 113, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
78 21 0.19
79 87 0.77
80 5 0.04
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGGCTAAGTCCCGAAGGCA
TTGTGCAAGCTACT
Found at i:52248290 original size:20 final size:20
Alignment explanation
Indices: 52248265--52248303 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
52248255 TTAAAAAGAT
* *
52248265 AAATAAAGATAAAAGTAAAC
1 AAATAAAAATAAAAATAAAC
52248285 AAATAAAAATAAAAATAAA
1 AAATAAAAATAAAAATAAA
52248304 GTAAAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (20 bp):
AAATAAAAATAAAAATAAAC
Found at i:52256065 original size:28 final size:28
Alignment explanation
Indices: 52256033--52256094 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
52256023 TTAATATACT
52256033 CAAATAGTCAGGTGAGTATTCGGCCAAG
1 CAAATAGTCAGGTGAGTATTCGGCCAAG
52256061 CAAATAGTCAGGTGAGTATTCGGCCAAG
1 CAAATAGTCAGGTGAGTATTCGGCCAAG
*
52256089 TAAATA
1 CAAATA
52256095 AAAATGCAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (28 bp):
CAAATAGTCAGGTGAGTATTCGGCCAAG
Found at i:52256984 original size:42 final size:42
Alignment explanation
Indices: 52256937--52257061 Score: 196
Period size: 42 Copynumber: 3.0 Consensus size: 42
52256927 ATATATTATT
52256937 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATA
* *
52256979 TATCCGAGTTAAATCCCGTAGGCTTCGTGCTGGTAATATATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATA
* * * *
52257021 TATACGGGTTAAATCCCGCAGGCTTAGTGCCGGTACTATAT
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATAT
52257062 CCGGGCTTAA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (42 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATA
Found at i:52259191 original size:17 final size:17
Alignment explanation
Indices: 52259169--52259207 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
52259159 TTTGAAAAGG
52259169 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
*
52259186 AAAACAATTGAATCTTA
1 AAAACAAATGAATCTTA
52259203 AAAAC
1 AAAAC
52259208 TTAATGAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.59, C:0.13, G:0.05, T:0.23
Consensus pattern (17 bp):
AAAACAAATGAATCTTA
Found at i:52270810 original size:20 final size:19
Alignment explanation
Indices: 52270785--52270825 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
52270775 ACTAAAATCT
52270785 AACCTAAAA-AGAAAATAGAA
1 AACCTAAAATA-AAAAT-GAA
52270805 AACCTAAAATAAAAATGAA
1 AACCTAAAATAAAAATGAA
52270824 AA
1 AA
52270826 GAAAAACCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 14 0.70
21 1 0.05
ACGTcount: A:0.71, C:0.10, G:0.07, T:0.12
Consensus pattern (19 bp):
AACCTAAAATAAAAATGAA
Found at i:52271125 original size:21 final size:21
Alignment explanation
Indices: 52271099--52271154 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
52271089 TAGGGTCTCG
*
52271099 GTATCGCGATACCCATCCTCA
1 GTATCGCGATACCAATCCTCA
*
52271120 GTATCGCGATACCAATCCTTA
1 GTATCGCGATACCAATCCTCA
*
52271141 GTATCGCAATACCA
1 GTATCGCGATACCA
52271155 TTGTAGGTGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.25
Consensus pattern (21 bp):
GTATCGCGATACCAATCCTCA
Found at i:52272732 original size:42 final size:41
Alignment explanation
Indices: 52272669--52272789 Score: 188
Period size: 42 Copynumber: 2.9 Consensus size: 41
52272659 TTAAGCCCGG
* * *
52272669 ATATAGTACCGGCACTAAGCCTGCGGGATTTAACCCGTATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCG-ATAT
*
52272711 ATATATTACCAGCACGAAGCCTACGGGATTTAACCCAGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCC-GATAT
52272753 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCG
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCG
52272790 GATAAATAAT
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
41 1 0.01
42 71 0.97
43 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (41 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGATAT
Found at i:52273676 original size:28 final size:28
Alignment explanation
Indices: 52273636--52273697 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
52273626 ATTGCATTTT
*
52273636 TATTTACTTGGCCGAATACTCACCTGAC
1 TATTTGCTTGGCCGAATACTCACCTGAC
52273664 TATTTGCTTGGCCGAATACTCACCTGAC
1 TATTTGCTTGGCCGAATACTCACCTGAC
52273692 TATTTG
1 TATTTG
52273698 AGTATATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (28 bp):
TATTTGCTTGGCCGAATACTCACCTGAC
Found at i:52276852 original size:46 final size:46
Alignment explanation
Indices: 52276785--52276959 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
52276775 TTTGGGCATC
*
52276785 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGAT
*** * * * *
52276831 CGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-AC-TAGGCAT
1 CGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAATG-AT
* * **
52276877 CCAAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCC
1 CGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGAT
* *
52276924 CGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGGA
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
52276960 CGGGTTACAT
Statistics
Matches: 101, Mismatches: 23, Indels: 10
0.75 0.17 0.07
Matches are distributed among these distances:
45 2 0.02
46 67 0.66
47 30 0.30
48 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGAT
Found at i:52276938 original size:93 final size:93
Alignment explanation
Indices: 52276779--52276951 Score: 294
Period size: 93 Copynumber: 1.9 Consensus size: 93
52276769 GGGATATTTG
**
52276779 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
52276844 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
52276872 GGCATCC-AAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGA
1 GGCATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGA
52276936 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
52276952 CTTATGGACG
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:52279279 original size:40 final size:40
Alignment explanation
Indices: 52279207--52279411 Score: 281
Period size: 40 Copynumber: 5.2 Consensus size: 40
52279197 CGGATGATAA
* *
52279207 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATT-CGGGCTAAGTCC
52279247 CGAAGGCATTTGTGCGAGTTACTATATTCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATTCGGGCTAAGTCC
* *
52279287 CGAAGGCATTTGTGCGAATTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATTCGGGCTAAGTCC
* *
52279327 CGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATTCGGGCTAAGTCC
* * * *
52279367 CGAAGGCATTTGAGCGAG-TAGCTATA-TCCGGTTAAATCC
1 CGAAGGCATTTGTGCGAGTTA-CTATATTCGGGCTAAGTCC
52279406 CGAAGG
1 CGAAGG
52279412 TACTTGGTTT
Statistics
Matches: 152, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 17 0.11
40 132 0.87
41 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATTCGGGCTAAGTCC
Found at i:52286888 original size:42 final size:42
Alignment explanation
Indices: 52286826--52286956 Score: 208
Period size: 42 Copynumber: 3.1 Consensus size: 42
52286816 TTAAGCCCGG
* *
52286826 ATATAGTACCAGCACTAAGCCTGCGGGATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
* *
52286868 ATATATTACCAACACGAAGCCTACGGGATTTAACCCGGATATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG--ATAT
52286912 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
52286954 ATA
1 ATA
52286957 ATATATCGAG
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
42 41 0.51
44 40 0.49
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (42 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
Found at i:52286928 original size:44 final size:44
Alignment explanation
Indices: 52286826--52286962 Score: 215
Period size: 44 Copynumber: 3.1 Consensus size: 44
52286816 TTAAGCCCGG
* *
52286826 ATATAGTACCAGCACTAAGCCTGCGGGATTTAACCCGG--ATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAT
* *
52286868 ATATATTACCAACACGAAGCCTACGGGATTTAACCCGGATATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAT
52286912 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAT
52286956 AATATAT
1 -ATATAT
52286963 CGAGTGCTAA
Statistics
Matches: 86, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
42 34 0.40
44 46 0.53
45 6 0.07
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (44 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAT
Found at i:52289253 original size:24 final size:24
Alignment explanation
Indices: 52289213--52289260 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
52289203 TTGTAACAAG
*
52289213 CTTCATCTTCCTCCTTCTCCTCCT
1 CTTCATCTTCCTCCTTCTACTCCT
*
52289237 CTTCATTCTT-CTTCTTCTACTCCT
1 CTTCA-TCTTCCTCCTTCTACTCCT
52289261 TAGCTTCCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.06, C:0.44, G:0.00, T:0.50
Consensus pattern (24 bp):
CTTCATCTTCCTCCTTCTACTCCT
Found at i:52289658 original size:3 final size:3
Alignment explanation
Indices: 52289650--52289681 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
52289640 CAATGAGATA
*
52289650 ATG ATG ATG ATG ATG ATG ATG ATA ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
52289682 AATTATTCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:52289807 original size:15 final size:15
Alignment explanation
Indices: 52289787--52289839 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
52289777 TTAACCTATA
52289787 ATAATTACTCATTTC
1 ATAATTACTCATTTC
* * *
52289802 ATAATTA-TAACCTATA
1 ATAATTACT--CATTTC
52289818 ATAATTACTCATTTC
1 ATAATTACTCATTTC
52289833 ATAATTA
1 ATAATTA
52289840 TCTAAATTGG
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
14 1 0.03
15 17 0.59
16 10 0.34
17 1 0.03
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.43
Consensus pattern (15 bp):
ATAATTACTCATTTC
Found at i:52289816 original size:31 final size:31
Alignment explanation
Indices: 52289778--52289840 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
52289768 CAACAATAGT
52289778 TAACCTATAATAATTACTCATTTCATAATTA
1 TAACCTATAATAATTACTCATTTCATAATTA
52289809 TAACCTATAATAATTACTCATTTCATAATTA
1 TAACCTATAATAATTACTCATTTCATAATTA
52289840 T
1 T
52289841 CTAAATTGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (31 bp):
TAACCTATAATAATTACTCATTTCATAATTA
Found at i:52292837 original size:39 final size:39
Alignment explanation
Indices: 52292783--52292922 Score: 194
Period size: 39 Copynumber: 3.5 Consensus size: 39
52292773 TAATGGAGAA
*
52292783 TTATATCCGGGCTAAGTTCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
52292822 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
52292861 TTATATCCGGGCTAAAGTCCCGCAA-GC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCG-AAGGCATTCGTGCTGGTG
*
52292900 TTATATCCCGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
52292923 CATGCTTTAT
Statistics
Matches: 94, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
39 72 0.77
40 20 0.21
41 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:52292917 original size:40 final size:39
Alignment explanation
Indices: 52292783--52292939 Score: 169
Period size: 39 Copynumber: 4.0 Consensus size: 39
52292773 TAATGGAGAA
* *
52292783 TTATATCCGGGCT-AAGTTCCG-AAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAAGTCCCGCAA-GC-TTTGTGCTGGTG
*
52292822 TTATATCCGGGCT-AAGTCCCG-AAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAAGTCCCGCAA-GC-TTTGTGCTGGTG
*
52292861 TTATATCCGGGCTAAAGTCCCGCAAGCTTTGTGCTGGTA
1 TTATATCCGGGCTAAAGTCCCGCAAGCTTTGTGCTGGTG
* * * *
52292900 TTATATCCCGGCTTAAAGTCCCGCATGCTTTATGGTGGTG
1 TTATATCCGGGC-TAAAGTCCCGCAAGCTTTGTGCTGGTG
52292940 ATTGGATTTG
Statistics
Matches: 107, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 72 0.67
40 33 0.31
41 2 0.02
ACGTcount: A:0.18, C:0.22, G:0.28, T:0.31
Consensus pattern (39 bp):
TTATATCCGGGCTAAAGTCCCGCAAGCTTTGTGCTGGTG
Found at i:52297757 original size:19 final size:20
Alignment explanation
Indices: 52297733--52297773 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
52297723 GAATTTAGGC
*
52297733 AAATATTGAGTA-AAAATTG
1 AAATATTGAATATAAAATTG
*
52297752 AAATATTTAATATAAAATTG
1 AAATATTGAATATAAAATTG
52297772 AA
1 AA
52297774 TTGTGTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (20 bp):
AAATATTGAATATAAAATTG
Found at i:52300581 original size:40 final size:40
Alignment explanation
Indices: 52300526--52300707 Score: 278
Period size: 40 Copynumber: 4.6 Consensus size: 40
52300516 TATTCGGATG
* *
52300526 ATATCCGGGCTAAGTCCCGAAAGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
*
52300566 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* *
52300606 ACATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
*
52300646 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACT
*
52300686 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
52300708 TACTTGGGTT
Statistics
Matches: 132, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 14 0.11
40 116 0.88
41 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:52315496 original size:40 final size:44
Alignment explanation
Indices: 52315440--52315538 Score: 134
Period size: 40 Copynumber: 2.3 Consensus size: 44
52315430 TTGGAAGCAT
**
52315440 TGGCACTAAGTGTGCGATTTAAAC-TAGCTTCGGCT-ACT-AAA
1 TGGCACTAAGTGTGCGATACAAACTTAGCTTCGGCTAACTGAAA
* *
52315481 -GGCACTAAGTGTGCGATACCAACTTAGTTTCGGCTAACTGAAA
1 TGGCACTAAGTGTGCGATACAAACTTAGCTTCGGCTAACTGAAA
52315524 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
52315539 AGAATCATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
40 20 0.40
41 10 0.20
42 3 0.06
43 3 0.06
44 14 0.28
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
TGGCACTAAGTGTGCGATACAAACTTAGCTTCGGCTAACTGAAA
Found at i:52317100 original size:30 final size:31
Alignment explanation
Indices: 52317064--52317132 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
52317054 GGTTTCATTT
* *
52317064 TAGTCACTCAAC-TTTTTAAAAA-TAACAAAA
1 TAGTCACT-AACGTTATAAAAAAGTAACAAAA
*
52317094 TAGTCACTAACGTTATAAAAAAGTGACAAAA
1 TAGTCACTAACGTTATAAAAAAGTAACAAAA
*
52317125 CAGTCACT
1 TAGTCACT
52317133 GATTAACAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 3 0.09
30 16 0.48
31 14 0.42
ACGTcount: A:0.48, C:0.17, G:0.09, T:0.26
Consensus pattern (31 bp):
TAGTCACTAACGTTATAAAAAAGTAACAAAA
Found at i:52317193 original size:21 final size:21
Alignment explanation
Indices: 52317167--52317207 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
52317157 TAACAAGACC
52317167 GCTGATGTGGCAAGTTAACTA
1 GCTGATGTGGCAAGTTAACTA
*
52317188 GCTGATGTGGCCAGTTAACT
1 GCTGATGTGGCAAGTTAACT
52317208 TGCCACGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (21 bp):
GCTGATGTGGCAAGTTAACTA
Found at i:52320496 original size:26 final size:26
Alignment explanation
Indices: 52320466--52320517 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
52320456 AAAGATACGC
52320466 ATTGCAGTGGCTAACAAAATTAGGTT
1 ATTGCAGTGGCTAACAAAATTAGGTT
52320492 ATTGCAGTGGCTAACAAAATTAGGTT
1 ATTGCAGTGGCTAACAAAATTAGGTT
52320518 TACTTACAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.31
Consensus pattern (26 bp):
ATTGCAGTGGCTAACAAAATTAGGTT
Found at i:52327554 original size:39 final size:40
Alignment explanation
Indices: 52327389--52327613 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
52327379 GCTACTCGTT
* *
52327389 CAAATGCCTTCGGGACATATCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
52327429 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
52327469 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * * *
52327509 CCAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
52327548 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
52327589 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
52327614 CATCATTCGA
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 117 0.72
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:52328810 original size:56 final size:56
Alignment explanation
Indices: 52328743--52328862 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
52328733 TATTAGTTTA
52328743 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
52328799 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
52328855 TTGCCCAT
1 TTGCCCAT
52328863 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:52329717 original size:80 final size:79
Alignment explanation
Indices: 52329571--52329831 Score: 300
Period size: 77 Copynumber: 3.4 Consensus size: 79
52329561 CGGCTAGAAG
* * * *
52329571 CAATCCCGAAACACA-TTTTATGTTACTCGTTTTT-TAAATAAAACAACTTTGGAATAAAAGCGT
1 CAATCCCGAAACACATTTTTATTTTACTCGTTTTTGAAAATAAAACAAATTTGGAATAAAATCGT
52329634 TGAACGGCGGGAAT
66 TGAACGGCGGGAAT
* *
52329648 CAATCCCGAAACAAATTTTTTATTTTACTCGTTTTTGAAAATAAAACAAATTTGGAATAAAATCA
1 CAATCCCGAAACACA-TTTTTATTTTACTCGTTTTTGAAAATAAAACAAATTTGGAATAAAATCG
* **
52329713 TTGAATGATGGGAAT
65 TTGAACGGCGGGAAT
* * * * * * *
52329728 CAATTCCGAAAC-GATTTTTA-CTTACTCGTTTTGGGAAATAAGACAATTTTGGAATAAAATCGT
1 CAATCCCGAAACACATTTTTATTTTACTCGTTTTTGAAAATAAAACAAATTTGGAATAAAATCGT
*
52329791 TGAACGGCGAGAAT
66 TGAACGGCGGGAAT
*
52329805 CAGTCCC-AAA-ACATTTTTTATTTTACT
1 CAATCCCGAAACACA-TTTTTATTTTACT
52329832 TTTAATTTTC
Statistics
Matches: 153, Mismatches: 25, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
76 4 0.03
77 72 0.47
78 11 0.07
79 19 0.12
80 47 0.31
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (79 bp):
CAATCCCGAAACACATTTTTATTTTACTCGTTTTTGAAAATAAAACAAATTTGGAATAAAATCGT
TGAACGGCGGGAAT
Found at i:52330202 original size:17 final size:17
Alignment explanation
Indices: 52330180--52330218 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
52330170 AGATTGTTAG
52330180 ACAAAACACGTTAGCGA
1 ACAAAACACGTTAGCGA
52330197 ACAAAACACGTTAGCGA
1 ACAAAACACGTTAGCGA
52330214 A-AAAA
1 ACAAAA
52330219 ATAATTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.54, C:0.21, G:0.15, T:0.10
Consensus pattern (17 bp):
ACAAAACACGTTAGCGA
Found at i:52331543 original size:85 final size:85
Alignment explanation
Indices: 52331395--52331563 Score: 302
Period size: 85 Copynumber: 2.0 Consensus size: 85
52331385 AGCATAATAC
* *
52331395 TTTTACTTTTCCCTAATATGTGACCTATATTTAATGATATTAGAAAAGAGCGCATATTTTTCATA
1 TTTTACTTTTCCCTAATATGTGACCTATATTAAATGATATTAGAAAAGAGAGCATATTTTTCATA
52331460 GAATATATTAATGATGTGTT
66 GAATATATTAATGATGTGTT
* *
52331480 TTTTTCTTTTCCCTAATATGTGAGCTATATTAAATGATATTAGAAAAGAGAGCATATTTTTCATA
1 TTTTACTTTTCCCTAATATGTGACCTATATTAAATGATATTAGAAAAGAGAGCATATTTTTCATA
52331545 GAATATATTAATGATGTGT
66 GAATATATTAATGATGTGT
52331564 CCTCAAAGAA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 80 1.00
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (85 bp):
TTTTACTTTTCCCTAATATGTGACCTATATTAAATGATATTAGAAAAGAGAGCATATTTTTCATA
GAATATATTAATGATGTGTT
Found at i:52332957 original size:17 final size:17
Alignment explanation
Indices: 52332936--52332975 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
52332926 AAATTTAGGG
* *
52332936 AAAAAAAAAGAATGTTGT
1 AAAAAAATA-AATGTTCT
52332954 AAAAAAATAAATGTTCT
1 AAAAAAATAAATGTTCT
52332971 AAAAA
1 AAAAA
52332976 TCTTAGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.65, C:0.03, G:0.10, T:0.23
Consensus pattern (17 bp):
AAAAAAATAAATGTTCT
Found at i:52334565 original size:18 final size:18
Alignment explanation
Indices: 52334539--52334609 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 18
52334529 AATTGATCGG
* *
52334539 TTATCCAGTAATAGTCAA
1 TTATTCAGTAAAAGTCAA
*
52334557 TTATTCAGTAAAAATCAA
1 TTATTCAGTAAAAGTCAA
* * * *
52334575 ATATACAGTAACAATTAAA
1 TTATTCAGTAA-AAGTCAA
*
52334594 TTATTCAGTAACAGTC
1 TTATTCAGTAAAAGTC
52334610 GATTTTTCCA
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
18 26 0.65
19 14 0.35
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.32
Consensus pattern (18 bp):
TTATTCAGTAAAAGTCAA
Found at i:52334604 original size:19 final size:19
Alignment explanation
Indices: 52334555--52334606 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 19
52334545 AGTAATAGTC
*
52334555 AATTATTCAGTAAAAATCA
1 AATTATTCAGTAACAATCA
* *
52334574 AA-TATACAGTAACAATTA
1 AATTATTCAGTAACAATCA
52334592 AATTATTCAGTAACA
1 AATTATTCAGTAACA
52334607 GTCGATTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 15 0.54
19 13 0.46
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.31
Consensus pattern (19 bp):
AATTATTCAGTAACAATCA
Found at i:52335898 original size:16 final size:16
Alignment explanation
Indices: 52335877--52335915 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
52335867 AATTTTCCCC
*
52335877 TTTTTCCTTCTTTCTT
1 TTTTTCCTTCCTTCTT
52335893 TTTTTCCTTCCTTCTT
1 TTTTTCCTTCCTTCTT
*
52335909 TCTTTCC
1 TTTTTCC
52335916 CCTGCTCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTCCTTCCTTCTT
Found at i:52342671 original size:20 final size:20
Alignment explanation
Indices: 52342648--52342698 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
52342638 ATTATTGTGT
*
52342648 TAATTTAATTTTAATTATTA
1 TAATTTAATTTTAAATATTA
*
52342668 TAA-TTAAATTTAAATATTA
1 TAATTTAATTTTAAATATTA
52342687 T-ATTTCAATTTT
1 TAATTT-AATTTT
52342699 TTAAGCCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 1 0.04
19 17 0.65
20 8 0.31
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TAATTTAATTTTAAATATTA
Found at i:52343242 original size:9 final size:9
Alignment explanation
Indices: 52343230--52343257 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
52343220 ATTAAATTAA
52343230 TTTTAAATT
1 TTTTAAATT
52343239 TTTTAAATT
1 TTTTAAATT
52343248 TTTTAAATT
1 TTTTAAATT
52343257 T
1 T
52343258 ATAATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTAAATT
Found at i:52344240 original size:15 final size:15
Alignment explanation
Indices: 52344220--52344267 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
52344210 TCAAAGATGG
52344220 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
52344235 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
52344249 GTTTATGGATATAAA
1 GTTTATGGATATGAA
52344264 GTTT
1 GTTT
52344268 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:52344254 original size:14 final size:14
Alignment explanation
Indices: 52344214--52344257 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
52344204 AAGGATTCAA
52344214 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
52344228 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
52344243 AGATGGGTTTATGG
1 AGATGGGTTTATGG
52344257 A
1 A
52344258 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:52344283 original size:29 final size:29
Alignment explanation
Indices: 52344214--52344273 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
52344204 AAGGATTCAA
*
52344214 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
52344243 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
52344272 AG
1 AG
52344274 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:52344747 original size:12 final size:11
Alignment explanation
Indices: 52344732--52344773 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
52344722 TAAAAAAACG
52344732 AAAAAAATTCA
1 AAAAAAATTCA
52344743 AAAAAAA--CGA
1 AAAAAAATTC-A
52344753 AAAAAAATTCA
1 AAAAAAATTCA
52344764 AACAAAAATT
1 AA-AAAAATT
52344774 TTGAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
9 1 0.04
10 8 0.30
11 10 0.37
12 8 0.30
ACGTcount: A:0.74, C:0.10, G:0.02, T:0.14
Consensus pattern (11 bp):
AAAAAAATTCA
Found at i:52344749 original size:21 final size:21
Alignment explanation
Indices: 52344723--52344771 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 21
52344713 AAGTAAGTTT
52344723 AAAAAAACG-AAAAAAATTCA
1 AAAAAAACGAAAAAAAATTCA
52344743 AAAAAAACGAAAAAAAATTCA
1 AAAAAAACGAAAAAAAATTCA
52344764 AACAAAAA
1 AA-AAAAA
52344772 TTTTGAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 9 0.33
21 13 0.48
22 5 0.19
ACGTcount: A:0.78, C:0.10, G:0.04, T:0.08
Consensus pattern (21 bp):
AAAAAAACGAAAAAAAATTCA
Found at i:52348466 original size:14 final size:14
Alignment explanation
Indices: 52348447--52348491 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
52348437 AACTCATCTT
*
52348447 AGTTTAATTAAATG
1 AGTTTAATTTAATG
52348461 AGTTT-ATTTAATG
1 AGTTTAATTTAATG
*
52348474 AATTTAATTTAATG
1 AGTTTAATTTAATG
52348488 AGTT
1 AGTT
52348492 GCTTCTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:52351315 original size:20 final size:20
Alignment explanation
Indices: 52351287--52351337 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
52351277 TTTCTTTTAC
52351287 TATTATTTATTATCATTATTA
1 TATT-TTTATTATCATTATTA
* * *
52351308 TATTTTTACTATTATTGTTA
1 TATTTTTATTATCATTATTA
*
52351328 TTTTTTTATT
1 TATTTTTATT
52351338 TTTATTACTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (20 bp):
TATTTTTATTATCATTATTA
Found at i:52351551 original size:3 final size:3
Alignment explanation
Indices: 52351543--52351621 Score: 70
Period size: 3 Copynumber: 26.3 Consensus size: 3
52351533 ACTTTAGATT
* * * * * *
52351543 TTA TTA TTA TTA TTA TTG TTA TTT TTA TTT TTA TTA CTA CTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
52351591 TTT TTA TTA TTA ATA TTA TTA -TA TTTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA T
52351622 AATTTACTGT
Statistics
Matches: 60, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
2 2 0.03
3 56 0.93
4 2 0.03
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:52351576 original size:21 final size:21
Alignment explanation
Indices: 52351547--52351621 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 21
52351537 TAGATTTTAT
* ** *
52351547 TATTATTATTATTGTTATTTT
1 TATTTTTATTATTAATATTAT
* * *
52351568 TATTTTTATTACTACTATCAT
1 TATTTTTATTATTAATATTAT
52351589 TATTTTTATTATTAATATTAT
1 TATTTTTATTATTAATATTAT
*
52351610 TATATTTATTAT
1 TATTTTTATTAT
52351622 AATTTACTGT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (21 bp):
TATTTTTATTATTAATATTAT
Found at i:52358541 original size:20 final size:21
Alignment explanation
Indices: 52358513--52358551 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
52358503 CAAAATAAGC
*
52358513 AAACAAGCT-TATTGAGCTGG
1 AAACAAGCTGAATTGAGCTGG
*
52358533 AAACGAGCTGAATTGAGCT
1 AAACAAGCTGAATTGAGCT
52358552 CAACGAGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (21 bp):
AAACAAGCTGAATTGAGCTGG
Found at i:52361156 original size:17 final size:18
Alignment explanation
Indices: 52361136--52361182 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
52361126 AAAAACTCGT
52361136 AAAAACCTTAAAC-CACA
1 AAAAACCTTAAACACACA
* * * *
52361153 AAAATCCTTTAACATATA
1 AAAAACCTTAAACACACA
52361171 AAAAACCTTAAA
1 AAAAACCTTAAA
52361183 AACTAAAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.57, C:0.21, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAAACCTTAAACACACA
Found at i:52362524 original size:25 final size:24
Alignment explanation
Indices: 52362475--52362525 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 24
52362465 TAATTAAATA
52362475 TATTATATTATATTGTTATACTTTC
1 TATTATATTATA-TGTTATACTTTC
*
52362500 TATTGATATTATA-GTTAGTATTTTC
1 TATT-ATATTATATGTTA-TACTTTC
52362525 T
1 T
52362526 GTTTTTAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 4 0.17
25 11 0.48
26 8 0.35
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.59
Consensus pattern (24 bp):
TATTATATTATATGTTATACTTTC
Done.