Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold409
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: 3905031
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 9 of 25
Found at i:1287298 original size:42 final size:42
Alignment explanation
Indices: 1286794--1287300 Score: 330
Period size: 42 Copynumber: 11.8 Consensus size: 42
1286784 CAACTTTGAT
** * * * *
1286794 ACTTCCTTACACTCAAGTCTGCCTATCGGCTTTAACCCTGAAG
1 ACTTCCTTAC-CTTTAGTCTGCCTGTCGGCTTTGACCTTGGAG
* * * **
1286837 ACTTCATTACCTTTACTTTGCCCATCGGCTTTGACCTTGGAG
1 ACTTCCTTACCTTTAGTCTGCCTGTCGGCTTTGACCTTGGAG
* * *
1286879 ACTTCATTACCTTTAGTCTGCCTATCGGCTTTGACCTTAGAG
1 ACTTCCTTACCTTTAGTCTGCCTGTCGGCTTTGACCTTGGAG
* * * * * * ** *
1286921 GCTTCCTTACCTTTAGTCTTCCTGTCAGTTTTCACCCTAAAA
1 ACTTCCTTACCTTTAGTCTGCCTGTCGGCTTTGACCTTGGAG
* * * * * * *
1286963 ACTTCATTATCTTAAGTCTGCTTGTCGACTTTCACCCTGGAG
1 ACTTCCTTACCTTTAGTCTGCCTGTCGGCTTTGACCTTGGAG
* * * * *
1287005 ATTTCCTTACCTTTAGTTTGCCTATCGACTTTGACCTTGAAG
1 ACTTCCTTACCTTTAGTCTGCCTGTCGGCTTTGACCTTGGAG
** * * *
1287047 ACTTTTTTACCTTCTTAGTCTACCTGTCGGCTTTTACCCTGGAG
1 ACTTCCTTACC-T-TTAGTCTGCCTGTCGGCTTTGACCTTGGAG
** * * * * *
1287091 ACTTCCTTACCCTCAAGTCTGCCTATTGACTTTGACCCTAGAG
1 ACTTCCTTA-CCTTTAGTCTGCCTGTCGGCTTTGACCTTGGAG
* * * *
1287134 ACTTCTTTACCTTTAGTCTGTCTGTCGTCTTTGACCTTAGAG
1 ACTTCCTTACCTTTAGTCTGCCTGTCGGCTTTGACCTTGGAG
* ** *
1287176 ACTTTCTTACCTTTAGTCTGCCTGTTAGCTTTGACCCTGGAGCTAGAG
1 ACTTCCTTACCTTTAGTCTGCCTGTCGGCTTTGA-CCT-----TGGAG
* ** ** * *
1287224 AGTTTTTTACCCTCAAGTTTGCCTGTCAGCTTTGACCTTGGAG
1 ACTTCCTTA-CCTTTAGTCTGCCTGTCGGCTTTGACCTTGGAG
** *
1287267 ACTTCCTTACCTCAAGTCTGCATGTCGGCTTTGA
1 ACTTCCTTACCTTTAGTCTGCCTGTCGGCTTTGA
1287301 TCTCATTTCT
Statistics
Matches: 362, Mismatches: 92, Indels: 21
0.76 0.19 0.04
Matches are distributed among these distances:
42 240 0.66
43 53 0.15
44 31 0.09
45 2 0.01
48 15 0.04
49 21 0.06
ACGTcount: A:0.18, C:0.27, G:0.16, T:0.38
Consensus pattern (42 bp):
ACTTCCTTACCTTTAGTCTGCCTGTCGGCTTTGACCTTGGAG
Found at i:1287811 original size:15 final size:15
Alignment explanation
Indices: 1287791--1287856 Score: 77
Period size: 15 Copynumber: 4.5 Consensus size: 15
1287781 ATTTGATATT
1287791 AATAAAAAATATAAA
1 AATAAAAAATATAAA
1287806 AATAAAATAATAT-AA
1 AATAAAA-AATATAAA
1287821 AATAAGAAAATATAAA
1 AATAA-AAAATATAAA
*
1287837 AAT--ATAA-ATAAA
1 AATAAAAAATATAAA
1287849 AATAAAAA
1 AATAAAAA
1287857 TAATGATAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
12 8 0.18
13 3 0.07
14 2 0.05
15 19 0.43
16 12 0.27
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (15 bp):
AATAAAAAATATAAA
Found at i:1287812 original size:6 final size:6
Alignment explanation
Indices: 1287796--1287859 Score: 51
Period size: 6 Copynumber: 10.3 Consensus size: 6
1287786 ATATTAATAA
* * *
1287796 AAAATAT AAAAAT AAAATAAT ATAAAAT -AAGA- AAATAT AAAAAT ATAAAT
1 AAAA-AT AAAAAT -AAA-AAT A-AAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1287846 AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AA
1287860 TGATAATTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
5 6 0.13
6 25 0.53
7 11 0.23
8 5 0.11
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.22
Consensus pattern (6 bp):
AAAAAT
Found at i:1287822 original size:23 final size:23
Alignment explanation
Indices: 1287790--1287865 Score: 72
Period size: 23 Copynumber: 3.3 Consensus size: 23
1287780 TATTTGATAT
*
1287790 TAATAAAAAATATAAAAATAAAA
1 TAATATAAAATATAAAAATAAAA
1287813 TAATATAAAATA-AGAAAATATAAA
1 TAATATAAAATATA-AAAATA-AAA
1287837 -AATAT--AA-ATAAAAATAAAAA
1 TAATATAAAATATAAAAAT-AAAA
1287857 TAATGATAA
1 TAAT-ATAA
1287866 TTAATTAATT
Statistics
Matches: 44, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
20 9 0.20
21 7 0.16
22 3 0.07
23 22 0.50
24 3 0.07
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (23 bp):
TAATATAAAATATAAAAATAAAA
Found at i:1287843 original size:18 final size:17
Alignment explanation
Indices: 1287792--1287858 Score: 77
Period size: 16 Copynumber: 4.1 Consensus size: 17
1287782 TTTGATATTA
1287792 ATAAAAAATATAAAAAT
1 ATAAAAAATATAAAAAT
*
1287809 A-AAATAATAT-AAAAT
1 ATAAAAAATATAAAAAT
*
1287824 A-AGAAAATATAAAAAT
1 ATAAAAAATATAAAAAT
*
1287840 ATAAATAAAAATAAAAAT
1 ATAAA-AAATATAAAAAT
1287858 A
1 A
1287859 ATGATAATTA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
15 13 0.31
16 14 0.33
17 3 0.07
18 12 0.29
ACGTcount: A:0.76, C:0.00, G:0.01, T:0.22
Consensus pattern (17 bp):
ATAAAAAATATAAAAAT
Found at i:1287854 original size:33 final size:30
Alignment explanation
Indices: 1287791--1287855 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 30
1287781 ATTTGATATT
*
1287791 AATAAAAAATATAAAAATAAAATAATATAA
1 AATAAAAAATATAAAAATAAAATAAAATAA
1287821 AATAAGAAAATATAAAAATATAAATAAAAATAA
1 AATAA-AAAATATAAAAATA-AAAT-AAAATAA
1287854 AA
1 AA
1287856 ATAATGATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 5 0.16
31 14 0.45
32 4 0.13
33 8 0.26
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.22
Consensus pattern (30 bp):
AATAAAAAATATAAAAATAAAATAAAATAA
Found at i:1291941 original size:90 final size:89
Alignment explanation
Indices: 1291776--1292153 Score: 312
Period size: 90 Copynumber: 4.2 Consensus size: 89
1291766 ATCAGGCTCC
* * * * * * * * *
1291776 AAAGGATATGACTATGAAATGTATGGGTTGCACCTTTGT-TGAAGGTATCAGGCTCTATAATGCA
1 AAAGGATATGATTAGGAAATGGATAGGCTACACCTTT-TCCGAAGGTATCAAGCTTTATAATGCA
* * *
1291840 TCAGTACCATCTAGGGGATGAAGGA
65 TCAATAACATCTAGTGGATGAAGGA
* * * * *
1291865 ATATGATATGGTTAGGAAATGGATAGGCTACACCTTTTCCCCAAGGTATCAAGCTTTCTAATGCA
1 AAAGGATATGATTAGGAAATGGATAGGCTACACCTTTT-CCGAAGGTATCAAGCTTTATAATGCA
* * *
1291930 TTAATAACATCTATTGGATGAAGAA
65 TCAATAACATCTAGTGGATGAAGGA
* * * * * *
1291955 AAAGGATATGATTGGGAAATGGAT-GGACTACACCCTTGCTGAAGGTATCAAGCTTTGTGATGCA
1 AAAGGATATGATTAGGAAATGGATAGG-CTACACCTTTTCCGAAGGTATCAAGCTTTATAATGCA
* *
1292019 TCAATATCATCTAGTGGATGAACGA
65 TCAATAACATCTAGTGGATGAAGGA
* ** * * *
1292044 AAAGGATATAAACCAGGAAATGGATAGGCTGCACCTTTGT-CGAAGGTATCAAGCTTTGTGATGC
1 AAAGGATAT-GATTAGGAAATGGATAGGCTACACCTTT-TCCGAAGGTATCAAGCTTTATAATGC
* * * * *
1292108 ACCAATATCATTTAGTGGATAAAAGA
64 ATCAATAACATCTAGTGGATGAAGGA
* * *
1292134 AACGGATATAACTAGGAAAT
1 AAAGGATATGATTAGGAAAT
1292154 TTATGGGCTA
Statistics
Matches: 234, Mismatches: 49, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
88 1 0.00
89 91 0.39
90 140 0.60
91 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.28
Consensus pattern (89 bp):
AAAGGATATGATTAGGAAATGGATAGGCTACACCTTTTCCGAAGGTATCAAGCTTTATAATGCAT
CAATAACATCTAGTGGATGAAGGA
Found at i:1292180 original size:90 final size:90
Alignment explanation
Indices: 1291878--1292215 Score: 308
Period size: 90 Copynumber: 3.8 Consensus size: 90
1291868 TGATATGGTT
* * * * * *
1291878 AGGAAATGGATAGGCTACACCTTTTCCCCAAGGTATCAAGCTTTCTAATGCATTAATAACATCTA
1 AGGAAATGGATAGGCTACACC-TTTGCCCAAGGTATCAAGCTTTGTGATGCATCAATATCATTTA
* * * **
1291943 TTGGAT-GAAGAAAAAGGATAT-GATT
65 GTGGATAAAAG-AAAAGGATATAAACC
* * ** *
1291968 GGGAAATGGAT-GGACTACACCCTTGCTGAAGGTATCAAGCTTTGTGATGCATCAATATCATCTA
1 AGGAAATGGATAGG-CTACACCTTTGCCCAAGGTATCAAGCTTTGTGATGCATCAATATCATTTA
* *
1292032 GTGGATGAACGAAAAGGATATAAACC
65 GTGGATAAAAGAAAAGGATATAAACC
* * * *
1292058 AGGAAATGGATAGGCTGCACCTTTGTCGAAGGTATCAAGCTTTGTGATGCACCAATATCATTTAG
1 AGGAAATGGATAGGCTACACCTTTGCCCAAGGTATCAAGCTTTGTGATGCATCAATATCATTTAG
* *
1292123 TGGATAAAAGAAACGGATAT-AACT
66 TGGATAAAAGAAAAGGATATAAACC
** * * * * * *
1292147 AGGAAATTTATGGGCTACA-TTCTTGCCCCAAGGTATTATGCTCTATGATGCATCAATATCATTT
1 AGGAAATGGATAGGCTACACCT-TTG-CCCAAGGTATCAAGCTTTGTGATGCATCAATATCATTT
1292211 AGTGG
64 AGTGG
1292216 TTGAGTGAAG
Statistics
Matches: 204, Mismatches: 38, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
88 1 0.00
89 73 0.36
90 128 0.63
91 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (90 bp):
AGGAAATGGATAGGCTACACCTTTGCCCAAGGTATCAAGCTTTGTGATGCATCAATATCATTTAG
TGGATAAAAGAAAAGGATATAAACC
Found at i:1292387 original size:89 final size:89
Alignment explanation
Indices: 1292192--1292710 Score: 516
Period size: 89 Copynumber: 5.8 Consensus size: 89
1292182 TTATGCTCTA
* * * * *
1292192 TGATGCATCAATATCATTTAGTGGTTGAGTGAA-GGGAATATGA-TTGGAAATGTGTGGGCTTCA
1 TGATGCATCAATACCATCTAGTGGTTGAATGAATGGG-ATATGACTAGG-AATGTGTGGGCTGCA
* * *
1292255 CCCTTGCCCTAAGAATAATTAAGCTTGG
64 -CCTTGCCCTAAGAA-AATCAGGCTTTG
* * ** *
1292283 TGATGCATCAATACCATATAGTGGTTGAATGAATGGGATATGACTAAGAATGCATAGGCTGCACC
1 TGATGCATCAATACCATCTAGTGGTTGAATGAATGGGATATGACTAGGAATGTGTGGGCTGCACC
*
1292348 TTACCCTAAGAAAATCAGGCTTTG
66 TTGCCCTAAGAAAATCAGGCTTTG
* * * * * *
1292372 TGATGCATCAGTACCATCTAGTGGTTGAAT-AAAGGGATTATGATTGGGAAGGTGTGGGCTGGAC
1 TGATGCATCAATACCATCTAGTGGTTGAATGAATGGGA-TATGACTAGGAATGTGTGGGCTGCAC
* * *
1292436 CTTGCCC-CAGTAAAATTAGGCTTTA
65 CTTGCCCTAAG-AAAATCAGGCTTTG
* * * *
1292461 TGATGCATCAATAGCATCTAGTAGTTAAATGAAAGGGGATATGACTAGGAATGTGTGGGCTGCAC
1 TGATGCATCAATACCATCTAGTGGTTGAATG-AATGGGATATGACTAGGAATGTGTGGGCTGCAC
1292526 CTTGGCCC-AAGAAAATCAGGCTTTG
65 CTT-GCCCTAAGAAAATCAGGCTTTG
* * * *
1292551 TAATGCATCAATATCATCTAGTGATTG-A-GAATGAGGGATATGACTAGGAATGTGTGGGTTGCA
1 TGATGCATCAATACCATCTAGTGGTTGAATGAAT--GGGATATGACTAGGAATGTGTGGGCTGCA
* * *
1292614 CCTTGGCCTAGGAAAATCAGGCTTTA
64 CCTTGCCCTAAGAAAATCAGGCTTTG
* * ** *
1292640 TGATGCATCAATACCATTTAGTGATTGGGAATG-A-GGGATATGACTAGGAATGTGTATGATGCA
1 TGATGCATCAATACCATCTAGTGGTT--GAATGAATGGGATATGACTAGGAATGTGTGGGCTGCA
1292703 CCTTGCCC
64 CCTTGCCC
1292711 CATTAATAGC
Statistics
Matches: 357, Mismatches: 57, Indels: 30
0.80 0.13 0.07
Matches are distributed among these distances:
87 2 0.01
88 12 0.03
89 203 0.57
90 72 0.20
91 60 0.17
92 7 0.02
93 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (89 bp):
TGATGCATCAATACCATCTAGTGGTTGAATGAATGGGATATGACTAGGAATGTGTGGGCTGCACC
TTGCCCTAAGAAAATCAGGCTTTG
Found at i:1292540 original size:179 final size:174
Alignment explanation
Indices: 1292192--1292712 Score: 553
Period size: 179 Copynumber: 2.9 Consensus size: 174
1292182 TTATGCTCTA
* * * * *
1292192 TGATGCATCAATATCATTTAGTGGTTGAGTGAAGGGAATATGATTGGAAATGTGTGGGCTTCACC
1 TGATGCATCAATATCATCTAGTGGTTGAATAAAGGG-ATATGATTGGGAATGTGTGGGCTGCA-C
* **
1292257 CTTGCCCTAAGAATAATTAAGCTTGGTGATGCATCAATACCATATAGTGGTTGAATGAATGGGAT
64 CTTGCCC-AAGAA-AATTAGGCTTTATGATGCATCAATACCATATAGT-GTTGAATGAA-GGGAT
* **
1292322 ATGACTAAGAATGCATAGGCTGCACCTT-ACCCTAAGAAAATCAGGCTTTG
125 ATGACTAGGAATGTGTAGGCTGCACCTTGACCC-AAGAAAATCAGGCTTTG
* * * *
1292372 TGATGCATCAGTACCATCTAGTGGTTGAATAAAGGGATTATGATTGGGAAGGTGTGGGCTGGACC
1 TGATGCATCAATATCATCTAGTGGTTGAATAAAGGGA-TATGATTGGGAATGTGTGGGCTGCACC
* * * *
1292437 TTGCCCCAGTAAAATTAGGCTTTATGATGCATCAATAGCATCTAGTAGTTAAATGAAAGGGGATA
65 TTGCCCAAG-AAAATTAGGCTTTATGATGCATCAATACCATATAGT-GTTGAATG-AA-GGGATA
* *
1292502 TGACTAGGAATGTGTGGGCTGCACCTTGGCCCAAGAAAATCAGGCTTTG
126 TGACTAGGAATGTGTAGGCTGCACCTTGACCCAAGAAAATCAGGCTTTG
* * * * * *
1292551 TAATGCATCAATATCATCTAGTGATTGAGA-ATGAGGGATATGACTAGGAATGTGTGGGTTGCAC
1 TGATGCATCAATATCATCTAGTGGTTGA-ATA-AAGGGATATGATTGGGAATGTGTGGGCTGCAC
* * * *
1292615 CTTGGCCTAGGAAAATCAGGCTTTATGATGCATCAATACCATTTAGTGATTGGGAATG-AGGGAT
64 CTT-GCCCAAGAAAATTAGGCTTTATGATGCATCAATACCATATAGTG-TT--GAATGAAGGGAT
* * *
1292679 ATGACTAGGAATGTGTATGATGCACCTTGCCCCA
125 ATGACTAGGAATGTGTAGGCTGCACCTTGACCCA
1292713 TTAATAGCTA
Statistics
Matches: 287, Mismatches: 44, Indels: 22
0.81 0.12 0.06
Matches are distributed among these distances:
178 74 0.26
179 144 0.50
180 65 0.23
181 4 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (174 bp):
TGATGCATCAATATCATCTAGTGGTTGAATAAAGGGATATGATTGGGAATGTGTGGGCTGCACCT
TGCCCAAGAAAATTAGGCTTTATGATGCATCAATACCATATAGTGTTGAATGAAGGGATATGACT
AGGAATGTGTAGGCTGCACCTTGACCCAAGAAAATCAGGCTTTG
Found at i:1292708 original size:268 final size:269
Alignment explanation
Indices: 1292181--1292712 Score: 612
Period size: 268 Copynumber: 2.0 Consensus size: 269
1292171 GCCCCAAGGT
* * * * * * *
1292181 ATTATGCTCTATGATGCATCAATATCATTTAGTGGTTGAGTGAAGGGAATATGATTGGAAATGTG
1 ATTAGGCTCTATGATGCATCAATAGCATCTAGTAGTTAAATGAAGGGAATATGATAGGAAATGTG
* * * *
1292246 TGGGCTTCACCCTTGCCCTAAGAATAATTAAGCTTGGTGATGCATCAATACCATATAGTGGTTGA
66 TGGGCTGCACCCTTGCCCTAAGAATAATCAAGCTTGGTAATGCATCAATACCATATAGTGATTGA
*
1292311 ATGAATGGGATATGACTAAGAATGCATAGGCTGCACCTTACCCTAAGAAAATCAGGCTTTGTGAT
131 ATGAATGGGATATGACTAAGAATGCATAGGCTGCACCTTACCCTAAGAAAATCAGGCTTTATGAT
* * * * * * *
1292376 GCATCAGTACCATCTAGTGGTTGAATAAAGGGATTATGATTGGGAAGGTGTGGGCTGGACCTTGC
196 GCATCAATACCATCTAGTGATTGAATAAAGGGATTATGACTAGGAAGGTGTAGGATGCACCTTGC
1292441 CCCAGTAAA
261 CCCAGTAAA
* *
1292450 ATTAGGCTTTATGATGCATCAATAGCATCTAGTAGTTAAATGAAAGGGGATATGACTAGG-AATG
1 ATTAGGCTCTATGATGCATCAATAGCATCTAGTAGTTAAATG-AAGGGAATATGA-TAGGAAATG
* * * *
1292514 TGTGGGCTGCA-CCTTGGCCC-AAGAA-AATCAGGCTTTGTAATGCATCAATATCATCTAGTGAT
64 TGTGGGCTGCACCCTT-GCCCTAAGAATAATCAAGCTTGGTAATGCATCAATACCATATAGTGAT
* ** * * ** *
1292576 TG-A-GAATGAGGGATATGACTAGGAATGTGTGGGTTGCACCTTGGCCTAGGAAAATCAGGCTTT
128 TGAATGAAT--GGGATATGACTAAGAATGCATAGGCTGCACCTTACCCTAAGAAAATCAGGCTTT
* * * *
1292639 ATGATGCATCAATACCATTTAGTGATTGGGAAT-GAGGGA-TATGACTAGGAATGTGTATGATGC
191 ATGATGCATCAATACCATCTAGTGATT--GAATAAAGGGATTATGACTAGGAAGGTGTAGGATGC
1292702 ACCTTGCCCCA
254 ACCTTGCCCCA
1292713 TTAATAGCTA
Statistics
Matches: 219, Mismatches: 37, Indels: 15
0.81 0.14 0.06
Matches are distributed among these distances:
266 4 0.02
267 1 0.00
268 129 0.59
269 49 0.22
270 33 0.15
271 3 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (269 bp):
ATTAGGCTCTATGATGCATCAATAGCATCTAGTAGTTAAATGAAGGGAATATGATAGGAAATGTG
TGGGCTGCACCCTTGCCCTAAGAATAATCAAGCTTGGTAATGCATCAATACCATATAGTGATTGA
ATGAATGGGATATGACTAAGAATGCATAGGCTGCACCTTACCCTAAGAAAATCAGGCTTTATGAT
GCATCAATACCATCTAGTGATTGAATAAAGGGATTATGACTAGGAAGGTGTAGGATGCACCTTGC
CCCAGTAAA
Found at i:1293210 original size:88 final size:87
Alignment explanation
Indices: 1293028--1293199 Score: 211
Period size: 88 Copynumber: 1.9 Consensus size: 87
1293018 GTAGATATGC
* *
1293028 GTGAAACAATGCAAATGCAAGCATAAAAAAATGTGGCAAATGCCTATGAAATGATGCAAATACCA
1 GTGAAACAATGCAAATGCAAGCATAAAAAAA-GTAGCAAATGCATATGAAATGATGCAAATACCA
**
1293093 ATGTCATGTAAAATGCAAATATAG
65 ATGTCATAAAAAATG-AAATATAG
* * * *
1293117 GTGAAACAATGCAAATGCAAGCATCAATAAAA-TAGCTAATGCATATGAAATGATGCAAATGCGA
1 GTGAAACAATGCAAATGCAAGCAT-AAAAAAAGTAGCAAATGCATATGAAATGATGCAAATACCA
*
1293181 ATGTTATCAAAACAATGAA
65 ATGTCAT-AAAA-AATGAA
1293200 TGTGTGTGAA
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
88 33 0.46
89 28 0.39
90 10 0.14
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (87 bp):
GTGAAACAATGCAAATGCAAGCATAAAAAAAGTAGCAAATGCATATGAAATGATGCAAATACCAA
TGTCATAAAAAATGAAATATAG
Found at i:1293466 original size:88 final size:88
Alignment explanation
Indices: 1293308--1293469 Score: 200
Period size: 88 Copynumber: 1.8 Consensus size: 88
1293298 CAAATAAAGT
* * * **
1293308 GGCAAAAGCATATTAAATGATGCAAATTCCAATGTTATCTAAAATGCAAATGCATGTAAAATGAT
1 GGCAAAAGCATATTAAATGATGCAAATACCAATGTGATCTAAAATGCAAATGCAAGTAAAACAAT
1293373 ACAAATGCAGGCATCAGCAAAAA
66 ACAAATGCAGGCATCAGCAAAAA
* * * * * *
1293396 GGCAAATGCATATGT-AATGATGCAAATACCATTGTGATCTAAAATGCAAGTGTAAGTGAGACAA
1 GGCAAAAGCATAT-TAAATGATGCAAATACCAATGTGATCTAAAATGCAAATGCAAGTAAAACAA
*
1293460 TGCAAATGCA
65 TACAAATGCA
1293470 ATCATCAATA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
88 60 0.98
89 1 0.02
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.23
Consensus pattern (88 bp):
GGCAAAAGCATATTAAATGATGCAAATACCAATGTGATCTAAAATGCAAATGCAAGTAAAACAAT
ACAAATGCAGGCATCAGCAAAAA
Found at i:1294970 original size:13 final size:12
Alignment explanation
Indices: 1294952--1294986 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
1294942 TGCATTTGAA
1294952 TTTTCTTTTTTT
1 TTTTCTTTTTTT
1294964 CTTTTCTTTTTTT
1 -TTTTCTTTTTTT
*
1294977 TTCTCTTTTT
1 TTTTCTTTTT
1294987 GTTGTTTGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTCTTTTTTT
Found at i:1296673 original size:28 final size:27
Alignment explanation
Indices: 1296606--1296677 Score: 78
Period size: 25 Copynumber: 2.7 Consensus size: 27
1296596 TCAAAAAGAG
* *
1296606 GCAGGGTTGGAGTGTCCCCTCGGAATA
1 GCAGGGTTGGAGTATCCCCTCGAAATA
*
1296633 -C-GAGGTT-GAGTATCCCCTTGAAAATA
1 GCAG-GGTTGGAGTATCCCCTCG-AAATA
1296659 GCAGGGTTGGAGTATCCCC
1 GCAGGGTTGGAGTATCCCC
1296678 GTGATGAAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
25 12 0.32
26 9 0.24
27 5 0.14
28 11 0.30
ACGTcount: A:0.22, C:0.22, G:0.32, T:0.24
Consensus pattern (27 bp):
GCAGGGTTGGAGTATCCCCTCGAAATA
Found at i:1296931 original size:158 final size:158
Alignment explanation
Indices: 1296662--1296947 Score: 423
Period size: 158 Copynumber: 1.8 Consensus size: 158
1296652 GAAAATAGCA
* *
1296662 GGGTTGGAGTATCCCCGTGATGAAGAATTTAATATTTTGACCATAAAAACGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGTGATGAAGAATTTAATATTTTGACAATAAAAACGGGGTTGAAGTATCC
*** * *
1296727 TCTTGGAATTAATGCAGTTATAGTATTCCTAAGATGAAAATTTTAATATTTTAAAAATAAAAATA
66 TCTCAAAATTAATGCAGTTAGAGTATTCCCAAGATGAAAATTTTAATATTTTAAAAATAAAAATA
1296792 AGATTGGAATATCCATTCAAAAATAATG
131 AGATTGGAATATCCATTCAAAAATAATG
* *
1296820 GGGTTGGAGTATCCTCGTGATGAAGAATTTAATATTTTGGA-AATAAAAATGGGGTTGAAGTATC
1 GGGTTGGAGTATCCCCGTGATGAAGAATTTAATATTTT-GACAATAAAAACGGGGTTGAAGTATC
* ** *
1296884 GC-CTCAAAATTGATGGGGTTGGAGTATTCCCAAGATGAAAATTTTAATATTTTAAAAATAAAAA
65 -CTCTCAAAATTAATGCAGTTAGAGTATTCCCAAGATGAAAATTTTAATATTTTAAAAATAAAAA
1296948 CGGGGTTGGA
Statistics
Matches: 113, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
158 110 0.97
159 3 0.03
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.33
Consensus pattern (158 bp):
GGGTTGGAGTATCCCCGTGATGAAGAATTTAATATTTTGACAATAAAAACGGGGTTGAAGTATCC
TCTCAAAATTAATGCAGTTAGAGTATTCCCAAGATGAAAATTTTAATATTTTAAAAATAAAAATA
AGATTGGAATATCCATTCAAAAATAATG
Found at i:1296957 original size:158 final size:158
Alignment explanation
Indices: 1296653--1296989 Score: 417
Period size: 158 Copynumber: 2.1 Consensus size: 158
1296643 TATCCCCTTG
* * *
1296653 AAAATAGCAGGGTTGGAGTATCCCCGTGATGAAGAATTTAATATTTTGACCATAAAAACGGGGTT
1 AAAATAACGGGGTTGGAGTATCCCCGTGATGAAGAATTTAATATTTTGACAATAAAAACGGGGTT
* *** * *
1296718 GGAGTATCCTCTTGGAATTAATGCAGTTATAGTATTCCTAAGATGAAAATTTTAATATTTTAAAA
66 GAAGTATCCTCTCAAAATTAATGCAGTTAGAGTATTCCCAAGATGAAAATTTTAATATTTTAAAA
* * *
1296783 ATAAAAATAAGATTGGAATATCCATTCA
131 ATAAAAACAAGATTGGAATATACAGTCA
* * *
1296811 AAAATAATGGGGTTGGAGTATCCTCGTGATGAAGAATTTAATATTTTGGA-AATAAAAATGGGGT
1 AAAATAACGGGGTTGGAGTATCCCCGTGATGAAGAATTTAATATTTT-GACAATAAAAACGGGGT
* ** *
1296875 TGAAGTATCGC-CTCAAAATTGATGGGGTTGGAGTATTCCCAAGATGAAAATTTTAATATTTTAA
65 TGAAGTATC-CTCTCAAAATTAATGCAGTTAGAGTATTCCCAAGATGAAAATTTTAATATTTTAA
** * * * *
1296939 AAATAAAAACGGGGTTGGAGTATATAGTCG
129 AAATAAAAACAAGATTGGAATATACAGTCA
1296969 AAAATAACGGGGTTGGAGTAT
1 AAAATAACGGGGTTGGAGTAT
1296990 ATAGTCGAAA
Statistics
Matches: 151, Mismatches: 26, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
158 148 0.98
159 3 0.02
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (158 bp):
AAAATAACGGGGTTGGAGTATCCCCGTGATGAAGAATTTAATATTTTGACAATAAAAACGGGGTT
GAAGTATCCTCTCAAAATTAATGCAGTTAGAGTATTCCCAAGATGAAAATTTTAATATTTTAAAA
ATAAAAACAAGATTGGAATATACAGTCA
Found at i:1296981 original size:28 final size:28
Alignment explanation
Indices: 1296946--1297017 Score: 144
Period size: 28 Copynumber: 2.6 Consensus size: 28
1296936 TAAAAATAAA
1296946 AACGGGGTTGGAGTATATAGTCGAAAAT
1 AACGGGGTTGGAGTATATAGTCGAAAAT
1296974 AACGGGGTTGGAGTATATAGTCGAAAAT
1 AACGGGGTTGGAGTATATAGTCGAAAAT
1297002 AACGGGGTTGGAGTAT
1 AACGGGGTTGGAGTAT
1297018 CCGTGCAATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.33, C:0.07, G:0.35, T:0.25
Consensus pattern (28 bp):
AACGGGGTTGGAGTATATAGTCGAAAAT
Found at i:1296981 original size:79 final size:78
Alignment explanation
Indices: 1296662--1296989 Score: 268
Period size: 79 Copynumber: 4.2 Consensus size: 78
1296652 GAAAATAGCA
* ** * ** *
1296662 GGGTTGGAGTATCCCCGTGATGAAGAA-TTTAATATTTTGACCATAAAAACGGGGTTGGAGTATC
1 GGGTTGGAGTATTCCCAAGATGAA-AATTTTAATATTTTAAAAATAAAAATGGGGTTGGAGTATC
* ** *
1296726 CTCTTGGAATTAATG
65 CAC-TCAAAATAATG
** ** * ** * *
1296741 CAGTTATAGTATTCCTAAGATGAAAATTTTAATATTTTAAAAATAAAAATAAGATTGGAATATCC
1 GGGTTGGAGTATTCCCAAGATGAAAATTTTAATATTTTAAAAATAAAAATGGGGTTGGAGTATCC
*
1296806 ATTCAAAAATAATG
66 ACTC-AAAATAATG
** ** *
1296820 GGGTTGGAGTA-TCCTCGTGATGAAGAA-TTTAATATTTTGGAAATAAAAATGGGGTTGAAGTAT
1 GGGTTGGAGTATTCC-CAAGATGAA-AATTTTAATATTTTAAAAATAAAAATGGGGTTGGAGTAT
*
1296883 CGC-CTCAAAATTGATG
64 C-CACTCAAAA-TAATG
* **
1296899 GGGTTGGAGTATTCCCAAGATGAAAATTTTAATATTTTAAAAATAAAAACGGGGTTGGAGTATAT
1 GGGTTGGAGTATTCCCAAGATGAAAATTTTAATATTTTAAAAATAAAAATGGGGTTGGAGTATCC
* *
1296964 AGTCGAAAATAACG
66 ACTC-AAAATAATG
1296978 GGGTTGGAGTAT
1 GGGTTGGAGTAT
1296990 ATAGTCGAAA
Statistics
Matches: 191, Mismatches: 48, Indels: 20
0.74 0.19 0.08
Matches are distributed among these distances:
78 12 0.06
79 169 0.88
80 10 0.05
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.32
Consensus pattern (78 bp):
GGGTTGGAGTATTCCCAAGATGAAAATTTTAATATTTTAAAAATAAAAATGGGGTTGGAGTATCC
ACTCAAAATAATG
Found at i:1297988 original size:62 final size:62
Alignment explanation
Indices: 1297890--1298047 Score: 203
Period size: 62 Copynumber: 2.5 Consensus size: 62
1297880 GCTACTATTT
* ** *
1297890 GAGGACTGAAAAGTGCCACCAACTCGTGTTAGCTTTAAAAGGA-AAAAGGCATCCTGCTCTTT
1 GAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGAGAAAA-GCATCCTGCTCTTC
* *
1297952 TAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGAGAAAAGCATCTTGCTCTTC
1 GAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGAGAAAAGCATCCTGCTCTTC
* * *
1298014 GAGGACTGACATA-TGCCACCAACTCATGTGGGCT
1 GAGGACT-AAAAAGTGCCACCAACTCGTGTGGGCT
1298048 AAAAGGTGCC
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
62 77 0.92
63 7 0.08
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.23
Consensus pattern (62 bp):
GAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGAGAAAAGCATCCTGCTCTTC
Found at i:1298108 original size:89 final size:89
Alignment explanation
Indices: 1297957--1298136 Score: 236
Period size: 89 Copynumber: 2.0 Consensus size: 89
1297947 TCTTTTAGGA
* * * *
1297957 CTAAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGAGAAAAGCATCTTGCTCTTCGAGGACTG
1 CTAAAAAGTGCCACCAAATCGTGTGGCCTTTAAAAAGAGAAAAGCATCCTGCTCTTCGAGGACTG
* *
1298022 ACATATGCCACCAACTCATGTGGG
66 AAAGATGCCACCAACTCATGTGGG
* * *
1298046 CTAAAAGGTGCCACCAAATCTTGTGGCCTTTAAAAAGA-AAAAGGCATCCTGCTCTTTGAGGACT
1 CTAAAAAGTGCCACCAAATCGTGTGGCCTTTAAAAAGAGAAAA-GCATCCTGCTCTTCGAGGACT
* * *
1298110 GAAAGGTGCTACCAACTCGTGTGGG
65 GAAAGATGCCACCAACTCATGTGGG
1298135 CT
1 CT
1298137 TTGAAAAGAA
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
88 4 0.05
89 74 0.95
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (89 bp):
CTAAAAAGTGCCACCAAATCGTGTGGCCTTTAAAAAGAGAAAAGCATCCTGCTCTTCGAGGACTG
AAAGATGCCACCAACTCATGTGGG
Found at i:1298146 original size:62 final size:61
Alignment explanation
Indices: 1298046--1298450 Score: 398
Period size: 62 Copynumber: 6.5 Consensus size: 61
1298036 CTCATGTGGG
* * *
1298046 CTAAAAGGTGCCACCAAATCTTGTGGCCTTTAAAAAGAAAAAGGCATCCTGCTCTTTGAGGA
1 CTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGCATCCTGCTCTTTGAGGA
* * **
1298108 CTGAAAGGTGCTACCAACTCGTGTGGGCTTTGAAAAGAAAAAAAGGTGTCCTGCTCTTTGAGGA
1 CTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAG--AAAAAGGCATCCTGCTCTTTGAGGA
* * *
1298172 TTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCTTGCTCTTTGAGGA
1 CTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGCATCCTGCTCTTTGAGGA
* * * * ** * * *
1298234 CTGAAAGATACTACCAACTTATGTGGGCTTTGAAAAGAAAAA-GCTGTTCTGCCCTTTGAGGA
1 CTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGC-ATCCTGCTCTTTGAGGA
* * * * *** *
1298296 CTAAAAGGTGCCACTAACTTGTTTGAGCTTTGAAAAGAAAAAAAAATCCTACTCTTTGAGGA
1 CTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGGCATCCTGCTCTTTGAGGA
** * * * * *
1298358 CTAAAAGGTGTTAGCAACTCGTATGGGCTTTAGAAAGAAAAAGGCGTCCTGCTTTTTGGGGA
1 CTAAAAGGTGCCACCAACTCGTGTGGGCTTTA-AAAGAAAAAGGCATCCTGCTCTTTGAGGA
* *
1298420 CTAAAAAGTGCCACCAAATCGTGTGGGCTTT
1 CTAAAAGGTGCCACCAACTCGTGTGGGCTTT
1298451 GAACTACTCT
Statistics
Matches: 281, Mismatches: 57, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
61 3 0.01
62 220 0.78
64 58 0.21
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (61 bp):
CTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGGCATCCTGCTCTTTGAGGA
Found at i:1298274 original size:126 final size:124
Alignment explanation
Indices: 1298046--1299172 Score: 647
Period size: 124 Copynumber: 9.1 Consensus size: 124
1298036 CTCATGTGGG
* * *
1298046 CTAAAAGGTGCCACCAAATCTTGTGGCCTTTAAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTG
1 CTAAAAGGTGCCACCAAATCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTG
1298111 AAAGGTGCTACCAACTCGTGTGGGCTTTGAAAAGAAAAAAAGGTGTCCTGCTCTTTGAGGA
66 AAAGGTGCTACCAACTCGTGTGGGCTTTGAAAAG--AAAAAGGTGTCCTGCTCTTTGAGGA
* * * *
1298172 TTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCATCTTGCTCTTTGAGGACTG
1 CTAAAAGGTGCCACCAAATCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTG
* * ** * * *
1298237 AAAGATACTACCAACTTATGTGGGCTTTGAAAAGAAAAAGCTGTTCTGCCCTTTGAGGA
66 AAAGGTGCTACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCTTTGAGGA
* * * * * *** * *
1298296 CTAAAAGGTGCCACTAACTTGTTTGAGCTTTGAAAAGAAAAAAAAATCCTACTCTTTGAGGACTA
1 CTAAAAGGTGCCACCAAATCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTG
* * * * * *
1298361 AAAGGTGTTAGCAACTCGTATGGGCTTT-AGAAAGAAAAAGGCGTCCTGCTTTTTGGGGA
66 AAAGGTGCTACCAACTCGTGTGGGCTTTGA-AAAGAAAAAGGTGTCCTGCTCTTTGAGGA
* *** *
1298420 CTAAAAAGTGCCACCAAATCGTGTGGGCTTTGAACTACTCTTTGAGGACTAAAAGGTGCCACTAA
1 CTAAAAGGTGCCACCAAATCGTGTGGGCTTTGAA--A-------A-GA--AAAAGGCATC-CT-G
* * * * * **
1298485 CTCGTGTG-GG-CTTTG-AA----CTA-C-TCT-TTGAGGAC--T-AAAAGGTGCCACTAACTCG
52 CTC-TTTGAGGAC--TGAAAGGTGCTACCAACTCGTGTGGGCTTTGAAAA---G--A--AA-AAG
* *
1298537 TGTGGGCTTTGAACTACTCTTTGAGGA
106 -GT--G---T--CCTGCTCTTTGAGGA
* ** * * * ** * * * *
1298564 CTCAAAGGTGCCAGTAACTCGTGTGAGCTTTAAAAAGAAAAAGGTGTCCT-TTTTTTTAGGACTA
1 CTAAAAGGTGCCACCAAATCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTG
* * * * *
1298628 AAAGGTGCCACCAACGCGTGTGGGCTTTAAAAAGAAAAAGGTGTCCT-TTTTTTGAGGA
66 AAAGGTGCTACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCTTTGAGGA
* * * * *
1298686 CTAAAAGGTGCCACCAACGT-GTGTGGGCTTTGAATAGAAAAAGGCGTCCTACTCTTTAAGGACT
1 CTAAAAGGTGCCACCAA-ATCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACT
* ** * * ** * *
1298750 AAAAGGTGCCGCCAACTTGTGTGGGCTTT-AGAAACAAAAAGGCATCCTCCTCTTTAAGGA
65 GAAAGGTGCTACCAACTCGTGTGGGCTTTGA-AAAGAAAAAGGTGTCCTGCTCTTTGAGGA
* * * * *
1298810 CTAAAAGGTGCCACCAACTCATGTGTGCTTT-AAAAGAAAAAGGCGTCCTGCTCTTTAAGGACT-
1 CTAAAAGGTGCCACCAAATCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTG
* * * * **
1298873 AAAGGGTGCCACCTACTCATGTGGGCTTT-AAAA-AAAAATGCATCCTGCTCTTTGAGGA
66 AAA-GGTGCTACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCTTTGAGGA
* * * * * * **
1298931 CTTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAA---A---AGCTCGTTGAGGACAA
1 CTAAAAGGTGCCACCAAATCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTG
* * * * *
1298990 AAAGATGCCACCAACTCGTGTGGGCTTTAAAAAG-AAAA-GAG-ACT--T-TTTGAGGA
66 AAAGGTGCTACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCTTTGAGGA
* * * * * *
1299043 CTAAAAGGTGCCACCAACTTGTATGGGCTTT-AAAAGAAAAAGGCATCCTACTCTTTGAGGATTA
1 CTAAAAGGTGCCACCAAATCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTG
* * *
1299107 AAAGGTG-TCACCAACTCGTGTGGGCTTT-AAAACAAAAA-GTCATCCTACTCTTTGAGGA
66 AAAGGTGCT-ACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGT-GTCCTGCTCTTTGAGGA
1299165 CTAAAAGG
1 CTAAAAGG
1299173 AGAAAAAGGG
Statistics
Matches: 782, Mismatches: 149, Indels: 144
0.73 0.14 0.13
Matches are distributed among these distances:
111 10 0.01
112 37 0.05
113 1 0.00
114 1 0.00
115 2 0.00
116 38 0.05
117 52 0.07
119 2 0.00
121 50 0.06
122 82 0.10
123 107 0.14
124 181 0.23
125 1 0.00
126 89 0.11
128 7 0.01
129 7 0.01
130 3 0.00
131 8 0.01
132 13 0.02
133 5 0.01
134 8 0.01
135 4 0.01
136 12 0.02
137 4 0.01
138 9 0.01
139 9 0.01
142 2 0.00
144 38 0.05
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (124 bp):
CTAAAAGGTGCCACCAAATCGTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTG
AAAGGTGCTACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCTCTTTGAGGA
Found at i:1298490 original size:48 final size:48
Alignment explanation
Indices: 1298412--1298594 Score: 303
Period size: 48 Copynumber: 3.8 Consensus size: 48
1298402 CGTCCTGCTT
* * * *
1298412 TTTGGGGACTAAAAAGTGCCACCAAATCGTGTGGGCTTTGAACTACTC
1 TTTGAGGACTAAAAGGTGCCACTAACTCGTGTGGGCTTTGAACTACTC
1298460 TTTGAGGACTAAAAGGTGCCACTAACTCGTGTGGGCTTTGAACTACTC
1 TTTGAGGACTAAAAGGTGCCACTAACTCGTGTGGGCTTTGAACTACTC
1298508 TTTGAGGACTAAAAGGTGCCACTAACTCGTGTGGGCTTTGAACTACTC
1 TTTGAGGACTAAAAGGTGCCACTAACTCGTGTGGGCTTTGAACTACTC
* * *
1298556 TTTGAGGACTCAAAGGTGCCAGTAACTCGTGTGAGCTTT
1 TTTGAGGACTAAAAGGTGCCACTAACTCGTGTGGGCTTT
1298595 AAAAAGAAAA
Statistics
Matches: 128, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 128 1.00
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (48 bp):
TTTGAGGACTAAAAGGTGCCACTAACTCGTGTGGGCTTTGAACTACTC
Found at i:1298655 original size:61 final size:62
Alignment explanation
Indices: 1298550--1299172 Score: 656
Period size: 61 Copynumber: 10.4 Consensus size: 62
1298540 GGGCTTTGAA
* ** * *
1298550 CTACTCTTTGAGGACTCAAAGGTGCCAGTAACTCGTGTGAGCTTTAAAAAGAAAAAGGTGTC
1 CTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTC
* * * * *
1298612 CT-TTTTTTTAGGACTAAAAGGTGCCACCAACGCGTGTGGGCTTTAAAAAGAAAAAGGTGTC
1 CTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTC
* * * *
1298673 CT-TTTTTTGAGGACTAAAAGGTGCCACCAACGT-GTGTGGGCTTTGAATAGAAAAAGGCGTC
1 CTACTCTTTGAGGACTAAAAGGTGCCACCAAC-TCGTGTGGGCTTTAAAAAGAAAAAGGCGTC
* * * * * *
1298734 CTACTCTTTAAGGACTAAAAGGTGCCGCCAACTTGTGTGGGCTTTAGAAACAAAAAGGCATC
1 CTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTC
* * * *
1298796 CTCCTCTTTAAGGACTAAAAGGTGCCACCAACTCATGTGTGCTTT-AAAAGAAAAAGGCGTC
1 CTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTC
* * * * * * *
1298857 CTGCTCTTTAAGGACTAAAGGGTGCCACCTACTCATGTGGGCTTT-AAAA-AAAAATGCATC
1 CTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTC
* * * **
1298917 CTGCTCTTTGAGGACTTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAA-AAG--
1 CTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTC
* * * *
1298976 ---CTCGTTGAGGACAAAAAGATGCCACCAACTCGTGTGGGCTTTAAAAAG-AAAA-GAG--
1 CTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTC
* * * *
1299031 --ACTTTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTT-AAAAGAAAAAGGCATC
1 CTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTC
* * * * *
1299090 CTACTCTTTGAGGATTAAAAGGTGTCACCAACTCGTGTGGGCTTT-AAAACAAAAAGTCATC
1 CTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTC
1299151 CTACTCTTTGAGGACTAAAAGG
1 CTACTCTTTGAGGACTAAAAGG
1299173 AGAAAAAGGG
Statistics
Matches: 482, Mismatches: 67, Indels: 25
0.84 0.12 0.04
Matches are distributed among these distances:
55 11 0.02
56 83 0.17
57 1 0.00
60 48 0.10
61 244 0.51
62 95 0.20
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (62 bp):
CTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTC
Found at i:1298848 original size:123 final size:120
Alignment explanation
Indices: 1298553--1299172 Score: 672
Period size: 123 Copynumber: 5.2 Consensus size: 120
1298543 CTTTGAACTA
* ** * * * *
1298553 CTCTTTGAGGACTCAAAGGTGCCAGTAACTCGTGTGAGCTTTAAAAAGAAAAAGGTGTCCTTTTT
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTCTCT
* * **
1298618 TTTAGGACTAAAAGGTGCCACCAACGCGTGTGGGCTTTAAAAAGAAAAAGGTGTCCT
66 TTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAA-AAAAAGGCATCCT
* * * *
1298675 TTTTTTGAGGACTAAAAGGTGCCACCAACGT-GTGTGGGCTTTGAATAGAAAAAGGCGTCCTACT
1 CTCTTTGAGGACTAAAAGGTGCCACCAAC-TCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCT-CT
* *
1298739 CTTTAAGGACTAAAAGGTGCCGCCAACTTGTGTGGGCTTTAGAAACAAAAAGGCATCCT
64 CTTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTA-AAA-AAAAAGGCATCCT
* * *
1298798 CCTCTTTAAGGACTAAAAGGTGCCACCAACTCATGTGTGCTTT-AAAAGAAAAAGGCGTCCTGCT
1 -CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCT-CT
* * * *
1298862 CTTTAAGGACTAAAGGGTGCCACCTACTCATGTGGGCTTTAAAAAAAAATGCATCCT
64 CTTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAAAAAGGCATCCT
* * **
1298919 GCTCTTTGAGGACTTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAA-AAG----CTC
1 -CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTCTC
* * * *
1298979 GTTGAGGACAAAAAGATGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAGAG-A--CT
65 TTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAA-AAAAG-GCATCCT
* * *
1299034 -T-TTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTT-AAAAGAAAAAGGCATCCTACTC
1 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCT-CTC
* * * *
1299096 TTTGAGGATTAAAAGGTGTCACCAACTCGTGTGGGCTTTAAAACAAAAAGTCATCCT
65 TTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAA-AAAAAGGCATCCT
1299153 ACTCTTTGAGGACTAAAAGG
1 -CTCTTTGAGGACTAAAAGG
1299173 AGAAAAAGGG
Statistics
Matches: 419, Mismatches: 58, Indels: 42
0.81 0.11 0.08
Matches are distributed among these distances:
111 10 0.02
112 37 0.09
113 1 0.00
115 2 0.00
116 40 0.10
117 52 0.12
118 2 0.00
119 2 0.00
121 51 0.12
122 80 0.19
123 107 0.26
124 35 0.08
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (120 bp):
CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTCTCT
TTAAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAAAAAGGCATCCT
Found at i:1299253 original size:32 final size:32
Alignment explanation
Indices: 1299192--1299333 Score: 171
Period size: 32 Copynumber: 4.5 Consensus size: 32
1299182 GGTGCCACGG
* * *
1299192 AGTCGTGGGCTTTTAA-AAA-AGATGTCACTA
1 AGTCGTGGACTTTGAAGAAAGAGATGCCACTA
*
1299222 AGTCGTGGACTTTGAAGAAAGAGATGGCACTA
1 AGTCGTGGACTTTGAAGAAAGAGATGCCACTA
* * * *
1299254 AGTCGTTGACTTTGAAGAAAGGGATGCCATTG
1 AGTCGTGGACTTTGAAGAAAGAGATGCCACTA
* * *
1299286 AGTCATGGACTTTGAAGAAAGGGATGCCACTG
1 AGTCGTGGACTTTGAAGAAAGAGATGCCACTA
1299318 AGTCGTGGACTTTGAA
1 AGTCGTGGACTTTGAA
1299334 AAGGTTGATT
Statistics
Matches: 98, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
30 14 0.14
31 3 0.03
32 81 0.83
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (32 bp):
AGTCGTGGACTTTGAAGAAAGAGATGCCACTA
Found at i:1300879 original size:25 final size:25
Alignment explanation
Indices: 1300851--1300901 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
1300841 TCACAACCTT
*
1300851 GTGAACTAAAGAATTATCTCTTGAA
1 GTGAACTAAAGAATTATCTCTCGAA
*
1300876 GTGAACTGAAGAATTATCTCTCGAA
1 GTGAACTAAAGAATTATCTCTCGAA
1300901 G
1 G
1300902 AATATTCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (25 bp):
GTGAACTAAAGAATTATCTCTCGAA
Found at i:1305463 original size:26 final size:28
Alignment explanation
Indices: 1305423--1305491 Score: 88
Period size: 26 Copynumber: 2.5 Consensus size: 28
1305413 AAAAGAGGCA
* *
1305423 GGGTTGGAGTGTCCCCTC-GAAAT-ACG
1 GGGTTGGAGTATCCCCTCAAAAATAACG
*
1305449 GGGTTGGAGTATCCCCTCAAAAATAATG
1 GGGTTGGAGTATCCCCTCAAAAATAACG
*
1305477 AGGTTGGAGTATCCC
1 GGGTTGGAGTATCCC
1305492 TACGATGAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 17 0.46
27 4 0.11
28 16 0.43
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCTCAAAAATAACG
Found at i:1305538 original size:79 final size:78
Alignment explanation
Indices: 1305446--1305697 Score: 332
Period size: 79 Copynumber: 3.2 Consensus size: 78
1305436 CCCTCGAAAT
1305446 ACGGGGTTGGAGTATCCCCTCAAAAATAAT-GAGGTTGGAGTATCCCTACGATGAAGAATTTAAT
1 ACGGGGTTGGAGTATCCCCTCAAAAATAATAG-GGTTGGAGTATCCCTACGATGAAGAATTTAAT
1305510 ATTTTAGAAATAAAA
65 ATTTT-GAAATAAAA
* * * * * *
1305525 ACGGGATTAGAGTATCCCCTCAGAATTGATAGGGTCGGAGTATCCCTGA-GATGAAGAATTTAAT
1 ACGGGGTTGGAGTATCCCCTCAAAAATAATAGGGTTGGAGTATCCCT-ACGATGAAGAATTTAAT
1305589 ATTTTGAAAATAAAA
65 ATTTTG-AAATAAAA
* * * *
1305604 ACGGGGTTGGAGTATCCCTTCGAAAATAATAGGGTTAGAGTAT-CC-ACGATAAAGAATTTAATA
1 ACGGGGTTGGAGTATCCCCTCAAAAATAATAGGGTTGGAGTATCCCTACGATGAAGAATTTAATA
1305667 TTTTGGAAATAAAA
66 TTTT-GAAATAAAA
*
1305681 ACGGGGTTCGAGTATCC
1 ACGGGGTTGGAGTATCC
1305698 TCGAGATGAA
Statistics
Matches: 151, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
76 1 0.01
77 43 0.28
78 4 0.03
79 101 0.67
80 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.28
Consensus pattern (78 bp):
ACGGGGTTGGAGTATCCCCTCAAAAATAATAGGGTTGGAGTATCCCTACGATGAAGAATTTAATA
TTTTGAAATAAAA
Found at i:1319549 original size:41 final size:40
Alignment explanation
Indices: 1319488--1319569 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 40
1319478 AAAAAAACAA
* *
1319488 ATTCCAAATGTATCAATACATTTGTA-GAATGTATCGATAC
1 ATTCCAAATGTATCAATACA-TTCTACAAATGTATCGATAC
*
1319528 ATTCACAAATGTATCGATACATTCTACAAATGTATCGATAC
1 ATTC-CAAATGTATCAATACATTCTACAAATGTATCGATAC
1319569 A
1 A
1319570 GGGTCCCAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 8 0.22
41 29 0.78
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (40 bp):
ATTCCAAATGTATCAATACATTCTACAAATGTATCGATAC
Found at i:1319558 original size:21 final size:21
Alignment explanation
Indices: 1319492--1319569 Score: 106
Period size: 21 Copynumber: 3.8 Consensus size: 21
1319482 AAACAAATTC
* *
1319492 CAAATGTATCAATACATTTGTA
1 CAAATGTATCGATACA-TTCTA
*
1319514 -GAATGTATCGATACATTC-A
1 CAAATGTATCGATACATTCTA
1319533 CAAATGTATCGATACATTCTA
1 CAAATGTATCGATACATTCTA
1319554 CAAATGTATCGATACA
1 CAAATGTATCGATACA
1319570 GGGTCCCAAC
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
19 1 0.02
20 19 0.38
21 30 0.60
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.32
Consensus pattern (21 bp):
CAAATGTATCGATACATTCTA
Found at i:1319629 original size:19 final size:19
Alignment explanation
Indices: 1319605--1319672 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1319595 AATTCAACGA
1319605 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1319624 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1319639 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1319656 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1319673 TTAGCTACTA
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1319643 original size:32 final size:32
Alignment explanation
Indices: 1319607--1319669 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1319597 TTCAACGATT
*
1319607 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1319639 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1319670 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1319644 original size:13 final size:13
Alignment explanation
Indices: 1319626--1319650 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1319616 ACATAAGTTT
1319626 TGTATCGATACAA
1 TGTATCGATACAA
1319639 TGTATCGATACA
1 TGTATCGATACA
1319651 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1319730 original size:13 final size:13
Alignment explanation
Indices: 1319712--1319736 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1319702 CATTTTTCTG
1319712 TGTATCGATACAT
1 TGTATCGATACAT
1319725 TGTATCGATACA
1 TGTATCGATACA
1319737 AGGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1322218 original size:52 final size:51
Alignment explanation
Indices: 1322099--1322229 Score: 156
Period size: 52 Copynumber: 2.5 Consensus size: 51
1322089 TTGAGTTTAT
* * *
1322099 CAATTCTCCACAATCGGGGATACTCCAATCCTGGTTTTATTTTCAAAACAC
1 CAATTTTCCACAATCGGGGATACTCCAATCCTGATTTTATTTCCAAAACAC
** *
1322150 CAATTTTCCTTTAATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAAATAC
1 CAATTTTCC-ACAATCGGGGATACTCCAA-TCCTGATTTTATTTCC-AAAACAC
* *
1322203 CAATTTTTCACAATCGAGGATACTCCA
1 CAATTTTCCACAATCGGGGATACTCCA
1322230 GCCTCGTTAT
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
51 8 0.12
52 42 0.63
53 17 0.25
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.33
Consensus pattern (51 bp):
CAATTTTCCACAATCGGGGATACTCCAATCCTGATTTTATTTCCAAAACAC
Found at i:1328633 original size:55 final size:55
Alignment explanation
Indices: 1328548--1329696 Score: 1405
Period size: 55 Copynumber: 20.4 Consensus size: 55
1328538 TTAGCCCTTC
*
1328548 CCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1328603 CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
*
1328658 CCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACATAAGTTGGTGGCACCTTTT
1 CCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA--TTTT
*
1328715 --AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1328768 CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
* *
1328823 CCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCA---C
1 CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
* * **
1328875 CCAGTCCTTAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATCCT
1 CCAGTCCTCAAAGAGCAGGACACCTT-T-C----AAAGCCCACACAAGTTGGTGGCATTTT
*
1328936 CCAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTT
1 CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA--TTTT
* * * *
1328993 ---GTCCCCAAAGAGTAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTAGCA-CTT
1 CCAGTCCTCAAAGAGCAGGACACCTT-T-C----AAAGCCCACACAAGTTGGTGGCATTTT
1329050 CCTAGTCCTCAAAGAGCAGGACGCCTTTACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CC-AGTCCTCAAAGAGCAGGA---C---ACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
* *
1329112 CCAATCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT
1 CCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTT
* *
1329168 -CAGTCCTCAAAGAGCACGATACTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACAC-----C-TTTCAAAGCCCACACAAGTTGGTGGCATTTT
* *
1329228 CCAGTCCTCAAAGAGCAGGACGCCTCTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1329283 CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
*
1329338 CCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
* * * **
1329393 CCAATCCTCAAAGAGTAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CCT
1 CCAGTCCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCATTTT
** *
1329452 CCAGTCCTCAAAGAGTGGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGAC-AC----CTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1329512 CCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCATCTTT
1 CCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCAT-TTT
** *
1329568 -CAGTCCTCAAAGAGCAGGATGCCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT
1 CCAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTT
* * * *
1329623 -CAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACATGTTTGTGGCATTTT
1 CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
** * *
1329677 TTACTCCTCAATGAGCAGGA
1 CCAGTCCTCAAAGAGCAGGA
1329697 TACACTTTAT
Statistics
Matches: 970, Mismatches: 64, Indels: 120
0.84 0.06 0.10
Matches are distributed among these distances:
52 23 0.02
53 5 0.01
54 28 0.03
55 610 0.63
56 17 0.02
57 8 0.01
58 24 0.02
59 45 0.05
60 73 0.08
61 120 0.12
62 4 0.00
63 4 0.00
64 2 0.00
65 1 0.00
66 1 0.00
67 5 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (55 bp):
CCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
Found at i:1328795 original size:27 final size:27
Alignment explanation
Indices: 1328765--1328847 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
1328755 TTGGTGGCAT
1328765 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
1328792 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
1328820 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
1328847 T
1 T
1328848 CTCAAAGCCC
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 11 0.30
28 10 0.27
29 5 0.14
30 3 0.08
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:1330503 original size:19 final size:19
Alignment explanation
Indices: 1330479--1330546 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1330469 AATTCAACGA
1330479 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1330498 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1330513 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1330530 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1330547 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1330517 original size:32 final size:32
Alignment explanation
Indices: 1330481--1330543 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1330471 TTCAACGATT
*
1330481 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1330513 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1330544 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1330518 original size:13 final size:13
Alignment explanation
Indices: 1330500--1330524 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1330490 ACATAAGTTT
1330500 TGTATCGATACAA
1 TGTATCGATACAA
1330513 TGTATCGATACA
1 TGTATCGATACA
1330525 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1330584 original size:13 final size:13
Alignment explanation
Indices: 1330566--1330591 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1330556 GCCAAGGAAA
1330566 TGTATCGATACAT
1 TGTATCGATACAT
1330579 TGTATCGATACAT
1 TGTATCGATACAT
1330592 GGATCTTTGT
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:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1333074 original size:52 final size:51
Alignment explanation
Indices: 1332955--1333085 Score: 138
Period size: 52 Copynumber: 2.5 Consensus size: 51
1332945 TTGAGTTTAT
* * * * *
1332955 CAATTCTCCACAATCGGGGATACTCCAATCTTGGTTTTATTTTCAAAACGC
1 CAATTTTCCACAATCGGGGATACTCCAATCTCGATTTTATTTCCAAAACAC
** *
1333006 CAATTTTCCTTTAATCGGGGATACTCCAA-CTCCGATTTTATTTCCAAAAATAC
1 CAATTTTCC-ACAATCGGGGATACTCCAATCT-CGATTTTATTTCC-AAAACAC
* *
1333059 CAATTTTTCACAATCGAGGATACTCCA
1 CAATTTTCCACAATCGGGGATACTCCA
1333086 GCCTCGTTAT
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
51 10 0.15
52 42 0.65
53 13 0.20
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (51 bp):
CAATTTTCCACAATCGGGGATACTCCAATCTCGATTTTATTTCCAAAACAC
Found at i:1333213 original size:107 final size:107
Alignment explanation
Indices: 1333022--1333225 Score: 241
Period size: 107 Copynumber: 1.9 Consensus size: 107
1333012 TCCTTTAATC
* * * *
1333022 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAG
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
* *
1333087 CCTCGTTATTTCATCGGGATACTCCAACCCCGTTACTTCCGA
66 CCCCGTTATTTCATAGGGATACTCCAACCCCGTTACTTCCGA
* * *** * * *
1333129 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATGGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
1333193 CCCCGTTATTTTCGA-AGGGATACTCCAATCCCG
66 CCCCGTTA-TTTC-ATAGGGATACTCCAACCCCG
1333226 ATTTTTTTTC
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
106 38 0.47
107 41 0.51
108 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.29
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
CCCCGTTATTTCATAGGGATACTCCAACCCCGTTACTTCCGA
Found at i:1337443 original size:18 final size:18
Alignment explanation
Indices: 1337420--1337484 Score: 51
Period size: 18 Copynumber: 3.3 Consensus size: 18
1337410 ATCTTCTTCT
1337420 CTCCTCCTCCTATCATCC
1 CTCCTCCTCCTATCATCC
*
1337438 CTCCT-CTCTCTATTATCTCTC
1 CTCCTCCTC-CTATCA--TC-C
1337459 CTGTCTCTCCTCCTATCATCC
1 C--TC-CTCCTCCTATCATCC
1337480 CTCCT
1 CTCCT
1337485 ATCTTTACTA
Statistics
Matches: 37, Mismatches: 2, Indels: 16
0.67 0.04 0.29
Matches are distributed among these distances:
17 3 0.08
18 12 0.32
19 2 0.05
20 2 0.05
21 4 0.11
22 2 0.05
23 2 0.05
24 7 0.19
25 3 0.08
ACGTcount: A:0.09, C:0.49, G:0.02, T:0.40
Consensus pattern (18 bp):
CTCCTCCTCCTATCATCC
Found at i:1337475 original size:42 final size:42
Alignment explanation
Indices: 1337423--1337502 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
1337413 TTCTTCTCTC
* *
1337423 CTCCTCCTATCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
*
1337465 CTCCTCCTATCATCCCTCCTATCTTTACTATCTCTCCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCT
1337503 CCTATCATCC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.11, C:0.45, G:0.01, T:0.42
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
Found at i:1337488 original size:33 final size:33
Alignment explanation
Indices: 1337451--1337532 Score: 110
Period size: 33 Copynumber: 2.5 Consensus size: 33
1337441 CTCTCTCTAT
* *
1337451 TATCTCTCCTGTCTCTCCTCCTATCATCCCTCC
1 TATCTCTACTATCTCTCCTCCTATCATCCCTCC
*
1337484 TATCTTTACTATCTCTCCTCCTATCATCCCTCC
1 TATCTCTACTATCTCTCCTCCTATCATCCCTCC
* * *
1337517 TCTCTCTTCTTTCTCT
1 TATCTCTACTATCTCT
1337533 TTGAGGGCTA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.10, C:0.44, G:0.01, T:0.45
Consensus pattern (33 bp):
TATCTCTACTATCTCTCCTCCTATCATCCCTCC
Found at i:1339886 original size:79 final size:79
Alignment explanation
Indices: 1339762--1339987 Score: 231
Period size: 79 Copynumber: 2.9 Consensus size: 79
1339752 TGAGAAATTT
* * * * * * *
1339762 AATATTTTGGAGATAATAA-CGGGGTTGGAGTATCCCTTTGAAAATAACGGGATTGGAGTATCCC
1 AATATTTAGGAAATAA-AACCGGGATTAGAGTATCCCTTCGGAAATAACGGGGTTGGAGTATCCC
*
1339826 CGATTGTGAAAAATC
65 CGATTATGAAAAATC
* *
1339841 GATGA-TTAGGAAATAAAATCGGGATTAGAGTATCCCTTCGGAAATAACGGGGTTGGAGTATCCC
1 AAT-ATTTAGGAAATAAAACCGGGATTAGAGTATCCCTTCGGAAATAACGGGGTTGGAGTATCCC
* *
1339905 CAATTATGAGAAATC
65 CGATTATGAAAAATC
* * * * * * ** *
1339920 AATATTTTGGAAATAAAGCCGGGGTTGGAGTGTCCCCTCGGAGGTAACGGGGTTGGAGTATCCTC
1 AATATTTAGGAAATAAAACCGGGATTAGAGTATCCCTTCGGAAATAACGGGGTTGGAGTATCCCC
1339985 GAT
66 GAT
1339988 GAAATAATGA
Statistics
Matches: 121, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
78 3 0.02
79 117 0.97
80 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (79 bp):
AATATTTAGGAAATAAAACCGGGATTAGAGTATCCCTTCGGAAATAACGGGGTTGGAGTATCCCC
GATTATGAAAAATC
Found at i:1340148 original size:51 final size:51
Alignment explanation
Indices: 1339998--1340218 Score: 246
Period size: 51 Copynumber: 4.3 Consensus size: 51
1339988 GAAATAATGA
* * * * *
1339998 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGGAAAATTAGTG-TTTTGGAAATAAAACCGG
* * * *
1340050 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGGAAAATTAGTGTTTTGGAAATAAAACCGG
* *
1340102 GGTTGGAGTATCCCCGGTTATGGAAAATTAGTGTTTTAGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTGGAAATAAAACCGG
* * * * * *
1340153 GGTTGAAGTATCCCTGATTAT-GAGAAATCAATATTTTGGAAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTATGGA-AAATTAGTGTTTTGGAAATAAAACCGG
*
1340204 GGTTGCAGTATCCCC
1 GGTTGGAGTATCCCC
1340219 TCAGAGGTAA
Statistics
Matches: 144, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
50 2 0.01
51 81 0.56
52 50 0.35
53 11 0.08
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTGGAAATAAAACCGG
Found at i:1340201 original size:262 final size:267
Alignment explanation
Indices: 1339888--1340496 Score: 915
Period size: 278 Copynumber: 2.3 Consensus size: 267
1339878 TCGGAAATAA
* * *
1339888 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTGT
1 CGGGGTTGAAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
* * * * *
1339953 CCCCTCGGAGGTAACGGGGTTGGAGTATCCTCGATGAAATAATGAGGTTGGAGTATCCTCGATTG
66 CCCCTCAGAGGTAACGAGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCAATTG
*
1340018 TGAAAAATTGGTGTTTTTGGAAATAAAATC-GGAGT-T-G-GA-G-TATCCCCGATTAAAGGAAA
131 TGAAAAATT-GTGTTTTTGGAAATAAAATCAGGAGTATCGAAAGGATATCCCCGATTAAAGGAAA
*
1340077 ATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGGTTATGGAAAATTAGTGTTTTAGA
195 ATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTAGA
1340142 AATAAAAC
260 AATAAAAC
* *
1340150 CGGGGTTGAAGTATCCCTGATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGCAGTAT
1 CGGGGTTGAAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
1340215 CCCCTCAGAGGTAACGAGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCAATTG
66 CCCCTCAGAGGTAACGAGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCAATTG
1340280 TGAAAAATTGTGTTTTTGGAAATAAAATCAGAGTTGGAGTATCCCCGATTAAAGGATATCCCCGA
131 TGAAAAATTGTGTTTTTGGAAATAAAATC--A---GGAGTAT---CG---AAAGGATATCCCCGA
*
1340345 TTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAATTA
185 TTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAATTA
1340410 GTGTTTTAGAAATAAAAC
250 GTGTTTTAGAAATAAAAC
* * * *
1340428 CAGGGTTGTAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGTCGGGGTTAGAGTAT
1 CGGGGTTGAAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
1340493 CCCC
66 CCCC
1340497 GATTATGAAC
Statistics
Matches: 311, Mismatches: 19, Indels: 18
0.89 0.05 0.05
Matches are distributed among these distances:
261 20 0.06
262 129 0.41
267 5 0.02
268 1 0.00
272 1 0.00
276 1 0.00
277 1 0.00
278 153 0.49
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.28
Consensus pattern (267 bp):
CGGGGTTGAAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
CCCCTCAGAGGTAACGAGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCAATTG
TGAAAAATTGTGTTTTTGGAAATAAAATCAGGAGTATCGAAAGGATATCCCCGATTAAAGGAAAA
TTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTAGAA
ATAAAAC
Found at i:1340244 original size:28 final size:28
Alignment explanation
Indices: 1340204--1340272 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
1340194 ATAAAGCCGG
* **
1340204 GGTTGCAGTATCCCCTCA-GAGGTAACGA
1 GGTTGGAGTATCCCC-CATGAAATAACGA
*
1340232 GGTTGGAGTATCCCCGATGAAATAACGA
1 GGTTGGAGTATCCCCCATGAAATAACGA
1340260 GGTTGGAGTATCC
1 GGTTGGAGTATCC
1340273 TCAATTGTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
27 1 0.03
28 35 0.97
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.23
Consensus pattern (28 bp):
GGTTGGAGTATCCCCCATGAAATAACGA
Found at i:1340341 original size:17 final size:17
Alignment explanation
Indices: 1340319--1340352 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1340309 AGAGTTGGAG
1340319 TATCCCCGATTAAAGGA
1 TATCCCCGATTAAAGGA
1340336 TATCCCCGATTAAAGGA
1 TATCCCCGATTAAAGGA
1340353 AAATTGGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (17 bp):
TATCCCCGATTAAAGGA
Found at i:1340414 original size:51 final size:51
Alignment explanation
Indices: 1340336--1340503 Score: 187
Period size: 51 Copynumber: 3.3 Consensus size: 51
1340326 GATTAAAGGA
* *
1340336 TATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAG
1 TATCCCCGATT-ATGGAAAATTAGTGTTTTGAAAATAAAACCGGGGTTGGAG
* * *
1340388 TATCCCCGATTGTGGAAAATTAGTGTTTT-AGAAATAAAACCAGGGTTGTAG
1 TATCCCCGATTATGGAAAATTAGTGTTTTGA-AAATAAAACCGGGGTTGGAG
* * * * ** *
1340439 TATCCCCGATTAT-GAGAAATCAATATTTTGGAAATAAAGTCGGGGTTAGAG
1 TATCCCCGATTATGGA-AAATTAGTGTTTTGAAAATAAAACCGGGGTTGGAG
1340490 TATCCCCGATTATG
1 TATCCCCGATTATG
1340504 AACAATTGAG
Statistics
Matches: 97, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
50 3 0.03
51 83 0.86
52 11 0.11
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (51 bp):
TATCCCCGATTATGGAAAATTAGTGTTTTGAAAATAAAACCGGGGTTGGAG
Found at i:1342814 original size:21 final size:21
Alignment explanation
Indices: 1342788--1342829 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1342778 TACAAAGATC
1342788 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
1342809 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
1342830 GGCAGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (21 bp):
AATGTATCGATACATTTCCTT
Found at i:1342864 original size:13 final size:13
Alignment explanation
Indices: 1342846--1342897 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
1342836 AGCTTCGTAG
1342846 CGATACATTGTAT
1 CGATACATTGTAT
1342859 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
1342878 CGATACATTGTAT
1 CGATACATTGTAT
1342891 CGATACA
1 CGATACA
1342898 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:1342887 original size:32 final size:32
Alignment explanation
Indices: 1342846--1342918 Score: 119
Period size: 32 Copynumber: 2.3 Consensus size: 32
1342836 AGCTTCGTAG
1342846 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
1342878 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
* *
1342910 TGATGCATT
1 CGATACATT
1342919 TACGGTTTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:1344045 original size:28 final size:28
Alignment explanation
Indices: 1344014--1344100 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
1344004 TTAAGGACTA
1344014 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCCACCAACTTGTGTGGGCTTT
* ** * *
1344042 G-AAA-GGCATCCTGCTT-TTTGAGGAC-TA
1 GAAAATGCCA-CCAACTTGTGTG-GG-CTTT
1344069 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCCACCAACTTGTGTGGGCTTT
1344097 GAAA
1 GAAA
1344101 GGAGAAGGTG
Statistics
Matches: 42, Mismatches: 10, Indels: 14
0.64 0.15 0.21
Matches are distributed among these distances:
26 6 0.14
27 13 0.31
28 17 0.40
29 6 0.14
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (28 bp):
GAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:1344198 original size:60 final size:59
Alignment explanation
Indices: 1343769--1344479 Score: 775
Period size: 55 Copynumber: 12.4 Consensus size: 59
1343759 ATAAGGTGCA
* *
1343769 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT----G-AAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* *
1343824 TCCTGCTTTTTGAGGACTGAAATGTGCCACCAACTTGTGTGGGCTTT--AAG---AGGTG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
1343879 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAAATTGTGTGGGCTTT----G-AAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * * * *
1343934 TCTTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATATGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
* * *
1343995 TCCTGCTCTTTAAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCA
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * * * *
1344050 TCCTGCTTTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
* * * *
1344111 TCTTGCTCTTTCAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
1344170 TCCTGCTCTTTGAGGACTGCAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTG-AAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
*
1344231 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
1344290 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* ** *
1344349 TCCTGCCCTTTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTT-----AAAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
1344404 TCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGT-GGCTTT----G-AAAGGCG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
1344458 TCCTTCTCTTTGAGGACT-AAAG
1 TCCTGCTCTTTGAGGACTGAAAG
1344480 GGTGAAAGGA
Statistics
Matches: 578, Mismatches: 53, Indels: 53
0.85 0.08 0.08
Matches are distributed among these distances:
52 1 0.00
53 4 0.01
54 39 0.07
55 216 0.37
56 5 0.01
57 1 0.00
59 113 0.20
60 104 0.18
61 91 0.16
62 4 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (59 bp):
TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
Found at i:1344201 original size:120 final size:116
Alignment explanation
Indices: 1343769--1344453 Score: 847
Period size: 120 Copynumber: 5.9 Consensus size: 116
1343759 ATAAGGTGCA
* * *
1343769 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTTTT
1 TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
* *
1343834 TGAGGACTGAAATGTGCCACCAACTTGTGTGGGCTTT---AAG---AGGTG
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCG
* * * * *
1343879 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAAATTGTGTGGGCTTTGAAAGGTGTCTTGCTCTT
1 TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
* * * *
1343944 TGAGGACTGAAAGGTGCCACCAACTTATATGGGCTTTGAAAAGAAAAAGCA
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCG
* * * *
1343995 TCCTGCTCTTTAAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTTTT
1 TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
* * * *
1344060 TGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGTG
66 TGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCG
* * * *
1344111 TCTTGCTCTTTCAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCATCCTG
1 TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCGTCCTG
* * *
1344175 CTCTTTGAGGACTGCAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
61 CTCTTTGAGGACTG-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCG
*
1344231 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTG
1 TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCGTCCTG
1344295 CTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
61 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCG
* ** * * *
1344349 TCCTGCCCTTTGAGGACTAGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGGCGTCCTACTCTT
1 TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
1344414 TGAGGACTGAAAGGTGCCACCAACTTGTGT-GGCTTTGAAA
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA
1344454 GGCGTCCTTC
Statistics
Matches: 508, Mismatches: 50, Indels: 29
0.87 0.09 0.05
Matches are distributed among these distances:
110 91 0.18
113 3 0.01
114 31 0.06
115 49 0.10
116 114 0.22
117 4 0.01
118 30 0.06
119 51 0.10
120 135 0.27
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (116 bp):
TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTT
TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCG
Found at i:1344579 original size:93 final size:87
Alignment explanation
Indices: 1344401--1344579 Score: 200
Period size: 93 Copynumber: 1.9 Consensus size: 87
1344391 GCTTTAAAAG
* *
1344401 GCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGCTTTGAAAGGCGTCCTTCTC
1 GCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGCTTTGAAAGGCATCCTGCTC
1344466 TTTGAGGACTAAAGGGTGAAAGGAGAGA
66 TTTGAGGAC---A---TGAAAGGAGAGA
1344494 GCGTCCTACTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
1 GCGTCCTACTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGT-GGCTTT-----G-AAAGGCA
1344558 TCCTGCTCTTTGAGGAC-TGAAA
58 TCCTGCTCTTTGAGGACATGAAA
1344580 AGTGGAAGGA
Statistics
Matches: 76, Mismatches: 2, Indels: 16
0.81 0.02 0.17
Matches are distributed among these distances:
92 1 0.01
93 46 0.61
94 6 0.08
99 1 0.01
100 22 0.29
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (87 bp):
GCGTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGCTTTGAAAGGCATCCTGCTC
TTTGAGGACATGAAAGGAGAGA
Found at i:1345578 original size:19 final size:19
Alignment explanation
Indices: 1345562--1345599 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1345552 TTTTTTTTCT
1345562 CTTATTTTTTGTTTTTTTG
1 CTTATTTTTTGTTTTTTTG
* *
1345581 TTTTTTTTTTGTTTTTTTG
1 CTTATTTTTTGTTTTTTTG
1345600 TTTTGAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.03, C:0.03, G:0.11, T:0.84
Consensus pattern (19 bp):
CTTATTTTTTGTTTTTTTG
Found at i:1345587 original size:11 final size:11
Alignment explanation
Indices: 1345573--1345598 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1345563 TTATTTTTTG
1345573 TTTTTTTGTTT
1 TTTTTTTGTTT
1345584 TTTTTTTGTTT
1 TTTTTTTGTTT
1345595 TTTT
1 TTTT
1345599 GTTTTGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:1345600 original size:19 final size:19
Alignment explanation
Indices: 1345566--1345603 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
1345556 TTTTCTCTTA
1345566 TTTTTTGTTTTTTTGTTTT
1 TTTTTTGTTTTTTTGTTTT
1345585 TTTTTTGTTTTTTTGTTTT
1 TTTTTTGTTTTTTTGTTTT
1345604 GAAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (19 bp):
TTTTTTGTTTTTTTGTTTT
Found at i:1347126 original size:13 final size:13
Alignment explanation
Indices: 1347108--1347133 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1347098 TACACAAAGT
1347108 ATGTATCGATACA
1 ATGTATCGATACA
1347121 ATGTATCGATACA
1 ATGTATCGATACA
1347134 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1350325 original size:52 final size:52
Alignment explanation
Indices: 1350255--1350375 Score: 197
Period size: 52 Copynumber: 2.3 Consensus size: 52
1350245 GAAAATTTAT
* *
1350255 CTGCATGTATCGATACATTTAATAGTGTATCGATACATTTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
* *
1350307 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
1350359 CTGCATGTACCGATACA
1 CTGCATGTATCGATACA
1350376 AAGATCGGTG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:1350388 original size:52 final size:52
Alignment explanation
Indices: 1350255--1350395 Score: 160
Period size: 52 Copynumber: 2.7 Consensus size: 52
1350245 GAAAATTTAT
* * *
1350255 CTGCATGTATCGATACATTTA-ATAGTGTATCGATACATTTGGGCAAATTTGC
1 CTGCATGTACCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGC
* * *** *
1350307 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTACCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
*
1350359 CTGCATGTACCGATACA-AAGATCGGTGTATCGATACA
1 CTGCATGTACCGATACATAAGAT-AGTGTATCGATACA
1350396 ATGTATCGAT
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
51 4 0.05
52 72 0.95
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
CTGCATGTACCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1350402 original size:13 final size:13
Alignment explanation
Indices: 1350384--1350408 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1350374 CAAAGATCGG
1350384 TGTATCGATACAA
1 TGTATCGATACAA
1350397 TGTATCGATACA
1 TGTATCGATACA
1350409 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1350490 original size:13 final size:13
Alignment explanation
Indices: 1350472--1350496 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1350462 CAAAAAAATA
1350472 TGTATCGATACAT
1 TGTATCGATACAT
1350485 TGTATCGATACA
1 TGTATCGATACA
1350497 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1350491 original size:33 final size:33
Alignment explanation
Indices: 1350450--1350516 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1350440 AGTAGCTTAA
1350450 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1350483 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1350516 A
1 A
1350517 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1351448 original size:49 final size:49
Alignment explanation
Indices: 1351239--1352184 Score: 1117
Period size: 49 Copynumber: 19.9 Consensus size: 49
1351229 AAAAGGATGT
* * *
1351239 CAATGCGCTGATTCAAGGCCAGCTACTTTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* *
1351291 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1351334 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1351382 CAATGTGCTGATTCAAGGCCAACTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1351431 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
** ** * *
1351480 CAATACGCTGATTCAAGGCCAGCTATGTTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1351529 CAATGTGCTGAGTCAAGGCCAGCTATATTGGAGTTAAAGAAGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1351578 CAATATGCTGATTCAAGGCTAGGTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1351621 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGTTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1351670 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1351713 TAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAGAAGAAGTTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1351762 CAATATGATGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1351805 CAATGTACTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGTTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1351854 CAATATGCTGATTCAAGGCCAGCTATATTAGACTT----A--AAGCTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * *
1351897 CAATGTACTTATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1351946 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1351995 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1352044 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1352093 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1352142 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA
1352185 TGAGGATGGA
Statistics
Matches: 764, Mismatches: 99, Indels: 65
0.82 0.11 0.07
Matches are distributed among these distances:
43 189 0.25
45 4 0.01
47 3 0.00
48 47 0.06
49 491 0.64
52 30 0.04
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:1351801 original size:22 final size:22
Alignment explanation
Indices: 1351776--1351843 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 22
1351766 ATGATGATTC
1351776 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
* * * *
1351798 AAGGTGCCA-ATGTACT-GA-TTC
1 AA-G-GCCAGCTATATTGGACTTA
*
1351819 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
1351841 AAG
1 AAG
1351844 AAGAAGTTGC
Statistics
Matches: 32, Mismatches: 9, Indels: 10
0.63 0.18 0.20
Matches are distributed among these distances:
19 4 0.12
20 4 0.12
21 6 0.19
22 9 0.28
23 5 0.16
24 4 0.12
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (22 bp):
AAGGCCAGCTATATTGGACTTA
Found at i:1352182 original size:98 final size:92
Alignment explanation
Indices: 1351230--1352180 Score: 1159
Period size: 92 Copynumber: 10.0 Consensus size: 92
1351220 AAGATGAGAA
* * * * *
1351230 AAAGGATGTCAATGCGCTGATTCAAGGCCAGCTACTTTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AGAAGGTGCCAAT
1351295 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCTATATTGGACTT
** *
1351326 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
* *
1351390 TGATTCAAGGCCAACTACATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
*
1351417 AAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATA-AAGGTGCC
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AGAAGGTGCC
* *
1351481 AATACGCTGATTCAAGGCCAGCTATGTTGGACTT
59 AATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
1351515 AATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTATATTGGAGTTAAAGAAGAAGGTGCCA
1 -A-----AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCA
* *
1351580 ATATGCTGATTCAAGGCTAGGTATATTGGACTT
60 ATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
1351613 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGTTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1351678 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* * * *
1351705 AAAGGTGCTAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAGAAGAAGTTGCCAATATGA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1351770 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* *
1351797 AAAGGTGCCAATGTACTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGTTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
*
1351862 TGATTCAAGGCCAGCTATATTAGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* * * * * ** *
1351889 AAAGCTGCCAATGTACTTATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
* *
1351954 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
66 TGATTCAAGGCCAGCTATATTGGAC-T-----T
* * * ** *
1351987 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
* *
1352052 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
66 TGATTCAAGGCCAGCTATATTGGAC-T-----T
* * * ** *
1352085 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
* *
1352150 TGAGTCAAGGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
1352177 AAAG
1 AAAG
1352181 ATGATGAGGA
Statistics
Matches: 783, Mismatches: 54, Indels: 40
0.89 0.06 0.05
Matches are distributed among these distances:
91 38 0.05
92 345 0.44
93 1 0.00
95 40 0.05
96 5 0.01
97 48 0.06
98 306 0.39
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
TGATTCAAGGCCAGCTATATTGGACTT
Found at i:1352477 original size:67 final size:68
Alignment explanation
Indices: 1352351--1352477 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 68
1352341 ATTGGGTTTT
* * *
1352351 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
1352416 AGA
66 AGA
* * * * *
1352419 AAAG-TGATAAAGATGCTAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
1352478 GAAAAAGGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
67 47 0.92
68 4 0.08
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:1352559 original size:52 final size:53
Alignment explanation
Indices: 1352480--1352583 Score: 156
Period size: 52 Copynumber: 2.0 Consensus size: 53
1352470 AAAGATGAGA
* * *
1352480 AAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGGTGG
1 AAAAGGATGCCAATATGCTGATTCAAGGCAAGCTACATTGAACTTAAAGGTGG
* *
1352533 AAAAGG-TGCCAATATGCTGATTCAAGGCAAGCTATATTGGACTTAAAGGTG
1 AAAAGGATGCCAATATGCTGATTCAAGGCAAGCTACATTGAACTTAAAGGTG
1352584 CCAATGTGCT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 40 0.87
53 6 0.13
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.25
Consensus pattern (53 bp):
AAAAGGATGCCAATATGCTGATTCAAGGCAAGCTACATTGAACTTAAAGGTGG
Found at i:1352595 original size:43 final size:43
Alignment explanation
Indices: 1352534--1352623 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
1352524 TAAAGGTGGA
*
1352534 AAAGGTGCCAATATGCTGATTCAAGGCAAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCAAGCAATATTGGACTT
* *
1352577 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCAATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCAAGCAATATTGGACTT
1352620 AAAG
1 AAAG
1352624 ATGAAGATGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCAAGCAATATTGGACTT
Found at i:1352713 original size:49 final size:49
Alignment explanation
Indices: 1352641--1352736 Score: 147
Period size: 49 Copynumber: 2.0 Consensus size: 49
1352631 TGAGAAAAGT
* *
1352641 GATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAA
1 GATAAAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTAAA
* * *
1352690 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 GATAAAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTA
1352737 GAAGGGTTGC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (49 bp):
GATAAAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTAAA
Found at i:1352780 original size:33 final size:35
Alignment explanation
Indices: 1352736--1352805 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
1352726 TATTGGGCTT
1352736 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-GGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
1352770 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
1352804 AG
1 AG
1352806 GGAGAAAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 26 0.74
34 9 0.26
ACGTcount: A:0.20, C:0.17, G:0.37, T:0.26
Consensus pattern (35 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
Found at i:1352848 original size:34 final size:34
Alignment explanation
Indices: 1352790--1353434 Score: 554
Period size: 34 Copynumber: 19.3 Consensus size: 34
1352780 CACCGACTTG
* *
1352790 TGTGGGCTTTAGGAAGGGAGAAAGATGCCACGGAGT
1 TGTGGGCTTTA--AAAGGAAAAAGATGCCACGGAGT
*
1352826 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAA-GGAAAAAGA-TGCCACGGAGT
* *
1352861 TATGGGCTTTAAAAGAAAAAAG-TGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
**
1352894 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCATAGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAGA-TGCCACGGAGT
* * *
1352931 TGTGGGCTTTAAAAAGAAAAAGGTACCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
* *
1352965 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
*
1352999 TGTGGGCTTTAAAAGG-----G-TGCCACGGGGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
* * * * *
1353027 CGTGGAC-TTAAAAAG-AAAAGGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
* * *
1353059 GGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
*
1353093 TGTGGG-TTTGAAAAGGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAGA-TGCCACGGAGT
*
1353129 TGTGGGCTTTAAAAAGAAAAAG-TGCCAC-GAG-
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
* * *
1353160 TGCTGGGCTTTGAGAA-GAAAAAGGTTGCCACGGAAT
1 TG-TGGGCTTT-AAAAGGAAAAA-GATGCCACGGAGT
* *
1353196 TGTGGGCTTT-AACGG-----G-TGCCACGGAAT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
* *
1353223 TGTGGAC-TTAGAAGGAAAAAGAGTGCCAC-GATGT
1 TGTGGGCTTTAAAAGGAAAAAGA-TGCCACGGA-GT
* *
1353257 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
* * *
1353291 TGTGGAC-TTAAAAGGAACAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
*
1353324 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAA-GGAAAAAGA-TGCCACGGAGT
* *
1353359 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
* * *
1353393 TGTGGGCTTT-GAA-GAAAAGGATGCCACTGAGT
1 TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
* *
1353425 CGTGGACTTT
1 TGTGGGCTTT
1353435 GAGACAAAAT
Statistics
Matches: 513, Mismatches: 57, Indels: 82
0.79 0.09 0.13
Matches are distributed among these distances:
26 2 0.00
27 27 0.05
28 16 0.03
29 1 0.00
31 3 0.01
32 56 0.11
33 85 0.17
34 155 0.30
35 102 0.20
36 44 0.09
37 22 0.04
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (34 bp):
TGTGGGCTTTAAAAGGAAAAAGATGCCACGGAGT
Found at i:1352896 original size:68 final size:66
Alignment explanation
Indices: 1352810--1353433 Score: 613
Period size: 68 Copynumber: 9.4 Consensus size: 66
1352800 AGGAAGGGAG
* *
1352810 AAAGATGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTATGGGCTTTAAAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAA-GGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAA
1352875 GAA
64 GAA
* * **
1352878 AAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCATAGAGTTGTGGGCTTTAA
1 AAAGGTGCCACGGAGTTGTGGAC-TT-AAAA-GGAAAAAG-GTGCCACGGAGTTGTGGGCTTT-A
1352943 AAAGAA
61 AAAGAA
* * *
1352949 AAAGGTACCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAG
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAG
1353014 --
65 AA
* * * * *
1353014 ---GGTGCCACGGGGTCGTGGACTTAAAAAG-AAAAGGTGCCACAGAGTGGTGGGCTTTAAAAAG
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAG
1353075 AA
65 AA
** *
1353077 AAAGGTGCCACGGAGTTGTGGGTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAA
1 AAAGGTGCCACGGAGTTGTGGACTT-AAAA-GGAAAAAG-GTGCCACGGAGTTGTGGGCTTT-AA
1353142 AAGAA
62 AAGAA
* * *
1353147 AAA-GTGCCAC-GAG-TGCTGGGCTTTGAGAA-GAAAAAGGTTGCCACGGAATTGTGGGCTTT-A
1 AAAGGTGCCACGGAGTTG-TGGAC-TT-AAAAGGAAAAAGG-TGCCACGGAGTTGTGGGCTTTAA
*
1353207 ACG--
62 AAGAA
* *
1353210 ---GGTGCCACGGAATTGTGGACTTAGAAGGAAAAAGAGTGCCAC-GATGTTGTGGGCTTTAAAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG-GTGCCACGGA-GTTGTGGGCTTT-AAA
1353271 AGAA
63 AGAA
* *
1353275 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGAC-TTAAAAGG
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA--
1353339 GAA
64 GAA
* * *
1353342 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-GAA
1 AAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA
1353406 G-A
64 GAA
* *
1353408 AAAGGATGCCACTGAGTCGTGGACTT
1 AAAGG-TGCCACGGAGTTGTGGACTT
1353434 TGAGACAAAA
Statistics
Matches: 476, Mismatches: 44, Indels: 75
0.80 0.07 0.13
Matches are distributed among these distances:
60 31 0.07
61 46 0.10
62 23 0.05
63 5 0.01
65 10 0.02
66 41 0.09
67 60 0.13
68 99 0.21
69 59 0.12
70 71 0.15
71 31 0.07
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (66 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGA
A
Found at i:1353037 original size:27 final size:28
Alignment explanation
Indices: 1352981--1353074 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
1352971 CTTTAAAAAG
* *
1352981 AAAAAGGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGGTGCCACGGAGTCGTGGACTTT
* * *
1353009 AAAAGGGTGCCACGGGGTCGTGGACTTAAAA
1 AAAAAGGTGCCACGGAGTCGTGGACTT---T
* * *
1353040 AGAAAAGGTGCCACAGAGTGGTGGGCTTT
1 A-AAAAGGTGCCACGGAGTCGTGGACTTT
1353069 AAAAAG
1 AAAAAG
1353075 AAAAAGGTGC
Statistics
Matches: 51, Mismatches: 11, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
28 28 0.55
29 1 0.02
31 1 0.02
32 21 0.41
ACGTcount: A:0.32, C:0.14, G:0.35, T:0.19
Consensus pattern (28 bp):
AAAAAGGTGCCACGGAGTCGTGGACTTT
Found at i:1353107 original size:198 final size:198
Alignment explanation
Indices: 1352815--1353402 Score: 836
Period size: 198 Copynumber: 3.0 Consensus size: 198
1352805 GGGAGAAAGA
*
1352815 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTATGGGCTTT-AAAAGAAA
1 TGCCACGGAGTTGTGGACTTAAAA-GGAAAAAGAGTGCCAC-GAGTTGTGGGCTTTAAAAAGAAA
* *
1352879 AAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCATAGAGTTGTGGGCTTTAAA
64 AAGGTGCCACGGAGTTGTGGG-TTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAA
*
1352944 AAGAAAAAGGTACCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
128 AAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
1353009 AAAAGGG
193 -AAAGGG
* * * *
1353016 TGCCACGGGGTCGTGGACTTAAAAAG-AAAAG-GTGCCACAGAGTGGTGGGCTTTAAAAAGAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCAC-GAGTTGTGGGCTTTAAAAAGAAAA
1353079 AGGTGCCACGGAGTTGTGGGTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAA
65 AGGTGCCACGGAGTTGTGGGTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAA
* * *
1353144 GAAAAA-GTGCCAC-GAG-TGCTGGGCTTTGAGAAGAAAAAGGTTGCCACGGAATTGTGGGCTTT
130 GAAAAAGGTGCCACGGAGTTG-TGGGCTTTAAAAAGAAAAAGG-TGCCACGGAGTTGTGGGCTTT
*
1353206 AACGGG
193 AAAGGG
* *
1353212 TGCCACGGAATTGTGGACTTAGAAGGAAAAAGAGTGCCACGATGTTGTGGGCTTTAAAAAGAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGA-GTTGTGGGCTTTAAAAAGAAAA
** * * *
1353277 AGGTGCCACGGAGTTGTGGACTT-AAAA-GGAACAAG-GTGCCACGGAGTTGTGGAC-TTAAAAG
65 AGGTGCCACGGAGTTGTGGGTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAA-
*
1353338 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
129 AGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
1353403 GAAGAAAAGG
Statistics
Matches: 348, Mismatches: 28, Indels: 26
0.87 0.07 0.06
Matches are distributed among these distances:
194 6 0.02
195 25 0.07
196 55 0.16
197 64 0.18
198 140 0.40
199 35 0.10
200 1 0.00
201 22 0.06
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.21
Consensus pattern (198 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGAGTTGTGGGCTTTAAAAAGAAAAA
GGTGCCACGGAGTTGTGGGTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAG
AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAA
GGG
Found at i:1353465 original size:62 final size:63
Alignment explanation
Indices: 1353382--1353529 Score: 219
Period size: 62 Copynumber: 2.4 Consensus size: 63
1353372 AAGAAAAAGG
* * *
1353382 TGCCACGGAGTTGTGGGCTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGGCTTTGAAGAAAAGGATGCCACTGAGTCATGGACTTTGAGA-AGAGAA
* * *
1353444 TGCCACTGAGTCGTGGACTTTGAAGAATAGGATGCCACTGAGTCATGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGGCTTTGAAGAAAAGGATGCCACTGAGTCATGGACTTTGAGAAGAGAA
1353507 TGCCACTGAGTCGTGGGCTTTGA
1 TGCCACTGAGTCGTGGGCTTTGA
1353530 GAAGAGATTT
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
61 1 0.01
62 53 0.69
63 23 0.30
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (63 bp):
TGCCACTGAGTCGTGGGCTTTGAAGAAAAGGATGCCACTGAGTCATGGACTTTGAGAAGAGAA
Found at i:1353514 original size:31 final size:31
Alignment explanation
Indices: 1353382--1353538 Score: 169
Period size: 31 Copynumber: 5.0 Consensus size: 31
1353372 AAGAAAAAGG
* * * *
1353382 TGCCACGGAGTTGTGGGCTTTGAAGAAAAGGA-
1 TGCCACTGAGTCGTGGACTTTG-AGAAGA-GAT
*
1353414 TGCCACTGAGTCGTGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGACTTTGAGA-AGAGAT
*
1353444 TGCCACTGAGTCGTGGACTTTGAAGAATAGGA-
1 TGCCACTGAGTCGTGGACTTTG-AGAAGA-GAT
*
1353476 TGCCACTGAGTCATGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
*
1353507 TGCCACTGAGTCGTGGGCTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1353538 T
1 T
1353539 TGAAGAATTG
Statistics
Matches: 111, Mismatches: 7, Indels: 15
0.83 0.05 0.11
Matches are distributed among these distances:
29 1 0.01
30 25 0.23
31 43 0.39
32 41 0.37
33 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
Found at i:1361286 original size:32 final size:32
Alignment explanation
Indices: 1361245--1361320 Score: 152
Period size: 32 Copynumber: 2.4 Consensus size: 32
1361235 CATTTAATAG
1361245 TGTATCGATACATCTGGGCAAATTTGCCTGCA
1 TGTATCGATACATCTGGGCAAATTTGCCTGCA
1361277 TGTATCGATACATCTGGGCAAATTTGCCTGCA
1 TGTATCGATACATCTGGGCAAATTTGCCTGCA
1361309 TGTATCGATACA
1 TGTATCGATACA
1361321 AAGATCGGTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (32 bp):
TGTATCGATACATCTGGGCAAATTTGCCTGCA
Found at i:1361347 original size:13 final size:13
Alignment explanation
Indices: 1361329--1361353 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1361319 CAAAGATCGG
1361329 TGTATCGATACAA
1 TGTATCGATACAA
1361342 TGTATCGATACA
1 TGTATCGATACA
1361354 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1361364 original size:21 final size:21
Alignment explanation
Indices: 1361340--1361398 Score: 118
Period size: 21 Copynumber: 2.8 Consensus size: 21
1361330 GTATCGATAC
1361340 AATGTATCGATACATTTGAGT
1 AATGTATCGATACATTTGAGT
1361361 AATGTATCGATACATTTGAGT
1 AATGTATCGATACATTTGAGT
1361382 AATGTATCGATACATTT
1 AATGTATCGATACATTT
1361399 CTTTGGCAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (21 bp):
AATGTATCGATACATTTGAGT
Found at i:1361456 original size:13 final size:13
Alignment explanation
Indices: 1361438--1361462 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1361428 TAAAAAAATA
1361438 TGTATCGATACAT
1 TGTATCGATACAT
1361451 TGTATCGATACA
1 TGTATCGATACA
1361463 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1362190 original size:67 final size:68
Alignment explanation
Indices: 1362066--1362192 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 68
1362056 ATTGGGTTTT
* *
1362066 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATGAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
1362131 AGA
66 AGA
* * * * * *
1362134 AAAG-TGATTAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTGAAGATGA
1 AAAGATGATGAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
1362193 GAAAAATGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
67 47 0.92
68 4 0.08
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (68 bp):
AAAGATGATGAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:1362414 original size:49 final size:49
Alignment explanation
Indices: 1362205--1363150 Score: 1126
Period size: 49 Copynumber: 19.9 Consensus size: 49
1362195 AAAATGATGT
* * *
1362205 CAATGTGCTGATTCAAGGCCAGCTACTTTGAACTTAAAGATGGAAAAGGTTC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* *
1362257 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1362300 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1362348 CAATGTGCTGATTCAAGGCCAACTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1362397 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1362446 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* ** * *
1362495 CAATGTGCTGAGTCAAGGATAGCTATATTGGACTTAAAGAAGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1362544 CAATATGCTGATTCAAGGCTAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1362587 CAATGTGCTGATTCGAGGCCAGTTACATTGGACTTAAAGAAGAAGTTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1362636 CAATATGCTGATTCAAGGCCAGCTATATTGGA-TT-----TAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1362679 TAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGAAGAAGTTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1362728 CAATATGATGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1362771 CAATGTACTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGTTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1362820 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1362863 CAATGTACTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1362912 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1362961 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1363010 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1363059 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1363108 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGA
1363151 TGAGGATGGA
Statistics
Matches: 765, Mismatches: 98, Indels: 65
0.82 0.11 0.07
Matches are distributed among these distances:
43 186 0.24
44 2 0.00
45 3 0.00
47 2 0.00
48 49 0.06
49 492 0.64
52 31 0.04
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:1362624 original size:92 final size:92
Alignment explanation
Indices: 1362205--1363146 Score: 1177
Period size: 92 Copynumber: 10.0 Consensus size: 92
1362195 AAAATGATGT
* * * *
1362205 CAATGTGCTGATTCAAGGCCAGCTACTTTGAACTTAAAGATGGAAAAGGTTCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AGAAGGTGCCAATATGCTGATT
1362270 CAAGGCCAGCTATATTGGACTTAAAGGTGC
63 CAAGGCCAGCTATATTGGACTTAAAGGTGC
** *
1362300 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGCCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
* *
1362364 GGCCAACTACATTGGACTTAAAGATGAAGGTGC
66 GGCCAGCTATATTGGACTT----A--AAGGTGC
*
1362397 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATA-AAGGTGCCAATATGCTGATTCA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AGAAGGTGCCAATATGCTGATTCA
1362461 AGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
65 AGGCCAGCTATATTGGACTT-A-----AAGGTGC
* ** *
1362495 CAATGTGCTGAGTCAAGGATAGCTATATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
*
1362560 GGCTAGCTATATTGGACTTAAAGGTGC
66 GGCCAGCTATATTGGACTTAAAGGTGC
* * *
1362587 CAATGTGCTGATTCGAGGCCAGTTACATTGGACTTAAAGAAGAAGTTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
*
1362652 GGCCAGCTATATTGGATTTAAAGGTGC
66 GGCCAGCTATATTGGACTTAAAGGTGC
* * * *
1362679 TAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGAAGAAGTTGCCAATATGATGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
1362744 GGCCAGCTATATTGGACTTAAAGGTGC
66 GGCCAGCTATATTGGACTTAAAGGTGC
* *
1362771 CAATGTACTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGTTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
1362836 GGCCAGCTATATTGGACTTAAAGGTGC
66 GGCCAGCTATATTGGACTTAAAGGTGC
* * * ** * *
1362863 CAATGTACTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
*
1362928 GGCCAGCTACATTGGACTTAAAGATAAAGATGC
66 GGCCAGCTATATTGGACTTAAAG-----G-TGC
* * * ** * *
1362961 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
*
1363026 GGCCAGCTACATTGGACTTAAAGATAAAGGTGC
66 GGCCAGCTATATTGGAC-T-----TAAAGGTGC
* * * ** * *
1363059 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
*
1363124 GGCCAGCTACATTGGACTTAAAG
66 GGCCAGCTATATTGGACTTAAAG
1363147 ATGATGAGGA
Statistics
Matches: 774, Mismatches: 49, Indels: 51
0.89 0.06 0.06
Matches are distributed among these distances:
91 37 0.05
92 349 0.45
95 39 0.05
97 49 0.06
98 293 0.38
99 2 0.00
104 5 0.01
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (92 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAAAGGTGC
Found at i:1362767 original size:22 final size:22
Alignment explanation
Indices: 1362742--1362809 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 22
1362732 ATGATGATTC
1362742 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
* * * *
1362764 AAGGTGCCA-ATGTACT-GA-TTC
1 AA-G-GCCAGCTATATTGGACTTA
*
1362785 AAGGCCAGCTACATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
1362807 AAG
1 AAG
1362810 AAGAAGTTGC
Statistics
Matches: 32, Mismatches: 9, Indels: 10
0.63 0.18 0.20
Matches are distributed among these distances:
19 4 0.12
20 4 0.12
21 6 0.19
22 9 0.28
23 5 0.16
24 4 0.12
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (22 bp):
AAGGCCAGCTATATTGGACTTA
Found at i:1362859 original size:22 final size:22
Alignment explanation
Indices: 1362834--1362899 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 22
1362824 ATGCTGATTC
1362834 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
* * * *
1362856 AAGGTGCCA-ATGTACT-GA-TTC
1 AA-G-GCCAGCTATATTGGACTTA
1362877 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
1362899 A
1 A
1362900 TGGTGAAGGT
Statistics
Matches: 31, Mismatches: 8, Indels: 10
0.63 0.16 0.20
Matches are distributed among these distances:
19 4 0.13
20 5 0.16
21 6 0.19
22 7 0.23
23 5 0.16
24 4 0.13
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (22 bp):
AAGGCCAGCTATATTGGACTTA
Found at i:1363443 original size:67 final size:68
Alignment explanation
Indices: 1363317--1363443 Score: 166
Period size: 67 Copynumber: 1.9 Consensus size: 68
1363307 ATTGGGTTTT
* * *
1363317 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
1363382 AGA
66 AGA
* * * * **
1363385 AAAG-TGATAAAGATGCTAATATGTTGATTCACGGCCAACGATATTGGGGTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
1363444 GTGTTAGGAT
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
67 46 0.92
68 4 0.08
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:1363845 original size:13 final size:13
Alignment explanation
Indices: 1363827--1363852 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1363817 TACAGCAAGT
1363827 ATGTATCGATACA
1 ATGTATCGATACA
1363840 ATGTATCGATACA
1 ATGTATCGATACA
1363853 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1366108 original size:21 final size:21
Alignment explanation
Indices: 1366075--1366119 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1366065 TTGCAAGTTG
*
1366075 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1366097 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1366117 AAA
1 AAA
1366120 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1367943 original size:15 final size:15
Alignment explanation
Indices: 1367923--1367953 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1367913 TAAAAATGTC
*
1367923 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1367938 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1367953 C
1 C
1367954 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1370015 original size:13 final size:13
Alignment explanation
Indices: 1369997--1370034 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1369987 AGAAATTCAA
*
1369997 TGTATCGATACAT
1 TGTATCGATACAC
1370010 TGTATCGATACAC
1 TGTATCGATACAC
1370023 TGTATCGATACA
1 TGTATCGATACA
1370035 GGAGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1370198 original size:20 final size:19
Alignment explanation
Indices: 1370157--1370199 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
1370147 ATCTTTTACA
1370157 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
1370177 AAATCACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
1370197 AAA
1 AAA
1370200 ACCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.30, C:0.21, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:1371980 original size:21 final size:21
Alignment explanation
Indices: 1371951--1372010 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
1371941 AAACTTGTTA
*
1371951 AAATCATTTTGTTTAAGGGAG
1 AAATTATTTTGTTTAAGGGAG
1371972 AAATTATTTTG-TT-----A-
1 AAATTATTTTGTTTAAGGGAG
1371986 AAATTATTTTGTTTAAGGGAG
1 AAATTATTTTGTTTAAGGGAG
1372007 AAAT
1 AAAT
1372011 AAAAGAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 14
0.67 0.02 0.30
Matches are distributed among these distances:
14 11 0.35
15 3 0.10
20 3 0.10
21 14 0.45
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.43
Consensus pattern (21 bp):
AAATTATTTTGTTTAAGGGAG
Found at i:1371991 original size:14 final size:14
Alignment explanation
Indices: 1371972--1371998 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1371962 TTTAAGGGAG
1371972 AAATTATTTTGTTA
1 AAATTATTTTGTTA
1371986 AAATTATTTTGTT
1 AAATTATTTTGTT
1371999 TAAGGGAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
AAATTATTTTGTTA
Found at i:1372644 original size:13 final size:13
Alignment explanation
Indices: 1372626--1372651 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1372616 TACAGCAAGT
1372626 ATGTATCGATACA
1 ATGTATCGATACA
1372639 ATGTATCGATACA
1 ATGTATCGATACA
1372652 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1373500 original size:52 final size:53
Alignment explanation
Indices: 1373422--1373522 Score: 150
Period size: 52 Copynumber: 1.9 Consensus size: 53
1373412 TTCAATGAGA
* * *
1373422 AAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGG
1 AAAAGGATGCCAATATGCTGATTCAAGGCCACCTACATTGAACTTAAAGATGG
* *
1373475 AAAAGG-TGCCAATATGCTGATTCAAGGCCACCTATATTGGACTTAAAG
1 AAAAGGATGCCAATATGCTGATTCAAGGCCACCTACATTGAACTTAAAG
1373523 GTGCCAATGT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 37 0.86
53 6 0.14
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (53 bp):
AAAAGGATGCCAATATGCTGATTCAAGGCCACCTACATTGAACTTAAAGATGG
Found at i:1373537 original size:43 final size:43
Alignment explanation
Indices: 1373476--1373565 Score: 153
Period size: 43 Copynumber: 2.1 Consensus size: 43
1373466 TAAAGATGGA
*
1373476 AAAGGTGCCAATATGCTGATTCAAGGCCACCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCACCAATATTGGACTT
* *
1373519 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCAATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCACCAATATTGGACTT
1373562 AAAG
1 AAAG
1373566 ATGAAGATGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCACCAATATTGGACTT
Found at i:1373655 original size:49 final size:49
Alignment explanation
Indices: 1373583--1373678 Score: 138
Period size: 49 Copynumber: 2.0 Consensus size: 49
1373573 TGAGAAAAGT
* *
1373583 GATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAA
1 GATAAAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTAAA
* * * *
1373632 GATAAAGGTGCTAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 GATAAAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTA
1373679 GAATGGTTGC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (49 bp):
GATAAAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTAAA
Found at i:1373722 original size:33 final size:35
Alignment explanation
Indices: 1373678--1373747 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
1373668 TATTGGGCTT
1373678 AGAATGGTTGCCACCGACTTGTGTGGGCTTT-GGA
1 AGAATGGTTGCCACCGACTTGTGTGGGCTTTAGGA
1373712 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGGA
1 AGAATGGTTGCCACCGACTTGTGTGGGCTTTAGGA
1373746 AG
1 AG
1373748 GGAGAAAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 26 0.74
34 9 0.26
ACGTcount: A:0.20, C:0.17, G:0.36, T:0.27
Consensus pattern (35 bp):
AGAATGGTTGCCACCGACTTGTGTGGGCTTTAGGA
Found at i:1373790 original size:34 final size:34
Alignment explanation
Indices: 1373732--1374310 Score: 551
Period size: 34 Copynumber: 17.3 Consensus size: 34
1373722 CACCGACTTG
* * *
1373732 TGTGGGCTTTAGGAAGGGAGAAAGATGCCACGGAGT
1 TGTGGGCTTTA--AAAGGAAAAAGGTGCCACGGAGT
* *
1373768 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCATGGAGT
1 TGTGGGCTTTAAAA-GGAAAAAG-GTGCCACGGAGT
* *
1373803 TGTGGGCTTTAAAA-GAAAAAAGTGCCATGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
*
1373836 TGTTGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAG-GTGCCACGGAGT
* *
1373873 TGTGGGCTTTAAAAAGAAAAAGGTACCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
*
1373907 TGTGGGCTTT------AAAAAGGTGCCACGGGGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
* * * *
1373935 CGTGGAC-TTAAAA-AAAAAAGGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
* *
1373967 GGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
1374001 TGTGGG-TTTGAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAG-GTGCCACGGAGT
*
1374037 TGTGGGCTTTAAAAAGAAAAA-GTGCCAC-GAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
* * *
1374069 GGTGGGCTTTGAGAA-GAAAAAGGTTGCCACGGAAT
1 TGTGGGCTTT-AAAAGGAAAAAGG-TGCCACGGAGT
* * *
1374104 TGTGGGCTTT--AACG-----GGTGCCACGAAAT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
* * *
1374131 TGTGGTC-TTAGAAGGAAAAAGAGTGCCA-TGATGT
1 TGTGGGCTTTAAAAGGAAAAAG-GTGCCACGGA-GT
*
1374165 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
* *
1374199 TGTGGAC-TTAAAAGGAACAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
*
1374232 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAA-GGAAAAAG-GTGCCACGGAGT
*
1374267 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
1374301 TGTGGGCTTT
1 TGTGGGCTTT
1374311 GAAGAAAGGG
Statistics
Matches: 460, Mismatches: 46, Indels: 76
0.79 0.08 0.13
Matches are distributed among these distances:
26 2 0.00
27 18 0.04
28 26 0.06
32 42 0.09
33 83 0.18
34 126 0.27
35 90 0.20
36 50 0.11
37 23 0.05
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (34 bp):
TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGT
Found at i:1373945 original size:27 final size:28
Alignment explanation
Indices: 1373889--1373949 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
1373879 CTTTAAAAAG
* *
1373889 AAAAAGGTACCACGGAGTTGTGGGCTTT
1 AAAAAGGTACCACGGAGTCGTGGACTTT
* * *
1373917 AAAAAGGTGCCACGGGGTCGTGGACTTA
1 AAAAAGGTACCACGGAGTCGTGGACTTT
1373945 AAAAA
1 AAAAA
1373950 AAAAGGTGCC
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:0.34, C:0.15, G:0.31, T:0.20
Consensus pattern (28 bp):
AAAAAGGTACCACGGAGTCGTGGACTTT
Found at i:1374031 original size:164 final size:164
Alignment explanation
Indices: 1373752--1374078 Score: 489
Period size: 164 Copynumber: 2.0 Consensus size: 164
1373742 AGGAAGGGAG
* * ** *
1373752 AAAGATGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCATGGAGTTGTGGGCTTTAAAA
1 AAAGATGCCACGGAGTCGTGGACTTAAAA-GAAAAAAGAGTGCCACAGAGTGGTGGGCTTTAAAA
*
1373817 GAAAAAAGTGCCATGGAGTTGTTGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
65 GAAAAAAGTGCCACGGAGTTGTTGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
*
1373882 TAAAAAGAAAAAGGTACCACGGAGTTGTGGGCTTTAA
130 TAAAAAGAAAAA-GTACCAC-GAGTGGTGGGCTTTAA
* *
1373919 AAAGGTGCCACGGGGTCGTGGACTTAAAA-AAAAAAG-GTGCCACAGAGTGGTGGGCTTTAAAAA
1 AAAGATGCCACGGAGTCGTGGACTTAAAAGAAAAAAGAGTGCCACAGAGTGGTGGGCTTT-AAAA
* *
1373982 GAAAAAGGTGCCACGGAGTTG-TGGGTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
65 GAAAAAAGTGCCACGGAGTTGTTGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
*
1374046 TAAAAAGAAAAAGTGCCACGAGTGGTGGGCTTT
130 TAAAAAGAAAAAGTACCACGAGTGGTGGGCTTT
1374079 GAGAAGAAAA
Statistics
Matches: 147, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
162 13 0.09
163 6 0.04
164 73 0.50
165 29 0.20
167 26 0.18
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.21
Consensus pattern (164 bp):
AAAGATGCCACGGAGTCGTGGACTTAAAAGAAAAAAGAGTGCCACAGAGTGGTGGGCTTTAAAAG
AAAAAAGTGCCACGGAGTTGTTGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
AAAAAGAAAAAGTACCACGAGTGGTGGGCTTTAA
Found at i:1374124 original size:164 final size:160
Alignment explanation
Indices: 1373785--1374280 Score: 492
Period size: 164 Copynumber: 3.0 Consensus size: 160
1373775 TTAAAAGGGA
* * *
1373785 AAAAGAGTGCCATGGAGTTGTGGGCTTT-AAAAGAAAAAAGTGCCATGGAGTTGTTGGCTTTGAA
1 AAAAG-GTGCCA-CGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCA-GGAGTTG-TGGGTTTGAA
*
1373849 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTACCACGGAGTTGTGGGC
62 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA-GTGCCACGGAGTTGTGGGC
* * * *
1373914 TTT----AAAAAGGTGCCACGGGGTCGTGGACTTAAAAAA
126 TTTAAAGAAAAAGGTGCCACGGAGTTGTGGGCTT-----T
*
1373950 AAAAGGTGCCACAGAGTGGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGTTTGAAAA
1 AAAAGGTGCCAC-GAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCA-GGAGTTGTGGGTTTGAAAA
*
1374015 GGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGCCAC-GAGTGGTGGGCTTT
64 GGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGCCACGGAGTTGTGGGCTTT
*
1374079 GAGAAGAAAAAGGTTGCCACGGAATTGTGGGCTTT
129 -A-AAGAAAAAGG-TGCCACGGAGTTGTGGGCTTT
** * * * * *
1374114 AACGGGTGCCACGAAATTGTGGTC-TTAGAAGGAAAAAGAGTGCCATGATGTTGTGGGCTTT-AA
1 AAAAGGTGCCACG-AGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCAGGA-GTTGTGGG-TTTGAA
* * * * *
1374177 AA-AGAAAAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGGAACAAGGTGCCACGGAGTTGTGGAC
62 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA-AAAGTGCCACGGAGTTGTGGGC
*
1374239 TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
126 TTTAAA--GAAAAAG-GTGCCACGGAGTTGTGGGCTTT
1374277 AAAA
1 AAAA
1374281 AGAAAAAGGT
Statistics
Matches: 283, Mismatches: 30, Indels: 38
0.81 0.09 0.11
Matches are distributed among these distances:
161 11 0.04
162 41 0.14
163 68 0.24
164 109 0.39
165 31 0.11
168 7 0.02
169 16 0.06
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.21
Consensus pattern (160 bp):
AAAAGGTGCCACGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCAGGAGTTGTGGGTTTGAAAAGG
GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGCCACGGAGTTGTGGGCTTTAA
AGAAAAAGGTGCCACGGAGTTGTGGGCTTT
Found at i:1374370 original size:198 final size:195
Alignment explanation
Indices: 1373752--1374372 Score: 708
Period size: 198 Copynumber: 3.1 Consensus size: 195
1373742 AGGAAGGGAG
* * * *
1373752 AAAGATGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCATGGAGTTGTGGGCTTTAAA
1 AAAG-TGCCACTGAGTTGTGGGCTTTAAAA-AGAAAAAG-GTGCCACGGAGTTGTGGGC-TTAAA
* *
1373816 A-GAAAAAAGTGCCATGGAGTTGTTGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGC
62 AGGAAAAAGGTGCCACGGAGTTG-TGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGC
* *
1373880 TTTAAAAAGAAAAAGGTACCACGGAGTTGTGGGCTTTAAAAA-GGTGCCACGGGGTCGTGGACTT
125 TTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGTGCCAC-GAGTCGTGGACTT
* *
1373944 AAAAAAA
189 AGAGAAA
* * *
1373951 AAAGGTGCCACAGAGTGGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGTTTGAAAAG
1 AAA-GTGCCACTGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTT-AAAA-
* *
1374016 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-AG-AAAA-AGTGCCAC-GAGTGGTGGGCT
63 GGAAAAAG-GTGCCACGGAGTTGT-GGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCT
* * * * * * *
1374077 TTGAGAAGAAAAAGGTTGCCACGGAATTGTGGGCTTT--AACGGGTGCCACGAAATTGTGGTCTT
126 TTAAAAAGAAAAAGG-TGCCACGGAGTTGTGGGCTTTAAAAAGGGTGCCACG-AGTCGTGGACTT
1374140 AGAAGGAAA
189 AG-A-GAAA
*
1374149 AAGAGTGCCA-TGATGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAG
1 AA-AGTGCCACTGA-GTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAAAAG
*
1374213 GAACAAGGTGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
64 GAAAAAGGTGCCACGGAGTTGTGG-CTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1374277 AAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAGGGATGCCACTGAGTCGTGGACTT
128 AAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AA-AAAGGG-TGCCAC-GAGTCGTGGACTT
* *
1374342 TGAGACA
189 AGAGAAA
*
1374349 AAA-TGCCACTGAGTCGTGGGCTTT
1 AAAGTGCCACTGAGTTGTGGGCTTT
1374373 GAAGAATAGG
Statistics
Matches: 358, Mismatches: 38, Indels: 53
0.80 0.08 0.12
Matches are distributed among these distances:
194 8 0.02
195 20 0.06
196 52 0.15
197 64 0.18
198 118 0.33
199 31 0.09
200 23 0.06
201 25 0.07
202 16 0.04
203 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (195 bp):
AAAGTGCCACTGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAAAAGGA
AAAAGGTGCCACGGAGTTGTGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
AAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGTGCCACGAGTCGTGGACTTAGAGAAA
Found at i:1374371 original size:62 final size:63
Alignment explanation
Indices: 1374290--1374437 Score: 230
Period size: 62 Copynumber: 2.4 Consensus size: 63
1374280 AAGAAAAAGG
* *
1374290 TGCCACGGAGTTGTGGGCTTTGAAGAA-AGGGATGCCACTGAGTCGTGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGGCTTTGAAGAATA-GGATGCCACTGAGTCGTGGACTTTGAGA-AGAGAA
*
1374352 TGCCACTGAGTCGTGGGCTTTGAAGAATAGGATGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGGCTTTGAAGAATAGGATGCCACTGAGTCGTGGACTTTGAGAAGAGAA
1374415 TGCCACTGAGTCGTGGGCTTTGA
1 TGCCACTGAGTCGTGGGCTTTGA
1374438 GAAGAGATTT
Statistics
Matches: 80, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
61 1 0.01
62 54 0.68
63 25 0.31
ACGTcount: A:0.24, C:0.17, G:0.34, T:0.25
Consensus pattern (63 bp):
TGCCACTGAGTCGTGGGCTTTGAAGAATAGGATGCCACTGAGTCGTGGACTTTGAGAAGAGAA
Found at i:1374446 original size:31 final size:30
Alignment explanation
Indices: 1374290--1374445 Score: 188
Period size: 31 Copynumber: 5.0 Consensus size: 30
1374280 AAGAAAAAGG
* * *
1374290 TGCCACGGAGTTGTGGGCTTTGAAGAAAGGGA
1 TGCCACTGAGTCGTGGGCTTTG-AG-AAGAGA
* *
1374322 TGCCACTGAGTCGTGGACTTTGAGACA-AAA
1 TGCCACTGAGTCGTGGGCTTTGAGA-AGAGA
*
1374352 TGCCACTGAGTCGTGGGCTTTGAAGAATAGGA
1 TGCCACTGAGTCGTGGGCTTTG-AGAAGA-GA
*
1374384 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGGCTTTGAGAAGAGA
1374414 TTGCCACTGAGTCGTGGGCTTTGAGAAGAGA
1 -TGCCACTGAGTCGTGGGCTTTGAGAAGAGA
1374445 T
1 T
1374446 TTGAAGAATT
Statistics
Matches: 109, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
30 27 0.25
31 41 0.38
32 41 0.38
ACGTcount: A:0.26, C:0.16, G:0.34, T:0.24
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGGCTTTGAGAAGAGA
Found at i:1380619 original size:13 final size:13
Alignment explanation
Indices: 1380601--1380625 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1380591 CATTTTTCAT
1380601 TGTATCGATACAC
1 TGTATCGATACAC
1380614 TGTATCGATACA
1 TGTATCGATACA
1380626 GGGGGATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1383213 original size:13 final size:13
Alignment explanation
Indices: 1383195--1383220 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1383185 TACACAAAGT
1383195 ATGTATCGATACA
1 ATGTATCGATACA
1383208 ATGTATCGATACA
1 ATGTATCGATACA
1383221 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1383218 original size:32 final size:33
Alignment explanation
Indices: 1383177--1383240 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1383167 TAGCCAAACT
**
1383177 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1383209 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1383241 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1393035 original size:4 final size:4
Alignment explanation
Indices: 1393026--1393054 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
1393016 AAAGCAAAAC
1393026 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1393055 CCTCAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:1395263 original size:79 final size:77
Alignment explanation
Indices: 1395119--1395299 Score: 204
Period size: 79 Copynumber: 2.3 Consensus size: 77
1395109 TTTTGGAGAT
* * * *
1395119 AATAACGGGGTTGGAGTATCCCCAGTTGTGAAAAATCGATGATTAGGAAATAAAATCAGGATTGG
1 AATAAC-GGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTAGGAAATAAAACCAGGATTGG
1395184 AGTATCCCCTCGGA
65 AGTATCCCCTC-GA
* * * *
1395198 AATAACGAGGTTGGAGTATCCCCAATTATGATAAATCAAT-ATTTTGGAATTAAAGCCAAGG-TT
1 AATAACG-GGTTGGAGTATCCCCAATTATGAAAAATCAATGA-TTAGGAAATAAAACC-AGGATT
1395261 GGAGTATCCCCTCGA
63 GGAGTATCCCCTCGA
*
1395276 AGGTAACGGGATTGGAGTATCCCC
1 A-ATAACGGG-TTGGAGTATCCCC
1395300 GATGAAATAA
Statistics
Matches: 88, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
78 7 0.08
79 78 0.89
80 3 0.03
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (77 bp):
AATAACGGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTAGGAAATAAAACCAGGATTGGA
GTATCCCCTCGA
Found at i:1395409 original size:52 final size:50
Alignment explanation
Indices: 1395313--1396115 Score: 282
Period size: 52 Copynumber: 15.4 Consensus size: 50
1395303 GAAATAACGA
* ** * *
1395313 GGTTGGAGTATCCTCGATT-GTGAAAAATTGGTGTTTTTGGAAATAAAATCG
1 GGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG--TTTGAAAATAAAATCG
* *
1395364 GAGTTGGAGTATCCCGGATTAAAGGAAAATTGGTGCTTTGAAAATAAAACTAG
1 G-GTTGGAGTATCCCCGATTAAAGGAAAATTGGTG-TTTGAAAATAAAA-TCG
** * * *
1395417 GGTTGGAGTATCCCCGATT-GTGGAAAATTAGTGTTTTAGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTGA-AAATAAAATC-G
* * * * * *
1395468 GGTTGGAGTATCCCTGATT-ATGAGAAATCAAT-AT-TTTGGAAATAAAGTCG
1 GGTTGGAGTATCCCCGATTAAAG-GAAA--ATTGGTGTTTGAAAATAAAATCG
* * ** * *
1395518 TGGTTGGAGTATCCCCTCGGAGGTAACGG--GGTTGGAGTATCCCCGATGAAAT--AAT-G
1 -GGTTGGAGTAT-CCC-C-GA-TTAAAGGAAAATTGGTGT-T---TGA--AAATAAAATCG
* * *
1395574 AGGTTAGAGTATCCTCGATT---GTGAAAACTTGGTGTTTTTGAAAGTAAAATCG
1 -GGTTGGAGTATCCCCGATTAAAG-GAAAA-TTGGTG--TTTGAAAATAAAATCG
* * *
1395626 AAGTTGGAGTATCCCCGATTAAAGAAAAATTGGTGTTTTGAAAATAAAACCAG
1 -GGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG-TTTGAAAATAAAATC-G
* * ** * * *
1395679 GGTTAGAGTATCCACGATT-GTGGAAAATTAGTGTTTTAGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTGA-AAATAAAATC-G
* * * * * **
1395730 GGTTGAAGTATCCTCGATT-ATGAGAAATCAAT-AT-TTTGAAAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTAAAG-GAAA--ATTGGTGTTTGAAAATAAAATC-G
* * ** * ***** *
1395781 GGTTGGAGTATCCCCTCGGAGGT-AACG-AGGTTGGAGTATCCCCGATGAAATAACG
1 GGTTGGAGTAT-CCC-C-GA-TTAAAGGAAAATTGGTGT-TTGAAAAT-AAA-ATCG
* ** * *
1395836 AGGTTGGAGTATCCTCGATT-GTGAAAAATTGGTGTTTTTGGAAATAAAATCG
1 -GGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG--TTTGAAAATAAAATCG
* *
1395888 GAGTTGGAGTATCCCCAATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 G-GTTGGAGTATCCCCGATTAAAGGAAAATTGGTG-TTTGAAAATAAAATC-G
* * **
1395941 GGTTGAAGTATCCCCGATT-ATGGAAAATTGGTGTTTTTGGCAATAAAATCG
1 GGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG--TTTGAAAATAAAATCG
* * *
1395992 GAGTTGGAGTATCCTCGATTAAAGAAAAATTAGTGTTTTGAAAATAAAATCGG
1 G-GTTGGAGTATCCCCGATTAAAGGAAAATTGGTG-TTTGAAAATAAAATC-G
* * * * * *
1396045 GGTTGGAGTATCCCCGATT-ATGAAAAATTAGTGTTTTAGAAATAAAACCAA
1 GGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTGA-AAATAAAATC-G
1396096 GGTTGGAGTATCCCCGATTA
1 GGTTGGAGTATCCCCGATTA
1396116 TGAGAAATCA
Statistics
Matches: 567, Mismatches: 124, Indels: 121
0.70 0.15 0.15
Matches are distributed among these distances:
49 4 0.01
50 14 0.02
51 184 0.32
52 224 0.40
53 71 0.13
54 23 0.04
55 15 0.03
56 25 0.04
57 3 0.01
59 4 0.01
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTGAAAATAAAATCG
Found at i:1395671 original size:262 final size:262
Alignment explanation
Indices: 1395206--1396059 Score: 1298
Period size: 262 Copynumber: 3.3 Consensus size: 262
1395196 GAAATAACGA
* * * * * **
1395206 GGTTGGAGTATCCCCAATTATGATAAATCAATATTTTGGAATTAAAGCCAAGGTTGGAGTATCCC
1 GGTTGGAGTATCCTCGATTATGAGAAATCAATATTTTGAAAATAAAGCCGGGGTTGGAGTATCCC
* *
1395271 CTCGAAGGTAACGGGATTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGA
66 CTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGA
* *
1395336 AAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCGGATTAAAGGAAAATTGGTGCT
131 AAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTT
*
1395401 TTGAAAATAAAACTAGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACC
196 TTGAAAATAAAACCAGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACC
1395466 GG
261 GG
* * *
1395468 GGTTGGAGTATCC-CTGATTATGAGAAATCAATATTTTGGAAATAAAGTCGTGGTTGGAGTATCC
1 GGTTGGAGTATCCTC-GATTATGAGAAATCAATATTTTGAAAATAAAGCCGGGGTTGGAGTATCC
* *
1395532 CCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAATGAGGTTAGAGTATCCTCGATTGTG
65 CCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTG
* * *
1395597 AAAACTTGGTGTTTTT-GAAAGTAAAATCGAAGTTGGAGTATCCCCGATTAAAGAAAAATTGGTG
130 AAAAATTGGTGTTTTTGGAAA-TAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG
* *
1395661 TTTTGAAAATAAAACCAGGGTTAGAGTATCCACGATTGTGGAAAATTAGTGTTTTAGAAATAAAA
194 TTTTGAAAATAAAACCAGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAA
1395726 CCGG
259 CCGG
*
1395730 GGTTGAAGTATCCTCGATTATGAGAAATCAATATTTTGAAAATAAAGCCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCTCGATTATGAGAAATCAATATTTTGAAAATAAAGCCGGGGTTGGAGTATCCC
*
1395795 CTCGGAGGTAACGAGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGA
66 CTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGA
*
1395860 AAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCAATTAAAGGAAAATTGGTGTT
131 AAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTT
* * * * * * *
1395925 TTGAAAATAAAACCGGGGTTGAAGTATCCCCGATTATGGAAAATTGGTGTTTTTGGCAATAAAAT
196 TTGAAAATAAAACCAGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTG-TTTTAGAAATAAAAC
1395990 CGG
260 CGG
* * * * * * **
1395993 AGTTGGAGTATCCTCGATTAAAGAAAAATTAGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCC
1 GGTTGGAGTATCCTCGATT-ATGAGAAATCAATATTTTGAAAATAAAGCCGGGGTTGGAGTATCC
1396058 CC
65 CC
1396060 GATTATGAAA
Statistics
Matches: 539, Mismatches: 47, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
261 5 0.01
262 457 0.85
263 37 0.07
264 40 0.07
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (262 bp):
GGTTGGAGTATCCTCGATTATGAGAAATCAATATTTTGAAAATAAAGCCGGGGTTGGAGTATCCC
CTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGA
AAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTT
TTGAAAATAAAACCAGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACC
GG
Done.