Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold76
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: 2182696
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.29
Warning! 286211 characters in sequence are not A, C, G, or T
File 10 of 13
Found at i:1734596 original size:84 final size:84
Alignment explanation
Indices: 1734455--1734628 Score: 312
Period size: 84 Copynumber: 2.1 Consensus size: 84
1734445 CACTTAGCAA
*
1734455 TTTGTATCGATACAATGTATCGACACTAAGCAATTTGTATCAATACATCTGGGTGTGTATCGATA
1 TTTGTATCGATACAATGTATCGACACTAAGCAATTTGTATCAATACATCTGGGTGTGTAGCGATA
* *
1734520 TATTTAAGGGTTTTGACCT
66 AATTTAAGGGTTTTGACAT
*
1734539 TTTGTATCGATACAATGTATCGACACTTAGCAATTTGTATCAATACATCTGGGTGTGTAGCGATA
1 TTTGTATCGATACAATGTATCGACACTAAGCAATTTGTATCAATACATCTGGGTGTGTAGCGATA
1734604 AATTTAAGGGTTTTGACAT
66 AATTTAAGGGTTTTGACAT
1734623 TTTGTA
1 TTTGTA
1734629 GCTTAAGTCA
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 86 1.00
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.39
Consensus pattern (84 bp):
TTTGTATCGATACAATGTATCGACACTAAGCAATTTGTATCAATACATCTGGGTGTGTAGCGATA
AATTTAAGGGTTTTGACAT
Found at i:1734718 original size:22 final size:22
Alignment explanation
Indices: 1734684--1734726 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1734674 TACATTAAGT
1734684 ATTTTTACTTTGAAAAACATTG
1 ATTTTTACTTTGAAAAACATTG
*
1734706 ATTTATTAC-TTGAACAACATT
1 ATTT-TTACTTTGAAAAACATT
1734727 TAAACTTGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (22 bp):
ATTTTTACTTTGAAAAACATTG
Found at i:1742635 original size:151 final size:148
Alignment explanation
Indices: 1742118--1742707 Score: 471
Period size: 151 Copynumber: 3.9 Consensus size: 148
1742108 TTTGGATGTT
* * * * *
1742118 AGGGAAAAAGA-ATGAACCTATCCCTAAATGA-CCACCCTCAGCATAAAATCGAATTCAGTGATA
1 AGGGAAAAAGAGATGAACCTAT-CCTAAAT-ATACACCTTCAGCATAAAAGCGAACTCGGTGATA
* * * * * * * *
1742181 ATCTAAGACTTGATTTTAAAAAGAAAATTACTAAAATGCCCTTAAGGAATACCTTCGACGTAAAA
64 A-CCAAGACTTGGTTTT----A-AAAATTACGAAAATACCCTTAGGGTATACCTT-GACATGAAA
* *
1742246 GTATCCCGATAACACTAAAGGTCTTAAA
122 GTATCCAG-TAACACTAAAGGACTTAAA
* * * * *
1742274 A-AGAAAAAGAGATGAACCTATCCTAAATATACACCTTCAACATAGAAGC-AGACTCGATAATAA
1 AGGGAAAAAGAGATGAACCTATCCTAAATATACACCTTCAGCATAAAAGCGA-ACTCGGTGATAA
* * *
1742337 CCAAAGACTAGAG-TTTAAAATATTACGAAAATACCCTTATGGGTCTACCTTTGACATGAAAATA
65 CC-AAGACTTG-GTTTTAAAA-ATTACGAAAATACCCTTA-GGGTATACC-TTGACATGAAAGTA
* * *
1742401 TTCGGTAACTCTAAAGGACTTAAA
125 TCCAGTAACACTAAAGGACTTAAA
* * ** * *
1742425 AAGG-AAAAGTGATGAACCTATCCTAAATATACACCTTTGGCATAGAAGCAGACCT-GGTGATAA
1 AGGGAAAAAGAGATGAACCTATCCTAAATATACACCTTCAGCATAAAAGC-GAACTCGGTGATAA
* *
1742488 CCAAGGACTTGGTTTTAAAAACTTACGAAAAATACCCCTAGGGTATACCTCTGACATGAAAGTGT
65 CCAA-GACTTGGTTTTAAAAA-TTACG-AAAATACCCTTAGGGTATACCT-TGACATGAAAGTAT
* *
1742553 CCAGTAACCCTAGAGGACTTAAA
126 CCAGTAACACTAAAGGACTTAAA
**
1742576 AGGGAAAAAG-GATGAACCTATCCTAAACGTACACCTTCAGCATAAAAGCGAACTCGGTGATAAC
1 AGGGAAAAAGAGATGAACCTATCCTAAATATACACCTTCAGCATAAAAGCGAACTCGGTGATAAC
** * * * *
1742640 CTAAGA-TTCAATTCTAAGAAAATATGAAAATACTCCTATA-GGTATACCTTCAACATGAAAGTA
66 C-AAGACTT-GGTTTTAA-AAATTACGAAAATAC-CCT-TAGGGTATACCTT-GACATGAAAGTA
1742703 TCCAG
125 TCCAG
1742708 ATAATCCTGG
Statistics
Matches: 353, Mismatches: 57, Indels: 53
0.76 0.12 0.11
Matches are distributed among these distances:
150 22 0.06
151 223 0.63
152 44 0.12
153 3 0.01
154 3 0.01
155 47 0.13
156 11 0.03
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.24
Consensus pattern (148 bp):
AGGGAAAAAGAGATGAACCTATCCTAAATATACACCTTCAGCATAAAAGCGAACTCGGTGATAAC
CAAGACTTGGTTTTAAAAATTACGAAAATACCCTTAGGGTATACCTTGACATGAAAGTATCCAGT
AACACTAAAGGACTTAAA
Found at i:1744008 original size:13 final size:12
Alignment explanation
Indices: 1743946--1744012 Score: 57
Period size: 12 Copynumber: 5.7 Consensus size: 12
1743936 AGTGTCTAGC
1743946 TTGTTGTTTTTG
1 TTGTTGTTTTTG
*
1743958 TTGTTGTTCTT-
1 TTGTTGTTTTTG
* * *
1743969 TTGCT-ATTATG
1 TTGTTGTTTTTG
* *
1743980 TTGCTATTTTTG
1 TTGTTGTTTTTG
1743992 TTGTTGTTTTTG
1 TTGTTGTTTTTG
1744004 CTTGTTGTT
1 -TTGTTGTT
1744013 GGTTTTACAG
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
10 2 0.05
11 9 0.21
12 24 0.56
13 8 0.19
ACGTcount: A:0.04, C:0.06, G:0.21, T:0.69
Consensus pattern (12 bp):
TTGTTGTTTTTG
Found at i:1744086 original size:13 final size:13
Alignment explanation
Indices: 1744049--1744091 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
1744039 GATGTTGCTG
1744049 CTGGTGTTGCTTCAA
1 CTGGTGTTGCTT--A
* *
1744064 TTGCTGTTGCTTA
1 CTGGTGTTGCTTA
1744077 CTGGTGTTGCTTA
1 CTGGTGTTGCTTA
1744090 CT
1 CT
1744092 TTCGATTGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 14 0.58
15 10 0.42
ACGTcount: A:0.09, C:0.19, G:0.26, T:0.47
Consensus pattern (13 bp):
CTGGTGTTGCTTA
Found at i:1744087 original size:28 final size:26
Alignment explanation
Indices: 1744030--1744088 Score: 82
Period size: 28 Copynumber: 2.2 Consensus size: 26
1744020 CAGCTAGTGC
*
1744030 TGCTTCATTGATGTTGCTGCTGGTGT
1 TGCTTCATTGATGTTGCTACTGGTGT
*
1744056 TGCTTCAATTGCTGTTGCTTACTGGTGT
1 TGCTTC-ATTGATGTTGC-TACTGGTGT
1744084 TGCTT
1 TGCTT
1744089 ACTTTCGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 6 0.21
27 10 0.34
28 13 0.45
ACGTcount: A:0.08, C:0.17, G:0.27, T:0.47
Consensus pattern (26 bp):
TGCTTCATTGATGTTGCTACTGGTGT
Found at i:1744334 original size:19 final size:19
Alignment explanation
Indices: 1744291--1744334 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
1744281 TTTCTATTTC
1744291 GTTTTTGTTTTCTTTTTTT
1 GTTTTTGTTTTCTTTTTTT
**
1744310 CATTTTG-TTTCTTTTTTTT
1 GTTTTTGTTTTC-TTTTTTT
1744329 GTTTTT
1 GTTTTT
1744335 TATTTCGTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.02, C:0.07, G:0.09, T:0.82
Consensus pattern (19 bp):
GTTTTTGTTTTCTTTTTTT
Found at i:1744346 original size:38 final size:38
Alignment explanation
Indices: 1744291--1744363 Score: 87
Period size: 38 Copynumber: 1.9 Consensus size: 38
1744281 TTTCTATTTC
* *
1744291 GTTTTTGTTTTC-TTTTTTTCATTTTGTTTCTTTTTTTT
1 GTTTTTGTTTTCGTTTTTGTCATTTT-TTTCATTTTTTT
*
1744329 GTTTTT-TATTTCGTTTTTGTCCTTTTTTTCATTTT
1 GTTTTTGT-TTTCGTTTTTGTCATTTTTTTCATTTT
1744364 CTATTCTCTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
37 1 0.03
38 18 0.60
39 11 0.37
ACGTcount: A:0.04, C:0.10, G:0.08, T:0.78
Consensus pattern (38 bp):
GTTTTTGTTTTCGTTTTTGTCATTTTTTTCATTTTTTT
Found at i:1744461 original size:40 final size:40
Alignment explanation
Indices: 1744412--1744512 Score: 114
Period size: 40 Copynumber: 2.5 Consensus size: 40
1744402 CTTCTTTTGT
* **
1744412 TGCAACTGTTTTGATTGTTTTCTCTATTTTTTCCTTTT-AA
1 TGCAGCTGTTTTGATTGTTTTCTCTATTTCCT-CTTTTCAA
* * *
1744452 TGTAGCTGTTTCGATTGCTTTCTCTATTTCCTCTTTTCAA
1 TGCAGCTGTTTTGATTGTTTTCTCTATTTCCTCTTTTCAA
* *
1744492 TGCAGCTATTTTGATTATTTT
1 TGCAGCTGTTTTGATTGTTTT
1744513 ATCCTTTTGA
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
39 5 0.10
40 44 0.90
ACGTcount: A:0.15, C:0.17, G:0.12, T:0.56
Consensus pattern (40 bp):
TGCAGCTGTTTTGATTGTTTTCTCTATTTCCTCTTTTCAA
Found at i:1745623 original size:42 final size:42
Alignment explanation
Indices: 1745555--1745683 Score: 150
Period size: 42 Copynumber: 3.0 Consensus size: 42
1745545 TCATGTAAGC
* *
1745555 AAAGAATAAAGAAGTCTCCCAAGTCAAAGCTGATAGGCAGACA
1 AAAG-ATAAAGAAGTCTCTCAGGTCAAAGCTGATAGGCAGACA
* *
1745598 AAAGTTAAAGAAGTCTCTCGGGTCAAAGCTGATAGGCAGACA
1 AAAGATAAAGAAGTCTCTCAGGTCAAAGCTGATAGGCAGACA
* ** * * * *
1745640 AAGGATATTGAAGTCTCTAAGGTCAAAACCGATAGGTAGACA
1 AAAGATAAAGAAGTCTCTCAGGTCAAAGCTGATAGGCAGACA
1745682 AA
1 AA
1745684 GGGTGAAGAA
Statistics
Matches: 73, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 69 0.95
43 4 0.05
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.18
Consensus pattern (42 bp):
AAAGATAAAGAAGTCTCTCAGGTCAAAGCTGATAGGCAGACA
Found at i:1746493 original size:90 final size:89
Alignment explanation
Indices: 1746330--1746799 Score: 355
Period size: 90 Copynumber: 5.2 Consensus size: 89
1746320 CAGTATCTAT
* * * * * * * *
1746330 GATGCATCAGTATCATCTGGCTAA-TGAAGGAAAAGGATATGACAAAGAAAT-GTTTAGTCTACA
1 GATGCATTAATATCATCTAGC-AATTGAAGGAAAA-GATATGACTAGGAAATGGATT-GGCTGCA
* * *
1746393 -CTCTTGCCCTAAGGTATTAGGATCAGG
63 CCT-TTACCCTAAGGTATTAGGCTCTGG
* * * * **
1746420 GATGCATCAATATCATCTAGTAATTGAATGAAAATGATATGACTGGGAAATGGACAGGCTGCACC
1 GATGCATTAATATCATCTAGCAATTGAAGGAAAA-GATATGACTAGGAAATGGATTGGCTGCACC
* *
1746485 TTTACCCTAAGGTATTGGGCTTTGG
65 TTTACCCTAAGGTATTAGGCTCTGG
* * * * * * *
1746510 GATGCATCAATATCATTTGGCAATTGAGGGAAAAAGATATGACT-GGAAATGGATGGGCCGCACT
1 GATGCATTAATATCATCTAGCAATTGAAGG-AAAAGATATGACTAGGAAATGGATTGGCTGCACC
* * **
1746574 TTTATCCTAAGGTATTTGGCTCTAT
65 TTTACCCTAAGGTATTAGGCTCTGG
* * * * **
1746599 GATGCATTAAGATCATCTAGCAATTAAAGGAAAAGGATATGATTAAGAAATGTG-TTGTTTGCAC
1 GATGCATTAATATCATCTAGCAATTGAAGGAAAA-GATATGACTAGGAAATG-GATTGGCTGCA-
* *
1746663 CCTTGT-CCC-AAGATATTAGGATCTGG
63 CCTT-TACCCTAAGGTATTAGGCTCTGG
* * *
1746689 GATGCATTAATATCATCTGGCAATTGAAGGAAAAGCATATAACTAGGAAATGGA-TGGACTGGAC
1 GATGCATTAATATCATCTAGCAATTGAAGGAAAAG-ATATGACTAGGAAATGGATTGG-CTGCAC
* *
1746753 CTTTATCCTAAGGAAATTAGGCT-TGG
64 CTTTACCCTAAGG-TATTAGGCTCTGG
*
1746779 TGATGCATTAATACCATCTAG
1 -GATGCATTAATATCATCTAG
1746800 TGGTGGAGAG
Statistics
Matches: 298, Mismatches: 66, Indels: 31
0.75 0.17 0.08
Matches are distributed among these distances:
88 5 0.02
89 80 0.27
90 174 0.58
91 38 0.13
92 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (89 bp):
GATGCATTAATATCATCTAGCAATTGAAGGAAAAGATATGACTAGGAAATGGATTGGCTGCACCT
TTACCCTAAGGTATTAGGCTCTGG
Found at i:1746622 original size:89 final size:90
Alignment explanation
Indices: 1746399--1746640 Score: 272
Period size: 89 Copynumber: 2.7 Consensus size: 90
1746389 TACACTCTTG
* * * * *
1746399 CCCTAAGGTATTAGGATC-AGGGATGCATCAATATCATCTAGTAATTGAATGAAAATGATATGAC
1 CCCTAAGGTATTGGGCTCTA-GGATGCATCAATATCATCTAGCAATTGAAGGAAAAAGATATGAC
*
1746463 TGGGAAATGGACAGGCTGCACCTTTA
65 TGGGAAATGGACAGGCCGCACCTTTA
* * * * *
1746489 CCCTAAGGTATTGGGCTTTGGGATGCATCAATATCATTTGGCAATTGAGGGAAAAAGATATGACT
1 CCCTAAGGTATTGGGCTCTAGGATGCATCAATATCATCTAGCAATTGAAGGAAAAAGATATGACT
** *
1746554 -GGAAATGGATGGGCCGCACTTTTA
66 GGGAAATGGACAGGCCGCACCTTTA
* * * * * * *
1746578 TCCTAAGGTATTTGGCTCTATGATGCATTAAGATCATCTAGCAATTAAAGGAAAAGGATATGA
1 CCCTAAGGTATTGGGCTCTAGGATGCATCAATATCATCTAGCAATTGAAGGAAAAAGATATGA
1746641 TTAAGAAATG
Statistics
Matches: 125, Mismatches: 26, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
89 71 0.57
90 54 0.43
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.28
Consensus pattern (90 bp):
CCCTAAGGTATTGGGCTCTAGGATGCATCAATATCATCTAGCAATTGAAGGAAAAAGATATGACT
GGGAAATGGACAGGCCGCACCTTTA
Found at i:1746640 original size:179 final size:180
Alignment explanation
Indices: 1746420--1746765 Score: 396
Period size: 179 Copynumber: 1.9 Consensus size: 180
1746410 TAGGATCAGG
* * * * * **
1746420 GATGCATCAATATCATCTAGTAATTGAATGAAAATGATATGACTGGGAAATG-GACAGGCTGCA-
1 GATGCATCAAGATCATCTAGCAATTAAAGGAAAAGGATATGACTAAGAAATGTG-CAGGCTGCAC
* * * * * *
1746483 CCTT-TACCCTAAGGTATTGGGCTTTGGGATGCATCAATATCATTTGGCAATTGAGGGAAAAAG-
65 CCTTGT-CCC-AAGATATTAGGATCTGGGATGCATCAATATCATCTGGCAATTGAAGG-AAAAGC
* * *
1746546 ATATGACT-GGAAATGGATGGGCCGCACTTTTATCCTAAGGTATTTGGCTCTAT
127 ATATAACTAGGAAATGGATGGACCGCACCTTTATCCTAAGGTATTTGGCTCTAT
* * ** **
1746599 GATGCATTAAGATCATCTAGCAATTAAAGGAAAAGGATATGATTAAGAAATGTGTTGTTTGCACC
1 GATGCATCAAGATCATCTAGCAATTAAAGGAAAAGGATATGACTAAGAAATGTGCAGGCTGCACC
*
1746664 CTTGTCCCAAGATATTAGGATCTGGGATGCATTAATATCATCTGGCAATTGAAGGAAAAGCATAT
66 CTTGTCCCAAGATATTAGGATCTGGGATGCATCAATATCATCTGGCAATTGAAGGAAAAGCATAT
* *
1746729 AACTAGGAAATGGATGGACTGGACCTTTATCCTAAGG
131 AACTAGGAAATGGATGGACCGCACCTTTATCCTAAGG
1746766 AAATTAGGCT
Statistics
Matches: 137, Mismatches: 25, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
178 5 0.04
179 95 0.69
180 36 0.26
181 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (180 bp):
GATGCATCAAGATCATCTAGCAATTAAAGGAAAAGGATATGACTAAGAAATGTGCAGGCTGCACC
CTTGTCCCAAGATATTAGGATCTGGGATGCATCAATATCATCTGGCAATTGAAGGAAAAGCATAT
AACTAGGAAATGGATGGACCGCACCTTTATCCTAAGGTATTTGGCTCTAT
Found at i:1746854 original size:269 final size:269
Alignment explanation
Indices: 1746325--1746854 Score: 572
Period size: 269 Copynumber: 2.0 Consensus size: 269
1746315 TGCATCAGTA
* * *
1746325 TCTATGATGCATCAGTATCATCTGGCTAATGAAGGAAAAGGATATGACAAAGAAATGTTTAGTCT
1 TCTATGATGCATAAGTATCATCTAGCTAATAAAGGAAAAGGATATGACAAAGAAATGTTTAGTCT
* * * *
1746390 ACACTCTTGCCCTAAGGTATTAGGATCAGGGATGCATCAATATCATCTAGTAATTGAATGAAAAT
66 ACACCCTTGCCCTAAGATATTAGGATCAGGGATGCATCAATATCATCTAGCAATTGAAGGAAAAT
* * * *
1746455 GATATGACTGGGAAATGGACAGGCTGCACCTTTACCCTAAGGTATTGGGCTTTGGGATGCATCAA
131 GATATAACTAGGAAATGGACAGGCTGCACCTTTACCCTAAGGAATTAGGCTTTGGGATGCATCAA
* * * * * * * *
1746520 TATCATTTGGCAATTGAGGGAAAAAGATATGACTGGAAATGGATGGGCCGCACTTTTATCCTAAG
196 TACCATCTAGCAATGGAGAGAAAAAGATATAACTGGAAATGGATGGGCCGCACTCTTACCCTAAG
1746585 GTATTTGGC
261 GTATTTGGC
**
1746594 TCTATGATGCATTAAG-ATCATCTAGC-AATTAAAGGAAAAGGATATGATTAAGAAATGTGTT-G
1 TCTATGATGCA-TAAGTATCATCTAGCTAA-TAAAGGAAAAGGATATGACAAAGAAATGT-TTAG
* * * * *
1746656 TTTGCACCCTTGTCCC-AAGATATTAGGATCTGGGATGCATTAATATCATCTGGCAATTGAAGGA
63 TCTACACCCTTG-CCCTAAGATATTAGGATCAGGGATGCATCAATATCATCTAGCAATTGAAGGA
* * *
1746720 AAA-GCATATAACTAGGAAATGGA-TGGACTGGACCTTTATCCTAAGGAAATTAGGC-TTGGTGA
127 AAATG-ATATAACTAGGAAATGGACAGG-CTGCACCTTTACCCTAAGG-AATTAGGCTTTGG-GA
* *** ** * * * *
1746782 TGCATTAATACCATCTAGTGGTGGAGAGAAAGGGATATAATTGGGAATGTATGGGCTGCAC-CTT
188 TGCATCAATACCATCTAGCAATGGAGAGAAAAAGATATAACTGGAAATGGATGGGCCGCACTCTT
*
1746846 GCCCTAAGG
253 ACCCTAAGG
1746855 AAATCAAGCT
Statistics
Matches: 213, Mismatches: 40, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
268 5 0.02
269 147 0.69
270 61 0.29
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (269 bp):
TCTATGATGCATAAGTATCATCTAGCTAATAAAGGAAAAGGATATGACAAAGAAATGTTTAGTCT
ACACCCTTGCCCTAAGATATTAGGATCAGGGATGCATCAATATCATCTAGCAATTGAAGGAAAAT
GATATAACTAGGAAATGGACAGGCTGCACCTTTACCCTAAGGAATTAGGCTTTGGGATGCATCAA
TACCATCTAGCAATGGAGAGAAAAAGATATAACTGGAAATGGATGGGCCGCACTCTTACCCTAAG
GTATTTGGC
Found at i:1746873 original size:89 final size:92
Alignment explanation
Indices: 1746759--1746937 Score: 229
Period size: 89 Copynumber: 2.0 Consensus size: 92
1746749 GGACCTTTAT
* * * * *
1746759 CCTAAGGAAATTAGGCTTGGTGATGCATTAATACCATCTAGTGG-TGGA-GAGAAAGGGATATAA
1 CCTAAGGAAATCAAGCTTGGTGATGCATCAATACCATCTAGTGGTTGAATAAGAAAGGGATATAA
* * *
1746822 TTGGGAATGTAT-GGGCTGCACCTTGC
66 TTAGGAATATATGGGGCCGCACCTTGC
** **
1746848 CCTAAGGAAATCAAGCTTGGTGATGCATCAATGTCATCTAGTGGTTGAATAAGAAAGGGATATGT
1 CCTAAGGAAATCAAGCTTGGTGATGCATCAATACCATCTAGTGGTTGAATAAGAAAGGGATATAA
1746913 TTAGGAATATATGGGGCCGCACCTT
66 TTAGGAATATATGGGGCCGCACCTT
1746938 TTTCCAGTAA
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
89 39 0.52
90 3 0.04
91 22 0.29
92 11 0.15
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.27
Consensus pattern (92 bp):
CCTAAGGAAATCAAGCTTGGTGATGCATCAATACCATCTAGTGGTTGAATAAGAAAGGGATATAA
TTAGGAATATATGGGGCCGCACCTTGC
Found at i:1752931 original size:151 final size:152
Alignment explanation
Indices: 1752751--1753101 Score: 436
Period size: 151 Copynumber: 2.3 Consensus size: 152
1752741 TCCTGGTAAG
* * *
1752751 CCTAAAAGTCTTAAAAAGGAAAAGAGATGAACCTATCCTAAATATACACCTTCAACGTAGAAGCA
1 CCTAAAGGACTTAAAAAGGAAAAGGGATGAACCTATCCTAAATATACACCTTCAACGTAGAAGCA
* *
1752816 AACCCAGCGATAACCAAGGACTCAATTTAAAAAAATTA-AGAAAAAACCCCTATAGGTATA-CTT
66 AACCCAGCGATAACCAAGGACTCAATTTAAAAAAATTACA-AAAAAACCCATATAGGTATACCAT
1752879 TAACATGAAAATATCCCAATAAC
130 TAACATGAAAATATCCCAATAAC
* * * * *
1752902 TCTAAAGGACTTAAAAAGGAAAAGGGATGAACTTATCTTAAATATACACCTTTAGCGTAGAAGCA
1 CCTAAAGGACTTAAAAAGGAAAAGGGATGAACCTATCCTAAATATACACCTTCAACGTAGAAGCA
* ** * * * * **
1752967 GACCTGGTGATAACCAAGGACTCGATTTTAGAAAATTACAAAAATGCCCATATAGGTATACCATT
66 AACCCAGCGATAACCAAGGACTCAATTTAAAAAAATTACAAAAAAACCCATATAGGTATACCATT
* * * * **
1753032 GACATGAAAGTGTCTCGGTAAC
131 AACATGAAAATATCCCAATAAC
* *
1753054 CCTAAAGGACTTAAAAGGGAAAAGGGATGAACCTATCCTAAACATACA
1 CCTAAAGGACTTAAAAAGGAAAAGGGATGAACCTATCCTAAATATACA
1753102 TCTTTAGCAT
Statistics
Matches: 168, Mismatches: 30, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
151 105 0.62
152 63 0.38
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.22
Consensus pattern (152 bp):
CCTAAAGGACTTAAAAAGGAAAAGGGATGAACCTATCCTAAATATACACCTTCAACGTAGAAGCA
AACCCAGCGATAACCAAGGACTCAATTTAAAAAAATTACAAAAAAACCCATATAGGTATACCATT
AACATGAAAATATCCCAATAAC
Found at i:1753108 original size:152 final size:151
Alignment explanation
Indices: 1752745--1753204 Score: 514
Period size: 152 Copynumber: 3.0 Consensus size: 151
1752735 AAAATATCCT
* * * * * *
1752745 GGTAAGCCTAAAAGTCTTAAAAAGGAAAAGAGATGAACCTATCCTAAATATACACCTTCAACGTA
1 GGTAACCCTAAAGGACTTAAAAAGGAAAAGGGATGAACCTATCCTAAATATACACCTTTAGCGTA
* * * * * *
1752810 GAAGCAAACCCAGCGATAACCAAGGACTCAATTTAAAAAAATTAAGAAAAAACCCCTATAGGTAT
66 GAAGCAGACCCGGTGATAACCAAGGACTCGATTTAAGAAAATTAA-AAAATACCCCTATAGGTAT
* * * *
1752875 A-CTTTAACATGAAAATATCCC
130 ACCATTGACATGAAAGTATCTC
** * * *
1752896 AATAACTCTAAAGGACTTAAAAAGGAAAAGGGATGAACTTATCTTAAATATACACCTTTAGCGTA
1 GGTAACCCTAAAGGACTTAAAAAGGAAAAGGGATGAACCTATCCTAAATATACACCTTTAGCGTA
* * * *
1752961 GAAGCAGACCTGGTGATAACCAAGGACTCGATTTTAGAAAATTACAAAAATGCCCATATAGGTAT
66 GAAGCAGACCCGGTGATAACCAAGGACTCGATTTAAGAAAATTA-AAAAATACCCCTATAGGTAT
*
1753026 ACCATTGACATGAAAGTGTCTC
130 ACCATTGACATGAAAGTATCTC
* * * *
1753048 GGTAACCCTAAAGGACTTAAAAGGGAAAAGGGATGAACCTATCCTAAACATACATCTTTAGCATA
1 GGTAACCCTAAAGGACTTAAAAAGGAAAAGGGATGAACCTATCCTAAATATACACCTTTAGCGTA
* * ** **
1753113 -AACGC-GAACCCGGTGACAACCTAGGACTCGATTCTAAGAAAACAAAAAAATACCCCTATACAT
66 GAA-GCAG-ACCCGGTGATAACCAAGGACTCGATT-TAAGAAAATTAAAAAATACCCCTATAGGT
*
1753176 ATACCATCGACATGAAAG-ATCTC
128 ATACCATTGACATGAAAGTATCTC
1753199 GGTAAC
1 GGTAAC
1753205 TCTAGTAGAC
Statistics
Matches: 257, Mismatches: 47, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
151 121 0.47
152 128 0.50
153 8 0.03
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.22
Consensus pattern (151 bp):
GGTAACCCTAAAGGACTTAAAAAGGAAAAGGGATGAACCTATCCTAAATATACACCTTTAGCGTA
GAAGCAGACCCGGTGATAACCAAGGACTCGATTTAAGAAAATTAAAAAATACCCCTATAGGTATA
CCATTGACATGAAAGTATCTC
Found at i:1753459 original size:15 final size:16
Alignment explanation
Indices: 1753436--1753469 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1753426 TAATAATTTT
1753436 ATTTAATTTTT-AAAA
1 ATTTAATTTTTGAAAA
*
1753451 ATTTTATTTTTGAAAA
1 ATTTAATTTTTGAAAA
1753467 ATT
1 ATT
1753470 CATTTCATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
ATTTAATTTTTGAAAA
Found at i:1754315 original size:20 final size:20
Alignment explanation
Indices: 1754290--1754328 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1754280 ACAAGAATTT
**
1754290 CAACAAAATTTAGCATCATG
1 CAACAAAATCAAGCATCATG
1754310 CAACAAAATCAAGCATCAT
1 CAACAAAATCAAGCATCAT
1754329 ACCTCTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.23, G:0.08, T:0.21
Consensus pattern (20 bp):
CAACAAAATCAAGCATCATG
Found at i:1754507 original size:20 final size:20
Alignment explanation
Indices: 1754459--1754503 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
1754449 AGGCACTGCC
*
1754459 TTTGTGTTTAGCTTGCTGTT
1 TTTGTGTTTAGCTTGCTATT
*
1754479 TTTGCTGTTTTGC-TGCTATT
1 TTTG-TGTTTAGCTTGCTATT
1754499 TTTGT
1 TTTGT
1754504 TGTTGTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 14 0.64
21 7 0.32
ACGTcount: A:0.04, C:0.11, G:0.22, T:0.62
Consensus pattern (20 bp):
TTTGTGTTTAGCTTGCTATT
Found at i:1754554 original size:26 final size:27
Alignment explanation
Indices: 1754522--1754577 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
1754512 TTGCTTGTTG
1754522 TTGGTGTTACTGCTAGTGCTGCTTC-A
1 TTGGTGTTACTGCTAGTGCTGCTTCGA
* *
1754548 TTGGTGTTGCTGCTGGTGCTGCTTCGA
1 TTGGTGTTACTGCTAGTGCTGCTTCGA
1754575 TTG
1 TTG
1754578 TTGCTACTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.07, C:0.18, G:0.32, T:0.43
Consensus pattern (27 bp):
TTGGTGTTACTGCTAGTGCTGCTTCGA
Found at i:1754814 original size:23 final size:23
Alignment explanation
Indices: 1754788--1754838 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
1754778 CTTCCTCCCC
* *
1754788 TTTTTTCTAGTTTCATTTTTGTT
1 TTTTTTCTAGTTTCATTTCTATT
* *
1754811 TTTTTTTTCGTTTCATTTCTATT
1 TTTTTTCTAGTTTCATTTCTATT
1754834 TTTTT
1 TTTTT
1754839 CTTTTATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.08, C:0.10, G:0.06, T:0.76
Consensus pattern (23 bp):
TTTTTTCTAGTTTCATTTCTATT
Found at i:1754976 original size:40 final size:40
Alignment explanation
Indices: 1754924--1755022 Score: 153
Period size: 40 Copynumber: 2.5 Consensus size: 40
1754914 CTTCTTTTGC
* *
1754924 TGTAGCTGTTTCAATTGCTTTCTCTATTTTCTCCTTTTAA
1 TGTAGCTGTTTCAATTGCTTTCTCTATTTCCTCATTTTAA
*
1754964 TGTAGCTATTTCAATTGCTTTCTCTATTTCCTCATTTTAA
1 TGTAGCTGTTTCAATTGCTTTCTCTATTTCCTCATTTTAA
* *
1755004 TGCAGCTGTTTCGATTGCT
1 TGTAGCTGTTTCAATTGCT
1755023 ATATCCTTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.16, C:0.20, G:0.12, T:0.52
Consensus pattern (40 bp):
TGTAGCTGTTTCAATTGCTTTCTCTATTTCCTCATTTTAA
Found at i:1755536 original size:26 final size:26
Alignment explanation
Indices: 1755499--1755548 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
1755489 CAATTCAGCC
1755499 TTTTTTAATTAATTAATT-TTTTAATA
1 TTTTTTAATTAATT-ATTATTTTAATA
*
1755525 TTTTTTATTTAATTATTATTTTAA
1 TTTTTTAATTAATTATTATTTTAA
1755549 CAAATCGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (26 bp):
TTTTTTAATTAATTATTATTTTAATA
Found at i:1756460 original size:12 final size:12
Alignment explanation
Indices: 1756443--1756472 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
1756433 CAGTACCTTC
1756443 CCAAAGGTAACA
1 CCAAAGGTAACA
1756455 CCAAAGGTAACA
1 CCAAAGGTAACA
1756467 CCAAAG
1 CCAAAG
1756473 CTGCATTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.50, C:0.27, G:0.17, T:0.07
Consensus pattern (12 bp):
CCAAAGGTAACA
Found at i:1769153 original size:16 final size:16
Alignment explanation
Indices: 1769132--1769163 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1769122 AGTTCACTAT
*
1769132 GCCTTTCTTTAAAAAA
1 GCCTTTCTTGAAAAAA
1769148 GCCTTTCTTGAAAAAA
1 GCCTTTCTTGAAAAAA
1769164 TATTTTAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (16 bp):
GCCTTTCTTGAAAAAA
Found at i:1772114 original size:13 final size:13
Alignment explanation
Indices: 1772096--1772120 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1772086 ACAATTAATC
1772096 ATGTATCGATACG
1 ATGTATCGATACG
1772109 ATGTATCGATAC
1 ATGTATCGATAC
1772121 AATATACCAT
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:0.20, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACG
Found at i:1772118 original size:33 final size:33
Alignment explanation
Indices: 1772076--1772140 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1772066 GTTACAAGCA
*
1772076 ATGTATCGATACAAT-TAATCATGTATCGATACG
1 ATGTATCGATACAATAT-ACCATGTATCGATACG
1772109 ATGTATCGATACAATATACCATGTATCGATAC
1 ATGTATCGATACAATATACCATGTATCGATAC
1772141 AAATAGTGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACAATATACCATGTATCGATACG
Found at i:1772132 original size:20 final size:20
Alignment explanation
Indices: 1772104--1772142 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1772094 TCATGTATCG
*
1772104 ATACGATGTATCGATACAAT
1 ATACCATGTATCGATACAAT
1772124 ATACCATGTATCGATACAA
1 ATACCATGTATCGATACAA
1772143 ATAGTGGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (20 bp):
ATACCATGTATCGATACAAT
Found at i:1772215 original size:19 final size:19
Alignment explanation
Indices: 1772170--1772244 Score: 89
Period size: 19 Copynumber: 3.9 Consensus size: 19
1772160 ACTGCCAGTT
1772170 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAA-TGA
*
1772189 TCCATGTATCAATACAATGA
1 T-CATGTATCGATACAATGA
* * *
1772209 TCATGTATCGATATATTAA
1 TCATGTATCGATACAATGA
1772228 TCATGTATCGATACAAT
1 TCATGTATCGATACAAT
1772245 CTATTGATAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 32 0.68
20 15 0.32
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:1772274 original size:19 final size:19
Alignment explanation
Indices: 1772170--1772274 Score: 80
Period size: 19 Copynumber: 5.8 Consensus size: 19
1772160 ACTGCCAGTT
*
1772170 TCATGTATCGATACAATTG-
1 TCATGTATCGATA-TATTGA
* * *
1772189 TCCATGTATCAATACAATGA
1 T-CATGTATCGATATATTGA
*
1772209 TCATGTATCGATATATTAA
1 TCATGTATCGATATATTGA
*
1772228 TCATGTATCGATACA---A
1 TCATGTATCGATATATTGA
*
1772244 TC---TATTGATATATTGA
1 TCATGTATCGATATATTGA
1772260 TCATGTATCGATATA
1 TCATGTATCGATATA
1772275 ATGTATCGAT
Statistics
Matches: 67, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
13 8 0.12
16 6 0.09
19 41 0.61
20 12 0.18
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.38
Consensus pattern (19 bp):
TCATGTATCGATATATTGA
Found at i:1772319 original size:20 final size:20
Alignment explanation
Indices: 1772296--1772333 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1772286 CAAAGCATAA
*
1772296 TGTATCGATACATCTAGGTG
1 TGTATCAATACATCTAGGTG
*
1772316 TGTATCAATACATTTAGG
1 TGTATCAATACATCTAGG
1772334 AGTTTTGACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (20 bp):
TGTATCAATACATCTAGGTG
Found at i:1774849 original size:20 final size:20
Alignment explanation
Indices: 1774824--1774888 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 20
1774814 TAGTAACCCA
1774824 TGTATCGATACAAGGAATGT
1 TGTATCGATACAAGGAATGT
1774844 TGTATCGATAC----AA---
1 TGTATCGATACAAGGAATGT
*
1774857 TGTATTGATACAAGGAATGT
1 TGTATCGATACAAGGAATGT
1774877 TGTATCGATACA
1 TGTATCGATACA
1774889 TCTGGGTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
13 10 0.28
16 2 0.06
17 2 0.06
20 22 0.61
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (20 bp):
TGTATCGATACAAGGAATGT
Found at i:1774867 original size:33 final size:33
Alignment explanation
Indices: 1774823--1774888 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
1774813 ATAGTAACCC
1774823 ATGTATCGATACAAGGAATGTTGTATCGATACA
1 ATGTATCGATACAAGGAATGTTGTATCGATACA
*
1774856 ATGTATTGATACAAGGAATGTTGTATCGATACA
1 ATGTATCGATACAAGGAATGTTGTATCGATACA
1774889 TCTGGGTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACAAGGAATGTTGTATCGATACA
Found at i:1774928 original size:20 final size:21
Alignment explanation
Indices: 1774898--1774939 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
1774888 ATCTGGGTTT
1774898 TTCAGATGTATCGATACATTC
1 TTCAGATGTATCGATACATTC
1774919 TTCA-ATGTATCGATACATTC
1 TTCAGATGTATCGATACATTC
1774939 T
1 T
1774940 AGAAAATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (21 bp):
TTCAGATGTATCGATACATTC
Found at i:1776630 original size:686 final size:686
Alignment explanation
Indices: 1775318--1777369 Score: 4023
Period size: 686 Copynumber: 3.0 Consensus size: 686
1775308 TGCAAAATCT
*
1775318 ACTTTTGTCAAGTGGTTTACTGAAAATATCGGCTAGTTGGTGCAAGGTATCTACGAATTCTATTA
1 ACTTTTGTCAAGTGGTTTACTGAAAATATCGGCTAGTTGGTGCAAGGTATCTACAAATTCTATTA
1775383 TAACATCTCCTTTTTGCACATGATCTCTAATGAAGTGATGTCTAATTTCAATGTGCTTAGTCCTA
66 TAACATCTCCTTTTTGCACATGATCTCTAATGAAGTGATGTCTAATTTCAATGTGCTTAGTCCTA
1775448 GAATGTTGTACCGGATTTTTAGTGAGACAAATTGCGCTAGCATTATCATATTTAATGGGAATATG
131 GAATGTTGTACCGGATTTTTAGTGAGACAAATTGCGCTAGCATTATCATATTTAATGGGAATATG
1775513 ATCCATGGTAATGCCAAAATCTTCTAATTGTTGTCTTATCCACAATACTTATGCACAACAATTTC
196 ATCCATGGTAATGCCAAAATCTTCTAATTGTTGTCTTATCCACAATACTTATGCACAACAATTTC
1775578 CTACGGACATGTACTCCGCCTCGGTTGTGGATAATGCAACACTATTTTATTTCTTGGAAAACCAT
261 CTACGGACATGTACTCCGCCTCGGTTGTGGATAATGCAACACTATTTTATTTCTTGGAAAACCAT
1775643 GATATCAGCATATTTCCAAAGAATTGACAAGTACCGAAAGTGCTCTTTCTATCTATTTTACAACC
326 GATATCAGCATATTTCCAAAGAATTGACAAGTACCGAAAGTGCTCTTTCTATCTATTTTACAACC
*
1775708 ACCAAAATCCACATCCGAGTAAGCATGTAAAGTTAGGGAGGATTCCTTAGGGTACCATAATCCTA
391 ACCAAAATCCGCATCCGAGTAAGCATGTAAAGTTAGGGAGGATTCCTTAGGGTACCATAATCCTA
1775773 GGTTTGGAGTGTCTCGTAAATATTTAAAAGTTTTTTTTAGAGCAAGTAAATGAGACTCCCTAGGT
456 GGTTTGGAGTGTCTCGTAAATATTTAAAAGTTTTTTTTAGAGCAAGTAAATGAGACTCCCTAGGT
1775838 GCGGATTGAAAACAGGCACAAAAACATACATTAAACATAATATCCGGTCCACTTGCAGTAAGATA
521 GCGGATTGAAAACAGGCACAAAAACATACATTAAACATAATATCCGGTCCACTTGCAGTAAGATA
1775903 CAATAAAGAACCTATCATAGACCTATAGAGTTTAATGTCGATAAAGTTTCCTCCATCCTTTTCAA
586 CAATAAAGAACCTATCATAGACCTATAGAGTTTAATGTCGATAAAGTTTCCTCCATCCTTTTCAA
1775968 GCTTTGTTGAAGTACTCATCGGTGTTTCAGTAAACC
651 GCTTTGTTGAAGTACTCATCGGTGTTTCAGTAAACC
*
1776004 ACTTTTGTCAAGTGGTTTACTGAAAATATTGGCTAGTTGGTGCAAGGTATCTACAAATTCTATTA
1 ACTTTTGTCAAGTGGTTTACTGAAAATATCGGCTAGTTGGTGCAAGGTATCTACAAATTCTATTA
*
1776069 TAACATCTCCTTTTTGCACATGATCTCTAATGAAGTGATGTTTAATTTCAATGTGCTTAGTCCTA
66 TAACATCTCCTTTTTGCACATGATCTCTAATGAAGTGATGTCTAATTTCAATGTGCTTAGTCCTA
1776134 GAATGTTGTACCGGATTTTTAGTGAGACAAATTGCGCTAGCATTATCATATTTAATGGGAATATG
131 GAATGTTGTACCGGATTTTTAGTGAGACAAATTGCGCTAGCATTATCATATTTAATGGGAATATG
1776199 ATCCATGGTAATGCCAAAATCTTCTAATTGTTGTCTTATCCACAATACTTATGCACAACAATTTC
196 ATCCATGGTAATGCCAAAATCTTCTAATTGTTGTCTTATCCACAATACTTATGCACAACAATTTC
1776264 CTACGGACATGTACTCCGCCTCGGTTGTGGATAATGCAACACTATTTTATTTCTTGGAAAACCAT
261 CTACGGACATGTACTCCGCCTCGGTTGTGGATAATGCAACACTATTTTATTTCTTGGAAAACCAT
1776329 GATATCAGCATATTTCCAAAGAATTGACAAGTACCGAAAGTGCTCTTTCTATCTATTTTACAACC
326 GATATCAGCATATTTCCAAAGAATTGACAAGTACCGAAAGTGCTCTTTCTATCTATTTTACAACC
1776394 ACCAAAATCCGCATCCGAGTAAGCATGTAAAGTTAGGGAGGATTCCTTAGGGTACCATAATCCTA
391 ACCAAAATCCGCATCCGAGTAAGCATGTAAAGTTAGGGAGGATTCCTTAGGGTACCATAATCCTA
*
1776459 GGTTTGGAGTGTCTCATAAATATTTAAAAGTTTTTTTTAGAGCAAGTAAATGAGACTCCCTAGGT
456 GGTTTGGAGTGTCTCGTAAATATTTAAAAGTTTTTTTTAGAGCAAGTAAATGAGACTCCCTAGGT
*
1776524 GCGGATTGAAAACAGGCATAAAAACATACATTAAACATAATATCCGGTCCACTTGCAGTAAGATA
521 GCGGATTGAAAACAGGCACAAAAACATACATTAAACATAATATCCGGTCCACTTGCAGTAAGATA
1776589 CAATAAAGAACCTATCATAGACCTATAGAGTTTAATGTCGATAAAGTTTCCTCCATCCTTTTCAA
586 CAATAAAGAACCTATCATAGACCTATAGAGTTTAATGTCGATAAAGTTTCCTCCATCCTTTTCAA
1776654 GCTTTGTTGAAGTACTCATCGGTGTTTCAGTAAACC
651 GCTTTGTTGAAGTACTCATCGGTGTTTCAGTAAACC
1776690 ACTTTTGTCAAGTGGTTTACTGAAAATATCGGCTAGTTGGTGCAAGGTATCTACAAATTCTATTA
1 ACTTTTGTCAAGTGGTTTACTGAAAATATCGGCTAGTTGGTGCAAGGTATCTACAAATTCTATTA
1776755 TAACATCTCCTTTTTGCACATGATCTCTAATGAAGTGATGTCTAATTTCAATGTGCTTAGTCCTA
66 TAACATCTCCTTTTTGCACATGATCTCTAATGAAGTGATGTCTAATTTCAATGTGCTTAGTCCTA
*
1776820 GAATGTTGTACCAGATTTTTAGTGAGACAAATTGCGCTAGCATTATCATATTTAATGGGAATATG
131 GAATGTTGTACCGGATTTTTAGTGAGACAAATTGCGCTAGCATTATCATATTTAATGGGAATATG
1776885 ATCCATGGTAATGCCAAAATCTTCTAATTGTTGTCTTATCCACAATACTTATGCACAACAATTTC
196 ATCCATGGTAATGCCAAAATCTTCTAATTGTTGTCTTATCCACAATACTTATGCACAACAATTTC
1776950 CTACGGACATGTACTCCGCCTCGGTTGTGGATAATGCAACACTATTTTATTTCTTGGAAAACCAT
261 CTACGGACATGTACTCCGCCTCGGTTGTGGATAATGCAACACTATTTTATTTCTTGGAAAACCAT
1777015 GATATCAGCATATTTCCAAAGAATTGACAAGTACCGAAAGTGCTCTTTCTATCTATTTTACAACC
326 GATATCAGCATATTTCCAAAGAATTGACAAGTACCGAAAGTGCTCTTTCTATCTATTTTACAACC
1777080 ACCAAAATCCGCATCCGAGTAAGCATGTAAAGTTAGGGAGGATTCCTTAGGGTACCATAATCCTA
391 ACCAAAATCCGCATCCGAGTAAGCATGTAAAGTTAGGGAGGATTCCTTAGGGTACCATAATCCTA
*
1777145 GGTTTGGAGTGTCTCGTAAATATTTAAAAGTTTTTTTTAGGGCAAGTAAATGAGACTCCCTAGGT
456 GGTTTGGAGTGTCTCGTAAATATTTAAAAGTTTTTTTTAGAGCAAGTAAATGAGACTCCCTAGGT
1777210 AGCGGATTGAAAACAGGCACAAAAACATACATTAAACATAATATCCGGTCCACTTGCAGTAAGAT
521 -GCGGATTGAAAACAGGCACAAAAACATACATTAAACATAATATCCGGTCCACTTGCAGTAAGAT
1777275 ACAATAAAGAACCTATCATAGACCTATAGAGTTTAATGTCGATAAAGTTTCCTCCATCCTTTTCA
585 ACAATAAAGAACCTATCATAGACCTATAGAGTTTAATGTCGATAAAGTTTCCTCCATCCTTTTCA
1777340 AGCTTTGTTGAAGTACTCATCGGTGTTTCA
650 AGCTTTGTTGAAGTACTCATCGGTGTTTCA
1777370 CATGGTTTGA
Statistics
Matches: 1353, Mismatches: 12, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
686 1195 0.88
687 158 0.12
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (686 bp):
ACTTTTGTCAAGTGGTTTACTGAAAATATCGGCTAGTTGGTGCAAGGTATCTACAAATTCTATTA
TAACATCTCCTTTTTGCACATGATCTCTAATGAAGTGATGTCTAATTTCAATGTGCTTAGTCCTA
GAATGTTGTACCGGATTTTTAGTGAGACAAATTGCGCTAGCATTATCATATTTAATGGGAATATG
ATCCATGGTAATGCCAAAATCTTCTAATTGTTGTCTTATCCACAATACTTATGCACAACAATTTC
CTACGGACATGTACTCCGCCTCGGTTGTGGATAATGCAACACTATTTTATTTCTTGGAAAACCAT
GATATCAGCATATTTCCAAAGAATTGACAAGTACCGAAAGTGCTCTTTCTATCTATTTTACAACC
ACCAAAATCCGCATCCGAGTAAGCATGTAAAGTTAGGGAGGATTCCTTAGGGTACCATAATCCTA
GGTTTGGAGTGTCTCGTAAATATTTAAAAGTTTTTTTTAGAGCAAGTAAATGAGACTCCCTAGGT
GCGGATTGAAAACAGGCACAAAAACATACATTAAACATAATATCCGGTCCACTTGCAGTAAGATA
CAATAAAGAACCTATCATAGACCTATAGAGTTTAATGTCGATAAAGTTTCCTCCATCCTTTTCAA
GCTTTGTTGAAGTACTCATCGGTGTTTCAGTAAACC
Found at i:1781112 original size:148 final size:148
Alignment explanation
Indices: 1780844--1781116 Score: 537
Period size: 148 Copynumber: 1.8 Consensus size: 148
1780834 TTGAAGGCGA
*
1780844 CACTTGCCTTCTTCAGTGGTTCTTGCACATGTGCATGCTTGATCTTTATCTCGTAGGTTAATAAG
1 CACTTGCCTTCTTCAGTGGTTCTTGCACATGTGCATGCTTGATCTTCATCTCGTAGGTTAATAAG
1780909 GAACCTATGAGCTCATCCAAAGATAGTGTGTTGGGATCCTTGGATTCCTCGATGGTGGTGGTGAC
66 GAACCTATGAGCTCATCCAAAGATAGTGTGTTGGGATCCTTGGATTCCTCGATGGTGGTGGTGAC
1780974 ATGTGCAAGTGGTTCTTG
131 ATGTGCAAGTGGTTCTTG
1780992 CACTTGCCTTCTTCAGTGGTTCTTGCACATGTGCATGCTTGATCTTCATCTCGTAGGTTAATAAG
1 CACTTGCCTTCTTCAGTGGTTCTTGCACATGTGCATGCTTGATCTTCATCTCGTAGGTTAATAAG
1781057 GAACCTATGAGCTCATCCAAAGATAGTGTGTTGGGATCCTTGGATTCCTCGATGGTGGTG
66 GAACCTATGAGCTCATCCAAAGATAGTGTGTTGGGATCCTTGGATTCCTCGATGGTGGTG
1781117 ACTTTGGCTT
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
148 124 1.00
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.35
Consensus pattern (148 bp):
CACTTGCCTTCTTCAGTGGTTCTTGCACATGTGCATGCTTGATCTTCATCTCGTAGGTTAATAAG
GAACCTATGAGCTCATCCAAAGATAGTGTGTTGGGATCCTTGGATTCCTCGATGGTGGTGGTGAC
ATGTGCAAGTGGTTCTTG
Found at i:1782694 original size:20 final size:20
Alignment explanation
Indices: 1782650--1782721 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
1782640 TGCCAGTTTC
* *
1782650 ATGTATCGATACAATG-ATC
1 ATGTATCGATACAAAGCATA
1782669 ATGTATCGATACAAAGCATA
1 ATGTATCGATACAAAGCATA
1782689 ATGTATCGATACAAAGCATA
1 ATGTATCGATACAAAGCATA
*
1782709 ATGCATCGATACA
1 ATGTATCGATACA
1782722 TCTGGGTGTG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
19 15 0.31
20 34 0.69
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (20 bp):
ATGTATCGATACAAAGCATA
Found at i:1783584 original size:23 final size:24
Alignment explanation
Indices: 1783533--1783584 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
1783523 TTTGGGCTTT
*
1783533 TATGTTTTAATTTCATAATTTTCA
1 TATGTTTTAATTTCATAATTTTAA
1783557 T-TGTTTTAAATTTCAT-A-TTTAA
1 TATGTTTT-AATTTCATAATTTTAA
1783579 TATGTT
1 TATGTT
1783585 AAATTCACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 5 0.20
23 11 0.44
24 9 0.36
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.60
Consensus pattern (24 bp):
TATGTTTTAATTTCATAATTTTAA
Found at i:1784380 original size:21 final size:20
Alignment explanation
Indices: 1784340--1784416 Score: 88
Period size: 21 Copynumber: 3.9 Consensus size: 20
1784330 ACTCAATTAT
*
1784340 TTTTAAAAT-TAT-TATTTC
1 TTTTAAAATATATAAATTTC
*
1784358 TTTTAAAATATAATAATTTTC
1 TTTTAAAATAT-ATAAATTTC
1784379 TTTTAAAA-ATATAAATTTC
1 TTTTAAAATATATAAATTTC
*
1784398 TTCTAAAATATGATAAATT
1 TTTTAAAATAT-ATAAATT
1784417 CTAGTTATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
18 9 0.18
19 16 0.32
20 6 0.12
21 19 0.38
ACGTcount: A:0.43, C:0.05, G:0.01, T:0.51
Consensus pattern (20 bp):
TTTTAAAATATATAAATTTC
Found at i:1785224 original size:33 final size:33
Alignment explanation
Indices: 1785187--1785256 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
1785177 GATACCTTAT
*
1785187 TATTGGATAGAACAGGAAGGCTCATTTATAAAG
1 TATTGGATAGAACAGGAAAGCTCATTTATAAAG
1785220 TATTGGATAGAACAGGAAAGCTCATTTATAAAG
1 TATTGGATAGAACAGGAAAGCTCATTTATAAAG
1785253 TATT
1 TATT
1785257 CAATGACTCC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (33 bp):
TATTGGATAGAACAGGAAAGCTCATTTATAAAG
Found at i:1788456 original size:23 final size:23
Alignment explanation
Indices: 1788430--1788474 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
1788420 TTAATTTCTA
*
1788430 TTTATTC-ATTTTTTTCTAAATTC
1 TTTATTCGAATTTTTT-TAAATTC
1788453 TTTATTCGAATTTTTTTAAATT
1 TTTATTCGAATTTTTTTAAATT
1788475 TTATACTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.64
Consensus pattern (23 bp):
TTTATTCGAATTTTTTTAAATTC
Found at i:1795945 original size:22 final size:22
Alignment explanation
Indices: 1795885--1795949 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
1795875 TCTGCATATA
1795885 CTATTATAATCATATGTACATG
1 CTATTATAATCATATGTACATG
* * * * *
1795907 CTATTCTAGTGAAATGTACATT
1 CTATTATAATCATATGTACATG
1795929 CTATTATAAT-ATTATGTACAT
1 CTATTATAATCA-TATGTACAT
1795950 ATTACTATAA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
21 1 0.03
22 33 0.97
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.43
Consensus pattern (22 bp):
CTATTATAATCATATGTACATG
Found at i:1795958 original size:22 final size:24
Alignment explanation
Indices: 1795920--1795970 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 24
1795910 TTCTAGTGAA
*
1795920 ATGTACATTCTATTATAATA-T-T
1 ATGTACATTCTACTATAATACTAT
1795942 ATGTACATAT-TACTATAATACTAT
1 ATGTACAT-TCTACTATAATACTAT
1795966 ATGTA
1 ATGTA
1795971 TGTAATGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 17 0.68
23 2 0.08
24 6 0.24
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (24 bp):
ATGTACATTCTACTATAATACTAT
Found at i:1796013 original size:22 final size:22
Alignment explanation
Indices: 1795988--1796032 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1795978 TTATTGTAAA
1795988 ATGTACATTCAATTATAATTAT
1 ATGTACATTCAATTATAATTAT
* * *
1796010 ATGTATATTTAATTATATTTAT
1 ATGTACATTCAATTATAATTAT
1796032 A
1 A
1796033 CATATACCGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (22 bp):
ATGTACATTCAATTATAATTAT
Found at i:1796066 original size:22 final size:22
Alignment explanation
Indices: 1796036--1796089 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
1796026 ATTTATACAT
* * *
1796036 ATACCGTTATAGTCATATGTAC
1 ATACTGTTATAGCCATATATAC
*
1796058 ATACTGTTAAAGCCATATATAC
1 ATACTGTTATAGCCATATATAC
*
1796080 ATATTGTTAT
1 ATACTGTTAT
1796090 TGTGATACAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (22 bp):
ATACTGTTATAGCCATATATAC
Found at i:1796254 original size:22 final size:22
Alignment explanation
Indices: 1796170--1796263 Score: 92
Period size: 22 Copynumber: 4.5 Consensus size: 22
1796160 GATTAGCTCC
1796170 TTTAGTTATTGTGATATGTACA-
1 TTTA-TTATTGTGATATGTACAT
*
1796192 -TTATCA---TGATATGTACAT
1 TTTATTATTGTGATATGTACAT
** * *
1796210 ACTATTACTATGATATGTACAT
1 TTTATTATTGTGATATGTACAT
1796232 TTTATTATTGTGATATGTACAT
1 TTTATTATTGTGATATGTACAT
1796254 TTTATT-TTGT
1 TTTATTATTGT
1796264 TTTAATTTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
17 11 0.18
19 4 0.07
20 2 0.03
21 7 0.12
22 36 0.60
ACGTcount: A:0.29, C:0.07, G:0.13, T:0.51
Consensus pattern (22 bp):
TTTATTATTGTGATATGTACAT
Found at i:1796579 original size:22 final size:22
Alignment explanation
Indices: 1796554--1796595 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1796544 TATGTACATA
1796554 GTTATAGTGACATATACATATT
1 GTTATAGTGACATATACATATT
* *
1796576 GTTATAGTTATATATACATA
1 GTTATAGTGACATATACATA
1796596 CAATCTTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (22 bp):
GTTATAGTGACATATACATATT
Found at i:1796630 original size:21 final size:21
Alignment explanation
Indices: 1796605--1796761 Score: 66
Period size: 21 Copynumber: 7.5 Consensus size: 21
1796595 ACAATCTTTG
*
1796605 TGAAGGGGTTGGTTCTTTTAA
1 TGAAGGGGTTGGTTCTCTTAA
* * *
1796626 TGAAGGGGCTAGTTCTCTTAG
1 TGAAGGGGTTGGTTCTCTTAA
** * *
1796647 TGAAAAGGTTGGTTCCCTTAG
1 TGAAGGGGTTGGTTCTCTTAA
** * * **
1796668 TGAAAAGGTTGATCCTCTTTG
1 TGAAGGGGTTGGTTCTCTTAA
1796689 TGTAA-GGGTTGGTTC-CTTAA
1 TG-AAGGGGTTGGTTCTCTTAA
*** *
1796709 GTGAAACTGTTGGTTCTCTTTA
1 -TGAAGGGGTTGGTTCTCTTAA
*** * *
1796731 TGAAAATGTTAGTTCTCTTAG
1 TGAAGGGGTTGGTTCTCTTAA
*
1796752 TGAAAGGGTT
1 TGAAGGGGTT
1796762 TAATCTATTT
Statistics
Matches: 105, Mismatches: 27, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
20 5 0.05
21 94 0.90
22 6 0.06
ACGTcount: A:0.22, C:0.11, G:0.28, T:0.39
Consensus pattern (21 bp):
TGAAGGGGTTGGTTCTCTTAA
Found at i:1796686 original size:42 final size:42
Alignment explanation
Indices: 1796640--1796761 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 42
1796630 GGGGCTAGTT
1796640 CTCTTAGTGAAAAGGTTGGTTCCCTTAGTGAAAAGGTTGATC
1 CTCTTAGTGAAAAGGTTGGTTCCCTTAGTGAAAAGGTTGATC
* * * ** * *
1796682 CTCTTTGTGTAAGGGTTGGTT-CCTTAAGTGAAACTGTTGGTT
1 CTCTTAGTGAAAAGGTTGGTTCCCTT-AGTGAAAAGGTTGATC
* * * *
1796724 CTCTTTA-TGAAAATGTTAGTTCTCTTAGTGAAAGGGTT
1 CTC-TTAGTGAAAAGGTTGGTTCCCTTAGTGAAAAGGTT
1796762 TAATCTATTT
Statistics
Matches: 62, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
41 4 0.06
42 53 0.85
43 5 0.08
ACGTcount: A:0.23, C:0.12, G:0.25, T:0.39
Consensus pattern (42 bp):
CTCTTAGTGAAAAGGTTGGTTCCCTTAGTGAAAAGGTTGATC
Found at i:1800265 original size:44 final size:44
Alignment explanation
Indices: 1800202--1800285 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
1800192 GTCCTTATAC
* *
1800202 TGTTATTATGATATGTACATTA-TATAATTGTAATATGTATTTGT
1 TGTTATGATGATACGTACA-TACTATAATTGTAATATGTATTTGT
* *
1800246 TGTTATGATGATACGTACATACTATTATTGTGATATGTAT
1 TGTTATGATGATACGTACATACTATAATTGTAATATGTAT
1800286 ATTTAGTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (44 bp):
TGTTATGATGATACGTACATACTATAATTGTAATATGTATTTGT
Found at i:1800295 original size:44 final size:44
Alignment explanation
Indices: 1800203--1800295 Score: 109
Period size: 44 Copynumber: 2.1 Consensus size: 44
1800193 TCCTTATACT
* * *
1800203 GTTATTATGATATGTACATTATATAATTGTAATATGTATTTGTT
1 GTTATGATGATACGTACATTATATAATTGTAATATGTATTTGTA
* *
1800247 GTTATGATGATACGTACA-TACTATTATTGTGATATGTATATT-TA
1 GTTATGATGATACGTACATTA-TATAATTGTAATATGTAT-TTGTA
1800291 GTTAT
1 GTTAT
1800296 AATATATAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
43 2 0.05
44 38 0.90
45 2 0.05
ACGTcount: A:0.31, C:0.04, G:0.15, T:0.49
Consensus pattern (44 bp):
GTTATGATGATACGTACATTATATAATTGTAATATGTATTTGTA
Found at i:1800611 original size:6 final size:7
Alignment explanation
Indices: 1800594--1800620 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
1800584 TGAAATCTAA
1800594 AAAAAAT
1 AAAAAAT
1800601 AAAAAAT
1 AAAAAAT
1800608 AAAAAAT
1 AAAAAAT
1800615 AAAAAA
1 AAAAAA
1800621 GATCCTTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:1802313 original size:22 final size:22
Alignment explanation
Indices: 1802288--1802359 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 22
1802278 ATAATAATAC
*
1802288 TATGTATATTTAATTAAAGTCA
1 TATGTATATTTAGTTAAAGTCA
* *
1802310 TATGTATATTCAGTTAAAGTTA
1 TATGTATATTTAGTTAAAGTCA
* *
1802332 TATGTACATATT-GTTACAGTCA
1 TATGTATAT-TTAGTTAAAGTCA
1802354 TATGTA
1 TATGTA
1802360 GATTCTGTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
22 41 0.98
23 1 0.02
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.44
Consensus pattern (22 bp):
TATGTATATTTAGTTAAAGTCA
Found at i:1802368 original size:22 final size:22
Alignment explanation
Indices: 1802301--1802369 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
1802291 GTATATTTAA
* *
1802301 TTAAAGTCATATGTATATTCAG
1 TTAAAGTCATATGTACATTCTG
*
1802323 TTAAAGTTATATGTACATAT-TG
1 TTAAAGTCATATGTACAT-TCTG
* *
1802345 TTACAGTCATATGTAGATTCTG
1 TTAAAGTCATATGTACATTCTG
1802367 TTA
1 TTA
1802370 TAATAGTATG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 1 0.03
22 37 0.95
23 1 0.03
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.43
Consensus pattern (22 bp):
TTAAAGTCATATGTACATTCTG
Found at i:1802519 original size:21 final size:21
Alignment explanation
Indices: 1802493--1802532 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1802483 ATTTTCTTGG
*
1802493 AAAAATTAGTTCTCTTAGTAA
1 AAAAATTAGTTCCCTTAGTAA
*
1802514 AAAAATTGGTTCCCTTAGT
1 AAAAATTAGTTCCCTTAGT
1802533 GAAAGGGTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (21 bp):
AAAAATTAGTTCCCTTAGTAA
Found at i:1802564 original size:21 final size:21
Alignment explanation
Indices: 1802501--1802571 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
1802491 GGAAAAATTA
* *
1802501 GTTCTCTTAGTAAAAAAATTG
1 GTTCTCTTAGTAAAGAGATTG
* *
1802522 GTTCCCTTAGTGAAAG-GGTTG
1 GTTCTCTTAGT-AAAGAGATTG
*
1802543 GTTCTCTTTGTAAAGAGATTG
1 GTTCTCTTAGTAAAGAGATTG
*
1802564 GTTTTCTT
1 GTTCTCTT
1802572 CATGAAATGG
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 4 0.10
21 33 0.82
22 3 0.08
ACGTcount: A:0.24, C:0.11, G:0.23, T:0.42
Consensus pattern (21 bp):
GTTCTCTTAGTAAAGAGATTG
Found at i:1802578 original size:42 final size:42
Alignment explanation
Indices: 1802501--1802592 Score: 98
Period size: 42 Copynumber: 2.2 Consensus size: 42
1802491 GGAAAAATTA
* *
1802501 GTTCTCTTAGTAAAAAAATTGGTTCCCTTAGTGAAAGGGTTG
1 GTTCTCTTTGTAAAAAAATTGGTTCCCTTAGTGAAAGGGTCG
* * ** *
1802543 GTTCTCTTTGTAAAGAGATTGGTTTTCTTCA-TGAAATGGTCG
1 GTTCTCTTTGTAAAAAAATTGGTTCCCTT-AGTGAAAGGGTCG
1802585 GTTC-CTTT
1 GTTCTCTTT
1802593 CTTAAAAGGG
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
41 4 0.10
42 37 0.88
43 1 0.02
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.41
Consensus pattern (42 bp):
GTTCTCTTTGTAAAAAAATTGGTTCCCTTAGTGAAAGGGTCG
Found at i:1803800 original size:33 final size:32
Alignment explanation
Indices: 1803747--1803809 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
1803737 AGAAGCAATG
*
1803747 TATCGATACAATTCATCATGTATTGATACATTT
1 TATCGATACAATTCA-CATGTATCGATACATTT
1803780 TATCGATACAATATGC-CATGTATCGATACA
1 TATCGATACAAT-T-CACATGTATCGATACA
1803810 AACAGTGGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 25 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (32 bp):
TATCGATACAATTCACATGTATCGATACATTT
Found at i:1803883 original size:19 final size:19
Alignment explanation
Indices: 1803839--1803923 Score: 83
Period size: 19 Copynumber: 4.7 Consensus size: 19
1803829 CTGCCAGTTT
* **
1803839 CATGTATCGATACCATTGTG
1 CATGTATCGATA-CAGTGAA
1803859 CATGTATCGATACAGTGAA
1 CATGTATCGATACAGTGAA
1803878 CATGTATCGATAC-----A
1 CATGTATCGATACAGTGAA
*
1803892 -ATGCATCGATACAGTGAA
1 CATGTATCGATACAGTGAA
1803910 CATGTATCGATACA
1 CATGTATCGATACA
1803924 ATGTATCGAT
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
13 11 0.20
14 1 0.02
18 1 0.02
19 29 0.54
20 12 0.22
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (19 bp):
CATGTATCGATACAGTGAA
Found at i:1803902 original size:32 final size:32
Alignment explanation
Indices: 1803864--1803936 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
1803854 TTGTGCATGT
1803864 ATCGATACAGTGAACATGTATCGATACAATGC
1 ATCGATACAGTGAACATGTATCGATACAATGC
*
1803896 ATCGATACAGTGAACATGTATCGATACAATGT
1 ATCGATACAGTGAACATGTATCGATACAATGC
1803928 ATCGATACA
1 ATCGATACA
1803937 AAGCATAATG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (32 bp):
ATCGATACAGTGAACATGTATCGATACAATGC
Found at i:1803929 original size:13 final size:13
Alignment explanation
Indices: 1803879--1803937 Score: 60
Period size: 13 Copynumber: 5.1 Consensus size: 13
1803869 TACAGTGAAC
1803879 ATGTATCGATACA
1 ATGTATCGATACA
*
1803892 ATGCATCGATAC-
1 ATGTATCGATACA
1803904 A-G--T-GA-AC-
1 ATGTATCGATACA
1803911 ATGTATCGATACA
1 ATGTATCGATACA
1803924 ATGTATCGATACA
1 ATGTATCGATACA
1803937 A
1 A
1803938 AGCATAATGT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
7 3 0.08
8 3 0.08
9 1 0.03
10 1 0.03
11 3 0.08
12 3 0.08
13 25 0.64
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1806473 original size:13 final size:13
Alignment explanation
Indices: 1806435--1806474 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
1806425 AGTAACTCTT
* *
1806435 GTATTGATACAAT
1 GTATCGATACAAA
1806448 GTATCGATACAAA
1 GTATCGATACAAA
1806461 GTATCGATACAAA
1 GTATCGATACAAA
1806474 G
1 G
1806475 AATATTGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.28
Consensus pattern (13 bp):
GTATCGATACAAA
Found at i:1810658 original size:14 final size:14
Alignment explanation
Indices: 1810639--1810698 Score: 50
Period size: 20 Copynumber: 3.9 Consensus size: 14
1810629 TATCTATGAC
1810639 TCGATACACATGTA
1 TCGATACACATGTA
1810653 TCGATACAATTATCCATGTA
1 TCGATAC----A--CATGTA
1810673 TCGATACA-ATGTA
1 TCGATACACATGTA
*
1810686 TCGATATACATGT
1 TCGATACACATGT
1810699 CCTATGTATC
Statistics
Matches: 38, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
13 12 0.32
14 11 0.29
16 1 0.03
18 1 0.03
20 13 0.34
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.33
Consensus pattern (14 bp):
TCGATACACATGTA
Found at i:1810672 original size:20 final size:21
Alignment explanation
Indices: 1810647--1810687 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
1810637 ACTCGATACA
1810647 CATGTATCGATACAAT-TATC
1 CATGTATCGATACAATGTATC
1810667 CATGTATCGATACAATGTATC
1 CATGTATCGATACAATGTATC
1810688 GATATACATG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (21 bp):
CATGTATCGATACAATGTATC
Found at i:1810686 original size:13 final size:13
Alignment explanation
Indices: 1810639--1810691 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
1810629 TATCTATGAC
1810639 TCGATACACATGTA
1 TCGATACA-ATGTA
1810653 TCGATACAAT-TA
1 TCGATACAATGTA
1810665 TC----C-ATGTA
1 TCGATACAATGTA
1810673 TCGATACAATGTA
1 TCGATACAATGTA
1810686 TCGATA
1 TCGATA
1810692 TACATGTCCT
Statistics
Matches: 33, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
7 2 0.06
8 5 0.15
12 5 0.15
13 13 0.39
14 8 0.24
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (13 bp):
TCGATACAATGTA
Found at i:1816309 original size:20 final size:20
Alignment explanation
Indices: 1816286--1816358 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1816276 ACAATTCAAA
1816286 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1816306 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1816327 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1816347 GTATCGATACAT
1 GTATCGATACAT
1816359 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1816330 original size:21 final size:21
Alignment explanation
Indices: 1816304--1816379 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1816294 ACATGTTGCA
1816304 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
1816325 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
1816345 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
1816366 ATGTATCGATACAT
1 ATGTATCGATACAT
1816380 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:1816337 original size:41 final size:41
Alignment explanation
Indices: 1816286--1816379 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1816276 ACAATTCAAA
*
1816286 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1816327 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1816368 GTATCGATACAT
1 GTATCGATACAT
1816380 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:1816436 original size:13 final size:13
Alignment explanation
Indices: 1816418--1816443 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1816408 TACAGCAAGT
1816418 ATGTATCGATACA
1 ATGTATCGATACA
1816431 ATGTATCGATACA
1 ATGTATCGATACA
1816444 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:1818680 original size:21 final size:21
Alignment explanation
Indices: 1818647--1818691 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1818637 TTGCAAGTTG
*
1818647 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1818669 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1818689 AAA
1 AAA
1818692 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:1820515 original size:15 final size:15
Alignment explanation
Indices: 1820495--1820525 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1820485 TAAAAATGTC
*
1820495 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1820510 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1820525 C
1 C
1820526 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:1822608 original size:20 final size:20
Alignment explanation
Indices: 1822580--1822618 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1822570 CATCTGGAAA
1822580 TTCTATGTATCGATACATTT
1 TTCTATGTATCGATACATTT
*
1822600 TTCTTTGTATCGATACATT
1 TTCTATGTATCGATACATT
1822619 ATATCGATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.10, T:0.51
Consensus pattern (20 bp):
TTCTATGTATCGATACATTT
Found at i:1822625 original size:13 final size:13
Alignment explanation
Indices: 1822607--1822642 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
1822597 TTTTTCTTTG
*
1822607 TATCGATACATTA
1 TATCGATACACTA
*
1822620 TATCGATACACTG
1 TATCGATACACTA
1822633 TATCGATACA
1 TATCGATACA
1822643 GGGTGATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.33
Consensus pattern (13 bp):
TATCGATACACTA
Found at i:1825108 original size:20 final size:20
Alignment explanation
Indices: 1825085--1825157 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
1825075 ACAATTCAAA
1825085 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
* *
1825105 GTATCGATACATGAAT-AAGAT
1 GTATCGATACATG-TTGCA-AT
1825126 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1825146 GTATCGATACAT
1 GTATCGATACAT
1825158 AAAAAAGATG
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
20 29 0.63
21 17 0.37
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1825129 original size:21 final size:21
Alignment explanation
Indices: 1825103--1825178 Score: 93
Period size: 21 Copynumber: 3.7 Consensus size: 21
1825093 ACATGTTGCA
1825103 ATGTATCGATACATGAATAAG
1 ATGTATCGATACATGAATAAG
* *
1825124 ATGTATCGATACATG-TTGCA-
1 ATGTATCGATACATGAAT-AAG
* *
1825144 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAATAAG
1825165 ATGTATCGATACAT
1 ATGTATCGATACAT
1825179 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAATAAG
Found at i:1825136 original size:41 final size:41
Alignment explanation
Indices: 1825085--1825178 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
1825075 ACAATTCAAA
* *
1825085 GTATCGATACATGTTGCAATGTATCGATACATGAATAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1825126 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1825167 GTATCGATACAT
1 GTATCGATACAT
1825179 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:1825235 original size:13 final size:13
Alignment explanation
Indices: 1825217--1825242 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1825207 TACAGCAAGT
1825217 ATGTATCGATACA
1 ATGTATCGATACA
1825230 ATGTATCGATACA
1 ATGTATCGATACA
1825243 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:1826741 original size:22 final size:21
Alignment explanation
Indices: 1826713--1826777 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 21
1826703 TCTGCATATA
1826713 CTATTATAGTCATATGTACATG
1 CTATTATAGT-ATATGTACATG
* *
1826735 CTATTATAGTGAAATGTACATT
1 CTATTATAGT-ATATGTACATG
*
1826757 CTATTATAATATTATGTACAT
1 CTATTATAGTA-TATGTACAT
1826778 ATTACTATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 1 0.03
22 36 0.97
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (21 bp):
CTATTATAGTATATGTACATG
Found at i:1826786 original size:22 final size:24
Alignment explanation
Indices: 1826748--1826798 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 24
1826738 TTATAGTGAA
*
1826748 ATGTACATTCTATTATAATA-T-T
1 ATGTACATTCTACTATAATACTAT
1826770 ATGTACATAT-TACTATAATACTAT
1 ATGTACAT-TCTACTATAATACTAT
1826794 ATGTA
1 ATGTA
1826799 TGTAATGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 17 0.68
23 2 0.08
24 6 0.24
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (24 bp):
ATGTACATTCTACTATAATACTAT
Found at i:1826796 original size:68 final size:68
Alignment explanation
Indices: 1826707--1826842 Score: 150
Period size: 68 Copynumber: 2.0 Consensus size: 68
1826697 GAGTGATCTG
* * ** * *
1826707 CATATACTATTATAGTCATATGTACATGCTATTATAGTGAAATGTACATTCTATTATAA-TATTA
1 CATATACTATAATACTCATATGTACATAATATTATAGTAAAATGTACATTCAATTATAATTA-TA
1826771 TGTA
65 TGTA
** * *
1826775 CATATTACTATAATACT-ATATGTATGTAATGTTATTGTAAAATGTACATTCAATTATAATTATA
1 CATA-TACTATAATACTCATATGTACATAATATTATAGTAAAATGTACATTCAATTATAATTATA
1826839 TGTA
65 TGTA
1826843 TATTTAATTA
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
68 44 0.79
69 12 0.21
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (68 bp):
CATATACTATAATACTCATATGTACATAATATTATAGTAAAATGTACATTCAATTATAATTATAT
GTA
Found at i:1826841 original size:22 final size:22
Alignment explanation
Indices: 1826816--1826860 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1826806 TTATTGTAAA
1826816 ATGTACATTCAATTATAATTAT
1 ATGTACATTCAATTATAATTAT
* * *
1826838 ATGTATATTTAATTATATTTAT
1 ATGTACATTCAATTATAATTAT
1826860 A
1 A
1826861 CATATACCGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (22 bp):
ATGTACATTCAATTATAATTAT
Found at i:1826894 original size:22 final size:22
Alignment explanation
Indices: 1826864--1826917 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
1826854 ATTTATACAT
* * *
1826864 ATACCGTTATAGTCATATGTAC
1 ATACTGTTATAGCCATATATAC
*
1826886 ATACTGTTAAAGCCATATATAC
1 ATACTGTTATAGCCATATATAC
*
1826908 ATATTGTTAT
1 ATACTGTTAT
1826918 TGTGATACAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (22 bp):
ATACTGTTATAGCCATATATAC
Found at i:1827082 original size:22 final size:22
Alignment explanation
Indices: 1826998--1827091 Score: 92
Period size: 22 Copynumber: 4.5 Consensus size: 22
1826988 GATTAGCTCC
1826998 TTTAGTTATTGTGATATGTACA-
1 TTTA-TTATTGTGATATGTACAT
*
1827020 -TTATCA---TGATATGTACAT
1 TTTATTATTGTGATATGTACAT
** * *
1827038 ACTATTACTATGATATGTACAT
1 TTTATTATTGTGATATGTACAT
1827060 TTTATTATTGTGATATGTACAT
1 TTTATTATTGTGATATGTACAT
1827082 TTTATT-TTGT
1 TTTATTATTGT
1827092 TTTAATTTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
17 11 0.18
19 4 0.07
20 2 0.03
21 7 0.12
22 36 0.60
ACGTcount: A:0.29, C:0.07, G:0.13, T:0.51
Consensus pattern (22 bp):
TTTATTATTGTGATATGTACAT
Found at i:1827407 original size:22 final size:22
Alignment explanation
Indices: 1827382--1827423 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1827372 TATGTACATA
1827382 GTTATAGTGACATATACATATT
1 GTTATAGTGACATATACATATT
* *
1827404 GTTATAGTTATATATACATA
1 GTTATAGTGACATATACATA
1827424 CAATCTTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (22 bp):
GTTATAGTGACATATACATATT
Found at i:1827458 original size:21 final size:21
Alignment explanation
Indices: 1827433--1827589 Score: 66
Period size: 21 Copynumber: 7.5 Consensus size: 21
1827423 ACAATCTTTG
*
1827433 TGAAGGGGTTGGTTCTTTTAA
1 TGAAGGGGTTGGTTCTCTTAA
* * *
1827454 TGAAGGGGCTAGTTCTCTTAG
1 TGAAGGGGTTGGTTCTCTTAA
** * *
1827475 TGAAAAGGTTGGTTCCCTTAG
1 TGAAGGGGTTGGTTCTCTTAA
** * * **
1827496 TGAAAAGGTTGATCCTCTTTG
1 TGAAGGGGTTGGTTCTCTTAA
1827517 TGTAA-GGGTTGGTTC-CTTAA
1 TG-AAGGGGTTGGTTCTCTTAA
*** *
1827537 GTGAAACTGTTGGTTCTCTTTA
1 -TGAAGGGGTTGGTTCTCTTAA
*** * *
1827559 TGAAAATGTTAGTTCTCTTAG
1 TGAAGGGGTTGGTTCTCTTAA
*
1827580 TGAAAGGGTT
1 TGAAGGGGTT
1827590 TAATCTATTT
Statistics
Matches: 105, Mismatches: 27, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
20 5 0.05
21 94 0.90
22 6 0.06
ACGTcount: A:0.22, C:0.11, G:0.28, T:0.39
Consensus pattern (21 bp):
TGAAGGGGTTGGTTCTCTTAA
Found at i:1827514 original size:42 final size:42
Alignment explanation
Indices: 1827468--1827589 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 42
1827458 GGGGCTAGTT
1827468 CTCTTAGTGAAAAGGTTGGTTCCCTTAGTGAAAAGGTTGATC
1 CTCTTAGTGAAAAGGTTGGTTCCCTTAGTGAAAAGGTTGATC
* * * ** * *
1827510 CTCTTTGTGTAAGGGTTGGTT-CCTTAAGTGAAACTGTTGGTT
1 CTCTTAGTGAAAAGGTTGGTTCCCTT-AGTGAAAAGGTTGATC
* * * *
1827552 CTCTTTA-TGAAAATGTTAGTTCTCTTAGTGAAAGGGTT
1 CTC-TTAGTGAAAAGGTTGGTTCCCTTAGTGAAAAGGTT
1827590 TAATCTATTT
Statistics
Matches: 62, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
41 4 0.06
42 53 0.85
43 5 0.08
ACGTcount: A:0.23, C:0.12, G:0.25, T:0.39
Consensus pattern (42 bp):
CTCTTAGTGAAAAGGTTGGTTCCCTTAGTGAAAAGGTTGATC
Found at i:1828528 original size:81 final size:79
Alignment explanation
Indices: 1828382--1828557 Score: 185
Period size: 81 Copynumber: 2.2 Consensus size: 79
1828372 AAAGCGTGAA
* * * * * * *
1828382 ACTAATCCTAATGACTTGACTTCGATGGAAGGTACGAAACCTAAATTAATTAAGGCTTAGTCTCG
1 ACTAAACCTAATGACTTGACTTCAATAGAAGGTACGAAACCTAAACTAACTAAAGC-TAGCCTCG
1828447 ATAGAAAAGTGTAAG
65 ATAGAAAAGTGTAAG
* *
1828462 ACTAAACCTAATGGACTTGGCTTCAATAGAAGGTATGAAACCTAAACTAACTAAAGC-ACGACCT
1 ACTAAACCTAAT-GACTTGACTTCAATAGAAGGTACGAAACCTAAACTAACTAAAGCTA-G-CCT
* ** *
1828526 CGATAG-AAGGTACAAA
63 CGATAGAAAAGTGTAAG
1828542 ACTAAACCTAATGACT
1 ACTAAACCTAATGACT
1828558 CGGTTTTGGT
Statistics
Matches: 80, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
79 5 0.06
80 30 0.38
81 45 0.56
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (79 bp):
ACTAAACCTAATGACTTGACTTCAATAGAAGGTACGAAACCTAAACTAACTAAAGCTAGCCTCGA
TAGAAAAGTGTAAG
Found at i:1831093 original size:44 final size:44
Alignment explanation
Indices: 1831030--1831113 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
1831020 GTCCTTATAC
* *
1831030 TGTTATTATGATATGTACATTA-TATAATTGTAATATGTATTTGT
1 TGTTATGATGATACGTACA-TACTATAATTGTAATATGTATTTGT
* *
1831074 TGTTATGATGATACGTACATACTATTATTGTGATATGTAT
1 TGTTATGATGATACGTACATACTATAATTGTAATATGTAT
1831114 ATTTAGTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (44 bp):
TGTTATGATGATACGTACATACTATAATTGTAATATGTATTTGT
Found at i:1831123 original size:44 final size:44
Alignment explanation
Indices: 1831031--1831123 Score: 109
Period size: 44 Copynumber: 2.1 Consensus size: 44
1831021 TCCTTATACT
* * *
1831031 GTTATTATGATATGTACATTATATAATTGTAATATGTATTTGTT
1 GTTATGATGATACGTACATTATATAATTGTAATATGTATTTGTA
* *
1831075 GTTATGATGATACGTACA-TACTATTATTGTGATATGTATATT-TA
1 GTTATGATGATACGTACATTA-TATAATTGTAATATGTAT-TTGTA
1831119 GTTAT
1 GTTAT
1831124 AATATATAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
43 2 0.05
44 38 0.90
45 2 0.05
ACGTcount: A:0.31, C:0.04, G:0.15, T:0.49
Consensus pattern (44 bp):
GTTATGATGATACGTACATTATATAATTGTAATATGTATTTGTA
Found at i:1831439 original size:6 final size:7
Alignment explanation
Indices: 1831422--1831448 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
1831412 TGAAATCTAA
1831422 AAAAAAT
1 AAAAAAT
1831429 AAAAAAT
1 AAAAAAT
1831436 AAAAAAT
1 AAAAAAT
1831443 AAAAAA
1 AAAAAA
1831449 GATCCTTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:1833141 original size:22 final size:22
Alignment explanation
Indices: 1833116--1833164 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1833106 ATAATAATAC
*
1833116 TATGTATATTTAATTAAAGTCA
1 TATGTATATTCAATTAAAGTCA
* *
1833138 TATGTATATTCAGTTAAAGTTA
1 TATGTATATTCAATTAAAGTCA
1833160 TATGT
1 TATGT
1833165 TCATATTGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.47
Consensus pattern (22 bp):
TATGTATATTCAATTAAAGTCA
Found at i:1833175 original size:22 final size:22
Alignment explanation
Indices: 1833116--1833186 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
1833106 ATAATAATAC
*
1833116 TATG-TATATTTAATTAAAGTCA
1 TATGTTATA-TTAGTTAAAGTCA
*
1833138 TATG-TATATTCAGTTAAAGTTA
1 TATGTTATATT-AGTTAAAGTCA
*
1833160 TATGTTCATATT-GTTACAGTCA
1 TATGTT-ATATTAGTTAAAGTCA
1833182 TATGT
1 TATGT
1833187 AGATTCTGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
21 2 0.05
22 34 0.81
23 1 0.02
24 5 0.12
ACGTcount: A:0.34, C:0.07, G:0.13, T:0.46
Consensus pattern (22 bp):
TATGTTATATTAGTTAAAGTCA
Found at i:1833196 original size:22 final size:22
Alignment explanation
Indices: 1833129--1833197 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
1833119 GTATATTTAA
* *
1833129 TTAAAGTCATATGTATATTCAG
1 TTAAAGTCATATGTACATTCTG
* *
1833151 TTAAAGTTATATGTTCATAT-TG
1 TTAAAGTCATATGTACAT-TCTG
* *
1833173 TTACAGTCATATGTAGATTCTG
1 TTAAAGTCATATGTACATTCTG
1833195 TTA
1 TTA
1833198 TAATAGTATG
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
21 1 0.03
22 35 0.95
23 1 0.03
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (22 bp):
TTAAAGTCATATGTACATTCTG
Found at i:1833347 original size:21 final size:21
Alignment explanation
Indices: 1833321--1833360 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1833311 ATTTTCTTGG
*
1833321 AAAAATTAGTTCTCTTAGTAA
1 AAAAATTAGTTCCCTTAGTAA
*
1833342 AAAAATTGGTTCCCTTAGT
1 AAAAATTAGTTCCCTTAGT
1833361 GAAAGGGTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (21 bp):
AAAAATTAGTTCCCTTAGTAA
Found at i:1833392 original size:21 final size:21
Alignment explanation
Indices: 1833329--1833399 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
1833319 GGAAAAATTA
* *
1833329 GTTCTCTTAGTAAAAAAATTG
1 GTTCTCTTAGTAAAGAGATTG
* *
1833350 GTTCCCTTAGTGAAAG-GGTTG
1 GTTCTCTTAGT-AAAGAGATTG
*
1833371 GTTCTCTTTGTAAAGAGATTG
1 GTTCTCTTAGTAAAGAGATTG
*
1833392 GTTTTCTT
1 GTTCTCTT
1833400 CATGAAATGG
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 4 0.10
21 33 0.82
22 3 0.08
ACGTcount: A:0.24, C:0.11, G:0.23, T:0.42
Consensus pattern (21 bp):
GTTCTCTTAGTAAAGAGATTG
Found at i:1833406 original size:42 final size:42
Alignment explanation
Indices: 1833329--1833420 Score: 98
Period size: 42 Copynumber: 2.2 Consensus size: 42
1833319 GGAAAAATTA
* *
1833329 GTTCTCTTAGTAAAAAAATTGGTTCCCTTAGTGAAAGGGTTG
1 GTTCTCTTTGTAAAAAAATTGGTTCCCTTAGTGAAAGGGTCG
* * ** *
1833371 GTTCTCTTTGTAAAGAGATTGGTTTTCTTCA-TGAAATGGTCG
1 GTTCTCTTTGTAAAAAAATTGGTTCCCTT-AGTGAAAGGGTCG
1833413 GTTC-CTTT
1 GTTCTCTTT
1833421 CTTAAAAGGG
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
41 4 0.10
42 37 0.88
43 1 0.02
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.41
Consensus pattern (42 bp):
GTTCTCTTTGTAAAAAAATTGGTTCCCTTAGTGAAAGGGTCG
Found at i:1834628 original size:33 final size:32
Alignment explanation
Indices: 1834575--1834637 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
1834565 AGAAGCAATG
*
1834575 TATCGATACAATTCATCATGTATTGATACATTT
1 TATCGATACAATTCA-CATGTATCGATACATTT
1834608 TATCGATACAATATGC-CATGTATCGATACA
1 TATCGATACAAT-T-CACATGTATCGATACA
1834638 AACAGTGGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 25 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (32 bp):
TATCGATACAATTCACATGTATCGATACATTT
Found at i:1834711 original size:19 final size:19
Alignment explanation
Indices: 1834667--1834751 Score: 83
Period size: 19 Copynumber: 4.7 Consensus size: 19
1834657 CTGCCAGTTT
* **
1834667 CATGTATCGATACCATTGTG
1 CATGTATCGATA-CAGTGAA
1834687 CATGTATCGATACAGTGAA
1 CATGTATCGATACAGTGAA
1834706 CATGTATCGATAC-----A
1 CATGTATCGATACAGTGAA
*
1834720 -ATGCATCGATACAGTGAA
1 CATGTATCGATACAGTGAA
1834738 CATGTATCGATACA
1 CATGTATCGATACA
1834752 ATGTATCGAT
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
13 11 0.20
14 1 0.02
18 1 0.02
19 29 0.54
20 12 0.22
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (19 bp):
CATGTATCGATACAGTGAA
Found at i:1834730 original size:32 final size:32
Alignment explanation
Indices: 1834692--1834764 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
1834682 TTGTGCATGT
1834692 ATCGATACAGTGAACATGTATCGATACAATGC
1 ATCGATACAGTGAACATGTATCGATACAATGC
*
1834724 ATCGATACAGTGAACATGTATCGATACAATGT
1 ATCGATACAGTGAACATGTATCGATACAATGC
1834756 ATCGATACA
1 ATCGATACA
1834765 AAGCATAATG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (32 bp):
ATCGATACAGTGAACATGTATCGATACAATGC
Found at i:1834757 original size:13 final size:13
Alignment explanation
Indices: 1834707--1834765 Score: 60
Period size: 13 Copynumber: 5.1 Consensus size: 13
1834697 TACAGTGAAC
1834707 ATGTATCGATACA
1 ATGTATCGATACA
*
1834720 ATGCATCGATAC-
1 ATGTATCGATACA
1834732 A-G--T-GA-AC-
1 ATGTATCGATACA
1834739 ATGTATCGATACA
1 ATGTATCGATACA
1834752 ATGTATCGATACA
1 ATGTATCGATACA
1834765 A
1 A
1834766 AGCATAATGT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
7 3 0.08
8 3 0.08
9 1 0.03
10 1 0.03
11 3 0.08
12 3 0.08
13 25 0.64
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1837301 original size:13 final size:13
Alignment explanation
Indices: 1837263--1837302 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
1837253 AGTAACTCTT
* *
1837263 GTATTGATACAAT
1 GTATCGATACAAA
1837276 GTATCGATACAAA
1 GTATCGATACAAA
1837289 GTATCGATACAAA
1 GTATCGATACAAA
1837302 G
1 G
1837303 AATATTGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.28
Consensus pattern (13 bp):
GTATCGATACAAA
Found at i:1841518 original size:20 final size:20
Alignment explanation
Indices: 1841493--1841560 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
1841483 GTTATAAGCA
1841493 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCATC
1841513 ATGTATCGAT---A--CA--
1 ATGTATCGATACAATTCATC
1841526 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCATC
1841546 ATGTATCGATACAAT
1 ATGTATCGATACAAT
1841561 GTATCGATAC
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
13 10 0.24
15 2 0.05
16 1 0.02
17 1 0.02
18 2 0.05
20 25 0.61
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATTCATC
Found at i:1841531 original size:13 final size:13
Alignment explanation
Indices: 1841491--1841575 Score: 86
Period size: 13 Copynumber: 7.5 Consensus size: 13
1841481 CCGTTATAAG
1841491 CAATGTATCGATA
1 CAATGTATCGATA
1841504 CAA--T-TC-AT-
1 CAATGTATCGATA
1841512 C-ATGTATCGATA
1 CAATGTATCGATA
1841524 CAATGTATCGATA
1 CAATGTATCGATA
1841537 CAA--T-TC-AT-
1 CAATGTATCGATA
1841545 C-ATGTATCGATA
1 CAATGTATCGATA
1841557 CAATGTATCGATA
1 CAATGTATCGATA
1841570 CAATGT
1 CAATGT
1841576 CCTATGTATC
Statistics
Matches: 60, Mismatches: 0, Indels: 24
0.71 0.00 0.29
Matches are distributed among these distances:
7 2 0.03
8 2 0.03
9 6 0.10
10 8 0.13
11 6 0.10
12 2 0.03
13 34 0.57
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1841533 original size:33 final size:33
Alignment explanation
Indices: 1841491--1841592 Score: 179
Period size: 33 Copynumber: 3.1 Consensus size: 33
1841481 CCGTTATAAG
1841491 CAATGTATCGATACAATTCATCATGTATCGATA
1 CAATGTATCGATACAATTCATCATGTATCGATA
1841524 CAATGTATCGATACAATTCATCATGTATCGATA
1 CAATGTATCGATACAATTCATCATGTATCGATA
*
1841557 CAATGTATCGATACAATGTCCT-ATGTATCGATA
1 CAATGTATCGATACAAT-TCATCATGTATCGATA
1841590 CAA
1 CAA
1841593 ACAGTGGTAG
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
33 64 0.96
34 3 0.04
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (33 bp):
CAATGTATCGATACAATTCATCATGTATCGATA
Found at i:1843050 original size:3 final size:3
Alignment explanation
Indices: 1843042--1843084 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
1843032 TCCGAGTCAC
*
1843042 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CTT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1843085 TTTGATGGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.30, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
CAT
Found at i:1844791 original size:20 final size:20
Alignment explanation
Indices: 1844766--1844820 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
1844756 CTGCCAGTTT
**
1844766 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGAA
*
1844786 CATGTATCGATAC-AGTGAA
1 CATGTATCGATACAATTGAA
1844805 CATGTATCGATACAAT
1 CATGTATCGATACAAT
1844821 GTATCGATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:1844824 original size:13 final size:13
Alignment explanation
Indices: 1844806--1844832 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1844796 TACAGTGAAC
1844806 ATGTATCGATACA
1 ATGTATCGATACA
1844819 ATGTATCGATACA
1 ATGTATCGATACA
1844832 A
1 A
1844833 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1845106 original size:20 final size:20
Alignment explanation
Indices: 1845081--1845130 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
1845071 CAGTTTCATA
* **
1845081 TATCGATACAATTGTGCATG
1 TATCGATACAAGTGAACATG
*
1845101 TATCGATA-TAGTGAACATG
1 TATCGATACAAGTGAACATG
1845120 TATCGATACAA
1 TATCGATACAA
1845131 AGCATAATGT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
TATCGATACAAGTGAACATG
Found at i:1846440 original size:13 final size:13
Alignment explanation
Indices: 1846422--1846447 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1846412 CAATTTTTTG
1846422 TGTATCGATACAT
1 TGTATCGATACAT
1846435 TGTATCGATACAT
1 TGTATCGATACAT
1846448 ACTTGCTGTA
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:1847193 original size:21 final size:21
Alignment explanation
Indices: 1847152--1847195 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1847142 CTCCCCTTTA
* *
1847152 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
1847173 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
1847194 TC
1 TC
1847196 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:1849019 original size:13 final size:13
Alignment explanation
Indices: 1849001--1849039 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
1848991 ATAATCACCC
1849001 TGTATCGATACAA
1 TGTATCGATACAA
1849014 TGTATCGATACAA
1 TGTATCGATACAA
1849027 TGTATCGATACAA
1 TGTATCGATACAA
1849040 AGAAAATGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1851137 original size:15 final size:15
Alignment explanation
Indices: 1851117--1851147 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1851107 ATTTCGTTTG
*
1851117 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1851132 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1851147 G
1 G
1851148 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1852974 original size:21 final size:22
Alignment explanation
Indices: 1852949--1852995 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
1852939 GCAAGTTTTC
* *
1852949 ATTTTTCTTAGCTAAC-TCATT
1 ATTTTTATTAGCCAACTTCATT
*
1852970 ATTTTTATTAGCCAACTTCTTT
1 ATTTTTATTAGCCAACTTCATT
1852992 ATTT
1 ATTT
1852996 CAACTTGCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.23, C:0.17, G:0.04, T:0.55
Consensus pattern (22 bp):
ATTTTTATTAGCCAACTTCATT
Found at i:1855230 original size:13 final size:13
Alignment explanation
Indices: 1855212--1855237 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1855202 CAATTTTTTG
1855212 TGTATCGATACAT
1 TGTATCGATACAT
1855225 TGTATCGATACAT
1 TGTATCGATACAT
1855238 ACTTGCTGTA
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:1855722 original size:40 final size:40
Alignment explanation
Indices: 1855631--1855805 Score: 139
Period size: 39 Copynumber: 4.5 Consensus size: 40
1855621 TTTGGTTTAG
** * *
1855631 TTTAAGTTTAGTTTCATA-CTTTTCATCGAAATCGAG--TT
1 TTTAAGTTTAGTTTTGTACCTTCT-ATCGAGATCGAGCCTT
* * *
1855669 TATGAGTTTAGTTTTGTACCTTCTATTGAGATCGAGCCTT
1 TTTAAGTTTAGTTTTGTACCTTCTATCGAGATCGAGCCTT
* * * *
1855709 TTTAAGTTTAGTTTTGTACTTTCCATCGAAATTGAG--TT
1 TTTAAGTTTAGTTTTGTACCTTCTATCGAGATCGAGCCTT
* * *
1855747 TGTTAGGTTTAGTTTTGTATC-TCTTATCGAGATCAAGCC-T
1 T-TTAAGTTTAGTTTTGTACCTTC-TATCGAGATCGAGCCTT
*
1855787 ATTAAGTTTAGTTTTGTAC
1 TTTAAGTTTAGTTTTGTAC
1855806 TTTCAAACTA
Statistics
Matches: 106, Mismatches: 24, Indels: 13
0.74 0.17 0.09
Matches are distributed among these distances:
38 29 0.27
39 45 0.42
40 32 0.30
ACGTcount: A:0.23, C:0.13, G:0.17, T:0.47
Consensus pattern (40 bp):
TTTAAGTTTAGTTTTGTACCTTCTATCGAGATCGAGCCTT
Found at i:1855792 original size:78 final size:78
Alignment explanation
Indices: 1855632--1855809 Score: 234
Period size: 78 Copynumber: 2.3 Consensus size: 78
1855622 TTGGTTTAGT
** * *
1855632 TTAAGTTTAGTTTCATACTTTTCATCGAAATCGAGTTTATGAGTTTAGTTTTGTACCTTCTATTG
1 TTAAGTTTAGTTTTGTACTTTCCATCGAAATCGAGTTTATGAGTTTAGTTTTGTACCTTCTATCG
* *
1855697 AGATCGAGCCTTT
66 AGATCAAGCCTTA
* * * *
1855710 TTAAGTTTAGTTTTGTACTTTCCATCGAAATTGAGTTTGTTAGGTTTAGTTTTGTATC-TCTTAT
1 TTAAGTTTAGTTTTGTACTTTCCATCGAAATCGAGTTTATGA-GTTTAGTTTTGTACCTTC-TAT
1855774 CGAGATCAAGCC-TA
64 CGAGATCAAGCCTTA
1855788 TTAAGTTTAGTTTTGTACTTTC
1 TTAAGTTTAGTTTTGTACTTTC
1855810 AAACTAAGTT
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
78 61 0.69
79 27 0.31
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.48
Consensus pattern (78 bp):
TTAAGTTTAGTTTTGTACTTTCCATCGAAATCGAGTTTATGAGTTTAGTTTTGTACCTTCTATCG
AGATCAAGCCTTA
Found at i:1857042 original size:13 final size:13
Alignment explanation
Indices: 1857024--1857049 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1857014 TACACCAAGT
1857024 ATGTATCGATACA
1 ATGTATCGATACA
1857037 ATGTATCGATACA
1 ATGTATCGATACA
1857050 CAAAAAAATT
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:1859304 original size:21 final size:22
Alignment explanation
Indices: 1859266--1859312 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
1859256 TTGCAAGTTG
* *
1859266 AAATAAAGAAGTTGGCTAATAA
1 AAATAAAGAAGTTAGCTAAGAA
*
1859288 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAGAA
1859309 AAAT
1 AAAT
1859313 GAAAACTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.55, C:0.04, G:0.17, T:0.23
Consensus pattern (22 bp):
AAATAAAGAAGTTAGCTAAGAA
Found at i:1860821 original size:15 final size:15
Alignment explanation
Indices: 1860801--1860831 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1860791 TAAAAATGTC
*
1860801 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1860816 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1860831 C
1 C
1860832 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
Done.