Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 19 of 295
Found at i:5857451 original size:43 final size:43
Alignment explanation
Indices: 5857403--5857567 Score: 151
Period size: 43 Copynumber: 3.8 Consensus size: 43
5857393 AGCTCATACA
* *
5857403 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
* **
5857446 ATGCC-ACTGTTCCAGACAG-GGTCTTACACAAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCAAATATCG
* * *
5857488 ATGCCGATGTCCCAGACATGGTCTTACACGTAAACCTC-AA-ATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGT-AA--TCAAATATCG
* * *
5857532 ATGTCAACGTCCCAGATGTGGTCTTACACGAAATCA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCA
5857568 CACATCGAAA
Statistics
Matches: 97, Mismatches: 16, Indels: 19
0.73 0.12 0.14
Matches are distributed among these distances:
41 2 0.02
42 27 0.28
43 36 0.37
44 30 0.31
45 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAATATCG
Found at i:5857547 original size:44 final size:41
Alignment explanation
Indices: 5857407--5857567 Score: 130
Period size: 42 Copynumber: 3.8 Consensus size: 41
5857397 CATACAATGC
* * *
5857407 CAACATCCCAGACGTGGTCTTACATGT-AATCAAATATCGATG
1 CAACGTCCCAGACATGGTCTTACACGTAAATC-AA-ATCGATG
* * * *
5857449 CCACTGTTCCAGACAGGGTCTTACAC-AAAATCAAATACGATG
1 CAAC-GTCCCAGACATGGTCTTACACGTAAATCAAAT-CGATG
* *
5857491 CCGATGTCCCAGACATGGTCTTACACGTAAACCTCAAATCGATG
1 -CAACGTCCCAGACATGGTCTTACACGTAAA--TCAAATCGATG
**
5857535 TCAACGTCCCAGATGTGGTCTTACACG-AAATCA
1 -CAACGTCCCAGACATGGTCTTACACGTAAATCA
5857568 CACATCGAAA
Statistics
Matches: 95, Mismatches: 17, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
41 5 0.05
42 29 0.31
43 28 0.29
44 27 0.28
45 6 0.06
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (41 bp):
CAACGTCCCAGACATGGTCTTACACGTAAATCAAATCGATG
Found at i:5870184 original size:31 final size:31
Alignment explanation
Indices: 5870149--5870209 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
5870139 AGTTAGACAT
* *
5870149 TAAACTTGACAATTGTTTCTATATTGGAGCC
1 TAAACTAGACAATTATTTCTATATTGGAGCC
* *
5870180 TAAACTAGGCAATTATTTTTATATTGGAGC
1 TAAACTAGACAATTATTTCTATATTGGAGC
5870210 TTGAACCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.39
Consensus pattern (31 bp):
TAAACTAGACAATTATTTCTATATTGGAGCC
Found at i:5873134 original size:7 final size:7
Alignment explanation
Indices: 5873122--5873154 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
5873112 TTTACGAAAT
5873122 TTTTTTA
1 TTTTTTA
5873129 TTTTTTA
1 TTTTTTA
5873136 TTTATTTA
1 TTT-TTTA
5873144 TTTTTTA
1 TTTTTTA
5873151 TTTT
1 TTTT
5873155 AGGAAAACTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTTA
Found at i:5873143 original size:15 final size:15
Alignment explanation
Indices: 5873120--5873153 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
5873110 AGTTTACGAA
*
5873120 ATTTTTTTATTTTTT
1 ATTTATTTATTTTTT
5873135 ATTTATTTATTTTTT
1 ATTTATTTATTTTTT
5873150 ATTT
1 ATTT
5873154 TAGGAAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (15 bp):
ATTTATTTATTTTTT
Found at i:5873234 original size:14 final size:14
Alignment explanation
Indices: 5873215--5873244 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5873205 TTATATCGAG
5873215 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
5873229 ACCAATCCAATTCA
1 ACCAATCCAAATCA
5873243 AC
1 AC
5873245 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:5873951 original size:54 final size:54
Alignment explanation
Indices: 5873869--5874010 Score: 257
Period size: 54 Copynumber: 2.6 Consensus size: 54
5873859 AACCTTGCAG
5873869 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCACAGAGTATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCACAGAGTATTGT
* *
5873923 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTTATAGAGTATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCACAGAGTATTGT
*
5873977 CGGGATTACCAGTCCAAGCTAAATCCCCTGCAAT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAAT
5874011 GACAATTACT
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 85 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (54 bp):
CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCACAGAGTATTGT
Found at i:5874057 original size:59 final size:55
Alignment explanation
Indices: 5873869--5874059 Score: 239
Period size: 54 Copynumber: 3.4 Consensus size: 55
5873859 AACCTTGCAG
5873869 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTC-ACA-GAGTATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCTA-ATGAGTATTGT
5873923 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACT-T-ATAGAGTATTGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCTAAT-GAGTATTGT
* * *
5873977 CGGGATTACCAGTCCAAGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCT-TGGAT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAAT-ATAA--ACTCTAATGAG-TATTG-T
* *
5874036 CTGAATTACCAGTCCAGGCTAAAT
1 CGGGATTACCAGTCCAGGCTAAAT
5874060 TCAGACCCTA
Statistics
Matches: 121, Mismatches: 6, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
52 1 0.01
54 83 0.69
55 3 0.02
57 3 0.02
58 6 0.05
59 25 0.21
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (55 bp):
CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCTAATGAGTATTGT
Found at i:5881459 original size:17 final size:18
Alignment explanation
Indices: 5881437--5881476 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
5881427 GTTTATTTTT
* *
5881437 ATTTTATTTTTCA-AATA
1 ATTTTAGTTTTAATAATA
5881454 ATTTTAGTTTTAATAATA
1 ATTTTAGTTTTAATAATA
5881472 ATTTT
1 ATTTT
5881477 TTAAGCCCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (18 bp):
ATTTTAGTTTTAATAATA
Found at i:5882655 original size:26 final size:24
Alignment explanation
Indices: 5882611--5882660 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
5882601 ATTTGTTTTA
*
5882611 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
5882635 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
5882661 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:5884320 original size:21 final size:20
Alignment explanation
Indices: 5884288--5884345 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
5884278 TCATAATGCT
5884288 TATTTATATTTTAATTAATCA
1 TATTT-TATTTTAATTAATCA
*
5884309 TATTTTAGTTTTAATTAATCT
1 TATTTTA-TTTTAATTAATCA
*
5884330 TAATTTA-TTTAATTAA
1 TATTTTATTTTAATTAA
5884346 GCTTAATTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.26
20 2 0.06
21 23 0.68
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (20 bp):
TATTTTATTTTAATTAATCA
Found at i:5884342 original size:19 final size:20
Alignment explanation
Indices: 5884297--5884353 Score: 71
Period size: 21 Copynumber: 2.9 Consensus size: 20
5884287 TTATTTATAT
* *
5884297 TTTAATTAATCATATTTTAG
1 TTTAATTAATCTTAATTTAG
5884317 TTTTAATTAATCTTAATTTA-
1 -TTTAATTAATCTTAATTTAG
*
5884337 TTTAATTAAGCTTAATT
1 TTTAATTAATCTTAATT
5884354 GTAAATTTCG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 16 0.48
21 17 0.52
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (20 bp):
TTTAATTAATCTTAATTTAG
Found at i:5888181 original size:18 final size:17
Alignment explanation
Indices: 5888141--5888183 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
5888131 AACTTTTTTA
5888141 TATATTTTTAATAATTT
1 TATATTTTTAATAATTT
5888158 TA-ATTTTTAGA-ATATTT
1 TATATTTTTA-ATA-ATTT
5888175 TATATTTTT
1 TATATTTTT
5888184 TAAATTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 8 0.35
17 9 0.39
18 6 0.26
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
TATATTTTTAATAATTT
Found at i:5889662 original size:13 final size:13
Alignment explanation
Indices: 5889644--5889683 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
5889634 ACCTTAATGG
5889644 TAATTTAGTTAAT
1 TAATTTAGTTAAT
*
5889657 TAATTTAGTTGA-
1 TAATTTAGTTAAT
*
5889669 TAATTTACTTAAT
1 TAATTTAGTTAAT
5889682 TA
1 TA
5889684 GTGGCTATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (13 bp):
TAATTTAGTTAAT
Found at i:5892851 original size:26 final size:24
Alignment explanation
Indices: 5892790--5892853 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 24
5892780 TTAGATTTAT
5892790 TTAAATTTTTA-ATAATATAAAGA
1 TTAAATTTTTATATAATATAAAGA
*
5892813 TTAAATTAATTTATTTAATAATAAAGA
1 TTAAATT--TTTATATAAT-ATAAAGA
*
5892840 TATTAATTTTTATA
1 T-TAAATTTTTATA
5892854 AAAGATAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
23 7 0.21
25 4 0.12
26 9 0.27
27 8 0.24
28 5 0.15
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (24 bp):
TTAAATTTTTATATAATATAAAGA
Found at i:5894163 original size:51 final size:52
Alignment explanation
Indices: 5894050--5894169 Score: 129
Period size: 51 Copynumber: 2.3 Consensus size: 52
5894040 TTGTGTAAAT
* * * *
5894050 ATTAACATAATGTATAAGTGTTGAGTACTAAATTTGTTAAATCAAGACTCAA
1 ATTAACAGAATGTATAAATGTTGAGGACTAAATTTGTTAAACCAAGACTCAA
* * * * *
5894102 TTTATC-GAATGTGTAAATGTTGCGGGCTAAATTT-TTAAAACCAAGAC-CAA
1 ATTAACAGAATGTATAAATGTTGAGGACTAAATTTGTT-AAACCAAGACTCAA
5894152 ATTAACAGAATGTATAAA
1 ATTAACAGAATGTATAAA
5894170 CTTTGAAAGT
Statistics
Matches: 54, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
50 9 0.17
51 41 0.76
52 4 0.07
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.33
Consensus pattern (52 bp):
ATTAACAGAATGTATAAATGTTGAGGACTAAATTTGTTAAACCAAGACTCAA
Found at i:5898068 original size:23 final size:24
Alignment explanation
Indices: 5898042--5898086 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
5898032 CAGAAAGTAA
*
5898042 ATTAATTT-TTTTATTAAAAATAC
1 ATTAATTTATGTTATTAAAAATAC
5898065 ATTAATTTATGTTATTAAAAAT
1 ATTAATTTATGTTATTAAAAAT
5898087 TAGTATTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
ATTAATTTATGTTATTAAAAATAC
Found at i:5903711 original size:16 final size:16
Alignment explanation
Indices: 5903690--5903728 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
5903680 GATTAGTTTA
*
5903690 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
*
5903706 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
5903722 CTGTAAT
1 CTGTAAT
5903729 AAGTAATTCA
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:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:5904967 original size:11 final size:11
Alignment explanation
Indices: 5904951--5904975 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5904941 ATTTAATAGA
5904951 GAGTTCAATTC
1 GAGTTCAATTC
5904962 GAGTTCAATTC
1 GAGTTCAATTC
5904973 GAG
1 GAG
5904976 GGGTTACATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (11 bp):
GAGTTCAATTC
Found at i:5905831 original size:18 final size:18
Alignment explanation
Indices: 5905789--5905833 Score: 76
Period size: 17 Copynumber: 2.6 Consensus size: 18
5905779 GAAAAATGAG
5905789 AATTTTT-AAAACACGAA
1 AATTTTTGAAAACACGAA
5905806 AA-TTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
5905823 AATTTTTGAAA
1 AATTTTTGAAA
5905834 CCTGAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.15
17 14 0.54
18 8 0.31
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:5906544 original size:3 final size:3
Alignment explanation
Indices: 5906536--5906572 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
5906526 ACTAATTTAA
5906536 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
5906573 CAAACCAATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:5907444 original size:31 final size:31
Alignment explanation
Indices: 5907364--5907437 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
5907354 AAGGAAATTT
* * * *
5907364 TAAGGGTCTAAGTGAAATTTA-AAAAAAGTA
1 TAAGGGTCAAAATAAAATTTAGGAAAAAGTA
*
5907394 TAAGGGTCAAAATAAAATTTAGGAAAAAGTT
1 TAAGGGTCAAAATAAAATTTAGGAAAAAGTA
*
5907425 TAGGGGTCAAAAT
1 TAAGGGTCAAAAT
5907438 GCAATTTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 18 0.49
31 19 0.51
ACGTcount: A:0.49, C:0.04, G:0.22, T:0.26
Consensus pattern (31 bp):
TAAGGGTCAAAATAAAATTTAGGAAAAAGTA
Found at i:5913709 original size:16 final size:16
Alignment explanation
Indices: 5913676--5913709 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5913666 GGAGATTGTT
* *
5913676 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
5913692 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
5913708 AA
1 AA
5913710 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:5916862 original size:2 final size:2
Alignment explanation
Indices: 5916855--5916881 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5916845 GTATAGTAAA
5916855 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
5916882 AGAAATGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5917284 original size:20 final size:20
Alignment explanation
Indices: 5917259--5917301 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
5917249 AACAGTGTTA
5917259 ATAATTGTATTTGAATTTTG
1 ATAATTGTATTTGAATTTTG
5917279 ATAATTGTATTTGAATTTTG
1 ATAATTGTATTTGAATTTTG
5917299 ATA
1 ATA
5917302 TGTAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (20 bp):
ATAATTGTATTTGAATTTTG
Found at i:5923888 original size:8 final size:9
Alignment explanation
Indices: 5923870--5923896 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
5923860 TGCAATTGAG
5923870 AAAAATAAA
1 AAAAATAAA
5923879 AAAAATAAA
1 AAAAATAAA
5923888 AAAAATAAA
1 AAAAATAAA
5923897 GAACACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAATAAA
Found at i:5924257 original size:29 final size:29
Alignment explanation
Indices: 5924224--5924288 Score: 130
Period size: 29 Copynumber: 2.2 Consensus size: 29
5924214 CCACCTTGAC
5924224 ACAAGTTCTTCATCGCGAACTTTTAATGA
1 ACAAGTTCTTCATCGCGAACTTTTAATGA
5924253 ACAAGTTCTTCATCGCGAACTTTTAATGA
1 ACAAGTTCTTCATCGCGAACTTTTAATGA
5924282 ACAAGTT
1 ACAAGTT
5924289 ATCCACCTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (29 bp):
ACAAGTTCTTCATCGCGAACTTTTAATGA
Found at i:5928344 original size:8 final size:8
Alignment explanation
Indices: 5928326--5928362 Score: 65
Period size: 8 Copynumber: 4.5 Consensus size: 8
5928316 CAAATTAGAG
5928326 AAAAATAAA
1 AAAAAT-AA
5928335 AAAAATAA
1 AAAAATAA
5928343 AAAAATAA
1 AAAAATAA
5928351 AAAAATAA
1 AAAAATAA
5928359 AAAA
1 AAAA
5928363 CACACAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 22 0.79
9 6 0.21
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAATAA
Found at i:5930223 original size:18 final size:16
Alignment explanation
Indices: 5930200--5930240 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
5930190 GAAATAAGGG
5930200 AAGGAAAGAAGGAAAAAA
1 AAGGAAAGAA--AAAAAA
5930218 AAGGAAAGAAAAAAAA
1 AAGGAAAGAAAAAAAA
*
5930234 AGGGAAA
1 AAGGAAA
5930241 ATTTGGAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.55
18 10 0.45
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (16 bp):
AAGGAAAGAAAAAAAA
Found at i:5931872 original size:12 final size:12
Alignment explanation
Indices: 5931855--5931879 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5931845 CTGTGTACCG
5931855 TACTGCTACTGT
1 TACTGCTACTGT
5931867 TACTGCTACTGT
1 TACTGCTACTGT
5931879 T
1 T
5931880 TCGGCTTCGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.16, T:0.44
Consensus pattern (12 bp):
TACTGCTACTGT
Found at i:5932017 original size:18 final size:18
Alignment explanation
Indices: 5931996--5932186 Score: 140
Period size: 18 Copynumber: 10.6 Consensus size: 18
5931986 TAACTTATTA
5931996 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
* *
5932014 TTACCGGATAATTGACTG
1 TTACTGAATAATTGACTG
* *
5932032 TTAGTGGAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
* * * *
5932050 GTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
5932068 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
5932086 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
**
5932104 TCGCTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* *
5932122 TTACTGAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
*
5932141 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
*
5932158 TTACTGAATAATTGATTG
1 TTACTGAATAATTGACTG
*
5932176 TTACTGGATAA
1 TTACTGAATAA
5932187 CCGATCAATT
Statistics
Matches: 138, Mismatches: 25, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
17 20 0.14
18 100 0.72
19 18 0.13
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.38
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:5934340 original size:12 final size:12
Alignment explanation
Indices: 5934325--5934355 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
5934315 TTCTCTTTTA
5934325 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
5934337 TTTTTCTTTCTC
1 TTTTTCTTTCCC
5934349 TTTTTCT
1 TTTTTCT
5934356 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:5934456 original size:16 final size:16
Alignment explanation
Indices: 5934435--5934465 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5934425 TTTATTATTT
5934435 TATTAACATAATATAA
1 TATTAACATAATATAA
*
5934451 TATTAATATAATATA
1 TATTAACATAATATA
5934466 TTAAATATCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:5936171 original size:131 final size:131
Alignment explanation
Indices: 5936006--5936258 Score: 380
Period size: 131 Copynumber: 1.9 Consensus size: 131
5935996 AGAAAACACA
* * **
5936006 AGTGAAATTCAAAAGGAATATTCAATTATTTTGAACAGACGGGAAATTGCAACCCATTACGATAG
1 AGTGAAATTCAAAAGGAATATTCAATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATAG
** *
5936071 GGCACGATTCCTTGAATTGCCAAACATCGAACATTTCCTTCGTTTTAAGGAATTTTTAAAGACAT
66 GGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAGGAATTTTTAAAGACAT
5936136 G
131 G
* *
5936137 AGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATAG
1 AGTGAAATTCAAAAGGAATATTCAATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATAG
** * * *
5936202 GGCACGATTCCCCGAATTTTCAAACTTCGAACGTTGCCTTTGTTTTAAGGAATTTTT
66 GGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAGGAATTTTT
5936259 TAATGTAAAA
Statistics
Matches: 108, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
131 108 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (131 bp):
AGTGAAATTCAAAAGGAATATTCAATTATTTTGAACAAACGAGAAATTGCAACCCAGCACGATAG
GGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAGGAATTTTTAAAGACAT
G
Found at i:5958124 original size:80 final size:78
Alignment explanation
Indices: 5958011--5958199 Score: 299
Period size: 80 Copynumber: 2.4 Consensus size: 78
5958001 ATGCGATCCT
* *
5958011 ATATTGGTT-AGGAAGGGTAAAGAGGTATTGGAATTTATATCTTCCACGTACAAGGGAGTCGGAA
1 ATATTGATTAAGG-AGGGCAAAGAGGTATTGGAATTTATATCTTCCACGTACAAGGGAGTCGGAA
*
5958075 CACAATTGTGAGTTTC
65 AACAA-T-TGAGTTTC
5958091 ATATTGATTAAGGAGGGCAAAGAGGTATTGGAATTTATATCTTCCACGTACAAGGGAGTCGGAAA
1 ATATTGATTAAGGAGGGCAAAGAGGTATTGGAATTTATATCTTCCACGTACAAGGGAGTCGGAAA
*
5958156 ACGATTGAGTTTC
66 ACAATTGAGTTTC
*
5958169 ATATTGATTAAGGAGGGCAAAGAGGTCTTGG
1 ATATTGATTAAGGAGGGCAAAGAGGTATTGG
5958200 TCAATTCATT
Statistics
Matches: 103, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
78 38 0.37
79 1 0.01
80 61 0.59
81 3 0.03
ACGTcount: A:0.32, C:0.11, G:0.29, T:0.29
Consensus pattern (78 bp):
ATATTGATTAAGGAGGGCAAAGAGGTATTGGAATTTATATCTTCCACGTACAAGGGAGTCGGAAA
ACAATTGAGTTTC
Found at i:5958280 original size:79 final size:78
Alignment explanation
Indices: 5958151--5958351 Score: 260
Period size: 79 Copynumber: 2.6 Consensus size: 78
5958141 CAAGGGAGTC
* * * *
5958151 GGAAAACGAT-TGAGTTTCATATTGATTAAGGAGGGCAAAGAGGTCTTGGTCAATTCATTCTTTA
1 GGAAAATGATGTGAGTTCCATATTGATTAGGGAGGGCAAAGAGGTCTTGGTCAATACATTCTTTA
5958215 ATATAGTACAATT
66 ATATAGTACAATT
* * *
5958228 GGAAAATGATTGTGAGTTCCATATTGATTAGGGATGGCAAAGTGGTCTTGGTCAATACGTTCTTT
1 GGAAAATGA-TGTGAGTTCCATATTGATTAGGGAGGGCAAAGAGGTCTTGGTCAATACATTCTTT
* *
5958293 AATATAGTAGAGTT
65 AATATAGTACAATT
* * * * *
5958307 GGAAAATGATGTGAGTCCCATATTGGTTAGGAAGGGAAAAAAGGT
1 GGAAAATGATGTGAGTTCCATATTGATTAGGGAGGGCAAAGAGGT
5958352 ATTGCAATTG
Statistics
Matches: 106, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
77 8 0.08
78 30 0.28
79 68 0.64
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.32
Consensus pattern (78 bp):
GGAAAATGATGTGAGTTCCATATTGATTAGGGAGGGCAAAGAGGTCTTGGTCAATACATTCTTTA
ATATAGTACAATT
Found at i:5961452 original size:151 final size:145
Alignment explanation
Indices: 5961139--5961544 Score: 413
Period size: 151 Copynumber: 2.7 Consensus size: 145
5961129 AATGATGCGA
* * ** * *
5961139 GTCTCATATTGGTTAGGAAGGGCAAAGATGTATTGAAATTTATATGCTCTACATAGAATGGAATC
1 GTCT-ATATTGGTTAGGAA-GGCAAAGAGGTATTGAAA--TATATGTTCTATGTACAATGGAGTC
* * * * *
5961204 GAAAAACGATTTG-AGTTCCATATTGATTAGGAAGGCATAGAGGCCTAGTTGATATGTTCATTGG
62 AAAAAATGATGTGAAGTTCCATATTGATTAGGAAGGCAAAGAGGCCTAGTTGATATGTTCAATGG
**
5961268 AGTCAGAAAGTGATGTAAG
127 AGTCAGAAAGCAATGTAAG
* *
5961287 GTCTATATTAGTTAGGAAGTGCAAAGAGGTATTGAACATGATATGTTCTATGTACAGTGGAGTCA
1 GTCTATATTGGTTAGGAAG-GCAAAGAGGTATTGAA-AT-ATATGTTCTATGTACAATGGAGTCA
* * * * *
5961352 AAAAATGATGTGACAAGTTCCATATTGATTTGGAAGGCAAAGCAGTCTTAGTTGATTTGTTTAAT
63 AAAAATGATGTG--AAGTTCCATATTGATTAGGAAGGCAAAG-AGGCCTAGTTGATATGTTCAAT
* *
5961417 GGAGTCGGAAAGCAATGT-TG
125 GGAGTCAGAAAGCAATGTAAG
* * *
5961437 GTCCTATATTGGTTAGGAAGGACGAAGAGGTCTTGGAATATATATGTTCTATGTATAATGGAGTC
1 GT-CTATATTGGTTAGGAAGG-CAAAGAGGTATT-GAA-ATATATGTTCTATGTACAATGGAGTC
* *
5961502 AGAAAATTATGTGAA-TTCCATATTGATTAGGAAGGGCAAAGAG
62 AAAAAATGATGTGAAGTTCCATATTGATTAGGAA-GGCAAAGAG
5961545 ATTTTGGAAT
Statistics
Matches: 216, Mismatches: 31, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
146 2 0.01
147 56 0.26
148 24 0.11
149 9 0.04
150 29 0.13
151 91 0.42
152 5 0.02
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.31
Consensus pattern (145 bp):
GTCTATATTGGTTAGGAAGGCAAAGAGGTATTGAAATATATGTTCTATGTACAATGGAGTCAAAA
AATGATGTGAAGTTCCATATTGATTAGGAAGGCAAAGAGGCCTAGTTGATATGTTCAATGGAGTC
AGAAAGCAATGTAAG
Found at i:5963115 original size:36 final size:36
Alignment explanation
Indices: 5963066--5963137 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
5963056 TTACCATAAG
5963066 TTAAATTTCAATTTAATCATCTTATAGGGACTTATA
1 TTAAATTTCAATTTAATCATCTTATAGGGACTTATA
* *
5963102 TTAATTTTTAATTTAATCATCTTATAGGGACTTATA
1 TTAAATTTCAATTTAATCATCTTATAGGGACTTATA
5963138 CAGTCTATCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.47
Consensus pattern (36 bp):
TTAAATTTCAATTTAATCATCTTATAGGGACTTATA
Found at i:5965804 original size:76 final size:75
Alignment explanation
Indices: 5965674--5965814 Score: 192
Period size: 76 Copynumber: 1.9 Consensus size: 75
5965664 TGAATTTTTT
** * * * *
5965674 AAAAGAAATGATTTGTTTGCTTTTTAATATAATGTACAGGAACTAATTTGTCCATTTTTTGAGTA
1 AAAAGAAATGATTAATTTGCTCTTTAATATAACGTACAAGAACTAATTTATCCATTTTTTGAGTA
5965739 AATGGGACAA
66 AATGGGACAA
* * *
5965749 AAAATGAAATGATTAATTTGCTCTTTAATCTAACGTATAAGAATTAATTTATCCATTTTTTGAGT
1 AAAA-GAAATGATTAATTTGCTCTTTAATATAACGTACAAGAACTAATTTATCCATTTTTTGAGT
5965814 A
65 A
5965815 GATGAGATAA
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
75 4 0.07
76 52 0.93
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (75 bp):
AAAAGAAATGATTAATTTGCTCTTTAATATAACGTACAAGAACTAATTTATCCATTTTTTGAGTA
AATGGGACAA
Found at i:5968742 original size:16 final size:15
Alignment explanation
Indices: 5968721--5968762 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
5968711 TTTTTAAATT
*
5968721 TTTTTATATTATATTA
1 TTTTTATATT-TAATA
5968737 TTTTTATATTTAATA
1 TTTTTATATTTAATA
*
5968752 ATTTTATATTT
1 TTTTTATATTT
5968763 TTTGGTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTATATTTAATA
Found at i:5972234 original size:17 final size:17
Alignment explanation
Indices: 5972214--5972247 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
5972204 GGAGTCAATG
5972214 GAAAAATATACTCAAAA
1 GAAAAATATACTCAAAA
* *
5972231 GAAACATTTACTCAAAA
1 GAAAAATATACTCAAAA
5972248 TAAGATATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.15, G:0.06, T:0.21
Consensus pattern (17 bp):
GAAAAATATACTCAAAA
Found at i:5984429 original size:18 final size:18
Alignment explanation
Indices: 5984406--5984466 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
5984396 TAACCCCTTG
* *
5984406 TTCCTCACCTACATCTTT
1 TTCCTCACCTGCATCTTC
**
5984424 TTCCTCGGCTGCATCTTC
1 TTCCTCACCTGCATCTTC
* *
5984442 TTACTCACCTGCATCCTC
1 TTCCTCACCTGCATCTTC
5984460 TTCCTCA
1 TTCCTCA
5984467 TATGCACCTT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.13, C:0.41, G:0.07, T:0.39
Consensus pattern (18 bp):
TTCCTCACCTGCATCTTC
Found at i:5987594 original size:20 final size:16
Alignment explanation
Indices: 5987556--5987599 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 16
5987546 AATTACAATA
5987556 TATTTTTAAATTTTTT
1 TATTTTTAAATTTTTT
5987572 TATTTATTAAATATATTTAT
1 TATTT-TTAAAT-T-TTT-T
5987592 TATTTTTA
1 TATTTTTA
5987600 CAAAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.21
17 6 0.25
18 1 0.04
19 6 0.25
20 6 0.25
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTTTAAATTTTTT
Found at i:5987598 original size:29 final size:30
Alignment explanation
Indices: 5987532--5987598 Score: 84
Period size: 29 Copynumber: 2.2 Consensus size: 30
5987522 AAACTTTAAA
*
5987532 TATTATTTTTATTTAATTACAATATATTTT
1 TATTTTTTTTATTTAATTACAATATATTTT
*
5987562 TAAATTTTTTTATTT-ATTA-AATATATTTAT
1 T-ATTTTTTTTATTTAATTACAATATATTT-T
5987592 TATTTTT
1 TATTTTT
5987599 ACAAAAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
29 14 0.44
30 7 0.22
31 11 0.34
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (30 bp):
TATTTTTTTTATTTAATTACAATATATTTT
Found at i:5988354 original size:67 final size:67
Alignment explanation
Indices: 5988280--5988415 Score: 211
Period size: 67 Copynumber: 2.0 Consensus size: 67
5988270 AAATTAAAGT
*
5988280 ATAAACATTAAATCTTAAATTTAAGTATGATAAATTAAA-TTAAATTAAATTTAATCGTTGATCA
1 ATAAACATTAAATCTTAAATTTAAGCATGATAAA-TAAATTTAAATTAAATTTAATCGTTGATCA
5988344 ATA
65 ATA
* * * *
5988347 ATAAACATTAAATTTTAAATTTAGGCATGATAAATAAATTTTAATTTAATTTAATCGTTGATCAA
1 ATAAACATTAAATCTTAAATTTAAGCATGATAAATAAATTTAAATTAAATTTAATCGTTGATCAA
5988412 TA
66 TA
5988414 AT
1 AT
5988416 GAAGAAAAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
66 4 0.06
67 59 0.94
ACGTcount: A:0.47, C:0.06, G:0.07, T:0.40
Consensus pattern (67 bp):
ATAAACATTAAATCTTAAATTTAAGCATGATAAATAAATTTAAATTAAATTTAATCGTTGATCAA
TA
Found at i:5990632 original size:6 final size:5
Alignment explanation
Indices: 5990604--5990659 Score: 58
Period size: 5 Copynumber: 10.6 Consensus size: 5
5990594 CCTTTGTTAT
* *
5990604 ATATA TATATA ATATA ATGTA ATATTA ATATA ATAATA AAATA ATATA
1 ATATA -ATATA ATATA ATATA ATA-TA ATATA AT-ATA ATATA ATATA
*
5990652 TTATA ATA
1 ATATA ATA
5990660 AAACTATTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
5 28 0.67
6 14 0.33
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:5990632 original size:11 final size:10
Alignment explanation
Indices: 5990604--5990659 Score: 58
Period size: 11 Copynumber: 5.3 Consensus size: 10
5990594 CCTTTGTTAT
5990604 ATATATATATA
1 ATATA-ATATA
*
5990615 ATATAATGTA
1 ATATAATATA
5990625 ATATTAATATA
1 ATA-TAATATA
*
5990636 ATAATAAAATA
1 AT-ATAATATA
*
5990647 ATATATTATA
1 ATATAATATA
5990657 ATA
1 ATA
5990660 AAACTATTCT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
10 16 0.42
11 21 0.55
12 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (10 bp):
ATATAATATA
Found at i:5990656 original size:21 final size:21
Alignment explanation
Indices: 5990604--5990660 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
5990594 CCTTTGTTAT
**
5990604 ATATATATATAAT-ATAATGTA
1 ATATAT-TATAATAATAAAATA
*
5990625 ATATTAATATAATAATAAAATA
1 ATA-TATTATAATAATAAAATA
5990647 ATATATTATAATAA
1 ATATATTATAATAA
5990661 AACTATTCTG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 19 0.63
22 11 0.37
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
ATATATTATAATAATAAAATA
Found at i:5990733 original size:6 final size:5
Alignment explanation
Indices: 5990705--5990760 Score: 58
Period size: 5 Copynumber: 10.6 Consensus size: 5
5990695 TTCTTTTGTT
* *
5990705 ATATA TATATA ATATA ATGTA ATATTA ATATA ATAATA AAATA ATATA
1 ATATA -ATATA ATATA ATATA ATA-TA ATATA AT-ATA ATATA ATATA
*
5990753 TTATA ATA
1 ATATA ATA
5990761 AAAATCTTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
5 28 0.67
6 14 0.33
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:5990733 original size:11 final size:10
Alignment explanation
Indices: 5990705--5990760 Score: 58
Period size: 11 Copynumber: 5.3 Consensus size: 10
5990695 TTCTTTTGTT
5990705 ATATATATATA
1 ATATA-ATATA
*
5990716 ATATAATGTA
1 ATATAATATA
5990726 ATATTAATATA
1 ATA-TAATATA
*
5990737 ATAATAAAATA
1 AT-ATAATATA
*
5990748 ATATATTATA
1 ATATAATATA
5990758 ATA
1 ATA
5990761 AAAATCTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
10 16 0.42
11 21 0.55
12 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (10 bp):
ATATAATATA
Found at i:5990755 original size:101 final size:103
Alignment explanation
Indices: 5990560--5990763 Score: 385
Period size: 101 Copynumber: 2.0 Consensus size: 103
5990550 CGTCCCTCAC
5990560 CTATTCTGTTTCTTTTGTTTTATTTCTTTTGCTTCCTTTGTTATATATATATATAATATAATGTA
1 CTATTCTGTTTCTTTTGTTTTATTTCTTTTGCTTCCTTTGTTATATATATATATAATATAATGTA
5990625 ATATTAATATAATAATAAAATAATATATTATAATAAAA
66 ATATTAATATAATAATAAAATAATATATTATAATAAAA
*
5990663 CTATTCTGTTTCTTTTGTTTTATTTCTTTTGCTTCTTTTG-T-TATATATATATAATATAATGTA
1 CTATTCTGTTTCTTTTGTTTTATTTCTTTTGCTTCCTTTGTTATATATATATATAATATAATGTA
5990726 ATATTAATATAATAATAAAATAATATATTATAATAAAA
66 ATATTAATATAATAATAAAATAATATATTATAATAAAA
5990764 ATCTTAACTA
Statistics
Matches: 100, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
101 60 0.60
102 1 0.01
103 39 0.39
ACGTcount: A:0.37, C:0.06, G:0.05, T:0.52
Consensus pattern (103 bp):
CTATTCTGTTTCTTTTGTTTTATTTCTTTTGCTTCCTTTGTTATATATATATATAATATAATGTA
ATATTAATATAATAATAAAATAATATATTATAATAAAA
Found at i:5990757 original size:21 final size:21
Alignment explanation
Indices: 5990705--5990761 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
5990695 TTCTTTTGTT
**
5990705 ATATATATATAAT-ATAATGTA
1 ATATAT-TATAATAATAAAATA
*
5990726 ATATTAATATAATAATAAAATA
1 ATA-TATTATAATAATAAAATA
5990748 ATATATTATAATAA
1 ATATATTATAATAA
5990762 AAATCTTAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 19 0.63
22 11 0.37
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
ATATATTATAATAATAAAATA
Found at i:5991980 original size:8 final size:8
Alignment explanation
Indices: 5991967--5991992 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
5991957 TTAAATTCAG
5991967 AATAATAA
1 AATAATAA
5991975 AATAATAA
1 AATAATAA
5991983 AATAATAA
1 AATAATAA
5991991 AA
1 AA
5991993 CCTAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AATAATAA
Found at i:5994853 original size:6 final size:6
Alignment explanation
Indices: 5994842--5994877 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
5994832 AATTGATTAT
*
5994842 ATTAAA ATTAAA ATTAAA ATTAAA A-TATA ATTAAA A
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA A
5994878 ATATATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATTAAA
Found at i:5994879 original size:18 final size:18
Alignment explanation
Indices: 5994842--5994877 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
5994832 AATTGATTAT
5994842 ATTAAAATTAAAATTAAA
1 ATTAAAATTAAAATTAAA
*
5994860 ATTAAAA-TATAATTAAA
1 ATTAAAATTAAAATTAAA
5994877 A
1 A
5994878 ATATATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
ATTAAAATTAAAATTAAA
Found at i:5995386 original size:27 final size:26
Alignment explanation
Indices: 5995355--5995433 Score: 79
Period size: 29 Copynumber: 2.8 Consensus size: 26
5995345 CAAAATATTA
5995355 AAAATATTTTTTATTTGTTTATATTTGT
1 AAAATATTTTTTATTT-TTT-TATTTGT
*
5995383 -AAATATTTTTAATATTTTTTTATTTTT
1 AAAATATTTTT--TATTTTTTTATTTGT
5995410 AAAATAATTTTTATAATTTTTTTA
1 AAAAT-ATTTTT-T-ATTTTTTTA
5995434 ATATTTTAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
27 16 0.36
28 9 0.20
29 20 0.44
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (26 bp):
AAAATATTTTTTATTTTTTTATTTGT
Found at i:5995401 original size:10 final size:10
Alignment explanation
Indices: 5995357--5995440 Score: 56
Period size: 10 Copynumber: 8.8 Consensus size: 10
5995347 AAATATTAAA
5995357 AATATTTTTT
1 AATATTTTTT
*
5995367 -AT-TTGTTT
1 AATATTTTTT
* *
5995375 -ATATTTGTA
1 AATATTTTTT
5995384 AATA-TTTTT
1 AATATTTTTT
5995393 AATATTTTTT
1 AATATTTTTT
*
5995403 --TATTTTTAA
1 AATATTTTT-T
5995412 AATAATTTTTAT
1 AAT-ATTTTT-T
5995424 AAT-TTTTTT
1 AATATTTTTT
5995433 AATATTTT
1 AATATTTT
5995441 AAAATTTAAC
Statistics
Matches: 58, Mismatches: 8, Indels: 16
0.71 0.10 0.20
Matches are distributed among these distances:
8 14 0.24
9 16 0.28
10 17 0.29
11 1 0.02
12 10 0.17
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (10 bp):
AATATTTTTT
Found at i:5996547 original size:16 final size:15
Alignment explanation
Indices: 5996528--5996562 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
5996518 ATCCTAATAA
*
5996528 TATTTACATCTTTTAT
1 TATTTACAT-TATTAT
5996544 TATTTACATTATTAT
1 TATTTACATTATTAT
5996559 TATT
1 TATT
5996563 GTAGCAGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (15 bp):
TATTTACATTATTAT
Found at i:6001681 original size:30 final size:32
Alignment explanation
Indices: 6001630--6001710 Score: 93
Period size: 28 Copynumber: 2.7 Consensus size: 32
6001620 TAAATATATT
* *
6001630 TATAAGTTTTTAATACTTGTTTCTAATTTTAA
1 TATAAGTTTTTAATAATTGTTTATAATTTTAA
*
6001662 TATAA-TTTTT-ATAATTGTTTATAA-TTT-C
1 TATAAGTTTTTAATAATTGTTTATAATTTTAA
6001690 TAT-AGTTTTTAATAATT-TTTA
1 TATAAGTTTTTAATAATTGTTTA
6001711 ATGTTTATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
27 1 0.02
28 12 0.27
29 9 0.20
30 12 0.27
31 5 0.11
32 5 0.11
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.59
Consensus pattern (32 bp):
TATAAGTTTTTAATAATTGTTTATAATTTTAA
Found at i:6001686 original size:19 final size:18
Alignment explanation
Indices: 6001628--6001710 Score: 67
Period size: 19 Copynumber: 4.2 Consensus size: 18
6001618 TTTAAATATA
*
6001628 TTTATAAGTTTTTAATACTT
1 TTTATAA-TTTTT-ATAATT
*
6001648 GTTTCTAATTTTAATATAATT
1 -TTTATAATTTT--TATAATT
6001669 TTTATAATTGTTTATAATT
1 TTTATAATT-TTTATAATT
* *
6001688 TCTATAGTTTTTAATAATT
1 TTTATAATTTTT-ATAATT
6001707 TTTA
1 TTTA
6001711 ATGTTTATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
18 3 0.06
19 23 0.44
20 12 0.23
21 13 0.25
22 1 0.02
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (18 bp):
TTTATAATTTTTATAATT
Found at i:6001712 original size:10 final size:9
Alignment explanation
Indices: 6001628--6001710 Score: 67
Period size: 10 Copynumber: 8.4 Consensus size: 9
6001618 TTTAAATATA
6001628 TTTATAAGTT
1 TTTATAA-TT
*
6001638 TTTAATACTT
1 TTT-ATAATT
*
6001648 GTTTCTAATT
1 -TTTATAATT
6001658 TTAATATAATT
1 TT--TATAATT
6001669 TTTATAATT
1 TTTATAATT
6001678 GTTTATAATT
1 -TTTATAATT
* *
6001688 TCTATAGTT
1 TTTATAATT
6001697 TTTAATAATT
1 TTT-ATAATT
6001707 TTTA
1 TTTA
6001711 ATGTTTATAT
Statistics
Matches: 59, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
9 19 0.32
10 26 0.44
11 14 0.24
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (9 bp):
TTTATAATT
Found at i:6002763 original size:18 final size:19
Alignment explanation
Indices: 6002730--6002769 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
6002720 CAATTTTTGA
**
6002730 TTTCTTTTTTTCTTTT-TT
1 TTTCTTTTTTGATTTTGTT
6002748 TTTCTTTTTTGATTTTGTT
1 TTTCTTTTTTGATTTTGTT
6002767 TTT
1 TTT
6002770 AAGCTTCAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.03, C:0.07, G:0.05, T:0.85
Consensus pattern (19 bp):
TTTCTTTTTTGATTTTGTT
Found at i:6003769 original size:20 final size:20
Alignment explanation
Indices: 6003746--6003784 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6003736 TTTTTATATT
*
6003746 ACTATTATTGTTA-TATTATC
1 ACTATT-TTCTTACTATTATC
6003766 ACTATTTTCTTACTATTAT
1 ACTATTTTCTTACTATTAT
6003785 TATTACTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.28, C:0.13, G:0.03, T:0.56
Consensus pattern (20 bp):
ACTATTTTCTTACTATTATC
Found at i:6003804 original size:3 final size:3
Alignment explanation
Indices: 6003665--6003789 Score: 121
Period size: 3 Copynumber: 41.7 Consensus size: 3
6003655 TTGTTGTTTA
6003665 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
6003713 TAT CTCCGT TAC TAT TAT TAT TAT TTT TA- TAT TAC TAT TAT TGT TA-
1 TAT -T--AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
6003759 TAT TAT CAC TAT T-T TCT TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
6003790 CTACAACTAT
Statistics
Matches: 99, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
2 6 0.06
3 90 0.91
4 1 0.01
5 1 0.01
6 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:6003975 original size:21 final size:21
Alignment explanation
Indices: 6003928--6003988 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
6003918 CTTTTCTCTG
**
6003928 TTTTATTACTATTATTAATAT
1 TTTTATTACTATTATTTTTAT
**
6003949 CATTATTACTATTATTTTTAT
1 TTTTATTACTATTATTTTTAT
6003970 TTTTATT--T-TTATTTTTAT
1 TTTTATTACTATTATTTTTAT
6003988 T
1 T
6003989 ACTACTACTG
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
18 11 0.32
19 1 0.03
21 22 0.65
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTATTACTATTATTTTTAT
Found at i:6003978 original size:5 final size:6
Alignment explanation
Indices: 6003960--6003988 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
6003950 ATTATTACTA
6003960 TTATTT TTATTT TTATTT TTATTT TTATT
1 TTATTT TTATTT TTATTT TTATTT TTATT
6003989 ACTACTACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTATTT
Found at i:6004110 original size:15 final size:15
Alignment explanation
Indices: 6004090--6004120 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6004080 TATTATTTTC
6004090 TATTTATTACTATTA
1 TATTTATTACTATTA
6004105 TATTTATTACTATTA
1 TATTTATTACTATTA
6004120 T
1 T
6004121 TAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTTATTACTATTA
Found at i:6004112 original size:9 final size:9
Alignment explanation
Indices: 6004060--6004122 Score: 55
Period size: 9 Copynumber: 7.2 Consensus size: 9
6004050 TATCAACATA
6004060 TACTATTAT
1 TACTATTAT
6004069 TA-T-TTAT
1 TACTATTAT
6004076 GTACTATTATT
1 -TACTATTA-T
*
6004087 TTCTATTTAT
1 TACTA-TTAT
6004097 TACTATTA-
1 TACTATTAT
6004105 TA-T-TTAT
1 TACTATTAT
6004112 TACTATTAT
1 TACTATTAT
6004121 TA
1 TA
6004123 ATATATATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 16
0.71 0.03 0.26
Matches are distributed among these distances:
6 3 0.07
7 7 0.16
8 6 0.14
9 12 0.27
10 12 0.27
11 4 0.09
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (9 bp):
TACTATTAT
Found at i:6004230 original size:15 final size:15
Alignment explanation
Indices: 6004212--6004249 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
6004202 CCCACTTAGC
6004212 TATTATTACTATTAT
1 TATTATTACTATTAT
*
6004227 TATTTTTACTATTAT
1 TATTATTACTATTAT
*
6004242 AATTATTA
1 TATTATTA
6004250 TTAATTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTATTACTATTAT
Found at i:6009212 original size:14 final size:13
Alignment explanation
Indices: 6009187--6009220 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
6009177 TTTAAGACTA
6009187 AAAAAGAAAAAAAG
1 AAAAA-AAAAAAAG
6009201 AGAAAAAAAAAAAG
1 A-AAAAAAAAAAAG
6009215 AAAAAA
1 AAAAAA
6009221 GGAGAGGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.26
14 10 0.53
15 4 0.21
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:6010504 original size:47 final size:47
Alignment explanation
Indices: 6010452--6010599 Score: 125
Period size: 47 Copynumber: 3.3 Consensus size: 47
6010442 TCAGGCGAGG
6010452 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
1 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
* * * * * *
6010499 AGCAGATCTAAG----A--TGATTTGGC-ATCTC-TGTATCAGGCG-GGG
1 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT-TTA--CGTTGA
*
6010540 AGCAGATCGAAGACATAGCTAATTTGGCTTTCACGTGTTTACGTTGA
1 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
* *
6010587 AGCAAATCCAAGA
1 AGCAGATCGAAGA
6010600 TGATTTGGCG
Statistics
Matches: 74, Mismatches: 15, Indels: 24
0.65 0.13 0.21
Matches are distributed among these distances:
39 3 0.04
40 5 0.07
41 21 0.28
42 2 0.03
43 1 0.01
45 1 0.01
46 2 0.03
47 31 0.42
48 5 0.07
49 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (47 bp):
AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
Found at i:6010557 original size:88 final size:88
Alignment explanation
Indices: 6010408--6010639 Score: 376
Period size: 88 Copynumber: 2.6 Consensus size: 88
6010398 TGACCTTCGC
* * *
6010408 TGAAGCAGATCCAAGATGATTTGACATCTCTGTATCAGGCGAGGAGCAGATCGAAGACATAGCTG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTA
6010473 ATTTGGCTTTCACGTGTTTACGT
66 ATTTGGCTTTCACGTGTTTACGT
*
6010496 TGAAGCAGATCTAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTA
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTA
6010561 ATTTGGCTTTCACGTGTTTACGT
66 ATTTGGCTTTCACGTGTTTACGT
* * * * *
6010584 TGAAGCAAATCCAAGATGATTTGGCGTCTCTGTAGC-GGCGGAGAGCAGATCAAAGA
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGA
6010640 TTGCAGATTT
Statistics
Matches: 134, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
87 18 0.13
88 116 0.87
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.27
Consensus pattern (88 bp):
TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTA
ATTTGGCTTTCACGTGTTTACGT
Found at i:6010783 original size:132 final size:132
Alignment explanation
Indices: 6010642--6011081 Score: 684
Period size: 132 Copynumber: 3.3 Consensus size: 132
6010632 ATCAAAGATT
* * * * *
6010642 GCAGATTTGGCATCCCTATGTTTATAGGGAAAAGATCGAAGATAGCAGATCTAACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGC
* *
6010707 TTACAGTGAAGCAAATCGAAGATTTTAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
6010772 TA
131 TA
6010774 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGC
*
6010839 TTACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
6010904 TA
131 TA
* * *
6010906 ACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAAATCTGACATTCTTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGC
* *
6010971 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAAC-AGATCGAAG
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAA
6011035 ATA
130 ATA
* * * * * *
6011038 ACAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGAT
6011082 TTCAGCATGG
Statistics
Matches: 287, Mismatches: 19, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
131 2 0.01
132 273 0.95
133 12 0.04
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.26
Consensus pattern (132 bp):
GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGC
TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
TA
Found at i:6010836 original size:88 final size:86
Alignment explanation
Indices: 6010629--6011527 Score: 543
Period size: 88 Copynumber: 10.2 Consensus size: 86
6010619 CGGCGGAGAG
* * * * * * * *
6010629 CAGATCAAAGATTGCAGATTTGGCATCCCTATGTTTATAGGGAAAAGATCGAAGATAGCAGATCT
1 CAGATCGAAGATAGCAGATCTGGCATTCCTGTGCTTATAGGGAACAG-TTGAAGATAGCAGAT-T
** * * *
6010694 AACATTCCTGTGCTTACAGTGAA
64 GGCATCCCTGTGCTTATAGGGAA
* *** * *
6010717 GCAAATCGAAGATTTTAG--CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGAT
1 -CAGATCGAAGATAGCAGATC-TGGCATTCCTGTGCTTATAGGGAAC-AGTTGAAGATAGCAGA-
6010780 TTGGCATCCCTGTGCTTATAGGGAA
62 TTGGCATCCCTGTGCTTATAGGGAA
* * * * ** **
6010805 CAGATCGAAGATAACAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCA-
1 CAGATCGAAGATAGCAGATCTGGCATTCCTGTGCTTATAGGGAA-CAG-TTGAAGATAGCAG-AT
6010869 TGGCATCCCTGTGCTTATAGGGAA
63 TGGCATCCCTGTGCTTATAGGGAA
* * * * * * * *
6010893 CA-AGTTGAAAATAACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAAATC
1 CAGA-TCGAAGATAGCAGATCTGGCATTCCTGTGCTTATAGGGAACAG-TTGAAGATAGCAGAT-
* * * * *
6010957 TGACATTCTTGTGCTTACAGTGAA
63 TGGCATCCCTGTGCTTATAGGGAA
** * * *
6010981 GCAGATCGAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGAT
1 -CAGATCGAAGATAGCAGATC-TGGCATTCCTGTGCTTATAGGGAACAG-TTGAAGATAGCAGAT
* * * *
6011044 CTGACATTCCTGTGCTTACAGTGAA
63 -TGGCATCCCTGTGCTTATAGGGAA
** *
6011069 GCAGATCGAAGATTTCAG--CATGGCA-TCCTTGTGCTTATAGGGAACAAGTTGAAAATAGCAGA
1 -CAGATCGAAGATAGCAGATC-TGGCATTCC-TGTGCTTATAGGGAAC-AGTTGAAGATAGCAGA
** * *
6011131 TTTGGTGTCCCTGTGTTTAAAGGGAA
62 -TTGGCATCCCTGTGCTTATAGGGAA
* * * * **
6011157 CAGATCGAAGATAGCAGATCTGACATTCATGTGCTTACAGTGAAGCAGATTGAAGATTTCAGCA-
1 CAGATCGAAGATAGCAGATCTGGCATTCCTGTGCTTATAGGGAA-CAG-TTGAAGATAGCAG-AT
*
6011221 TGGCATCCCTGTGTTTATAGGGAA
63 TGGCATCCCTGTGCTTATAGGGAA
* * * * *
6011245 CA-AGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATC
1 CAGA-TCGAAGATAGCAGATCTGGCATTCCTGTGCTTATAGGGAACAG-TTGAAGATAGCAGAT-
** * * * *
6011309 TAACATTCATGTGCTTACAGTGAA
63 TGGCATCCCTGTGCTTATAGGGAA
* ** *
6011333 GCAGATTGAAGATTTCAG--CATGGCA-TCCTTGTGCTTATAGGGAACAAGTTGAAAATAGCAGA
1 -CAGATCGAAGATAGCAGATC-TGGCATTCC-TGTGCTTATAGGGAAC-AGTTGAAGATAGCAGA
*
6011395 TTTGGCATCCCTGTGTTTATAGGGAA
62 -TTGGCATCCCTGTGCTTATAGGGAA
* * ** * ** * **
6011421 CAGATCGAAGATAGCAAATCTGACATTATTGTGCTTACAATGAAGCAAATTGAAGATTTCAGCA-
1 CAGATCGAAGATAGCAGATCTGGCATTCCTGTGCTTATAGGGAA-C-AGTTGAAGATAGCAG-AT
*
6011485 TGGCATCCCTGTGTTTATAGGGAA
63 TGGCATCCCTGTGCTTATAGGGAA
*
6011509 CA-AGTTGAAGATAGCAGAT
1 CAGA-TCGAAGATAGCAGAT
6011528 TTGACCCCCT
Statistics
Matches: 650, Mismatches: 122, Indels: 77
0.77 0.14 0.09
Matches are distributed among these distances:
86 2 0.00
87 75 0.12
88 484 0.74
89 84 0.13
90 5 0.01
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (86 bp):
CAGATCGAAGATAGCAGATCTGGCATTCCTGTGCTTATAGGGAACAGTTGAAGATAGCAGATTGG
CATCCCTGTGCTTATAGGGAA
Found at i:6011100 original size:132 final size:131
Alignment explanation
Indices: 6010737--6011528 Score: 807
Period size: 132 Copynumber: 6.0 Consensus size: 131
6010727 GATTTTAGCA
* * * * * *
6010737 TGGCATCCCTGTGCTTATAGGGAACA-AGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAG
1 TGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCAGATCTGACATTCCTGTGCTTACAG
* ** * *
6010801 GGAA-CAGATCGAAGATAACAG-ATCTGACATTCC-TGTGCTTACAGTGAAGC-AGATC-AAAGA
65 TGAAGCAGATCGAAGATTTCAGCA--TGGCA-TCCTTGTGCTTACAGGGAA-CAAG-TCGAAA-A
**
6010861 TTTCAGCA-
124 TAGCAG-AT
* * * * * * *
6010869 TGGCATCCCTGTGCTTATAGGGAACA-AGTTGAAAATAACAGATTTGGCATCCCTGTGCTTATAG
1 TGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCAGATCTGACATTCCTGTGCTTACAG
* ** * * * * * *
6010933 GGAA-CAGATCGAAGATAACA-AATCTGACATTCTTGTGCTTACAGTGAAGC-AGATCGAAGATT
65 TGAAGCAGATCGAAGATTTCAGCA--TGGCATCCTTGTGCTTACAGGGAA-CAAG-TCGAAAATA
*
6010995 TCAGCA-
126 GCAG-AT
*
6011001 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
* *
6011066 GAAGCAGATCGAAGATTTCAGCATGGCATCCTTGTGCTTATAGGGAACAAGTTGAAAATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCTTGTGCTTACAGGGAACAAGTCGAAAATAGCAGA
6011131 TT
131 -T
** * * *
6011133 TGGTGTCCCTGTGTTTAAAGGGAACAGATCGAAGATAGCAGATCTGACATTCATGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
* * * * *
6011198 GAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCTTGTGCTTACAGGGAACAAGTCGAAAATAGCAGA
6011263 TT
131 -T
* *
6011265 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTAACATTCATGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
* * *
6011330 GAAGCAGATTGAAGATTTCAGCATGGCATCCTTGTGCTTATAGGGAACAAGTTGAAAATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCTTGTGCTTACAGGGAACAAGTCGAAAATAGCAGA
6011395 TT
131 -T
* * ** *
6011397 TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAAATCTGACATTATTGTGCTTACAAT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
* * * * * * *
6011462 GAAGCAAATTGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCTTGTGCTTACAGGGAACAAGTCGAAAATAGCAGA
6011527 T
131 T
6011528 T
1 T
6011529 TGACCCCCTA
Statistics
Matches: 604, Mismatches: 47, Indels: 19
0.90 0.07 0.03
Matches are distributed among these distances:
130 1 0.00
131 14 0.02
132 571 0.95
133 17 0.03
134 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (131 bp):
TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
GAAGCAGATCGAAGATTTCAGCATGGCATCCTTGTGCTTACAGGGAACAAGTCGAAAATAGCAGA
T
Found at i:6011133 original size:220 final size:220
Alignment explanation
Indices: 6010781--6011300 Score: 837
Period size: 220 Copynumber: 2.4 Consensus size: 220
6010771 ATAGCAGATT
6010781 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCTTACAGT
*
6010846 GAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAACAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAACAGA
* *
6010911 TTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAAATCTGACATTCTTGTGCTTACA
131 TTTGGCATCCCTGTGCTTAAAGGGAACAGATCGAAGATAACAAATCTGACATTCATGTGCTTACA
6010976 GTGAAGCAGATCGAAGATTTCAGCA
196 GTGAAGCAGATCGAAGATTTCAGCA
6011001 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCTTACAGT
* *
6011066 GAAGCAGATCGAAGATTTCAGCATGGCATCCTTGTGCTTATAGGGAACAAGTTGAAAATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAACAGA
** * * *
6011131 TTTGGTGTCCCTGTGTTTAAAGGGAACAGATCGAAGATAGCAGATCTGACATTCATGTGCTTACA
131 TTTGGCATCCCTGTGCTTAAAGGGAACAGATCGAAGATAACAAATCTGACATTCATGTGCTTACA
*
6011196 GTGAAGCAGATTGAAGATTTCAGCA
196 GTGAAGCAGATCGAAGATTTCAGCA
* * * * * * * *
6011221 TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAG
1 TGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAACAGATCTGACATTCCTGTGCTTACAG
*
6011285 GGAA-CAGATCGAAGAT
65 TGAAGCAGATCGAAGAT
6011301 AGCAGATCTA
Statistics
Matches: 279, Mismatches: 20, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
219 13 0.05
220 266 0.95
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (220 bp):
TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCTTACAGT
GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAACAGA
TTTGGCATCCCTGTGCTTAAAGGGAACAGATCGAAGATAACAAATCTGACATTCATGTGCTTACA
GTGAAGCAGATCGAAGATTTCAGCA
Found at i:6011161 original size:352 final size:352
Alignment explanation
Indices: 6010627--6011432 Score: 1258
Period size: 352 Copynumber: 2.3 Consensus size: 352
6010617 AGCGGCGGAG
* * * * *
6010627 AGCAGATCAAAGATTGCAG-ATTTGGCATCCCTATGTTTATAGGGAAAAGATCGAAGATAGCAGA
1 AGCAGATCGAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGA
* * *
6010691 TCTAACATTCCTGTGCTTACAGTGAAGCAAATCGAAGATTTTAGCATGGCATCCCTGTGCTTATA
64 TCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATA
*
6010756 GGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACA
129 GGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTAAAGGGAACAGATCGAAGATAACA
*
6010821 GATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTA
194 GATCTGACATTCATGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTA
6010886 TAGGGAACAAGTTGAAAATAACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAA
259 TAGGGAACAAGTTGAAAATAACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAA
* *
6010951 CAAATCTGACATTCTTGTGCTTACAGTGA
324 CAAATCTAACATTCATGTGCTTACAGTGA
*
6010980 AGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATC
1 AGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATC
*
6011045 TGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCTTGTGCTTATAGG
66 TGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGG
** * *
6011110 GAACAAGTTGAAAATAGCAGATTTGGTGTCCCTGTGTTTAAAGGGAACAGATCGAAGATAGCAGA
131 GAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTAAAGGGAACAGATCGAAGATAACAGA
** *
6011175 TCTGACATTCATGTGCTTACAGTGAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGTTTATA
196 TCTGACATTCATGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATA
* *
6011240 GGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCA
261 GGGAACAAGTTGAAAATAACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACA
*
6011305 GATCTAACATTCATGTGCTTACAGTGA
326 AATCTAACATTCATGTGCTTACAGTGA
* * * *
6011332 AGCAGATTGAAGATTTCAGCATGGCATCCTTGTGCTTATAGGGAACA-AGTTGAAAATAGCAGAT
1 AGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCAGAT
* * * * * *
6011396 TTGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGAT
65 CTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
6011433 AGCAAATCTG
Statistics
Matches: 416, Mismatches: 35, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
351 13 0.03
352 385 0.93
353 17 0.04
354 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (352 bp):
AGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATC
TGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGG
GAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTAAAGGGAACAGATCGAAGATAACAGA
TCTGACATTCATGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATA
GGGAACAAGTTGAAAATAACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACA
AATCTAACATTCATGTGCTTACAGTGA
Found at i:6011377 original size:220 final size:219
Alignment explanation
Indices: 6010781--6011432 Score: 733
Period size: 220 Copynumber: 3.0 Consensus size: 219
6010771 ATAGCAGATT
* * *
6010781 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAAATAACAGATCTGACATCCCTGTGCTTACAGG
* ** ** * * *
6010846 GAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAACAGA
66 GAAGCAGATCGAAGATAGCAGCATAACATCCATGTGCTTACAGGGAACAAGTTGAAAATAGCAGA
* * *
6010911 TTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAAATCTGACATTCTTGTGCTTACA
131 -TTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCATGTGCTTACA
6010976 GTGAAGCAGATCGAAGATTTCAGCA
195 GTGAAGCAGATCGAAGATTTCAGCA
* * *
6011001 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAAATAACAGATCTGACATCCCTGTGCTTACAGG
** ** * *
6011066 GAAGCAGATCGAAGATTTCAGCATGGCATCCTTGTGCTTATAGGGAACAAGTTGAAAATAGCAGA
66 GAAGCAGATCGAAGATAGCAGCATAACATCCATGTGCTTACAGGGAACAAGTTGAAAATAGCAGA
** * *
6011131 TTTGGTGTCCCTGTGTTTAAAGGGAACAGATCGAAGATAGCAGATCTGACATTCATGTGCTTACA
131 -TTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCATGTGCTTACA
*
6011196 GTGAAGCAGATTGAAGATTTCAGCA
195 GTGAAGCAGATCGAAGATTTCAGCA
* * * * * *
6011221 TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAG
1 TGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAAATAACAGATCTGACATCCCTGTGCTTACAG
* * * *
6011285 GGAA-CAGATCGAAGATAGCAG-ATCTAACATTCATGTGCTTACAGTGAAGC-AGATTGAAGATT
65 GGAAGCAGATCGAAGATAGCAGCA--TAACATCCATGTGCTTACAGGGAA-CAAG-TTGAAAATA
* * * * * * * *
6011347 TCAGCA-TGGCATCCTTGTGCTTATAGGGAACA-AGTTGAAAATAGCAGATTTGGCATCCCTGTG
126 GCAG-ATTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCAGATCTGACATTCATGTG
* * *
6011410 TTTATAGGGAA-CAGATCGAAGAT
189 CTTACAGTGAAGCAGATCGAAGAT
6011433 AGCAAATCTG
Statistics
Matches: 379, Mismatches: 46, Indels: 15
0.86 0.10 0.03
Matches are distributed among these distances:
218 1 0.00
219 28 0.07
220 338 0.89
221 11 0.03
222 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (219 bp):
TGGCATCCCTGTGCTTATAGGGAACAGATCGAAAATAACAGATCTGACATCCCTGTGCTTACAGG
GAAGCAGATCGAAGATAGCAGCATAACATCCATGTGCTTACAGGGAACAAGTTGAAAATAGCAGA
TTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCATGTGCTTACAG
TGAAGCAGATCGAAGATTTCAGCA
Found at i:6011529 original size:132 final size:132
Alignment explanation
Indices: 6011001--6011530 Score: 891
Period size: 132 Copynumber: 4.0 Consensus size: 132
6010991 GATTTCAGCA
* *
6011001 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCATGTGCTTACAGT
* *
6011066 GAAGCAGATCGAAGATTTCAGCATGGCATCCTTGTGCTTATAGGGAACAAGTTGAAAATAGCAGA
66 GAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGA
6011131 TT
131 TT
** * *
6011133 TGGTGTCCCTGTGTTTAAAGGGAACAGATCGAAGATAGCAGATCTGACATTCATGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCATGTGCTTACAGT
*
6011198 GAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAATAGCAGA
66 GAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGA
6011263 TT
131 TT
*
6011265 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTAACATTCATGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCATGTGCTTACAGT
*
6011330 GAAGCAGATTGAAGATTTCAGCATGGCATCCTTGTGCTTATAGGGAACAAGTTGAAAATAGCAGA
66 GAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGA
6011395 TT
131 TT
* * *
6011397 TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAAATCTGACATT-ATTGTGCTTACAA
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCA-TGTGCTTACAG
* * *
6011461 TGAAGCAAATTGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAG
65 TGAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAG
6011526 ATT
130 ATT
6011529 TG
1 TG
6011531 ACCCCCTAAG
Statistics
Matches: 373, Mismatches: 24, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
131 1 0.00
132 372 1.00
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.28
Consensus pattern (132 bp):
TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCATGTGCTTACAGT
GAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGA
TT
Found at i:6011647 original size:87 final size:87
Alignment explanation
Indices: 6011523--6011902 Score: 523
Period size: 87 Copynumber: 4.4 Consensus size: 87
6011513 TTGAAGATAG
* * ** * * *
6011523 CAGAT-TTGACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACG-GGCTTTAACTCCATAAGT
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGATGAACCTTAAAC-CCCTAAGC
* *
6011586 AGTAGGGTAACAGGCTAAATTTA
65 AGTAGGGTAACAGGTTGAATTTA
* *
6011609 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGAACCTTAAACCCCTAAGCA
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGATGAACCTTAAACCCCTAAGCA
*
6011674 GTAGGGTAATAGGTTGAATTTA
66 GTAGGGTAACAGGTTGAATTTA
* * *
6011696 CAGATTTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCAATGAACCTTAAACCCCTAAGCA
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGATGAACCTTAAACCCCTAAGCA
*
6011761 GTAGGGTAACAGGTTGGATTTA
66 GTAGGGTAACAGGTTGAATTTA
* * *
6011783 CAAATCTTAACCCCCTAAGCAGTAGGGAAAAAGATC-AAAGGCGATGGACCTTAAACCCCTAAGC
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAA-GCGATGAACCTTAAACCCCTAAGC
*
6011847 AGTAGGGTAACAGGTGGAATTTA
65 AGTAGGGTAACAGGTTGAATTTA
* *
6011870 CAGATCTTAAACCCCTAAGCAGTAGGGTAACAG
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAG
6011903 GTGGAATTTA
Statistics
Matches: 262, Mismatches: 29, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
86 7 0.03
87 249 0.95
88 6 0.02
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (87 bp):
CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGATGAACCTTAAACCCCTAAGCA
GTAGGGTAACAGGTTGAATTTA
Found at i:6011895 original size:130 final size:131
Alignment explanation
Indices: 6011531--6012027 Score: 485
Period size: 130 Copynumber: 3.8 Consensus size: 131
6011521 AGCAGATTTG
* * * * * *
6011531 ACCCCCTAAGCAGTAGGGAAACAGATCGAAA-GCGACGG-GCTTTAACTCCATAAGTAGTAGGGT
1 ACCCCCTAAGCAGTAGGGAAAAAGATC-AAAGGCGATGGACCTTAAAC-CCCTAAGCAGTAGGGT
* * * * * * * ** *
6011594 AACAGGCTAAATTTAC-AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGAAC
64 AACAGGCTGAATTTACAAGATCTTAAACCCCTAAGCAGTAGGGTAACAGGTGGAA-TTTACAAAT
6011658 CTTA
128 CTTA
* * * * ** *** ** ** * *
6011662 AACCCCTAAGCAGTAGGGTAATAGGTTGAA-TTTACAGATTTTAACCCCCTAAGCAGTAGGGAAA
1 ACCCCCTAAGCAGTAGGGAAAAAGATCAAAGGCGATGGACCTTAAACCCCTAAGCAGTAGGGTAA
* ** *
6011726 CA-GATCGAA--GGCAATGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGG-ATTTACAAA
66 CAGGCT-GAATTTACAA-G-ATCTTAAACCCCTAAGCAGTAGGGTAACAGG-TGGAATTTACAAA
6011787 TCTTA
127 TCTTA
6011792 ACCCCCTAAGCAGTAGGGAAAAAGATCAAAGGCGATGGACCTTAAACCCCTAAGCAGTAGGGTAA
1 ACCCCCTAAGCAGTAGGGAAAAAGATCAAAGGCGATGGACCTTAAACCCCTAAGCAGTAGGGTAA
*
6011857 CAGG-TGGAATTTAC-AGATCTTAAACCCCTAAGCAGTAGGGTAACAGGTGGAATTTACAGATCT
66 CAGGCT-GAATTTACAAGATCTTAAACCCCTAAGCAGTAGGGTAACAGGTGGAATTTACAAATCT
6011920 TA
130 TA
* *
6011922 ACCCCCTAAGCAGTAGGGAAATAGATCGAAGGCGATGGACCTTAAACCCCTAAGCAGTAGGGTAA
1 ACCCCCTAAGCAGTAGGGAAAAAGATCAAAGGCGATGGACCTTAAACCCCTAAGCAGTAGGGTAA
*
6011987 CAGGCTGAATTTACAATATCTT-AACCCCTTAAGCAGTAGGG
66 CAGGCTGAATTTACAAGATCTTAAACCCC-TAAGCAGTAGGG
6012028 AAATAGATCG
Statistics
Matches: 298, Mismatches: 54, Indels: 28
0.78 0.14 0.07
Matches are distributed among these distances:
128 1 0.00
129 6 0.02
130 181 0.61
131 105 0.35
132 4 0.01
133 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (131 bp):
ACCCCCTAAGCAGTAGGGAAAAAGATCAAAGGCGATGGACCTTAAACCCCTAAGCAGTAGGGTAA
CAGGCTGAATTTACAAGATCTTAAACCCCTAAGCAGTAGGGTAACAGGTGGAATTTACAAATCTT
A
Found at i:6011912 original size:217 final size:218
Alignment explanation
Indices: 6011658--6012078 Score: 682
Period size: 217 Copynumber: 1.9 Consensus size: 218
6011648 GGTGATGAAC
* * *
6011658 CTTAAACCCCTAAGCAGTAGGGTAATAGGTTGAATTTACAGATTTTAACCCCCTAAGCAGTAGGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGTGGAATTTACAGATCTTAACCCCCTAAGCAGTAGGG
* *
6011723 AAACAGATCGAAGGCAATGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGGATTTACAA-A
66 AAACAGATCGAAGGCAATGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAATA
* *
6011787 TCTTAACCCCCTAAGCAGTAGGGAAAAAGATCAAAGGCGATGGACCTTAAACCCCTAAGCAGTAG
131 TCTTAACCCCCTAAGCAGTAGGGAAAAAGATCAAAGGCGATGGACCTTAAACCCCAAAGCAATAG
6011852 GGTAACAGGTGGAATTTACAGAT
196 GGTAACAGGTGGAATTTACAGAT
6011875 CTTAAACCCCTAAGCAGTAGGGTAACAGGTGGAATTTACAGATCTTAACCCCCTAAGCAGTAGGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGTGGAATTTACAGATCTTAACCCCCTAAGCAGTAGGG
* * *
6011940 AAATAGATCGAAGGCGATGGACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAATA
66 AAACAGATCGAAGGCAATGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAATA
* * * * * * *
6012005 TCTTAACCCCTTAAGCAGTAGGGAAATAGATCGAAGGTGATGGGCTTTAAGCCCCAAAGCAATAG
131 TCTTAACCCCCTAAGCAGTAGGGAAAAAGATCAAAGGCGATGGACCTTAAACCCCAAAGCAATAG
6012070 GGTAACAGG
196 GGTAACAGG
6012079 CTGAAAATTA
Statistics
Matches: 186, Mismatches: 17, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
217 120 0.65
218 66 0.35
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.21
Consensus pattern (218 bp):
CTTAAACCCCTAAGCAGTAGGGTAACAGGTGGAATTTACAGATCTTAACCCCCTAAGCAGTAGGG
AAACAGATCGAAGGCAATGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAATA
TCTTAACCCCCTAAGCAGTAGGGAAAAAGATCAAAGGCGATGGACCTTAAACCCCAAAGCAATAG
GGTAACAGGTGGAATTTACAGAT
Found at i:6011966 original size:87 final size:88
Alignment explanation
Indices: 6011875--6012083 Score: 323
Period size: 88 Copynumber: 2.4 Consensus size: 88
6011865 ATTTACAGAT
6011875 CTTAAACCCCTAAGCAGTAGGGTAACAGG-TGGAATTTAC-AGATCTTAACCCCCTAAGCAGTAG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGCT-GAATTTACAAGATCTTAACCCCCTAAGCAGTAG
6011938 GGAAATAGATCGAAGGCGATGGAC
65 GGAAATAGATCGAAGGCGATGGAC
* *
6011962 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAATATCTTAACCCCTTAAGCAGTAGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAGG
* *
6012027 GAAATAGATCGAAGGTGATGGGC
66 GAAATAGATCGAAGGCGATGGAC
* * * *
6012050 TTTAAGCCCCAAAGCAATAGGGTAACAGGCTGAA
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAA
6012084 AATTATAGAT
Statistics
Matches: 112, Mismatches: 8, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
87 37 0.33
88 75 0.67
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (88 bp):
CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAGG
GAAATAGATCGAAGGCGATGGAC
Found at i:6011974 original size:174 final size:174
Alignment explanation
Indices: 6011614--6011983 Score: 447
Period size: 174 Copynumber: 2.1 Consensus size: 174
6011604 ATTTACAGAT
* * *
6011614 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGAACCTTAAACCCCTAAGCAGTAGG
1 CTTAACCCCCTAAGCAGTAGGGAAAAAGATCAAAGGCGATGAACCTTAAACCCCTAAGCAGTAGG
* * * *
6011679 GTAATAGGTTGAATTTACAGATTTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCAATGAA
66 GTAACAGGTGGAATTTACAGATCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGGCAATGAA
* * * * *** *
6011744 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGGATTTACAAAT
131 CCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGCGACAAAC
*
6011788 CTTAACCCCCTAAGCAGTAGGGAAAAAGATCAAAGGCGATGGACCTTAAACCCCTAAGCAGTAGG
1 CTTAACCCCCTAAGCAGTAGGGAAAAAGATCAAAGGCGATGAACCTTAAACCCCTAAGCAGTAGG
* * * ***
6011853 GTAACAGGTGGAATTTACAGATCTTAAACCCCTAAGCAGTAGGGTAACAGGTGGAATTTACA-G-
66 GTAACAGGTGGAATTTACAGATCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGGCA-ATGA
* * * ***
6011916 ATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAAGGCGATGGAC
130 ACCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAA-GCGACAAAC
*
6011962 CTTAAACCCCTAAGCAGTAGGG
1 CTTAACCCCCTAAGCAGTAGGG
6011984 TAACAGGCTG
Statistics
Matches: 165, Mismatches: 29, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
173 29 0.18
174 135 0.82
175 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (174 bp):
CTTAACCCCCTAAGCAGTAGGGAAAAAGATCAAAGGCGATGAACCTTAAACCCCTAAGCAGTAGG
GTAACAGGTGGAATTTACAGATCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGGCAATGAA
CCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGCGACAAAC
Found at i:6013754 original size:20 final size:20
Alignment explanation
Indices: 6013731--6013769 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6013721 TTTTTATATT
*
6013731 ACTATTATTGTTA-TATTATC
1 ACTATT-TTCTTACTATTATC
6013751 ACTATTTTCTTACTATTAT
1 ACTATTTTCTTACTATTAT
6013770 TATTACTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.28, C:0.13, G:0.03, T:0.56
Consensus pattern (20 bp):
ACTATTTTCTTACTATTATC
Found at i:6013789 original size:3 final size:3
Alignment explanation
Indices: 6013593--6013774 Score: 102
Period size: 3 Copynumber: 59.7 Consensus size: 3
6013583 TTTTCTTGCA
* * **
6013593 TAT TATT TAC TAT TAT TAT TAT TACCT TCAT T-T CAT TAT TAT TAT TGC
1 TAT TA-T TAT TAT TAT TAT TAT TA--T T-AT TAT TAT TAT TAT TAT TAT
** * * * *
6013641 TAT TGC TAT TTT TTT TGT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
6013689 TAT TAT TAT TAT CTCCGT TAC TAT TAT TAT TAT TTT TA- TAT TAC TAT
1 TAT TAT TAT TAT -T--AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
6013736 TAT TGT TA- TAT TAT CAC TAT T-T TCT TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
6013775 CTACAACTAT
Statistics
Matches: 136, Mismatches: 32, Indels: 22
0.72 0.17 0.12
Matches are distributed among these distances:
2 7 0.05
3 118 0.87
4 6 0.04
5 3 0.02
6 2 0.01
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:6013960 original size:21 final size:21
Alignment explanation
Indices: 6013913--6014017 Score: 84
Period size: 21 Copynumber: 4.8 Consensus size: 21
6013903 CTTTTCTCTG
**
6013913 TTTTATTACTATTATTAATAT
1 TTTTATTACTATTATTTTTAT
**
6013934 CATTATTACTATTATTTTTAT
1 TTTTATTACTATTATTTTTAT
* *
6013955 TTTTATTTTTATTTTTATTTTTAT
1 TTTTA---TTACTATTATTTTTAT
* * *
6013979 TTTTATTACTACTACTGTTAT
1 TTTTATTACTATTATTTTTAT
6014000 TTTTATTAACATATTATT
1 TTTTATT-AC-TATTATT
6014018 ATTTCCTTTT
Statistics
Matches: 64, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
21 38 0.59
22 2 0.03
23 5 0.08
24 19 0.30
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.66
Consensus pattern (21 bp):
TTTTATTACTATTATTTTTAT
Found at i:6014005 original size:6 final size:6
Alignment explanation
Indices: 6013945--6013985 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
6013935 ATTATTACTA
6013945 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATT
6013986 ACTACTACTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTATTT
Found at i:6014109 original size:15 final size:15
Alignment explanation
Indices: 6014089--6014119 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6014079 TATTATTTTC
6014089 TATTTATTACTATTA
1 TATTTATTACTATTA
6014104 TATTTATTACTATTA
1 TATTTATTACTATTA
6014119 T
1 T
6014120 TAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTTATTACTATTA
Found at i:6014111 original size:9 final size:9
Alignment explanation
Indices: 6014059--6014121 Score: 55
Period size: 9 Copynumber: 7.2 Consensus size: 9
6014049 TATCAACATA
6014059 TACTATTAT
1 TACTATTAT
6014068 TA-T-TTAT
1 TACTATTAT
6014075 GTACTATTATT
1 -TACTATTA-T
*
6014086 TTCTATTTAT
1 TACTA-TTAT
6014096 TACTATTA-
1 TACTATTAT
6014104 TA-T-TTAT
1 TACTATTAT
6014111 TACTATTAT
1 TACTATTAT
6014120 TA
1 TA
6014122 ATATATATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 16
0.71 0.03 0.26
Matches are distributed among these distances:
6 3 0.07
7 7 0.16
8 6 0.14
9 12 0.27
10 12 0.27
11 4 0.09
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (9 bp):
TACTATTAT
Found at i:6014216 original size:3 final size:3
Alignment explanation
Indices: 6014208--6014264 Score: 53
Period size: 3 Copynumber: 19.3 Consensus size: 3
6014198 CCCACTTAGC
* * * * * *
6014208 TAT TAT TAT TAC TAT TAT TAT TTT TAC TAT TAT AAT TAT TAT TAA TCT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6014256 T-T TAT TAT T
1 TAT TAT TAT T
6014265 CTCTTACATT
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:6014226 original size:15 final size:15
Alignment explanation
Indices: 6014208--6014248 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
6014198 CCCACTTAGC
6014208 TATTATTATTACTAT
1 TATTATTATTACTAT
*
6014223 TATTATTTTTACTAT
1 TATTATTATTACTAT
*
6014238 TATAATTATTA
1 TATTATTATTA
6014249 TTAATCTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTATTATTACTAT
Found at i:6039913 original size:17 final size:17
Alignment explanation
Indices: 6039873--6039927 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 17
6039863 AATACTTTGA
6039873 AAAATATATAAA-ATAT
1 AAAATATATAAATATAT
* * * *
6039889 TACA-ATATACATTTAT
1 AAAATATATAAATATAT
6039905 AAAATATATAAATATAT
1 AAAATATATAAATATAT
6039922 AAAATA
1 AAAATA
6039928 ATTAAAACTT
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
15 6 0.21
16 7 0.24
17 16 0.55
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAATATATAAATATAT
Found at i:6044155 original size:16 final size:16
Alignment explanation
Indices: 6044134--6044169 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
6044124 TGGTCATTAA
6044134 GAAATCTCCACTTGAT
1 GAAATCTCCACTTGAT
6044150 GAAATCTCCACTTGAT
1 GAAATCTCCACTTGAT
6044166 GAAA
1 GAAA
6044170 ATCAGGTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (16 bp):
GAAATCTCCACTTGAT
Found at i:6045639 original size:21 final size:21
Alignment explanation
Indices: 6045615--6045656 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6045605 TTTTCAGTCC
6045615 CTTCATCTTCACT-CTCTTCTT
1 CTTCATCTTC-CTCCTCTTCTT
*
6045636 CTTCCTCTTCCTCCTCTTCTT
1 CTTCATCTTCCTCCTCTTCTT
6045657 TTTCTTCCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.05, C:0.43, G:0.00, T:0.52
Consensus pattern (21 bp):
CTTCATCTTCCTCCTCTTCTT
Found at i:6045653 original size:18 final size:18
Alignment explanation
Indices: 6045632--6045666 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6045622 TTCACTCTCT
6045632 TCTTCTTCCTCTTCCTCC
1 TCTTCTTCCTCTTCCTCC
**
6045650 TCTTCTTTTTCTTCCTC
1 TCTTCTTCCTCTTCCTC
6045667 GTTCTCCTTC
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:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (18 bp):
TCTTCTTCCTCTTCCTCC
Found at i:6045680 original size:24 final size:23
Alignment explanation
Indices: 6045626--6045681 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 23
6045616 TTCATCTTCA
6045626 CTCTCTTCTTCTTCCTCTTCCTC
1 CTCTCTTCTTCTTCCTCTTCCTC
*
6045649 CTCTTCTTTTTCTTCCTCGTT-CTC
1 CTC-TCTTCTTCTTCCTC-TTCCTC
6045673 CTTCTCTTC
1 C-TCTCTTC
6045682 AACTTCCATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 3 0.11
24 21 0.75
25 4 0.14
ACGTcount: A:0.00, C:0.43, G:0.02, T:0.55
Consensus pattern (23 bp):
CTCTCTTCTTCTTCCTCTTCCTC
Found at i:6053308 original size:21 final size:22
Alignment explanation
Indices: 6053259--6053308 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
6053249 AGTATATATT
* * *
6053259 ATTTTTATTTTACTTTTAGTAA
1 ATTTATATTTTACTTTCACTAA
*
6053281 TTTTATATTTTA-TTTCACTAA
1 ATTTATATTTTACTTTCACTAA
6053302 ATTTATA
1 ATTTATA
6053309 AACATTGGTA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (22 bp):
ATTTATATTTTACTTTCACTAA
Found at i:6053565 original size:21 final size:23
Alignment explanation
Indices: 6053516--6053565 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
6053506 TGAAATTATT
6053516 GAAA-TAAAATATTATTACTAAG
1 GAAATTAAAATATTATTACTAAG
*
6053538 G-AATTAAAATA-T-TTATTAAG
1 GAAATTAAAATATTATTACTAAG
6053558 GAAATTAA
1 GAAATTAA
6053566 TTAGTGAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 8 0.32
21 9 0.36
22 8 0.32
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.34
Consensus pattern (23 bp):
GAAATTAAAATATTATTACTAAG
Found at i:6062648 original size:5 final size:5
Alignment explanation
Indices: 6062638--6062666 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
6062628 GTCTTCAATC
6062638 TCTGG TCTGG TCTGG TCTGG TCTGG TCTG
1 TCTGG TCTGG TCTGG TCTGG TCTGG TCTG
6062667 ATCATAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.21, G:0.38, T:0.41
Consensus pattern (5 bp):
TCTGG
Found at i:6064981 original size:15 final size:14
Alignment explanation
Indices: 6064957--6064986 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
6064947 TCTTTTGGGT
6064957 TTTATTTTATTTTA
1 TTTATTTTATTTTA
6064971 TTTATTTTTATTTTA
1 TTTA-TTTTATTTTA
6064986 T
1 T
6064987 AATTTATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:6078440 original size:11 final size:10
Alignment explanation
Indices: 6078427--6078468 Score: 54
Period size: 11 Copynumber: 4.4 Consensus size: 10
6078417 GAATAAATTA
6078427 ATAATAATAG
1 ATAATAATAG
6078437 AATAATAATAG
1 -ATAATAATAG
6078448 ATAA-AA-AG
1 ATAATAATAG
6078456 ATAATAATA-
1 ATAATAATAG
6078465 ATAA
1 ATAA
6078469 CAAAGGCGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 6 0.21
9 8 0.28
10 5 0.17
11 10 0.34
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (10 bp):
ATAATAATAG
Found at i:6078459 original size:18 final size:18
Alignment explanation
Indices: 6078425--6078473 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
6078415 ATGAATAAAT
* *
6078425 TAATAATAATAGA-ATAA
1 TAATAATAACAAAGATAA
6078442 TAATAGATAA-AAAGATAA
1 TAATA-ATAACAAAGATAA
6078460 TAATAATAACAAAG
1 TAATAATAACAAAG
6078474 GCGTAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 11 0.39
18 17 0.61
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.24
Consensus pattern (18 bp):
TAATAATAACAAAGATAA
Found at i:6081717 original size:12 final size:12
Alignment explanation
Indices: 6081700--6081724 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6081690 CACAACATGC
6081700 ATGGTATTAAAA
1 ATGGTATTAAAA
6081712 ATGGTATTAAAA
1 ATGGTATTAAAA
6081724 A
1 A
6081725 AACATAATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (12 bp):
ATGGTATTAAAA
Found at i:6083525 original size:20 final size:19
Alignment explanation
Indices: 6083479--6083527 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
6083469 TTATTTATTT
*
6083479 TATATAAAATATTTAAAAAT
1 TATA-AAAATATTTAAAAAC
*
6083499 TAAAAAAATATTTGAAAAAC
1 TATAAAAATATTT-AAAAAC
6083519 TATAAAAAT
1 TATAAAAAT
6083528 TCAAAATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
TATAAAAATATTTAAAAAC
Found at i:6085130 original size:6 final size:6
Alignment explanation
Indices: 6085119--6085159 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
6085109 ATGTTTTCCT
6085119 CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA CCTCC
1 CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA CCTCCA CCTCC
6085160 TTTCTATTCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.15, C:0.68, G:0.00, T:0.17
Consensus pattern (6 bp):
CCTCCA
Found at i:6086024 original size:13 final size:11
Alignment explanation
Indices: 6086005--6086038 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 11
6085995 TAGCAATTTA
6086005 TAATAAAATAT
1 TAATAAAATAT
6086016 CTAATTAAAATAT
1 -TAA-TAAAATAT
6086029 TAATAAAATA
1 TAATAAAATA
6086039 ATATTTATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 7 0.33
12 6 0.29
13 8 0.38
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:6086436 original size:21 final size:21
Alignment explanation
Indices: 6086412--6086452 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6086402 ATAATAATAA
6086412 TAATAAAT-TATTAATTATTAT
1 TAATAAATATATT-ATTATTAT
*
6086433 TAATCAATATATTATTATTA
1 TAATAAATATATTATTATTA
6086453 ATCAATATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TAATAAATATATTATTATTAT
Found at i:6086448 original size:18 final size:18
Alignment explanation
Indices: 6086425--6086461 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
6086415 TAAATTATTA
6086425 ATTATTATTAATCAATAT
1 ATTATTATTAATCAATAT
6086443 ATTATTATTAATCAATAT
1 ATTATTATTAATCAATAT
6086461 A
1 A
6086462 CTAAAACCTA
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:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTATTATTAATCAATAT
Found at i:6088011 original size:18 final size:18
Alignment explanation
Indices: 6087988--6088023 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6087978 TTTTCAATAA
*
6087988 AAAAATCCTAAAAATTTT
1 AAAAATCATAAAAATTTT
*
6088006 AAAAATGATAAAAATTTT
1 AAAAATCATAAAAATTTT
6088024 GAAATTTATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (18 bp):
AAAAATCATAAAAATTTT
Found at i:6088705 original size:22 final size:22
Alignment explanation
Indices: 6088680--6088723 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6088670 ATTTTAACCC
6088680 CTTAA-AGTTTATAAAATTATAA
1 CTTAATAG-TTATAAAATTATAA
*
6088702 CTTAATAGTTGTAAAATTATAA
1 CTTAATAGTTATAAAATTATAA
6088724 TCTACCCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.41
Consensus pattern (22 bp):
CTTAATAGTTATAAAATTATAA
Found at i:6091292 original size:18 final size:19
Alignment explanation
Indices: 6091256--6091293 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
6091246 GACTATAATT
6091256 AAATTATAATTAATTAAAA
1 AAATTATAATTAATTAAAA
*
6091275 AAATTATAA-TATTTAAAA
1 AAATTATAATTAATTAAAA
6091293 A
1 A
6091294 TTTCAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATTATAATTAATTAAAA
Found at i:6092124 original size:21 final size:23
Alignment explanation
Indices: 6092081--6092125 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
6092071 ATTTTAAAAA
*
6092081 TAAAAAAAAATTGATCATGTAAT
1 TAAAAAAAAATTGATAATGTAAT
*
6092104 TAAAAAAATATT-ATAAT-TAAT
1 TAAAAAAAAATTGATAATGTAAT
6092125 T
1 T
6092126 TGACTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 4 0.20
23 11 0.55
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (23 bp):
TAAAAAAAAATTGATAATGTAAT
Found at i:6096610 original size:14 final size:14
Alignment explanation
Indices: 6096588--6096667 Score: 70
Period size: 14 Copynumber: 5.4 Consensus size: 14
6096578 TATTTAGTAT
6096588 ATTAATTTTTTAAA
1 ATTAATTTTTTAAA
* *
6096602 ATTATTTTTTTTTATAT
1 ATTA--ATTTTTTA-AA
6096619 ATTAATTTTTTAAA
1 ATTAATTTTTTAAA
*
6096633 ATTATTTTTTATAAA
1 ATTAATTTTT-TAAA
* **
6096648 AATAATTTTAAAAA
1 ATTAATTTTTTAAA
6096662 ATTAAT
1 ATTAAT
6096668 ATATACGAAC
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
14 22 0.42
15 18 0.35
16 7 0.13
17 5 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTAATTTTTTAAA
Found at i:6096622 original size:31 final size:32
Alignment explanation
Indices: 6096580--6096642 Score: 119
Period size: 31 Copynumber: 2.0 Consensus size: 32
6096570 TTTTAGTATA
6096580 TTTAGTATATTAATTTTTTAAAATTATTTTTT
1 TTTAGTATATTAATTTTTTAAAATTATTTTTT
6096612 TTTA-TATATTAATTTTTTAAAATTATTTTTT
1 TTTAGTATATTAATTTTTTAAAATTATTTTTT
6096643 ATAAAAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 27 0.87
32 4 0.13
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (32 bp):
TTTAGTATATTAATTTTTTAAAATTATTTTTT
Found at i:6097686 original size:18 final size:17
Alignment explanation
Indices: 6097665--6097706 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
6097655 AAATTTAAAC
6097665 TAAAAAATCAACA-AAAAG
1 TAAAAAA-CAA-AGAAAAG
6097683 TAAATAAACAAAGAAAAG
1 TAAA-AAACAAAGAAAAG
6097701 TAAAAA
1 TAAAAA
6097707 TTAATGTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 3 0.14
18 16 0.73
19 3 0.14
ACGTcount: A:0.74, C:0.07, G:0.07, T:0.12
Consensus pattern (17 bp):
TAAAAAACAAAGAAAAG
Found at i:6097727 original size:14 final size:14
Alignment explanation
Indices: 6097708--6097758 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
6097698 AAGTAAAAAT
6097708 TAATGTTGTTAATG
1 TAATGTTGTTAATG
6097722 TAATGTTTGTT-A-G
1 TAATG-TTGTTAATG
* *
6097735 T-ATGTTTTTAATT
1 TAATGTTGTTAATG
6097748 TAATGTTGTTA
1 TAATGTTGTTA
6097759 TTGTTTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
11 4 0.13
12 4 0.13
13 3 0.10
14 14 0.47
15 5 0.17
ACGTcount: A:0.25, C:0.00, G:0.18, T:0.57
Consensus pattern (14 bp):
TAATGTTGTTAATG
Found at i:6097754 original size:22 final size:24
Alignment explanation
Indices: 6097716--6097773 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 24
6097706 ATTAATGTTG
*
6097716 TTAATGTAATGTTTGTTAGTATG-TTT
1 TTAATTTAATG-TTGTTA-T-TGTTTT
6097742 TTAATTTAATGTTGTTATTGTTTT
1 TTAATTTAATGTTGTTATTGTTTT
6097766 TTAATTTA
1 TTAATTTA
6097774 TTTTACACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 2 0.07
24 12 0.40
25 6 0.20
26 10 0.33
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.62
Consensus pattern (24 bp):
TTAATTTAATGTTGTTATTGTTTT
Found at i:6097771 original size:24 final size:26
Alignment explanation
Indices: 6097710--6097773 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
6097700 GTAAAAATTA
* *
6097710 ATGTTGTTAATGTAATGTTTGTTAGT
1 ATGTTTTTAATTTAATGTTTGTTAGT
6097736 ATGTTTTTAATTTAATG-TTGTTA-T
1 ATGTTTTTAATTTAATGTTTGTTAGT
6097760 -TGTTTTTTAATTTA
1 ATG-TTTTTAATTTA
6097774 TTTTACACTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 2 0.06
24 12 0.34
25 6 0.17
26 15 0.43
ACGTcount: A:0.23, C:0.00, G:0.16, T:0.61
Consensus pattern (26 bp):
ATGTTTTTAATTTAATGTTTGTTAGT
Found at i:6098713 original size:133 final size:133
Alignment explanation
Indices: 6098475--6098715 Score: 374
Period size: 133 Copynumber: 1.8 Consensus size: 133
6098465 TCTCGCTTTG
* * * * *
6098475 GAAAACATGAATGAAATTCCAAAGGGATATTCGATTATTTTGCACAAACGAGAAATTGTAACCCA
1 GAAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGTAACCCA
* * *
6098540 GCATGATAGGGCACGATTCCCCGAATTGCCGAACGTCGAACATTTCCTTTGTTTTTAAAAAGTTT
66 GCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTTGTTTTTAAAAAGTTT
6098605 TTA
131 TTA
* **
6098608 GAAAACATGAACGAAATTCTAAAGAGACATCCGATTATTTTGGGCAAACAAGAAATTGTAACCCA
1 GAAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGTAACCCA
*
6098673 GCACGATAGGGCACGATTCCCCGAATTGCTAAACATCGAACAT
66 GCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACAT
6098716 CGTCTCCATT
Statistics
Matches: 96, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
133 96 1.00
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (133 bp):
GAAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGTAACCCA
GCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTTGTTTTTAAAAAGTTT
TTA
Done.