Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 192 of 253
Found at i:62923125 original size:22 final size:22
Alignment explanation
Indices: 62923100--62923144 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
62923090 TTACCTGAGA
62923100 AAGACAAATTTCTGAATACAAG
1 AAGACAAATTTCTGAATACAAG
*
62923122 AAGACAAATTTCTGAATGCAAG
1 AAGACAAATTTCTGAATACAAG
62923144 A
1 A
62923145 CTGAACAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.49, C:0.13, G:0.16, T:0.22
Consensus pattern (22 bp):
AAGACAAATTTCTGAATACAAG
Found at i:62926791 original size:13 final size:13
Alignment explanation
Indices: 62926773--62926797 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62926763 GATTGTGTAA
62926773 AAATTTTATTATG
1 AAATTTTATTATG
62926786 AAATTTTATTAT
1 AAATTTTATTAT
62926798 TTGAGTGCTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
AAATTTTATTATG
Found at i:62930925 original size:18 final size:18
Alignment explanation
Indices: 62930891--62930925 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62930881 TTTGGGTGAA
*
62930891 ACGGGCATGAGGGCCCAC
1 ACGGGCATGAGGACCCAC
*
62930909 ACGGGCATGTGGACCCA
1 ACGGGCATGAGGACCCA
62930926 AATTTCAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.31, G:0.37, T:0.09
Consensus pattern (18 bp):
ACGGGCATGAGGACCCAC
Found at i:62933766 original size:22 final size:22
Alignment explanation
Indices: 62933738--62933785 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
62933728 TTATATCTTC
*
62933738 TCTCAAGACATAAGAC-CATTTG
1 TCTCAAGACAT-ACACTCATTTG
*
62933760 TCTCAAGATATACACTCATTTG
1 TCTCAAGACATACACTCATTTG
62933782 TCTC
1 TCTC
62933786 GAGATAGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.33
Consensus pattern (22 bp):
TCTCAAGACATACACTCATTTG
Found at i:62934368 original size:10 final size:10
Alignment explanation
Indices: 62934353--62934380 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
62934343 AAATTATTAA
62934353 TAAAATATGT
1 TAAAATATGT
62934363 TAAAATATGT
1 TAAAATATGT
62934373 TAAAATAT
1 TAAAATAT
62934381 TTTTAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (10 bp):
TAAAATATGT
Found at i:62934411 original size:21 final size:22
Alignment explanation
Indices: 62934385--62934434 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
62934375 AAATATTTTT
62934385 AAAAATAAAAAT-TATAAATAA
1 AAAAATAAAAATATATAAATAA
* *
62934406 AAAAATTCAAAATATATATATAA
1 AAAAA-TAAAAATATATAAATAA
62934429 AAAAAT
1 AAAAAT
62934435 CTAAATGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.20
22 7 0.28
23 13 0.52
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAAATAAAAATATATAAATAA
Found at i:62934440 original size:22 final size:22
Alignment explanation
Indices: 62934392--62934434 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
62934382 TTTAAAAATA
62934392 AAAATTATAAATAAAAAAATTC
1 AAAATTATAAATAAAAAAATTC
*
62934414 AAAATATATATATAAAAAAAT
1 AAAAT-TATAAATAAAAAAAT
62934435 CTAAATGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (22 bp):
AAAATTATAAATAAAAAAATTC
Found at i:62937275 original size:27 final size:28
Alignment explanation
Indices: 62937240--62937294 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
62937230 CATAAGTTTA
* *
62937240 AGAAAAT-AAAAATAAAACAACTAAAAC
1 AGAAAATAAAAAATAAAAAAAATAAAAC
*
62937267 AGAAGATAAAAAATAAAAAAAATAAAAC
1 AGAAAATAAAAAATAAAAAAAATAAAAC
62937295 CAATGATCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.76, C:0.07, G:0.05, T:0.11
Consensus pattern (28 bp):
AGAAAATAAAAAATAAAAAAAATAAAAC
Found at i:62940608 original size:49 final size:49
Alignment explanation
Indices: 62940536--62940679 Score: 243
Period size: 49 Copynumber: 2.9 Consensus size: 49
62940526 TCTATTGTGA
*
62940536 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
*
62940585 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
* * *
62940634 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATA
62940680 GCTTTGGCTA
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 89 1.00
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
Found at i:62952214 original size:95 final size:91
Alignment explanation
Indices: 62952051--62952320 Score: 292
Period size: 95 Copynumber: 2.9 Consensus size: 91
62952041 TTACTTGTTT
* *
62952051 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAATATGATAGCCAGTGTAAGACCATGTT
1 GCCAGTGTAAGACATGTCTGGGACATACATCAGCCACAAGATGATAGCCAGTGTAAGACCATGTT
62952116 TGGGACATGGCATCGGCGTAGAGAATGAGC
66 TGGGACAT-GCATCGGC-TA-AGAAT-AGC
* * * * *
62952146 GCCAGTGTAAGACATGTCTGGGATATACATCGGCCTCAACGATGATAGCCAGTGTAATA-CGTGT
1 GCCAGTGTAAGACATGTCTGGGACATACATCAGCCACAA-GATGATAGCCAGTGTAAGACCATGT
* * *
62952210 TTGGGACATGCATCGGCTAAGAGTTGT
65 TTGGGACATGCATCGGCTAAGAATAGC
* * * * * *
62952237 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CATGCGTAGATGAGAGCTAGTATAAGACCAT
1 GCCAGTGTAAGACATGTCTGGGACATACATCAGCCA--C-AAGATGATAGCCAGTGTAAGACCAT
*
62952301 GTCTGGGACATGGCATCGGC
63 GTTTGGGACAT-GCATCGGC
62952321 CTCGATGATG
Statistics
Matches: 147, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
90 1 0.01
91 30 0.20
92 20 0.14
93 15 0.10
94 16 0.11
95 48 0.33
96 17 0.12
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (91 bp):
GCCAGTGTAAGACATGTCTGGGACATACATCAGCCACAAGATGATAGCCAGTGTAAGACCATGTT
TGGGACATGCATCGGCTAAGAATAGC
Found at i:62952310 original size:49 final size:49
Alignment explanation
Indices: 62952237--62952366 Score: 160
Period size: 49 Copynumber: 2.7 Consensus size: 49
62952227 TAAGAGTTGT
*
62952237 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCATGCG-TAGATGAGA
1 GCTAGTATAAGACCATGTCTGGGACATGGCATCAGCAT-CGAT-GATGAGA
* * *
62952285 GCTAGTATAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATA
1 GCTAGTATAAGACCATGTCTGGGACATGGCATCAGCATCGATGATGAGA
*
62952334 GCCAGTATAAGACCATGATC-GGGACATGGCATC
1 GCTAGTATAAGACCATG-TCTGGGACATGGCATC
62952367 TGCAACTTAT
Statistics
Matches: 73, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
48 11 0.15
49 51 0.70
50 11 0.15
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (49 bp):
GCTAGTATAAGACCATGTCTGGGACATGGCATCAGCATCGATGATGAGA
Found at i:62953166 original size:55 final size:55
Alignment explanation
Indices: 62953095--62953226 Score: 176
Period size: 55 Copynumber: 2.4 Consensus size: 55
62953085 CTTAAAATTG
* * * *
62953095 AAAGTCAGT-TTAGTACATGGGCAGGCCACACGAGCTTGTGTCGTGGCCGTGTTTT
1 AAAGTCAGTGTT-GTACATGGGCAGGCCACACGAGCGTCTGTCATGGCCGTGTTTC
* *
62953150 AAAGTCAGTGTTGTACATAGGCAGGCCACACGAGGGTCTGTCATGGCCGTGTTTC
1 AAAGTCAGTGTTGTACATGGGCAGGCCACACGAGCGTCTGTCATGGCCGTGTTTC
* *
62953205 AAAGTCAATGTTGCACATGGGC
1 AAAGTCAGTGTTGTACATGGGC
62953227 TAAGGGCACG
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
55 65 0.97
56 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (55 bp):
AAAGTCAGTGTTGTACATGGGCAGGCCACACGAGCGTCTGTCATGGCCGTGTTTC
Found at i:62959473 original size:47 final size:46
Alignment explanation
Indices: 62959406--62959698 Score: 139
Period size: 47 Copynumber: 6.2 Consensus size: 46
62959396 CTTGTGTGCC
* *
62959406 AGTGTAAGATATGTCTGGGACATGCATCGGCCACAATATGATAGCT
1 AGTGTAAGACAGGTCTGGGACATGCATCGGCCACAATATGATAGCT
* * ** *
62959452 AGTGTAAGACCAGGTCTGGGACATGGCATCGGCGTAGAGA-ATGAGCGCC
1 AGTGTAAGA-CAGGTCTGGGACAT-GCATCGGC-CACA-ATATGATAGCT
* * * * * ** *
62959501 AATGTAAGACATGTTTGGGATATGCATCGGCCTCGACGATGATAGCC
1 AGTGTAAGACAGGTCTGGGACATGCATCGGCCAC-AATATGATAGCT
* * * *
62959548 AGTGTAAGAC-GTGTCTAGGACATGCATCGGCTAAAAGT-TG-T-GGT
1 AGTGTAAGACAG-GTCTGGGACATGCATCGGCCACAA-TATGATAGCT
* * * * * * *
62959592 AGTGTAAGACATGAT-TAGCACATGCATCAGCACGCATAGATGAGAGCT
1 AGTGTAAGACA-GGTCTGGGACATGCATCGGC-CACA-ATATGATAGCT
* * ***
62959640 AGTATAAGACCATGTCTGGGACATGGCATCGGCCTTGATGATGATAGCT
1 AGTGTAAGA-CAGGTCTGGGACAT-GCATCGGCCACAAT-ATGATAGCT
*
62959689 AGTATAAGAC
1 AGTGTAAGAC
62959699 CATGACTAGG
Statistics
Matches: 179, Mismatches: 49, Indels: 36
0.68 0.19 0.14
Matches are distributed among these distances:
44 25 0.14
45 3 0.02
46 16 0.09
47 53 0.30
48 32 0.18
49 42 0.23
50 8 0.04
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACAGGTCTGGGACATGCATCGGCCACAATATGATAGCT
Found at i:62959571 original size:95 final size:94
Alignment explanation
Indices: 62959403--62959578 Score: 230
Period size: 95 Copynumber: 1.9 Consensus size: 94
62959393 TTACTTGTGT
* * * *
62959403 GCCAGTGTAAGATATGTCTGGGACATGCATCGGCCACAATATGATAGCTAGTGTAAGACCAGGTC
1 GCCAATGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGATAGCCAGTGTAAGACCAGGTC
*
62959468 TGGGACATGGCATCGGCGTAGAGAATGAGC
66 TAGGACAT-GCATCGGCGTAGAGAATGAGC
* * * *
62959498 GCCAATGTAAGACATGTTTGGGATATGCATCGGCCTCGACGATGATAGCCAGTGTAAGA-C-GTG
1 GCCAATGTAAGACATGTCTGGGACATGCATCGGCCAC-AAGATGATAGCCAGTGTAAGACCAG-G
62959561 TCTAGGACATGCATCGGC
64 TCTAGGACATGCATCGGC
62959579 TAAAAGTTGT
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
94 9 0.13
95 43 0.61
96 18 0.26
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (94 bp):
GCCAATGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGATAGCCAGTGTAAGACCAGGTC
TAGGACATGCATCGGCGTAGAGAATGAGC
Found at i:62959683 original size:49 final size:47
Alignment explanation
Indices: 62959406--62959718 Score: 194
Period size: 49 Copynumber: 6.6 Consensus size: 47
62959396 CTTGTGTGCC
* * *
62959406 AGTGTAAGATATGTCTGGGACATGCATCGGCC-ACAAT-ATGATAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTA-GATGATGAGAGCT
* * * *
62959452 AGTGTAAGACCAGGTCTGGGACATGGCATCGGCGTAGA-GAATGAGCGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTAGATG-ATGAGAGCT
* * * * * * *
62959501 AATGTAAGACATGTTTGGGATATGCATCGGCCTCGACGATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTAGATGATGAGAGCT
* * * * * *
62959548 AGTGTAAGACGTGTCTAGGACATGCATCGG-CTAAAAGTTGTG-G-T
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTAGATGATGAGAGCT
* * *
62959592 AGTGTAAGACATGAT-TAGCACATGCATCAG-C-ACGCATAGATGAGAGCT
1 AGTGTAAGACATG-TCTGGGACATGCATCGGCCTA-G-AT-GATGAGAGCT
* * *
62959640 AGTATAAGACCATGTCTGGGACATGGCATCGGCCTTGATGATGATAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTAGATGATGAGAGCT
* * *
62959689 AGTATAAGACCATGACTAGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
62959719 TGCAACTTAT
Statistics
Matches: 208, Mismatches: 42, Indels: 31
0.74 0.15 0.11
Matches are distributed among these distances:
43 1 0.00
44 26 0.12
45 3 0.01
46 19 0.09
47 56 0.27
48 31 0.15
49 62 0.30
50 8 0.04
51 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTAGATGATGAGAGCT
Found at i:62960565 original size:55 final size:55
Alignment explanation
Indices: 62960498--62960615 Score: 164
Period size: 55 Copynumber: 2.1 Consensus size: 55
62960488 TTAGTTTAGT
* * * *
62960498 ACACGGACAGGCCACACGGGCGTGTGTCATGCCCGTGTTTTAAAGCCAGTGTTGT
1 ACACGGGCAGGCCACACGGGCATGTGTCATGCCCGTGTTTCAAAGCCAGTGTTGC
* * **
62960553 GCACGGGCAGGCCACACGGGCATGTGTCATGGCCGTGTTTCAAAGTTAGTGTTGC
1 ACACGGGCAGGCCACACGGGCATGTGTCATGCCCGTGTTTCAAAGCCAGTGTTGC
62960608 ACACGGGC
1 ACACGGGC
62960616 TAAGGGCACG
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.19, C:0.25, G:0.33, T:0.22
Consensus pattern (55 bp):
ACACGGGCAGGCCACACGGGCATGTGTCATGCCCGTGTTTCAAAGCCAGTGTTGC
Found at i:62966745 original size:26 final size:26
Alignment explanation
Indices: 62966716--62966766 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
62966706 CCCATTATAT
62966716 GGCTCTTCCTGAGCTTTCC-GATTAAA
1 GGCTCTTCCTGAGC-TTCCTGATTAAA
**
62966742 GGCTCTTTGTGAGCTTCCTGATTAA
1 GGCTCTTCCTGAGCTTCCTGATTAA
62966767 TGGATTTCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.37
Consensus pattern (26 bp):
GGCTCTTCCTGAGCTTCCTGATTAAA
Found at i:62968749 original size:17 final size:16
Alignment explanation
Indices: 62968727--62968760 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
62968717 TTATCTTTTT
62968727 TTTTTTCCATTAGTTAA
1 TTTTTTCCATTA-TTAA
*
62968744 TTTTTTTCATTATTAA
1 TTTTTTCCATTATTAA
62968760 T
1 T
62968761 CGTAGCTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.24, C:0.09, G:0.03, T:0.65
Consensus pattern (16 bp):
TTTTTTCCATTATTAA
Found at i:62968759 original size:16 final size:18
Alignment explanation
Indices: 62968726--62968760 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
62968716 ATTATCTTTT
62968726 TTTTTTTCCATTAGTTAA
1 TTTTTTTCCATTAGTTAA
62968744 TTTTTTT-CATTA-TTAA
1 TTTTTTTCCATTAGTTAA
62968760 T
1 T
62968761 CGTAGCTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 5 0.29
18 7 0.41
ACGTcount: A:0.23, C:0.09, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTTTTTCCATTAGTTAA
Found at i:62975725 original size:217 final size:217
Alignment explanation
Indices: 62975350--62975783 Score: 789
Period size: 217 Copynumber: 2.0 Consensus size: 217
62975340 AAAAATACTT
*
62975350 TATTGCCAAAAAATTTCTAATGAGACCTTCGTATGCTGTGTCCGAGCCTAATCTTAAGGGTTATC
1 TATTGCCAAAAAATTTCTAATGAGACCTTCGTATGCTGTGTCCGAGCCTAAACTTAAGGGTTATC
62975415 TGTGTGAGTATAAGAACTATAAGCATTCAATTACTCAAATAGGCACACAACTATTATAATAGTTC
66 TGTGTGAGTATAAGAACTATAAGCATTCAATTACTCAAATAGGCACACAACTATTATAATAGTTC
* * *
62975480 AAACAACTTATCATGGCATTACAACATGTGAATATGGCATTCTCAATCATACAGTGCAATGGTCC
131 AAACAACTTATCATGGCATTACAACATGTGAATATGGCATGCTCAACCATACAATGCAATGGTCC
* *
62975545 TACTAATCTATCTGCTACACAC
196 TACCAATCTATCCGCTACACAC
*
62975567 TATTGCCAAAAAA-TTCGTAATGAGACCTTCGTATGCTGTGTCCGAGCCTAAACTTAGGGGTTAT
1 TATTGCCAAAAAATTTC-TAATGAGACCTTCGTATGCTGTGTCCGAGCCTAAACTTAAGGGTTAT
62975631 CTGTGTGAGTATAAGAACTATAAGCATTCAATTACTCAAATAGGCACACAACTATTATAATAGTT
65 CTGTGTGAGTATAAGAACTATAAGCATTCAATTACTCAAATAGGCACACAACTATTATAATAGTT
62975696 CAAACAACTTATCATGGCATTACAACATGTGAATATGGCATGCTCAACCATACAATGCAATGGTC
130 CAAACAACTTATCATGGCATTACAACATGTGAATATGGCATGCTCAACCATACAATGCAATGGTC
62975761 CTACCAATCTATCCGCTACACAC
195 CTACCAATCTATCCGCTACACAC
62975784 ACGAGTTTCC
Statistics
Matches: 209, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
216 3 0.01
217 206 0.99
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.29
Consensus pattern (217 bp):
TATTGCCAAAAAATTTCTAATGAGACCTTCGTATGCTGTGTCCGAGCCTAAACTTAAGGGTTATC
TGTGTGAGTATAAGAACTATAAGCATTCAATTACTCAAATAGGCACACAACTATTATAATAGTTC
AAACAACTTATCATGGCATTACAACATGTGAATATGGCATGCTCAACCATACAATGCAATGGTCC
TACCAATCTATCCGCTACACAC
Found at i:62978428 original size:18 final size:20
Alignment explanation
Indices: 62978392--62978429 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
62978382 TCTTAAAAAA
62978392 AATATATTTAATATATATTT
1 AATATATTTAATATATATTT
*
62978412 AATA-ATTT-ATATTTATTT
1 AATATATTTAATATATATTT
62978430 TTAAAGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 4 0.24
20 4 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
AATATATTTAATATATATTT
Found at i:62984029 original size:5 final size:5
Alignment explanation
Indices: 62984019--62984070 Score: 54
Period size: 5 Copynumber: 10.2 Consensus size: 5
62984009 AATCACCCCA
*
62984019 ATTTT ATTTT ATTTT A-TTT ATTTTT AATTGTT ATATT A-TTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT A-TTTT -ATT-TT ATTTT ATTTT ATTTT
62984065 ATTTT A
1 ATTTT A
62984071 CTAATTAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
4 7 0.17
5 23 0.57
6 7 0.17
7 3 0.08
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (5 bp):
ATTTT
Found at i:62984057 original size:22 final size:20
Alignment explanation
Indices: 62984020--62984156 Score: 72
Period size: 21 Copynumber: 6.5 Consensus size: 20
62984010 ATCACCCCAA
*
62984020 TTTTATTTTATTTTATTTAT
1 TTTTATTTTATATTATTTAT
62984040 TTTTAATTGTTATATTATTTA-
1 TTTT-ATT-TTATATTATTTAT
62984061 TTTTATTTTACTAATTAATTAATTAAT
1 TTTTATTTTA-T-ATT-A-T--TT-AT
62984088 TTATTATTCTTATACTTA--TAT
1 TT-TTATT-TTATA-TTATTTAT
62984109 TTTTAATTGTT-TATATATTT-T
1 TTTT-ATT-TTATAT-TATTTAT
*
62984130 TATTATTTT-TATT-TTTAT
1 TTTTATTTTATATTATTTAT
62984148 TTTTATTTT
1 TTTTATTTT
62984157 CTTATCTTTC
Statistics
Matches: 95, Mismatches: 4, Indels: 38
0.69 0.03 0.28
Matches are distributed among these distances:
17 3 0.03
18 10 0.11
19 9 0.09
20 17 0.18
21 23 0.24
22 14 0.15
23 1 0.01
25 2 0.02
26 1 0.01
27 4 0.04
28 8 0.08
29 3 0.03
ACGTcount: A:0.26, C:0.02, G:0.01, T:0.70
Consensus pattern (20 bp):
TTTTATTTTATATTATTTAT
Found at i:62984057 original size:27 final size:26
Alignment explanation
Indices: 62984018--62984069 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
62984008 TAATCACCCC
*
62984018 AATTTTATTTTATTT-TATTTATTTTT
1 AATTTTATATTATTTAT-TTTATTTTT
62984044 AATTGTTATATTATTTATTTTATTTT
1 AATT-TTATATTATTTATTTTATTTT
62984070 ACTAATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 4 0.17
27 18 0.78
28 1 0.04
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (26 bp):
AATTTTATATTATTTATTTTATTTTT
Found at i:62984141 original size:6 final size:6
Alignment explanation
Indices: 62984132--62984156 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
62984122 TATATTTTTA
62984132 TTATTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT T
62984157 CTTATCTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:62984156 original size:26 final size:26
Alignment explanation
Indices: 62984127--62984197 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
62984117 GTTTATATAT
*
62984127 TTTTATTATTTTTATTTTTATTTTTA
1 TTTTATTATTTTTATTTTTAATTTTA
* * * *
62984153 TTTTCTTATCTTTCTTTTAAATTTTA
1 TTTTATTATTTTTATTTTTAATTTTA
62984179 TTTTAGTTA-TTTTATTTTT
1 TTTTA-TTATTTTTATTTTT
62984198 TTCTTCTTTA
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 32 0.91
27 3 0.09
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (26 bp):
TTTTATTATTTTTATTTTTAATTTTA
Found at i:62996983 original size:20 final size:20
Alignment explanation
Indices: 62996958--62997002 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
62996948 AGGGACTAAA
* *
62996958 ATGAAAAGTTTTAAAATTTC
1 ATGAAAAATTCTAAAATTTC
*
62996978 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTC
62996998 ATGAA
1 ATGAA
62997003 CACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTC
Found at i:63001357 original size:25 final size:26
Alignment explanation
Indices: 63001326--63001376 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
63001316 CATTAAAGTT
63001326 AAAAAAGAATTTCAAGTA-TCCCAAA
1 AAAAAAGAATTTCAAGTATTCCCAAA
*
63001351 AAAAAAGAATTTCAATTATTCCCAAA
1 AAAAAAGAATTTCAAGTATTCCCAAA
63001377 TTTTAATTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.55, C:0.16, G:0.06, T:0.24
Consensus pattern (26 bp):
AAAAAAGAATTTCAAGTATTCCCAAA
Found at i:63001509 original size:41 final size:41
Alignment explanation
Indices: 63001464--63001545 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
63001454 GAGAATGATG
*
63001464 AAATTAATGATCCAAATGAGCTTAATGATGTGTCAAATGTA
1 AAATTAATAATCCAAATGAGCTTAATGATGTGTCAAATGTA
*
63001505 AAATTAATAATCCAAATGAGCTTAATGATGTGTCAGATGTA
1 AAATTAATAATCCAAATGAGCTTAATGATGTGTCAAATGTA
63001546 TCCAATATTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (41 bp):
AAATTAATAATCCAAATGAGCTTAATGATGTGTCAAATGTA
Found at i:63003637 original size:10 final size:10
Alignment explanation
Indices: 63003618--63003647 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
63003608 AGGTGGTTGG
63003618 TTAGTGGGAT
1 TTAGTGGGAT
*
63003628 TTAGTAGGAT
1 TTAGTGGGAT
63003638 TTAGTGGGAT
1 TTAGTGGGAT
63003648 ATGGATAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (10 bp):
TTAGTGGGAT
Found at i:63004412 original size:49 final size:47
Alignment explanation
Indices: 63004333--63004459 Score: 173
Period size: 47 Copynumber: 2.7 Consensus size: 47
63004323 TTGCATGTCG
* * * *
63004333 TGTGTGGCATACGACCGTGTAAAATCATGCAGGTCGTGTGAGTAAGCCA
1 TGTGAGGCACACGACCATGTGAAATCATGCAGGTCGTG-G-GTAAGCCA
* *
63004382 TGTGAGGCACACGACCATGTGAAATAATGCAGGTCGTGGGTATGCCA
1 TGTGAGGCACACGACCATGTGAAATCATGCAGGTCGTGGGTAAGCCA
*
63004429 TGTGAGGCACACAACCATGTGAAATCATGCA
1 TGTGAGGCACACGACCATGTGAAATCATGCA
63004460 AGCTGTGTGG
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
47 36 0.51
48 1 0.01
49 33 0.47
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (47 bp):
TGTGAGGCACACGACCATGTGAAATCATGCAGGTCGTGGGTAAGCCA
Found at i:63005983 original size:19 final size:19
Alignment explanation
Indices: 63005959--63005997 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
63005949 GATATTTATG
63005959 TAAAAATAATTCTACTCAA
1 TAAAAATAATTCTACTCAA
63005978 TAAAAATAATTCTACTCAA
1 TAAAAATAATTCTACTCAA
63005997 T
1 T
63005998 TCAGTTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAAATAATTCTACTCAA
Found at i:63008496 original size:18 final size:18
Alignment explanation
Indices: 63008473--63008509 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
63008463 GATAACAATA
63008473 AAACATTTAAATATATAT
1 AAACATTTAAATATATAT
63008491 AAACATTTAAATATATAT
1 AAACATTTAAATATATAT
63008509 A
1 A
63008510 TTATCAACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
AAACATTTAAATATATAT
Found at i:63019041 original size:50 final size:50
Alignment explanation
Indices: 63018966--63019068 Score: 154
Period size: 50 Copynumber: 2.1 Consensus size: 50
63018956 AAAGTCCATG
**
63018966 AGACCATATAGTGTAAAACCATAACTAGTGGGTTATGGTATCACATGGAA
1 AGACCATATAGTGTAAAACCATAACTAGTGGGTTATGACATCACATGGAA
* *
63019016 AGACCATATCA-TGTAAGACCATAACTAGTGGGTTATGACATCATATGGAA
1 AGACCATAT-AGTGTAAAACCATAACTAGTGGGTTATGACATCACATGGAA
63019066 AGA
1 AGA
63019069 TCAAAAGGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
50 47 0.98
51 1 0.02
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (50 bp):
AGACCATATAGTGTAAAACCATAACTAGTGGGTTATGACATCACATGGAA
Found at i:63019204 original size:28 final size:28
Alignment explanation
Indices: 63019172--63019285 Score: 156
Period size: 28 Copynumber: 4.1 Consensus size: 28
63019162 CATGAAAACA
**
63019172 TATGAAAATGGAAGCCTTTATCACAATC
1 TATGAAAATGGAAGCCTTTATGGCAATC
* *
63019200 TATGAAAATGGAATCCTTTGTGGCAATC
1 TATGAAAATGGAAGCCTTTATGGCAATC
*
63019228 TATGAAAATGGAAGCCTTTATGGCAATA
1 TATGAAAATGGAAGCCTTTATGGCAATC
* * *
63019256 TATGAAAATGGAGGCCTTTGTGGCTATC
1 TATGAAAATGGAAGCCTTTATGGCAATC
63019284 TA
1 TA
63019286 AGGAAAGGAA
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 75 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (28 bp):
TATGAAAATGGAAGCCTTTATGGCAATC
Found at i:63019233 original size:56 final size:56
Alignment explanation
Indices: 63019172--63019285 Score: 174
Period size: 56 Copynumber: 2.0 Consensus size: 56
63019162 CATGAAAACA
* *
63019172 TATGAAAATGGAAGCCTTTATCACAATCTATGAAAATGGAATCCTTTGTGGCAATC
1 TATGAAAATGGAAGCCTTTATCACAATATATGAAAATGGAAGCCTTTGTGGCAATC
** * *
63019228 TATGAAAATGGAAGCCTTTATGGCAATATATGAAAATGGAGGCCTTTGTGGCTATC
1 TATGAAAATGGAAGCCTTTATCACAATATATGAAAATGGAAGCCTTTGTGGCAATC
63019284 TA
1 TA
63019286 AGGAAAGGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (56 bp):
TATGAAAATGGAAGCCTTTATCACAATATATGAAAATGGAAGCCTTTGTGGCAATC
Found at i:63019301 original size:56 final size:56
Alignment explanation
Indices: 63019175--63019301 Score: 166
Period size: 56 Copynumber: 2.3 Consensus size: 56
63019165 GAAAACATAT
* * *
63019175 GAAAATGGAAGCCTTTATCACAATCTATGAAAATGGAATCCTTTGTGGCAATCTAT
1 GAAAATGGAAGCCTTTATCACAATATATGAAAATGGAAGCCTTTGTGGCAATCTAA
** * *
63019231 GAAAATGGAAGCCTTTATGGCAATATATGAAAATGGAGGCCTTTGTGGCTATCTAA
1 GAAAATGGAAGCCTTTATCACAATATATGAAAATGGAAGCCTTTGTGGCAATCTAA
*
63019287 GGAAA-GGAACGCCTT
1 GAAAATGGAA-GCCTT
63019302 CGTGGTGCAT
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
55 4 0.06
56 58 0.94
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.28
Consensus pattern (56 bp):
GAAAATGGAAGCCTTTATCACAATATATGAAAATGGAAGCCTTTGTGGCAATCTAA
Found at i:63025418 original size:31 final size:31
Alignment explanation
Indices: 63025381--63025444 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
63025371 TGGTCGTGCC
63025381 TGTGTGATATTTTAAATAGGTGTATTAGGGG
1 TGTGTGATATTTTAAATAGGTGTATTAGGGG
* *
63025412 TGTGTGATATTTTCAATAGGTGTATTGGGGG
1 TGTGTGATATTTTAAATAGGTGTATTAGGGG
63025443 TG
1 TG
63025445 AAAGCCTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.22, C:0.02, G:0.34, T:0.42
Consensus pattern (31 bp):
TGTGTGATATTTTAAATAGGTGTATTAGGGG
Found at i:63025721 original size:3 final size:3
Alignment explanation
Indices: 63025713--63025738 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
63025703 AAATGGTTTA
63025713 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
63025739 TTGTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:63028688 original size:21 final size:21
Alignment explanation
Indices: 63028663--63028720 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
63028653 GTTGGGGCAG
*
63028663 CCTCTTGCTGAGTTGGGGTA-
1 CCTCTTGCTGAGTTGGGATAT
* * *
63028683 CTCTCTTACTAATTTGGGATAT
1 C-CTCTTGCTGAGTTGGGATAT
*
63028705 CCTGTTGCTGAGTTGG
1 CCTCTTGCTGAGTTGG
63028721 AGCAACCACT
Statistics
Matches: 28, Mismatches: 8, Indels: 3
0.72 0.21 0.08
Matches are distributed among these distances:
20 1 0.04
21 26 0.93
22 1 0.04
ACGTcount: A:0.14, C:0.19, G:0.28, T:0.40
Consensus pattern (21 bp):
CCTCTTGCTGAGTTGGGATAT
Found at i:63029498 original size:80 final size:78
Alignment explanation
Indices: 63029353--63029622 Score: 328
Period size: 80 Copynumber: 3.4 Consensus size: 78
63029343 AAAACTACAT
* *
63029353 TGTGACCAGCCCCACCAACAATCGTACACACATACACCTAAAAAACAATCACTGCATGCATATTA
1 TGTGACCAGCCCCACCAACAATCATACACAC--ACA--TAAAAAAAAATCACTGCATGCATATTA
*
63029418 AAAAATAGTCAACAGCA
62 AAAAATAGTCAATAGCA
* *
63029435 TGTGACCATCCCCATCAACAATCATACACACACATAAAAAAAATAGTCACTGCATGCATATTAAA
1 TGTGACCAGCCCCACCAACAATCATACACACACATAAAAAAAA-A-TCACTGCATGCATATTAAA
63029500 AAATAGTCAATAGCA
64 AAATAGTCAATAGCA
* * * * *
63029515 TGTGACCATCCTCGCCAACAATCATACACAGACA-AATTAAAAAA-CACTGCATGCATATTAAAA
1 TGTGACCAGCCCCACCAACAATCATACACACACATAA-AAAAAAATCACTGCATGCATATT-AAA
* * *
63029578 AAACAGTTAATAGTA
64 AAATAGTCAATAGCA
*
63029593 TGTGACTAGCCCCACCAACAATCATACACA
1 TGTGACCAGCCCCACCAACAATCATACACA
63029623 AACAGATTAA
Statistics
Matches: 167, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
77 15 0.09
78 49 0.29
79 4 0.02
80 71 0.43
82 28 0.17
ACGTcount: A:0.44, C:0.26, G:0.10, T:0.20
Consensus pattern (78 bp):
TGTGACCAGCCCCACCAACAATCATACACACACATAAAAAAAAATCACTGCATGCATATTAAAAA
ATAGTCAATAGCA
Found at i:63031322 original size:15 final size:15
Alignment explanation
Indices: 63031298--63031347 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
63031288 TTATACTATT
63031298 AGACACATCACTTTC
1 AGACACATCACTTTC
* **
63031313 AGATACATCACTACC
1 AGACACATCACTTTC
*
63031328 AGACACATCAGTTTC
1 AGACACATCACTTTC
63031343 AGACA
1 AGACA
63031348 TTTCTTCTTC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.38, C:0.30, G:0.10, T:0.22
Consensus pattern (15 bp):
AGACACATCACTTTC
Found at i:63031841 original size:34 final size:34
Alignment explanation
Indices: 63031795--63031889 Score: 138
Period size: 34 Copynumber: 2.8 Consensus size: 34
63031785 AACTAAAACC
* *
63031795 AAAATTAAAATAACCTTAAATCTAAAATTGAAAT
1 AAAATCAAAATAACCCTAAATCTAAAATTGAAAT
*
63031829 CAAAATC-AAATAACCCTAAATTTAAAATTGAAAT
1 -AAAATCAAAATAACCCTAAATCTAAAATTGAAAT
*
63031863 AAAATCAAAATAACCCTAAATCAAAAA
1 AAAATCAAAATAACCCTAAATCTAAAA
63031890 AATAAAAAAC
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
33 6 0.11
34 43 0.80
35 5 0.09
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (34 bp):
AAAATCAAAATAACCCTAAATCTAAAATTGAAAT
Found at i:63032329 original size:21 final size:21
Alignment explanation
Indices: 63032303--63032343 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
63032293 CAATGTGGCA
63032303 AGTTAACTGGCCACATCAGCT
1 AGTTAACTGGCCACATCAGCT
*
63032324 AGTTAACTTGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
63032344 AGTCCCATTA
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:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:63032439 original size:22 final size:22
Alignment explanation
Indices: 63032414--63032460 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
63032404 ACGTTAGTGA
63032414 TTGTTTTGTCATTTTTCAAAAG
1 TTGTTTTGTCATTTTTCAAAAG
63032436 TTGTTTTGTCATTTTTCAAAAG
1 TTGTTTTGTCATTTTTCAAAAG
63032458 TTG
1 TTG
63032461 AGTGACTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.21, C:0.09, G:0.15, T:0.55
Consensus pattern (22 bp):
TTGTTTTGTCATTTTTCAAAAG
Found at i:63036460 original size:21 final size:22
Alignment explanation
Indices: 63036431--63036477 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
63036421 CAGAAGGAGT
*
63036431 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
63036453 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
63036474 GAGT
1 GAGT
63036478 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:63041757 original size:17 final size:16
Alignment explanation
Indices: 63041735--63041766 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
63041725 TTATAAATTA
63041735 TTGGAAGCTCGATCGAT
1 TTGGAAGCTCG-TCGAT
63041752 TTGGAAGCTCGTCGA
1 TTGGAAGCTCGTCGA
63041767 AGATCTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (16 bp):
TTGGAAGCTCGTCGAT
Found at i:63058125 original size:39 final size:39
Alignment explanation
Indices: 63058071--63058148 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
63058061 AATGTTTATG
63058071 TTCGTATGGTATTTGGTATGCTCATCTCCAAATAAGGTA
1 TTCGTATGGTATTTGGTATGCTCATCTCCAAATAAGGTA
*
63058110 TTCGTATGGTATTTGGTATGCTCGTCTCCAAATAAGGTA
1 TTCGTATGGTATTTGGTATGCTCATCTCCAAATAAGGTA
63058149 AGTATAGTGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.38
Consensus pattern (39 bp):
TTCGTATGGTATTTGGTATGCTCATCTCCAAATAAGGTA
Found at i:63062730 original size:49 final size:49
Alignment explanation
Indices: 63062573--63062796 Score: 180
Period size: 49 Copynumber: 4.7 Consensus size: 49
63062563 GGTGGTATGT
* * *
63062573 AAGCCAGTGTAAGACATGTCTGGGACAT-GCATC-AGCCTCAGGATAT-A
1 AAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGA-CCTCAGTAAATGA
* * * * *
63062620 CAAGCCAGTGTAAGACCTATCTGGGACATGGCGTC-AACT---T-ATTGT
1 -AAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAGTAAATGA
** *
63062665 GTGTCAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-C-GATAAATGA
1 AAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCAG-TAAATGA
* * *
63062714 GAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCAGTATATGA
1 AAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAGTAAATGA
* * * *
63062763 AAGTCAATGTAGGACCTGTCTGGGACACGGCATC
1 AAGCCAGTGTAAGACCTGTCTGGGACATGGCATC
63062797 AAATTTAATG
Statistics
Matches: 141, Mismatches: 25, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
44 30 0.21
45 1 0.01
46 1 0.01
48 30 0.21
49 78 0.55
50 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.23
Consensus pattern (49 bp):
AAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAGTAAATGA
Found at i:63064687 original size:127 final size:128
Alignment explanation
Indices: 63064443--63064699 Score: 340
Period size: 127 Copynumber: 2.0 Consensus size: 128
63064433 CAGTGCAAGG
* * *
63064443 AAAACTCAAGTTGATCTTGACTTTCAACCGAACAACCTTCTTCGCTACTCTCAAATTGCAAATTG
1 AAAACTCAAGTTAATATTGACTTTCAACCCAACAACCTTCTTCGCTACTCTCAAATTGCAAATTG
* *
63064508 CATCGAGTGCGGGCTCGAGCAACTCGAACCAAATCACCAAAAAGAAATGATTTATTTACTTTC
66 CATCGAGTGCGGGCCCGAGCAACTCGAACCAAATCACCAAAAAGAAACGATTTATTTACTTTC
* ** * ** **
63064571 AAAA-TCAAGTTAATATTGGCTTTCAACCCAATGACCTTCTTCGCTATTCTTGAATTGGGAATTG
1 AAAACTCAAGTTAATATTGACTTTCAACCCAACAACCTTCTTCGCTACTCTCAAATTGCAAATTG
* *
63064635 CATTGAGTGCGGGCCCGAGCAA-TAGGAACCAAATCA-CAAAAATGAAACGATTTATTTACTTTC
66 CATCGAGTGCGGGCCCGAGCAACT-CGAACCAAATCACCAAAAA-GAAACGATTTATTTACTTTC
63064698 AA
1 AA
63064700 TACGAAACTA
Statistics
Matches: 112, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
126 7 0.06
127 101 0.90
128 4 0.04
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (128 bp):
AAAACTCAAGTTAATATTGACTTTCAACCCAACAACCTTCTTCGCTACTCTCAAATTGCAAATTG
CATCGAGTGCGGGCCCGAGCAACTCGAACCAAATCACCAAAAAGAAACGATTTATTTACTTTC
Found at i:63068702 original size:20 final size:21
Alignment explanation
Indices: 63068658--63068702 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 21
63068648 TCTACCCTAA
63068658 ACCCTAAAACTTTTTATTTTC
1 ACCCTAAAACTTTTTATTTTC
63068679 -CCCT-AAAC-TTTTATTTCTC
1 ACCCTAAAACTTTTTATTT-TC
63068698 ACCCT
1 ACCCT
63068703 TTACCCCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 8 0.36
19 6 0.27
20 8 0.36
ACGTcount: A:0.24, C:0.31, G:0.00, T:0.44
Consensus pattern (21 bp):
ACCCTAAAACTTTTTATTTTC
Found at i:63070883 original size:49 final size:49
Alignment explanation
Indices: 63070826--63071070 Score: 301
Period size: 49 Copynumber: 4.9 Consensus size: 49
63070816 TAGCTAAAGC
* * *
63070826 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* *
63070875 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * * * *
63070925 CATCTGATACACGTAGTAGCCTGCACTTAATACTACAAACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * * *
63070976 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* *
63071025 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
63071071 TCACAATAGA
Statistics
Matches: 166, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 83 0.50
50 47 0.28
51 36 0.22
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:63073212 original size:48 final size:48
Alignment explanation
Indices: 63073157--63073486 Score: 261
Period size: 48 Copynumber: 6.9 Consensus size: 48
63073147 GGGTGAATTA
* * * *
63073157 CCGATGCCATGTTCCAAACATCGTCTTACACTGGCTCACATGTCGAGG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGAGG
* * * ** * *
63073205 CCGATGCCATGTCCCAGACATGGCCTTACACTAGCTCTCACCTCAATG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGAGG
* * * * * * *
63073253 CCAATGTCATGTCCCAAATAGGGTCTTACACTGGCTCTCTTATTGTGG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGAGG
* * * * * * * * *
63073301 --AATGCTATGTCCCAGACATGGTCTTACTCTAGCACACATATCAATG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGAGG
* * * * * *
63073347 TCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCACAAC-ATCG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGA-GG
* * * *
63073395 TCGATGCCATGTTCCAAACATGGTCTTACACTGGATCTCATATCGTGG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGAGG
* * * *
63073443 CCGACGCCATGTCCCAAACATGATCTTACACTGGCACACATATC
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATC
63073487 ACCCAAATGT
Statistics
Matches: 215, Mismatches: 63, Indels: 8
0.75 0.22 0.03
Matches are distributed among these distances:
46 32 0.15
47 1 0.00
48 182 0.85
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (48 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCGAGG
Found at i:63073333 original size:94 final size:94
Alignment explanation
Indices: 63073208--63073385 Score: 230
Period size: 94 Copynumber: 1.9 Consensus size: 94
63073198 GTCGAGGCCG
* * * * *
63073208 ATGCCATGTCCCAGACATGGCCTTACACTAGCTCTCACCTCAATGCCAATGTCATGTCCCAAATA
1 ATGCCATGTCCCAGACATGGCCTTACACTAGCACACACATCAATGCCAATGCCATGTCCCAAACA
63073273 GGGTCTTACACTGGCTCTCTTATTGTGGA
66 GGGTCTTACACTGGCTCTCTTATTGTGGA
* * * * * * *
63073302 ATGCTATGTCCCAGACATGGTCTTACTCTAGCACACATATCAATGTCGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGCCTTACACTAGCACACACATCAATGCCAATGCCATGTCCCAAACA
* *
63073367 TGGTCTTACATTGGCTCTC
66 GGGTCTTACACTGGCTCTC
63073386 ACAACATCGT
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
94 70 1.00
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (94 bp):
ATGCCATGTCCCAGACATGGCCTTACACTAGCACACACATCAATGCCAATGCCATGTCCCAAACA
GGGTCTTACACTGGCTCTCTTATTGTGGA
Found at i:63074912 original size:19 final size:18
Alignment explanation
Indices: 63074874--63074912 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
63074864 TAAAAAACGC
* *
63074874 ATTTTTTACATTTAATAT
1 ATTTTTTAAATTTAAAAT
63074892 ATTTTTTAAATTTCAAAAT
1 ATTTTTTAAATTT-AAAAT
63074911 AT
1 AT
63074913 ATAGTGACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTTTTTAAATTTAAAAT
Found at i:63076755 original size:12 final size:13
Alignment explanation
Indices: 63076738--63076787 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 13
63076728 GATAATTATT
63076738 ATAGAT-AATTCA
1 ATAGATAAATTCA
63076750 ATAGATAAATTCA
1 ATAGATAAATTCA
* **
63076763 A-AGTTTTA-TCA
1 ATAGATAAATTCA
63076774 ATAGATAAATTCA
1 ATAGATAAATTCA
63076787 A
1 A
63076788 AGTTTTACCT
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
11 4 0.14
12 14 0.48
13 11 0.38
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.34
Consensus pattern (13 bp):
ATAGATAAATTCA
Found at i:63076775 original size:24 final size:24
Alignment explanation
Indices: 63076747--63076794 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
63076737 TATAGATAAT
63076747 TCAATAGATAAATTCAAAGTTTTA
1 TCAATAGATAAATTCAAAGTTTTA
63076771 TCAATAGATAAATTCAAAGTTTTA
1 TCAATAGATAAATTCAAAGTTTTA
63076795 CCTTATCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (24 bp):
TCAATAGATAAATTCAAAGTTTTA
Found at i:63086316 original size:11 final size:11
Alignment explanation
Indices: 63086302--63086380 Score: 52
Period size: 11 Copynumber: 6.6 Consensus size: 11
63086292 GACAGGATTT
63086302 TATTAATTTAA
1 TATTAATTTAA
*
63086313 TATTAATATAA
1 TATTAATTTAA
63086324 GGTATTAAATTTAA
1 --TATT-AATTTAA
63086338 T-TTAATATTTAA
1 TATT-A-ATTTAA
* **
63086350 CTAGATAATTTTT
1 -TA-TTAATTTAA
63086363 TATTAATTTAA
1 TATTAATTTAA
63086374 TATTAAT
1 TATTAAT
63086381 GTGATTAATT
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
11 27 0.51
12 9 0.17
13 9 0.17
14 7 0.13
15 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (11 bp):
TATTAATTTAA
Found at i:63086333 original size:61 final size:61
Alignment explanation
Indices: 63086251--63086380 Score: 179
Period size: 61 Copynumber: 2.1 Consensus size: 61
63086241 ATTTACCTAG
* ** *
63086251 ATATTAATATGAGATACTAAATTTAATTTAATATTTATTTAGACAGGATTTTATTAATTTA
1 ATATTAATATAAGATACTAAATTTAATTTAATATTTAACTAGACAAGATTTTATTAATTTA
* * * **
63086312 ATATTAATATAAGGTATTAAATTTAATTTAATATTTAACTAGATAATTTTTTATTAATTTA
1 ATATTAATATAAGATACTAAATTTAATTTAATATTTAACTAGACAAGATTTTATTAATTTA
63086373 ATATTAAT
1 ATATTAAT
63086381 GTGATTAATT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (61 bp):
ATATTAATATAAGATACTAAATTTAATTTAATATTTAACTAGACAAGATTTTATTAATTTA
Found at i:63087840 original size:11 final size:10
Alignment explanation
Indices: 63087809--63087865 Score: 60
Period size: 10 Copynumber: 5.5 Consensus size: 10
63087799 TTCCTTTCTC
63087809 TTTTTTATTT
1 TTTTTTATTT
*
63087819 CTTTTTATTT
1 TTTTTTATTT
63087829 TTTTTTATTT
1 TTTTTTATTT
*
63087839 TTGTTGTATTT
1 TT-TTTTATTT
* *
63087850 TTATTTCTTT
1 TTTTTTATTT
63087860 GTTTTT
1 -TTTTT
63087866 GCCAGAACAT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
10 25 0.66
11 13 0.34
ACGTcount: A:0.09, C:0.04, G:0.05, T:0.82
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:63089965 original size:29 final size:30
Alignment explanation
Indices: 63089931--63089992 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
63089921 TATCTCTATA
* * *
63089931 ATTTTTAAAAGATTCAATTA-AATTTTATT
1 ATTTTTAAAAGACTAAAGTATAATTTTATT
*
63089960 ATTTTTAAGAGACTAAAGTATAATTTTATT
1 ATTTTTAAAAGACTAAAGTATAATTTTATT
63089990 ATT
1 ATT
63089993 ACTAATTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 16 0.57
30 12 0.43
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.50
Consensus pattern (30 bp):
ATTTTTAAAAGACTAAAGTATAATTTTATT
Found at i:63100193 original size:18 final size:18
Alignment explanation
Indices: 63100149--63100195 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
63100139 TTTAGCAAAT
63100149 AATGGTGTTGCCGAATAG
1 AATGGTGTTGCCGAATAG
**
63100167 AATAATGTTGCCGAATAG
1 AATGGTGTTGCCGAATAG
63100185 AATGGTGTTGC
1 AATGGTGTTGC
63100196 TGAACGTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.30
Consensus pattern (18 bp):
AATGGTGTTGCCGAATAG
Found at i:63105302 original size:25 final size:24
Alignment explanation
Indices: 63105256--63105308 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
63105246 TGAAAAAGCA
*
63105256 TCCCATTATTAGTTCTCATGAGCT
1 TCCCATTATTAGTTCTCATGAGCC
* **
63105280 TCCCATTATATGGTTCTTGTGAGCC
1 TCCCATTAT-TAGTTCTCATGAGCC
63105305 TCCC
1 TCCC
63105309 GTTAATATCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.17, C:0.28, G:0.15, T:0.40
Consensus pattern (24 bp):
TCCCATTATTAGTTCTCATGAGCC
Found at i:63105532 original size:25 final size:24
Alignment explanation
Indices: 63105458--63105549 Score: 80
Period size: 25 Copynumber: 3.8 Consensus size: 24
63105448 GCTCTTGAAC
* *
63105458 CTTCCCATTAT-TGTCTCGTATGAG
1 CTTCCCGTTATATGGCTC-TATGAG
*
63105482 CCTTCCCGTTA-ATGGCTCTTTGGAG
1 -CTTCCCGTTATATGGCTCTAT-GAG
63105507 CTTCCCGTTATATGGCTCATATGAG
1 CTTCCCGTTATATGGCTC-TATGAG
* * *
63105532 CTTTCTGTTTTATGGCTC
1 CTTCCCGTTATATGGCTC
63105550 GAAAGAGCTT
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
24 12 0.21
25 42 0.75
26 2 0.04
ACGTcount: A:0.14, C:0.25, G:0.20, T:0.41
Consensus pattern (24 bp):
CTTCCCGTTATATGGCTCTATGAG
Found at i:63105547 original size:50 final size:49
Alignment explanation
Indices: 63105394--63105549 Score: 113
Period size: 50 Copynumber: 3.1 Consensus size: 49
63105384 GTCCCAATAA
* * ** *
63105394 ATGGCTCTTCGGAGCTTCCCGATTA-AAGGATCTTTTATGAGCTTTCTG-AT
1 ATGGCTCTTTGGAGCTTCCCG-TTATATGG--CTCATATGAGCTTTCTGTTT
* * * * * * * *
63105444 ATTGGCTC-TTGAACCTTCCCATTAT-TGTCTCGTATGAGCCTTCCCGTTA
1 A-TGGCTCTTTGGAGCTTCCCGTTATATGGCTCATATGAG-CTTTCTGTTT
63105493 ATGGCTCTTTGGAGCTTCCCGTTATATGGCTCATATGAGCTTTCTGTTTT
1 ATGGCTCTTTGGAGCTTCCCGTTATATGGCTCATATGAGCTTTCTG-TTT
63105543 ATGGCTC
1 ATGGCTC
63105550 GAAAGAGCTT
Statistics
Matches: 79, Mismatches: 20, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
47 8 0.10
48 11 0.14
49 24 0.30
50 30 0.38
51 6 0.08
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.40
Consensus pattern (49 bp):
ATGGCTCTTTGGAGCTTCCCGTTATATGGCTCATATGAGCTTTCTGTTT
Found at i:63105566 original size:25 final size:24
Alignment explanation
Indices: 63105504--63105566 Score: 56
Period size: 25 Copynumber: 2.5 Consensus size: 24
63105494 TGGCTCTTTG
* *
63105504 GAGCTTCCCGTTATATGGCTCATAT
1 GAGCTT-CCGTTTTATGGCTCATAA
*
63105529 GAGCTTTCTGTTTTATGGCTCGA-AA
1 GAGC-TTCCGTTTTATGGCTC-ATAA
63105554 GAGCTTCGCGTTT
1 GAGCTTC-CGTTT
63105567 ACATGTTTGC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
24 3 0.10
25 25 0.81
26 3 0.10
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (24 bp):
GAGCTTCCGTTTTATGGCTCATAA
Found at i:63106887 original size:43 final size:43
Alignment explanation
Indices: 63106792--63106889 Score: 124
Period size: 43 Copynumber: 2.3 Consensus size: 43
63106782 ACAACCTGAG
* * * *
63106792 ACACGGGCATGTTTTTTGACTGTGTTTGCCACACGGCTTAGCC
1 ACACGGGCGTGTTTCTTGACCGTGTTTGCCACACGGCCTAGCC
* * *
63106835 ACACGGGCGTGTTTCTTGACCGTGTTTGCTACATGGCCTGGCC
1 ACACGGGCGTGTTTCTTGACCGTGTTTGCCACACGGCCTAGCC
*
63106878 ACACAGGCGTGT
1 ACACGGGCGTGT
63106890 GTCCCCTGTA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.15, C:0.27, G:0.29, T:0.30
Consensus pattern (43 bp):
ACACGGGCGTGTTTCTTGACCGTGTTTGCCACACGGCCTAGCC
Found at i:63108788 original size:24 final size:24
Alignment explanation
Indices: 63108756--63108809 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
63108746 GTATTCCACT
63108756 AATCATTTGCCTACACCTATATCA
1 AATCATTTGCCTACACCTATATCA
63108780 AATCATTTGCCTACACCTATATCA
1 AATCATTTGCCTACACCTATATCA
63108804 AATCAT
1 AATCAT
63108810 AAGTCTCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.33
Consensus pattern (24 bp):
AATCATTTGCCTACACCTATATCA
Found at i:63128594 original size:23 final size:24
Alignment explanation
Indices: 63128566--63128627 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 24
63128556 GGCGAGACTC
63128566 TTTTTTTATATTAAAT-TT-TTTT
1 TTTTTTTATATTAAATATTATTTT
* *
63128588 TTGTTTTTAAATAAAATATTATTTT
1 TT-TTTTTATATTAAATATTATTTT
63128613 TTTATTTT-TATTAAA
1 TTT-TTTTATATTAAA
63128628 AATATTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
22 2 0.06
23 12 0.38
24 8 0.25
25 10 0.31
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (24 bp):
TTTTTTTATATTAAATATTATTTT
Found at i:63128627 original size:25 final size:27
Alignment explanation
Indices: 63128583--63128633 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
63128573 ATATTAAATT
*
63128583 TTTTTTTGTTTTTAAAT-AAAATATTA
1 TTTTTTTATTTTTAAATAAAAATATTA
*
63128609 TTTTTTTATTTTT-ATTAAAAATATT
1 TTTTTTTATTTTTAAATAAAAATATT
63128634 TAAATTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (27 bp):
TTTTTTTATTTTTAAATAAAAATATTA
Found at i:63128961 original size:23 final size:21
Alignment explanation
Indices: 63128928--63128994 Score: 75
Period size: 20 Copynumber: 3.1 Consensus size: 21
63128918 CCAACCACCG
63128928 GAAGAGAGAAAGAAAAGAGAGAAA
1 GAAGA-AGAAAGAAAAGA-AG-AA
* *
63128952 GGAGAAGAAA-AAATGAAGAA
1 GAAGAAGAAAGAAAAGAAGAA
63128972 GAAGAAGAAAG-AAAGAAGAA
1 GAAGAAGAAAGAAAAGAAGAA
63128992 GAA
1 GAA
63128995 AATGTAATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
20 22 0.58
21 2 0.05
22 5 0.13
23 5 0.13
24 4 0.11
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.01
Consensus pattern (21 bp):
GAAGAAGAAAGAAAAGAAGAA
Found at i:63128976 original size:17 final size:17
Alignment explanation
Indices: 63128937--63128996 Score: 68
Period size: 17 Copynumber: 3.4 Consensus size: 17
63128927 GGAAGAGAGA
*
63128937 AAGAAAAGAGAGAAAGGAG
1 AAGAAAA-A-AGAAAGAAG
63128956 AAGAAAAAATG-AAGAAG
1 AAGAAAAAA-GAAAGAAG
*
63128973 AAGAAGAAAGAAAGAAG
1 AAGAAAAAAGAAAGAAG
63128990 AAGAAAA
1 AAGAAAA
63128997 TGTAATGTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
16 1 0.03
17 26 0.72
18 2 0.06
19 7 0.19
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (17 bp):
AAGAAAAAAGAAAGAAG
Found at i:63132059 original size:6 final size:6
Alignment explanation
Indices: 63132050--63132093 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
63132040 ACATCATGCA
* * *
63132050 CCAGAG CCAGAG ACAAAG CCAGAG CCAGAG CTAGAG CCAGAG CC
1 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CC
63132094 GGAACTACAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.36, C:0.32, G:0.30, T:0.02
Consensus pattern (6 bp):
CCAGAG
Found at i:63132538 original size:21 final size:22
Alignment explanation
Indices: 63132512--63132553 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
63132502 CTCTTGAAAC
*
63132512 AGGGGC-ACATGCCCATGTGGA
1 AGGGGCAACACGCCCATGTGGA
*
63132533 AGGGGCAACACGCCCGTGTGG
1 AGGGGCAACACGCCCATGTGG
63132554 CCTTCTTGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.21, C:0.26, G:0.40, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCATGTGGA
Found at i:63133921 original size:49 final size:48
Alignment explanation
Indices: 63133827--63134075 Score: 207
Period size: 49 Copynumber: 5.2 Consensus size: 48
63133817 TTCCAAACAT
* * * *
63133827 GGTCTTACACTGGCTCTCACA-TCTA-AGTCGATGTCATGTCCCAGACA
1 GGTCTTACACTGACTCTCATACTC-AGTGTCGATGCCATGTCCCAGACA
63133874 GGTCTTACACTGACT-TCCATACGTCAAG-G-CTGATGCCATGTCCCAGACA
1 GGTCTTACACTGACTCT-CATAC-TC-AGTGTC-GATGCCATGTCCCAGACA
* ** * * *
63133923 AGTCTTACACTGGTTCTCACTTA-TCTGTGTCAATGCCATGTCTCAGACA
1 GGTCTTACACTGACTCTCA--TACTCAGTGTCGATGCCATGTCCCAGACA
* * *
63133972 GGTCTTACACT-A---ACATACCTCA-AGCCGATGCCATGTCCCAGACA
1 GGTCTTACACTGACTCTCATA-CTCAGTGTCGATGCCATGTCCCAGACA
63134016 GGTCTTACACTGACTCTCAT-CTATCAGTGTCGATGCCATGTCCCAGACA
1 GGTCTTACACTGACTCTCATAC--TCAGTGTCGATGCCATGTCCCAGACA
63134065 GGTCTTACACT
1 GGTCTTACACT
63134076 AGCACACACA
Statistics
Matches: 162, Mismatches: 21, Indels: 36
0.74 0.10 0.16
Matches are distributed among these distances:
43 2 0.01
44 29 0.18
45 5 0.03
46 2 0.01
47 17 0.10
48 8 0.05
49 95 0.59
50 2 0.01
51 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (48 bp):
GGTCTTACACTGACTCTCATACTCAGTGTCGATGCCATGTCCCAGACA
Found at i:63134021 original size:93 final size:95
Alignment explanation
Indices: 63133827--63134076 Score: 321
Period size: 93 Copynumber: 2.6 Consensus size: 95
63133817 TTCCAAACAT
** *
63133827 GGTCTTACACTGGCTCTCAC--ATCTAAGTCGATGTCATGTCCCAGACAGGTCTTACACTGACTT
1 GGTCTTACACTGGCTCTCACTTATCTGTGTCGATGCCATGTCCCAGACAGGTCTTACACT-A--T
* * *
63133890 CCATACGTCAAGGCTGATGCCATGTCCCAGACA
63 ACATACCTCAAGGCCGATGCCATGTCCCAGACA
* * * *
63133923 AGTCTTACACTGGTTCTCACTTATCTGTGTCAATGCCATGTCTCAGACAGGTCTTACACTA-ACA
1 GGTCTTACACTGGCTCTCACTTATCTGTGTCGATGCCATGTCCCAGACAGGTCTTACACTATACA
63133987 TACCTCAA-GCCGATGCCATGTCCCAGACA
66 TACCTCAAGGCCGATGCCATGTCCCAGACA
* *
63134016 GGTCTTACACTGACTCTCA-TCTATCAGTGTCGATGCCATGTCCCAGACAGGTCTTACACTA
1 GGTCTTACACTGGCTCTCACT-TATCTGTGTCGATGCCATGTCCCAGACAGGTCTTACACTA
63134077 GCACACACAT
Statistics
Matches: 135, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
92 1 0.01
93 73 0.54
94 9 0.07
96 18 0.13
97 1 0.01
98 33 0.24
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (95 bp):
GGTCTTACACTGGCTCTCACTTATCTGTGTCGATGCCATGTCCCAGACAGGTCTTACACTATACA
TACCTCAAGGCCGATGCCATGTCCCAGACA
Found at i:63141649 original size:49 final size:47
Alignment explanation
Indices: 63141544--63141813 Score: 208
Period size: 49 Copynumber: 5.6 Consensus size: 47
63141534 CGATGCTGAC
* * * *
63141544 GCCATGTTCCAAACATGGTCTTACACTGACTCTCACA-TCTAAGTCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGACTTTCATACTC-AAGTCGAT
63141592 GCCATGTCCCAGACAGGTCTTACACTGACTTTCATACGTCAAGGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTTTCATAC-TCAA-GTCGAT
* * * * * * *
63141641 GCCATGTCCCAGATAGGTCTTACACTGGCTCTCACTTATTTATGTTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTTTCA--TACTCAAGTCGAT
* * * ** *
63141690 GACATGTCCCAGAAAGGTCTTACACT-AGCTTGCATATCTTGAGGCTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGA-CTTTCATA-CTCAAGTC-GAT
* *
63141739 ACCGTGTCCCAGACAGGTCTTACACTGACTCTT-AT-CT-ATCAGTGCTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACT-TTCATACTCA--AGT-C-GAT
63141788 GCCATGTCCCAGACAGGTCTTACACT
1 GCCATGTCCCAGACAGGTCTTACACT
63141814 AGCACACACA
Statistics
Matches: 179, Mismatches: 30, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
47 23 0.13
48 20 0.11
49 130 0.73
50 4 0.02
51 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (47 bp):
GCCATGTCCCAGACAGGTCTTACACTGACTTTCATACTCAAGTCGAT
Found at i:63141711 original size:98 final size:98
Alignment explanation
Indices: 63141545--63141816 Score: 288
Period size: 98 Copynumber: 2.8 Consensus size: 98
63141535 GATGCTGACG
* * * * *
63141545 CCATGTTCCAAACATGGTCTTACACTGACTCTCAC--ATCTAAGTCGATGCCATGTCCCAGACAG
1 CCATGTCCCAGACA-GGTCTTACACTGACTCTCACTTATTTATGTTGATGCCATGTCCCAGACAG
* *
63141608 GTCTTACACT-GACTTTCATA-CGTCAAGG-TCGATG
65 GTCTTACACTAG-CTTGCATATC-TCAAGGCT-GATA
* * * *
63141642 CCATGTCCCAGATAGGTCTTACACTGGCTCTCACTTATTTATGTTGATGACATGTCCCAGAAAGG
1 CCATGTCCCAGACAGGTCTTACACTGACTCTCACTTATTTATGTTGATGCCATGTCCCAGACAGG
**
63141707 TCTTACACTAGCTTGCATATCTTGAGGCTGATA
66 TCTTACACTAGCTTGCATATCTCAAGGCTGATA
* * * *
63141740 CCGTGTCCCAGACAGGTCTTACACTGACTCTTA-TCTA-TCAGTGCTGATGCCATGTCCCAGACA
1 CCATGTCCCAGACAGGTCTTACACTGACTCTCACT-TATTTA-TGTTGATGCCATGTCCCAGACA
63141803 GGTCTTACACTAGC
64 GGTCTTACACTAGC
63141817 ACACACATCA
Statistics
Matches: 147, Mismatches: 21, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
96 19 0.13
97 14 0.10
98 111 0.76
99 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (98 bp):
CCATGTCCCAGACAGGTCTTACACTGACTCTCACTTATTTATGTTGATGCCATGTCCCAGACAGG
TCTTACACTAGCTTGCATATCTCAAGGCTGATA
Found at i:63146434 original size:24 final size:23
Alignment explanation
Indices: 63146402--63146450 Score: 89
Period size: 24 Copynumber: 2.1 Consensus size: 23
63146392 TTATTTCCGT
63146402 TCTGCTAAATTTTGTGTCTGTTGC
1 TCTGCTAAATTTTGTGTCTG-TGC
63146426 TCTGCTAAATTTTGTGTCTGTGC
1 TCTGCTAAATTTTGTGTCTGTGC
63146449 TC
1 TC
63146451 ATTTGATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.12, C:0.18, G:0.20, T:0.49
Consensus pattern (23 bp):
TCTGCTAAATTTTGTGTCTGTGC
Found at i:63147694 original size:20 final size:20
Alignment explanation
Indices: 63147669--63147738 Score: 79
Period size: 20 Copynumber: 3.4 Consensus size: 20
63147659 AATTAGATTT
63147669 ATTTAAAATAAAAATATTAA
1 ATTTAAAATAAAAATATTAA
*
63147689 ATTTAAATTAAAAATA-TAA
1 ATTTAAAATAAAAATATTAA
* *
63147708 ATTTATAATATTAAATATTTAA
1 ATTTAAAATA-AAAATA-TTAA
63147730 ATATTAAAA
1 AT-TTAAAA
63147739 AAGACTATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
19 11 0.27
20 20 0.49
22 5 0.12
23 5 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTTAAAATAAAAATATTAA
Found at i:63147944 original size:31 final size:30
Alignment explanation
Indices: 63147904--63147993 Score: 85
Period size: 32 Copynumber: 2.8 Consensus size: 30
63147894 TAAAATAATT
63147904 TTTTATAAAATTTTAAAAT-ATATAATTAAAAA
1 TTTT-TAAAATTTTAAAATAATAT-A-TAAAAA
*
63147936 TTTTTAAAAATTTCAAAATAATATATAAAAA
1 TTTTT-AAAATTTTAAAATAATATATAAAAA
*
63147967 TTAATTT-AAATTTATAAAAAAATATAT
1 TT--TTTAAAATTT-TAAAATAATATAT
63147994 TTTAGAATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
31 15 0.30
32 28 0.56
33 7 0.14
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (30 bp):
TTTTTAAAATTTTAAAATAATATATAAAAA
Found at i:63147976 original size:33 final size:32
Alignment explanation
Indices: 63147903--63147968 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
63147893 TTAAAATAAT
*
63147903 TTTTTATAAAATTTTAAAATATATAATTAAAAA
1 TTTTTA-AAAATTTCAAAATATATAATTAAAAA
63147936 TTTTTAAAAATTTCAAAATA-AT-ATATAAAAA
1 TTTTTAAAAATTTCAAAATATATAAT-TAAAAA
63147967 TT
1 TT
63147969 AATTTAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 2 0.06
31 10 0.32
32 13 0.42
33 6 0.19
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (32 bp):
TTTTTAAAAATTTCAAAATATATAATTAAAAA
Found at i:63147982 original size:22 final size:22
Alignment explanation
Indices: 63147957--63148038 Score: 78
Period size: 22 Copynumber: 3.6 Consensus size: 22
63147947 TTCAAAATAA
*
63147957 TATATAAAAATTAATTTAAATT
1 TATATAAAAATTATTTTAAATT
*
63147979 TATAAAAAAATATATTTTAGAATT
1 TATATAAAAAT-TATTTTA-AATT
*
63148003 T-TATAAAAAATATTTTAAACTT
1 TATATAAAAATTATTTTAAA-TT
*
63148025 T-TTTAAAAAATTAT
1 TATAT-AAAAATTAT
63148039 ATATGTTATA
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
21 2 0.04
22 22 0.44
23 21 0.42
24 5 0.10
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (22 bp):
TATATAAAAATTATTTTAAATT
Found at i:63147988 original size:23 final size:25
Alignment explanation
Indices: 63147957--63148012 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
63147947 TTCAAAATAA
*
63147957 TATATAAAAAT-TAATTTA-AA-TT
1 TATAAAAAAATATAATTTAGAATTT
*
63147979 TATAAAAAAATATATTTTAGAATTT
1 TATAAAAAAATATAATTTAGAATTT
63148004 TATAAAAAA
1 TATAAAAAA
63148013 TATTTTAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 10 0.34
23 6 0.21
24 2 0.07
25 11 0.38
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (25 bp):
TATAAAAAAATATAATTTAGAATTT
Found at i:63148261 original size:20 final size:20
Alignment explanation
Indices: 63148232--63148270 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
63148222 ATATTTTTAA
* *
63148232 TTTTTCTTTTAAATTAATTG
1 TTTTTATTTTAAATAAATTG
63148252 TTTTTATTTTAAATAAATT
1 TTTTTATTTTAAATAAATT
63148271 TAATTGTCAC
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:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTTTATTTTAAATAAATTG
Found at i:63153992 original size:30 final size:31
Alignment explanation
Indices: 63153933--63153996 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
63153923 ACTTAACAAG
63153933 CAAATGCTTCTAAAATAATAATAAAAATTAA
1 CAAATGCTTCTAAAATAATAATAAAAATTAA
*
63153964 CAAATGCCTT-TAAAATAATAA-GAAAATTAA
1 CAAATG-CTTCTAAAATAATAATAAAAATTAA
63153994 CAA
1 CAA
63153997 TAAAATAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 11 0.35
31 17 0.55
32 3 0.10
ACGTcount: A:0.58, C:0.11, G:0.05, T:0.27
Consensus pattern (31 bp):
CAAATGCTTCTAAAATAATAATAAAAATTAA
Found at i:63154046 original size:14 final size:14
Alignment explanation
Indices: 63154027--63154057 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
63154017 ATCTAAACAA
63154027 TAACAACAAAATAG
1 TAACAACAAAATAG
*
63154041 TAACAACATAATAG
1 TAACAACAAAATAG
63154055 TAA
1 TAA
63154058 AATGGTAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (14 bp):
TAACAACAAAATAG
Found at i:63154290 original size:36 final size:36
Alignment explanation
Indices: 63154249--63154320 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
63154239 GGCCTATATT
63154249 TTTGCCCAAACCCTCCCACATTTCGGGCGGGCCTTC
1 TTTGCCCAAACCCTCCCACATTTCGGGCGGGCCTTC
63154285 TTTGCCCAAACCCTCCCACATTTCGGGCGGGCCTTC
1 TTTGCCCAAACCCTCCCACATTTCGGGCGGGCCTTC
63154321 GGGCCGGCAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.14, C:0.42, G:0.19, T:0.25
Consensus pattern (36 bp):
TTTGCCCAAACCCTCCCACATTTCGGGCGGGCCTTC
Found at i:63155287 original size:10 final size:11
Alignment explanation
Indices: 63155272--63155318 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
63155262 TCGATCCTAC
63155272 TACTATT-TAT
1 TACTATTATAT
*
63155282 TACTATTAAAT
1 TACTATTATAT
63155293 TACTACTCTATAT
1 TACTA-T-TATAT
*
63155306 TACTATTAAAT
1 TACTATTATAT
63155317 TA
1 TA
63155319 AGTTAGAGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 7 0.23
11 13 0.42
12 2 0.06
13 9 0.29
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (11 bp):
TACTATTATAT
Found at i:63155306 original size:24 final size:24
Alignment explanation
Indices: 63155269--63155318 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
63155259 GGATCGATCC
*
63155269 TACTACTATTTATTACTATTAAAT
1 TACTACTATATATTACTATTAAAT
*
63155293 TACTACTCTATATTACTATTAAAT
1 TACTACTATATATTACTATTAAAT
63155317 TA
1 TA
63155319 AGTTAGAGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (24 bp):
TACTACTATATATTACTATTAAAT
Found at i:63161449 original size:50 final size:51
Alignment explanation
Indices: 63161382--63161477 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 51
63161372 AACACAACAG
* * * *
63161382 GTGAAGCCATTAGGGATGAGGGTGACGTTGAGTCTTCAAATGAAGAGACAT
1 GTGAAGCCATTAGGGATGAAGATGACGTCGAGTCTTCAAAAGAAGAGACAT
* * *
63161433 GTGAAGGCATT-GGGATGAAGATGATGTCGAGTCTTTAAAAGAAGA
1 GTGAAGCCATTAGGGATGAAGATGACGTCGAGTCTTCAAAAGAAGA
63161478 TGATGTTGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
50 28 0.74
51 10 0.26
ACGTcount: A:0.33, C:0.09, G:0.33, T:0.24
Consensus pattern (51 bp):
GTGAAGCCATTAGGGATGAAGATGACGTCGAGTCTTCAAAAGAAGAGACAT
Found at i:63162382 original size:17 final size:17
Alignment explanation
Indices: 63162360--63162392 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
63162350 TTAACTTAAC
63162360 TAAATTAAT-TTCTCAAT
1 TAAATT-ATGTTCTCAAT
63162377 TAAATTATGTTCTCAA
1 TAAATTATGTTCTCAA
63162393 CTCAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.39, C:0.12, G:0.03, T:0.45
Consensus pattern (17 bp):
TAAATTATGTTCTCAAT
Found at i:63163448 original size:13 final size:12
Alignment explanation
Indices: 63163425--63163454 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
63163415 AATTTCAATT
63163425 TTATTAGGATAA
1 TTATTAGGATAA
63163437 TTATTAAGGATAA
1 TTATT-AGGATAA
63163450 TTATT
1 TTATT
63163455 TAGATTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (12 bp):
TTATTAGGATAA
Found at i:63163496 original size:10 final size:10
Alignment explanation
Indices: 63163472--63163520 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
63163462 AATTTTAGGT
63163472 TTTAT-TTTCA
1 TTTATCTTT-A
63163482 TTTATCTTTA
1 TTTATCTTTA
*
63163492 ATTATCTTTA
1 TTTATCTTTA
63163502 TTTAT-TTGTA
1 TTTATCTT-TA
63163512 TTTATCTTT
1 TTTATCTTT
63163521 TAGAATTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 27 0.79
11 5 0.15
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:63164272 original size:17 final size:18
Alignment explanation
Indices: 63164240--63164273 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
63164230 TATTCTTCAT
*
63164240 TTTAATTTTTGCAATTTA
1 TTTAATTTTCGCAATTTA
63164258 TTTAA-TTTCGCAATTT
1 TTTAATTTTCGCAATTT
63164274 CAATTCAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (18 bp):
TTTAATTTTCGCAATTTA
Found at i:63168363 original size:16 final size:16
Alignment explanation
Indices: 63168344--63168378 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
63168334 CATATAATAA
63168344 ATTATTAATATAAATT
1 ATTATTAATATAAATT
**
63168360 ATTATTTTTATAAATT
1 ATTATTAATATAAATT
63168376 ATT
1 ATT
63168379 TAATATTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTATTAATATAAATT
Found at i:63168421 original size:30 final size:32
Alignment explanation
Indices: 63168338--63168423 Score: 94
Period size: 30 Copynumber: 2.8 Consensus size: 32
63168328 TTTAGTCATA
63168338 TAATAAATTAT-TAATA-TA-AATTATTATTT
1 TAATAAATTATATAATATTACAATTATTATTT
* * *
63168367 TTATAAATTATTTAATATTTCAATT-TTATTT
1 TAATAAATTATATAATATTACAATTATTATTT
63168398 TAAT-AATTA-ATAATTATTACAATTAT
1 TAATAAATTATATAA-TATTACAATTAT
63168424 AAATATATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
29 13 0.28
30 19 0.40
31 11 0.23
32 4 0.09
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (32 bp):
TAATAAATTATATAATATTACAATTATTATTT
Found at i:63174138 original size:21 final size:21
Alignment explanation
Indices: 63174106--63174146 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
63174096 AGGCTCGAGG
63174106 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
63174127 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
63174147 CCAATTGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:63179206 original size:24 final size:24
Alignment explanation
Indices: 63179170--63179226 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
63179160 TGATGAAAGC
**
63179170 ATGAGCCCAAAAACTCATAGGTAT
1 ATGAGCCTGAAAACTCATAGGTAT
63179194 ATGAGCCTGAAAACTCATAGGTAT
1 ATGAGCCTGAAAACTCATAGGTAT
*
63179218 ATGAACCTG
1 ATGAGCCTG
63179227 TGCCAGCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (24 bp):
ATGAGCCTGAAAACTCATAGGTAT
Found at i:63182884 original size:21 final size:21
Alignment explanation
Indices: 63182852--63182892 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
63182842 GAACAATTGG
63182852 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
63182873 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
63182893 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:63186182 original size:14 final size:14
Alignment explanation
Indices: 63186163--63186196 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
63186153 AGAAAAAAAA
63186163 AAGAAAGAAA-GAAG
1 AAGAAAGAAACG-AG
63186177 AAGAAAGAAACGAG
1 AAGAAAGAAACGAG
63186191 AAGAAA
1 AAGAAA
63186197 AAATCAAGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 18 0.95
15 1 0.05
ACGTcount: A:0.71, C:0.03, G:0.26, T:0.00
Consensus pattern (14 bp):
AAGAAAGAAACGAG
Found at i:63189983 original size:10 final size:10
Alignment explanation
Indices: 63189968--63190011 Score: 63
Period size: 10 Copynumber: 4.5 Consensus size: 10
63189958 AAATCCAAAA
63189968 AATTTATAAT
1 AATTTATAAT
63189978 AATTTATAAT
1 AATTTATAAT
*
63189988 AATTTATTAT
1 AATTTATAAT
*
63189998 TATTTAT-AT
1 AATTTATAAT
63190007 AATTT
1 AATTT
63190012 GTACTTCTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
9 6 0.19
10 25 0.81
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
AATTTATAAT
Found at i:63194957 original size:23 final size:24
Alignment explanation
Indices: 63194905--63194958 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
63194895 ATTAAATAAA
63194905 TATTA-TTTTATTAATATTTTGAT
1 TATTATTTTTATTAATATTTTGAT
*
63194928 T-TGATTTTTAATT-ATATTTT-AT
1 TATTATTTTT-ATTAATATTTTGAT
63194950 TATTATTTT
1 TATTATTTT
63194959 ATTTAGTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
22 5 0.19
23 18 0.69
24 3 0.12
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.69
Consensus pattern (24 bp):
TATTATTTTTATTAATATTTTGAT
Found at i:63196667 original size:41 final size:42
Alignment explanation
Indices: 63196617--63196730 Score: 110
Period size: 41 Copynumber: 2.8 Consensus size: 42
63196607 TCTCATGAGC
63196617 TTCAG-TCAACTCATATGAGTTTCAGTTTAACCCTTCTGGG-
1 TTCAGTTCAACTCATATGAGTTTCAGTTTAACCCTTCTGGGT
* * * *
63196657 TTCAGTTCAACTCTTTTAAGCTTT-AGTTTAACCCTTTTGGGT
1 TTCAGTTCAACTCATATGAG-TTTCAGTTTAACCCTTCTGGGT
* * * *
63196699 TTCTGTT-AAGCTCCTATGAGCTTCCGTTTAAC
1 TTCAGTTCAA-CTCATATGAGTTTCAGTTTAAC
63196731 TCATACGGGT
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
40 5 0.08
41 31 0.53
42 23 0.39
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (42 bp):
TTCAGTTCAACTCATATGAGTTTCAGTTTAACCCTTCTGGGT
Found at i:63214486 original size:22 final size:23
Alignment explanation
Indices: 63214461--63214504 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
63214451 AATTCTATTT
63214461 TAATAATAAATTTTAAA-AATAA
1 TAATAATAAATTTTAAATAATAA
**
63214483 TAATTTTAAATTTTAAATAATA
1 TAATAATAAATTTTAAATAATA
63214505 CTCTTCATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TAATAATAAATTTTAAATAATAA
Found at i:63214489 original size:15 final size:16
Alignment explanation
Indices: 63214462--63214492 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
63214452 ATTCTATTTT
63214462 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
63214478 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
63214493 TTTTAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:63219503 original size:26 final size:26
Alignment explanation
Indices: 63219467--63219550 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
63219457 CATGAAATTC
63219467 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
63219493 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
63219519 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
63219545 TTATCA
1 TTATCA
63219551 CTTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:63224040 original size:16 final size:18
Alignment explanation
Indices: 63224008--63224042 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
63223998 TAATTAACCC
63224008 CTCAATTAAACTAATTTT
1 CTCAATTAAACTAATTTT
63224026 CTCAATT-AA-TAATTTT
1 CTCAATTAAACTAATTTT
63224042 C
1 C
63224043 CTAGACATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 2 0.12
18 7 0.41
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.46
Consensus pattern (18 bp):
CTCAATTAAACTAATTTT
Found at i:63227956 original size:17 final size:16
Alignment explanation
Indices: 63227936--63227970 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
63227926 AAAACAGAGT
*
63227936 AGAAAAGAAGGAAAGAA
1 AGAAAAGAAAG-AAGAA
63227953 AGAAAAGAAAGAAGAA
1 AGAAAAGAAAGAAGAA
63227969 AG
1 AG
63227971 GGAAATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (16 bp):
AGAAAAGAAAGAAGAA
Found at i:63228893 original size:18 final size:18
Alignment explanation
Indices: 63228870--63229003 Score: 169
Period size: 18 Copynumber: 7.4 Consensus size: 18
63228860 TAAATAAAGG
* *
63228870 TACTGAATAACTGATTGC
1 TACTGAATAACTGACTGT
* *
63228888 TACTGAATAATTAACTGT
1 TACTGAATAACTGACTGT
63228906 TACTGAATAACTGACTGT
1 TACTGAATAACTGACTGT
*
63228924 TACTGAATAATTGACTGT
1 TACTGAATAACTGACTGT
*
63228942 TACTGAATAACCGACTGT
1 TACTGAATAACTGACTGT
* *
63228960 TATTGAATAACCGACTGT
1 TACTGAATAACTGACTGT
* * *
63228978 TACTGAACAATTGATTGT
1 TACTGAATAACTGACTGT
63228996 TACTGAAT
1 TACTGAAT
63229004 GATTTTGATA
Statistics
Matches: 100, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 100 1.00
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (18 bp):
TACTGAATAACTGACTGT
Found at i:63228946 original size:54 final size:54
Alignment explanation
Indices: 63228870--63229003 Score: 187
Period size: 54 Copynumber: 2.5 Consensus size: 54
63228860 TAAATAAAGG
* * ** *
63228870 TACTGAATAACTGATTGCTACTGAATAATTAACTGTTACTGAATAACTGACTGT
1 TACTGAATAATTGATTGTTACTGAATAACCAACTGTTACTGAATAACCGACTGT
* * *
63228924 TACTGAATAATTGACTGTTACTGAATAACCGACTGTTATTGAATAACCGACTGT
1 TACTGAATAATTGATTGTTACTGAATAACCAACTGTTACTGAATAACCGACTGT
*
63228978 TACTGAACAATTGATTGTTACTGAAT
1 TACTGAATAATTGATTGTTACTGAAT
63229004 GATTTTGATA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 70 1.00
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (54 bp):
TACTGAATAATTGATTGTTACTGAATAACCAACTGTTACTGAATAACCGACTGT
Found at i:63241278 original size:19 final size:20
Alignment explanation
Indices: 63241254--63241292 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
63241244 ATAACATTAT
63241254 AATAATAATAAT-TTAATAA
1 AATAATAATAATATTAATAA
*
63241273 AATAATATTAATATTAATAA
1 AATAATAATAATATTAATAA
63241293 TTCTAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AATAATAATAATATTAATAA
Found at i:63245963 original size:15 final size:15
Alignment explanation
Indices: 63245943--63245972 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
63245933 ATAGCCTGTT
63245943 TGGTTGAACGGAATG
1 TGGTTGAACGGAATG
*
63245958 TGGTTGAATGGAATG
1 TGGTTGAACGGAATG
63245973 AGCCATTCGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.03, G:0.40, T:0.30
Consensus pattern (15 bp):
TGGTTGAACGGAATG
Found at i:63246509 original size:13 final size:13
Alignment explanation
Indices: 63246491--63246515 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63246481 AATTGATATC
63246491 TGTGAAAATTTTG
1 TGTGAAAATTTTG
63246504 TGTGAAAATTTT
1 TGTGAAAATTTT
63246516 ATCGTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (13 bp):
TGTGAAAATTTTG
Found at i:63251074 original size:13 final size:13
Alignment explanation
Indices: 63251056--63251080 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63251046 CATGTGCGTC
63251056 ACACGGTCATGTT
1 ACACGGTCATGTT
63251069 ACACGGTCATGT
1 ACACGGTCATGT
63251081 GTCCCCTACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (13 bp):
ACACGGTCATGTT
Found at i:63264229 original size:51 final size:56
Alignment explanation
Indices: 63264123--63264230 Score: 147
Period size: 56 Copynumber: 2.0 Consensus size: 56
63264113 GGTTATATGT
*
63264123 TATTTTATAATATTATATATTATAATTTTTATTAATTCGTATTTTAATAATAATTA
1 TATTTTATAATATTATATATTATAATTTTTATTAATTCGTATTTTAATAAAAATTA
*
63264179 TATTTTATTAA-ATTATATA-T-T-A-TTTTATTAATTTGTA-TTTAATAAAAATTA
1 TATTTTA-TAATATTATATATTATAATTTTTATTAATTCGTATTTTAATAAAAATTA
63264230 T
1 T
63264231 GTTAAAATAT
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
51 14 0.29
52 14 0.29
53 1 0.02
54 1 0.02
55 1 0.02
56 15 0.31
57 3 0.06
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (56 bp):
TATTTTATAATATTATATATTATAATTTTTATTAATTCGTATTTTAATAAAAATTA
Found at i:63265654 original size:16 final size:16
Alignment explanation
Indices: 63265616--63265654 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
63265606 GTTTGGTTCA
*
63265616 CTATAATGGAATAGAG
1 CTATAATGGAATAGAC
* *
63265632 TTGTAATGGAATAGAC
1 CTATAATGGAATAGAC
63265648 CTATAAT
1 CTATAAT
63265655 CAGTAATTTA
Statistics
Matches: 18, Mismatches: 5, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.31
Consensus pattern (16 bp):
CTATAATGGAATAGAC
Found at i:63265854 original size:15 final size:15
Alignment explanation
Indices: 63265836--63265865 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
63265826 GGTTATTATT
63265836 AAAAATAATTTAATA
1 AAAAATAATTTAATA
63265851 AAAAATAATTTAATA
1 AAAAATAATTTAATA
63265866 CATTATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAAATAATTTAATA
Found at i:63287395 original size:21 final size:21
Alignment explanation
Indices: 63287346--63287396 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
63287336 AAAAATATAT
*
63287346 TCTTT-AAAAAATAAAAAAAA
1 TCTTTAAAAAAACAAAAAAAA
*
63287366 T-TATGAAAAAAACAAAAAAAA
1 TCT-TTAAAAAAACAAAAAAAA
63287387 TCTTTAAAAA
1 TCTTTAAAAA
63287397 TAAAAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 1 0.04
20 2 0.08
21 21 0.84
22 1 0.04
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.24
Consensus pattern (21 bp):
TCTTTAAAAAAACAAAAAAAA
Found at i:63287402 original size:28 final size:28
Alignment explanation
Indices: 63287371--63287428 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
63287361 AAAAATTATG
*
63287371 AAAAAAACAAAAAAAATCTT-TAAAAAT
1 AAAAAAACAAAAAAAATATTATAAAAAT
* * *
63287398 AAAAATATAAAAAAAATATTATAAAATT
1 AAAAAAACAAAAAAAATATTATAAAAAT
63287426 AAA
1 AAA
63287429 TGTTATCTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.22
Consensus pattern (28 bp):
AAAAAAACAAAAAAAATATTATAAAAAT
Done.