Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007734.1 Hibiscus syriacus cultivar Beakdansim tig00109991_pilon, whole genome shotgun sequence
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: 739340
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:2043 original size:16 final size:16
Alignment explanation
Indices: 2022--2101 Score: 115
Period size: 16 Copynumber: 5.0 Consensus size: 16
2012 ATAAACGAAT
2022 ATAAACGAACACAAAC
1 ATAAACGAACACAAAC
*
2038 ATAAACGATCACAAAC
1 ATAAACGAACACAAAC
*
2054 ATAAACGAACACGAAC
1 ATAAACGAACACAAAC
* *
2070 ATAAATGAACACGAAC
1 ATAAACGAACACAAAC
*
2086 ATAAACGAACATAAAC
1 ATAAACGAACACAAAC
2102 GTTGGAGACC
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 57 1.00
ACGTcount: A:0.59, C:0.23, G:0.09, T:0.10
Consensus pattern (16 bp):
ATAAACGAACACAAAC
Found at i:3157 original size:24 final size:24
Alignment explanation
Indices: 3130--3204 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
3120 ATTGGGGTTA
* * *
3130 AACATAAATGAATGAACATAAATG
1 AACATAAACGAACGAACATAAACG
*
3154 AACATAACCGAACGAACATAAACG
1 AACATAAACGAACGAACATAAACG
* * * *
3178 AACATAACCGAACAAACGTAAATG
1 AACATAAACGAACGAACATAAACG
3202 AAC
1 AAC
3205 GAACGAGACA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.56, C:0.19, G:0.12, T:0.13
Consensus pattern (24 bp):
AACATAAACGAACGAACATAAACG
Found at i:3589 original size:18 final size:19
Alignment explanation
Indices: 3550--3596 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
3540 ATTTTTCAAG
**
3550 TAAAA-ATAATAAATTTTA
1 TAAAATATAATAAATAATA
3568 TAAAATATAATAAATAAT-
1 TAAAATATAATAAATAATA
*
3586 TAAAATTTAAT
1 TAAAATATAAT
3597 TGTGTTAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAATATAATAAATAATA
Found at i:4918 original size:39 final size:40
Alignment explanation
Indices: 4833--4918 Score: 99
Period size: 39 Copynumber: 2.2 Consensus size: 40
4823 TGCACTCCTG
* *
4833 GAATCTTCTCTATTTGCCTGAAGACGTCATGCACTCGTTA
1 GAATCTTCTCTATTTACCTGAAGACGTCATGCAATCGTTA
*
4873 G-GTCTTCT-TCATTTACCTGAAGACG-CGATGCAATCG-TA
1 GAATCTTCTCT-ATTTACCTGAAGACGTC-ATGCAATCGTTA
4911 GAATCTTC
1 GAATCTTC
4919 ATATTTAACT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
38 5 0.13
39 33 0.85
40 1 0.03
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (40 bp):
GAATCTTCTCTATTTACCTGAAGACGTCATGCAATCGTTA
Found at i:8617 original size:2 final size:2
Alignment explanation
Indices: 8610--8638 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8600 ACTGACAACT
8610 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8639 TCTACACTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8797 original size:6 final size:7
Alignment explanation
Indices: 8766--8805 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
8756 TTTTAAACCC
8766 TAAATCA
1 TAAATCA
*
8773 TAAAATCT
1 T-AAATCA
8781 TAAATCA
1 TAAATCA
8788 TAAA-CA
1 TAAATCA
8794 TAAATCA
1 TAAATCA
8801 TAAAT
1 TAAAT
8806 TTTAAACCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 6 0.21
7 17 0.59
8 6 0.21
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (7 bp):
TAAATCA
Found at i:8797 original size:21 final size:21
Alignment explanation
Indices: 8766--8827 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
8756 TTTTAAACCC
*
8766 TAAATCATAAAATCTTAAATCA
1 TAAACCAT-AAATCTTAAATCA
* **
8788 TAAA-CATAAATCATAAATTT
1 TAAACCATAAATCTTAAATCA
*
8808 TAAACCCTAAATCTTAAATC
1 TAAACCATAAATCTTAAATC
8828 TTAAGCTCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
20 14 0.42
21 15 0.45
22 4 0.12
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAACCATAAATCTTAAATCA
Found at i:8799 original size:13 final size:14
Alignment explanation
Indices: 8766--8805 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
8756 TTTTAAACCC
*
8766 TAAATCATAAAATCT
1 TAAATCAT-AAATCA
8781 TAAATCATAAA-CA
1 TAAATCATAAATCA
8794 TAAATCATAAAT
1 TAAATCATAAAT
8806 TTTAAACCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 12 0.52
14 3 0.13
15 8 0.35
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (14 bp):
TAAATCATAAATCA
Found at i:8825 original size:7 final size:7
Alignment explanation
Indices: 8775--8831 Score: 53
Period size: 7 Copynumber: 8.3 Consensus size: 7
8765 CTAAATCATA
8775 AAATCTT
1 AAATCTT
*
8782 AAATCAT
1 AAATCTT
*
8789 AAA-CAT
1 AAATCTT
*
8795 AAATCAT
1 AAATCTT
*
8802 AAATTTT
1 AAATCTT
* *
8809 AAACCCT
1 AAATCTT
8816 AAATCTT
1 AAATCTT
8823 AAATCTT
1 AAATCTT
8830 AA
1 AA
8832 GCTCTAATTC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
6 6 0.15
7 35 0.85
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (7 bp):
AAATCTT
Found at i:8825 original size:28 final size:28
Alignment explanation
Indices: 8766--8827 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
8756 TTTTAAACCC
*
8766 TAAATCATAAAATCTTAAATCATAAACA
1 TAAATCATAAAATCTTAAACCATAAACA
* * *
8794 TAAATCAT-AAATTTTAAACCCTAAATCT
1 TAAATCATAAAATCTTAAACCATAAA-CA
8822 TAAATC
1 TAAATC
8828 TTAAGCTCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 14 0.48
28 15 0.52
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (28 bp):
TAAATCATAAAATCTTAAACCATAAACA
Found at i:8838 original size:21 final size:20
Alignment explanation
Indices: 8775--8831 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
8765 CTAAATCATA
* *
8775 AAATCTTAAATCATAAACAT
1 AAATCTTAAATCTTAAACCT
* *
8795 AAATCATAAATTTTAAACCCT
1 AAATCTTAAATCTTAAA-CCT
8816 AAATCTTAAATCTTAA
1 AAATCTTAAATCTTAA
8832 GCTCTAATTC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATCTTAAATCTTAAACCT
Found at i:12870 original size:35 final size:35
Alignment explanation
Indices: 12824--12892 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
12814 ACAATAATAG
12824 ATTTGTTTAATGAGATAACATATTAGAATTTTATT
1 ATTTGTTTAATGAGATAACATATTAGAATTTTATT
12859 ATTTGTTTAATGAGATAACATATTAGAATTTTAT
1 ATTTGTTTAATGAGATAACATATTAGAATTTTAT
12893 GTAAAATCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.48
Consensus pattern (35 bp):
ATTTGTTTAATGAGATAACATATTAGAATTTTATT
Found at i:17084 original size:322 final size:320
Alignment explanation
Indices: 15914--17744 Score: 1536
Period size: 322 Copynumber: 5.8 Consensus size: 320
15904 TTTTGGATCG
* * *
15914 TTCGGATCGGATACAAGGTGATTACTGA-TTTTCGG---GGCAAACGAGCTTTTTTTTTCCTTAA
1 TTCGGATCAGATACAAGGTGATTAATGATTTTTTGGTATGGCAAACGAGC-TTTTTTTTCCTTAA
** * * **
15975 TCAAAGGCAAGTTACCTTAATAATTAAAAATAAATTACATGCTTGAAACCATTTTGTCACTTGTT
65 TCAAAGGCAAACTACCTTAATAATTAAAAAGAAATTACATGCTTGAAACCTTTTTGTCACTTGCC
* ** * * * *
16040 GTCTTAGATCAGCTGGTAGAGCATGTGGCTTTTAACCATATGGTTGTGGGTTTGATTCCCACGGA
130 GTCTTAGCTCAGCTGGTAGAGCATGTGGCTTTTAACCACGTGGTCGTGAGTTCGATTCCCACAGA
* ** * * * *
16105 -AG-GCATTGTTGTTCATGTGTAGTTGAATGTGTTCATATACTAGGTACGTGTAGTGATATGAA-
195 CAGTGC--TATTGTTCGCGTGTAGTTGAATATGTTCATACACTAGGTACGGGTAGTGATCTGAAT
* * * *
16167 -T--TTC--ATGTGTCGC-ATT-TT-GCATTTGAATGGATAATCAAGGCAATTCACAAGAAAAT
258 TTGATTCAAAT-TGTTGCTTTTCTTGGCCTTTGAATGGATAATCAAGGCAATTCACATGAAAAT
** ** * * *
16223 TAAGGATGGGATACAAGGTGATTAATGA-TTTTTGGTATGGAAAACGAGCTTTTTCTCTCCTTTA
1 TTCGGATCAGATACAAGGTGATTAATGATTTTTTGGTATGGCAAACGAGCTTTTT-TTTCCTTAA
* * * *
16287 TCAAAGGCAAACTACCTTAATATTTATAAAGAAATTACATGCTTGAAACCTTTTCGTCACTTGTC
65 TCAAAGGCAAACTACCTTAATAATTAAAAAGAAATTACATGCTTGAAACCTTTTTGTCACTTGCC
* * * * **
16352 GTCTTAACTCAGTTGGTAGAGCATGTTGCTTTTAATCACGTGGTC-AAAGGTTCGAATTCCCACA
130 GTCTTAGCTCAGCTGGTAGAGCATGTGGCTTTTAACCACGTGGTCGTGA-GTTCG-ATTCCCACA
* * * * * * * * *
16416 GTCGGTGTTGTTGTTCGCGTGTAGTTAAATATGTTCATATACTAGGTA-GTGATAATGATCAGAA
193 GACAGTGCTATTGTTCGCGTGTAGTTGAATATGTTCATACACTAGGTACG-GGTAGTGATCTGAA
** * * * * *
16480 TTTGA-TC---CCG-TG-----CAT----TTTGAATAGAT-ATCAAGGCGATTCACCTAAAAAT
257 TTTGATTCAAATTGTTGCTTTTCTTGGCCTTTGAATGGATAATCAAGGCAATTCACATGAAAAT
* * * * *
16529 TTCGGATCCGTTACAAGGTGATTAATGATTTTTTTGGTATGGGAAACGAGTTTTTTTTTTCTTAA
1 TTCGGATCAGATACAAGGTGATTAATGA-TTTTTTGGTATGGCAAACGAGCTTTTTTTTCCTTAA
** * ** *
16594 TCAAACACAAACTACCATAATAATTAAAAAGAAATTACATGCTTGAAACCTTTTTGTCACTCACT
65 TCAAAGGCAAACTACCTTAATAATTAAAAAGAAATTACATGCTTGAAACCTTTTTGTCACTTGCC
* ** * * * *
16659 GTCTTAGCTCAACTGGTAGAGCGCGTGGCTTTTAACCACGTGGTCGTGGGTTTGATTCGCACATA
130 GTCTTAGCTCAGCTGGTAGAGCATGTGGCTTTTAACCACGTGGTCGTGAGTTCGATTCCCACAGA
** * * ** *
16724 TGGTGTTGTTGTTCGATTGTAGTTGAATATGTTCATACACTAGATACGGGTAGTGATCTGAATTT
195 CAGTGCTATTGTTCGCGTGTAGTTGAATATGTTCATACACTAGGTACGGGTAGTGATCTGAATTT
16789 GATTCAAATTGTTGCTTTTGCTTCGGCCTTTGAATGGATAATCAAGGCAATTCACATGAAAAT
260 GATTCAAATTGTTGCTTTT-CTT-GGCCTTTGAATGGATAATCAAGGCAATTCACATGAAAAT
* * * ***
16852 TTCGGATTAGATACAATGTGATTGATGATTTTTTGGTATGGCAAACGAGCTTTTTCCCCCTTAAT
1 TTCGGATCAGATACAAGGTGATTAATGATTTTTTGGTATGGCAAACGAGCTTTTTTTTCCTTAAT
* * *
16917 CAAAGGCAAACTACCTTAATAATTGAAAAGAAATTACATGCTTGAAACCTTTTTGTCACATCCCG
66 CAAAGGCAAACTACCTTAATAATTAAAAAGAAATTACATGCTTGAAACCTTTTTGTCACTTGCCG
* *
16982 TCTTAGCTCAGCTGGTAGAGCATGTGGCTTTTAACTACGTGGTCGTGAGTTCGATTCCCAAAGAC
131 TCTTAGCTCAGCTGGTAGAGCATGTGGCTTTTAACCACGTGGTCGTGAGTTCGATTCCCACAGAC
* * * *
17047 AGTGCTATTGTTCTCGTGTAGTTGAATATGATCATACACTAGGTTA-GTGATAGTGATCCGAATT
196 AGTGCTATTGTTCGCGTGTAGTTGAATATGTTCATACACTAGG-TACG-GGTAGTGATCTGAATT
* * * * *
17111 CGA-TCCAA--G-TG--ATT-TTGAG----T--A--GAT-ATCAAGGCAATTCACCTAAAAAT
259 TGATTCAAATTGTTGCTTTTCTTG-GCCTTTGAATGGATAATCAAGGCAATTCACATGAAAAT
* * * ** * *
17158 TTCGGATCGGATACAAGGTGATTACTGACTTTTTTTGTATGGGGAACGAACTTTTTTTT-ATTAA
1 TTCGGATCAGATACAAGGTGATTAATGA-TTTTTTGGTATGGCAAACGAGCTTTTTTTTCCTTAA
* * *
17222 TCAAACGTAAACTACCGTAATAATTAAAAAGAAATTACATGCTTGAAACCTTTTTGTCACTTGCC
65 TCAAAGGCAAACTACCTTAATAATTAAAAAGAAATTACATGCTTGAAACCTTTTTGTCACTTGCC
** * *
17287 AGTTGCCATCTTAGCTCAGCTGGTAGAGTGTGTGGCTTTTAACCACGTGGTTGTGGGTTCGATTC
130 ----G---TCTTAGCTCAGCTGGTAGAGCATGTGGCTTTTAACCACGTGGTCGTGAGTTCGATTC
* * **** * *** * * * *
17352 CTACAAACAACATTGTTGTTCAATTGTAGTTGAATGTGGTCATATACTAGGTACGAGTAGTGATC
188 CCACAGACAGTGCTATTGTTCGCGTGTAGTTGAATATGTTCATACACTAGGTACGGGTAGTGATC
* * * *
17417 TGAATTTGATCCAAGGTT-TTACTTCTACTTTGGCCTTTGAATGGATAATCAAGGCAATTCACAT
253 TGAATTTGATTCAA-ATTGTTGCTT-TTC-TTGGCCTTTGAATGGATAATCAAGGCAATTCACAT
17481 GAAAAT
315 GAAAAT
* * * * * *
17487 TTCAGATTAGTTACAATGTGATTAATGATTTTTTGGTATGACAAACGAG-TTTTTTTTATCTTAA
1 TTCGGATCAGATACAAGGTGATTAATGATTTTTTGGTATGGCAAACGAGCTTTTTTTT-CCTTAA
* * *
17551 TCAAAGGCAAACTACCTTAATAATTAAAAAGAAATTACATGCTTGAAACTTTTTTGCCACTTGCT
65 TCAAAGGCAAACTACCTTAATAATTAAAAAGAAATTACATGCTTGAAACCTTTTTGTCACTTGCC
* * ** *** * * * *
17616 GCCTTATCTCATATGGTAGAGTGCGTAGATTTTAACCACGTGGTCCTGAGTTCGATTCCCACATA
130 GTCTTAGCTCAGCTGGTAGAGCATGTGGCTTTTAACCACGTGGTCGTGAGTTCGATTCCCACAGA
* * ** * * * * * * * *
17681 CGGTGATATTGTTCATGTATAGTTGGATTTGTTCATATACTAAGTAGGGGTAGTTATCAGAATT
195 CAGTGCTATTGTTCGCGTGTAGTTGAATATGTTCATACACTAGGTACGGGTAGTGATCTGAATT
17745 CGACTCTCAT
Statistics
Matches: 1213, Mismatches: 241, Indels: 123
0.77 0.15 0.08
Matches are distributed among these distances:
306 213 0.18
307 142 0.12
308 24 0.02
309 31 0.03
310 3 0.00
311 8 0.01
312 133 0.11
313 147 0.12
314 3 0.00
315 5 0.00
316 3 0.00
317 4 0.00
319 3 0.00
320 2 0.00
321 3 0.00
322 292 0.24
323 61 0.05
324 1 0.00
325 1 0.00
326 1 0.00
327 8 0.01
328 19 0.02
329 106 0.09
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.36
Consensus pattern (320 bp):
TTCGGATCAGATACAAGGTGATTAATGATTTTTTGGTATGGCAAACGAGCTTTTTTTTCCTTAAT
CAAAGGCAAACTACCTTAATAATTAAAAAGAAATTACATGCTTGAAACCTTTTTGTCACTTGCCG
TCTTAGCTCAGCTGGTAGAGCATGTGGCTTTTAACCACGTGGTCGTGAGTTCGATTCCCACAGAC
AGTGCTATTGTTCGCGTGTAGTTGAATATGTTCATACACTAGGTACGGGTAGTGATCTGAATTTG
ATTCAAATTGTTGCTTTTCTTGGCCTTTGAATGGATAATCAAGGCAATTCACATGAAAAT
Found at i:17526 original size:635 final size:621
Alignment explanation
Indices: 15914--17694 Score: 2126
Period size: 635 Copynumber: 2.8 Consensus size: 621
15904 TTTTGGATCG
* *
15914 TTCGGATCGGATACAAGGTGATTACTGA--TTTTCG---GGGCAAACGAGCTTTTTTTTTCCTTA
1 TTCGGATCGGATACAAGGTGATTACTGATTTTTTTGTATGGG-AAACGAAC-TTTTTTTT-CTTA
* ** * * *
15974 ATCAAAGGCAAGTTACCTTAATAATTAAAAATAAATTACATGCTTGAAACCATTTTGTCACTT--
63 ATCAAACGCAAACTACCATAATAATTAAAAAGAAATTACATGCTTGAAACCTTTTTGTCACTTCA
* * **
16037 GTTGTCTTAGATCAGCTGGTAGAGCATGTGGCTTTTAACCATATGGTTGTGGGTTTGATTCCCAC
128 GTTGTCTTAGCTCAGCTGGTAGAGCGTGTGGCTTTTAACCACGTGGTTGTGGGTTTGATT-CCAC
* * *
16102 GGAAGGCATTGTTGTTCATGTGTAGTTGAATGTGTTCATATACTAGGTACGTGTAGTGATATGAA
192 -AAAGGCATTGTTGTTCAT-TGTAGTTGAATGTGTTCATATACTAGGTACGAGTAGTGATCTGAA
* * * * * *
16167 -TT--TCATG-TGTC-GC-A-TTTTGCATTTGAATGGATAATCAAGGCAATTCACAAGAAAA-TT
255 TTTGATCAAGTTTTCTTCTACTTTGGCCTTTGAATGGATAATCAAGGCAATTCACATGAAAATTT
* ** * * * *
16224 AAGGATGGGATACAAGGTGATTAATGA-TTTTTGGTATGGAAAACGAGCTTTTTCTCTCCTTTAT
320 CA-GATTAGATACAATGTGATTAATGATTTTTTGGTATGGCAAACGAGCTTTTTC-CACCTTAAT
* * * *
16288 CAAAGGCAAACTACCTTAATATTTATAAAGAAATTACATGCTTGAAACCTTTTCGTCACTTGTCG
383 CAAAGGCAAACTACCTTAATAATTAAAAAGAAATTACATGCTTGAAACCTTTTTGTCACTTGCCG
* * **
16353 TCTTAACTCAGTTGGTAGAGCATGTTGCTTTTAA-TCACGTGGTCAAAGGTTCGAATTCCCACAG
448 TCTTAACTCAGATGGTAGAGCATGTAGCTTTTAACT-ACGTGGTCTGA-GTTCG-ATTCCCACAG
* * * * *
16417 TCGGTGTTGTTGTTCGCGTGTAGTTAAATATGTTCATATACTAGGTAGTGATAATGATCAGAATT
510 ACGGTGATATTGTTCGCGTGTAGTTAAATATGATCATACACTAGGTAGTGATAATGATCAGAATT
* * *
16482 TGATCCCGTGCATTTTGAATAGATATCAAGGCGATTCACCTAAAAAT
575 CGATCCAGTGCATTTTGAATAGATATCAAGGCAATTCACCTAAAAAT
* * * **
16529 TTCGGATCCGTTACAAGGTGATTAATGATTTTTTTGGTATGGGAAACGAGTTTTTTTTTTCTTAA
1 TTCGGATCGGATACAAGGTGATTACTGATTTTTTT-GTATGGGAAACGA-ACTTTTTTTTCTTAA
*
16594 TCAAACACAAACTACCATAATAATTAAAAAGAAATTACATGCTTGAAACCTTTTTGTCAC-TCA-
64 TCAAACGCAAACTACCATAATAATTAAAAAGAAATTACATGCTTGAAACCTTTTTGTCACTTCAG
* * * *
16657 CTGTCTTAGCTCAACTGGTAGAGCGCGTGGCTTTTAACCACGTGGTCGTGGGTTTGATTCGCACA
129 TTGTCTTAGCTCAGCTGGTAGAGCGTGTGGCTTTTAACCACGTGGTTGTGGGTTTGATTC-CACA
* ** * * * *
16722 TATGGTGTTGTTGTTCGATTGTAGTTGAATATGTTCATACACTAGATACGGGTAGTGATCTGAAT
193 -AAGGCATTGTTGTTC-ATTGTAGTTGAATGTGTTCATATACTAGGTACGAGTAGTGATCTGAAT
* * * *
16787 TTGATTCAAATTGTTGCTTTTGCTTCGGCCTTTGAATGGATAATCAAGGCAATTCACATGAAAAT
256 TTGA-TCAAGTT-TT-CTTCTACTTTGGCCTTTGAATGGATAATCAAGGCAATTCACATGAAAAT
* * *
16852 TTCGGATTAGATACAATGTGATTGATGATTTTTTGGTATGGCAAACGAGCTTTTTCCCCCTTAAT
318 TTCAGATTAGATACAATGTGATTAATGATTTTTTGGTATGGCAAACGAGCTTTTTCCACCTTAAT
* * *
16917 CAAAGGCAAACTACCTTAATAATTGAAAAGAAATTACATGCTTGAAACCTTTTTGTCACATCCCG
383 CAAAGGCAAACTACCTTAATAATTAAAAAGAAATTACATGCTTGAAACCTTTTTGTCACTTGCCG
* * * *
16982 TCTTAGCTCAGCTGGTAGAGCATGTGGCTTTTAACTACGTGGTCGTGAGTTCGATTCCCAAAGAC
448 TCTTAACTCAGATGGTAGAGCATGTAGCTTTTAACTACGTGGTC-TGAGTTCGATTCCCACAGAC
* * * * * *
17047 AGTGCTATTGTTCTCGTGTAGTTGAATATGATCATACACTAGGTTAGTGATAGTGATCCGAATTC
512 GGTGATATTGTTCGCGTGTAGTTAAATATGATCATACACTAGG-TAGTGATAATGATCAGAATTC
*
17112 GATCCAAGTG-ATTTTGAGTAGATATCAAGGCAATTCACCTAAAAAT
576 GATCC-AGTGCATTTTGAATAGATATCAAGGCAATTCACCTAAAAAT
* *
17158 TTCGGATCGGATACAAGGTGATTACTGACTTTTTTTGTATGGGGAACGAACTTTTTTTTATTAAT
1 TTCGGATCGGATACAAGGTGATTACTGA-TTTTTTTGTATGGGAAACGAACTTTTTTTTCTTAAT
* *
17223 CAAACGTAAACTACCGTAATAATTAAAAAGAAATTACATGCTTGAAACCTTTTTGTCACTTGCCA
65 CAAACGCAAACTACCATAATAATTAAAAAGAAATTACATGCTTGAAACCTTTTTGTCACTT--CA
* *
17288 GTTGCCATCTTAGCTCAGCTGGTAGAGTGTGTGGCTTTTAACCACGTGGTTGTGGGTTCGATTCC
128 GTTG---TCTTAGCTCAGCTGGTAGAGCGTGTGGCTTTTAACCACGTGGTTGTGGGTTTGATTCC
** *
17353 TACAAACAACATTGTTGTTCAATTGTAGTTGAATGTGGTCATATACTAGGTACGAGTAGTGATCT
190 -ACAAA-GGCATTGTTGTTC-ATTGTAGTTGAATGTGTTCATATACTAGGTACGAGTAGTGATCT
17418 GAATTTGATCCAAGGTTTTACTTCTACTTTGGCCTTTGAATGGATAATCAAGGCAATTCACATGA
252 GAATTTGAT-CAA-GTTTT-CTTCTACTTTGGCCTTTGAATGGATAATCAAGGCAATTCACATGA
* * * ** *
17483 AAATTTCAGATTAGTTACAATGTGATTAATGATTTTTTGGTATGACAAACGAGTTTTTTTTATCT
314 AAATTTCAGATTAGATACAATGTGATTAATGATTTTTTGGTATGGCAAACGAGCTTTTTCCACCT
* *
17548 TAATCAAAGGCAAACTACCTTAATAATTAAAAAGAAATTACATGCTTGAAACTTTTTTGCCACTT
379 TAATCAAAGGCAAACTACCTTAATAATTAAAAAGAAATTACATGCTTGAAACCTTTTTGTCACTT
* * * * *** * *
17613 GCTGCCTTATCTCATATGGTAGAGTGCGTAGATTTTAACCACGTGGTCCTGAGTTCGATTCCCAC
444 GCCGTCTTAACTCAGATGGTAGAGCATGTAGCTTTTAACTACGTGGT-CTGAGTTCGATTCCCAC
*
17678 ATACGGTGATATTGTTC
508 AGACGGTGATATTGTTC
17695 ATGTATAGTT
Statistics
Matches: 988, Mismatches: 137, Indels: 62
0.83 0.12 0.05
Matches are distributed among these distances:
615 25 0.03
617 4 0.00
618 3 0.00
619 164 0.17
620 18 0.02
621 3 0.00
623 3 0.00
624 1 0.00
625 1 0.00
626 1 0.00
628 115 0.12
629 261 0.26
630 40 0.04
631 2 0.00
632 2 0.00
634 3 0.00
635 339 0.34
636 3 0.00
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (621 bp):
TTCGGATCGGATACAAGGTGATTACTGATTTTTTTGTATGGGAAACGAACTTTTTTTTCTTAATC
AAACGCAAACTACCATAATAATTAAAAAGAAATTACATGCTTGAAACCTTTTTGTCACTTCAGTT
GTCTTAGCTCAGCTGGTAGAGCGTGTGGCTTTTAACCACGTGGTTGTGGGTTTGATTCCACAAAG
GCATTGTTGTTCATTGTAGTTGAATGTGTTCATATACTAGGTACGAGTAGTGATCTGAATTTGAT
CAAGTTTTCTTCTACTTTGGCCTTTGAATGGATAATCAAGGCAATTCACATGAAAATTTCAGATT
AGATACAATGTGATTAATGATTTTTTGGTATGGCAAACGAGCTTTTTCCACCTTAATCAAAGGCA
AACTACCTTAATAATTAAAAAGAAATTACATGCTTGAAACCTTTTTGTCACTTGCCGTCTTAACT
CAGATGGTAGAGCATGTAGCTTTTAACTACGTGGTCTGAGTTCGATTCCCACAGACGGTGATATT
GTTCGCGTGTAGTTAAATATGATCATACACTAGGTAGTGATAATGATCAGAATTCGATCCAGTGC
ATTTTGAATAGATATCAAGGCAATTCACCTAAAAAT
Found at i:19662 original size:22 final size:22
Alignment explanation
Indices: 19637--19690 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
19627 TTTGTTATAC
*
19637 TTTTGTTAATTTAACACTTTTA
1 TTTTGTTAACTTAACACTTTTA
19659 TTTTGTTAACTTAACACTTTTA
1 TTTTGTTAACTTAACACTTTTA
19681 TTTTGTTAAC
1 TTTTGTTAAC
19691 ATTATGCACT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.26, C:0.11, G:0.06, T:0.57
Consensus pattern (22 bp):
TTTTGTTAACTTAACACTTTTA
Found at i:22047 original size:26 final size:26
Alignment explanation
Indices: 21997--22047 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
21987 AGGTACAATA
* * *
21997 CCCTTTGTTGTGAAGTTGTGTATGGC
1 CCCTTCGTTGTGAAGTTGAGCATGGC
22023 CCCTTCGTTGTGAAGTTGAGCATGG
1 CCCTTCGTTGTGAAGTTGAGCATGG
22048 GAATTAGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.14, C:0.18, G:0.31, T:0.37
Consensus pattern (26 bp):
CCCTTCGTTGTGAAGTTGAGCATGGC
Found at i:22238 original size:106 final size:106
Alignment explanation
Indices: 22099--22417 Score: 460
Period size: 106 Copynumber: 3.0 Consensus size: 106
22089 TTGTACTGTT
*
22099 CTGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTGAC
1 CTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTGAC
22164 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTC
66 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTC
* * * *
22205 CTGAGTCCAATATCATTTGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGAC
1 CTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTGAC
*
22270 AACCAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTC
66 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTC
* * * * * *
22311 TTGAGTTCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATGAAACT-GAAAAGTGGTTTA
1 CTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTG---G-AACTGGGAAA-TTGTTTG
* *
22375 TTGACAACCAGTCGTCCCTTCGTCGTGAAGTTGAACTTGTGTT
61 TTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTT
22418 ATCTCGAGTG
Statistics
Matches: 189, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
106 137 0.72
109 4 0.02
110 48 0.25
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (106 bp):
CTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTGAC
AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTC
Found at i:22743 original size:14 final size:14
Alignment explanation
Indices: 22724--22750 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22714 CTAAAATCTG
22724 TCTGGAATCTTGAC
1 TCTGGAATCTTGAC
22738 TCTGGAATCTTGA
1 TCTGGAATCTTGA
22751 AATTTCGATC
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:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (14 bp):
TCTGGAATCTTGAC
Found at i:32955 original size:185 final size:187
Alignment explanation
Indices: 32639--33013 Score: 695
Period size: 185 Copynumber: 2.0 Consensus size: 187
32629 ACCTTTATCC
32639 ATTAATTCAGATTATTATGTGTAACAAACCCCTTTTAGGGATCAATGACTGACCTCTTGTTATGA
1 ATTAATTCAGATTATTATGTGTAACAAACCCCTTTTAGGGATCAA-GACTGACCTCTTGTTATGA
32704 TGAAAATGCTAAAAAAACAAATACAAAGGCAAACAGTTAGTAAAATAAAAACAAATAAAAATGAA
65 TGAAAATGCTAAAAAAACAAATACAAAGGCAAACAGTTAGTAAAATAAAAACAAATAAAAATGAA
32769 T-AAAATAAAAAAATGGCAAGAAAAAAAATATAAGGAAAAAAAAACATGGTTATGAAGAA
130 TAAAAAT-AAAAAATGGCAAGAAAAAAAATATAAGG-AAAAAAAACATGGTTATGAAGAA
32828 ATTAATTCAGATTATTATGTGTAACAAACCCCTTTTAGGGATC-A-A-TGACCTCTTGTTATGAT
1 ATTAATTCAGATTATTATGTGTAACAAACCCCTTTTAGGGATCAAGACTGACCTCTTGTTATGAT
32890 GAAAATGCTAAAAAAACAAATACAAAGGCAAACAGTTAGTAAAATAAAAACAAATAAAAATGAAT
66 GAAAATGCTAAAAAAACAAATACAAAGGCAAACAGTTAGTAAAATAAAAACAAATAAAAATGAAT
32955 AAAAATAAAAAATGGCAAGAAAAAAAATATAAGGAAAAAAAACATGGTTATGAAGAA
131 AAAAATAAAAAATGGCAAGAAAAAAAATATAAGGAAAAAAAACATGGTTATGAAGAA
33012 AT
1 AT
33014 GTCATGGGTT
Statistics
Matches: 185, Mismatches: 0, Indels: 7
0.96 0.00 0.04
Matches are distributed among these distances:
184 25 0.14
185 110 0.59
186 6 0.03
188 1 0.01
189 43 0.23
ACGTcount: A:0.54, C:0.10, G:0.14, T:0.23
Consensus pattern (187 bp):
ATTAATTCAGATTATTATGTGTAACAAACCCCTTTTAGGGATCAAGACTGACCTCTTGTTATGAT
GAAAATGCTAAAAAAACAAATACAAAGGCAAACAGTTAGTAAAATAAAAACAAATAAAAATGAAT
AAAAATAAAAAATGGCAAGAAAAAAAATATAAGGAAAAAAAACATGGTTATGAAGAA
Found at i:34013 original size:11 final size:11
Alignment explanation
Indices: 33997--34075 Score: 56
Period size: 12 Copynumber: 7.0 Consensus size: 11
33987 AAACATTATG
*
33997 ATATAATATAT
1 ATATAATAAAT
34008 ATATAATAAAT
1 ATATAATAAAT
*
34019 ATAATAATAAAA
1 AT-ATAATAAAT
*
34031 AAATTAATAAAGT
1 ATA-TAATAAA-T
*
34044 A-A-AATAATT
1 ATATAATAAAT
34053 ATAATAATATAAT
1 AT-ATAATA-AAT
34066 ATA-AATAAAT
1 ATATAATAAAT
34076 GAAACAAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
9 2 0.04
10 8 0.15
11 18 0.33
12 22 0.40
13 5 0.09
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (11 bp):
ATATAATAAAT
Found at i:34020 original size:9 final size:9
Alignment explanation
Indices: 33997--34066 Score: 58
Period size: 8 Copynumber: 7.9 Consensus size: 9
33987 AAACATTATG
33997 ATATAATATA
1 ATATAATA-A
34007 TATATAATAA
1 -ATATAATAA
34017 ATATAAT-A
1 ATATAATAA
*
34025 ATA-AAAAA
1 ATATAATAA
34033 AT-TAATAA
1 ATATAATAA
*
34041 AGTAAAATAA
1 A-TATAATAA
*
34051 TTATAAT-A
1 ATATAATAA
34059 ATATAATA
1 ATATAATA
34067 TAAATAAATG
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
7 2 0.04
8 19 0.40
9 13 0.27
10 6 0.12
11 8 0.17
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (9 bp):
ATATAATAA
Found at i:34268 original size:2 final size:2
Alignment explanation
Indices: 34256--34285 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
34246 ATATAATAGT
*
34256 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34286 ATAACTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:34315 original size:16 final size:16
Alignment explanation
Indices: 34294--34329 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
34284 TAATAACTTT
34294 AAAAAATATTAAAATA
1 AAAAAATATTAAAATA
*
34310 AAAAAATATTAGAATA
1 AAAAAATATTAAAATA
34326 AAAA
1 AAAA
34330 TAATTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (16 bp):
AAAAAATATTAAAATA
Found at i:34335 original size:15 final size:15
Alignment explanation
Indices: 34295--34336 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
34285 AATAACTTTA
34295 AAAAAT-ATTAAAAT
1 AAAAATAATTAAAAT
* *
34309 AAAAAAATATTAGAAT
1 AAAAATA-ATTAAAAT
34325 AAAAATAATTAA
1 AAAAATAATTAA
34337 TATATATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
14 5 0.23
15 4 0.18
16 13 0.59
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (15 bp):
AAAAATAATTAAAAT
Found at i:41377 original size:24 final size:26
Alignment explanation
Indices: 41340--41387 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
41330 ATATAATTAT
41340 TAAATAAAATATTAA-AAA-ATAACA
1 TAAATAAAATATTAATAAAGATAACA
41364 TAAATAATAA-ATTAATAAAGATAA
1 TAAATAA-AATATTAATAAAGATAA
41388 AATCATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 12 0.57
25 5 0.24
26 4 0.19
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (26 bp):
TAAATAAAATATTAATAAAGATAACA
Found at i:42791 original size:30 final size:31
Alignment explanation
Indices: 42742--42802 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
42732 AATCATCAAT
*
42742 AAAATATAAAAAAATTACTTGGATTACAAAA
1 AAAATATAAAAAAATTACTTGAATTACAAAA
*
42773 AAAAT-TATAAAAAA-TACTTGAATTATAAAA
1 AAAATATA-AAAAAATTACTTGAATTACAAAA
42803 GAATCAACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 16 0.59
31 11 0.41
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (31 bp):
AAAATATAAAAAAATTACTTGAATTACAAAA
Found at i:42994 original size:14 final size:14
Alignment explanation
Indices: 42975--43003 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
42965 AACTCAATAA
42975 AAATATATAAAAAT
1 AAATATATAAAAAT
42989 AAATATATAAAAAT
1 AAATATATAAAAAT
43003 A
1 A
43004 TAGATGTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AAATATATAAAAAT
Found at i:45603 original size:104 final size:105
Alignment explanation
Indices: 45226--46061 Score: 1081
Period size: 105 Copynumber: 8.0 Consensus size: 105
45216 AAATTACCAT
** * * * *
45226 AAGCATTGTTAAGTAAGACGACGAAACAAAGGAACTTAAGCCAATCCAGCTACAACTGCCTCAGA
1 AAGCATTGTCGAGGAAGACGACGAAATAAAGGAACTTAAGCCAATCCAGCCACAACTGCCTAAGA
* * *
45291 TATGAATGTGCTGAC--T-GT-A-C-TTAGTTATACAAAG
66 TATGAATGTGCTGACTATAATGATCAATAGTTCTACAAAG
* * *
45325 AAGCATTGTCGAGGAAGACGACGGAATAAAGGAACTTAAGCCAATCCAGCTACACCTGCCTAAGA
1 AAGCATTGTCGAGGAAGACGACGAAATAAAGGAACTTAAGCCAATCCAGCCACAACTGCCTAAGA
**
45390 TATGAATGTGCCAACTATAATGATCAATAGTTCTACAAAG
66 TATGAATGTGCTGACTATAATGATCAATAGTTCTACAAAG
* *
45430 AAGCATTGTCGAGGAAGACGACGGAATAAAGGAACTTAATCCAATCCAGCCACAACTGCCTAA-A
1 AAGCATTGTCGAGGAAGACGACGAAATAAAGGAACTTAAGCCAATCCAGCCACAACTGCCTAAGA
* *
45494 AATGAATGTTCTGACTAT-ATCGATCAATAGTTCTACAAAG
66 TATGAATGTGCTGACTATAAT-GATCAATAGTTCTACAAAG
* * *
45534 AAGCATTGTCGAGGAAGAC-ACGGAATAAAGGAACTTAAACCAATCCAGCCACACCTGCCTAAGA
1 AAGCATTGTCGAGGAAGACGACGAAATAAAGGAACTTAAGCCAATCCAGCCACAACTGCCTAAGA
* *
45598 TATGAATGTTCTGATCTGACTATATCGATCAATAGTCCTACAAAG
66 TATGAATGTGCTGA-CT-A-TA-AT-GATCAATAGTTCTACAAAG
* * * * *
45643 AAGCATCGTCAAGGAAAACGACGGAATAAAGGAACTTAATCCAATCCAGCCACAACTGCCTAAGA
1 AAGCATTGTCGAGGAAGACGACGAAATAAAGGAACTTAAGCCAATCCAGCCACAACTGCCTAAGA
* *
45708 TATGAATGTTCTGACTAT-ATCAATCAATAGTTCTACAAAG
66 TATGAATGTGCTGACTATAAT-GATCAATAGTTCTACAAAG
* * *
45748 AAGCATTGTCGAAGAAGAAGACGAAATAAAGGAAACTTAAGCCTATCCAGCCACAACTGCCTAAG
1 AAGCATTGTCGAGGAAGACGACGAAATAAAGG-AACTTAAGCCAATCCAGCCACAACTGCCTAAG
45813 ATATGAATGTGCTGACTATAATGATCAATAGTTCTACAAAG
65 ATATGAATGTGCTGACTATAATGATCAATAGTTCTACAAAG
* *
45854 AAGCATTGTCGAGGAAGACGACGAAATAAAGAAAACTTAAGCCAATCCA-CCTACACCTGCCTAA
1 AAGCATTGTCGAGGAAGACGACGAAATAAAG-GAACTTAAGCCAATCCAGCC-ACAACTGCCTAA
*
45918 GAT-TGAATGTGCTGACTATAATGATCACTAGTT-TACAAAG
64 GATATGAATGTGCTGACTATAATGATCAATAGTTCTACAAAG
* * * * *
45958 AAGCATTGTCCAGGATGGCGACGAAACAAAGGAAACTTAAGCCTATCCAGCCACAA-TGCCTAAG
1 AAGCATTGTCGAGGAAGACGACGAAATAAAGG-AACTTAAGCCAATCCAGCCACAACTGCCTAAG
*
46022 ATATGAATGTGCTGTA-TGTAATGATCAATAGTTCTACAAA
65 ATATGAATGTGCTG-ACTATAATGATCAATAGTTCTACAAA
46062 CAATCTAAAA
Statistics
Matches: 659, Mismatches: 55, Indels: 40
0.87 0.07 0.05
Matches are distributed among these distances:
99 71 0.11
101 1 0.00
102 1 0.00
103 54 0.08
104 146 0.22
105 160 0.24
106 125 0.19
107 4 0.01
108 1 0.00
109 39 0.06
110 57 0.09
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (105 bp):
AAGCATTGTCGAGGAAGACGACGAAATAAAGGAACTTAAGCCAATCCAGCCACAACTGCCTAAGA
TATGAATGTGCTGACTATAATGATCAATAGTTCTACAAAG
Found at i:49559 original size:60 final size:60
Alignment explanation
Indices: 49464--49617 Score: 177
Period size: 60 Copynumber: 2.6 Consensus size: 60
49454 ACAACATTAG
** * * *
49464 GGACTAATTTAGAATGGTATTCACA-TTATGTGGATGAAATTAGAATGTTCAAAAATTTAA
1 GGACTAATTTAGAATGAAAGTCATAGTTTTG-GGATGAAATTAGAATGTTCAAAAATTTAA
* * *
49524 GGACTAATTTAGAATGAAAGTCATAGTTTTGGGATGAAATTGGAATGTTTAAAATTTTAA
1 GGACTAATTTAGAATGAAAGTCATAGTTTTGGGATGAAATTAGAATGTTCAAAAATTTAA
* * *
49584 GGACTAATTTAAAAT-AAGGATCATAGTTTAGGGA
1 GGACTAATTTAGAATGAAAG-TCATAGTTTTGGGA
49618 CATATAATAC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
59 3 0.04
60 74 0.91
61 4 0.05
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.34
Consensus pattern (60 bp):
GGACTAATTTAGAATGAAAGTCATAGTTTTGGGATGAAATTAGAATGTTCAAAAATTTAA
Found at i:57857 original size:15 final size:15
Alignment explanation
Indices: 57814--57858 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 15
57804 CGATAAACAC
57814 ATATACATTCTATAA
1 ATATACATTCTATAA
*
57829 ATATAGTTATTCTATAA
1 ATATA--CATTCTATAA
57846 ATATACATTCTAT
1 ATATACATTCTAT
57859 TTTACTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 12 0.46
17 14 0.54
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.44
Consensus pattern (15 bp):
ATATACATTCTATAA
Found at i:58836 original size:21 final size:20
Alignment explanation
Indices: 58806--58844 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
58796 CTTATTAAAC
58806 TTTGTCTTGATCTTTTGAATAG
1 TTTGTCTTGA--TTTTGAATAG
58828 TTTGT-TTGATTTTGAAT
1 TTTGTCTTGATTTTGAAT
58845 CCATTAATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.47
21 4 0.24
22 5 0.29
ACGTcount: A:0.18, C:0.05, G:0.18, T:0.59
Consensus pattern (20 bp):
TTTGTCTTGATTTTGAATAG
Found at i:65729 original size:30 final size:30
Alignment explanation
Indices: 65695--65806 Score: 125
Period size: 30 Copynumber: 3.6 Consensus size: 30
65685 GCACTGAGCA
* *
65695 TCCTTACACACTACAGTGATGTACTAAGTG
1 TCCTTACACACTATAGTGATGCACTAAGTG
* * *
65725 TCCTTACACACTATAGTACCATATGCACTCAGTT
1 TCCTTACACACTATAGT----GATGCACTAAGTG
* *
65759 TCCTTACACACCATAGTGTTGCACTAAGTG
1 TCCTTACACACTATAGTGATGCACTAAGTG
65789 TCCTTACACACTATAGTG
1 TCCTTACACACTATAGTG
65807 CTAATCTGGT
Statistics
Matches: 67, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
30 42 0.63
34 25 0.37
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (30 bp):
TCCTTACACACTATAGTGATGCACTAAGTG
Found at i:65983 original size:22 final size:22
Alignment explanation
Indices: 65958--66020 Score: 117
Period size: 22 Copynumber: 2.9 Consensus size: 22
65948 TGAAATATCA
65958 TTCATGATAAATATCATATATG
1 TTCATGATAAATATCATATATG
65980 TTCATGATAAATATCATATATG
1 TTCATGATAAATATCATATATG
*
66002 TTCATGATAAACATCATAT
1 TTCATGATAAATATCATAT
66021 GTAAAGATCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.40
Consensus pattern (22 bp):
TTCATGATAAATATCATATATG
Found at i:67278 original size:20 final size:19
Alignment explanation
Indices: 67235--67279 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
67225 CAAAATAATC
* *
67235 CAATTTCACATTCTAACAT
1 CAATTTCACACTCAAACAT
67254 CAATTTCAACACTCAAACAT
1 CAATTTC-ACACTCAAACAT
*
67274 TAATTT
1 CAATTT
67280 ACAGCATAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (19 bp):
CAATTTCACACTCAAACAT
Found at i:75206 original size:9 final size:9
Alignment explanation
Indices: 75192--75218 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
75182 AAGAGATGTG
75192 ATAGCTTCA
1 ATAGCTTCA
75201 ATAGCTTCA
1 ATAGCTTCA
75210 ATAGCTTCA
1 ATAGCTTCA
75219 GACACATTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (9 bp):
ATAGCTTCA
Found at i:77985 original size:22 final size:21
Alignment explanation
Indices: 77943--77995 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
77933 ATTTTGACTA
77943 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* *
77964 TCGCGTTGCGATTTTCCTAAA-
1 TCGCATTGCGA-TTTCCCAAAT
*
77985 TCGCAATGCGA
1 TCGCATTGCGA
77996 ATCTGACTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:78576 original size:20 final size:20
Alignment explanation
Indices: 78551--78641 Score: 105
Period size: 20 Copynumber: 4.5 Consensus size: 20
78541 TTCTAAACTT
*
78551 AAAATCGCAACATGAAAATG
1 AAAATCGCAACACGAAAATG
78571 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
78591 ACTATCGCAATGA-GAGAAATG
1 AAAATCGCAA-CACGA-AAATG
*
78612 AAAATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
78631 AAAATCGCAAC
1 AAAATCGCAAC
78642 GAGAGAATCG
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
19 16 0.27
20 29 0.48
21 15 0.25
ACGTcount: A:0.51, C:0.19, G:0.18, T:0.13
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:78613 original size:41 final size:40
Alignment explanation
Indices: 78551--78678 Score: 130
Period size: 33 Copynumber: 3.4 Consensus size: 40
78541 TTCTAAACTT
78551 AAAATCGCAAC-ATGA-AAATGAAAATCGCAACACGAAAATG
1 AAAATCGCAACGA-GAGAAATGAAAATCGCAACACG-AAATG
** * *
78591 ACTATCGCAATGAGAGAAATGAAAATCGCAACGCGAAATG
1 AAAATCGCAACGAGAGAAATGAAAATCGCAACACGAAATG
*
78631 AAAATCGCAAC--GAG--A-G--AATCGCAACGCGAAATG
1 AAAATCGCAACGAGAGAAATGAAAATCGCAACACGAAATG
78664 AAAATCGCAACGAGA
1 AAAATCGCAACGAGA
78679 TAATCGCAAC
Statistics
Matches: 77, Mismatches: 7, Indels: 13
0.79 0.07 0.13
Matches are distributed among these distances:
33 28 0.36
35 3 0.04
36 1 0.01
38 3 0.04
40 23 0.30
41 19 0.25
ACGTcount: A:0.49, C:0.19, G:0.20, T:0.12
Consensus pattern (40 bp):
AAAATCGCAACGAGAGAAATGAAAATCGCAACACGAAATG
Found at i:78630 original size:19 final size:19
Alignment explanation
Indices: 78551--78675 Score: 107
Period size: 19 Copynumber: 6.6 Consensus size: 19
78541 TTCTAAACTT
**
78551 AAAATCGCAACATGAAAATG
1 AAAATCGCAACGCG-AAATG
*
78571 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCG-AAATG
** * *
78591 ACTATCGCAATGAGAGAAATG
1 AAAATCGCAA--CGCGAAATG
78612 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
78631 AAAATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAATG
*
78645 AGAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
78664 AAAATCGCAACG
1 AAAATCGCAACG
78676 AGATAATCGC
Statistics
Matches: 86, Mismatches: 12, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
14 10 0.12
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 29 0.34
20 27 0.31
21 13 0.15
22 1 0.01
ACGTcount: A:0.49, C:0.19, G:0.20, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:78630 original size:40 final size:41
Alignment explanation
Indices: 78551--78648 Score: 130
Period size: 40 Copynumber: 2.4 Consensus size: 41
78541 TTCTAAACTT
78551 AAAATCGCAAC-ATGA-AAATGAAAATCGCAACACGAAAATG
1 AAAATCGCAACGA-GAGAAATGAAAATCGCAACACGAAAATG
** * *
78591 ACTATCGCAATGAGAGAAATGAAAATCGCAACGCG-AAATG
1 AAAATCGCAACGAGAGAAATGAAAATCGCAACACGAAAATG
78631 AAAATCGCAACGAGAGAA
1 AAAATCGCAACGAGAGAA
78649 TCGCAACGCG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
40 30 0.61
41 19 0.39
ACGTcount: A:0.51, C:0.17, G:0.19, T:0.12
Consensus pattern (41 bp):
AAAATCGCAACGAGAGAAATGAAAATCGCAACACGAAAATG
Found at i:78652 original size:14 final size:14
Alignment explanation
Indices: 78630--78694 Score: 58
Period size: 14 Copynumber: 4.3 Consensus size: 14
78620 AACGCGAAAT
78630 GAAAATCGCAACGA
1 GAAAATCGCAACGA
*
78644 GAGAATCGCAACGCGAAA
1 GAAAATCGCAA--CG--A
78662 TGAAAATCGCAACGA
1 -GAAAATCGCAACGA
* *
78677 GATAATCGCAACGC
1 GAAAATCGCAACGA
78691 GAAA
1 GAAA
78695 CCAAAATCGC
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
14 25 0.61
15 1 0.02
16 2 0.05
17 2 0.05
18 1 0.02
19 10 0.24
ACGTcount: A:0.46, C:0.22, G:0.23, T:0.09
Consensus pattern (14 bp):
GAAAATCGCAACGA
Found at i:78656 original size:33 final size:33
Alignment explanation
Indices: 78614--78705 Score: 157
Period size: 33 Copynumber: 2.8 Consensus size: 33
78604 GAGAAATGAA
78614 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
*
78647 AATCGCAACGCGAAATGAAAATCGCAACGAGAT
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
**
78680 AATCGCAACGCGAAACCAAAATCGCA
1 AATCGCAACGCGAAATGAAAATCGCA
78706 TTGCGATTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.46, C:0.24, G:0.21, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAG
Found at i:78875 original size:25 final size:26
Alignment explanation
Indices: 78821--78875 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
78811 TTATGTTTAT
*
78821 TGTTTTTGGTATATCTTCACGGTGTA
1 TGTTTTTGGTATATCTTAACGGTGTA
**
78847 -GTTTTTGGTATATC-TAACTTTGTA
1 TGTTTTTGGTATATCTTAACGGTGTA
78871 TGTTT
1 TGTTT
78876 ATTGTTTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.16, C:0.09, G:0.20, T:0.55
Consensus pattern (26 bp):
TGTTTTTGGTATATCTTAACGGTGTA
Found at i:80581 original size:94 final size:94
Alignment explanation
Indices: 80420--80799 Score: 656
Period size: 94 Copynumber: 4.1 Consensus size: 94
80410 TAGATTGCTT
* *
80420 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
80485 ATTTGTCTTTTGTTTTGTTTTTTGGTTG-A
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
80514 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
80579 ATTTATCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* *
80608 AGTAAATTTGTTCGATTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
80673 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * *
80702 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
80767 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
80795 AGTAA
1 AGTAA
80800 TGCAATCCAT
Statistics
Matches: 275, Mismatches: 10, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
93 25 0.09
94 250 0.91
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:80921 original size:14 final size:14
Alignment explanation
Indices: 80902--80959 Score: 62
Period size: 14 Copynumber: 3.8 Consensus size: 14
80892 AACGCGAAAT
*
80902 GAATCGCAATGAGA
1 GAATCGCAACGAGA
80916 GAATCGCAACGAGAAA
1 GAATCGCAACGAG--A
80932 TGAAAATCGCAACGAGA
1 -G--AATCGCAACGAGA
80949 GAATCGCAACG
1 GAATCGCAACG
80960 TGAAACCAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
14 22 0.58
16 2 0.05
17 2 0.05
19 12 0.32
ACGTcount: A:0.45, C:0.19, G:0.26, T:0.10
Consensus pattern (14 bp):
GAATCGCAACGAGA
Found at i:80949 original size:33 final size:33
Alignment explanation
Indices: 80887--80974 Score: 117
Period size: 33 Copynumber: 2.7 Consensus size: 33
80877 AAAAATGACT
* *
80887 ATCGCAACGCGAAATG--AATCGCAATGAGAGA
1 ATCGCAACGAGAAATGAAAATCGCAACGAGAGA
80918 ATCGCAACGAGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGAGAAATGAAAATCGCAACGAGAGA
* **
80951 ATCGCAACGTGAAACCAAAATCGC
1 ATCGCAACGAGAAATGAAAATCGC
80975 GTTGTGATTT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
31 15 0.30
33 35 0.70
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.11
Consensus pattern (33 bp):
ATCGCAACGAGAAATGAAAATCGCAACGAGAGA
Found at i:81034 original size:20 final size:20
Alignment explanation
Indices: 81009--81075 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
80999 GATTCTCTCG
**
81009 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
81029 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
81049 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
81069 TTGCGAT
1 TTGCGAT
81076 TTTAAGTTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:81599 original size:18 final size:19
Alignment explanation
Indices: 81560--81601 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
81550 CTCACCTGTC
81560 ATCGTTCAAGAGGCCTCCCCT
1 ATCGTTCAAGAGG-C-CCCCT
81581 ATCGTTCAAGAGG-CCCCT
1 ATCGTTCAAGAGGCCCCCT
81599 ATC
1 ATC
81602 ATCCCTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
21 13 0.62
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (19 bp):
ATCGTTCAAGAGGCCCCCT
Found at i:81655 original size:42 final size:42
Alignment explanation
Indices: 81555--81665 Score: 109
Period size: 42 Copynumber: 2.6 Consensus size: 42
81545 CCCGACTCAC
* * * **
81555 CTGTCATCGTTCAAGAGGCCTCC-CCTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGTCC-CCTCCCACCGTTCAAGAGGCAA
* **
81597 CTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCAA
1 CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCAA
*
81639 CTGTCATCGTTGAAGAGGT-CCCTCCCA
1 CTGTCATCGTTCAAGA-GTCCCCTCCCA
81666 ACATTCTAGA
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
41 2 0.04
42 51 0.93
43 2 0.04
ACGTcount: A:0.22, C:0.37, G:0.19, T:0.23
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCAA
Found at i:83040 original size:14 final size:14
Alignment explanation
Indices: 83021--83056 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
83011 ATTGTTTAAT
83021 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
83035 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
83049 TGATTTGT
1 TGATTTGT
83057 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:83282 original size:34 final size:34
Alignment explanation
Indices: 83234--83396 Score: 240
Period size: 33 Copynumber: 4.9 Consensus size: 34
83224 ACTAATTTCG
*
83234 CGTTACGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
* *
83268 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCG
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
83301 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
*
83335 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
** * *
83368 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
83397 ATTCAATTCC
Statistics
Matches: 117, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
33 61 0.52
34 56 0.48
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.42
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:83318 original size:67 final size:67
Alignment explanation
Indices: 83231--83396 Score: 278
Period size: 67 Copynumber: 2.5 Consensus size: 67
83221 GAAACTAATT
*
83231 TCGCGTTACGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTTCATTTCGCATTGCGAT
1 TCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTTCATTTCGCATTGCGAT
83296 TC
66 TC
83298 TCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTTCATTTCGCATTGCGAT
1 TCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTTCATTTCGCATTGCGAT
83363 TC
66 TC
* ** * *
83365 TCTCGTTGCGATAGTCATTTCCGCGTTGCGAT
1 TCGCGTTGCGATTTTCATTTTCGCATTGCGAT
83397 ATTCAATTCC
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 93 1.00
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.42
Consensus pattern (67 bp):
TCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTTCATTTCGCATTGCGAT
TC
Found at i:83393 original size:20 final size:20
Alignment explanation
Indices: 83368--83441 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 20
83358 GCGATTCTCT
83368 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* * *
83388 CGTTGCGATATTCAATTCCA
1 CGTTGCGATAGTCATTTCCG
*
83408 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
83428 TGTTGCGATAGTCA
1 CGTTGCGATAGTCA
83442 AATGAATGTA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:86616 original size:148 final size:148
Alignment explanation
Indices: 86348--86616 Score: 400
Period size: 148 Copynumber: 1.8 Consensus size: 148
86338 GCGCTACCTA
*
86348 TAATGTTTAACATTTCTGGTAAAACGCTACCTAAAACATTATTTTTCTACCGAAAATTAATATTA
1 TAATGTTTAACATTTATGGTAAAACGCTACCTAAAACATTATTTTTCTACCGAAAATTAATATTA
** ***
86413 GGCGCTACTTATAATGTTATTTTTTATCAAAAATATTAATATTGTTTTTAATATTTCTTGTAAAG
66 GGCGCTACTTATAATGTTATTTTTTATCAAAAATATTAATAGCGAAATTAATATTTCTTGTAAAG
86478 TGCTACCTAAAATATTAT
131 TGCTACCTAAAATATTAT
* *
86496 TAATGTTTAACATTTATGGTAAAACGCTATCTAAAACATTATTTTTCTACTGAAAATGTTAATAT
1 TAATGTTTAACATTTATGGTAAAACGCTACCTAAAACATTATTTTTCTACCGAAAA--TTAATAT
* *
86561 TAGGCGCTACTTATAATGTTA-TTTTTATC-GAAA-ATTAGGTAGCGAAATTAATATTT
64 TAGGCGCTACTTATAATGTTATTTTTTATCAAAAATATTA-ATAGCGAAATTAATATTT
86617 TAGATAATAT
Statistics
Matches: 108, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
147 4 0.04
148 68 0.63
149 8 0.07
150 28 0.26
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.42
Consensus pattern (148 bp):
TAATGTTTAACATTTATGGTAAAACGCTACCTAAAACATTATTTTTCTACCGAAAATTAATATTA
GGCGCTACTTATAATGTTATTTTTTATCAAAAATATTAATAGCGAAATTAATATTTCTTGTAAAG
TGCTACCTAAAATATTAT
Found at i:88101 original size:83 final size:86
Alignment explanation
Indices: 87957--88123 Score: 259
Period size: 83 Copynumber: 2.0 Consensus size: 86
87947 TAGAGTTATA
* *
87957 ATGATCATTTATAAATTGACAGATTAAATACATTTGATTGTCCTATAACAAATTTGACTTTGATA
1 ATGATCATCTATAAATGGACAGATTAAATA-ATTTGATTGTCCTATAACAAATTTGACTTTGATA
88022 TATCATAACCAGATATCATTTC
65 TATCATAACCAGATATCATTTC
* *
88044 ATGATCATCTATAAATGGATAGATTAAAT-A-TT-ATTGTCGTATAACAAATTTGACTTTGATAT
1 ATGATCATCTATAAATGGACAGATTAAATAATTTGATTGTCCTATAACAAATTTGACTTTGATAT
*
88106 ATCATAACCATATATCAT
66 ATCATAACCAGATATCAT
88124 GGGCTGAACT
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
83 46 0.61
84 2 0.03
85 1 0.01
87 26 0.35
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (86 bp):
ATGATCATCTATAAATGGACAGATTAAATAATTTGATTGTCCTATAACAAATTTGACTTTGATAT
ATCATAACCAGATATCATTTC
Found at i:95390 original size:30 final size:30
Alignment explanation
Indices: 95351--95412 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
95341 ATGCGAATAT
* *
95351 GTAAATCGCAATGCGATAGTCGAAGTTCGC
1 GTAAATCGCAATGCGATAGTCCAAATTCGC
* *
95381 GTAATTCGCATTGCGATAGTCCAAATTCGC
1 GTAAATCGCAATGCGATAGTCCAAATTCGC
95411 GT
1 GT
95413 TGCGATAGTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (30 bp):
GTAAATCGCAATGCGATAGTCCAAATTCGC
Found at i:95430 original size:21 final size:21
Alignment explanation
Indices: 95383--95438 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
95373 AAGTTCGCGT
*
95383 AATTCGCATTGCGATAGTCCA
1 AATTCGCGTTGCGATAGTCCA
**
95404 AATTCGCGTTGCGATAGTCGG
1 AATTCGCGTTGCGATAGTCCA
*
95425 AGTTCGCGTTGCGA
1 AATTCGCGTTGCGA
95439 ATCTGGAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (21 bp):
AATTCGCGTTGCGATAGTCCA
Found at i:98558 original size:409 final size:402
Alignment explanation
Indices: 97792--98561 Score: 1030
Period size: 409 Copynumber: 1.9 Consensus size: 402
97782 CTGTGGATTA
* * *
97792 TTCTTTTGTCTAAATAATCAGTTTTCTTATTCCACAAAAGCAATGAAGCCAGTAGCTTCTTCGAT
1 TTCTTTTCTCTAAATAATCAATTTTCTTATTCCACAAAAGCAATGAAGCCAATAGCTTCTTCGAT
* * *
97857 GAATCCCTATACAACATTATGCATACCTCTTATGAGAAGGGAGACAATTATAATATTAAAGCTAA
66 GAATCCCTATACAACATCATGCATACCTCTTATGAGAAAGAAGACAATTATAATATTAAAGCTAA
* * * * *
97922 AGATATTAATCATAGCAATGAGATTGCTTGGTTTGAACATTCCTCACACTTCGTCCATAATCTGC
131 AAATATTAATCAAAGCAATGAGACTACTTGGTTTGAACATTCCTCAAACTTCGTCCATAATCTGC
* *
97987 ACTGAATCGAGTGAAGCATTGTTATAGTGTAAATTAACCGCGAAGTGTTAGAGGAATGTTCAAAC
196 ACTGAATCGAGTGAAGCATTGATATAGTGTAAATTAACCGCGAAGTGTGAGAGGAATGTTCAAAC
* * **
98052 CAAGCAGTTTCATTGTCAAGATTAACATCTTTAGCTTTAATATTATAATTCATCTCCATTCTCAC
261 CAAACAGTCTCATTACCAAGATTAACATCTTTAGCTTTAATATTATAATTCATCTCCATTCTCAC
98117 AAGAGGTAACCCTCACCACTGAAAAACCTTACTTTTCTTTTGCCTAGGGAACCCGTGCCACTGAC
326 AAGAGGTAACCCTCACCACTGAAAAACCTTACTTTTCTTTTGCCTAGGGAACCCGTGCCACTGAC
98182 AAGCCTTACTTT
391 AAGCCTTACTTT
* *
98194 TTCTTTTCTCTAAATGATCAATTTTCTTATTCCACAAAGGCAATGAAGCCAATAGCTTCTTC-AT
1 TTCTTTTCTCTAAATAATCAATTTTCTTATTCCACAAAAGCAATGAAGCCAATAGCTTCTTCGA-
* * * *
98258 TGAATCCCTATGCAGCATCATGCATACCTCTTGTGAGAAAGAAGGTA-AATTATAATATTAACGC
65 TGAATCCCTATACAACATCATGCATACCTCTTATGAGAAAGAA-G-ACAATTATAATATTAAAGC
* *
98322 TAAAAATATTAATCGTGACAATGACAATGAGCCTACTTGGTTTGAACATTCCTCAAATTTC-TCC
128 TAAAAATATTAATC---A-AA-G-CAATGAGACTACTTGGTTTGAACATTCCTCAAACTTCGT-C
* **
98386 CATAATCTGCACTGAATCGAGTGAAGCATTGATATAGT-TCAGATTAAGGGCGAAGTGTGAG-GG
186 CATAATCTGCACTGAATCGAGTGAAGCATTGATATAGTGT-AAATTAACCGCGAAGTGTGAGAGG
* * * * **
98449 AAATGTTCAAACCAAATAGTCTCATTACCATGATTAATATCTTTAGTTTTAATATTATAATTTGT
250 -AATGTTCAAACCAAACAGTCTCATTACCAAGATTAACATCTTTAGCTTTAATATTATAATTCAT
* * * * *
98514 CTCCATTCTCAGAAGAGGTAACTCGT-GCCATTGAAAAGCCTTACTTTT
314 CTCCATTCTCACAAGAGGTAAC-CCTCACCACTGAAAAACCTTACTTTT
98562 TCTTGTCTAA
Statistics
Matches: 316, Mismatches: 39, Indels: 19
0.84 0.10 0.05
Matches are distributed among these distances:
401 1 0.00
402 94 0.30
403 30 0.09
404 1 0.00
406 1 0.00
407 1 0.00
408 5 0.02
409 181 0.57
410 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.33
Consensus pattern (402 bp):
TTCTTTTCTCTAAATAATCAATTTTCTTATTCCACAAAAGCAATGAAGCCAATAGCTTCTTCGAT
GAATCCCTATACAACATCATGCATACCTCTTATGAGAAAGAAGACAATTATAATATTAAAGCTAA
AAATATTAATCAAAGCAATGAGACTACTTGGTTTGAACATTCCTCAAACTTCGTCCATAATCTGC
ACTGAATCGAGTGAAGCATTGATATAGTGTAAATTAACCGCGAAGTGTGAGAGGAATGTTCAAAC
CAAACAGTCTCATTACCAAGATTAACATCTTTAGCTTTAATATTATAATTCATCTCCATTCTCAC
AAGAGGTAACCCTCACCACTGAAAAACCTTACTTTTCTTTTGCCTAGGGAACCCGTGCCACTGAC
AAGCCTTACTTT
Found at i:98878 original size:358 final size:362
Alignment explanation
Indices: 98166--98955 Score: 1067
Period size: 358 Copynumber: 2.2 Consensus size: 362
98156 TTGCCTAGGG
* * * *
98166 AACCCGTGCCACTGACAAGCCTTACTTTTTCTTTTCTCTAAATGATCAATTTTCTTATTCCACAA
1 AACCCGTGCCACTGAAAAGCCTTACTTTTTC--TTGTCTAAATGATCAGTTTTCTTATTCCGCAA
* *
98231 AGGCAATGAAGCCAATAGCTTCTTCATTGAATCCCTATGCAGCATCATGCATACCTCTTGTGAGA
64 AGGCAATGAAGCCAATAGCTTCTTCATTGAATCCCTATGCAACATCATACATACCTCTTGTGAGA
** *
98296 AAGAAGGTAAATTATAATATTAACGCTAAAAATATTAATCGTGACAATGACAATGAGCCTACTTG
129 AAGAAGACAAATTATAATATTAACGCTAAAAATATTAATCATGACAATG--AA-GAGCCTACTTG
* * * * *
98361 GTTTGAACATTCCTCAAATTTCTCCCATAATCTGCACTGAATCGAGTGAAGCATTGATATAGTTC
191 ATTTGAACATTCCTCAAACTTCTCCCATAATCTGCACTGAATCAAGTGAAACATTGATATAGTGC
* * *
98426 AGATTAAGGGCGAAGTGTGAGGGAAATGTTCAAACCAAATAGTCTCATTACCATGATTAATATCT
256 AGATTAAGGGCGAAGTGTGAGGAAAATGTTCAAACCAAATAGTCCCATTACCATGATTAATATAT
* * * *
98491 TTAGTTTTAATATTATAATTTGTCTCCATTCTCAGAAGAGGT
321 TTAGCTTCAATATTATAATTTGCCTCCATTCTCACAAGAGGT
* * * *
98533 AACTCGTGCCATTGAAAAGCCTTACTTTTTCTTGTCTAAATGATCAGTTTTCTTATTTCGTAAAG
1 AACCCGTGCCACTGAAAAGCCTTACTTTTTCTTGTCTAAATGATCAGTTTTCTTATTCCGCAAAG
* * * * * *
98598 GCTATGAAGTCATTAGCTTCTTCGTTGAATCCCTATGCAACATCATACATGCCTCTTGTGAGAAG
66 GCAATGAAGCCAATAGCTTCTTCATTGAATCCCTATGCAACATCATACATACCTCTTGTGAGAAA
* * * *
98663 GAAGACAAATTATAATATTAAAC-CTGAAGATATTAATCATGGCAATG-A-AG-CTGCTTGATTT
131 GAAGACAAATTATAATATT-AACGCTAAAAATATTAATCATGACAATGAAGAGCCTACTTGATTT
* * * * *
98724 GAACATTCCTCACACTTC-GCCATAATCTGCATTGAATCAAGTGAAACATTGTTATAGTGCTGAT
195 GAACATTCCTCAAACTTCTCCCATAATCTGCACTGAATCAAGTGAAACATTGATATAGTGCAGAT
98788 TAAGGGCGAAGTGTGAGGAAAATGTTCAAACCAAACT-GTCCCATTACCAAT-ATTAATATATTT
260 TAAGGGCGAAGTGTGAGGAAAATGTTCAAACCAAA-TAGTCCCATTACC-ATGATTAATATATTT
98851 AGCTTCAATATTATAATTTGCCTCCATTCTCACAAGAGGT
323 AGCTTCAATATTATAATTTGCCTCCATTCTCACAAGAGGT
* *
98891 AACCCGTGCCACTAAAAAGCCTTA-TTTTT-TTGTCTAAATGATCAGTTCTCTTATTCCGCAAAG
1 AACCCGTGCCACTGAAAAGCCTTACTTTTTCTTGTCTAAATGATCAGTTTTCTTATTCCGCAAAG
98954 GC
66 GC
98956 GCATGCATAC
Statistics
Matches: 374, Mismatches: 46, Indels: 17
0.86 0.11 0.04
Matches are distributed among these distances:
356 33 0.09
357 5 0.01
358 151 0.40
359 28 0.07
360 2 0.01
362 1 0.00
365 123 0.33
366 3 0.01
367 28 0.07
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (362 bp):
AACCCGTGCCACTGAAAAGCCTTACTTTTTCTTGTCTAAATGATCAGTTTTCTTATTCCGCAAAG
GCAATGAAGCCAATAGCTTCTTCATTGAATCCCTATGCAACATCATACATACCTCTTGTGAGAAA
GAAGACAAATTATAATATTAACGCTAAAAATATTAATCATGACAATGAAGAGCCTACTTGATTTG
AACATTCCTCAAACTTCTCCCATAATCTGCACTGAATCAAGTGAAACATTGATATAGTGCAGATT
AAGGGCGAAGTGTGAGGAAAATGTTCAAACCAAATAGTCCCATTACCATGATTAATATATTTAGC
TTCAATATTATAATTTGCCTCCATTCTCACAAGAGGT
Found at i:99235 original size:324 final size:318
Alignment explanation
Indices: 98649--99283 Score: 882
Period size: 324 Copynumber: 2.0 Consensus size: 318
98639 ATCATACATG
* *
98649 CCTCTTGTGAGAAGGAAGACAAATTATAATATTAAACCTGAAGATATTAATCATGGCAATGAAGC
1 CCTCTTGTGAGAAGGAAGACAAATTATAATATTAAACCTAAAGATATTAAACATGGCAATGAAGC
*
98714 TGCTTGATTTGAACATTCCTCACACTTCGCCATAATCTGCATTGAATCAAGTGAAACATTGTTAT
66 TGCTTGATTTGAACATTCCTCACACTTCGCCATAATCTGCACTGAATCAAGTGAAACATTGTTAT
* *
98779 AGTGCTGATTAAGGGCGAAGTGTGAGGAAAATGTTCAAACCAAACTGTCCCATTACCAATATTAA
131 AGTGCTGATTAAGGGCAAAGTGTGAGGAAAATGTTCAAACCAAACAGTCCCATTACCAATATTAA
* *
98844 TATATTTAGCTTCAATATTATAATTTGCCTCCATTCTCACAAGAGGTAACCCGTGCCACTAAAAA
196 TATATTTAACTTCAATATTATAATTTGCCTCCATTCTCACAAGAGGTAACCAGTGCCACTAAAAA
*
98909 GCCTTA-TTT-TTTTGTCTAAATGATCAGTTCTCTTATTCCGCAAAGGCGCATGCATA
261 GCCTTATTTTCTTTTGTCTAAATGATCAGTTCTCTTATTCCACAAAGGCGCATGCATA
* * *
98965 CCTCTTGTGAGAAGGAAGATAAATTATAGTATTAAAGCTAAAGATATTAAACATGGCAATG-AGA
1 CCTCTTGTGAGAAGGAAGACAAATTATAATATTAAACCTAAAGATATTAAACATGGCAATGAAG-
* * * * * *
99029 CTGTTTGGTTTGAGCATTCCTCACTCTTCGCTCATAATCTGCACTGAATCGAGTGAAGCATTGTT
65 CTGCTTGATTTGAACATTCCTCACACTTCGC-CATAATCTGCACTGAATCAAGTGAAACATTGTT
* * * * *
99094 ATAGTGCAAAATACAGATTAATGGCAAAGTGTGAGGAGAATGTTCAAACCAAGCAGTCTCATTGC
129 ATAGTGC----T---GATTAAGGGCAAAGTGTGAGGAAAATGTTCAAACCAAACAGTCCCATTAC
* * *
99159 C-ATGATTAATATCTTTAATTTTAATATTATAATTTGCCTCCATTCTCACAAGAGGTAACCAGTG
187 CAAT-ATTAATATATTTAACTTCAATATTATAATTTGCCTCCATTCTCACAAGAGGTAACCAGTG
* * *
99223 CCACTGAAAAGCCTTACTTTTTCTTTTGTCTAAATGATCAGTTTTCTTATTCTACAAAGGC
251 CCACTAAAAAGCCTTA--TTTTCTTTTGTCTAAATGATCAGTTCTCTTATTCCACAAAGGC
99284 AATGAAGTTA
Statistics
Matches: 277, Mismatches: 28, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
315 2 0.01
316 83 0.30
317 37 0.13
321 1 0.00
323 2 0.01
324 114 0.41
327 3 0.01
328 35 0.13
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (318 bp):
CCTCTTGTGAGAAGGAAGACAAATTATAATATTAAACCTAAAGATATTAAACATGGCAATGAAGC
TGCTTGATTTGAACATTCCTCACACTTCGCCATAATCTGCACTGAATCAAGTGAAACATTGTTAT
AGTGCTGATTAAGGGCAAAGTGTGAGGAAAATGTTCAAACCAAACAGTCCCATTACCAATATTAA
TATATTTAACTTCAATATTATAATTTGCCTCCATTCTCACAAGAGGTAACCAGTGCCACTAAAAA
GCCTTATTTTCTTTTGTCTAAATGATCAGTTCTCTTATTCCACAAAGGCGCATGCATA
Found at i:99795 original size:359 final size:360
Alignment explanation
Indices: 98963--99950 Score: 1274
Period size: 359 Copynumber: 2.7 Consensus size: 360
98953 GGCGCATGCA
* * *
98963 TACCTCTTGTGAGAAGGAAGATAAATTATAGTATTAAAGCTAAAGATATTAAACATGGCAATGAG
1 TACCTCTTGTGAGAAGGAAGATAAATTATAATATTAAAGTTAAAGATATTAATCATGGCAATGAG
* *
99028 ACTGTTTGGTTTGAGCATTCCTCACTCTTCG-CTCATAATCTGCACTGAATCGAGTGAAGCATTG
66 ACTGTTTGGTTTGAACATTCCTCACACTTCGTC-CATAATCTGCACTGAATCGAGTGAAGCATTG
*
99092 TTATAGTGCAAAATACAGATTAATGGCAAAGTGTGAGGAGAATGTTCAAACCA-AGCAGTCTCAT
130 TTATAGTGC-----A-A-ATTAAGGGCAAAGTGTGAGG-GAATGTTCAAA-CAGAGCAGTCTCAT
* ** *
99156 TGCCATGATTAATATCTTTAATTTTAATATTATAATTTGCCTCCATTCTCACAAGAGGTAACCAG
186 TGCCCTGATTAATATCTTTAGCTTTAATATTATAATTTGCCTCCCTTCTCACAAGAGGTAACCAG
* *
99221 TGCCACTGAAAAGCCTTACTTTTTCTTTTGTCTAAATGATCAGTTTTCTTATTCTACAAAGGCAA
251 TGCCACTGAAAAGCCTTACTTTTTCTTTTATCTAAATGATCAGTTTTCTTATTCCACAAAGGCAA
* *
99286 TGAAGTTAATAGCTTCTTCGTTGAATCCCTATACAACATCATGCC
316 TGAAGTCAATAGCTTCTTCGTTGAATCCCTATACAACATCATACC
* * *
99331 TACATCTTGTGAGAAGGAAGGTAAATTATAATATTAAAGTTAAAGATATTAATCATGGCAGTGAG
1 TACCTCTTGTGAGAAGGAAGATAAATTATAATATTAAAGTTAAAGATATTAATCATGGCAATGAG
* * *
99396 GCTGCTTGGTTTGAACATTCCTCACACTTCGTCTATAATCTGCACTGAATCGAGTGAAGCATTGT
66 ACTGTTTGGTTTGAACATTCCTCACACTTCGTCCATAATCTGCACTGAATCGAGTGAAGCATTGT
* * * * *
99461 TGTAGTGCAAATTAAGGGC-GAGATGTGAGGGGATGTTCAAACAGAGTAGTCTCATTGCCCTTAT
131 TATAGTGCAAATTAAGGGCAAAG-TGTGAGGGAATGTTCAAACAGAGCAGTCTCATTGCCCTGAT
*
99525 TAATATCTTTAGCTTTAATATTATAATTTGCCTCCCTTCTCACAA-AGGTAATCCA-TGCCATTG
195 TAATATCTTTAGCTTTAATATTATAATTTGCCTCCCTTCTCACAAGAGGTAA-CCAGTGCCACTG
* *
99588 AAAAGTCC-TATTTTTTCTTTTATCTAAATGATCAGTTTTCTTATTCCGCAAAGG-AATGAAGTC
259 AAAAG-CCTTACTTTTTCTTTTATCTAAATGATCAGTTTTCTTATTCCACAAAGGCAATGAAGTC
* * * *
99651 AATAGCTTCTTCGTTGAATCTCTATGCAGCATCATACG
323 AATAGCTTCTTCGTTGAATCCCTATACAACATCATACC
* * * *
99689 TACCTCTTGTGAGCAGGGAGACAAATTATAATATTAAAGTTAAAGATATTAATCATGACAAATGA
1 TACCTCTTGTGAGAAGGAAGATAAATTATAATATTAAAGTTAAAGATATTAATCATGGC-AATGA
* * * * * * *
99754 GATTGTTTGGTTTAAACATTCCTTACACTTCGTCCATAATCTACACAGAATCAAGTGAAGCACTG
65 GACTGTTTGGTTTGAACATTCCTCACACTTCGTCCATAATCTGCACTGAATCGAGTGAAGCATTG
* * * * ** * *
99819 TTCTGGTGCAGATTAAGGGCAAAGTGTGA-GGAATGTTCAGATGGAGCATTCTCATTCCCCATGA
130 TTATAGTGCAAATTAAGGGCAAAGTGTGAGGGAATGTTCAAACAGAGCAGTCTCATTGCCC-TGA
* * * * *
99883 TTAATATCTTTAGCTTTGATATTATAATTTACTTCCCTTCTCACAAGAGAT-ACCCGTGCCACTG
194 TTAATATCTTTAGCTTTAATATTATAATTTGCCTCCCTTCTCACAAGAGGTAACCAGTGCCACTG
99947 AAAA
259 AAAA
99951 TCCCCATTTT
Statistics
Matches: 543, Mismatches: 67, Indels: 29
0.85 0.10 0.05
Matches are distributed among these distances:
358 120 0.22
359 200 0.37
360 81 0.15
361 15 0.03
362 1 0.00
363 1 0.00
368 124 0.23
369 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (360 bp):
TACCTCTTGTGAGAAGGAAGATAAATTATAATATTAAAGTTAAAGATATTAATCATGGCAATGAG
ACTGTTTGGTTTGAACATTCCTCACACTTCGTCCATAATCTGCACTGAATCGAGTGAAGCATTGT
TATAGTGCAAATTAAGGGCAAAGTGTGAGGGAATGTTCAAACAGAGCAGTCTCATTGCCCTGATT
AATATCTTTAGCTTTAATATTATAATTTGCCTCCCTTCTCACAAGAGGTAACCAGTGCCACTGAA
AAGCCTTACTTTTTCTTTTATCTAAATGATCAGTTTTCTTATTCCACAAAGGCAATGAAGTCAAT
AGCTTCTTCGTTGAATCCCTATACAACATCATACC
Found at i:104834 original size:38 final size:38
Alignment explanation
Indices: 104791--104890 Score: 173
Period size: 38 Copynumber: 2.6 Consensus size: 38
104781 TTCGGTTCGT
* *
104791 TTATGTTCACGAACAAGCTTGTTTATTGACTCGTTTGC
1 TTATGTTCATGAACAAGCTCGTTTATTGACTCGTTTGC
*
104829 TTATGTTCATGAACAAGCTCGTTTATTGGCTCGTTTGC
1 TTATGTTCATGAACAAGCTCGTTTATTGACTCGTTTGC
104867 TTATGTTCATGAACAAGCTCGTTT
1 TTATGTTCATGAACAAGCTCGTTT
104891 GTTTATGTTC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 59 1.00
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (38 bp):
TTATGTTCATGAACAAGCTCGTTTATTGACTCGTTTGC
Found at i:104896 original size:26 final size:26
Alignment explanation
Indices: 104857--104966 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
104847 TCGTTTATTG
*
104857 GCTCGTTTGCTTATGTTCATGAACAA
1 GCTCGTTTGTTTATGTTCATGAACAA
104883 GCTCGTTTGTTTATGTTCATGAACAA
1 GCTCGTTTGTTTATGTTCATGAACAA
*
104909 GCTCGTTTGTTTATGTTCATGAACAT
1 GCTCGTTTGTTTATGTTCATGAACAA
*
104935 GCTCGTTTGTTTATGTTCATGAACAT
1 GCTCGTTTGTTTATGTTCATGAACAA
104961 GCTCGT
1 GCTCGT
104967 GAACTCTGAA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (26 bp):
GCTCGTTTGTTTATGTTCATGAACAA
Found at i:113580 original size:23 final size:23
Alignment explanation
Indices: 113554--113598 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
113544 CACCACAGCT
*
113554 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
113577 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
113599 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:113765 original size:150 final size:149
Alignment explanation
Indices: 113566--113881 Score: 553
Period size: 150 Copynumber: 2.1 Consensus size: 149
113556 TATAAATGCA
*
113566 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATATAA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAA
* *
113630 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCCAAGACTTCACACATGT
65 TTCCTTAAGAACCATATACATATACTAAGGATCAAGTATGTGTCTTT-CAAGACTTCACACATGT
* *
113695 TCCACAGAATATATATATATC
129 TCCAAAGAATATACATATATC
113716 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
113781 TCCTTAAGAACCATATACATATACTAAGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAACCATATACATATACTAAGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
*
113846 CAAAGAATATACATATGTC
131 CAAAGAATATACATATATC
113865 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
113882 CCCTCTACCC
Statistics
Matches: 159, Mismatches: 6, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
149 53 0.33
150 106 0.67
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.26
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
TCCTTAAGAACCATATACATATACTAAGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
CAAAGAATATACATATATC
Found at i:120522 original size:23 final size:23
Alignment explanation
Indices: 120496--120540 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
120486 CACCACAGCT
*
120496 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
120519 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
120541 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:120707 original size:150 final size:149
Alignment explanation
Indices: 120508--120823 Score: 553
Period size: 150 Copynumber: 2.1 Consensus size: 149
120498 TATAAATGCA
*
120508 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATATAA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAA
* *
120572 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCCAAGACTTCACACATGT
65 TTCCTTAAGAACCATATACATATACTAAGGATCAAGTATGTGTCTTT-CAAGACTTCACACATGT
* *
120637 TCCACAGAATATATATATATC
129 TCCAAAGAATATACATATATC
120658 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
120723 TCCTTAAGAACCATATACATATACTAAGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAACCATATACATATACTAAGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
*
120788 CAAAGAATATACATATGTC
131 CAAAGAATATACATATATC
120807 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
120824 CCCTCTACCC
Statistics
Matches: 159, Mismatches: 6, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
149 53 0.33
150 106 0.67
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.26
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
TCCTTAAGAACCATATACATATACTAAGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
CAAAGAATATACATATATC
Found at i:121338 original size:18 final size:19
Alignment explanation
Indices: 121301--121337 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
121291 TTTTTTTTCA
*
121301 TGGGGGAATCGGTTCCCCC
1 TGGGGGAATCGATTCCCCC
*
121320 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
121338 TCTAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.11, C:0.30, G:0.35, T:0.24
Consensus pattern (19 bp):
TGGGGGAATCGATTCCCCC
Found at i:122247 original size:5 final size:5
Alignment explanation
Indices: 122237--122263 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
122227 TAGGGGTGTA
122237 TTCGG TTCGG TTCGG TTCGG TTCGG TT
1 TTCGG TTCGG TTCGG TTCGG TTCGG TT
122264 TTTTTTATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.37, T:0.44
Consensus pattern (5 bp):
TTCGG
Found at i:122411 original size:14 final size:15
Alignment explanation
Indices: 122373--122413 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 15
122363 GTTTTTTCGG
122373 TTCGGTTCGGGTTTT
1 TTCGGTTCGGGTTTT
122388 TTAACGGTTCGGG-TTT
1 TT--CGGTTCGGGTTTT
122404 TTCGGTTCGG
1 TTCGGTTCGG
122414 TTCGGTTCGG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 8 0.33
15 2 0.08
16 5 0.21
17 9 0.38
ACGTcount: A:0.05, C:0.15, G:0.34, T:0.46
Consensus pattern (15 bp):
TTCGGTTCGGGTTTT
Found at i:128388 original size:12 final size:12
Alignment explanation
Indices: 128371--128396 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
128361 GTCCTATGCC
128371 CATCCCCATAAT
1 CATCCCCATAAT
128383 CATCCCCATAAT
1 CATCCCCATAAT
128395 CA
1 CA
128397 ACTAGTGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.42, G:0.00, T:0.23
Consensus pattern (12 bp):
CATCCCCATAAT
Found at i:128845 original size:28 final size:28
Alignment explanation
Indices: 128803--128858 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
128793 CAACTGAAGA
* *
128803 CTAAAGTGTAGAGATTGAAAGTTTAGGG
1 CTAAAGTGTAAAGATTGAAAGTTCAGGG
*
128831 CTAAAGTGTAAAGATTGGAAGTTCAGGG
1 CTAAAGTGTAAAGATTGAAAGTTCAGGG
128859 GAATGTATGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.36, C:0.05, G:0.32, T:0.27
Consensus pattern (28 bp):
CTAAAGTGTAAAGATTGAAAGTTCAGGG
Found at i:132766 original size:2 final size:2
Alignment explanation
Indices: 132759--132795 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
132749 AATATAAACT
132759 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
132796 CAAAACTCGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:133130 original size:59 final size:58
Alignment explanation
Indices: 133032--133146 Score: 203
Period size: 59 Copynumber: 2.0 Consensus size: 58
133022 TTCTCCGCTA
*
133032 AAGTTTTAGAAATAACGATTTGTCATTAATATTATTCATTTATAATAATAAATCGATC
1 AAGTTTTAGAAATAACGAATTGTCATTAATATTATTCATTTATAATAATAAATCGATC
*
133090 AAGTTTTAGAAATAACGAATTGATCATTAATATTATTCATTTATAATAATAAGTCGA
1 AAGTTTTAGAAATAACGAATTG-TCATTAATATTATTCATTTATAATAATAAATCGA
133147 CCACTCACCA
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
58 21 0.39
59 33 0.61
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.40
Consensus pattern (58 bp):
AAGTTTTAGAAATAACGAATTGTCATTAATATTATTCATTTATAATAATAAATCGATC
Found at i:138160 original size:42 final size:42
Alignment explanation
Indices: 138101--138237 Score: 139
Period size: 42 Copynumber: 3.1 Consensus size: 42
138091 ATCATCATAT
* *
138101 TTGAATGAGAGTAGGTCGTTCGAAAGCTCGATTCGACAATGA
1 TTGAACGAGAGTAGGTCGTTCGAAAGCTCGACTCGACAATGA
*
138143 TTGAACGAGAGTAGGTCGTTCGGAAGCTCGACTCGACAACTCGACAA
1 TTGAACGAGAGTAGGTCGTTCGAAAGCTCGACTCGACAA-T-G---A
* * * *
138190 TGATCGAAAGAGAGTAGGTCGTTCGAGAGTTCAACTCGACAATGA
1 T--T-GAACGAGAGTAGGTCGTTCGAAAGCTCGACTCGACAATGA
138235 TTG
1 TTG
138238 GGTTGAATGT
Statistics
Matches: 79, Mismatches: 8, Indels: 16
0.77 0.08 0.16
Matches are distributed among these distances:
42 37 0.47
43 2 0.03
44 1 0.01
45 2 0.03
47 2 0.03
48 1 0.01
49 2 0.03
50 32 0.41
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (42 bp):
TTGAACGAGAGTAGGTCGTTCGAAAGCTCGACTCGACAATGA
Found at i:138192 original size:50 final size:50
Alignment explanation
Indices: 138133--138231 Score: 146
Period size: 50 Copynumber: 2.0 Consensus size: 50
138123 AAAGCTCGAT
* * *
138133 TCGACAATGATTGAACGAGAGTAGGTCGTTCG-GAAGCTCGACTCGACAAC
1 TCGACAATGATCGAAAGAGAGTAGGTCGTTCGAG-AGCTCAACTCGACAAC
*
138183 TCGACAATGATCGAAAGAGAGTAGGTCGTTCGAGAGTTCAACTCGACAA
1 TCGACAATGATCGAAAGAGAGTAGGTCGTTCGAGAGCTCAACTCGACAA
138232 TGATTGGGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 43 0.98
51 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.20
Consensus pattern (50 bp):
TCGACAATGATCGAAAGAGAGTAGGTCGTTCGAGAGCTCAACTCGACAAC
Found at i:138368 original size:2 final size:2
Alignment explanation
Indices: 138356--138388 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
138346 CAGATAATTG
138356 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
138389 TCAATTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:144779 original size:5 final size:5
Alignment explanation
Indices: 144769--144793 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
144759 TATAGTGATA
144769 TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT
144794 ATAGTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:144882 original size:29 final size:29
Alignment explanation
Indices: 144807--144887 Score: 94
Period size: 29 Copynumber: 2.8 Consensus size: 29
144797 GTTTTTTTAA
* *
144807 AAAATAGTATAT-ATATATAAATAGTTTTG
1 AAAATAATATATAATATAT-TATAGTTTTG
144836 AAAATAATATATAATATATTATAGTTTTG
1 AAAATAATATATAATATATTATAGTTTTG
* *
144865 AAATTAAGTAT-TAGTATATTATA
1 AAAATAA-TATATAATATATTATA
144888 TATTATGGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
29 37 0.80
30 9 0.20
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (29 bp):
AAAATAATATATAATATATTATAGTTTTG
Found at i:148462 original size:14 final size:16
Alignment explanation
Indices: 148428--148466 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
148418 AAAAATTTAA
*
148428 AATTTTTATATATTTT
1 AATTTTTATATATTAT
148444 AATTTTTATATA-TAT
1 AATTTTTATATATTAT
148459 -ATTTTTAT
1 AATTTTTAT
148467 TAAAAATCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.36
15 2 0.09
16 12 0.55
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
AATTTTTATATATTAT
Found at i:150347 original size:2 final size:2
Alignment explanation
Indices: 150340--150376 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
150330 CTAGGAATAT
150340 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
150377 TTATTATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:164755 original size:98 final size:96
Alignment explanation
Indices: 164566--164759 Score: 264
Period size: 98 Copynumber: 2.0 Consensus size: 96
164556 TACCATTAAC
*
164566 TGTAACACCCCAACCCGTACCCAACCCGAATACGAGTCTGAGGTGTCACATTGACTTTTCAAACC
1 TGTAACACCCCAACCCGTACCCAACCCGAATACGAGTCCGAGGTGTCACATTGACTTTTCAAACC
***
164631 TTGACACTTAAAGAAAAACCTCGAAAAATTTA
66 TTGACACTTAAAGAAAAACAAAG-AAAATTTA
*
164663 TGTAACACCCCCAACCCGTACCCGACCCGAATACGAGTCCGAGGTGTCACATTGACTTTTCAAAC
1 TGTAACA-CCCCAACCCGTACCCAACCCGAATACGAGTCCGAGGTGTCACATTGACTTTTCAAAC
* * * **
164728 TTTGACTCTTGACA-AAATTCAAAGAAAATTTA
65 CTTGACACTT-AAAGAAAAACAAAGAAAATTTA
164760 AAACTTTCAT
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
97 15 0.18
98 68 0.80
99 2 0.02
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.24
Consensus pattern (96 bp):
TGTAACACCCCAACCCGTACCCAACCCGAATACGAGTCCGAGGTGTCACATTGACTTTTCAAACC
TTGACACTTAAAGAAAAACAAAGAAAATTTA
Found at i:165575 original size:23 final size:23
Alignment explanation
Indices: 165549--165601 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
165539 ATTGTACCGA
* *
165549 AGTGCTACATAGAATTGCACCAT
1 AGTGCCACATAGAATTACACCAT
* * *
165572 AGTGCCGCGTAGAATTACACCGT
1 AGTGCCACATAGAATTACACCAT
165595 AGTGCCA
1 AGTGCCA
165602 TATAATAATG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (23 bp):
AGTGCCACATAGAATTACACCAT
Found at i:165974 original size:24 final size:24
Alignment explanation
Indices: 165946--165998 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
165936 TGTAGTTCTT
*
165946 TCACATAGCTCATCAT-CATATAAA
1 TCACATAGCCCAT-ATACATATAAA
*
165970 TCACATATCCCATATACATATAAA
1 TCACATAGCCCATATACATATAAA
165994 -CACAT
1 TCACAT
165999 GGTTCACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.43, C:0.26, G:0.02, T:0.28
Consensus pattern (24 bp):
TCACATAGCCCATATACATATAAA
Found at i:169177 original size:20 final size:20
Alignment explanation
Indices: 169152--169189 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
169142 TTTCCTTTAG
*
169152 GGGGAATCGATTCCCCCCCA
1 GGGGAATCGATACCCCCCCA
169172 GGGGAATCGATACCCCCC
1 GGGGAATCGATACCCCCC
169190 GGACATTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.39, G:0.26, T:0.13
Consensus pattern (20 bp):
GGGGAATCGATACCCCCCCA
Found at i:176878 original size:45 final size:46
Alignment explanation
Indices: 176790--176880 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 46
176780 TTGAAAAAAC
* *
176790 CTGAGTGCATCGATGCATGGTCTTGTGCATCGATGCATCAAATGCA
1 CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
176836 CTGAGTGCATCGATGCATGGT-ATGTGCATCGATGCATAAAATGCA
1 CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
176881 TTCGATGTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
45 22 0.51
46 21 0.49
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (46 bp):
CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
Found at i:190554 original size:22 final size:22
Alignment explanation
Indices: 190515--190566 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
190505 TAGTCACGAT
**
190515 ATAATTTACCTTTTATTTT-AA
1 ATAATTTACCTTAAATTTTCAA
190536 ATAATTTACCCTTAAATTTTCAA
1 ATAATTTA-CCTTAAATTTTCAA
*
190559 TTAATTTA
1 ATAATTTA
190567 TAATTATACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 8 0.31
22 9 0.35
23 9 0.35
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.52
Consensus pattern (22 bp):
ATAATTTACCTTAAATTTTCAA
Found at i:191253 original size:51 final size:52
Alignment explanation
Indices: 191195--191295 Score: 168
Period size: 51 Copynumber: 2.0 Consensus size: 52
191185 TAAATCTCTA
191195 TTTTTTATTGAATAAAAGTAATA-TTTTTAATAAAAATATCATTTTGAGTAT
1 TTTTTTATTGAATAAAAGTAATATTTTTTAATAAAAATATCATTTTGAGTAT
* * *
191246 TTTTTTATTGAATAAAAGTAATATTTTTTTATAAATATATTATTTTGAGT
1 TTTTTTATTGAATAAAAGTAATATTTTTTAATAAAAATATCATTTTGAGT
191296 CAAATTGAGT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
51 23 0.50
52 23 0.50
ACGTcount: A:0.39, C:0.01, G:0.08, T:0.52
Consensus pattern (52 bp):
TTTTTTATTGAATAAAAGTAATATTTTTTAATAAAAATATCATTTTGAGTAT
Found at i:191845 original size:20 final size:20
Alignment explanation
Indices: 191820--191865 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
191810 TATCCAGAAA
*
191820 AAAAATCCGGTCTGGGGTTT
1 AAAAATCCGATCTGGGGTTT
191840 AAAAATCCGATCTGGGGTTT
1 AAAAATCCGATCTGGGGTTT
191860 AAAAAT
1 AAAAAT
191866 TGGATGACCG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (20 bp):
AAAAATCCGATCTGGGGTTT
Found at i:191913 original size:16 final size:16
Alignment explanation
Indices: 191892--191922 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
191882 TTACCGGATT
*
191892 AAAAACCGGTTTTTTA
1 AAAAACCGATTTTTTA
191908 AAAAACCGATTTTTT
1 AAAAACCGATTTTTT
191923 TCAAACCGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (16 bp):
AAAAACCGATTTTTTA
Found at i:195806 original size:94 final size:93
Alignment explanation
Indices: 195646--195834 Score: 360
Period size: 94 Copynumber: 2.0 Consensus size: 93
195636 TTTGGTATAA
*
195646 TATCAAAATTAACCCCCAATATTTACCAAGACAATCATTTTGGCATATATATTTTTGGAACATTT
1 TATCAAAATTAACCCCCAATATTTACCAAGACAATCATTTTGGCATATATATTTTTGGAAAATTT
195711 CGACCAGCGTTTGAAGGCCAAAATACTC
66 CGACCAGCGTTTGAAGGCCAAAATACTC
195739 TATCAAAATTAACCCCCCAATATTTACCAAGACAATCATTTTGGCATATATATTTTTGGAAAATT
1 TATCAAAATTAA-CCCCCAATATTTACCAAGACAATCATTTTGGCATATATATTTTTGGAAAATT
195804 TCGACCAGCGTTTGAAGGCCAAAATACTC
65 TCGACCAGCGTTTGAAGGCCAAAATACTC
195833 TA
1 TA
195835 GGAAAAAAAA
Statistics
Matches: 94, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
93 12 0.13
94 82 0.87
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.31
Consensus pattern (93 bp):
TATCAAAATTAACCCCCAATATTTACCAAGACAATCATTTTGGCATATATATTTTTGGAAAATTT
CGACCAGCGTTTGAAGGCCAAAATACTC
Found at i:198766 original size:60 final size:60
Alignment explanation
Indices: 198601--198781 Score: 190
Period size: 60 Copynumber: 3.0 Consensus size: 60
198591 TACTTGTCTC
* * *
198601 GACCAAAAGTATAGTTTACGGACTTAAAACAAA-AAAGGGGCATAGTTTAGGGGA-TTATTTT
1 GACCAAAA-AATAGTTTACGGACTTAAAATAAATAAA-GGGTATAGTTTA-GGGATTTATTTT
* ** ** *
198662 GACCAAAAAATAGTTTA-GCTACTTAAAATAGTTAAA-TATAATAGTTTAAGGATTTATTTT
1 GACCAAAAAATAGTTTACG-GACTTAAAATAAATAAAGGGT-ATAGTTTAGGGATTTATTTT
* *
198722 GACCAAAAAATAGTTTACGGACTTAAAGTAAATAAAGGGTATAGTTTAGGGGTTTATTTT
1 GACCAAAAAATAGTTTACGGACTTAAAATAAATAAAGGGTATAGTTTAGGGATTTATTTT
198782 AGTTTAAGCC
Statistics
Matches: 97, Mismatches: 17, Indels: 13
0.76 0.13 0.10
Matches are distributed among these distances:
59 4 0.04
60 80 0.82
61 13 0.13
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (60 bp):
GACCAAAAAATAGTTTACGGACTTAAAATAAATAAAGGGTATAGTTTAGGGATTTATTTT
Found at i:205227 original size:2 final size:2
Alignment explanation
Indices: 205222--205254 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
205212 ACACCTAAAC
205222 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
205255 AATCTATCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:210114 original size:22 final size:22
Alignment explanation
Indices: 210089--210134 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
210079 GTTTTTCATT
210089 TTCTGTTG-AGTGTGAT-TTCTGG
1 TTCTG-TGAAGTGTG-TCTTCTGG
210111 TTCTGTGAAGTGTGTCTTCTGG
1 TTCTGTGAAGTGTGTCTTCTGG
210133 TT
1 TT
210135 GTATCTTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.09, C:0.11, G:0.30, T:0.50
Consensus pattern (22 bp):
TTCTGTGAAGTGTGTCTTCTGG
Found at i:220397 original size:2 final size:2
Alignment explanation
Indices: 220392--220418 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
220382 ACACACACAT
220392 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
220419 AACCAGTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:226150 original size:3 final size:3
Alignment explanation
Indices: 226142--226183 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
226132 ACATCACCAA
226142 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
226184 GATAGTGTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:243466 original size:23 final size:23
Alignment explanation
Indices: 243435--243500 Score: 105
Period size: 23 Copynumber: 2.9 Consensus size: 23
243425 TATTATATGA
243435 CACTACGGTGCAATTCTACGTGG
1 CACTACGGTGCAATTCTACGTGG
*
243458 CACTCCGGTGCAATTCTACGTGG
1 CACTACGGTGCAATTCTACGTGG
* *
243481 CACTTCGGTGCAATTATACG
1 CACTACGGTGCAATTCTACG
243501 AGCTGTGGTG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.27
Consensus pattern (23 bp):
CACTACGGTGCAATTCTACGTGG
Found at i:251155 original size:25 final size:25
Alignment explanation
Indices: 251120--251173 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
251110 AGGAAGGGGG
251120 AAAACACTCACTTCCCAGCAAAACA
1 AAAACACTCACTTCCCAGCAAAACA
* *
251145 AAAACAGTCACTTCCCTGCAAAACA
1 AAAACACTCACTTCCCAGCAAAACA
251170 AAAA
1 AAAA
251174 AACGTTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.50, C:0.31, G:0.06, T:0.13
Consensus pattern (25 bp):
AAAACACTCACTTCCCAGCAAAACA
Found at i:252099 original size:21 final size:21
Alignment explanation
Indices: 252075--252119 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
252065 TCGATAAAAA
*
252075 TTACCTAAAACATTATTATTT
1 TTACCTAAAACATTAATATTT
252096 TTACCTAAAACATTAATATTT
1 TTACCTAAAACATTAATATTT
252117 TTA
1 TTA
252120 ACAATTCCGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (21 bp):
TTACCTAAAACATTAATATTT
Found at i:258852 original size:11 final size:11
Alignment explanation
Indices: 258836--258864 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
258826 TCAGTTCCAG
258836 GCCCAATTCAA
1 GCCCAATTCAA
258847 GCCCAATTCAA
1 GCCCAATTCAA
258858 GCCCAAT
1 GCCCAAT
258865 GAACGACAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.34, C:0.38, G:0.10, T:0.17
Consensus pattern (11 bp):
GCCCAATTCAA
Found at i:271696 original size:18 final size:16
Alignment explanation
Indices: 271669--271723 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 16
271659 AAGAAGAAAT
271669 AAAA-GAGAAAAAATGAA
1 AAAATGAGAAAAAA--AA
*
271686 AAAATGAGAAAAAACA
1 AAAATGAGAAAAAAAA
271702 AAAATGATGAAAAAAACA
1 AAAATGA-GAAAAAAA-A
271720 AAAA
1 AAAA
271724 GAAAGAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
16 8 0.24
17 11 0.33
18 14 0.42
ACGTcount: A:0.76, C:0.04, G:0.13, T:0.07
Consensus pattern (16 bp):
AAAATGAGAAAAAAAA
Found at i:271697 original size:17 final size:15
Alignment explanation
Indices: 271669--271796 Score: 64
Period size: 16 Copynumber: 7.7 Consensus size: 15
271659 AAGAAGAAAT
271669 AAAAGAGAAAAAATGAA
1 AAAAGAG-AAAAA-GAA
271686 AAAATGAGAAAAA-ACA
1 AAAA-GAGAAAAAGA-A
*
271702 AAAATGATGAAAAAAACA
1 AAAA-GA-GAAAAAGA-A
271720 AAAAGAAAGAAAAAGAA
1 AAAAG--AGAAAAAGAA
*
271737 GAAAATG-GAAAAGGGAA
1 -AAAA-GAGAAAA-AGAA
271754 GAAAA-ATGAAAAATGAA
1 -AAAAGA-GAAAAA-GAA
*
271771 AAAAGAGAAAAATGGA
1 AAAAGAGAAAAA-GAA
271787 AAAAGAGAAA
1 AAAAGAGAAA
271797 TAAAAGGAGG
Statistics
Matches: 94, Mismatches: 4, Indels: 27
0.75 0.03 0.22
Matches are distributed among these distances:
15 1 0.01
16 36 0.38
17 34 0.36
18 21 0.22
19 2 0.02
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.06
Consensus pattern (15 bp):
AAAAGAGAAAAAGAA
Found at i:271731 original size:18 final size:18
Alignment explanation
Indices: 271685--271733 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
271675 GAAAAAATGA
271685 AAAAATG-AG-AAAAAAC
1 AAAAATGAAGAAAAAAAC
*
271701 AAAAATGATGAAAAAAAC
1 AAAAATGAAGAAAAAAAC
271719 AAAAA-GAAAGAAAAA
1 AAAAATG-AAGAAAAA
271734 GAAGAAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 7 0.25
17 2 0.07
18 19 0.68
ACGTcount: A:0.78, C:0.04, G:0.12, T:0.06
Consensus pattern (18 bp):
AAAAATGAAGAAAAAAAC
Found at i:271748 original size:26 final size:25
Alignment explanation
Indices: 271669--271790 Score: 69
Period size: 26 Copynumber: 4.8 Consensus size: 25
271659 AAGAAGAAAT
*
271669 AAAAGAGA-AAAAATGAAAAAATGAGA
1 AAAAGAAAGAAAAATG-AAAAATGA-A
* *
271695 AAAA-ACAA-AAATGATGAAAAA-AACA
1 AAAAGA-AAGAAA-AATGAAAAATGA-A
*
271720 AAAAGAAAGAAAAA-GAAGAAAATGGA
1 AAAAGAAAGAAAAATG-A-AAAATGAA
* *
271746 AAAGGGAAGAAAAATGAAAAATGAA
1 AAAAGAAAGAAAAATGAAAAATGAA
271771 AAAAG--AGAAAAATGGAAAAA
1 AAAAGAAAGAAAAAT-GAAAAA
271791 GAGAAATAAA
Statistics
Matches: 76, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
23 8 0.11
24 7 0.09
25 22 0.29
26 35 0.46
27 4 0.05
ACGTcount: A:0.73, C:0.02, G:0.19, T:0.07
Consensus pattern (25 bp):
AAAAGAAAGAAAAATGAAAAATGAA
Found at i:271771 original size:24 final size:25
Alignment explanation
Indices: 271738--271790 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
271728 GAAAAAGAAG
**
271738 AAAATGGAAAAGGGAAGAAAAAT-GA
1 AAAATGGAAAAAAG-AGAAAAATGGA
271763 AAAAT-GAAAAAAGAGAAAAATGGA
1 AAAATGGAAAAAAGAGAAAAATGGA
271787 AAAA
1 AAAA
271791 GAGAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 8 0.32
24 12 0.48
25 5 0.20
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.08
Consensus pattern (25 bp):
AAAATGGAAAAAAGAGAAAAATGGA
Found at i:273271 original size:53 final size:53
Alignment explanation
Indices: 273160--273277 Score: 157
Period size: 53 Copynumber: 2.2 Consensus size: 53
273150 ACCCGTTTTA
*
273160 TGAAGATTGTTCGAGTTCTACTCCTCGAAGCAAGAGGGAGCGAACCCGTAAGC
1 TGAAGATTGTTCGAGTTCTACTCCTCGAAGCAAGAGGGAGCGAACCCCTAAGC
* * * * * *
273213 AGAAGATTGTTCGAGTTCTACTCCTTGGAGCAAGAGGGGGCGAACCCACT-GGT
1 TGAAGATTGTTCGAGTTCTACTCCTCGAAGCAAGAGGGAGCGAACCC-CTAAGC
273266 TGAAGATTGTTC
1 TGAAGATTGTTC
273278 AAAGAAGAGT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
53 55 0.98
54 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (53 bp):
TGAAGATTGTTCGAGTTCTACTCCTCGAAGCAAGAGGGAGCGAACCCCTAAGC
Found at i:277285 original size:63 final size:63
Alignment explanation
Indices: 277206--277337 Score: 219
Period size: 63 Copynumber: 2.1 Consensus size: 63
277196 TCTCTCATTA
* * *
277206 TGCCAAGGACCTAATCTCTGCCTAATAGCTATAATCTTCTCCTTAATCAAGCCCGAAGAGTTC
1 TGCCAAAGACCTAATCTCTGCCCAATAGCTATAATATTCTCCTTAATCAAGCCCGAAGAGTTC
* *
277269 TGCCAAAGACCTAATCTCTGCCCAATAGCTGTAATATTCTCCTTAATCGAGCCCGAAGAGTTC
1 TGCCAAAGACCTAATCTCTGCCCAATAGCTATAATATTCTCCTTAATCAAGCCCGAAGAGTTC
277332 TGCCAA
1 TGCCAA
277338 GTTTCACCCC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (63 bp):
TGCCAAAGACCTAATCTCTGCCCAATAGCTATAATATTCTCCTTAATCAAGCCCGAAGAGTTC
Found at i:287271 original size:23 final size:22
Alignment explanation
Indices: 287215--287273 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 22
287205 TTTGAGTAGA
*
287215 AAAAACAG-ATCAAAAACAACG
1 AAAAACAGAAACAAAAACAACG
287236 AAAAACTCA-AAACAAAAATCAACG
1 AAAAA--CAGAAACAAAAA-CAACG
287260 AAAAACAGAAACAA
1 AAAAACAGAAACAA
287274 CACAATTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
21 5 0.16
22 2 0.06
23 15 0.47
24 10 0.31
ACGTcount: A:0.69, C:0.19, G:0.07, T:0.05
Consensus pattern (22 bp):
AAAAACAGAAACAAAAACAACG
Found at i:289906 original size:18 final size:19
Alignment explanation
Indices: 289870--289908 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
289860 TTTTGTTTTC
*
289870 GAATAAAATATTTTTAATT
1 GAATAAAATATTGTTAATT
289889 GAATAAAA-ATTGTTAATT
1 GAATAAAATATTGTTAATT
289907 GA
1 GA
289909 TTGATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (19 bp):
GAATAAAATATTGTTAATT
Found at i:290169 original size:15 final size:16
Alignment explanation
Indices: 290125--290172 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 16
290115 AATAAAAGAA
*
290125 TATTTTTAAATTAATT
1 TATTATTAAATTAATT
*
290141 TATTATATATAATTATTT
1 TATTAT-TA-AATTAATT
290159 TA-TATTAAATTAAT
1 TATTATTAAATTAAT
290173 AACAATCAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 6 0.22
16 7 0.26
17 5 0.19
18 9 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TATTATTAAATTAATT
Found at i:296328 original size:17 final size:17
Alignment explanation
Indices: 296306--296340 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
296296 TTATCCGGAT
296306 AAAAAACCGATTTTTTA
1 AAAAAACCGATTTTTTA
*
296323 AAAAAACCGGTTTTTTA
1 AAAAAACCGATTTTTTA
296340 A
1 A
296341 CCGAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.34
Consensus pattern (17 bp):
AAAAAACCGATTTTTTA
Found at i:302708 original size:15 final size:14
Alignment explanation
Indices: 302686--302732 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 14
302676 AAACGAACCG
302686 AACCGAACCGAAAA
1 AACCGAACCGAAAA
302700 AACCTGAACCGTTAAAAA
1 AACC-GAACCG---AAAA
302718 AACCGAACCGAAAA
1 AACCGAACCGAAAA
302732 A
1 A
302733 CCGGTTTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 9 0.31
15 6 0.21
17 6 0.21
18 8 0.28
ACGTcount: A:0.55, C:0.26, G:0.13, T:0.06
Consensus pattern (14 bp):
AACCGAACCGAAAA
Found at i:304809 original size:2 final size:2
Alignment explanation
Indices: 304802--304869 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
304792 GTACTACATA
304802 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
304844 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
304870 TAAAACATGT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:305930 original size:14 final size:13
Alignment explanation
Indices: 305902--305953 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
305892 AATATATATA
*
305902 TATTTATAATAAT
1 TATTTATATTAAT
305915 TATTTATTATTAAT
1 TATTTA-TATTAAT
305929 TATTATAATATT-AT
1 TATT-T-ATATTAAT
*
305943 TATTAATATTA
1 TATTTATATTA
305954 CTTTTACAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
12 5 0.15
13 6 0.18
14 16 0.48
15 5 0.15
16 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TATTTATATTAAT
Found at i:307260 original size:21 final size:21
Alignment explanation
Indices: 307236--307302 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
307226 GATTCGCAAC
307236 GCGATAGTCGAAGTTCGCGTT
1 GCGATAGTCGAAGTTCGCGTT
* * *
307257 GCGATTCATTCCAA-AT--CGTT
1 GCGA-T-AGTCGAAGTTCGCGTT
*
307277 GCGATAGGCGAAGTTCGCGTT
1 GCGATAGTCGAAGTTCGCGTT
307298 GCGAT
1 GCGAT
307303 TCATTCCAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 10
0.67 0.14 0.20
Matches are distributed among these distances:
18 4 0.12
19 2 0.06
20 8 0.24
21 13 0.38
22 2 0.06
23 5 0.15
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (21 bp):
GCGATAGTCGAAGTTCGCGTT
Found at i:307281 original size:41 final size:41
Alignment explanation
Indices: 307244--307611 Score: 574
Period size: 41 Copynumber: 8.9 Consensus size: 41
307234 ACGCGATAGT
* *
307244 CGAAGTTCGCGTTGCGATTCATTCCAAATCGTTGCGATAGG
1 CGAAGTTCGCGTTGCGATTCATTCCAATTCGTTGCGACAGG
307285 CGAAGTTCGCGTTGCGATTCATTCCAATTCGTTGCGACAGG
1 CGAAGTTCGCGTTGCGATTCATTCCAATTCGTTGCGACAGG
* *
307326 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACATG
1 CGAAGTTCGCGTTGCGATTCATTCCAATTCGTTGCGACAGG
* *
307367 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACATG
1 CGAAGTTCGCGTTGCGATTCATTCCAATTCGTTGCGACAGG
* *
307408 CGAAGTTTGCGTTGCGATTCATTTCAAATTCGTTGCGACAGG
1 CGAAGTTCGCGTTGCGATTCA-TTCCAATTCGTTGCGACAGG
* * *
307450 CGAAATTTGCATTGCGATTCATTCCAATTCGTTGCGACAGG
1 CGAAGTTCGCGTTGCGATTCATTCCAATTCGTTGCGACAGG
*
307491 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
1 CGAAGTTCGCGTTGCGATTCATTCCAATTCGTTGCGACAGG
* *
307532 CAAAGTTCGCGTTGCGATTCATTCCAAATTCGTTGCGATAGG
1 CGAAGTTCGCGTTGCGATTCATTCC-AATTCGTTGCGACAGG
*
307574 CGAAGTTCGCGTTGCGATTCATTCTAAATTCGTTGCGA
1 CGAAGTTCGCGTTGCGATTCATTC-CAATTCGTTGCGA
307612 TAGTCCAAAT
Statistics
Matches: 306, Mismatches: 18, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
41 219 0.72
42 87 0.28
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.31
Consensus pattern (41 bp):
CGAAGTTCGCGTTGCGATTCATTCCAATTCGTTGCGACAGG
Found at i:307341 original size:21 final size:21
Alignment explanation
Indices: 307316--307507 Score: 84
Period size: 21 Copynumber: 9.3 Consensus size: 21
307306 TTCCAATTCG
*
307316 TTGCGACAGGCGAAGTTCGCA
1 TTGCGACATGCGAAGTTCGCA
* *
307337 TTGCGATTCATTCCAA-TTCG--
1 TTGCGA--CATGCGAAGTTCGCA
307357 TTGCGACATGCGAAGTTCGCA
1 TTGCGACATGCGAAGTTCGCA
* *
307378 TTGCGATTCATTCCAA-TTCG--
1 TTGCGA--CATGCGAAGTTCGCA
* *
307398 TTGCGACATGCGAAGTTTGCG
1 TTGCGACATGCGAAGTTCGCA
* *
307419 TTGCGATTCATTTC-AAATTCG--
1 TTGCGA--CA-TGCGAAGTTCGCA
* * *
307440 TTGCGACAGGCGAAATTTGCA
1 TTGCGACATGCGAAGTTCGCA
* *
307461 TTGCGATTCATTCCAA-TTCG--
1 TTGCGA--CATGCGAAGTTCGCA
*
307481 TTGCGACAGGCGAAGTTCGCA
1 TTGCGACATGCGAAGTTCGCA
307502 TTGCGA
1 TTGCGA
307508 TTCATTCCAA
Statistics
Matches: 127, Mismatches: 23, Indels: 42
0.66 0.12 0.22
Matches are distributed among these distances:
18 18 0.14
19 19 0.15
20 18 0.14
21 36 0.28
22 11 0.09
23 23 0.18
24 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.31
Consensus pattern (21 bp):
TTGCGACATGCGAAGTTCGCA
Found at i:307496 original size:124 final size:124
Alignment explanation
Indices: 307244--307611 Score: 594
Period size: 124 Copynumber: 3.0 Consensus size: 124
307234 ACGCGATAGT
* * *
307244 CGAAGTTCGCGTTGCGATTCATTCCAAATCGTTGCGATAGGCGAAGTTCGCGTTGCGATTCA-TT
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGGCGAAGTTCGCGTTGCGATTCATTT
* *
307308 CCAATTCGTTGCGACAGGCGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACATG
66 CAAATTCGTTGCGACAGGCGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
* *
307367 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACATGCGAAGTTTGCGTTGCGATTCATTT
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGGCGAAGTTCGCGTTGCGATTCATTT
* *
307432 CAAATTCGTTGCGACAGGCGAAATTTGCATTGCGATTCATTCCAATTCGTTGCGACAGG
66 CAAATTCGTTGCGACAGGCGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
* *
307491 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGGCAAAGTTCGCGTTGCGATTCATTC
1 CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGGCGAAGTTCGCGTTGCGATTCATTT
* * *
307556 CAAATTCGTTGCGATAGGCGAAGTTCGCGTTGCGATTCATTCTAAATTCGTTGCGA
66 CAAATTCGTTGCGACAGGCGAAGTTCGCATTGCGATTCATTC-CAATTCGTTGCGA
307612 TAGTCCAAAT
Statistics
Matches: 225, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
123 57 0.25
124 156 0.69
125 12 0.05
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.31
Consensus pattern (124 bp):
CGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGGCGAAGTTCGCGTTGCGATTCATTT
CAAATTCGTTGCGACAGGCGAAGTTCGCATTGCGATTCATTCCAATTCGTTGCGACAGG
Found at i:307544 original size:21 final size:21
Alignment explanation
Indices: 307520--307590 Score: 58
Period size: 21 Copynumber: 3.4 Consensus size: 21
307510 CATTCCAATT
307520 CGTTGCGACAGGCAAAGTTCG
1 CGTTGCGACAGGCAAAGTTCG
**
307541 CGTTGCGATTCATTCCAAA-TT--
1 CGTTGCGA--CA-GGCAAAGTTCG
* *
307562 CGTTGCGATAGGCGAAGTTCG
1 CGTTGCGACAGGCAAAGTTCG
307583 CGTTGCGA
1 CGTTGCGA
307591 TTCATTCTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
18 3 0.08
19 3 0.08
21 24 0.63
23 4 0.11
24 4 0.11
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.27
Consensus pattern (21 bp):
CGTTGCGACAGGCAAAGTTCG
Found at i:308505 original size:42 final size:42
Alignment explanation
Indices: 308458--308778 Score: 562
Period size: 41 Copynumber: 7.8 Consensus size: 42
308448 AATATTTGGA
308458 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
308500 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
308542 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
*
308584 CTATCCCAACGAA-TTGGAATGAATCGCAACGCGAACTTCGC
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
*
308625 CTATCGCAACGAA-TTGGAATGAATCGCAACGCGAACTTCGT
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
308666 CTATCGCAACG-ATTTGGAATGAATCGCAACGCGAACTTCGC
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
* *
308707 CTATCGCAACG-ATTTGGAATGAATCGCAACACGAACTTCGA
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
*
308748 CTATCGCAACG-ATTTGGAATGAATCACAACG
1 CTATCGCAACGAATTTGGAATGAATCGCAACG
308779 AATTTGGAAT
Statistics
Matches: 270, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
40 1 0.00
41 173 0.64
42 96 0.36
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (42 bp):
CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
Done.