Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 96 of 295
Found at i:30751309 original size:45 final size:46
Alignment explanation
Indices: 30751219--30751312 Score: 147
Period size: 45 Copynumber: 2.1 Consensus size: 46
30751209 ACAGGACATA
* *
30751219 AATGAGCCATGTAAGTCCATATCAGTTATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGCCCATATCAGTTATATGGCATTGGAGACAGG
30751265 AATGAGCCATGTAAGCCCATAT-A-TATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGCCCATATCAGT-TATATGGCATTGGAGACAGG
30751310 AAT
1 AAT
30751313 AATTCATGTA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
44 1 0.02
45 23 0.51
46 21 0.47
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (46 bp):
AATGAGCCATGTAAGCCCATATCAGTTATATGGCATTGGAGACAGG
Found at i:30751321 original size:45 final size:46
Alignment explanation
Indices: 30751223--30751329 Score: 146
Period size: 45 Copynumber: 2.3 Consensus size: 46
30751213 GACATAAATG
* *
30751223 AGCCATGTAAGTCCATATCAGTTATATGGCTTTGGAGACAGGAATG
1 AGCCATGTAAGTCCATATCAGTTATATGGCATTGGAGACAGGAATA
*
30751269 AGCCATGTAAGCCCATAT-A-TATATATGGCATTGGAGACAGGAATA
1 AGCCATGTAAGTCCATATCAGT-TATATGGCATTGGAGACAGGAATA
**
30751314 ATTCATGTAAGTCCAT
1 AGCCATGTAAGTCCAT
30751330 GTCGAAGACA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
44 1 0.02
45 36 0.67
46 17 0.31
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (46 bp):
AGCCATGTAAGTCCATATCAGTTATATGGCATTGGAGACAGGAATA
Found at i:30756344 original size:49 final size:50
Alignment explanation
Indices: 30756286--30756417 Score: 160
Period size: 50 Copynumber: 2.7 Consensus size: 50
30756276 ACCTGGTACG
* * *
30756286 CATAGTAGCCTGCACTTAGTATTATACAT-TCGACC-AACAATCCGTTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGT-GACCTAACAATCCGATACA
* * * * *
30756335 CGTAGTAGCCTACACTTAGTACTACACATGTGACCTAACCATCTGATGCA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCCGATACA
*
30756385 CATAGTAGCCTGCACTTAGTACTACACACGTGA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGA
30756418 TCGAAGTTTT
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
49 29 0.41
50 41 0.59
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCCGATACA
Found at i:30762664 original size:39 final size:39
Alignment explanation
Indices: 30762570--30762758 Score: 229
Period size: 40 Copynumber: 4.8 Consensus size: 39
30762560 GGATATAGCT
* * * *
30762570 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGATT-TAGTA
*
30762610 ACTCGCACAATTGCCTTCGGGACTTAGCCCGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGATTTAGTA
*
30762649 ACTCGCACAAATGCCTTCGGGACTGAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC-GATTTAGTA
** *
30762689 ACTCGCACAAATGCCTTCGGGACTT-GCCCGGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC-GATTTAGTA
* *
30762728 ACTAG-AGCAGATGCCTTCGGGACTTAGCCCG
1 ACTCGCA-CAAATGCCTTCGGGACTTAGCCCG
30762759 GTTATCATCC
Statistics
Matches: 133, Mismatches: 13, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
38 1 0.01
39 65 0.49
40 67 0.50
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGATTTAGTA
Found at i:30762678 original size:79 final size:78
Alignment explanation
Indices: 30762570--30762762 Score: 239
Period size: 79 Copynumber: 2.4 Consensus size: 78
30762560 GGATATAGCT
* *
30762570 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTAGAGTAACTCGCACAATTGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGAC-TAGCCCGGTTAGAGTAACTCGCACAAATGCCTTCGGGACTT
**
30762635 AGCCC-GATTTAGTA
65 -GCCCGGAACTAGTA
*
30762649 ACTCGCACAAATGCCTTCGGGACTGAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACT
1 ACTCGCACAAATGCCTTCGGGACT-AGCCCGG-TTAGAGTAACTCGCACAAATGCCTTCGGGACT
*
30762713 TGCCCGGAACTAGTC
64 TGCCCGGAACTAGTA
* *
30762728 ACTAG-AGCAGATGCCTTCGGGACTTAGCCCGGTTA
1 ACTCGCA-CAAATGCCTTCGGGAC-TAGCCCGGTTA
30762763 TCATCCAAAT
Statistics
Matches: 100, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
78 8 0.08
79 89 0.89
80 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (78 bp):
ACTCGCACAAATGCCTTCGGGACTAGCCCGGTTAGAGTAACTCGCACAAATGCCTTCGGGACTTG
CCCGGAACTAGTA
Found at i:30770672 original size:40 final size:39
Alignment explanation
Indices: 30770627--30770738 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 39
30770617 GGATATAGCT
*
30770627 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGAC-TAGCCCGGATT-GAGTA
* *
30770667 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGAC-TAGCCCGGATTGAGTA
* * *
30770707 ACTCACACAAATGCTTTCGGGACTTGCCCGGA
1 ACTCGCACAAATGCCTTCGGGACTAGCCCGGA
30770739 ACTAGTCACT
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
39 8 0.13
40 53 0.84
41 2 0.03
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTAGCCCGGATTGAGTA
Found at i:30782716 original size:53 final size:53
Alignment explanation
Indices: 30782556--30782749 Score: 192
Period size: 53 Copynumber: 3.6 Consensus size: 53
30782546 GATACTAAGT
* * * * * * * *
30782556 AAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAGGAAATCATGT
1 AAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGCAAAGATACCATGG
* * * * *
30782610 AAGACCATGTCAAGACATGG-AATTGATAAACTACTATAAGGCAAAGATCCCATGG
1 AAGACCATGCCAAGACATGGCAA-TGGT-AAGTTC-ATAAGGCAAAGATACCATGG
* * *
30782665 AAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAATGATACCATGG
1 AAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAAGATACCATGG
*
30782718 AAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGACCATGCCAAGACATGGCAATGGTAAGTT
30782750 TAAAAAGGAA
Statistics
Matches: 112, Mismatches: 24, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
53 48 0.43
54 25 0.22
55 37 0.33
56 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAAGATACCATGG
Found at i:30785534 original size:16 final size:15
Alignment explanation
Indices: 30785510--30785539 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
30785500 AACTGTTTTA
30785510 TTACAAATTTCACTC
1 TTACAAATTTCACTC
30785525 TTACATAATTTCACT
1 TTACA-AATTTCACT
30785540 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:30785794 original size:49 final size:50
Alignment explanation
Indices: 30785739--30785874 Score: 166
Period size: 50 Copynumber: 2.7 Consensus size: 50
30785729 AATTGAAGCT
* * * * * *
30785739 ATCTGGTACGCATAGTAACTTGCACTTAGTAGTACACATGCGACC-AACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAACA
* * * *
30785788 ATCTGGTACACGTAGTAGCCTACACTTGGTACTACACACGTGACCTAACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAACA
*
30785838 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACAC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACAC
30785875 GTGTTCTCAC
Statistics
Matches: 73, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
49 36 0.49
50 37 0.51
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (50 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAACA
Found at i:30789147 original size:41 final size:43
Alignment explanation
Indices: 30789046--30789201 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 43
30789036 ATGTGTTCTT
*
30789046 GTGTAAGACCAC-GTCTGGGACATTAGCATCGATATGTGATTAC
1 GTGTAAGACC-CTGTCTGGGACATTGGCATCGATATGTGATTAC
* * *
30789089 GTGTAAAACCATGTCTGGGACATTGGCATCG-TATTTGATT-C
1 GTGTAAGACCCTGTCTGGGACATTGGCATCGATATGTGATTAC
* * * * **
30789130 GTGTAAGACCCTATCTGGGATAGTGGCATCAATATGTGATGGC
1 GTGTAAGACCCTGTCTGGGACATTGGCATCGATATGTGATTAC
* * *
30789173 ATGTAAGGCCAC-GTCTGGGACGTTGGCAT
1 GTGTAAGACC-CTGTCTGGGACATTGGCAT
30789202 TGTACGATAT
Statistics
Matches: 91, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
41 26 0.29
42 15 0.16
43 49 0.54
44 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCCTGTCTGGGACATTGGCATCGATATGTGATTAC
Found at i:30798936 original size:62 final size:62
Alignment explanation
Indices: 30798865--30798987 Score: 237
Period size: 62 Copynumber: 2.0 Consensus size: 62
30798855 TCTTTCAATT
30798865 TAAGTGATTGAGCTGATAAGGTAGAATTCTGAGTTATCTGATACTTATTGTATTAGTATAGA
1 TAAGTGATTGAGCTGATAAGGTAGAATTCTGAGTTATCTGATACTTATTGTATTAGTATAGA
*
30798927 TAAGTGATTGAGCTGATAAGGTAGAATTCTGAGTTATCTGATACTTATTGTGTTAGTATAG
1 TAAGTGATTGAGCTGATAAGGTAGAATTCTGAGTTATCTGATACTTATTGTATTAGTATAG
30798988 CATTATGTCT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.39
Consensus pattern (62 bp):
TAAGTGATTGAGCTGATAAGGTAGAATTCTGAGTTATCTGATACTTATTGTATTAGTATAGA
Found at i:30800739 original size:9 final size:9
Alignment explanation
Indices: 30800725--30800751 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
30800715 TTTGAAGGTT
30800725 AAATATGTA
1 AAATATGTA
30800734 AAATATGTA
1 AAATATGTA
30800743 AAATATGTA
1 AAATATGTA
30800752 TATAATAAAC
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:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (9 bp):
AAATATGTA
Found at i:30806079 original size:28 final size:28
Alignment explanation
Indices: 30806019--30806079 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
30806009 CAGTATTATT
* * *
30806019 ACAGTCTGGGCCTTAGCCCTATACAGTA
1 ACAGTCTGGGCCTAAGCCCAATACAATA
*
30806047 ACAGTGTGGGCCTAAGCCCAATACAATA
1 ACAGTCTGGGCCTAAGCCCAATACAATA
*
30806075 TCAGT
1 ACAGT
30806080 ACAGTGTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (28 bp):
ACAGTCTGGGCCTAAGCCCAATACAATA
Found at i:30810138 original size:33 final size:33
Alignment explanation
Indices: 30810101--30810190 Score: 162
Period size: 33 Copynumber: 2.7 Consensus size: 33
30810091 CCTGGGCATG
*
30810101 AGCCCTATTCAGTATCATTACAGTTTGGGCCTT
1 AGCCCTATACAGTATCATTACAGTTTGGGCCTT
30810134 AGCCCTATACAGTATCATTACAGTTTGGGCCTT
1 AGCCCTATACAGTATCATTACAGTTTGGGCCTT
*
30810167 AGCCCTATACAGTATCAGTACAGT
1 AGCCCTATACAGTATCATTACAGT
30810191 GTGATGCAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (33 bp):
AGCCCTATACAGTATCATTACAGTTTGGGCCTT
Found at i:30810366 original size:27 final size:27
Alignment explanation
Indices: 30810336--30810407 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
30810326 AGCATACCTT
* *
30810336 CCAGAAACAATAAATGTGGCAAAGCCA
1 CCAGTAACAGTAAATGTGGCAAAGCCA
* * *
30810363 CCAGTATCAGTAATTGTGGCATAGCCA
1 CCAGTAACAGTAAATGTGGCAAAGCCA
*
30810390 CCAGTAACAGTGAATGTG
1 CCAGTAACAGTAAATGTG
30810408 ACATAGTCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (27 bp):
CCAGTAACAGTAAATGTGGCAAAGCCA
Found at i:30810412 original size:27 final size:26
Alignment explanation
Indices: 30810348--30810422 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 26
30810338 AGAAACAATA
* *
30810348 AATGTGGCAAAGCCACCAGTATCAGT
1 AATGTGGCATAGCCACCAGTAACAGT
30810374 AATTGTGGCATAGCCACCAGTAACAGT
1 AA-TGTGGCATAGCCACCAGTAACAGT
* * *
30810401 GAATGTGACATAGTCACTAGTA
1 -AATGTGGCATAGCCACCAGTA
30810423 GAGTACTTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 2 0.05
27 38 0.90
28 2 0.05
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (26 bp):
AATGTGGCATAGCCACCAGTAACAGT
Found at i:30814320 original size:46 final size:46
Alignment explanation
Indices: 30814245--30814610 Score: 428
Period size: 46 Copynumber: 8.0 Consensus size: 46
30814235 TTATCTTTGA
* * * * ** *
30814245 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* * * * *
30814291 CATATTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTTATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
30814337 CACGTTGCCATGGTATCTTTCAACCATGGTCTTA-TGCATTTCACAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACT-CATTTCATAT
* * **
30814383 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* * * * *
30814429 CTTGTTGCCATGGTATCTCTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* * * * *
30814475 CACGTTGCCATGGTATCATTCAACCATGGTCTTGCACATTTCATCT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
30814521 CATGTTTCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
30814567 CATGTTGCCATGGTATCTTTCAACCATGGTATTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
30814611 TTCAGAAAGC
Statistics
Matches: 280, Mismatches: 38, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
45 1 0.00
46 278 0.99
47 1 0.00
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
Found at i:30814610 original size:138 final size:138
Alignment explanation
Indices: 30814250--30814596 Score: 498
Period size: 138 Copynumber: 2.5 Consensus size: 138
30814240 TTTGACATGA
* * * ** * *
30814250 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGTCATATTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATGGTATCTTTCAAC
* * **
30814315 CATGGTCTTATTCTTTTTATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATGCATTTCA
66 CATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCATTCAACCATGGTCTTACACATTTCA
30814380 CATCACGT
131 CATCACGT
* ** * *
30814388 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCATCTTGTTGCCATGGTATCTCTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATGGTATCTTTCAAC
*
30814453 CATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCATTCAACCATGGTCTTGCACATTTCA
66 CATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCATTCAACCATGGTCTTACACATTTCA
*
30814518 TC-TCATGT
131 -CATCACGT
* *
30814526 TTCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATGGTATCTTTCAAC
30814591 CATGGT
66 CATGGT
30814597 ATTACACATT
Statistics
Matches: 184, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
138 183 0.99
139 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.41
Consensus pattern (138 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCATTCAACCATGGTCTTACACATTTCA
CATCACGT
Found at i:30817055 original size:47 final size:47
Alignment explanation
Indices: 30816977--30817293 Score: 526
Period size: 47 Copynumber: 6.7 Consensus size: 47
30816967 CCCTTCGGGA
* * * * * *
30816977 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30817024 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30817071 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
30817118 CTTATCACATATATACACTTTCACATTTATCATATCGGCCTTTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30817165 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
30817212 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30817259 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
30817294 AGAATCCTAA
Statistics
Matches: 252, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 252 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30820420 original size:11 final size:11
Alignment explanation
Indices: 30820404--30820451 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
30820394 TTTTATATAC
30820404 TAATAAAATAA
1 TAATAAAATAA
*
30820415 TAATAAAATATCT
1 TAATAAAATA--A
* *
30820428 TATTAAAATAT
1 TAATAAAATAA
30820439 TAATAAAATAA
1 TAATAAAATAA
30820450 TA
1 TA
30820452 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:30829881 original size:45 final size:44
Alignment explanation
Indices: 30829797--30829881 Score: 125
Period size: 45 Copynumber: 1.9 Consensus size: 44
30829787 ATGTAATCTA
*
30829797 AACTCATTGAGTTGTGTCTGAGTTCATGATATATGTGACATCCG
1 AACTCATTGAGTTGTGTCTGAGTTCATGATATATATGACATCCG
* * *
30829841 AACTCTTTGAGTTGTGGTCTGAGTTCGTGATATGTATGACA
1 AACTCATTGAGTTGT-GTCTGAGTTCATGATATATATGACA
30829882 CAAGTTTTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 14 0.39
45 22 0.61
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.38
Consensus pattern (44 bp):
AACTCATTGAGTTGTGTCTGAGTTCATGATATATATGACATCCG
Found at i:30832384 original size:40 final size:40
Alignment explanation
Indices: 30832328--30832412 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
30832318 CGGGATGTCT
* * *
30832328 ATCCCTGGGTCTTTAGAAGAGGATGAC-CTGGATAGTGAGA
1 ATCCCTGAGTCATTAGAAGAGGATGACTC-AGATAGTGAGA
*
30832368 ATCCCTGAGTCATTAGAAGAGGTTGACTCAGATAGTGAGA
1 ATCCCTGAGTCATTAGAAGAGGATGACTCAGATAGTGAGA
30832408 ATCCC
1 ATCCC
30832413 AAAGATGTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 39 0.98
41 1 0.03
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCCTGAGTCATTAGAAGAGGATGACTCAGATAGTGAGA
Found at i:30834940 original size:3 final size:3
Alignment explanation
Indices: 30834932--30834993 Score: 54
Period size: 3 Copynumber: 20.7 Consensus size: 3
30834922 CTTTATTAAA
* * * * * *
30834932 TAT TAT TAT TGT TAT T-T CTAA TAT TAT TAA TAT CAT CAC TAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
30834977 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
30834994 GATATTAGTG
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
2 1 0.02
3 46 0.98
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:30835265 original size:138 final size:128
Alignment explanation
Indices: 30835030--30835271 Score: 306
Period size: 138 Copynumber: 1.8 Consensus size: 128
30835020 TACGTATATG
* *
30835030 TATATATATTTATATATAGTATTATTCTTTATTACTTTATTTTAATATTTTTATTATATTTGCTT
1 TATATATATTTATACATAGTATTATTCTTTATTACTTTATTTTAATATTTATATTATATTTGCTT
* *
30835095 TTTGTATTTTAATATTATTACTATTATCATTATTATTATTAATATTAGTGTATATTTTTATTA
66 TTTGTATTTCAATATTATTACTATTATCATTATCATTATTAATATTAGTGTATATTTTTATTA
*
30835158 TATATATATTTATACATAGTATTATTTTTTTATTTACTTTATTTTAACATTACTATTATATTATA
1 TATATATATTTATACATAGTATTA-TTCTTTA-TTACTTTATTTT-A-A-TA-T-TTATATTATA
* * *
30835223 TTTGCGTTTTTTTGTATTTCATTATTATTGCTAGTT-TTATTATCATTAT
59 TTTGC---TTTTTGTATTTCAATATTATTACTA-TTATCATTATCATTAT
30835272 CATCATTATT
Statistics
Matches: 95, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
128 23 0.24
129 6 0.06
130 12 0.13
131 1 0.01
132 1 0.01
133 2 0.02
134 1 0.01
135 14 0.15
138 33 0.35
139 2 0.02
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (128 bp):
TATATATATTTATACATAGTATTATTCTTTATTACTTTATTTTAATATTTATATTATATTTGCTT
TTTGTATTTCAATATTATTACTATTATCATTATCATTATTAATATTAGTGTATATTTTTATTA
Found at i:30839593 original size:27 final size:27
Alignment explanation
Indices: 30839536--30839729 Score: 185
Period size: 27 Copynumber: 7.2 Consensus size: 27
30839526 TTAGTTTACC
* * * *
30839536 AAATCACCACAATACCC-TAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
*
30839562 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTATA
* *
30839589 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
*
30839616 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
* * *
30839643 AAATTACCAAAATACCATTGATTTATG
1 AAATTACCAAAATACCCTTGGTTTATA
* * **
30839670 AAATTATCGAAATACCCTCAGTTTGA-A
1 AAATTACCAAAATACCCTTGGTTT-ATA
* * * * *
30839697 AAACTACTAAAATACCCTCGATTTGTA
1 AAATTACCAAAATACCCTTGGTTTATA
30839724 AAATTA
1 AAATTA
30839730 TTGAAATACC
Statistics
Matches: 137, Mismatches: 28, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
26 15 0.11
27 121 0.88
28 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTATA
Found at i:30839694 original size:81 final size:81
Alignment explanation
Indices: 30839536--30839729 Score: 230
Period size: 81 Copynumber: 2.4 Consensus size: 81
30839526 TTAGTTTACC
* * * * *
30839536 AAATCACCACAATACCC-TAGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCATTGATTTACAAAATTACCAAA
* *
30839600 ATACCCCTGGTTTGTA
66 ATACCCCTAGTTTGAA
** * *
30839616 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCATTGATTTATGAAATTATCGAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCATTGATTTACAAAATTACCAAA
30839681 ATA-CCCTCAGTTTGAA
66 ATACCCCT-AGTTTGAA
* * * *
30839697 AAACTACTAAAATACCCTCGATTTGTAAAATTA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTA
30839730 TTGAAATACC
Statistics
Matches: 97, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
80 19 0.20
81 78 0.80
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCATTGATTTACAAAATTACCAAA
ATACCCCTAGTTTGAA
Found at i:30839730 original size:54 final size:54
Alignment explanation
Indices: 30839536--30839785 Score: 218
Period size: 54 Copynumber: 4.6 Consensus size: 54
30839526 TTAGTTTACC
* * * *
30839536 AAATCACCACAATACCCTAG-TTTGTAAAATTACCAAAATACCCTTGGTTT-ACA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGGTTTGA-A
* * *
30839589 AAATTACCAAAATACCC-CTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTAAAATTACCAAAATACCCTCGGTTTGAA
* * * * * * *
30839643 AAATTACCAAAATACCATTGATTTATGAAATTATCGAAATACCCTCAGTTTGAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGGTTTGAA
* * *** ** *
30839697 AAACTACTAAAATACCCTCGATTTGTAAAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGGTTTGAA
* * * **
30839751 AAGTTACCAAAGTAACCTCGATTTACAAAATTACC
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACC
30839786 GTTTTACCCT
Statistics
Matches: 159, Mismatches: 34, Indels: 7
0.80 0.17 0.04
Matches are distributed among these distances:
53 16 0.10
54 143 0.90
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
AAATTACCAAAATACCCTCGATTTGTAAAATTACCAAAATACCCTCGGTTTGAA
Found at i:30839736 original size:27 final size:27
Alignment explanation
Indices: 30839546--30839821 Score: 182
Period size: 27 Copynumber: 10.3 Consensus size: 27
30839536 AAATCACCAC
* *
30839546 AATACCCTAG-TTTGTAAAATTACCAA
1 AATACCCTCGATTTGTAAAATTACCGA
* * ** *
30839572 AATACCCTTGGTTTACAAAATTACCAA
1 AATACCCTCGATTTGTAAAATTACCGA
* *
30839599 AATACCC-CTGGTTTGTAAAATTACCAA
1 AATACCCTC-GATTTGTAAAATTACCGA
* * *
30839626 AATACCCTTGGTTTGTAAAATTACCAA
1 AATACCCTCGATTTGTAAAATTACCGA
* * * * *
30839653 AATACCATTGATTTATGAAATTATCGA
1 AATACCCTCGATTTGTAAAATTACCGA
* * **
30839680 AATACCCTC-AGTTTGAAAAACTACTAA
1 AATACCCTCGA-TTTGTAAAATTACCGA
**
30839707 AATACCCTCGATTTGTAAAATTATTGA
1 AATACCCTCGATTTGTAAAATTACCGA
* *
30839734 AATACCCTCGACTTGTAAAGTTACC-A
1 AATACCCTCGATTTGTAAAATTACCGA
* ** *
30839760 AAGTAACCTCGATTTACAAAATTACCGT
1 AA-TACCCTCGATTTGTAAAATTACCGA
** ** **
30839788 TTTACCCTCGATTTACAAAATTATTGA
1 AATACCCTCGATTTGTAAAATTACCGA
30839815 AATACCC
1 AATACCC
30839822 CTATAGGGTA
Statistics
Matches: 199, Mismatches: 44, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
26 13 0.07
27 185 0.93
28 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AATACCCTCGATTTGTAAAATTACCGA
Found at i:30839836 original size:27 final size:27
Alignment explanation
Indices: 30839806--30840107 Score: 349
Period size: 27 Copynumber: 11.2 Consensus size: 27
30839796 CGATTTACAA
* *
30839806 AATTATTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
30839833 AATTA-TCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
30839860 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
30839887 AATTACCGGAATATCCTTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
30839914 AAATACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
30839941 AAATA-TCAAAATACCCCTGTAGGTTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
** *
30839968 AATTACTGAAATACCCCTACAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
30839995 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
30840022 AATTACTGAAATACCCCTGTAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
*
30840049 AATTACTGAAATACCCCTGTAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
30840076 AATTACCGAGATACCCTTGT-GGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
30840102 AATTAC
1 AATTAC
30840108 CATTTTACCC
Statistics
Matches: 239, Mismatches: 32, Indels: 9
0.85 0.11 0.03
Matches are distributed among these distances:
26 11 0.05
27 226 0.95
28 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:30840373 original size:25 final size:27
Alignment explanation
Indices: 30840333--30840413 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 27
30840323 GGAGGTAGCG
30840333 TTCTGGTGGCTATGCCA-AATATCTGT
1 TTCTGGTGGCTATGCCACAATATCTGT
*
30840359 TT-TGGTGGCTCTGCCACAATATCT-T
1 TTCTGGTGGCTATGCCACAATATCTGT
* * *
30840384 TATCTGGTGACTTTGTCACAATATCTGT
1 T-TCTGGTGGCTATGCCACAATATCTGT
30840412 TT
1 TT
30840414 ACCGATCGAT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
25 15 0.32
26 10 0.21
27 20 0.43
28 2 0.04
ACGTcount: A:0.19, C:0.20, G:0.20, T:0.42
Consensus pattern (27 bp):
TTCTGGTGGCTATGCCACAATATCTGT
Found at i:30840708 original size:98 final size:98
Alignment explanation
Indices: 30840463--30840701 Score: 331
Period size: 98 Copynumber: 2.4 Consensus size: 98
30840453 TGTGTGCCAT
*
30840463 TATTGTAGGCTTTGTGCCGATTATAG-ACTCGTTATCAATGGCTGAGTGCCGATCATGTTACCAA
1 TATTGTAGGCTTCGTGCCGATTATAGAAC-CGTTATCAATGGCTGAGTGCCGATCATGTTACCAA
*
30840527 AGGCTGTGTGCCGTTATTGTAGGCTTCGTATCGA
65 AGGCTGGGTGCCGTTATTGTAGGCTTCGTATCGA
* * * * **
30840561 TATTGTAGGCTTCGTGCCAATTATA-AACCCATTATCAATGGATGAGTGCCGATGATGTTACTGA
1 TATTGTAGGCTTCGTGCCGATTATAGAA-CCGTTATCAATGGCTGAGTGCCGATCATGTTACCAA
30840625 AGGCTGGGTGCCGTTATTGT-GCGCTTCGTATCGA
65 AGGCTGGGTGCCGTTATTGTAG-GCTTCGTATCGA
* * *
30840659 TATTGTGGGCTTCATGCCGATTATAGAACCGTTATCGATGGCT
1 TATTGTAGGCTTCGTGCCGATTATAGAACCGTTATCAATGGCT
30840702 TTGTGCCACG
Statistics
Matches: 123, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
97 1 0.01
98 119 0.97
99 3 0.02
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.34
Consensus pattern (98 bp):
TATTGTAGGCTTCGTGCCGATTATAGAACCGTTATCAATGGCTGAGTGCCGATCATGTTACCAAA
GGCTGGGTGCCGTTATTGTAGGCTTCGTATCGA
Found at i:30840753 original size:27 final size:27
Alignment explanation
Indices: 30840723--30840803 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 27
30840713 ATTCTGTTAA
* *
30840723 GTGGCTTTGCCACATTATCTG-ATTCTG
1 GTGGCTCTGCCACAATATCTGTA-TCTG
30840750 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* * *
30840777 GTGACTCTGTCACAATATCAGT-TCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
30840803 G
1 G
30840804 CAGCCATGCT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.10
27 42 0.88
28 1 0.02
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:30844039 original size:39 final size:39
Alignment explanation
Indices: 30843991--30844075 Score: 161
Period size: 39 Copynumber: 2.2 Consensus size: 39
30843981 CGAAGTTTGA
*
30843991 ATATGATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
30844030 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
1 ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
30844069 ATATAAT
1 ATATAAT
30844076 CACCATATAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (39 bp):
ATATAATTCCCGCATATAGCCTACGGACCTTAAGTCCGG
Found at i:30854236 original size:79 final size:78
Alignment explanation
Indices: 30853992--30854264 Score: 272
Period size: 75 Copynumber: 3.5 Consensus size: 78
30853982 ATTTCTATTT
* * * * *
30853992 TTTTTAAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAAATCACGCACTGAGGTAT
1 TTTTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACACACTGAGGTAT
*
30854057 TCTCAA--TTTAC
66 TTTCAATTTTTAC
* * ** *
30854068 -GTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
1 TTTTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACACACTGAGGTAT
* *
30854132 CTTT-AGTTTCTA-
66 -TTTCAATTTTTAC
* * * *
30854144 TTTTTCAAAAAAAAATTAATTAATATTACGAGAGGTGAGTTGATCCTCAAGTCACACACTGAGGT
1 TTTTTC--AAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACACACTGAGGT
30854209 ATTTTCAATTTTTTAC
64 ATTTTCAA-TTTTTAC
* * *
30854225 TTTTTTC--AAAAATTAACTCATAATCCGAGAGATGAGTTGA
1 -TTTTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGA
30854265 ACGTCAGTTT
Statistics
Matches: 160, Mismatches: 27, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
75 57 0.36
76 2 0.01
77 7 0.04
78 31 0.19
79 52 0.32
80 5 0.03
82 6 0.04
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (78 bp):
TTTTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACACACTGAGGTAT
TTTCAATTTTTAC
Found at i:30854606 original size:86 final size:88
Alignment explanation
Indices: 30854502--30854743 Score: 330
Period size: 89 Copynumber: 2.8 Consensus size: 88
30854492 TGAAGGTGAT
30854502 GGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTGTCTCCCT-AGCAGT
1 GGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTGTCTCCCTAAGCAGT
*
30854566 AGTGGAGCA-A-ATCGAAGACAAA
66 AGTGGA-AATAGATCGAAGACAAA
* * *
30854588 GGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCCTGTCTCCCTAAGCAG
1 GGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTG-AATTTACAGATCTTGTCTCCCTAAGCAG
* *
30854653 TAGTGGAAATAGATCGAAGGCAAT
65 TAGTGGAAATAGATCGAAGACAAA
* * * **
30854677 GGGCCTTAAACCCCTAAGTAGTAGGGTAACAGGTTGAATTTATAGATCTTAAC-CCCTTAAGCAG
1 GGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTGTCTCCC-TAAGCAG
30854741 TAG
65 TAG
30854744 GGTAAAAGGC
Statistics
Matches: 137, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
86 35 0.26
87 24 0.18
88 35 0.26
89 43 0.31
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.22
Consensus pattern (88 bp):
GGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTGTCTCCCTAAGCAGT
AGTGGAAATAGATCGAAGACAAA
Found at i:30856078 original size:3 final size:3
Alignment explanation
Indices: 30856070--30856252 Score: 58
Period size: 3 Copynumber: 59.7 Consensus size: 3
30856060 CTTTATTAGA
* * * * *
30856070 TAT TAT TAT TAT T-T CTAA TAT TAT TAA TAT TAC CAC TAT TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
30856115 TAT TAT TAT ATAT TAGT GTA- TACT TTT TAT TAT ATACG TA- TAT GTA-
1 TAT TAT TAT -TAT TA-T -TAT TA-T TAT TAT TAT -TA-T TAT TAT -TAT
* * * * *
30856161 TAT ATAT T-T ATAT ATAG TAT TGT TCTT TAT TAC T-T TAT T-T TAA TAT
1 TAT -TAT TAT -TAT -TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT
* * * *
30856207 TTT TAT TAT T-T TAA TAT TAT TAC TAT TAT CAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
30856253 GTGTATATTT
Statistics
Matches: 133, Mismatches: 28, Indels: 38
0.67 0.14 0.19
Matches are distributed among these distances:
2 13 0.10
3 98 0.74
4 20 0.15
5 2 0.02
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:30856091 original size:9 final size:9
Alignment explanation
Indices: 30856062--30856129 Score: 57
Period size: 9 Copynumber: 7.3 Consensus size: 9
30856052 TTTCGTTTCT
30856062 TTATTAGATA
1 TTATTA-ATA
*
30856072 TTATTATTA
1 TTATTAATA
30856081 TT-TCTAATA
1 TTAT-TAATA
30856090 TTATTAATA
1 TTATTAATA
** *
30856099 TTACCACTA
1 TTATTAATA
*
30856108 TTATTATTA
1 TTATTAATA
30856117 TTATTATATA
1 TTATTA-ATA
30856127 TTA
1 TTA
30856130 GTGTATACTT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
8 1 0.02
9 33 0.72
10 12 0.26
ACGTcount: A:0.37, C:0.06, G:0.01, T:0.56
Consensus pattern (9 bp):
TTATTAATA
Found at i:30856092 original size:18 final size:18
Alignment explanation
Indices: 30856069--30856119 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
30856059 TCTTTATTAG
* *
30856069 ATATTATTATTATTTCTA
1 ATATTATTATTATTACCA
*
30856087 ATATTATTAATATTACCA
1 ATATTATTATTATTACCA
*
30856105 CTATTATTATTATTA
1 ATATTATTATTATTA
30856120 TTATATATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (18 bp):
ATATTATTATTATTACCA
Found at i:30856233 original size:17 final size:17
Alignment explanation
Indices: 30856196--30856233 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
30856186 TTTATTACTT
* *
30856196 TATTTTAATATTTTTAT
1 TATTTTAATATTATTAC
30856213 TATTTTAATATTATTAC
1 TATTTTAATATTATTAC
30856230 TATT
1 TATT
30856234 ATCATTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTTTAATATTATTAC
Found at i:30856266 original size:19 final size:17
Alignment explanation
Indices: 30856203--30856279 Score: 50
Period size: 17 Copynumber: 4.4 Consensus size: 17
30856193 CTTTATTTTA
*
30856203 ATATTTTTATTATTTTA-
1 ATATTTTTATT-TTATAT
* *
30856220 ATATTATTACTATTATCAT
1 ATATTTTTA-TTTTAT-AT
* *
30856239 -TATTATTATTATTAGTGT
1 ATATTTTTATT-TTA-TAT
30856257 ATATTTTTATTTTATAT
1 ATATTTTTATTTTATAT
30856274 ATATTT
1 ATATTT
30856280 ATACATAGTA
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
17 20 0.43
18 17 0.36
19 10 0.21
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (17 bp):
ATATTTTTATTTTATAT
Found at i:30871688 original size:43 final size:46
Alignment explanation
Indices: 30871637--30871751 Score: 157
Period size: 45 Copynumber: 2.6 Consensus size: 46
30871627 GCTTCGGGCA
* *
30871637 TAGCAGGCTATAATGCCGGTGAAATGA-TA-TC-AGGCTTTGAGCT
1 TAGCAGGCTATAATGCCGGTGAAATGATTATTCGAGCCTTTGAGCC
* * *
30871680 TAGTAGGCTATGATGCCGGTAAAAT-ATTATTCGAGCCTTTGAGCC
1 TAGCAGGCTATAATGCCGGTGAAATGATTATTCGAGCCTTTGAGCC
30871725 TAGCAGGCTATAATGCCGGTGAAATGA
1 TAGCAGGCTATAATGCCGGTGAAATGA
30871752 AATATTATGT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
42 1 0.02
43 24 0.40
44 2 0.03
45 32 0.53
46 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.28
Consensus pattern (46 bp):
TAGCAGGCTATAATGCCGGTGAAATGATTATTCGAGCCTTTGAGCC
Found at i:30872064 original size:38 final size:38
Alignment explanation
Indices: 30872021--30872294 Score: 354
Period size: 38 Copynumber: 7.2 Consensus size: 38
30872011 ATGATATTTG
* ** *
30872021 TATCCGGCTTAAAGACCGCAGGCTAT-ATGCTGG-AATTA
1 TATCCGGGTTAAATCCCGCAGGCT-TCGTGCTGGTAA-TA
*
30872059 TATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * * *
30872097 TATCCGGTTTAATTCTCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
30872135 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
30872173 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * *
30872211 TATCCGGGTTAATTCCCGCAGGCTTCGTGCTAGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * * * *
30872249 TATCCGAGTTAAATCCTGCAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
30872287 TATTCGGG
1 TATCCGGG
30872295 CCTTTGAGCC
Statistics
Matches: 211, Mismatches: 23, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
37 1 0.00
38 208 0.99
39 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
Found at i:30872337 original size:45 final size:45
Alignment explanation
Indices: 30872287--30872409 Score: 185
Period size: 45 Copynumber: 2.7 Consensus size: 45
30872277 GCTGGTATTA
*
30872287 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
* * *
30872332 TATTCGGGCCTTTGGGCCTAGCTGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
*
30872377 TATTCGGG-CTTTCGAGCCTATCAGGCTATAATG
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATG
30872410 TCGATGAAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
44 4 0.06
45 66 0.94
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACAC
Found at i:30881442 original size:47 final size:45
Alignment explanation
Indices: 30881385--30881509 Score: 139
Period size: 47 Copynumber: 2.7 Consensus size: 45
30881375 TCTCGAGGCT
*
30881385 GATGCATGTCCCTGACATGTCTTACACTAGCTCTCATTTCAA-T-GTC
1 GATGCATGTCCCTGACATGTCTTACACTAGCTCTC--GT-AAGTGGTC
* *
30881431 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCGTAATGTGGTC
1 GATG-CATGTCCCTGACAT-GTCTTACACTAGCTCTCGTAA-GTGGTC
30881479 GATGCATGT-CCTAGACATGTCTTACACTAGC
1 GATGCATGTCCCT-GACATGTCTTACACTAGC
30881510 ACACAATTAA
Statistics
Matches: 68, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
45 2 0.03
46 19 0.28
47 24 0.35
48 23 0.34
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (45 bp):
GATGCATGTCCCTGACATGTCTTACACTAGCTCTCGTAAGTGGTC
Found at i:30888851 original size:55 final size:55
Alignment explanation
Indices: 30888762--30888872 Score: 204
Period size: 55 Copynumber: 2.0 Consensus size: 55
30888752 GTTCCCTTCC
*
30888762 TAAGTGCCTCCTCAGGTGTTTAAATAGGCATTAGAATGCCTAAGAGCCCTCAAAA
1 TAAGTGCCTCCTCAGGTGTTTAAATAAGCATTAGAATGCCTAAGAGCCCTCAAAA
*
30888817 TAAGTGCCTCCTCAGGTGTTTAAATAAGCTTTAGAATGCCTAAGAGCCCTCAAAA
1 TAAGTGCCTCCTCAGGTGTTTAAATAAGCATTAGAATGCCTAAGAGCCCTCAAAA
30888872 T
1 T
30888873 TGGCCTTTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (55 bp):
TAAGTGCCTCCTCAGGTGTTTAAATAAGCATTAGAATGCCTAAGAGCCCTCAAAA
Found at i:30890968 original size:21 final size:21
Alignment explanation
Indices: 30890939--30890983 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
30890929 TTATTCAATA
*
30890939 AAAATATAA-AAACTAAAATT
1 AAAATATAATAAACGAAAATT
*
30890959 AAAATAATAATAAAGGAAAATT
1 AAAAT-ATAATAAACGAAAATT
30890981 AAA
1 AAA
30890984 TAAAAAGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 4 0.19
22 12 0.57
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.22
Consensus pattern (21 bp):
AAAATATAATAAACGAAAATT
Found at i:30896993 original size:42 final size:43
Alignment explanation
Indices: 30896936--30897056 Score: 145
Period size: 42 Copynumber: 2.8 Consensus size: 43
30896926 GTAATTCAGT
* * * *
30896936 ATCGATGCCTCTGTCCCAGATAGGGTCTTACACAAAATCAGAT
1 ATCGATGCCTATGTCCCAGACACGGTCTTACACAAAATCAGAA
* *
30896979 A-CGATGCCTATGTCCCAGACATGGTCTTACACATAAATCTGAA
1 ATCGATGCCTATGTCCCAGACACGGTCTTACACA-AAATCAGAA
* * *
30897022 ATCGAGGCTTGTGTCCCAGACACGGTCTTACACAA
1 ATCGATGCCTATGTCCCAGACACGGTCTTACACAA
30897057 TATCTCAGAT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 29 0.43
43 10 0.15
44 28 0.42
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
ATCGATGCCTATGTCCCAGACACGGTCTTACACAAAATCAGAA
Found at i:30897043 original size:44 final size:42
Alignment explanation
Indices: 30896942--30897056 Score: 131
Period size: 44 Copynumber: 2.7 Consensus size: 42
30896932 CAGTATCGAT
* * * * *
30896942 GCCTCTGTCCCAGATAGGGTCTTACACAAAATCAGATACGAT
1 GCCTATGTCCCAGACACGGTCTTACACAAAATCAGAAACGAG
* *
30896984 GCCTATGTCCCAGACATGGTCTTACACATAAATCTGAAATCGAG
1 GCCTATGTCCCAGACACGGTCTTACACA-AAATCAGAAA-CGAG
* *
30897028 GCTTGTGTCCCAGACACGGTCTTACACAA
1 GCCTATGTCCCAGACACGGTCTTACACAA
30897057 TATCTCAGAT
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 25 0.40
43 9 0.15
44 28 0.45
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (42 bp):
GCCTATGTCCCAGACACGGTCTTACACAAAATCAGAAACGAG
Found at i:30900132 original size:46 final size:44
Alignment explanation
Indices: 30900038--30900152 Score: 151
Period size: 46 Copynumber: 2.5 Consensus size: 44
30900028 ATGCCAATGC
* *
30900038 CATGTCCCAGACATGGTCTTACACTGACACATCTTGTAGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGACACATCTCGTAGCCGATG
* *
30900083 CATGTCCTAGACATGTCTTACACTGGCTTACATCTCG-AGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGAC--ACATCTCGTA-GCCGATG
30900129 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
30900153 AGCTCTCGTT
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
44 12 0.19
45 14 0.23
46 36 0.58
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTGACACATCTCGTAGCCGATG
Found at i:30900560 original size:27 final size:27
Alignment explanation
Indices: 30900522--30900576 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
30900512 TGATCTATAA
*
30900522 TGATAAAAATTCACAAATTTAATCATT
1 TGATAAAAATTCAAAAATTTAATCATT
30900549 TGATAAAAATTCAAAAATTTAATCATT
1 TGATAAAAATTCAAAAATTTAATCATT
30900576 T
1 T
30900577 TAATGATCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (27 bp):
TGATAAAAATTCAAAAATTTAATCATT
Found at i:30903803 original size:42 final size:44
Alignment explanation
Indices: 30903728--30903813 Score: 158
Period size: 42 Copynumber: 2.0 Consensus size: 44
30903718 TGAAGATAGA
30903728 AAAATTATTTTTATTATTTTTTTGAGGTTATAATATGATTATAT
1 AAAATTATTTTTATTATTTTTTTGAGGTTATAATATGATTATAT
30903772 AAAATTATTTTTA-T-TTTTTTTGAGGTTATAATATGATTATAT
1 AAAATTATTTTTATTATTTTTTTGAGGTTATAATATGATTATAT
30903814 TAGTGCATGA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
42 28 0.67
43 1 0.02
44 13 0.31
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (44 bp):
AAAATTATTTTTATTATTTTTTTGAGGTTATAATATGATTATAT
Found at i:30903830 original size:42 final size:42
Alignment explanation
Indices: 30903744--30903830 Score: 95
Period size: 42 Copynumber: 2.1 Consensus size: 42
30903734 ATTTTTATTA
* ****
30903744 TTTTTTTGAGGTTATAATATGATTATATAAAATTATTTTTAT
1 TTTTTTTGAGGTTATAATATGATTATATAAAATCATGAAAAT
* *
30903786 TTTTTTTGAGGTTATAATATGATTATAT-TAGTGCATGAAAAT
1 TTTTTTTGAGGTTATAATATGATTATATAAAAT-CATGAAAAT
30903828 TTT
1 TTT
30903831 GGTGAGTTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
41 2 0.05
42 35 0.95
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (42 bp):
TTTTTTTGAGGTTATAATATGATTATATAAAATCATGAAAAT
Found at i:30905076 original size:94 final size:95
Alignment explanation
Indices: 30904935--30905244 Score: 254
Period size: 94 Copynumber: 3.3 Consensus size: 95
30904925 AGAGCGAGTA
* * * **
30904935 TAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGATGTGTCTGGGAC
1 TAAGACCACGTCTGGGACATGGCATCAGCATAGAGACGAGGGCTAGTGTAAGACATGTCTGGGAC
*
30905000 ATGCATCAGCCAC-ATCATGATAGCCCGTG
66 ATGCATCAGCCACGATCATGATAGCCAGTG
** ** * * *
30905029 TAAGACCACGTCTGGGACATGGCATCAGTGTAGAGGTGAGTGTTAGTGTAAGACATGTTTGGGAC
1 TAAGACCACGTCTGGGACATGGCATCAGCATAGAGACGAGGGCTAGTGTAAGACATGTCTGGGAC
* * * *
30905094 ATGCATCGGCCTCGATGATGTTAGCCAGTG
66 ATGCATCAGCCACGATCATGATAGCCAGTG
* ** * * **** * * * *
30905124 TAAG-TCGTGTTTGGGACAT-GCATCGGC-TA-AGTTTTGTGCTAGTATAAGTCATGTCTAGGAC
1 TAAGACCACGTCTGGGACATGGCATCAGCATAGAGACGAGGGCTAGTGTAAGACATGTCTGGGAC
* * *
30905185 ATGCATTAG-CACGTATACATGAGAGCTAGTG
66 ATGCATCAGCCACG-AT-CATGATAGCCAGTG
*
30905216 TAAGACCATGTCTGGGACATGGCATCAGC
1 TAAGACCACGTCTGGGACATGGCATCAGC
30905245 CTTGATGGAG
Statistics
Matches: 169, Mismatches: 42, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
90 3 0.02
91 33 0.20
92 16 0.09
93 18 0.11
94 82 0.49
95 17 0.10
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.26
Consensus pattern (95 bp):
TAAGACCACGTCTGGGACATGGCATCAGCATAGAGACGAGGGCTAGTGTAAGACATGTCTGGGAC
ATGCATCAGCCACGATCATGATAGCCAGTG
Found at i:30905234 original size:49 final size:48
Alignment explanation
Indices: 30905173--30905285 Score: 120
Period size: 49 Copynumber: 2.3 Consensus size: 48
30905163 TAGTATAAGT
* * * *
30905173 CATGTCTAGGACATGCATTAGCACGT-ATACATGAGAGCTAGTGTAAGAC
1 CATGTCTGGGACATGCATCAGC-CGTGATACA-GAGAGCCAGAGTAAGAC
* ** *
30905222 CATGTCTGGGACATGGCATCAGCCTTGATGGAGATAGCCAGAGTAAGAC
1 CATGTCTGGGACAT-GCATCAGCCGTGATACAGAGAGCCAGAGTAAGAC
30905271 CATGTCTGGGACATG
1 CATGTCTGGGACATG
30905286 GCAGCAGCAA
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
48 1 0.02
49 43 0.80
50 10 0.19
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (48 bp):
CATGTCTGGGACATGCATCAGCCGTGATACAGAGAGCCAGAGTAAGAC
Found at i:30906154 original size:55 final size:55
Alignment explanation
Indices: 30906045--30906157 Score: 129
Period size: 55 Copynumber: 2.1 Consensus size: 55
30906035 CTTTTAAATT
* * * * * *
30906045 AGTATTGTCCACGATTAGGCCACACGGGTGTGTGCCATATCCGTGTCTATAAGTC
1 AGTATTGCCCACGAGTAGGCCACACAGGCGTGTGCCATAGCCGTGCCTATAAGTC
* * *
30906100 AGTATTGCCCACGGGTAGGCCACACAGGCGTGTGTCATAGCTGTGCCCTA-AAGTC
1 AGTATTGCCCACGAGTAGGCCACACAGGCGTGTGCCATAGCCGTG-CCTATAAGTC
30906155 AGT
1 AGT
30906158 GTCGCACATG
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
55 45 0.94
56 3 0.06
ACGTcount: A:0.22, C:0.25, G:0.27, T:0.26
Consensus pattern (55 bp):
AGTATTGCCCACGAGTAGGCCACACAGGCGTGTGCCATAGCCGTGCCTATAAGTC
Found at i:30908508 original size:13 final size:13
Alignment explanation
Indices: 30908485--30908518 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
30908475 TGGGTGTTGA
*
30908485 CCACACTGCCTGC
1 CCACACAGCCTGC
*
30908498 CGACACAGCCTGC
1 CCACACAGCCTGC
30908511 CCACACAG
1 CCACACAG
30908519 GCGTATGGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.24, C:0.50, G:0.18, T:0.09
Consensus pattern (13 bp):
CCACACAGCCTGC
Found at i:30911873 original size:42 final size:42
Alignment explanation
Indices: 30911826--30911948 Score: 131
Period size: 42 Copynumber: 2.9 Consensus size: 42
30911816 ATTAGGGTTA
*
30911826 ATGAGACTATGTGTAAGACCATATCTGGGATATGGCATCGAT
1 ATGAGACTATGTGTAAGACCATATCTGGGATATGGCATCAAT
* * * *
30911868 ATGAGACT-TCGTATAAGACCATAGCTGAGCTATTGGCATCAAT
1 ATGAGACTAT-GTGTAAGACCATATCTGGGATA-TGGCATCAAT
* ** * *
30911911 ATGAGATTACATGTAAGACTATATCTAGGATATGGCAT
1 ATGAGACTATGTGTAAGACCATATCTGGGATATGGCAT
30911949 TGGTATGGTA
Statistics
Matches: 64, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
41 1 0.02
42 32 0.50
43 31 0.48
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (42 bp):
ATGAGACTATGTGTAAGACCATATCTGGGATATGGCATCAAT
Found at i:30911928 original size:43 final size:42
Alignment explanation
Indices: 30911837--30911948 Score: 111
Period size: 43 Copynumber: 2.6 Consensus size: 42
30911827 TGAGACTATG
* * * *
30911837 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCG
1 TGTAAGACCATAGCTGAGATATGGCATCAATATGAGACTTCA
* *
30911879 TATAAGACCATAGCTGAGCTATTGGCATCAATATGAGA-TTACA
1 TGTAAGACCATAGCTGAGATA-TGGCATCAATATGAGACTT-CA
* *
30911922 TGTAAGACTATATCT-AGGATATGGCAT
1 TGTAAGACCATAGCTGA-GATATGGCAT
30911949 TGGTATGGTA
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
42 26 0.46
43 31 0.54
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATAGCTGAGATATGGCATCAATATGAGACTTCA
Found at i:30925242 original size:24 final size:24
Alignment explanation
Indices: 30925214--30925262 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
30925204 ATTTTCTGAG
30925214 AATAACAATTCTACTGGTTTCTAA
1 AATAACAATTCTACTGGTTTCTAA
30925238 AATAACAATTCTACTGGTTTCTAA
1 AATAACAATTCTACTGGTTTCTAA
30925262 A
1 A
30925263 CGAGAAGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (24 bp):
AATAACAATTCTACTGGTTTCTAA
Found at i:30934367 original size:15 final size:16
Alignment explanation
Indices: 30934342--30934371 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30934332 TGATTGAGAA
30934342 GATAGTGGGGAGTTAG
1 GATAGTGGGGAGTTAG
30934358 GATA-TGGGGAGTTA
1 GATAGTGGGGAGTTA
30934372 TCAAAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.27, C:0.00, G:0.47, T:0.27
Consensus pattern (16 bp):
GATAGTGGGGAGTTAG
Found at i:30935532 original size:13 final size:14
Alignment explanation
Indices: 30935509--30935542 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
30935499 ATGGGAGTAG
*
30935509 GATTCTGTATATTT
1 GATTCTGTATATCT
30935523 GATT-TGTATATCT
1 GATTCTGTATATCT
30935536 GATTCTG
1 GATTCTG
30935543 CTTACTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.21, C:0.09, G:0.18, T:0.53
Consensus pattern (14 bp):
GATTCTGTATATCT
Found at i:30943134 original size:45 final size:48
Alignment explanation
Indices: 30942925--30943194 Score: 174
Period size: 46 Copynumber: 5.8 Consensus size: 48
30942915 TCATTTGTGC
* **
30942925 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACA-TTATGAGA
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTACAGAGAT-AGA
* * * * ** *
30942971 GCCATTGTAAGACCATGTCTGGGACATGGCATTGGC-ATTGAAATGAGA
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTACAGAGAT-AGA
* * *
30943019 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGCA-ACG-TA-A
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATC-GGCT-ACAGA-GATAGA
* * *
30943065 GCCA-TCGTAAGA-CATGTCAAGGACAT-GCATCGGCTAC-GAGAT-GT
1 GCTAGT-GTAAGACCATGTCTAGGACATGGCATCGGCTACAGAGATAGA
** *
30943109 TTTAGTGTAAGACCATGTCTCGGACATGGCATCGG-TACGAAGAGATGAGA
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTAC--AGAGAT-AGA
*
30943159 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGC
30943195 ATTACACCTT
Statistics
Matches: 174, Mismatches: 30, Indels: 35
0.73 0.13 0.15
Matches are distributed among these distances:
43 1 0.01
44 10 0.06
45 20 0.11
46 48 0.28
47 32 0.18
48 30 0.17
50 33 0.19
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTACAGAGATAGA
Found at i:30945651 original size:46 final size:46
Alignment explanation
Indices: 30945507--30945673 Score: 171
Period size: 46 Copynumber: 3.6 Consensus size: 46
30945497 TTTGTGTGCT
* *
30945507 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATT-ATGAGAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCAGCCTC-TTGATGAGAGCC
* * * *
30945553 AGTGTAAGACCAT-TTCTGGGACATGGCATCAGCAT-TGAGACGAGAGCT
1 AGTGTAAGA-CATGTT-TGGGACAT-GCATCAGCCTCT-TGATGAGAGCC
* *
30945601 AGTGTAAGAAATGTTTGGGACATGCATCGGCCTCTTGATGTA-AGCC
1 AGTGTAAGACATGTTTGGGACATGCATCAGCCTCTTGATG-AGAGCC
*
30945647 AGTGTAAGACATGTTTGAGACATGCAT
1 AGTGTAAGACATGTTTGGGACATGCAT
30945674 TGGCTACATG
Statistics
Matches: 99, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
46 50 0.51
47 23 0.23
48 26 0.26
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTTTGGGACATGCATCAGCCTCTTGATGAGAGCC
Found at i:30945752 original size:50 final size:48
Alignment explanation
Indices: 30945695--30945820 Score: 139
Period size: 46 Copynumber: 2.6 Consensus size: 48
30945685 TGTGTCAATA
* **
30945695 TAAGACCATGTCTGGGACATGGCATTGGCACGAATACATGGGATTCAGTG
1 TAAGACCATGTCTGGGACATGGCA-TGGCACGAA-ACATGAGAGCCAGTG
* * ** *
30945745 TAAGACCATGTCTGGGACATTGCA-CG-ACTTAACGTGAGAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATGGCACGAAACATGAGAGCCAGTG
30945791 TAAGACCATGTCTGGGACATGGCATAGGCA
1 TAAGACCATGTCTGGGACATGGCAT-GGCA
30945821 TTATACCCTA
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
46 34 0.54
47 3 0.05
48 2 0.03
49 1 0.02
50 23 0.37
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATGGCACGAAACATGAGAGCCAGTG
Found at i:30950574 original size:17 final size:17
Alignment explanation
Indices: 30950510--30950576 Score: 53
Period size: 17 Copynumber: 3.6 Consensus size: 17
30950500 GCTGTGTGGG
30950510 TGGCCGTGTGTAAGACA
1 TGGCCGTGTGTAAGACA
* *
30950527 CGGCCGTGTGGTCGACGAAAGCA
1 TGGCCGTGT-GT--A--AGA-CA
*
30950550 TGGTCGTGTGTAAGACA
1 TGGCCGTGTGTAAGACA
30950567 TGGCCGTGTG
1 TGGCCGTGTG
30950577 GTGGCCAGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
17 19 0.50
18 4 0.11
20 2 0.05
22 4 0.11
23 9 0.24
ACGTcount: A:0.19, C:0.19, G:0.39, T:0.22
Consensus pattern (17 bp):
TGGCCGTGTGTAAGACA
Found at i:30950667 original size:31 final size:31
Alignment explanation
Indices: 30950625--30950696 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
30950615 GAAGTTGGGG
* *
30950625 GTGTGGG-CCACACGGGCAATCCACACGGGC
1 GTGTGGGCCCACACAGGCAAGCCACACGGGC
*
30950655 GTGTGGGCCCACACAGGCAAGCCACACGGGT
1 GTGTGGGCCCACACAGGCAAGCCACACGGGC
*
30950686 ATGTGGGCCCA
1 GTGTGGGCCCA
30950697 TAATTTTGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 7 0.19
31 30 0.81
ACGTcount: A:0.21, C:0.32, G:0.36, T:0.11
Consensus pattern (31 bp):
GTGTGGGCCCACACAGGCAAGCCACACGGGC
Found at i:30954662 original size:47 final size:47
Alignment explanation
Indices: 30954592--30955262 Score: 974
Period size: 47 Copynumber: 14.3 Consensus size: 47
30954582 CCCTTCGGGA
* * * *
30954592 CTTATCACATTTATATACTTTCACATCCATCACATTGGCCATTTAGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCAGC
* * * *
30954639 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATT-AGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCA-GC
* *
30954686 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCAGC
*
30954733 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATT-AGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCA-GC
* * *
30954780 CTTGTCACATATATACACTTTCACATTCATCACAATGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCAGC
* * *
30954827 CTTATCTCATATATACACTTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCAGC
*
30954874 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATT-AGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCA-GC
* * *
30954921 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATCCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCAGC
*
30954968 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCAGC
* *
30955015 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATT-AGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCA-GC
* *
30955062 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCAGC
* *
30955109 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCAGC
* *
30955156 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATT-AGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCA-GC
* *
30955203 CTTGTCACATATATACACTTTCATATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCAGC
30955250 CTTATCACATATA
1 CTTATCACATATA
30955263 CATATCTTGT
Statistics
Matches: 566, Mismatches: 48, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
46 2 0.00
47 563 0.99
48 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCAGC
Found at i:30954846 original size:141 final size:141
Alignment explanation
Indices: 30954592--30955262 Score: 1128
Period size: 141 Copynumber: 4.8 Consensus size: 141
30954582 CCCTTCGGGA
* * * * *
30954592 CTTATCACATTTATATACTTTCACATCCATCACATTGGCCATTTA-GCCTTATCACATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGCCTTGTCACATATATACA
* * * * * *
30954656 CCTTCACATCCATCACATCGGCCATTAGGTCTTATCTCATATATACACTTTCACATTCATCACAT
65 CTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACAT
30954721 TGGCCATTCGGC
130 TGGCCATTCGGC
30954733 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACAC
* *
30954798 TTTCACATTCATCACAATGGCCATTCGGCCTTATCTCATATATACACTTTCACATTCATCACATT
66 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATT
*
30954863 GGTCATTCGGC
131 GGCCATTCGGC
30954874 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACAC
* *
30954939 TTTCACATTCATCACATTGGCCATCCGGCCTTGTCACATATATACACTTTCACATTCATCACATT
66 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATT
*
30955004 GGCCATTCAGC
131 GGCCATTCGGC
*
30955015 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACAC
*
30955080 TTTCACATTCATCACATTGGCCATTCGGCCTTGTCACATATATACACTTTCACATTCATCACATT
66 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATT
30955145 GGCCATTCGGC
131 GGCCATTCGGC
*
30955156 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACAC
* *
30955221 TTTCATATTCATCACATTGGCCATTCAGCCTTATCACATATA
66 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATA
30955263 CATATCTTGT
Statistics
Matches: 505, Mismatches: 24, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
140 3 0.01
141 502 0.99
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACAC
TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATT
GGCCATTCGGC
Found at i:30957132 original size:12 final size:12
Alignment explanation
Indices: 30957111--30957141 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
30957101 TGCCGAAAGA
30957111 AATT-ATGCCCT
1 AATTCATGCCCT
30957122 AATTCATGCCCT
1 AATTCATGCCCT
30957134 AATTCATG
1 AATTCATG
30957142 AACTTAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.35
Consensus pattern (12 bp):
AATTCATGCCCT
Found at i:30958090 original size:43 final size:43
Alignment explanation
Indices: 30957978--30958137 Score: 121
Period size: 43 Copynumber: 3.7 Consensus size: 43
30957968 ATAAAGCTCG
* * * ** *
30957978 TACAATGCC-ATATCCCAGATATGGTCTTACATGCTATCAC-A
1 TACAATGCCAATGTCCCAGACATGGTCTTACAGGAAATCTCAA
* * * * * *
30958019 TATCGATGCCACTGTCCCA-AGCAGGGTCTTATAGGAAATC-GAT
1 TA-CAATGCCAATGTCCCAGA-CATGGTCTTACAGGAAATCTCAA
* * * *
30958062 TAACGATGCCAATGTCTCAGACATGGTCTTACATGTAATCTCAA
1 T-ACAATGCCAATGTCCCAGACATGGTCTTACAGGAAATCTCAA
30958106 TACAATGCCAATGTCCCAGACATGGTCTTACA
1 TACAATGCCAATGTCCCAGACATGGTCTTACA
30958138 TGTAATCACA
Statistics
Matches: 91, Mismatches: 21, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
41 2 0.02
42 7 0.08
43 78 0.86
44 4 0.04
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACAGGAAATCTCAA
Found at i:30958689 original size:28 final size:29
Alignment explanation
Indices: 30958630--30958694 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
30958620 TTTTCATTTA
* * *
30958630 TTTCACAATTTAACCCCTCAATTTACCTT
1 TTTCTCAATTTAACCCCTCAATTGACATT
*
30958659 TTTCTCAATTTAATCCCT-AATTGACATT
1 TTTCTCAATTTAACCCCTCAATTGACATT
*
30958687 TTTATCAA
1 TTTCTCAA
30958695 AAATCACTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 15 0.48
29 16 0.52
ACGTcount: A:0.29, C:0.25, G:0.02, T:0.45
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATTGACATT
Found at i:30965702 original size:31 final size:32
Alignment explanation
Indices: 30965656--30965736 Score: 89
Period size: 31 Copynumber: 2.6 Consensus size: 32
30965646 TCTATACTTT
30965656 AATTT-GATCAATTTTAGT-TCTTATACTTTTCG
1 AATTTGGA-CAATTTTAGTCTCTT-TACTTTTCG
* *
30965688 AA-TTGGACAATTTTAGTCTCTTTCCTTTTTG
1 AATTTGGACAATTTTAGTCTCTTTACTTTTCG
*
30965719 AATTTTGA-AATTTTAGTC
1 AATTTGGACAATTTTAGTC
30965737 CTAACCCAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
31 31 0.72
32 12 0.28
ACGTcount: A:0.25, C:0.12, G:0.11, T:0.52
Consensus pattern (32 bp):
AATTTGGACAATTTTAGTCTCTTTACTTTTCG
Found at i:30969272 original size:29 final size:27
Alignment explanation
Indices: 30969239--30969296 Score: 71
Period size: 29 Copynumber: 2.1 Consensus size: 27
30969229 AATTTTAAAT
*
30969239 TTATATATGAATTATAATTTATTGTATAA
1 TTATATATAAATTATAA-TT-TTGTATAA
* *
30969268 TTATATATAAATTTTTATTTTGTATAA
1 TTATATATAAATTATAATTTTGTATAA
30969295 TT
1 TT
30969297 TTGTACAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 10 0.38
28 2 0.08
29 14 0.54
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (27 bp):
TTATATATAAATTATAATTTTGTATAA
Found at i:30976808 original size:42 final size:43
Alignment explanation
Indices: 30976700--30976816 Score: 148
Period size: 43 Copynumber: 2.7 Consensus size: 43
30976690 GTACCAATGC
* *
30976700 CATATCCCAAATATGGTCTTACATGTAATCTTGTATCGATGCT
1 CATATCCCAAATATGGTCTTACACGTAATCTTGTATCGATGAT
* * *
30976743 AATAGCCCAAATATGGTCTTACACG-AAGTCTTTTATCGAT-AT
1 CATATCCCAAATATGGTCTTACACGTAA-TCTTGTATCGATGAT
* *
30976785 CATATCCTAGATATGGTCTTACACGTAATCTT
1 CATATCCCAAATATGGTCTTACACGTAATCTT
30976817 AGTAACCCTA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
42 28 0.44
43 35 0.56
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.36
Consensus pattern (43 bp):
CATATCCCAAATATGGTCTTACACGTAATCTTGTATCGATGAT
Found at i:30980415 original size:8 final size:8
Alignment explanation
Indices: 30980387--30980423 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
30980377 CTGAGCATAC
30980387 TGAGCATT
1 TGAGCATT
*
30980395 TGAGGATT
1 TGAGCATT
30980403 CTGAGCATT
1 -TGAGCATT
30980412 TGAGCATT
1 TGAGCATT
30980420 TGAG
1 TGAG
30980424 GATTGTGTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
8 19 0.73
9 7 0.27
ACGTcount: A:0.24, C:0.11, G:0.30, T:0.35
Consensus pattern (8 bp):
TGAGCATT
Found at i:30980421 original size:25 final size:26
Alignment explanation
Indices: 30980373--30980427 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 26
30980363 TTCACGAGAT
30980373 GATTCTGAGCATACTGAGCATTTGAG
1 GATTCTGAGCATACTGAGCATTTGAG
*
30980399 GATTCTGAGCAT-TTGAGCATTTGAG
1 GATTCTGAGCATACTGAGCATTTGAG
30980424 GATT
1 GATT
30980428 GTGTCTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 16 0.57
26 12 0.43
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.35
Consensus pattern (26 bp):
GATTCTGAGCATACTGAGCATTTGAG
Found at i:30982310 original size:47 final size:47
Alignment explanation
Indices: 30982252--30982505 Score: 418
Period size: 47 Copynumber: 5.4 Consensus size: 47
30982242 CAGCCAAGAC
*
30982252 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
30982299 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
30982346 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
30982393 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * *
30982440 AGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
30982487 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
30982506 TCCCGAAGGG
Statistics
Matches: 197, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 197 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:30982680 original size:37 final size:37
Alignment explanation
Indices: 30982624--30982702 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
30982614 CCGAGCTCTA
* *
30982624 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
30982661 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
30982698 AAGAC
1 AAGAC
30982703 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:30984829 original size:40 final size:39
Alignment explanation
Indices: 30984520--30984818 Score: 445
Period size: 40 Copynumber: 7.5 Consensus size: 39
30984510 GAGAATTGAG
*
30984520 AGTGATATATCCGGGCTAAGCCCTGAGGAGCATTCGTACT
1 AGTGATATATCCGGGCTAAGCCC-GAGGAGCATTCGTGCT
30984560 AGTGATATATCCGGGCTAAGCCTCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGCC-CGAGGAGCATTCGTGCT
*
30984600 AGTGATATATCCGGGCTAAGCCCCAAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAG-CCCGAGGAGCATTCGTGCT
30984640 AGTGATATATCCGGGCTAAGCCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAG-CCCGAGGAGCATTCGTGCT
30984680 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAG-CCCGAGGAGCATTCGTGCT
*
30984720 AGTGATATATCCGGGATAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAG-CCCGAGGAGCATTCGTGCT
** * * *
30984760 AGTGATGCATTCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAG-CCCGAGGAGCATTCGTGCT
* *
30984800 AGTAATATATCCGTGCTAA
1 AGTGATATATCCGGGCTAA
30984819 ACCTCGAAGA
Statistics
Matches: 241, Mismatches: 16, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
40 238 0.99
41 3 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
AGTGATATATCCGGGCTAAGCCCGAGGAGCATTCGTGCT
Found at i:30987571 original size:47 final size:47
Alignment explanation
Indices: 30987513--30988089 Score: 932
Period size: 47 Copynumber: 12.4 Consensus size: 47
30987503 CAGCCAAGAC
*
30987513 AGTGTATATATGTGATAAGGCCTAACAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
30987560 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
30987607 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
30987654 AGTGTATATATGTGATAAGGCCTAAT-----A-GTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
30987695 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
30987742 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
30987789 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
30987836 AGTGTATATGTGTGACAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * *
30987883 AGTGTATATGTGTGAGAAGGCCTATTAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
30987930 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
30987977 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * * * * *
30988024 AGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
30988071 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
30988090 TTCCGAAGGG
Statistics
Matches: 503, Mismatches: 21, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
41 40 0.08
42 1 0.00
46 1 0.00
47 461 0.92
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:30989942 original size:40 final size:39
Alignment explanation
Indices: 30989898--30990039 Score: 144
Period size: 40 Copynumber: 3.6 Consensus size: 39
30989888 AATTTGGATA
* *
30989898 TATATATGGCACTTAGTGTACGATTCAAGAAAGTTTCGGC
1 TATATATGACACTTAGTGTACGATTC-AGAAAGCTTCGGC
* *
30989938 TATATATGACACTTAGTGTGCGATTCGGAATAGCTTCGGC
1 TATATATGACACTTAGTGTACGATTCAGAA-AGCTTCGGC
* * *
30989978 TATATATGACACTTTGTGTGA-GA-TCGAGATAGCTTCAGC
1 TATATATGACACTTAGTGT-ACGATTC-AGAAAGCTTCGGC
* * *
30990017 TATGTAAGGCACTTAGTGTACGA
1 TATATATGACACTTAGTGTACGA
30990040 AATTATAATA
Statistics
Matches: 85, Mismatches: 13, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 30 0.35
40 54 0.64
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (39 bp):
TATATATGACACTTAGTGTACGATTCAGAAAGCTTCGGC
Found at i:30992483 original size:27 final size:27
Alignment explanation
Indices: 30992449--30992648 Score: 283
Period size: 27 Copynumber: 7.4 Consensus size: 27
30992439 TGGATAAGTT
*
30992449 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
30992476 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* ** *
30992503 GTTGAATTATTGAAATACCCCTGGAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
30992530 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
30992557 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
30992584 GTAGAAATATCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
30992611 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
30992638 GTAAAATTACC
1 GTAGAATTACC
30992649 ATTTTGCCCC
Statistics
Matches: 152, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 152 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:30994809 original size:48 final size:48
Alignment explanation
Indices: 30994738--30995006 Score: 369
Period size: 48 Copynumber: 5.6 Consensus size: 48
30994728 TAAAGTACCA
*
30994738 ATGCCATGTCCCCGACATGGTCTTACACTGGCACATATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCACCG
* *
30994786 ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGCAG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCACCG
*
30994834 ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATTACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCACCG
* * * **
30994882 ATTCCATGTCCCAGACGTGGTCTTACACTGGCACATATATTATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCACCG
* * * * *
30994930 ATGCCATGTCCCAGACATGGTCGTACACAGGTACATATCTCAGAT-ACTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATC--ATCACCG
* *
30994979 ATGCCATGTTCTAGACATGGTCTTACAC
1 ATGCCATGTCCCAGACATGGTCTTACAC
30995007 GGAATCTCAT
Statistics
Matches: 194, Mismatches: 25, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
48 166 0.86
49 26 0.13
50 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCACCG
Found at i:30996486 original size:46 final size:45
Alignment explanation
Indices: 30996433--30996607 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 45
30996423 TGGTTGAGCA
30996433 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
30996479 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
30996526 TCCGAGCTCGTTGAGTTGAGT-CGAGTTCACTTATGGATCCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
30996571 -CCTGAGCTCGTTGAGTTGAGTCTGAGTTCACCTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30996608 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
43 3 0.03
44 3 0.03
45 22 0.21
46 49 0.46
47 24 0.23
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:30996588 original size:92 final size:93
Alignment explanation
Indices: 30996430--30996599 Score: 272
Period size: 92 Copynumber: 1.8 Consensus size: 93
30996420 CAATGGTTGA
* *
30996430 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCGAACGTCCGAACTCGTTGAGT
30996495 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
30996523 GCATCCGAGCTCGTTGAGTTGAGT-CGAGTTCACTTATGGATCCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCGAACGTCC-GAACTCGTTGAG
*
30996586 TTGAGTCTGAGTTC
65 TTGAGTCCGAGTTC
30996600 ACCTATGGGC
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
91 2 0.03
92 46 0.65
93 23 0.32
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:30999540 original size:94 final size:93
Alignment explanation
Indices: 30999296--30999653 Score: 403
Period size: 94 Copynumber: 3.8 Consensus size: 93
30999286 GGTAAATTGT
*
30999296 CGATGCCATGTCCCAAACATGGTCTTACATTGGCTCTCATATATGCGTGCTGATGCATGTCCCAG
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATAT--G-GCTGATGCATGTCCCAG
* *
30999361 ACATGTCTTACACTAGCA--CAACTCT-TAGT
63 ACATGTCTTACACTAGCACTCATCTCTGT-GC
* * * * *
30999390 CGATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATCTC-TGTCGA-GGCTGATGCATGTCCTA
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGC--TCTCATAT--ATGGCTGATGCATGTCCCA
*
30999451 GACATGTCTTACTCTAGCACTCATCTCTGTGC
62 GACATGTCTTACACTAGCACTCATCTCTGTGC
*
30999483 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTTATAATATGGCTGATGCATGTCCCAGAC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT-ATATGGCTGATGCATGTCCCAGAC
30999548 ATGTCTTACACTAGC-CT--TCGTCTGGATGC
65 ATGTCTTACACTAGCACTCATC-TCT-G-TGC
* * *
30999577 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGAAGCATGTCCCAGAC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT-ATATGGCTGATGCATGTCCCAGAC
*
30999642 ATGCCTTACACT
65 ATGTCTTACACT
30999654 GGCGCACAAA
Statistics
Matches: 228, Mismatches: 21, Indels: 30
0.82 0.08 0.11
Matches are distributed among these distances:
91 35 0.15
92 16 0.07
93 32 0.14
94 130 0.57
95 15 0.07
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (93 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATATGGCTGATGCATGTCCCAGACA
TGTCTTACACTAGCACTCATCTCTGTGC
Found at i:30999634 original size:47 final size:45
Alignment explanation
Indices: 30999297--30999656 Score: 248
Period size: 47 Copynumber: 7.7 Consensus size: 45
30999287 GTAAATTGTC
* * *
30999297 GATGCCATGTCCCAAACATGGTCTTACATTGGCTCTCATATATGCGTGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTC--ATATGTG-GCT
* * *
30999347 GATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTTA-GT--C-
1 GATGCATGTCCCAGACATGTCTTACACT-G-GC-TCTCATATGTGGCT
* * * *
30999391 GATGCGTGTCCCAGACACGTCTTACACTGGCTATCTC-TGTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGC--TCTCATAT-GTGGCT
* * * * * * *
30999438 GATGCATGTCCTAGACATGTCTTACTCTAGCACTCATCTCTGTGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATGTG-GCT
* * *
30999484 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTTATAATATGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-ATGTGGCT
* * * *
30999532 GATGCATGTCCCAGACATGTCTTACACTAGC-CTTCGTCTG-GATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTC-TCATATGTG--GCT
30999578 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-ATGTGGCT
* *
30999626 GAAGCATGTCCCAGACATGCCTTACACTGGC
1 GATGCATGTCCCAGACATGTCTTACACTGGC
30999657 GCACAAATCA
Statistics
Matches: 244, Mismatches: 44, Indels: 48
0.73 0.13 0.14
Matches are distributed among these distances:
42 2 0.01
43 5 0.02
44 28 0.11
45 7 0.03
46 41 0.17
47 79 0.32
48 51 0.21
49 22 0.09
50 6 0.02
51 3 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATGTGGCT
Found at i:31000215 original size:33 final size:33
Alignment explanation
Indices: 31000173--31000240 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
31000163 TTTTGCAACT
31000173 TATGCAAAATAGTCCCTTTAGGTGTTTTCATGC
1 TATGCAAAATAGTCCCTTTAGGTGTTTTCATGC
31000206 TATGCAAAATAGTCCCTTTAGGTGTTTTCATGC
1 TATGCAAAATAGTCCCTTTAGGTGTTTTCATGC
31000239 TA
1 TA
31000241 ACACCTTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.40
Consensus pattern (33 bp):
TATGCAAAATAGTCCCTTTAGGTGTTTTCATGC
Found at i:31001880 original size:4 final size:4
Alignment explanation
Indices: 31001871--31001904 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
31001861 CCTCAAAATA
31001871 GAAT GAAT GAAT AGAAT GAAT GAAT AGAAT GAAT
1 GAAT GAAT GAAT -GAAT GAAT GAAT -GAAT GAAT
31001905 TATAAGCTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
GAAT
Found at i:31001885 original size:13 final size:13
Alignment explanation
Indices: 31001867--31001904 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
31001857 ATTACCTCAA
31001867 AATAGAATGAATG
1 AATAGAATGAATG
31001880 AATAGAATGAATG
1 AATAGAATGAATG
31001893 AATAGAATGAAT
1 AATAGAATGAAT
31001905 TATAAGCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.55, C:0.00, G:0.21, T:0.24
Consensus pattern (13 bp):
AATAGAATGAATG
Found at i:31001889 original size:9 final size:8
Alignment explanation
Indices: 31001871--31001904 Score: 50
Period size: 9 Copynumber: 4.0 Consensus size: 8
31001861 CCTCAAAATA
31001871 GAATGAAT
1 GAATGAAT
31001879 GAATAGAAT
1 GAAT-GAAT
31001888 GAATGAAT
1 GAATGAAT
31001896 AGAATGAAT
1 -GAATGAAT
31001905 TATAAGCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.24
Consensus pattern (8 bp):
GAATGAAT
Found at i:31009008 original size:24 final size:24
Alignment explanation
Indices: 31008975--31009033 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
31008965 GAACCTTTAA
* *
31008975 GCAAAACCTTATGTGATTTAGTAT
1 GCAAACCCTTATGTGATCTAGTAT
*
31008999 GCGAACCCTTATGTGATCTAGTAT
1 GCAAACCCTTATGTGATCTAGTAT
31009023 GCAAACCCTTA
1 GCAAACCCTTA
31009034 CATAAATAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (24 bp):
GCAAACCCTTATGTGATCTAGTAT
Found at i:31016479 original size:148 final size:148
Alignment explanation
Indices: 31016271--31016561 Score: 494
Period size: 148 Copynumber: 2.0 Consensus size: 148
31016261 TTGTAGACCT
* * **
31016271 TGAGATAGAACGAACCTTTCGGCAGCGAAGAAGACAAGCGAACCAGAGAAAGACTGAAGGAATGA
1 TGAGATAGAACGAACCTTTCGACAGAGAAGAAGACAAGCGAACCAGAGAAAGACAAAAGGAATGA
*
31016336 ATTTTAAGAATATGAGTCAAGGAAATGGAGCAAACCTTGCTCAAAATCCTATCCTTATTGCTGAT
66 ATTTCAAGAATATGAGTCAAGGAAATGGAGCAAACCTTGCTCAAAATCCTATCCTTATTGCTGAT
31016401 GATAGGGATAGAGAACCC
131 GATAGGGATAGAGAACCC
* *
31016419 TGAGATAGAATGAACCTTTCGACAGATAAGAAGACAAGCGAACCAGA-AAATGACAAAAGGAATG
1 TGAGATAGAACGAACCTTTCGACAGAGAAGAAGACAAGCGAACCAGAGAAA-GACAAAAGGAATG
*
31016483 AATTTCGAGAATATGAGTCAAGGAAATGGAGCAAACCTTGCTCAAAATCCTATCCTTATTGCTGA
65 AATTTCAAGAATATGAGTCAAGGAAATGGAGCAAACCTTGCTCAAAATCCTATCCTTATTGCTGA
31016548 TGATAGGGATAGAG
130 TGATAGGGATAGAG
31016562 CCTTGAGATA
Statistics
Matches: 134, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
147 3 0.02
148 131 0.98
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (148 bp):
TGAGATAGAACGAACCTTTCGACAGAGAAGAAGACAAGCGAACCAGAGAAAGACAAAAGGAATGA
ATTTCAAGAATATGAGTCAAGGAAATGGAGCAAACCTTGCTCAAAATCCTATCCTTATTGCTGAT
GATAGGGATAGAGAACCC
Found at i:31038155 original size:43 final size:43
Alignment explanation
Indices: 31038108--31038215 Score: 121
Period size: 42 Copynumber: 2.5 Consensus size: 43
31038098 TCTCGATTGA
* **
31038108 GATTTACGTATAAGACCATGTCTAGGACATCGGCATCG-TATCT
1 GATTTACGTGTAAGACCATGTCTAGGACAGAGGCATCGATAT-T
* *
31038151 GATTT-CGTGTAAGACCCTGTGTAGGACAGAGGCATCGATATT
1 GATTTACGTGTAAGACCATGTCTAGGACAGAGGCATCGATATT
* * *
31038193 GAATTACATGTAAGACCACGTCT
1 GATTTACGTGTAAGACCATGTCT
31038216 GAGACGTTGG
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 32 0.60
43 21 0.40
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (43 bp):
GATTTACGTGTAAGACCATGTCTAGGACAGAGGCATCGATATT
Found at i:31048802 original size:17 final size:18
Alignment explanation
Indices: 31048780--31048813 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
31048770 TTTTTGTTTG
31048780 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
31048797 AATAAATTAATATGCAT
1 AATAAATTAATATGCAT
31048814 ATATTTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:31051071 original size:22 final size:19
Alignment explanation
Indices: 31051046--31051093 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 19
31051036 TATCATTTCG
31051046 ATTAAATTCTTGTCAAAAAATA
1 ATTAAATT-TT-T-AAAAAATA
*
31051068 ATT-AATTTTTATAAAATA
1 ATTAAATTTTTAAAAAATA
31051086 ATTAAATT
1 ATTAAATT
31051094 ATACTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 10 0.42
19 5 0.21
20 2 0.08
21 4 0.17
22 3 0.12
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (19 bp):
ATTAAATTTTTAAAAAATA
Found at i:31054750 original size:21 final size:20
Alignment explanation
Indices: 31054721--31054791 Score: 52
Period size: 21 Copynumber: 3.5 Consensus size: 20
31054711 CTTTTGCCTA
* *
31054721 AAATGTGAAATTGACTGAATT
1 AAATATGAAATTGA-TCAATT
* * * *
31054742 AAATATGAATTTTATTAAAT
1 AAATATGAAATTGATCAATT
*
31054762 AAATGTGAAATTGATTCAATT
1 AAATATGAAATTGA-TCAATT
*
31054783 GAATATGAA
1 AAATATGAA
31054792 TTTTATTAAA
Statistics
Matches: 37, Mismatches: 12, Indels: 2
0.73 0.24 0.04
Matches are distributed among these distances:
20 15 0.41
21 22 0.59
ACGTcount: A:0.46, C:0.03, G:0.14, T:0.37
Consensus pattern (20 bp):
AAATATGAAATTGATCAATT
Found at i:31054764 original size:20 final size:20
Alignment explanation
Indices: 31054741--31054802 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
31054731 TTGACTGAAT
31054741 TAAATATGAATTTTATTAAA
1 TAAATATGAATTTTATTAAA
* * * *
31054761 TAAATGTGAAATTGATTCAAT
1 TAAATATGAATTTTATT-AAA
*
31054782 TGAATATGAATTTTATTAAA
1 TAAATATGAATTTTATTAAA
31054802 T
1 T
31054803 TAAGTTAAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
20 17 0.53
21 15 0.47
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.44
Consensus pattern (20 bp):
TAAATATGAATTTTATTAAA
Found at i:31054766 original size:41 final size:41
Alignment explanation
Indices: 31054721--31054802 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
31054711 CTTTTGCCTA
*
31054721 AAATGTGAAATTGACTGAATTAAATATGAATTTTATTAAAT
1 AAATGTGAAATTGACTCAATTAAATATGAATTTTATTAAAT
* *
31054762 AAATGTGAAATTGATTCAATTGAATATGAATTTTATTAAAT
1 AAATGTGAAATTGACTCAATTAAATATGAATTTTATTAAAT
31054803 TAAGTTAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.45, C:0.02, G:0.12, T:0.40
Consensus pattern (41 bp):
AAATGTGAAATTGACTCAATTAAATATGAATTTTATTAAAT
Found at i:31054803 original size:21 final size:21
Alignment explanation
Indices: 31054738--31054805 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
31054728 AAATTGACTG
31054738 AATTAAATATGAATTTTATTA
1 AATTAAATATGAATTTTATTA
* * * *
31054759 AA-TAAATGTGAAATTGATTC
1 AATTAAATATGAATTTTATTA
*
31054779 AATTGAATATGAATTTTATTA
1 AATTAAATATGAATTTTATTA
31054800 AATTAA
1 AATTAA
31054806 GTTAAATTTA
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
20 16 0.44
21 20 0.56
ACGTcount: A:0.47, C:0.01, G:0.09, T:0.43
Consensus pattern (21 bp):
AATTAAATATGAATTTTATTA
Found at i:31060060 original size:19 final size:19
Alignment explanation
Indices: 31060036--31060081 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
31060026 TCCATTTTAC
31060036 TTTATTTTCAATTT-AAATT
1 TTTATTTTC-ATTTCAAATT
* *
31060055 TTTATTTTCTTTTCTAATT
1 TTTATTTTCATTTCAAATT
31060074 TTTATTTT
1 TTTATTTT
31060082 ATTCGCTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 3 0.12
19 21 0.88
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTATTTTCATTTCAAATT
Found at i:31066969 original size:3 final size:3
Alignment explanation
Indices: 31066961--31066985 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
31066951 TTGTTCTTAA
31066961 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
31066986 CATACATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:31066992 original size:4 final size:4
Alignment explanation
Indices: 31066983--31067020 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
31066973 AATAATAATA
*
31066983 ATAC ATAC ATAC ATAC ATAC ATGC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
31067021 TTATAGCGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.47, C:0.24, G:0.03, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:31080909 original size:27 final size:27
Alignment explanation
Indices: 31080869--31081013 Score: 173
Period size: 27 Copynumber: 5.4 Consensus size: 27
31080859 GGATAAGTTA
**
31080869 TAGAATTACCGAAATACCTATGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
** *
31080896 TAGAATTATTGAAATACCCCTGTAGGA
1 TAGAATTACCGAAATACCCCTGTAGGG
*
31080923 TAGAATTACCGAAATACCCCTGTAAGG
1 TAGAATTACCGAAATACCCCTGTAGGG
**
31080950 TAGAATTACTAAAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
* * * *
31080977 TAGAATTACCGAGATACTCTTGTGGGG
1 TAGAATTACCGAAATACCCCTGTAGGG
*
31081004 TAAAATTACC
1 TAGAATTACC
31081014 ATTTTGCCCC
Statistics
Matches: 99, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 99 1.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (27 bp):
TAGAATTACCGAAATACCCCTGTAGGG
Found at i:31081011 original size:54 final size:53
Alignment explanation
Indices: 31080868--31081012 Score: 191
Period size: 54 Copynumber: 2.7 Consensus size: 53
31080858 TGGATAAGTT
* *
31080868 ATAGAATTACCGAAATACCTATGTAGGGTAGAATTATTGAAATACCCCTGTAGG
1 ATAGAATTACCGAAATACCT-TGTAGGGTAGAATTACTAAAATACCCCTGTAGG
* *
31080922 ATAGAATTACCGAAATACCCCTGTAAGGTAGAATTACTAAAATACCCCTGTAGG
1 ATAGAATTACCGAAATA-CCTTGTAGGGTAGAATTACTAAAATACCCCTGTAGG
* * * *
31080976 GTAGAATTACCGAGATACTCTTGTGGGGTAAAATTAC
1 ATAGAATTACCGAAATAC-CTTGTAGGGTAGAATTAC
31081013 CATTTTGCCC
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
53 1 0.01
54 76 0.96
55 2 0.03
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.27
Consensus pattern (53 bp):
ATAGAATTACCGAAATACCTTGTAGGGTAGAATTACTAAAATACCCCTGTAGG
Found at i:31085821 original size:21 final size:20
Alignment explanation
Indices: 31085795--31085833 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
31085785 GTTTGTTTTG
31085795 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
31085816 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
31085834 ACAAGTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:31089208 original size:40 final size:40
Alignment explanation
Indices: 31089118--31089342 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
31089108 TTGAATGATG
* * *
31089118 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AT
* *
31089159 T-CGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
31089198 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
31089237 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
31089277 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
31089316 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
31089343 AACGAGGAGC
Statistics
Matches: 161, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 38 0.24
40 114 0.71
41 9 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:31089360 original size:80 final size:80
Alignment explanation
Indices: 31089118--31089375 Score: 242
Period size: 80 Copynumber: 3.2 Consensus size: 80
31089108 TTGAATGATG
* * * * * * * *
31089118 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATTCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
** *
31089181 TTGTGCGAGAT-ACTAAT
64 TTGAACGAG-TGACTAAA
* *
31089198 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
* *
31089262 GTACGAGTTACTAAA
66 GAACGAGTGACTAAA
* *
31089277 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
31089341 TGAACGAG-GAGCTATA
65 TGAACGAGTGA-CTAAA
* *
31089357 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
31089376 TACGTGATTT
Statistics
Matches: 153, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.01
79 72 0.47
80 77 0.50
81 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGTGACTAAA
Found at i:31093322 original size:27 final size:26
Alignment explanation
Indices: 31093274--31093333 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
31093264 GCGAGGCTGC
*
31093274 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGACACCAGA-A
* * *
31093301 CAGATATTGTGGCTAGGACACCAGAA
1 CAGATATTGTGACGAAGACACCAGAA
31093327 CAGATAT
1 CAGATAT
31093334 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGACACCAGAA
Found at i:31093420 original size:27 final size:26
Alignment explanation
Indices: 31093378--31093429 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
31093368 GCGAGGCTGC
*
31093378 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
31093404 CAGATATATGTGGCGAAGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
31093430 TTGCAGCGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:31096473 original size:45 final size:45
Alignment explanation
Indices: 31096228--31096461 Score: 297
Period size: 45 Copynumber: 5.2 Consensus size: 45
31096218 TGATGTCCTA
** * * * * *
31096228 GTCTTACACGTTACCACATAGATCGATACCAACATCCCAGATGTG
1 GTCTTACACGAAAACACATATATCGATGCCAACGTCCCAGACGTG
* * * * *
31096273 GTCTTACACAAAAACAAATATATTGATGCCAACGTCCTAGATGTG
1 GTCTTACACGAAAACACATATATCGATGCCAACGTCCCAGACGTG
* *
31096318 GTCTTACACGAAAACATATTTATCGATGCCAACGTCCCAGACGTG
1 GTCTTACACGAAAACACATATATCGATGCCAACGTCCCAGACGTG
* *
31096363 GTCTTACACGAAAATACATATATCAATGCCAACGTCCCAGACGTG
1 GTCTTACACGAAAACACATATATCGATGCCAACGTCCCAGACGTG
* * *
31096408 GTCTTGCACGAAAACACATATATCGATGTCAACGTCCCAGACATG
1 GTCTTACACGAAAACACATATATCGATGCCAACGTCCCAGACGTG
31096453 GTCTTACAC
1 GTCTTACAC
31096462 AAACTCACAT
Statistics
Matches: 163, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 163 1.00
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.24
Consensus pattern (45 bp):
GTCTTACACGAAAACACATATATCGATGCCAACGTCCCAGACGTG
Found at i:31103992 original size:45 final size:45
Alignment explanation
Indices: 31103916--31104083 Score: 185
Period size: 45 Copynumber: 3.7 Consensus size: 45
31103906 CGATGCTGAT
* * * * * *
31103916 GTCCCAGACATGGTCTTACA-TATAACCACATAGATCGATGCCAAC
1 GTCCCAAACGTGGTCTTACACGA-AAACACATATATAGATGCCAAC
* * * *
31103961 GTACCAAACGTGGTTTTACACGAAAATACATATATTGATGCCAAC
1 GTCCCAAACGTGGTCTTACACGAAAACACATATATAGATGCCAAC
*
31104006 GTCCCAGACGTGGTCTTACACGAAAACACATATATAGATGCCAAC
1 GTCCCAAACGTGGTCTTACACGAAAACACATATATAGATGCCAAC
* * * *
31104051 TTCCCAAATGCGGTCTTACACGAAAACGCATAT
1 GTCCCAAACGTGGTCTTACACGAAAACACATAT
31104084 CAAAATCCTG
Statistics
Matches: 103, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
45 102 0.99
46 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (45 bp):
GTCCCAAACGTGGTCTTACACGAAAACACATATATAGATGCCAAC
Found at i:31104083 original size:90 final size:90
Alignment explanation
Indices: 31103916--31104083 Score: 212
Period size: 90 Copynumber: 1.9 Consensus size: 90
31103906 CGATGCTGAT
* * * * *
31103916 GTCCCAGACATGGTCTTACATATAACCACATAGATCGATGCCAACGTACCAAACGTGGTTTTACA
1 GTCCCAGACATGGTCTTACAGATAAACACATAGATAGATGCCAACGTACCAAACGCGGTCTTACA
*
31103981 CGAAAATACATATATTGATGCCAAC
66 CGAAAACACATATATTGATGCCAAC
* * * * *
31104006 GTCCCAGACGTGGTCTTACACGA-AAACACATATATAGATGCCAACTTCCCAAATGCGGTCTTAC
1 GTCCCAGACATGGTCTTACA-GATAAACACATAGATAGATGCCAACGTACCAAACGCGGTCTTAC
*
31104070 ACGAAAACGCATAT
65 ACGAAAACACATAT
31104084 CAAAATCCTG
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
90 64 0.98
91 1 0.02
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (90 bp):
GTCCCAGACATGGTCTTACAGATAAACACATAGATAGATGCCAACGTACCAAACGCGGTCTTACA
CGAAAACACATATATTGATGCCAAC
Found at i:31105191 original size:14 final size:15
Alignment explanation
Indices: 31105174--31105202 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
31105164 TCACAAAAAT
31105174 TTCACACAT-ATAAA
1 TTCACACATAATAAA
31105188 TTCACACATAATAAA
1 TTCACACATAATAAA
31105203 CACAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:31106653 original size:13 final size:13
Alignment explanation
Indices: 31106635--31106664 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
31106625 GAGTGGTCCA
31106635 ATATTTCTAAGCC
1 ATATTTCTAAGCC
31106648 ATATTTCTAAGCC
1 ATATTTCTAAGCC
31106661 ATAT
1 ATAT
31106665 GTCCAAGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (13 bp):
ATATTTCTAAGCC
Found at i:31108595 original size:42 final size:41
Alignment explanation
Indices: 31108548--31108711 Score: 152
Period size: 42 Copynumber: 3.9 Consensus size: 41
31108538 GACTATACCA
* * **
31108548 ATGCCATGTCCCAGATATGGTCTTACATGTAATCTTGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AATCTCATATCG
* * * *
31108590 ATGCCAATAGCCCAGCTATGGTCATACACAAAATCTCATATC-
1 ATGCC-ATATCCCAGATATGGTCTTACAC-GAATCTCATATCG
*
31108632 ATTGCCATATCCCAGATATGGTCTTATACGAAGTCTCATA-CTG
1 A-TGCCATATCCCAGATATGGTCTTACACGAA-TCTCATATC-G
* *
31108675 ATGTCATATCCCAGATATGGTCTTACACATAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACAC-GAATCTCA
31108712 GTAACCCTAA
Statistics
Matches: 99, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
41 3 0.03
42 62 0.63
43 34 0.34
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACGAATCTCATATCG
Found at i:31115196 original size:40 final size:40
Alignment explanation
Indices: 31115139--31115356 Score: 309
Period size: 40 Copynumber: 5.5 Consensus size: 40
31115129 CGGATGATAA
* *
31115139 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
31115179 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
31115219 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* **
31115259 CCAGGCTTGGTCCCGAAGGCATTTGTGCGAGTTACTATAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
*
31115300 -CGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
31115339 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
31115357 TACTTGGTTT
Statistics
Matches: 162, Mismatches: 12, Indels: 9
0.89 0.07 0.05
Matches are distributed among these distances:
39 19 0.12
40 140 0.86
41 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:31117766 original size:64 final size:65
Alignment explanation
Indices: 31117676--31117808 Score: 234
Period size: 64 Copynumber: 2.1 Consensus size: 65
31117666 TATTTTCACT
* *
31117676 AAAA-CTTACTTTGTAAAAAGATGTTTATCACACATCAAACATTCATATTCCTCCATTAAACATC
1 AAAATCTTACTTAGTAAAAAGATGTTTATCACACATCAAACATTCATATTCCTCCATTAAACATA
31117740 AAAATCTTACTTAGT-AAAAGATGTTTATCACACATCAAACATTCATATTCCTCCATTAAACATA
1 AAAATCTTACTTAGTAAAAAGATGTTTATCACACATCAAACATTCATATTCCTCCATTAAACATA
31117804 AAAAT
1 AAAAT
31117809 ACAACCATGT
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
64 57 0.86
65 9 0.14
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (65 bp):
AAAATCTTACTTAGTAAAAAGATGTTTATCACACATCAAACATTCATATTCCTCCATTAAACATA
Found at i:31119689 original size:42 final size:42
Alignment explanation
Indices: 31119630--31119714 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
31119620 GTTTTGAACC
31119630 TATGAAGTTTTTCTTGTTGAATTTCAATGATAGATTATTGGA
1 TATGAAGTTTTTCTTGTTGAATTTCAATGATAGATTATTGGA
31119672 TATGAAGTTTTTCTTGTTGAATTTCAATGATAGATTATTGGA
1 TATGAAGTTTTTCTTGTTGAATTTCAATGATAGATTATTGGA
31119714 T
1 T
31119715 TAGTAAGCAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.28, C:0.05, G:0.19, T:0.48
Consensus pattern (42 bp):
TATGAAGTTTTTCTTGTTGAATTTCAATGATAGATTATTGGA
Found at i:31122626 original size:19 final size:17
Alignment explanation
Indices: 31122594--31122632 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
31122584 ATAATAGGGG
31122594 AAAATTGTAATTTTGAT
1 AAAATTGTAATTTTGAT
*
31122611 AAAATGTGTAAATTTTGTT
1 AAAAT-TGT-AATTTTGAT
31122630 AAA
1 AAA
31122633 TTGAATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 3 0.16
19 11 0.58
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (17 bp):
AAAATTGTAATTTTGAT
Done.