Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 156 of 221
Found at i:47278388 original size:26 final size:26
Alignment explanation
Indices: 47278351--47278412 Score: 106
Period size: 26 Copynumber: 2.3 Consensus size: 26
47278341 TAGCCCATTG
*
47278351 GGACAATAAACACGGGGAAGTTTGCCA
1 GGAC-ATAAACACGGGGAAGTCTGCCA
47278378 GGACATAAACACGGGGAAGTCTGCCA
1 GGACATAAACACGGGGAAGTCTGCCA
47278404 GGACATAAA
1 GGACATAAA
47278413 ACATGGAGTC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 30 0.88
27 4 0.12
ACGTcount: A:0.39, C:0.19, G:0.29, T:0.13
Consensus pattern (26 bp):
GGACATAAACACGGGGAAGTCTGCCA
Found at i:47280120 original size:24 final size:24
Alignment explanation
Indices: 47280091--47280143 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
47280081 AGCTTCAATT
* *
47280091 TTTGCTGTATTAGCCTGATGTGTG
1 TTTGCTATATTAGCCTGATGTATG
* * *
47280115 TTTGCTATTTTAGCTTGTTGTATG
1 TTTGCTATATTAGCCTGATGTATG
47280139 TTTGC
1 TTTGC
47280144 CGATCAGCCC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.11, C:0.11, G:0.25, T:0.53
Consensus pattern (24 bp):
TTTGCTATATTAGCCTGATGTATG
Found at i:47282613 original size:31 final size:31
Alignment explanation
Indices: 47282578--47282639 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
47282568 GCAATTTACT
47282578 TTAAGAAAATAAATTTTTTTAATTTGAAAGC
1 TTAAGAAAATAAATTTTTTTAATTTGAAAGC
47282609 TTAAGAAAATAAATTTTTTTAATTTGAAAGC
1 TTAAGAAAATAAATTTTTTTAATTTGAAAGC
47282640 CTAATTGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (31 bp):
TTAAGAAAATAAATTTTTTTAATTTGAAAGC
Found at i:47283885 original size:15 final size:17
Alignment explanation
Indices: 47283862--47283894 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
47283852 CTAATCACAA
47283862 TTAACTTAATT-ATCCT
1 TTAACTTAATTAATCCT
47283878 TTAA-TTAATTAATCCT
1 TTAACTTAATTAATCCT
47283894 T
1 T
47283895 AAGCATGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAACTTAATTAATCCT
Found at i:47290506 original size:41 final size:41
Alignment explanation
Indices: 47290472--47290606 Score: 234
Period size: 41 Copynumber: 3.3 Consensus size: 41
47290462 ACCGGCTTTT
*
47290472 AGCCTGCTAGACTTATAGTTCGAAATGTTTCACCGGCATCA
1 AGCCTGCTAGACTTATAGTCCGAAATGTTTCACCGGCATCA
*
47290513 AGCCTGCTAGATTTATAGTCCGAAATGTTTCACCGGCATCA
1 AGCCTGCTAGACTTATAGTCCGAAATGTTTCACCGGCATCA
**
47290554 AGCCTGCTAGACTTATAGTCCGAAATGTTTCACTAGCATCA
1 AGCCTGCTAGACTTATAGTCCGAAATGTTTCACCGGCATCA
47290595 AGCCTGCTAGAC
1 AGCCTGCTAGAC
47290607 ATAAAGTCTG
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 89 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCCGAAATGTTTCACCGGCATCA
Found at i:47291253 original size:76 final size:76
Alignment explanation
Indices: 47291092--47291254 Score: 166
Period size: 76 Copynumber: 2.1 Consensus size: 76
47291082 ACTATAACTT
* * * * * *
47291092 ATACATGTATATTTATATATATTCGAATCTACCATATACATATATAATTACACATTTATAATCAA
1 ATACATGTATACTCATACATATTCGAATCTAACATATACATATATAATTACACACTCATAATCAA
* * *
47291157 AACATGAACTT
66 AACAAGAAATC
* * * * *
47291168 ATACTTGTATACTCATACATATTCGAATCTAATATATACATATCTAATTACATACTCA-AACTCC
1 ATACATGTATACTCATACATATTCGAATCTAACATATACATATATAATTACACACTCATAA-TCA
* *
47291232 ATATAAGAAATC
65 AAACAAGAAATC
47291244 ATACATGTATA
1 ATACATGTATA
47291255 TACATGCTTA
Statistics
Matches: 69, Mismatches: 17, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
75 2 0.03
76 67 0.97
ACGTcount: A:0.43, C:0.17, G:0.04, T:0.36
Consensus pattern (76 bp):
ATACATGTATACTCATACATATTCGAATCTAACATATACATATATAATTACACACTCATAATCAA
AACAAGAAATC
Found at i:47294078 original size:47 final size:47
Alignment explanation
Indices: 47294005--47294140 Score: 200
Period size: 47 Copynumber: 2.9 Consensus size: 47
47293995 AATGGAGGAA
* *
47294005 CTAGTCGGCAGTTCATCTGCTCGACTAGTGGTTTATACACAACATATT
1 CTAGTCGACAG-TCATCTGCTCGACTAGTGGTTTATCCACAACATATT
* *
47294053 CTAGTCGACAGTCATCTGCTTGACTAGTGGTTTATCCACAACGTATT
1 CTAGTCGACAGTCATCTGCTCGACTAGTGGTTTATCCACAACATATT
* * *
47294100 CTAGTTGACAGTCATTTGCTCGACCAGTGGTTTATCCACAA
1 CTAGTCGACAGTCATCTGCTCGACTAGTGGTTTATCCACAA
47294141 TGCATTAGTA
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
47 70 0.88
48 10 0.12
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (47 bp):
CTAGTCGACAGTCATCTGCTCGACTAGTGGTTTATCCACAACATATT
Found at i:47294269 original size:91 final size:91
Alignment explanation
Indices: 47294109--47294277 Score: 214
Period size: 91 Copynumber: 1.9 Consensus size: 91
47294099 TCTAGTTGAC
* * ** * * *
47294109 AGTCATTTGCTCGACCAGTGGTTTATCCACAATGCATTAGTAGCTTTTATTTACACAAGTGGATA
1 AGTCATCTGCTCAACCAGTGGTTTATCCACAACACATTAGCAACTTTTATCTACACAAGTGGATA
47294174 GTTCATCCACCAATATTCTAATCGGT
66 GTTCATCCACCAATATTCTAATCGGT
* * * *
47294200 AGTCATCTGCTCAACCAGTGGTTTATCCATAACATATTAGCAACTTTTATCTGCATAGAG-GGAT
1 AGTCATCTGCTCAACCAGTGGTTTATCCACAACACATTAGCAACTTTTATCTACACA-AGTGGAT
*
47294264 GGTTCATCCACCAA
65 AGTTCATCCACCAA
47294278 AATATTTATC
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
91 63 0.97
92 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (91 bp):
AGTCATCTGCTCAACCAGTGGTTTATCCACAACACATTAGCAACTTTTATCTACACAAGTGGATA
GTTCATCCACCAATATTCTAATCGGT
Found at i:47300234 original size:15 final size:14
Alignment explanation
Indices: 47300216--47300248 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
47300206 TCAAATTTTT
47300216 ATTTAACCTTATAGA
1 ATTT-ACCTTATAGA
47300231 ATTT-CCTTATAGA
1 ATTTACCTTATAGA
47300244 ATTTA
1 ATTTA
47300249 GAACTGCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 13 0.76
15 4 0.24
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (14 bp):
ATTTACCTTATAGA
Found at i:47300240 original size:13 final size:13
Alignment explanation
Indices: 47300222--47300247 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47300212 TTTTATTTAA
47300222 CCTTATAGAATTT
1 CCTTATAGAATTT
47300235 CCTTATAGAATTT
1 CCTTATAGAATTT
47300248 AGAACTGCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (13 bp):
CCTTATAGAATTT
Found at i:47307982 original size:3 final size:3
Alignment explanation
Indices: 47307974--47308043 Score: 131
Period size: 3 Copynumber: 23.3 Consensus size: 3
47307964 ATAAAACGGA
47307974 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
*
47308022 AGC AAC AAC AAC AAC AAC AAC A
1 AAC AAC AAC AAC AAC AAC AAC A
47308044 GTACTAATAA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.66, C:0.33, G:0.01, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:47310958 original size:28 final size:28
Alignment explanation
Indices: 47310924--47310983 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
47310914 GTAACAGTAC
* * *
47310924 AGTGTGGGCCTTAGTCCGATATAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
47310952 AGTGTGGGCCTTAGCCCAATACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGTAAT
47310980 AGTG
1 AGTG
47310984 CAATAATGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAGTAAT
Found at i:47311112 original size:26 final size:26
Alignment explanation
Indices: 47311083--47311133 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
47311073 CACCAATATT
*
47311083 GCAGCAAAGCTGCCAGTAATAGTATC
1 GCAGCAAAGCTGCCAGTAACAGTATC
*
47311109 GCAGCGAAGCTGCCAGTAACAGTAT
1 GCAGCAAAGCTGCCAGTAACAGTAT
47311134 ATGTGGCAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.18
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTAACAGTATC
Found at i:47311410 original size:28 final size:27
Alignment explanation
Indices: 47311326--47311432 Score: 142
Period size: 27 Copynumber: 3.9 Consensus size: 27
47311316 GGTATAACAG
47311326 TCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
* *
47311353 TCATTTTACCCTACGAGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
*
47311380 TCATTTTACCCTATGGGGGGTATTTCAA
1 TCATTTTACCCTAT-GGGGGTATTTCGA
* * *
47311408 TCATTTAACCTTATAGGGGTCATTT
1 TCATTTTACCCTATGGGGGT-ATTT
47311433 TACCCTGTAG
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
27 43 0.61
28 27 0.39
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGA
Found at i:47311455 original size:27 final size:27
Alignment explanation
Indices: 47311425--47311486 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
47311415 ACCTTATAGG
47311425 GGTCATTTTACCCTGTAGAGGAATTTT
1 GGTCATTTTACCCTGTAGAGGAATTTT
* *
47311452 GGTCATTTTACCCTGTAGGGGTATTTT
1 GGTCATTTTACCCTGTAGAGGAATTTT
47311479 GGTCATTT
1 GGTCATTT
47311487 ATTAACCTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.18, C:0.15, G:0.24, T:0.44
Consensus pattern (27 bp):
GGTCATTTTACCCTGTAGAGGAATTTT
Found at i:47315856 original size:41 final size:41
Alignment explanation
Indices: 47315811--47315947 Score: 159
Period size: 41 Copynumber: 3.3 Consensus size: 41
47315801 ATAAAGCGTA
*
47315811 CTAGGCACAAAGCCAGATATGATATACCGGCACGAAGCCTG
1 CTAGGCACAAAGCCAGATATGATATACCGGCATGAAGCCTG
* * * *
47315852 CTAGGCATAAAGCCTGATATGGTACACCGGCATGAAGCCTG
1 CTAGGCACAAAGCCAGATATGATATACCGGCATGAAGCCTG
* * * *
47315893 CTAGGCATAAAGCCAGATATAAT-TCACTGGCATAAAGCCTG
1 CTAGGCACAAAGCCAGATATGATAT-ACCGGCATGAAGCCTG
* *
47315934 TTAGGCACAGAGCC
1 CTAGGCACAAAGCC
47315948 CAAATATCAC
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
41 81 1.00
ACGTcount: A:0.33, C:0.25, G:0.24, T:0.18
Consensus pattern (41 bp):
CTAGGCACAAAGCCAGATATGATATACCGGCATGAAGCCTG
Found at i:47315931 original size:82 final size:82
Alignment explanation
Indices: 47315756--47315940 Score: 194
Period size: 82 Copynumber: 2.3 Consensus size: 82
47315746 GATACCACAT
* * * * *
47315756 TGGCATAAAGCCTACTAGGTATAAAGCTTATTAAAATACACTGGCATAAAGCGTACTAGGCACAA
1 TGGCATAAAGCCTGCTAGGCATAAAGCTGATTAAAATACACCGGCATAAAGCCTACTAGGCACAA
*
47315821 AGCCAGATATGATATAC
66 AGCCAGATATAATATAC
* ** *** * * *
47315838 CGGCACGAAGCCTGCTAGGCATAAAGCCTGA-TATGGTACACCGGCATGAAGCCTGCTAGGCATA
1 TGGCATAAAGCCTGCTAGGCATAAAG-CTGATTAAAATACACCGGCATAAAGCCTACTAGGCACA
47315902 AAGCCAGATATAAT-TCAC
65 AAGCCAGATATAATAT-AC
*
47315920 TGGCATAAAGCCTGTTAGGCA
1 TGGCATAAAGCCTGCTAGGCA
47315941 CAGAGCCCAA
Statistics
Matches: 82, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
81 1 0.01
82 78 0.95
83 3 0.04
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (82 bp):
TGGCATAAAGCCTGCTAGGCATAAAGCTGATTAAAATACACCGGCATAAAGCCTACTAGGCACAA
AGCCAGATATAATATAC
Found at i:47316697 original size:12 final size:12
Alignment explanation
Indices: 47316680--47316705 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
47316670 AAGTTATAAA
47316680 AAACCGAGCTAG
1 AAACCGAGCTAG
47316692 AAACCGAGCTAG
1 AAACCGAGCTAG
47316704 AA
1 AA
47316706 CTCACCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.23, G:0.23, T:0.08
Consensus pattern (12 bp):
AAACCGAGCTAG
Found at i:47344244 original size:50 final size:44
Alignment explanation
Indices: 47344157--47344290 Score: 178
Period size: 50 Copynumber: 2.9 Consensus size: 44
47344147 AGATATTTTG
*
47344157 GAGGTGAATTAAATTTTGGATAAGTAATTTACGGAGTTATATTA
1 GAGGTGAATTAAATTTTGGATAAGTAATTTACAGAGTTATATTA
*
47344201 GAGGTGAATTAAATTTTGGCAATATTATTAATATTTACAGAGTTATATTA
1 GAGGTGAATTAAATTTTGG--ATA--AGT-A-ATTTACAGAGTTATATTA
*
47344251 GAGGTGAATTAAATTTTGGATAAGTAATTTTCATGAGTTA
1 GAGGTGAATTAAATTTTGGATAAGTAATTTACA-GAGTTA
47344291 AGAGTTATTA
Statistics
Matches: 79, Mismatches: 4, Indels: 13
0.82 0.04 0.14
Matches are distributed among these distances:
44 25 0.32
45 7 0.09
46 5 0.06
48 5 0.06
49 1 0.01
50 36 0.46
ACGTcount: A:0.37, C:0.03, G:0.20, T:0.40
Consensus pattern (44 bp):
GAGGTGAATTAAATTTTGGATAAGTAATTTACAGAGTTATATTA
Found at i:47344465 original size:10 final size:10
Alignment explanation
Indices: 47344446--47344493 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
47344436 AGTTTTATGT
*
47344446 ATTATGTCAA
1 ATTATATCAA
47344456 ATTATATCAA
1 ATTATATCAA
* *
47344466 ATTGTGATAAA
1 ATTAT-ATCAA
47344477 TATTATATCAA
1 -ATTATATCAA
47344488 ATTATA
1 ATTATA
47344494 ATGAAATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
10 19 0.61
11 8 0.26
12 4 0.13
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (10 bp):
ATTATATCAA
Found at i:47344508 original size:32 final size:32
Alignment explanation
Indices: 47344445--47344510 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
47344435 AAGTTTTATG
* * *
47344445 TATTATGTCAAATTATATCAAATTGTGATAAA
1 TATTATATCAAATTATATCAAATTATAATAAA
*
47344477 TATTATATCAAATTATAATGAAA-TATAATAAA
1 TATTATATCAAATTAT-ATCAAATTATAATAAA
47344509 TA
1 TA
47344511 AATAAATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 24 0.83
33 5 0.17
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.39
Consensus pattern (32 bp):
TATTATATCAAATTATATCAAATTATAATAAA
Found at i:47344882 original size:3 final size:3
Alignment explanation
Indices: 47344874--47344913 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
47344864 AATGACTAAA
*
47344874 ATT ATT ATT AAT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
47344914 GTACCATCTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:47348594 original size:21 final size:21
Alignment explanation
Indices: 47348570--47348675 Score: 77
Period size: 21 Copynumber: 5.0 Consensus size: 21
47348560 CCATGAGGGT
47348570 TGAACAGAAGCTCATAAGAGC
1 TGAACAGAAGCTCATAAGAGC
* * * * * *
47348591 TGAACGGAAACCCAAAAGGGT
1 TGAACAGAAGCTCATAAGAGC
* * *
47348612 TAAACAAAAGCTCAAAAGAGC
1 TGAACAGAAGCTCATAAGAGC
* * * *
47348633 TGAACGGAAACTCATATGAGT
1 TGAACAGAAGCTCATAAGAGC
* *
47348654 TGAACAGAAGCTCGTGAGAGC
1 TGAACAGAAGCTCATAAGAGC
47348675 T
1 T
47348676 AAACCGAAAG
Statistics
Matches: 59, Mismatches: 26, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.15
Consensus pattern (21 bp):
TGAACAGAAGCTCATAAGAGC
Found at i:47348601 original size:42 final size:41
Alignment explanation
Indices: 47348528--47348684 Score: 143
Period size: 42 Copynumber: 3.8 Consensus size: 41
47348518 GCCCGAAGGC
* * * **
47348528 TGAACAGAAACACATAAGTGCTAAATAGAAACCCATGAGGGT
1 TGAACAGAAGCTCATAAGAGCTAAACGGAAACCCAT-AGGGT
* *
47348570 TGAACAGAAGCTCATAAGAGCTGAACGGAAACCCAAAAGGGT
1 TGAACAGAAGCTCATAAGAGCTAAACGGAAACCC-ATAGGGT
* * * * * *
47348612 TAAACAAAAGCTCAAAAGAGCTGAACGGAAACTCATATGAGT
1 TGAACAGAAGCTCATAAGAGCTAAACGGAAACCCATA-GGGT
* * *
47348654 TGAACAGAAGCTCGTGAGAGCTAAACCGAAA
1 TGAACAGAAGCTCATAAGAGCTAAACGGAAA
47348685 GTAAACACGA
Statistics
Matches: 93, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
41 2 0.02
42 90 0.97
43 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.15
Consensus pattern (41 bp):
TGAACAGAAGCTCATAAGAGCTAAACGGAAACCCATAGGGT
Found at i:47352632 original size:3 final size:3
Alignment explanation
Indices: 47352616--47352664 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
47352606 ATAAAACGGA
*
47352616 AAC AAC -AC AGC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
47352663 AA
1 AA
47352665 TGGTACTAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.65, C:0.33, G:0.02, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:47357370 original size:3 final size:3
Alignment explanation
Indices: 47357322--47357357 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
47357312 ATAAAACAGG
47357322 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
47357358 GGTACTAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:47360678 original size:43 final size:43
Alignment explanation
Indices: 47360630--47360835 Score: 358
Period size: 43 Copynumber: 4.8 Consensus size: 43
47360620 GCGTCGCTAA
*
47360630 CTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* *
47360673 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
*
47360716 CTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
47360759 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
* *
47360802 CTTTAGCGGCGCTTTTACCACAAACGCAGCTAAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAA
47360836 AACATAAAAA
Statistics
Matches: 154, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 154 1.00
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.19
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
Found at i:47361054 original size:18 final size:18
Alignment explanation
Indices: 47361031--47361090 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
47361021 TTAAAACAAG
47361031 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
*** * *
47361049 TTACATAAGAAAATT-G-T
1 TTACAT-TCTATATTAGAA
47361066 TTACATTCTATATTAGAA
1 TTACATTCTATATTAGAA
47361084 TTACATT
1 TTACATT
47361091 AAAATTACAT
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 4 0.14
17 7 0.24
18 14 0.48
19 4 0.14
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (18 bp):
TTACATTCTATATTAGAA
Found at i:47367275 original size:7 final size:7
Alignment explanation
Indices: 47367267--47367319 Score: 79
Period size: 7 Copynumber: 7.6 Consensus size: 7
47367257 CTCTTGACCT
*
47367267 CTAACCT
1 CTAACCC
47367274 CTAACCC
1 CTAACCC
47367281 CTAACCC
1 CTAACCC
47367288 CTAACCC
1 CTAACCC
47367295 CTAACCC
1 CTAACCC
**
47367302 CTAACTA
1 CTAACCC
47367309 CTAACCC
1 CTAACCC
47367316 CTAA
1 CTAA
47367320 ATCTTATTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.32, C:0.49, G:0.00, T:0.19
Consensus pattern (7 bp):
CTAACCC
Found at i:47367396 original size:90 final size:88
Alignment explanation
Indices: 47367280--47367456 Score: 212
Period size: 90 Copynumber: 2.0 Consensus size: 88
47367270 ACCTCTAACC
* * * *
47367280 CCTAACCCCTAACCCCTAACCCCTAACTACTAACCCCTAAATCTTATTTAATATATAAATTAAAA
1 CCTAAACCCTAACCCCAAACCCCTAACCACTAACCCCTAAACCTTA-TTAA-ATATAAATTAAAA
*
47367345 AACACTAATTAATCTAGACCATAAAT
64 AACAC-AATTAATCTAAACCATAAAT
* * * * * *
47367371 CCTAAACCCTAA-CCCAAATCCCTAACCCCTAACCCCTACACCTTATTCAATATAAATTAGAACA
1 CCTAAACCCTAACCCCAAACCCCTAACCACTAACCCCTAAACCTTATTAAATATAAATTAAAAAA
*
47367435 CACAATTAATCTAAACCCTAAA
66 CACAATTAATCTAAACCATAAA
47367457 CTCTAACCTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
87 17 0.23
88 16 0.22
89 3 0.04
90 27 0.36
91 11 0.15
ACGTcount: A:0.42, C:0.32, G:0.01, T:0.25
Consensus pattern (88 bp):
CCTAAACCCTAACCCCAAACCCCTAACCACTAACCCCTAAACCTTATTAAATATAAATTAAAAAA
CACAATTAATCTAAACCATAAAT
Found at i:47367400 original size:20 final size:19
Alignment explanation
Indices: 47367367--47367405 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
47367357 TCTAGACCAT
47367367 AAATCCTAAACCCTAACCC
1 AAATCCTAAACCCTAACCC
*
47367386 AAATCCCTAACCCCTAACCC
1 AAAT-CCTAAACCCTAACCC
47367406 CTACACCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.15
Consensus pattern (19 bp):
AAATCCTAAACCCTAACCC
Found at i:47367821 original size:7 final size:7
Alignment explanation
Indices: 47367813--47367842 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
47367803 TAATAAATAG
*
47367813 TTAGGAG
1 TTAGGAA
47367820 TTAGGAA
1 TTAGGAA
47367827 TTAGGAA
1 TTAGGAA
47367834 TTAGGAA
1 TTAGGAA
47367841 TT
1 TT
47367843 CTCTTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (7 bp):
TTAGGAA
Found at i:47368090 original size:41 final size:41
Alignment explanation
Indices: 47368026--47368392 Score: 529
Period size: 41 Copynumber: 9.0 Consensus size: 41
47368016 TCAAAAACGG
* * * *
47368026 GCATTAGCGGTGCTTTTTAAAAAACGCTGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* * *
47368067 GCACTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGTCTGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* * *
47368108 GCATTAGCGGCGCTTCTTCAAAAATGCCGCTAAAGGTCTGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
47368149 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* * * *
47368190 GCATTAGCGGTGCTTCTTCAAAAATGCCGCTAAAGGTCTGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
*
47368231 GCATTAGTGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
* * * *
47368272 GCATTAGCGGCG-TTTTTTAAAAAGCACCGCTAAAGGCCCAA
1 GCATTAGCGGCGCTTCTTCAAAAA-CGCCGCTAAAGGCCCGA
47368313 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
**
47368354 GCATTAGCGGCGCTTCTTCAAAAACGTAGCTAAAGGCCC
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCC
47368393 CAAAAACTCA
Statistics
Matches: 292, Mismatches: 32, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
40 9 0.03
41 274 0.94
42 9 0.03
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (41 bp):
GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
Found at i:47369796 original size:12 final size:12
Alignment explanation
Indices: 47369779--47369803 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47369769 AAATTCTTGC
47369779 ACTAGTCCCTAT
1 ACTAGTCCCTAT
47369791 ACTAGTCCCTAT
1 ACTAGTCCCTAT
47369803 A
1 A
47369804 TTTAGTATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (12 bp):
ACTAGTCCCTAT
Found at i:47371020 original size:28 final size:28
Alignment explanation
Indices: 47370979--47371946 Score: 1067
Period size: 28 Copynumber: 33.9 Consensus size: 28
47370969 GTTTGACATT
*
47370979 ATTTGATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
* *
47371007 ATTGAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
* *
47371035 ATTGAATTAAAAACCCTAAAACCCTAACTTA
1 ATTTAATTAAAAACCCT--AA-CCTAACCTA
*
47371066 A-TTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
*
47371093 ATTTAATTAAAAACCCTAAAACCCTAACTTA
1 ATTTAATTAAAAACCCT--AA-CCTAACCTA
*
47371124 ATTGAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
47371152 ATTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
* *
47371180 ATTGAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
*
47371208 ATTTAATTATAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
*
47371236 ATTTAATTAAAAAGCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
*
47371264 ATTTAATTAAAAACCCTAACCTAACCCA
1 ATTTAATTAAAAACCCTAACCTAACCTA
* *
47371292 ATTGAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
*
47371320 ATTTAATTATAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
*
47371348 ATTTAATTAAAAACCCTAACCTAATCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
*
47371376 ATTGAATTAAAAA--CT---CTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
* *
47371399 ATTGAATTAAAAACCCTAACCTAA-TTGA
1 ATTTAATTAAAAACCCTAACCTAACCT-A
* * ****
47371427 ACCCTAAACCCTAAACCCTAAACCCTAAAACCATAACTTA
1 A--TTTAATTAAAAACCCT-AA-CCT--AA-C----C-TA
*
47371467 ATTTAATTAAAAACCCTAAAACCCTAACTTA
1 ATTTAATTAAAAACCCT--AA-CCTAACCTA
*
47371498 ATTTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
47371526 ATTTAATTAAAAACCCTAAAACCCTAACCTA
1 ATTTAATTAAAAACCCT--AA-CCTAACCTA
* **
47371557 ATTTAATTTAAATTCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
47371585 ATTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
47371613 ATTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
47371641 ATTTAATTAAAAA--C---CCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
* *
47371664 ATTGAACCTT--AAACCCTAAAACCCTAACTTA
1 ATTTAA--TTAAAAACCCT--AA-CCTAACCTA
*
47371695 ATTTAATTAAAAACCCTAAAACCCTAACTTA
1 ATTTAATTAAAAACCCT--AA-CCTAACCTA
*
47371726 ATTTAATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
47371754 ATTTAATTAAAAACCCTAAAACCCTAACCTA
1 ATTTAATTAAAAACCCT--AA-CCTAACCTA
47371785 ATTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
*
47371813 ATTTAATTAAAAACCCTAAAACCCTAACTTA
1 ATTTAATTAAAAACCCT--AA-CCTAACCTA
* *
47371844 ATTGAATTAAAAA-CTTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
47371871 ATTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
* *
47371899 ATTTAATT-AAAA--TTAA--AAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
* *
47371922 ACTTAATTTAAAACCCTAACCTAAC
1 ATTTAATTAAAAACCCTAACCTAAC
47371947 TTAACCCTAA
Statistics
Matches: 823, Mismatches: 63, Indels: 108
0.83 0.06 0.11
Matches are distributed among these distances:
23 50 0.06
24 4 0.00
25 8 0.01
26 6 0.01
27 35 0.04
28 470 0.57
29 12 0.01
30 36 0.04
31 174 0.21
32 3 0.00
34 2 0.00
36 1 0.00
37 2 0.00
38 10 0.01
39 7 0.01
40 2 0.00
41 1 0.00
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.29
Consensus pattern (28 bp):
ATTTAATTAAAAACCCTAACCTAACCTA
Found at i:47371435 original size:23 final size:23
Alignment explanation
Indices: 47371367--47371440 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
47371357 AAAACCCTAA
* **
47371367 CCTAATCTAATTGAATTAAAAAC
1 CCTAACCTAATTGAACCAAAAAC
* **
47371390 TCTAACCTAATTGAATTAAAAAC
1 CCTAACCTAATTGAACCAAAAAC
**
47371413 CCTAACCTAATTGAACCCTAAAC
1 CCTAACCTAATTGAACCAAAAAC
47371436 CCTAA
1 CCTAA
47371441 ACCCTAAACC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.45, C:0.24, G:0.04, T:0.27
Consensus pattern (23 bp):
CCTAACCTAATTGAACCAAAAAC
Found at i:47371438 original size:7 final size:7
Alignment explanation
Indices: 47371426--47371455 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
47371416 AACCTAATTG
47371426 AACCCTA
1 AACCCTA
47371433 AACCCTA
1 AACCCTA
47371440 AACCCTA
1 AACCCTA
47371447 AACCCTA
1 AACCCTA
47371454 AA
1 AA
47371456 ACCATAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.47, C:0.40, G:0.00, T:0.13
Consensus pattern (7 bp):
AACCCTA
Found at i:47371947 original size:23 final size:23
Alignment explanation
Indices: 47371862--47371988 Score: 94
Period size: 23 Copynumber: 5.3 Consensus size: 23
47371852 AAAAACTTAA
* *
47371862 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAACTTAATTTAAAAC
* *
47371885 CCTAACCTAACCTAATTTAATTAAA
1 CCTAACCTAACTTAATTTAA--AAC
**
47371910 ATTAAAAACCTAACTTAATTTAAAAC
1 CCT---AACCTAACTTAATTTAAAAC
**
47371936 CCTAACCTAACTTAACCCT-AAAC
1 CCTAACCTAACTTAA-TTTAAAAC
** *
47371959 TGTAACCTAACTTAATGTAAAAC
1 CCTAACCTAACTTAATTTAAAAC
47371982 CCTAACC
1 CCTAACC
47371989 CTAAGCTAAT
Statistics
Matches: 79, Mismatches: 18, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
22 1 0.01
23 55 0.70
24 1 0.01
25 3 0.04
26 3 0.04
28 16 0.20
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.28
Consensus pattern (23 bp):
CCTAACCTAACTTAATTTAAAAC
Found at i:47371950 original size:18 final size:18
Alignment explanation
Indices: 47371911--47371950 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
47371901 TTAATTAAAA
* *
47371911 TTAAAAACCTAACTTAAT
1 TTAAAAACCTAACCTAAC
*
47371929 TTAAAACCCTAACCTAAC
1 TTAAAAACCTAACCTAAC
47371947 TTAA
1 TTAA
47371951 CCCTAAACTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (18 bp):
TTAAAAACCTAACCTAAC
Found at i:47372206 original size:27 final size:27
Alignment explanation
Indices: 47372168--47372226 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
47372158 TATCAATTAT
47372168 TAATTGAATAAAAGGTAGCTTTTTCTA
1 TAATTGAATAAAAGGTAGCTTTTTCTA
47372195 TAATTGAATAAAAGGTAGCTTTTTCTA
1 TAATTGAATAAAAGGTAGCTTTTTCTA
47372222 TAATT
1 TAATT
47372227 ACATTCAACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (27 bp):
TAATTGAATAAAAGGTAGCTTTTTCTA
Found at i:47375443 original size:125 final size:124
Alignment explanation
Indices: 47375221--47375462 Score: 337
Period size: 125 Copynumber: 1.9 Consensus size: 124
47375211 CCACGATGGC
*
47375221 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCCAACATGACCAACTGTAGCG
1 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATTATTGCCAACATGACCAACTGTAGCG
* * *
47375286 AAATCGCGTCCACGAGGGCGCGATTTAACAATTT-TTGCCCAATATAGCATCCTTTTATCA
66 AAATCGCATCCACGAGGCCACGATTTAACAATTTCTT-CCCAA-ATAGCATCCTTTTATCA
* * **
47375346 GCGATTTTATACTATTTGCTCAGAAAACGT-AAAAAATAATTATTGCTTACATGACC-ACTGTAG
1 GCGATTTGACACTATTTGCTCAG-AAACGTCAAAAAA-AATTATTGCCAACATGACCAACTGTAG
* *
47375409 CGAAATCGCATCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCT
64 CGAAATCGCATCCACGAGGCCACGATTTAACAATTTCTTCCCAAATAGCATCCT
47375463 AGTAGAAGCG
Statistics
Matches: 104, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
124 10 0.10
125 70 0.67
126 24 0.23
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (124 bp):
GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATTATTGCCAACATGACCAACTGTAGCG
AAATCGCATCCACGAGGCCACGATTTAACAATTTCTTCCCAAATAGCATCCTTTTATCA
Found at i:47375837 original size:28 final size:28
Alignment explanation
Indices: 47375778--47375838 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
47375768 CGATTTCGCG
*
47375778 AAAAATGGCCCATTCCGGTAAATAATTT
1 AAAAATGGCCCATTCCGGTAAATAATTA
*
47375806 AAAAATCGGCCCATGTCC-GT-AATTATTA
1 AAAAAT-GGCCCAT-TCCGGTAAATAATTA
47375834 AAAAA
1 AAAAA
47375839 AGGGGTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 17 0.59
29 9 0.31
30 3 0.10
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.26
Consensus pattern (28 bp):
AAAAATGGCCCATTCCGGTAAATAATTA
Found at i:47378629 original size:357 final size:358
Alignment explanation
Indices: 47377972--47378680 Score: 1271
Period size: 357 Copynumber: 2.0 Consensus size: 358
47377962 TAGACCCGAT
*
47377972 TCGGGAAGATCACATTAGCCATCGAGGTGGCTCGGTCTTGAAAACAAATAATTTTCATTTTAAAA
1 TCGGGAAGATCACATTAGCCATCGAGGTGGCTCGGCCTTGAAAACAAATAATTTTCATTTTAAAA
*
47378037 CATGTTTTATGCTAGTGAATTTCTCTTCTTTTTTTTTCAATTTAATATATCATCATTATAGCAGT
66 CATGTTTTATGCTAGTGAA-TTATCTTCTTTTTTTTTCAATTTAATATATCATCATTATAGCAGT
* *
47378102 AGAGTTTAAAGAATAATTTGTAAATCTCTTTTTAAAAATAAAATAAAGTCAACCTATTTTTATCA
130 AGAGTTTAAACAATAATTTGTAAATCTCTTTTTAAAAATAAAATAAAATCAACCTATTTTTATCA
47378167 CATAATAATAAGTACCTTCTTACATCCTTAACTGTATCGAATAAATATCTACCTAAATATGCCTT
195 CATAATAATAAGTACCTTCTTACATCCTTAACTGTATCGAATAAATATCTACCTAAATATGCCTT
47378232 TTTCATTATGAGTAATGTCATGCAACCTAAACGTTTGAATTAGAAATCTTATCCAATACCACGGT
260 TTTCATTATGAGTAATGTCATGCAACCTAAACGTTTGAATTAGAAATCTTATCCAATACCACGGT
47378297 TCTTAATAAAATACAACGGAAACAACATTAGCCA
325 TCTTAATAAAATACAACGGAAACAACATTAGCCA
* * *
47378331 TCGGGAAGATCACATTAGCCATCGAGGTTGTTCGGCCTTGAATACAAATAATTTTCATTTTAAAA
1 TCGGGAAGATCACATTAGCCATCGAGGTGGCTCGGCCTTGAAAACAAATAATTTTCATTTTAAAA
*
47378396 CCTGTTTTATGCTAGTGAA-TATC-TCTTTTTTTTTCAATTTAATATATCATCATTA-AGCAGTA
66 CATGTTTTATGCTAGTGAATTATCTTCTTTTTTTTTCAATTTAATATATCATCATTATAGCAGTA
47378458 GAGTTTAAACAATAATTTGTAAATCTCTTTTTTAAAAAATAAAATAAAATCAACCTATTTTTATC
131 GAGTTTAAACAATAATTTGTAAATCTC-TTTTT-AAAAATAAAATAAAATCAACCTATTTTTATC
* *
47378523 ACATAATAATAAGTAGCTTCTTACATCCTTAACTGTATCGAATAAATATCTACTTAAATATGCCT
194 ACATAATAATAAGTACCTTCTTACATCCTTAACTGTATCGAATAAATATCTACCTAAATATGCCT
*
47378588 TTTTCATTATGAGTAATGTCATGCAACCTAAATGTTTGAATTAGAAATCTTATCCAATACCACGG
259 TTTTCATTATGAGTAATGTCATGCAACCTAAACGTTTGAATTAGAAATCTTATCCAATACCACGG
47378653 TTCTTAATAAAATACAACGGAAACAACA
324 TTCTTAATAAAATACAACGGAAACAACA
47378681 ACAATAATAA
Statistics
Matches: 337, Mismatches: 11, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
355 33 0.10
356 37 0.11
357 188 0.56
359 79 0.23
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (358 bp):
TCGGGAAGATCACATTAGCCATCGAGGTGGCTCGGCCTTGAAAACAAATAATTTTCATTTTAAAA
CATGTTTTATGCTAGTGAATTATCTTCTTTTTTTTTCAATTTAATATATCATCATTATAGCAGTA
GAGTTTAAACAATAATTTGTAAATCTCTTTTTAAAAATAAAATAAAATCAACCTATTTTTATCAC
ATAATAATAAGTACCTTCTTACATCCTTAACTGTATCGAATAAATATCTACCTAAATATGCCTTT
TTCATTATGAGTAATGTCATGCAACCTAAACGTTTGAATTAGAAATCTTATCCAATACCACGGTT
CTTAATAAAATACAACGGAAACAACATTAGCCA
Found at i:47400016 original size:43 final size:43
Alignment explanation
Indices: 47399931--47400019 Score: 124
Period size: 43 Copynumber: 2.1 Consensus size: 43
47399921 GTTTTTATCC
* * *
47399931 TTGAGAAAAGAATTTAAAAAGAGGAGAAGATAATCCTGGGTTG
1 TTGAAAAAAGAATTTAAAAAGAGGAAAAGATAATACTGGGTTG
* * *
47399974 TTGAAAAAATAATTTAAAAAGAGGAAAAGATAATATTTGGTTG
1 TTGAAAAAAGAATTTAAAAAGAGGAAAAGATAATACTGGGTTG
47400017 TTG
1 TTG
47400020 GATTTACCCT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.46, C:0.02, G:0.24, T:0.28
Consensus pattern (43 bp):
TTGAAAAAAGAATTTAAAAAGAGGAAAAGATAATACTGGGTTG
Found at i:47400181 original size:44 final size:44
Alignment explanation
Indices: 47400124--47400246 Score: 147
Period size: 50 Copynumber: 2.7 Consensus size: 44
47400114 AGATATTTTG
47400124 GAGGTGAATTAAATTTTGGATAAGTAATTCACGAAGTCATATTA
1 GAGGTGAATTAAATTTTGGATAAGTAATTCACGAAGTCATATTA
* * * * *
47400168 GAGGTGAATTAAATTTTGGCAATATTATTAATATTTATGGAGTTATATTA
1 GAGGTGAATTAAATTTTGG--ATA--AGT-A-ATTCACGAAGTCATATTA
47400218 GAGGTGAATTAAATTTTGGATAAGTAATT
1 GAGGTGAATTAAATTTTGGATAAGTAATT
47400247 TTCATGAGTT
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
44 22 0.33
45 1 0.01
46 5 0.07
48 5 0.07
49 1 0.01
50 33 0.49
ACGTcount: A:0.37, C:0.03, G:0.20, T:0.39
Consensus pattern (44 bp):
GAGGTGAATTAAATTTTGGATAAGTAATTCACGAAGTCATATTA
Found at i:47400267 original size:50 final size:49
Alignment explanation
Indices: 47400124--47400271 Score: 113
Period size: 50 Copynumber: 3.1 Consensus size: 49
47400114 AGATATTTTG
* *
47400124 GAGGTGAATTAAATTTTGGATAAGTAA--TTCACGAAG-T-CA--TATTA
1 GAGGTGAATTAAATTTTGGATAAGTAATTTTCATG-AGTTAGAGTTATTA
*
47400168 GAGGTGAATTAAATTTTGGCAATATTATTAATATTT-ATGGAGTT--A--TATTA
1 GAGGTGAATTAAATTTTGG--ATA--AGTAAT-TTTCAT-GAGTTAGAGTTATTA
47400218 GAGGTGAATTAAATTTTGGATAAGTAATTTTCATGAGTTAAGAGTTATTA
1 GAGGTGAATTAAATTTTGGATAAGTAATTTTCATGAGTT-AGAGTTATTA
47400268 -AGGT
1 GAGGT
47400272 ACTGGGACTA
Statistics
Matches: 86, Mismatches: 3, Indels: 25
0.75 0.03 0.22
Matches are distributed among these distances:
44 19 0.22
45 8 0.09
46 10 0.12
48 8 0.09
49 4 0.05
50 33 0.38
51 4 0.05
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.39
Consensus pattern (49 bp):
GAGGTGAATTAAATTTTGGATAAGTAATTTTCATGAGTTAGAGTTATTA
Found at i:47400431 original size:10 final size:10
Alignment explanation
Indices: 47400412--47400459 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
47400402 AGTTTTATGT
*
47400412 ATTATGTCAA
1 ATTATATCAA
47400422 ATTATATCAA
1 ATTATATCAA
*
47400432 ATTATAATAAA
1 ATTAT-ATCAA
47400443 TATTATATCAA
1 -ATTATATCAA
47400454 ATTATA
1 ATTATA
47400460 ATGAAATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
10 20 0.61
11 8 0.24
12 5 0.15
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (10 bp):
ATTATATCAA
Found at i:47400450 original size:22 final size:23
Alignment explanation
Indices: 47400422--47400468 Score: 87
Period size: 22 Copynumber: 2.1 Consensus size: 23
47400412 ATTATGTCAA
47400422 ATTATATCAAATTATAAT-AAAT
1 ATTATATCAAATTATAATGAAAT
47400444 ATTATATCAAATTATAATGAAAT
1 ATTATATCAAATTATAATGAAAT
47400467 AT
1 AT
47400469 AATAAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (23 bp):
ATTATATCAAATTATAATGAAAT
Found at i:47400454 original size:32 final size:32
Alignment explanation
Indices: 47400411--47400476 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
47400401 AAGTTTTATG
*
47400411 TATTATGTCAAATTAT-ATCAAATTATAATAAA
1 TATTATATCAAATTATAATCAAA-TATAATAAA
*
47400443 TATTATATCAAATTATAATGAAATATAATAAA
1 TATTATATCAAATTATAATCAAATATAATAAA
47400475 TA
1 TA
47400477 AATGAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 26 0.84
33 5 0.16
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (32 bp):
TATTATATCAAATTATAATCAAATATAATAAA
Found at i:47400808 original size:3 final size:3
Alignment explanation
Indices: 47400800--47400830 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
47400790 AATGACTAAA
47400800 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
47400831 GTACCATCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:47403317 original size:17 final size:18
Alignment explanation
Indices: 47403291--47403333 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
47403281 GACCGAAACA
*
47403291 TTTTCATTTAACTTGTCT
1 TTTTCATTTAACTTGCCT
47403309 TTTTC-TTTAACTTGCCT
1 TTTTCATTTAACTTGCCT
*
47403326 TTGTCATT
1 TTTTCATT
47403334 CTCTCAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.14, C:0.19, G:0.07, T:0.60
Consensus pattern (18 bp):
TTTTCATTTAACTTGCCT
Found at i:47404511 original size:18 final size:17
Alignment explanation
Indices: 47404472--47404515 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
47404462 CACGGTTCTG
47404472 AATAA-AATAAAATGGA
1 AATAATAATAAAATGGA
*
47404488 AATAATAATAATAATGGT
1 AATAATAATAA-AATGGA
*
47404506 ACTAATAATA
1 AATAATAATA
47404516 TTTTGTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 5 0.21
17 5 0.21
18 14 0.58
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.27
Consensus pattern (17 bp):
AATAATAATAAAATGGA
Found at i:47412843 original size:3 final size:3
Alignment explanation
Indices: 47412798--47412830 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
47412788 ATAAAATGGG
47412798 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
47412831 GGTACTAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:47415988 original size:3 final size:3
Alignment explanation
Indices: 47415974--47416008 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
47415964 ATAAAACGAA
*
47415974 AAC AAA AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
47416009 TAATGGTACT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.71, C:0.29, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:47417852 original size:18 final size:17
Alignment explanation
Indices: 47417813--47417856 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
47417803 CATGATTCTG
47417813 AATAA-AATAAAATGGA
1 AATAATAATAAAATGGA
*
47417829 AATAATAATAATAATGGT
1 AATAATAATAA-AATGGA
*
47417847 ACTAATAATA
1 AATAATAATA
47417857 TTTTGTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 5 0.21
17 5 0.21
18 14 0.58
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.27
Consensus pattern (17 bp):
AATAATAATAAAATGGA
Found at i:47428910 original size:35 final size:36
Alignment explanation
Indices: 47428852--47428920 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 36
47428842 AAGTAAGGAA
* *
47428852 ATGATGAAAATGTATGCGCTGATTAGGAAGGTATAG
1 ATGATGAAAATGTATACGCTGATTAGAAAGGTATAG
* *
47428888 ATGATG-AAATGTGTACGTTGATTAGAAAGGTAT
1 ATGATGAAAATGTATACGCTGATTAGAAAGGTAT
47428921 CTGCCAATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 23 0.79
36 6 0.21
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.30
Consensus pattern (36 bp):
ATGATGAAAATGTATACGCTGATTAGAAAGGTATAG
Found at i:47432191 original size:20 final size:23
Alignment explanation
Indices: 47432152--47432201 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 23
47432142 TTATTTATAT
47432152 TAAATATTTTAATATAAATAATA
1 TAAATATTTTAATATAAATAATA
47432175 TAAAT-TTTT-AT-TAAATAATA
1 TAAATATTTTAATATAAATAATA
*
47432195 AAAATAT
1 TAAATAT
47432202 AAATATGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 13 0.52
21 3 0.12
22 4 0.16
23 5 0.20
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TAAATATTTTAATATAAATAATA
Found at i:47433258 original size:23 final size:23
Alignment explanation
Indices: 47433223--47433266 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
47433213 ATTTCAGATC
*
47433223 AATAAAAATTTTATTATTTTAAAA
1 AATAAAAATTTTAAT-TTTTAAAA
47433247 AATAAAAA-TTTAATTTTTAA
1 AATAAAAATTTTAATTTTTAA
47433267 TGTCAACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 5 0.26
24 8 0.42
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
AATAAAAATTTTAATTTTTAAAA
Found at i:47433600 original size:28 final size:29
Alignment explanation
Indices: 47433568--47433669 Score: 102
Period size: 28 Copynumber: 3.5 Consensus size: 29
47433558 AATTACCTGT
*
47433568 AAAATTTATTATATATAAAAT-AT-TTTAA
1 AAAATTTAATATA-ATAAAATAATATTTAA
*
47433596 AAAATTAAATATAAT-AAATAATATTTAA
1 AAAATTTAATATAATAAAATAATATTTAA
* * *
47433624 ATAATTTAATATAATGATAAATGATGTTTAA
1 AAAATTTAATATAAT-A-AAATAATATTTAA
*
47433655 ATAATTTAATATAAT
1 AAAATTTAATATAAT
47433670 GATACATGAA
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
26 4 0.06
27 4 0.06
28 29 0.46
31 26 0.41
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (29 bp):
AAAATTTAATATAATAAAATAATATTTAA
Found at i:47433654 original size:31 final size:31
Alignment explanation
Indices: 47433609--47433678 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
47433599 ATTAAATATA
*
47433609 ATAAATAATATTTAAATAATTTAATATAATG
1 ATAAATGATATTTAAATAATTTAATATAATG
*
47433640 ATAAATGATGTTTAAATAATTTAATATAATG
1 ATAAATGATATTTAAATAATTTAATATAATG
*
47433671 ATACATGA
1 ATAAATGA
47433679 AACATAAATC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.40
Consensus pattern (31 bp):
ATAAATGATATTTAAATAATTTAATATAATG
Found at i:47433664 original size:158 final size:157
Alignment explanation
Indices: 47433486--47433799 Score: 538
Period size: 158 Copynumber: 2.0 Consensus size: 157
47433476 GTTAAATTAC
* *
47433486 ATGATATTTAAATAATTTAATATAATGATACATGAAAAATAAATCTTAAATGTATTTTAAGTAAT
1 ATGATATTTAAATAATTTAATATAATGATACATGAAAAATAAATCTTAAATGCATTTTAAATAAT
*
47433551 TAATATAAATTACCTGTAAAATTTATTATATATAAAATATTTTAAAAAATTAAATATAATAAATA
66 TAATATAAATTACCAGTAAAATTTATTATATATAAAATATTTT-AAAAATTAAATATAATAAATA
* *
47433616 ATATTTAAATAATTTAATATAATGATAA
130 AGATTTAAATAATTAAATATAATGATAA
* *
47433644 ATGATGTTTAAATAATTTAATATAATGATACATGAAACATAAATCTTAAATGCATTTTAAATAAT
1 ATGATATTTAAATAATTTAATATAATGATACATGAAAAATAAATCTTAAATGCATTTTAAATAAT
*
47433709 TAATATAAATTACCAGTAAAATTTATTATATATAAAATATTTTTAAAATTAAATATAATAAATAA
66 TAATATAAATTACCAGTAAAATTTATTATATATAAAATATTTTAAAAATTAAATATAATAAATAA
*
47433774 GATTTATATAATTAAATATAATGATA
131 GATTTAAATAATTAAATATAATGATA
47433800 TTTCAAATTT
Statistics
Matches: 147, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
157 44 0.30
158 103 0.70
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (157 bp):
ATGATATTTAAATAATTTAATATAATGATACATGAAAAATAAATCTTAAATGCATTTTAAATAAT
TAATATAAATTACCAGTAAAATTTATTATATATAAAATATTTTAAAAATTAAATATAATAAATAA
GATTTAAATAATTAAATATAATGATAA
Found at i:47433687 original size:31 final size:31
Alignment explanation
Indices: 47433621--47433687 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
47433611 AAATAATATT
****
47433621 TAAATAATTTAATATAATGATAAATGATGTT
1 TAAATAATTTAATATAATGATAAATGAAACA
*
47433652 TAAATAATTTAATATAATGATACATGAAACA
1 TAAATAATTTAATATAATGATAAATGAAACA
47433683 TAAAT
1 TAAAT
47433688 CTTAAATGCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.37
Consensus pattern (31 bp):
TAAATAATTTAATATAATGATAAATGAAACA
Found at i:47433764 original size:25 final size:27
Alignment explanation
Indices: 47433725--47433793 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 27
47433715 AAATTACCAG
* * * *
47433725 TAAAATTTATTATATATAA-AATATTTT
1 TAAAATTAAATATATA-AATAAGATTTA
47433752 TAAAATTAAATATAATAAATAAGATTTA
1 TAAAATTAAATAT-ATAAATAAGATTTA
*
47433780 TATAATTAAATATA
1 TAAAATTAAATATA
47433794 ATGATATTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 14 0.40
28 21 0.60
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (27 bp):
TAAAATTAAATATATAAATAAGATTTA
Found at i:47437475 original size:20 final size:21
Alignment explanation
Indices: 47437452--47437490 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
47437442 TGGACGAGCC
47437452 ACCAG-AAA-TGCAGATAAAAT
1 ACCAGTAAATTGC-GATAAAAT
47437472 ACCAGTAAATTGCGATAAA
1 ACCAGTAAATTGCGATAAA
47437491 CCGCCAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 9 0.53
22 3 0.18
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.18
Consensus pattern (21 bp):
ACCAGTAAATTGCGATAAAAT
Found at i:47438980 original size:51 final size:51
Alignment explanation
Indices: 47438921--47439264 Score: 324
Period size: 51 Copynumber: 6.8 Consensus size: 51
47438911 TATCGATGAA
* *
47438921 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGT
* * * * * * *
47438972 CACATGTGTAGTATTAAGTGAAGGCTA-TAATGTGTATCGAGAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACT-ACGTGAATCGATAA-ATGTTGGT
* * * * *
47439023 CACGTGTGTAGTACTGTGTGAAGACTACTATGTGAATCAATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGT
* * * * * *
47439074 CACATGTGTAATACTAAGTGAAGGCTACTATGTGTACCGA-AAA-GCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATG--TTGGT
* ** *
47439125 CACGTGTGTAGTACTATGTGAAGGCTACTACATGAA-CTG-TAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATC-GATAAATGTTGGT
* * ** *
47439175 CACGTGTATAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGT
*
47439225 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
47439265 ATGATAAAAG
Statistics
Matches: 241, Mismatches: 41, Indels: 22
0.79 0.13 0.07
Matches are distributed among these distances:
49 1 0.00
50 92 0.38
51 146 0.61
52 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGT
Found at i:47439097 original size:102 final size:102
Alignment explanation
Indices: 47438921--47439258 Score: 423
Period size: 102 Copynumber: 3.3 Consensus size: 102
47438911 TATCGATGAA
* * *
47438921 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAT
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCAATAAATGATGGTCACATGTGTAATAC
* *
47438986 TAAGTGAAGGCTA-TAATGTGTATCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACT-ATGTGTACCGAAAAGCTTTGGT
* *
47439023 CACGTGTGTAGTACTGTGTGAAGACTACTATGTGAATCAATAAATGATGGTCACATGTGTAATAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCAATAAATGATGGTCACATGTGTAATAC
47439088 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
* * ** *** * * * *
47439125 CACGTGTGTAGTACTATGTGAAGGCTACTACATGAA-CTGTAAAACTTGATCACGTGTATAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCAATAAATGATGGTCACATGTGTAATAC
* * * *
47439189 TATGTGAAGGCTACTACGTGAACCGTAAAA-C-TTGAT
66 TAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTGGT
*
47439225 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTG
47439259 TATCGAATGA
Statistics
Matches: 209, Mismatches: 25, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
100 37 0.18
101 42 0.20
102 129 0.62
103 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCAATAAATGATGGTCACATGTGTAATAC
TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
Found at i:47439497 original size:38 final size:37
Alignment explanation
Indices: 47439455--47439527 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
47439445 ATGTGTGGAA
*
47439455 TTGAATTGAATATTGACTTGAAAATGGAAAA-GTGAATT
1 TTGAATTGAATAGTGA-TTGAAAAT-GAAAATGTGAATT
*
47439493 TTGAATTGAATAGTGATTGAAAGTGAAAATGTGAA
1 TTGAATTGAATAGTGATTGAAAATGAAAATGTGAA
47439528 ATTACGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 5 0.16
37 12 0.38
38 15 0.47
ACGTcount: A:0.42, C:0.01, G:0.23, T:0.33
Consensus pattern (37 bp):
TTGAATTGAATAGTGATTGAAAATGAAAATGTGAATT
Found at i:47454144 original size:16 final size:17
Alignment explanation
Indices: 47454123--47454154 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
47454113 AAATATGCAA
47454123 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
47454139 TCACATAACTTCATAT
1 TCACATAACTTCATAT
47454155 CATCAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:47454412 original size:41 final size:42
Alignment explanation
Indices: 47454314--47454430 Score: 139
Period size: 41 Copynumber: 2.8 Consensus size: 42
47454304 GACTCGTACA
* * * *
47454314 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAATGTCCCAGAC-AGGTCTTACACGTAATCAAATATCG
* *
47454357 ATGCCACTATCCCAGACAGGATCTTACACG-AATCAAATA-CG
1 ATGCCAATGTCCCAGACAGG-TCTTACACGTAATCAAATATCG
47454398 ATGCCAATGTCCCAGACATGGTCTTACACGTAA
1 ATGCCAATGTCCCAGACA-GGTCTTACACGTAA
47454431 ACACAAGTCA
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
41 27 0.43
42 14 0.22
43 22 0.35
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAGGTCTTACACGTAATCAAATATCG
Found at i:47476729 original size:21 final size:21
Alignment explanation
Indices: 47476705--47476810 Score: 77
Period size: 21 Copynumber: 5.0 Consensus size: 21
47476695 CCATGAGGAT
47476705 TGAACAGAAGCTCATAAGAGC
1 TGAACAGAAGCTCATAAGAGC
* * * * * *
47476726 TGAACGGAAACCCAAAAGGGT
1 TGAACAGAAGCTCATAAGAGC
* * *
47476747 TAAACAAAAGCTCAAAAGAGC
1 TGAACAGAAGCTCATAAGAGC
* * * *
47476768 TGAACGGAAACTCATATGAGT
1 TGAACAGAAGCTCATAAGAGC
* *
47476789 TGAACAGAAGCTCGTGAGAGC
1 TGAACAGAAGCTCATAAGAGC
47476810 T
1 T
47476811 AAAAGGAAAG
Statistics
Matches: 59, Mismatches: 26, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.15
Consensus pattern (21 bp):
TGAACAGAAGCTCATAAGAGC
Found at i:47476736 original size:42 final size:41
Alignment explanation
Indices: 47476663--47476819 Score: 134
Period size: 42 Copynumber: 3.8 Consensus size: 41
47476653 GCCTGAAGGC
* * * **
47476663 TGAACAGAAACACATAAGTGCTAAATAGAAACCCATGAGGAT
1 TGAACAGAAGCTCATAAGAGCTAAACGGAAACCCAT-AGGAT
* * *
47476705 TGAACAGAAGCTCATAAGAGCTGAACGGAAACCCAAAAGGGT
1 TGAACAGAAGCTCATAAGAGCTAAACGGAAACCC-ATAGGAT
* * * * * *
47476747 TAAACAAAAGCTCAAAAGAGCTGAACGGAAACTCATATGAGT
1 TGAACAGAAGCTCATAAGAGCTAAACGGAAACCCATAGGA-T
* * *
47476789 TGAACAGAAGCTCGTGAGAGCTAAAAGGAAA
1 TGAACAGAAGCTCATAAGAGCTAAACGGAAA
47476820 GTAAACACGA
Statistics
Matches: 91, Mismatches: 22, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
41 3 0.03
42 87 0.96
43 1 0.01
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.15
Consensus pattern (41 bp):
TGAACAGAAGCTCATAAGAGCTAAACGGAAACCCATAGGAT
Found at i:47477819 original size:3 final size:3
Alignment explanation
Indices: 47477802--47477836 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
47477792 ATAAAACGGA
* *
47477802 AAC AAC AGC AGC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
47477837 TGGTACTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.31, G:0.06, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:47483757 original size:16 final size:17
Alignment explanation
Indices: 47483736--47483767 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
47483726 AAATATGCAA
47483736 TCACATAA-TTCATATT
1 TCACATAATTTCATATT
47483752 TCACATAATTTCATAT
1 TCACATAATTTCATAT
47483768 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (17 bp):
TCACATAATTTCATATT
Found at i:47484069 original size:84 final size:84
Alignment explanation
Indices: 47483928--47484083 Score: 228
Period size: 84 Copynumber: 1.9 Consensus size: 84
47483918 GACTCGTACA
* * *
47483928 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAG-GG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCGATGCCACTGTCCCAGAC-GTGG
47483992 TCTTACACAAATCAAATACG
65 TCTTACACAAATCAAATACG
*
47484012 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACA-AGTCGATGCCGAC-GTCCCAGACGTG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATA-TCGATGCC-ACTGTCCCAGACGTG
47484075 GTCTTACAC
64 GTCTTACAC
47484084 GATAACATAT
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
83 2 0.03
84 61 0.94
85 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCGATGCCACTGTCCCAGACGTGGT
CTTACACAAATCAAATACG
Found at i:47484083 original size:43 final size:42
Alignment explanation
Indices: 47483928--47484084 Score: 180
Period size: 43 Copynumber: 3.7 Consensus size: 42
47483918 GACTCGTACA
* *
47483928 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACA-ATCG
47483971 ATGCC-ACTGTCCCAGACAG-GGTCTTACAC--AAATCA-AATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAA-CACAAT-CG
* *
47484012 ATGCCAATGTCCCAGACATGGTCTTACACGTAAACACAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAA-TCG
*
47484055 ATGCCGACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
47484085 ATAACATATA
Statistics
Matches: 97, Mismatches: 7, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
40 2 0.02
41 29 0.30
42 7 0.07
43 57 0.59
44 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAATCG
Found at i:47502696 original size:10 final size:10
Alignment explanation
Indices: 47502677--47502724 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
47502667 AGTTGTATGT
*
47502677 ATTATGTCAA
1 ATTATATCAA
47502687 ATTATATCAA
1 ATTATATCAA
*
47502697 ATTATAATAAA
1 ATTAT-ATCAA
47502708 TATTATATCAA
1 -ATTATATCAA
47502719 ATTATA
1 ATTATA
47502725 ATGAAATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
10 20 0.61
11 8 0.24
12 5 0.15
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (10 bp):
ATTATATCAA
Found at i:47502715 original size:22 final size:23
Alignment explanation
Indices: 47502687--47502733 Score: 87
Period size: 22 Copynumber: 2.1 Consensus size: 23
47502677 ATTATGTCAA
47502687 ATTATATCAAATTATAAT-AAAT
1 ATTATATCAAATTATAATGAAAT
47502709 ATTATATCAAATTATAATGAAAT
1 ATTATATCAAATTATAATGAAAT
47502732 AT
1 AT
47502734 AATAAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (23 bp):
ATTATATCAAATTATAATGAAAT
Found at i:47502719 original size:32 final size:32
Alignment explanation
Indices: 47502676--47502741 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
47502666 AAGTTGTATG
*
47502676 TATTATGTCAAATTAT-ATCAAATTATAATAAA
1 TATTATATCAAATTATAATCAAA-TATAATAAA
*
47502708 TATTATATCAAATTATAATGAAATATAATAAA
1 TATTATATCAAATTATAATCAAATATAATAAA
47502740 TA
1 TA
47502742 AATAAATGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 26 0.84
33 5 0.16
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (32 bp):
TATTATATCAAATTATAATCAAATATAATAAA
Found at i:47514933 original size:35 final size:36
Alignment explanation
Indices: 47514875--47514943 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 36
47514865 AAGTAAGGAA
* *
47514875 ATGATGAAAATGTATGCGCTGATTAGGAAGGTATAG
1 ATGATGAAAATGTATACGCTGATTAGAAAGGTATAG
* *
47514911 ATGATG-AAATGTGTACGTTGATTAGAAAGGTAT
1 ATGATGAAAATGTATACGCTGATTAGAAAGGTAT
47514944 CTGCCAATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 23 0.79
36 6 0.21
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.30
Consensus pattern (36 bp):
ATGATGAAAATGTATACGCTGATTAGAAAGGTATAG
Found at i:47518242 original size:20 final size:22
Alignment explanation
Indices: 47518202--47518250 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
47518192 TTATTTATAT
*
47518202 TAAATATTTTTAATATAAATAA
1 TAAAAATTTTTAATATAAATAA
*
47518224 TATAAATTTTT-AT-TAAATAA
1 TAAAAATTTTTAATATAAATAA
47518244 TAAAAAT
1 TAAAAAT
47518251 ATAAATATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 13 0.54
21 2 0.08
22 9 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TAAAAATTTTTAATATAAATAA
Found at i:47519308 original size:23 final size:23
Alignment explanation
Indices: 47519273--47519316 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
47519263 ATTTCAGATC
*
47519273 AATAAAAATTTTATTATTTTAAAA
1 AATAAAAATTTTAAT-TTTTAAAA
47519297 AATAAAAA-TTTAATTTTTAA
1 AATAAAAATTTTAATTTTTAA
47519317 TGTCAACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 5 0.26
24 8 0.42
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
AATAAAAATTTTAATTTTTAAAA
Found at i:47519650 original size:28 final size:29
Alignment explanation
Indices: 47519618--47519719 Score: 102
Period size: 28 Copynumber: 3.5 Consensus size: 29
47519608 AATTACCTGT
*
47519618 AAAATTTATTATATATAAAAT-AT-TTTAA
1 AAAATTTAATATA-ATAAAATAATATTTAA
*
47519646 AAAATTAAATATAAT-AAATAATATTTAA
1 AAAATTTAATATAATAAAATAATATTTAA
* * *
47519674 ATAATTTAATATAATGATAAATGATGTTTAA
1 AAAATTTAATATAAT-A-AAATAATATTTAA
*
47519705 ATAATTTAATATAAT
1 AAAATTTAATATAAT
47519720 GATACATGAA
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
26 4 0.06
27 4 0.06
28 29 0.46
31 26 0.41
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (29 bp):
AAAATTTAATATAATAAAATAATATTTAA
Found at i:47519704 original size:31 final size:31
Alignment explanation
Indices: 47519659--47519728 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
47519649 ATTAAATATA
*
47519659 ATAAATAATATTTAAATAATTTAATATAATG
1 ATAAATGATATTTAAATAATTTAATATAATG
*
47519690 ATAAATGATGTTTAAATAATTTAATATAATG
1 ATAAATGATATTTAAATAATTTAATATAATG
*
47519721 ATACATGA
1 ATAAATGA
47519729 AACATAAATC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.40
Consensus pattern (31 bp):
ATAAATGATATTTAAATAATTTAATATAATG
Found at i:47519714 original size:158 final size:157
Alignment explanation
Indices: 47519536--47519849 Score: 538
Period size: 158 Copynumber: 2.0 Consensus size: 157
47519526 GTTAAATTAC
* *
47519536 ATGATATTTAAATAATTTAATATAATGATACATGAAAAATAAATCTTAAATGTATTTTAAGTAAT
1 ATGATATTTAAATAATTTAATATAATGATACATGAAAAATAAATCTTAAATGCATTTTAAATAAT
*
47519601 TAATATAAATTACCTGTAAAATTTATTATATATAAAATATTTTAAAAAATTAAATATAATAAATA
66 TAATATAAATTACCAGTAAAATTTATTATATATAAAATATTTT-AAAAATTAAATATAATAAATA
* *
47519666 ATATTTAAATAATTTAATATAATGATAA
130 AGATTTAAATAATTAAATATAATGATAA
* *
47519694 ATGATGTTTAAATAATTTAATATAATGATACATGAAACATAAATCTTAAATGCATTTTAAATAAT
1 ATGATATTTAAATAATTTAATATAATGATACATGAAAAATAAATCTTAAATGCATTTTAAATAAT
*
47519759 TAATATAAATTACCAGTAAAATTTATTATATATAAAATATTTTTAAAATTAAATATAATAAATAA
66 TAATATAAATTACCAGTAAAATTTATTATATATAAAATATTTTAAAAATTAAATATAATAAATAA
*
47519824 GATTTATATAATTAAATATAATGATA
131 GATTTAAATAATTAAATATAATGATA
47519850 TTTCAAATTT
Statistics
Matches: 147, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
157 44 0.30
158 103 0.70
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (157 bp):
ATGATATTTAAATAATTTAATATAATGATACATGAAAAATAAATCTTAAATGCATTTTAAATAAT
TAATATAAATTACCAGTAAAATTTATTATATATAAAATATTTTAAAAATTAAATATAATAAATAA
GATTTAAATAATTAAATATAATGATAA
Found at i:47519737 original size:31 final size:31
Alignment explanation
Indices: 47519671--47519737 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
47519661 AAATAATATT
****
47519671 TAAATAATTTAATATAATGATAAATGATGTT
1 TAAATAATTTAATATAATGATAAATGAAACA
*
47519702 TAAATAATTTAATATAATGATACATGAAACA
1 TAAATAATTTAATATAATGATAAATGAAACA
47519733 TAAAT
1 TAAAT
47519738 CTTAAATGCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.37
Consensus pattern (31 bp):
TAAATAATTTAATATAATGATAAATGAAACA
Found at i:47519814 original size:25 final size:27
Alignment explanation
Indices: 47519775--47519843 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 27
47519765 AAATTACCAG
* * * *
47519775 TAAAATTTATTATATATAA-AATATTTT
1 TAAAATTAAATATATA-AATAAGATTTA
47519802 TAAAATTAAATATAATAAATAAGATTTA
1 TAAAATTAAATAT-ATAAATAAGATTTA
*
47519830 TATAATTAAATATA
1 TAAAATTAAATATA
47519844 ATGATATTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 14 0.40
28 21 0.60
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (27 bp):
TAAAATTAAATATATAAATAAGATTTA
Found at i:47523526 original size:20 final size:21
Alignment explanation
Indices: 47523503--47523541 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
47523493 TGGACGAGCC
47523503 ACCAG-AAA-TGCAGATAAAAT
1 ACCAGTAAATTGC-GATAAAAT
47523523 ACCAGTAAATTGCGATAAA
1 ACCAGTAAATTGCGATAAA
47523542 CCGCCAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 9 0.53
22 3 0.18
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.18
Consensus pattern (21 bp):
ACCAGTAAATTGCGATAAAAT
Found at i:47525037 original size:51 final size:51
Alignment explanation
Indices: 47524978--47525321 Score: 324
Period size: 51 Copynumber: 6.8 Consensus size: 51
47524968 TATCGATGAA
* *
47524978 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGT
* * * * * * *
47525029 CACATGTGTAGTATTAAGTGAAGGCTA-TAATGTGTATCGAGAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACT-ACGTGAATCGATAA-ATGTTGGT
* * * * *
47525080 CACGTGTGTAGTACTGTGTGAAGACTACTATGTGAATCAATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGT
* * * * * *
47525131 CACATGTGTAATACTAAGTGAAGGCTACTATGTGTACCGA-AAA-GCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATG--TTGGT
* ** *
47525182 CACGTGTGTAGTACTATGTGAAGGCTACTACATGAA-CTG-TAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATC-GATAAATGTTGGT
* * ** *
47525232 CACGTGTATAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGT
*
47525282 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
47525322 ATGATAAAAG
Statistics
Matches: 241, Mismatches: 41, Indels: 22
0.79 0.13 0.07
Matches are distributed among these distances:
49 1 0.00
50 92 0.38
51 146 0.61
52 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGT
Found at i:47525154 original size:102 final size:102
Alignment explanation
Indices: 47524978--47525315 Score: 423
Period size: 102 Copynumber: 3.3 Consensus size: 102
47524968 TATCGATGAA
* * *
47524978 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAT
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCAATAAATGATGGTCACATGTGTAATAC
* *
47525043 TAAGTGAAGGCTA-TAATGTGTATCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACT-ATGTGTACCGAAAAGCTTTGGT
* *
47525080 CACGTGTGTAGTACTGTGTGAAGACTACTATGTGAATCAATAAATGATGGTCACATGTGTAATAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCAATAAATGATGGTCACATGTGTAATAC
47525145 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
* * ** *** * * * *
47525182 CACGTGTGTAGTACTATGTGAAGGCTACTACATGAA-CTGTAAAACTTGATCACGTGTATAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCAATAAATGATGGTCACATGTGTAATAC
* * * *
47525246 TATGTGAAGGCTACTACGTGAACCGTAAAA-C-TTGAT
66 TAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTGGT
*
47525282 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTG
47525316 TATCGAATGA
Statistics
Matches: 209, Mismatches: 25, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
100 37 0.18
101 42 0.20
102 129 0.62
103 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCAATAAATGATGGTCACATGTGTAATAC
TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
Found at i:47525558 original size:38 final size:37
Alignment explanation
Indices: 47525512--47525584 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
47525502 ATGTGTGGAA
*
47525512 TTGAATTGAATATTGACTTGAAAATGGAAAA-GTGAATT
1 TTGAATTGAATAGTGA-TTGAAAAT-GAAAATGTGAATT
*
47525550 TTGAATTGAATAGTGATTGAAAGTGAAAATGTGAA
1 TTGAATTGAATAGTGATTGAAAATGAAAATGTGAA
47525585 ATTACGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 5 0.16
37 12 0.38
38 15 0.47
ACGTcount: A:0.42, C:0.01, G:0.23, T:0.33
Consensus pattern (37 bp):
TTGAATTGAATAGTGATTGAAAATGAAAATGTGAATT
Found at i:47530361 original size:51 final size:51
Alignment explanation
Indices: 47530269--47530456 Score: 227
Period size: 51 Copynumber: 3.7 Consensus size: 51
47530259 CATGAGAACT
* * * * *
47530269 CATGTGTAGTACTATGTGTAGGCTACTATGAGTATAAGATAGTTATGTTCA
1 CATGTGTAGTACTAAGTGTAGGCTACTATGTGTACAGGATAGTTATGGTCA
* * *
47530320 CATGTGTAGTACTAAGTGCAGGCTATTATGTGTACCGGATAGCTT-TGGTCA
1 CATGTGTAGTACTAAGTGTAGGCTACTATGTGTACAGGATAG-TTATGGTCA
* * * * *
47530371 CGTGTGTAGTACTATGTGTAGGCTTCTACGTGTACAGGAT-GGTATTGGTCA
1 CATGTGTAGTACTAAGTGTAGGCTACTATGTGTACAGGATAGTTA-TGGTCA
47530422 CATGTGTAGTACTAAGTGTAGGCTACTATGTGTAC
1 CATGTGTAGTACTAAGTGTAGGCTACTATGTGTAC
47530457 CGAATAGCAT
Statistics
Matches: 114, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
49 1 0.01
50 1 0.01
51 110 0.96
52 2 0.02
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.35
Consensus pattern (51 bp):
CATGTGTAGTACTAAGTGTAGGCTACTATGTGTACAGGATAGTTATGGTCA
Found at i:47530452 original size:102 final size:102
Alignment explanation
Indices: 47530271--47530464 Score: 282
Period size: 102 Copynumber: 1.9 Consensus size: 102
47530261 TGAGAACTCA
* * *
47530271 TGTGTAGTACTATGTGTAGGCTACTATGAGTATAAGATAGTTATGTTCACATGTGTAGTACTAAG
1 TGTGTAGTACTATGTGTAGGCTACTACGAGTACAAGATAGTTATGGTCACATGTGTAGTACTAAG
* *
47530336 TGCAGGCTATTATGTGTACCGGATAGCTTTGGTCACG
66 TGCAGGCTACTATGTGTACCGAATAGCTTTGGTCACG
* * * *
47530373 TGTGTAGTACTATGTGTAGGCTTCTACGTGTACAGGAT-GGTATTGGTCACATGTGTAGTACTAA
1 TGTGTAGTACTATGTGTAGGCTACTACGAGTACAAGATAGTTA-TGGTCACATGTGTAGTACTAA
*
47530437 GTGTAGGCTACTATGTGTACCGAATAGC
65 GTGCAGGCTACTATGTGTACCGAATAGC
47530465 ATTGATCATA
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
101 3 0.04
102 78 0.96
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.35
Consensus pattern (102 bp):
TGTGTAGTACTATGTGTAGGCTACTACGAGTACAAGATAGTTATGGTCACATGTGTAGTACTAAG
TGCAGGCTACTATGTGTACCGAATAGCTTTGGTCACG
Found at i:47534425 original size:27 final size:27
Alignment explanation
Indices: 47534394--47534448 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
47534384 TGTGTGTATG
*
47534394 TCAAAACCACTGTTGATGGATATGTAA
1 TCAAAACCACTGTTGATAGATATGTAA
47534421 TCAAAACCACTGTTGATAGATATGTAA
1 TCAAAACCACTGTTGATAGATATGTAA
47534448 T
1 T
47534449 TCTACATTTA
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:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (27 bp):
TCAAAACCACTGTTGATAGATATGTAA
Found at i:47537953 original size:61 final size:61
Alignment explanation
Indices: 47537883--47538008 Score: 252
Period size: 61 Copynumber: 2.1 Consensus size: 61
47537873 TTGAAAGAAC
47537883 ACATGAGAAAATGAGAGATTTTCTCCTTCACTTTCCCTCCCACATATAAAACAAACACAAT
1 ACATGAGAAAATGAGAGATTTTCTCCTTCACTTTCCCTCCCACATATAAAACAAACACAAT
47537944 ACATGAGAAAATGAGAGATTTTCTCCTTCACTTTCCCTCCCACATATAAAACAAACACAAT
1 ACATGAGAAAATGAGAGATTTTCTCCTTCACTTTCCCTCCCACATATAAAACAAACACAAT
47538005 ACAT
1 ACAT
47538009 CCAATCATTG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 65 1.00
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.26
Consensus pattern (61 bp):
ACATGAGAAAATGAGAGATTTTCTCCTTCACTTTCCCTCCCACATATAAAACAAACACAAT
Found at i:47538688 original size:26 final size:26
Alignment explanation
Indices: 47538652--47538701 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
47538642 TTAATCGCCC
47538652 ATTTAAAAGTAGAATAGAATAAGACA
1 ATTTAAAAGTAGAATAGAATAAGACA
47538678 ATTTAAAAGTAGAATAGAATAAGA
1 ATTTAAAAGTAGAATAGAATAAGA
47538702 TAAGTGTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.58, C:0.02, G:0.16, T:0.24
Consensus pattern (26 bp):
ATTTAAAAGTAGAATAGAATAAGACA
Found at i:47546421 original size:19 final size:19
Alignment explanation
Indices: 47546394--47546441 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
47546384 CTCGGAGGGG
*
47546394 GCACGCGCGCAGAGGCGCA
1 GCACACGCGCAGAGGCGCA
**
47546413 GCACACGCGTGGAGGCGCA
1 GCACACGCGCAGAGGCGCA
47546432 G-A-ACGCGCAG
1 GCACACGCGCAG
47546442 GGGAGGACTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 6 0.25
18 1 0.04
19 17 0.71
ACGTcount: A:0.23, C:0.33, G:0.42, T:0.02
Consensus pattern (19 bp):
GCACACGCGCAGAGGCGCA
Found at i:47548354 original size:31 final size:31
Alignment explanation
Indices: 47548318--47548379 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
47548308 TTTAATTTTG
47548318 ATTGCATACTTAGTTTCTTATTTACTTACAT
1 ATTGCATACTTAGTTTCTTATTTACTTACAT
47548349 ATTGCATACTTAGTTTCTTATTTACTTACAT
1 ATTGCATACTTAGTTTCTTATTTACTTACAT
47548380 TTATTTTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.16, G:0.06, T:0.52
Consensus pattern (31 bp):
ATTGCATACTTAGTTTCTTATTTACTTACAT
Found at i:47553585 original size:6 final size:6
Alignment explanation
Indices: 47553576--47553658 Score: 88
Period size: 6 Copynumber: 14.5 Consensus size: 6
47553566 TTTAATTTTA
47553576 TTTATT TTTATT TTTA-T TTTATT TTTATT TTTA-T TTTA-T TTTA-T
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* *
47553620 TTTA-T TTTATT TTTATG GTTACTT TTT-TAT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTA-TT TTTAT-T TTTATT TTT
47553659 CAGATTTATA
Statistics
Matches: 68, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
5 26 0.38
6 38 0.56
7 4 0.06
ACGTcount: A:0.17, C:0.01, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:47553604 original size:27 final size:27
Alignment explanation
Indices: 47553562--47553684 Score: 101
Period size: 27 Copynumber: 4.5 Consensus size: 27
47553552 GATCAGTGAC
*
47553562 TTTA-TTTAATTTTATTTATTTTTATT
1 TTTATTTTATTTTTATTTATTTTTATT
*
47553588 TTTATTTTATTTTTATTTTTATTTTA-T
1 TTTATTTTATTTTTATTTAT-TTTTATT
* **
47553615 TTTATTTTATTTTATTTTTATGGTTACTTT
1 TTTATTTTATTTT-TATTTATTTTTA--TT
* *
47553645 TTTATTTTATTTTTCA--GATTTATATGT
1 TTTATTTTATTTTT-ATTTATTTTTAT-T
47553672 TTTATTTTATTTT
1 TTTATTTTATTTT
47553685 AGTATGCACT
Statistics
Matches: 78, Mismatches: 11, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
26 5 0.06
27 44 0.56
28 14 0.18
29 1 0.01
30 14 0.18
ACGTcount: A:0.20, C:0.02, G:0.03, T:0.76
Consensus pattern (27 bp):
TTTATTTTATTTTTATTTATTTTTATT
Found at i:47553657 original size:5 final size:5
Alignment explanation
Indices: 47553562--47553632 Score: 90
Period size: 5 Copynumber: 13.6 Consensus size: 5
47553552 GATCAGTGAC
*
47553562 TTTAT TTAAT TTTA- TTTATT TTTATT TTTAT TTTATT TTTATT TTTAT
1 TTTAT TTTAT TTTAT TTTA-T TTTA-T TTTAT TTTA-T TTTA-T TTTAT
47553610 TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTT
47553633 TATGGTTACT
Statistics
Matches: 61, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
4 4 0.07
5 36 0.59
6 21 0.34
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:47557064 original size:33 final size:33
Alignment explanation
Indices: 47557024--47557087 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
47557014 GAGTGACTAA
47557024 AAATAATTATTAATAATTTAA-TGAACATTTTAT
1 AAATAATTATTAATAA-TTAAGTGAACATTTTAT
* *
47557057 AAATAATTTTTAATAATTAAGTGATCATTTT
1 AAATAATTATTAATAATTAAGTGAACATTTT
47557088 CCTAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 4 0.14
33 24 0.86
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (33 bp):
AAATAATTATTAATAATTAAGTGAACATTTTAT
Found at i:47559276 original size:28 final size:27
Alignment explanation
Indices: 47559211--47559301 Score: 78
Period size: 28 Copynumber: 3.3 Consensus size: 27
47559201 TAAAAATTGC
47559211 TAAAAATTATTTTAAAAATAGGAAAATAT
1 TAAAAATTA--TTAAAAATAGGAAAATAT
* * *
47559240 TAAATATTATATAAAATTATGAAAATA-
1 TAAAAATTAT-TAAAAATAGGAAAATAT
* *
47559267 TAACAAATTATTAAAAA-ATTGAGAATAT
1 TAA-AAATTATTAAAAATA-GGAAAATAT
47559295 TAAAAAT
1 TAAAAAT
47559302 ATTGAAATTA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
26 1 0.02
27 20 0.38
28 23 0.44
29 8 0.15
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.34
Consensus pattern (27 bp):
TAAAAATTATTAAAAATAGGAAAATAT
Found at i:47559301 original size:27 final size:27
Alignment explanation
Indices: 47559211--47559301 Score: 69
Period size: 29 Copynumber: 3.3 Consensus size: 27
47559201 TAAAAATTGC
* * *
47559211 TAAAAATTATTTTAAAAATAGGAAAATAT
1 TAAAAATTA-TTAAAAAAT-TGAGAATAT
* * *
47559240 TAAATATTA-TATAAAATT-ATGAAAAT
1 TAAAAATTATTAAAAAATTGA-GAATAT
47559266 ATAACAAATTATTAAAAAATTGAGAATAT
1 -TAA-AAATTATTAAAAAATTGAGAATAT
47559295 TAAAAAT
1 TAAAAAT
47559302 ATTGAAATTA
Statistics
Matches: 48, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
25 1 0.02
26 4 0.08
27 13 0.27
28 8 0.17
29 21 0.44
30 1 0.02
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.34
Consensus pattern (27 bp):
TAAAAATTATTAAAAAATTGAGAATAT
Found at i:47567788 original size:14 final size:14
Alignment explanation
Indices: 47567755--47567797 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
47567745 ACTATACTTA
*
47567755 AATATTTAAATA-T
1 AATAATTAAATATT
47567768 AATAATTAAATATT
1 AATAATTAAATATT
* *
47567782 TATAATTAGATATT
1 AATAATTAAATATT
47567796 AA
1 AA
47567798 CACAATTGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (14 bp):
AATAATTAAATATT
Found at i:47568072 original size:16 final size:17
Alignment explanation
Indices: 47568041--47568073 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
47568031 GTTCTTTATT
47568041 ACTTTTTAAGGAAAAAC
1 ACTTTTTAAGGAAAAAC
*
47568058 ACTTTTTAATGAAAAA
1 ACTTTTTAAGGAAAAA
47568074 TTCATCTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.33
Consensus pattern (17 bp):
ACTTTTTAAGGAAAAAC
Found at i:47572868 original size:135 final size:132
Alignment explanation
Indices: 47572626--47572889 Score: 393
Period size: 135 Copynumber: 2.0 Consensus size: 132
47572616 GAAATGCATG
* *
47572626 GTTTGTTTCCTCACCAAAGCAACTACTGCTAATTTTAAGGTGACTACTATCACCGTTTTCAGGAA
1 GTTTGTTTCCTCACCAAAGCAACTACTGCTAACTTTAAGGTGACTACTATCACCATTTTCAGGAA
* *
47572691 AAGTACTTCTCAGATCCATGCATTCTAGAAGTCCATTAGGAACAGATTGGCAAAGACTAGTTGCA
66 AAGTACTCCTCAGATCCATGCATTCTAGAAGTCCATTAGGAACAGATTGGCAAAGACCAGTTGCA
47572756 CA
131 CA
* * *
47572758 GTTTGTTTCCTCACCAAAGCAACTACTGCTAACTTTAAGGTGACTTTTTCTATCATCATTTTTAG
1 GTTTGTTTCCTCACCAAAGCAACTACTGCTAACTTTAAGGTGAC---TACTATCACCATTTTCAG
* * * * *
47572823 GAAGAGTGCTCCTCAGATCCGTGCATTCTAGAAGTCCTTTAGGAACAGATTGGTAAAGACCAGTT
63 GAAAAGTACTCCTCAGATCCATGCATTCTAGAAGTCCATTAGGAACAGATTGGCAAAGACCAGTT
47572888 GC
128 GC
47572890 TTGGTGCATT
Statistics
Matches: 117, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
132 43 0.37
135 74 0.63
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (132 bp):
GTTTGTTTCCTCACCAAAGCAACTACTGCTAACTTTAAGGTGACTACTATCACCATTTTCAGGAA
AAGTACTCCTCAGATCCATGCATTCTAGAAGTCCATTAGGAACAGATTGGCAAAGACCAGTTGCA
CA
Found at i:47577915 original size:3 final size:3
Alignment explanation
Indices: 47577907--47577944 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
47577897 TCGACATTGC
47577907 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
47577945 CTCAATAGCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:47578803 original size:18 final size:19
Alignment explanation
Indices: 47578760--47578830 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
47578750 AAAAAGATAT
* * *
47578760 ATATATATAATTTTCTTAA
1 ATATTTATAATTTTATAAA
47578779 ATATTTATAATTTTATAAA
1 ATATTTATAATTTTATAAA
*
47578798 AT-TTTATAACTTCTA-AAA
1 ATATTTATAA-TTTTATAAA
*
47578816 TATATTTTTAATTTT
1 -ATATTTATAATTTT
47578831 TTCCATTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
18 10 0.23
19 27 0.63
20 6 0.14
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (19 bp):
ATATTTATAATTTTATAAA
Found at i:47578974 original size:17 final size:16
Alignment explanation
Indices: 47578944--47579020 Score: 57
Period size: 19 Copynumber: 4.3 Consensus size: 16
47578934 ACATAATAAT
47578944 ATTTTATAATTTTTA-A
1 ATTTT-TAATTTTTATA
47578960 CATTTTTAATATTTTATA
1 -ATTTTTAAT-TTTTATA
*
47578978 ATTTTTATAGTTTTCTTTA
1 ATTTTTA-A-TTTT-TATA
47578997 ATTTTATAATATTTTAATA
1 ATTTT-TAAT-TTTT-ATA
47579016 ATTTT
1 ATTTT
47579021 AAGCTAAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
16 4 0.08
17 17 0.34
18 7 0.14
19 20 0.40
20 2 0.04
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (16 bp):
ATTTTTAATTTTTATA
Found at i:47578983 original size:9 final size:9
Alignment explanation
Indices: 47578939--47579020 Score: 64
Period size: 9 Copynumber: 8.9 Consensus size: 9
47578929 TCATAACATA
47578939 ATAATATTTT
1 ATAAT-TTTT
47578949 ATAATTTTT
1 ATAATTTTT
47578958 A-ACA-TTTT
1 ATA-ATTTTT
47578966 -TAATATTTT
1 ATAAT-TTTT
47578975 ATAATTTTT
1 ATAATTTTT
*
47578984 ATAGTTTTCT
1 ATAATTTT-T
*
47578994 TTAA-TTTT
1 ATAATTTTT
47579002 ATAATATTTT
1 ATAAT-TTTT
47579012 AATAATTTT
1 -ATAATTTT
47579021 AAGCTAAAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
7 1 0.02
8 10 0.17
9 24 0.41
10 19 0.32
11 5 0.08
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.62
Consensus pattern (9 bp):
ATAATTTTT
Found at i:47579017 original size:19 final size:19
Alignment explanation
Indices: 47578940--47579021 Score: 70
Period size: 17 Copynumber: 4.6 Consensus size: 19
47578930 CATAACATAA
47578940 TAAT-ATTTTATAAT-TTT
1 TAATAATTTTATAATATTT
*
47578957 TAA-CATTTT-TAATATTT
1 TAATAATTTTATAATATTT
47578974 T-ATAATTTT-T-ATAGTTT
1 TAATAATTTTATAATA-TTT
**
47578991 TCTTTAATTTTATAATATTT
1 T-AATAATTTTATAATATTT
47579011 TAATAATTTTA
1 TAATAATTTTA
47579022 AGCTAAAATA
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
16 8 0.15
17 22 0.42
19 15 0.28
20 5 0.09
21 3 0.06
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.62
Consensus pattern (19 bp):
TAATAATTTTATAATATTT
Found at i:47588695 original size:230 final size:230
Alignment explanation
Indices: 47588292--47588752 Score: 823
Period size: 230 Copynumber: 2.0 Consensus size: 230
47588282 CTTATTAGAA
*
47588292 GTTTACAAATTGCAGTAGGATTTTCGCATGAGGCCTTAGAAATATCAATTTTAAAAAAAGGCTAC
1 GTTTACAAATTGCAGTAGGATTTTCGCATAAGGCCTTAGAAATATCAATTTTAAAAAAAGGCTAC
* *
47588357 AACCATAAGATCTTTTATCACAAAGCTCACTAAGAAGCTTTCATGCAAAATAGAACTCTGTATTG
66 AACCATAAGATCTTCTATCACAAAGCTCACTAAGAAGCTTTCATGCAAAATAGAACTCGGTATTG
* *
47588422 ATAATTTGCAAGCCTTTAGGAGCCCGTTTCACCATTACACTTAGTATATAAAGCTTCATGGTTAA
131 ATAATTTGCAAGCCTTTAGGACCCCGTTTCACCATTACACTTAGTATACAAAGCTTCATGGTTAA
* *
47588487 GGGATCTTCACATCTCAAACATCAGGGATCATGAT
196 AGGAACTTCACATCTCAAACATCAGGGATCATGAT
*
47588522 GTTTACAGATTGCAGTAGGATTTTCGCATAAGGCCTTAGAAATATCAATTTTAAAAAAAGGCTAC
1 GTTTACAAATTGCAGTAGGATTTTCGCATAAGGCCTTAGAAATATCAATTTTAAAAAAAGGCTAC
** *
47588587 AACTGTAAGATCTTCTATCACAGAGCTCACTAAGAAGCTTTCATGCAAAATAGAACTCGGTATTG
66 AACCATAAGATCTTCTATCACAAAGCTCACTAAGAAGCTTTCATGCAAAATAGAACTCGGTATTG
47588652 ATAATTTGCAAGCCTTTAGGACCCCGTTTCACCATTACACTTAGTATACAAAGCTTCATGGTTAA
131 ATAATTTGCAAGCCTTTAGGACCCCGTTTCACCATTACACTTAGTATACAAAGCTTCATGGTTAA
47588717 AGGAACTTCACATCTCAAACATCAGGGATCATGAT
196 AGGAACTTCACATCTCAAACATCAGGGATCATGAT
47588752 G
1 G
47588753 CATCTGATAA
Statistics
Matches: 220, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
230 220 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (230 bp):
GTTTACAAATTGCAGTAGGATTTTCGCATAAGGCCTTAGAAATATCAATTTTAAAAAAAGGCTAC
AACCATAAGATCTTCTATCACAAAGCTCACTAAGAAGCTTTCATGCAAAATAGAACTCGGTATTG
ATAATTTGCAAGCCTTTAGGACCCCGTTTCACCATTACACTTAGTATACAAAGCTTCATGGTTAA
AGGAACTTCACATCTCAAACATCAGGGATCATGAT
Found at i:47589022 original size:5 final size:5
Alignment explanation
Indices: 47589012--47589040 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
47589002 GACCAAGAAC
47589012 CAAAA CAAAA CAAAA CAAAA CAAAA CAAA
1 CAAAA CAAAA CAAAA CAAAA CAAAA CAAA
47589041 GGATATATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (5 bp):
CAAAA
Found at i:47598816 original size:21 final size:21
Alignment explanation
Indices: 47598758--47598822 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 21
47598748 TACTCCTTTT
* *
47598758 ATAAAGTTTATATAATTTTAA
1 ATAAAATTTAGATAATTTTAA
**
47598779 A-AAAATTTAG-TCTTTTTAA
1 ATAAAATTTAGATAATTTTAA
* *
47598798 ATAAAATTTTGATAATTTTTA
1 ATAAAATTTAGATAATTTTAA
47598819 ATAA
1 ATAA
47598823 TTTCTAAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
19 8 0.24
20 15 0.44
21 11 0.32
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.48
Consensus pattern (21 bp):
ATAAAATTTAGATAATTTTAA
Found at i:47599682 original size:15 final size:13
Alignment explanation
Indices: 47599654--47599687 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
47599644 ATAATAAATG
47599654 TTTTAAAAAAGTT
1 TTTTAAAAAAGTT
*
47599667 TTTTCAAAAAAGGT
1 TTTT-AAAAAAGTT
47599681 TTTTAAA
1 TTTTAAA
47599688 TTTTTTTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (13 bp):
TTTTAAAAAAGTT
Found at i:47602465 original size:24 final size:25
Alignment explanation
Indices: 47602437--47602485 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
47602427 TTCCTTACCA
47602437 TTTATTTT-T-AAAATAATAATTTTT
1 TTTATTTTGTGAAAATAAT-ATTTTT
*
47602461 TTTATTTTGTGAAAATTATATTTTT
1 TTTATTTTGTGAAAATAATATTTTT
47602486 CTTAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 8 0.36
25 7 0.32
26 7 0.32
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (25 bp):
TTTATTTTGTGAAAATAATATTTTT
Found at i:47604117 original size:23 final size:23
Alignment explanation
Indices: 47604090--47604165 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
47604080 AGTGTTATTG
47604090 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACGT
*
47604113 TTCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACGT
* * *
47604136 AACAGTGATAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACGT
47604159 ATCAGTG
1 ATCAGTG
47604166 TTGCACTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACGT
Found at i:47615234 original size:44 final size:45
Alignment explanation
Indices: 47615186--47615718 Score: 411
Period size: 44 Copynumber: 11.9 Consensus size: 45
47615176 AGAGGTATAG
*
47615186 GATTTGTCA-CTTCAATCTGCTCCACTACAACTTCAGGGAGATAA
1 GATTTGTCAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
47615230 GATTTGT-AGCTTCAA--T-CT--ACT----CTTCAGGGAGATAA
1 GATTTGTCAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * *
47615265 GATTTGT-AGCTTCAATCTACTCTACTGCAACTTCAAGGAGATAA
1 GATTTGTCAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * *
47615309 GATTTGT-AGCTTTC-ATTTGCTCCACTGCAACTTTAAGGAGATAA
1 GATTTGTCAGC-TTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * ** * * *
47615353 AATTTGTTATGGTGACTTCAATCCAAC-CCACTGCAACTTTAGAGG-TATAG
1 GATTTGTCA----G-CTTCAAT-CTGCTCCACTGCAACTTCAG-GGAGATAA
*
47615403 GATTTGTC-GCTTCAATATGCTCCACTGCAACTTCAGGGAGATAA
1 GATTTGTCAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
*
47615447 GATTTG-CAGCTTCAATCTGCTCCACTGCAACTTCTGGGAGATAA
1 GATTTGTCAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
*
47615491 GATTTGT-AGCTTTC-ATCTGCTCTACTGCAACTTCAGGGAGATAA
1 GATTTGTCAGC-TTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
* * * *
47615535 GATTT-TCTATGGTGGCTTCAATCTAAC-CCACTGTAACTTCA-GAAGTATAG
1 GATTTGTC-A-----GCTTCAATCT-GCTCCACTGCAACTTCAGGGAG-ATAA
* *
47615585 GATTTGTC-GCTTCAATATGTTCCACTGCAACTTCAGGGAGATAA
1 GATTTGTCAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
* *
47615629 GATTTG-CTATGGTGGCTTCAATCTGAC-CCACTGCAACTTCA-GAAGTATAG
1 GATTTGTC-A-----GCTTCAATCTG-CTCCACTGCAACTTCAGGGAG-ATAA
*
47615679 GATTTGTC-GCTTCTATCTGCTCCACTGCAACTTCAGGGAG
1 GATTTGTCAGCTTCAATCTGCTCCACTGCAACTTCAGGGAG
47615719 TTAGGATTCG
Statistics
Matches: 398, Mismatches: 41, Indels: 99
0.74 0.08 0.18
Matches are distributed among these distances:
35 29 0.07
37 1 0.00
38 2 0.01
39 3 0.01
40 3 0.01
41 2 0.01
42 1 0.00
43 8 0.02
44 229 0.58
45 15 0.04
49 13 0.03
50 85 0.21
51 7 0.02
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (45 bp):
GATTTGTCAGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
Found at i:47615262 original size:35 final size:35
Alignment explanation
Indices: 47615216--47615287 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
47615206 TCCACTACAA
47615216 CTTCAGGGAGATAAGATTTGTAGCTTCAATCTACT
1 CTTCAGGGAGATAAGATTTGTAGCTTCAATCTACT
47615251 CTTCAGGGAGATAAGATTTGTAGCTTCAATCTACT
1 CTTCAGGGAGATAAGATTTGTAGCTTCAATCTACT
47615286 CT
1 CT
47615288 ACTGCAACTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (35 bp):
CTTCAGGGAGATAAGATTTGTAGCTTCAATCTACT
Found at i:47615390 original size:94 final size:94
Alignment explanation
Indices: 47615288--47615777 Score: 518
Period size: 94 Copynumber: 5.3 Consensus size: 94
47615278 AATCTACTCT
* * * *
47615288 ACTGCAACTTCAAGGAG-ATAAGATTTGTAGCTTTC-ATTTGCTCCACTGCAACTTTAAGGAGAT
1 ACTGCAACTTC-AGGAGTATAAGATTTGTCGC-TTCAATATGCTCCACTGCAACTTCAGGGAGAT
* *
47615351 AAAATTTGTTATGGTGACTTCAATCCAACCC
64 AAGATTTGCTATGGTGACTTCAATCCAACCC
* *
47615382 ACTGCAACTTTA-GAGGTATAGGATTTGTCGCTTCAATATGCTCCACTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAGGA-GTATAAGATTTGTCGCTTCAATATGCTCCACTGCAACTTCAGGGAGATA
**
47615446 AGATTTGC-A----G-CTTCAAT-CTGCTCC
65 AGATTTGCTATGGTGACTTCAATCCAAC-CC
* * * *
47615470 ACTGCAACTTCTGGGAG-ATAAGATTTGTAGCTTTC-ATCTGCTCTACTGCAACTTCAGGGAGAT
1 ACTGCAACTTC-AGGAGTATAAGATTTGTCGC-TTCAATATGCTCCACTGCAACTTCAGGGAGAT
* * *
47615533 AAGATTTTCTATGGTGGCTTCAATCTAACCC
64 AAGATTTGCTATGGTGACTTCAATCCAACCC
* * * *
47615564 ACTGTAACTTCAGAAGTATAGGATTTGTCGCTTCAATATGTTCCACTGCAACTTCAGGGAGATAA
1 ACTGCAACTTCAGGAGTATAAGATTTGTCGCTTCAATATGCTCCACTGCAACTTCAGGGAGATAA
* **
47615629 GATTTGCTATGGTGGCTTCAATCTGACCC
66 GATTTGCTATGGTGACTTCAATCCAACCC
* * * * * *
47615658 ACTGCAACTTCAGAAGTATAGGATTTGTCGCTTCTATCTGCTCCACTGCAACTTCAGGGAGTTAG
1 ACTGCAACTTCAGGAGTATAAGATTTGTCGCTTCAATATGCTCCACTGCAACTTCAGGGAGATAA
* * *
47615723 GATTCGCTATGGTGACTTCAATCCGACCT
66 GATTTGCTATGGTGACTTCAATCCAACCC
* * *
47615752 ATTACAACTTCAGGGGTATAAGATTT
1 ACTGCAACTTCAGGAGTATAAGATTT
47615778 TTGGTTTCAC
Statistics
Matches: 335, Mismatches: 45, Indels: 32
0.81 0.11 0.08
Matches are distributed among these distances:
87 2 0.01
88 65 0.19
89 6 0.02
90 2 0.01
92 2 0.01
93 13 0.04
94 244 0.73
95 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (94 bp):
ACTGCAACTTCAGGAGTATAAGATTTGTCGCTTCAATATGCTCCACTGCAACTTCAGGGAGATAA
GATTTGCTATGGTGACTTCAATCCAACCC
Done.