Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold171
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: 2364178
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.28
Warning! 278680 characters in sequence are not A, C, G, or T
File 10 of 13
Found at i:1616817 original size:33 final size:33
Alignment explanation
Indices: 1616761--1616874 Score: 106
Period size: 33 Copynumber: 3.5 Consensus size: 33
1616751 TTATTCCTTT
* * *
1616761 CTTT-TTTTCTCCTTTCCTACTTGCCGTGAGTTG
1 CTTTATTTT-TCCTCTCCCACTTGCCGTGAGTTA
1616794 CTTTATTTTTCCTCTCCCACTTGCCGTGAGTTA
1 CTTTATTTTTCCTCTCCCACTTGCCGTGAGTTA
** * * * *
1616827 C-CCATTTTTTCTTTTCCTCTTGCCGTGAGTTA
1 CTTTATTTTTCCTCTCCCACTTGCCGTGAGTTA
*
1616859 CCTTTTTTTTTCCTCT
1 -CTTTATTTTTCCTCT
1616875 TTTTTTGTGC
Statistics
Matches: 64, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
32 25 0.39
33 27 0.42
34 12 0.19
ACGTcount: A:0.08, C:0.29, G:0.11, T:0.52
Consensus pattern (33 bp):
CTTTATTTTTCCTCTCCCACTTGCCGTGAGTTA
Found at i:1616849 original size:32 final size:32
Alignment explanation
Indices: 1616763--1616875 Score: 99
Period size: 32 Copynumber: 3.5 Consensus size: 32
1616753 ATTCCTTTCT
* **
1616763 TTTTTTCTCCTTTCCTACTTGCCGTGAGTTGCTTTA
1 TTTTTTCT--TTTCCT-CTTGCCGTGAGTTAC-CCA
* * * *
1616799 TTTTTCCTCTCCCACTTGCCGTGAGTTACCCA
1 TTTTTTCTTTTCCTCTTGCCGTGAGTTACCCA
1616831 TTTTTTCTTTTCCTCTTGCCGTGAGTTA-CC-
1 TTTTTTCTTTTCCTCTTGCCGTGAGTTACCCA
1616861 -TTTTT-TTTTCCTCTT
1 TTTTTTCTTTTCCTCTT
1616876 TTTTTGTGCT
Statistics
Matches: 66, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
28 10 0.15
29 5 0.08
31 2 0.03
32 25 0.38
33 14 0.21
34 3 0.05
36 7 0.11
ACGTcount: A:0.08, C:0.28, G:0.12, T:0.52
Consensus pattern (32 bp):
TTTTTTCTTTTCCTCTTGCCGTGAGTTACCCA
Found at i:1617381 original size:27 final size:27
Alignment explanation
Indices: 1617358--1617431 Score: 111
Period size: 26 Copynumber: 2.9 Consensus size: 27
1617348 TGATTTTTCT
1617358 TTTTTTT--TTTTACTTTTATTTTTTTA
1 TTTTTTTACTTTTA-TTTTATTTTTTTA
1617384 TTTTTTTACTTTTATTTTATTTTTTTA
1 TTTTTTTACTTTTATTTTATTTTTTTA
1617411 -TTTTTTACTTTTA-TTTATTTT
1 TTTTTTTACTTTTATTTTATTTT
1617432 ATATCGAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
25 8 0.17
26 20 0.43
27 13 0.28
28 5 0.11
ACGTcount: A:0.14, C:0.04, G:0.00, T:0.82
Consensus pattern (27 bp):
TTTTTTTACTTTTATTTTATTTTTTTA
Found at i:1617387 original size:22 final size:22
Alignment explanation
Indices: 1617357--1617433 Score: 93
Period size: 22 Copynumber: 3.3 Consensus size: 22
1617347 ATGATTTTTC
1617357 TTTTT-TTTTTTTACTTTTATT
1 TTTTTATTTTTTTACTTTTATT
1617378 TTTTTATTTTTTTACTTTTATTTT
1 TTTTTATTTTTTTACTTTTA--TT
*
1617402 ATTTTTTTATTTTTTACTTTTATT
1 -TTTTTAT-TTTTTTACTTTTATT
1617426 TATTTTAT
1 T-TTTTAT
1617434 ATCGAATAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
21 5 0.10
22 14 0.29
23 1 0.02
24 9 0.19
25 6 0.12
26 13 0.27
ACGTcount: A:0.14, C:0.04, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTTTATTTTTTTACTTTTATT
Found at i:1617417 original size:26 final size:26
Alignment explanation
Indices: 1617351--1617431 Score: 110
Period size: 27 Copynumber: 3.1 Consensus size: 26
1617341 TTCATGATGA
* **
1617351 TTTTTCTTTTTTTTTTTTACTTTTATT
1 TTTTTATTTTTTACTTTTA-TTTTATT
1617378 TTTTTATTTTTTTACTTTTATTTTATT
1 TTTTTA-TTTTTTACTTTTATTTTATT
1617405 TTTTTATTTTTTACTTTTA-TTTATT
1 TTTTTATTTTTTACTTTTATTTTATT
1617430 TT
1 TT
1617432 ATATCGAATA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
25 8 0.16
26 13 0.26
27 18 0.36
28 11 0.22
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.83
Consensus pattern (26 bp):
TTTTTATTTTTTACTTTTATTTTATT
Found at i:1617422 original size:6 final size:5
Alignment explanation
Indices: 1617352--1617433 Score: 55
Period size: 5 Copynumber: 16.2 Consensus size: 5
1617342 TCATGATGAT
* * *
1617352 TTTTC TTTT- TTTT- TTTTA CTTTTA TTTTT TTATTT TTTTA CTTTTA
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TT-TTA TTTTA -TTTTA
*
1617398 TTTTA TTTT- TTTATT TTTTA CTTTTA -TTTA TTTTA T
1 TTTTA TTTTA TTT-TA TTTTA -TTTTA TTTTA TTTTA T
1617434 ATCGAATAAA
Statistics
Matches: 66, Mismatches: 3, Indels: 16
0.78 0.04 0.19
Matches are distributed among these distances:
4 15 0.23
5 28 0.42
6 23 0.35
ACGTcount: A:0.13, C:0.05, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:1617932 original size:42 final size:41
Alignment explanation
Indices: 1617880--1618073 Score: 151
Period size: 43 Copynumber: 4.6 Consensus size: 41
1617870 ATATTCTCCC
* * *
1617880 GGGTTAAAGCCGACAGGCAAACTTTAGATGAGACAGTCTTTA
1 GGGTCAAAGCCGACAGGCAGACTTTAGAT-AGAAAGTCTTTA
* * *
1617922 GGGTCAAAGCCGATAGGCAGACTAATGGATAGAAAAGT-TTCTA
1 GGGTCAAAGCCGACAGGCAGACT-TTAGATAG-AAAGTCTT-TA
* * *
1617965 GGGTCAAAGCCGGCAGGCAGAC-TAAGGGATAGGAAAGTCTCTA
1 GGGTCAAAGCCGACAGGCAGACTTTA--GATA-GAAAGTCTTTA
* ** *
1618008 GGGTCAAAGCCGACAAGCAGACTAAAGGATAGGAAAGT-TTCCA
1 GGGTCAAAGCCGACAGGCAGACTTTA-GATA-GAAAGTCTT-TA
*
1618051 GGGTCAAAGTCGACAGGCAGACT
1 GGGTCAAAGCCGACAGGCAGACT
1618074 AAGGGAAGGA
Statistics
Matches: 124, Mismatches: 19, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
42 25 0.20
43 95 0.77
44 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.18
Consensus pattern (41 bp):
GGGTCAAAGCCGACAGGCAGACTTTAGATAGAAAGTCTTTA
Found at i:1617975 original size:43 final size:43
Alignment explanation
Indices: 1617914--1618644 Score: 773
Period size: 43 Copynumber: 17.2 Consensus size: 43
1617904 TAGATGAGAC
* * * * *
1617914 AGTCTTTAGGGTCAAAGCCGATAGGCAGACTAATGGATAGAAA
1 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * *
1617957 AGTTTCTAGGGTCAAAGCCGGCAGGCAGACTAAGGGATAGGAA
1 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * *
1618000 AGTCTCTAGGGTCAAAGCCGACAAGCAGACTAAAGGATAGGAA
1 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * *
1618043 AGTTTCCAGGGTCAAAGTCGACAGGCAGACTAAGGGA-AGGAA
1 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * *
1618085 AGTCTCGAAGATCAAAGCCGACAAGCAG-CTAAGGGA-AGAAA
1 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* *
1618126 AGTCTCTAGGGTCAAAGCCGACAGGCA-AGCTAAGGGATAAGAA
1 AGTCTCTAAGGTCAAAGCCGACAGGCAGA-CTAAGGGATAGGAA
* *
1618169 AGTCTCCAAGGTCAAAGCCGACATGCAGACTAAGGGA-AGGAA
1 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * *
1618211 AGTCTCTAAGGTCAAAGCTGACAAGCAGACTAATGGATAGGAA
1 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * * *
1618254 AATCTCCAACGTTAAAGCCGACAAGCAGACTAAGGG-TAAGGAA
1 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGAT-AGGAA
* * * * *
1618297 AGTCTCTAGGGTCAAAGCCAATAGGTAGACTAAGGGTTAGGAA
1 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * * *
1618340 AGTCTC-AAGGGTCAAAGTCGATAGGCAGATTAAGGTATAGGAA
1 AGTCTCTAA-GGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * ** * * *
1618383 AGTCTCTAAGGTCAAAGCTGAGAGATAGGCTAAGAGA-ATGAA
1 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
*
1618425 AGTCACTAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
1 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * *
1618468 AGTCTCCAAGGTCAAAGCTGACAGGCAGACTAAGGGA-AAGAA
1 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * *
1618510 AGTGTCCAAGGTCAAAGCCGATAGGCAGACTAAGGGATAGGAA
1 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * **
1618553 AGTCTCCAAGGTCAAAGCTGACACACAGACTAAGGGATAGGAA
1 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
* * ** * *
1618596 AGTTTCT-GGGTCAAAATCGACAGGTAGACTAAGGGA-AAGAA
1 AGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
*
1618637 AATCTCTA
1 AGTCTCTA
1618645 GATGTTTAAT
Statistics
Matches: 575, Mismatches: 101, Indels: 25
0.82 0.14 0.04
Matches are distributed among these distances:
41 44 0.08
42 168 0.29
43 359 0.62
44 4 0.01
ACGTcount: A:0.38, C:0.17, G:0.29, T:0.16
Consensus pattern (43 bp):
AGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAA
Found at i:1618225 original size:85 final size:86
Alignment explanation
Indices: 1617923--1618644 Score: 773
Period size: 85 Copynumber: 8.5 Consensus size: 86
1617913 CAGTCTTTAG
* * * * * *
1617923 GGTCAAAGCCGATAGGCAGACTAATGGATAGAAAAGTTTCTAGGGTCAAAGCCGGCAGGCAGACT
1 GGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCTAAGGTCAAAGCCGACAGGCAGACT
* *
1617988 AAGGGATAGGAAAGTCTCTAG
66 AAGGGATAGGAAAGTCTCCAA
* * * * * *
1618009 GGTCAAAGCCGACAAGCAGACTAAAGGATAGGAAAGTTTCCAGGGTCAAAGTCGACAGGCAGACT
1 GGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCTAAGGTCAAAGCCGACAGGCAGACT
*
1618074 AAGGGA-AGGAAAGTCTCGAA
66 AAGGGATAGGAAAGTCTCCAA
* * * *
1618094 GATCAAAGCCGACAAGCAG-CTAAGGGA-AGAAAAGTCTCTAGGGTCAAAGCCGACAGGCA-AGC
1 GGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCTAAGGTCAAAGCCGACAGGCAGA-C
*
1618156 TAAGGGATAAGAAAGTCTCCAA
65 TAAGGGATAGGAAAGTCTCCAA
* * *
1618178 GGTCAAAGCCGACATGCAGACTAAGGGA-AGGAAAGTCTCTAAGGTCAAAGCTGACAAGCAGACT
1 GGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCTAAGGTCAAAGCCGACAGGCAGACT
* *
1618242 AATGGATAGGAAAATCTCCAA
66 AAGGGATAGGAAAGTCTCCAA
* * * * * * *
1618263 CGTTAAAGCCGACAAGCAGACTAAGGG-TAAGGAAAGTCTCTAGGGTCAAAGCCAATAGGTAGAC
1 GGTCAAAGCCGACAGGCAGACTAAGGGAT-AGGAAAGTCTCTAAGGTCAAAGCCGACAGGCAGAC
*
1618327 TAAGGGTTAGGAAAGTCT-CAA
65 TAAGGGATAGGAAAGTCTCCAA
* * * * * * ** *
1618348 GGGTCAAAGTCGATAGGCAGATTAAGGTATAGGAAAGTCTCTAAGGTCAAAGCTGAGAGATAGGC
1 -GGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCTAAGGTCAAAGCCGACAGGCAGAC
* * * *
1618413 TAAGAGA-ATGAAAGTCACTAA
65 TAAGGGATAGGAAAGTCTCCAA
* *
1618434 GGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACT
1 GGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCTAAGGTCAAAGCCGACAGGCAGACT
* *
1618499 AAGGGA-AAGAAAGTGTCCAA
66 AAGGGATAGGAAAGTCTCCAA
* * * **
1618519 GGTCAAAGCCGATAGGCAGACTAAGGGATAGGAAAGTCTCCAAGGTCAAAGCTGACACACAGACT
1 GGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCTAAGGTCAAAGCCGACAGGCAGACT
* **
1618584 AAGGGATAGGAAAGT-TTCTG
66 AAGGGATAGGAAAGTCTCCAA
** * * *
1618604 GGTCAAAATCGACAGGTAGACTAAGGGA-AAGAAAATCTCTA
1 GGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCTA
1618645 GATGTTTAAT
Statistics
Matches: 542, Mismatches: 84, Indels: 22
0.84 0.13 0.03
Matches are distributed among these distances:
82 1 0.00
83 36 0.07
84 46 0.08
85 286 0.53
86 172 0.32
87 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.29, T:0.16
Consensus pattern (86 bp):
GGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCTAAGGTCAAAGCCGACAGGCAGACT
AAGGGATAGGAAAGTCTCCAA
Found at i:1618582 original size:128 final size:129
Alignment explanation
Indices: 1617923--1618644 Score: 734
Period size: 128 Copynumber: 5.7 Consensus size: 129
1617913 CAGTCTTTAG
* * * * * * * *
1617923 GGTCAAAGCCGATAGGCAGACTAATGGATAGAAAAGTTTCTAGGGTCAAAGCCGGCAGGCAGACT
1 GGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACT
* * * * * *
1617988 AAGGGATAGGAAAGTCTCTAGGGTCAAAGCCGACAAGCAGACTAAAGGATAGGAAAGTTTCCAG
66 AAGGGATAAGAAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCCAA
* * * * *
1618052 GGTCAAAGTCGACAGGCAGACTAAGGGA-AGGAAAGTCTCGAAGATCAAAGCCGACAAGCAG-CT
1 GGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACT
* *
1618115 AAGGG--AAGAAAAGTCTCTAGGGTCAAAGCCGACAGGCA-AGCTAAGGGATAAGAAAGTCTCCA
66 AAGGGATAAG-AAAGTCTCTAAGGTCAAAGCCGACAGGCAGA-CTAAGGGATAGGAAAGTCTCCA
1618177 A
129 A
* * *
1618178 GGTCAAAGCCGACATGCAGACTAAGGGA-AGGAAAGTCTCTAAGGTCAAAGCTGACAAGCAGACT
1 GGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACT
* * * * * * * * *
1618242 AATGGATAGGAAAATCTCCAACGTTAAAGCCGACAAGCAGACTAAGGG-TAAGGAAAGTCTCTAG
66 AAGGGATAAGAAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGAT-AGGAAAGTCTCCAA
* * * * *
1618306 GGTCAAAGCCAATAGGTAGACTAAGGGTTAGGAAAGTCT-CAAGGGTCAAAG-TCGATAGGCAGA
1 GGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCCAA-GGTCAAAGCT-GACAGGCAGA
* * * * * ** * * * * *
1618369 TTAAGGTATAGGAAAGTCTCTAAGGTCAAAGCTGAGAGATAGGCTAAGAGA-ATGAAAGTCACTA
64 CTAAGGGATAAGAAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCCA
1618433 A
129 A
1618434 GGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACT
1 GGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACT
* * *
1618499 AAGGGA-AAGAAAGTGTCCAAGGTCAAAGCCGATAGGCAGACTAAGGGATAGGAAAGTCTCCAA
66 AAGGGATAAGAAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCCAA
* ** * ** * *
1618562 GGTCAAAGCTGACACACAGACTAAGGGATAGGAAAGT-TTCTGGGTCAAA-ATCGACAGGTAGAC
1 GGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCCAAGGTCAAAGCT-GACAGGCAGAC
*
1618625 TAAGGGA-AAGAAAATCTCTA
65 TAAGGGATAAGAAAGTCTCTA
1618645 GATGTTTAAT
Statistics
Matches: 491, Mismatches: 87, Indels: 32
0.80 0.14 0.05
Matches are distributed among these distances:
125 3 0.01
126 104 0.21
127 83 0.17
128 207 0.42
129 94 0.19
ACGTcount: A:0.39, C:0.17, G:0.29, T:0.16
Consensus pattern (129 bp):
GGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACT
AAGGGATAAGAAAGTCTCTAAGGTCAAAGCCGACAGGCAGACTAAGGGATAGGAAAGTCTCCAA
Found at i:1623084 original size:13 final size:13
Alignment explanation
Indices: 1623065--1623095 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1623055 ACAATTCATC
1623065 ATGTATCGATACA
1 ATGTATCGATACA
*
1623078 TTGTATCGATACA
1 ATGTATCGATACA
1623091 ATGTA
1 ATGTA
1623096 CCACGTATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1623092 original size:33 final size:33
Alignment explanation
Indices: 1623048--1623110 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
1623038 TTATAGCCGT
* *
1623048 TATCGAAACAAT-TCATCATGTATCGATACATTG
1 TATCGAAACAATGT-ACCACGTATCGATACATTG
*
1623081 TATCGATACAATGTACCACGTATCGATACA
1 TATCGAAACAATGTACCACGTATCGATACA
1623111 AATAGTGGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 25 0.96
34 1 0.04
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.30
Consensus pattern (33 bp):
TATCGAAACAATGTACCACGTATCGATACATTG
Found at i:1623161 original size:43 final size:43
Alignment explanation
Indices: 1623100--1623197 Score: 169
Period size: 43 Copynumber: 2.3 Consensus size: 43
1623090 AATGTACCAC
*
1623100 GTATCGATACAAATAGTGGTAGGGTAGCTACTGCCAGTTTCAT
1 GTATCAATACAAATAGTGGTAGGGTAGCTACTGCCAGTTTCAT
*
1623143 GTATCAATATAAATAGTGGTAGGGTAGCTACTGCCAGTTTCAT
1 GTATCAATACAAATAGTGGTAGGGTAGCTACTGCCAGTTTCAT
*
1623186 GTATCGATACAA
1 GTATCAATACAA
1623198 TTGTCCATGT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (43 bp):
GTATCAATACAAATAGTGGTAGGGTAGCTACTGCCAGTTTCAT
Found at i:1623208 original size:20 final size:19
Alignment explanation
Indices: 1623183--1623255 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
1623173 CTGCCAGTTT
**
1623183 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
*
1623203 CATGTATTGATACAATGAA
1 CATGTATCGATACAATGAA
*
1623222 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
1623243 -ATGTATCGATACA
1 CATGTATCGATACA
1623256 TCTGGGTGTA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 17 0.37
20 28 0.61
21 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1623227 original size:19 final size:20
Alignment explanation
Indices: 1623183--1623236 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
1623173 CTGCCAGTTT
**
1623183 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
*
1623203 CATGTATTGATACAA-TGAA
1 CATGTATCGATACAATTGAA
1623222 CATGTATCGATACAA
1 CATGTATCGATACAA
1623237 AGCATAATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:1623910 original size:24 final size:24
Alignment explanation
Indices: 1623849--1623899 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
1623839 ATAATCAGTT
*
1623849 AAAGAGATTTTCTCCCCCTAGATA
1 AAAGAGATTTTTTCCCCCTAGATA
*
1623873 AAAGAGATTTTTTCCCTCTAGATA
1 AAAGAGATTTTTTCCCCCTAGATA
1623897 AAA
1 AAA
1623900 AATTTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (24 bp):
AAAGAGATTTTTTCCCCCTAGATA
Found at i:1630915 original size:79 final size:80
Alignment explanation
Indices: 1630767--1630920 Score: 190
Period size: 79 Copynumber: 1.9 Consensus size: 80
1630757 ATATTTCCCA
* *
1630767 ATGAGAAATTTAATATTTTGGAGATAATAACGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTA
1 ATGAGAAATTCAATATTTTGGAGATAATAACGGGGTTGGAGTATCCCCTTGAAAATAACAGGGTA
1630832 GGAGTATCCCCAATT
66 GGAGTATCCCCAATT
* * **
1630847 ATGAGAAA-TCAATATTTT-GAGAATAA-AGCCGGGGTTGGAGTAT-CCCTTCGGAGGTAACAGG
1 ATGAGAAATTCAATATTTTGGAG-ATAATA-ACGGGGTTGGAGTATCCCCTT-GAAAATAACAGG
*
1630908 GTTGGAGTATCCC
63 GTAGGAGTATCCC
1630921 TGATGAAATA
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
78 9 0.14
79 47 0.73
80 8 0.12
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (80 bp):
ATGAGAAATTCAATATTTTGGAGATAATAACGGGGTTGGAGTATCCCCTTGAAAATAACAGGGTA
GGAGTATCCCCAATT
Found at i:1630932 original size:28 final size:27
Alignment explanation
Indices: 1630878--1630947 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 27
1630868 AATAAAGCCG
** **
1630878 GGGTTGGAGTATCCCTTCGGAGGTAAC
1 GGGTTGGAGTATCCCTGAGGAAATAAC
*
1630905 AGGGTTGGAGTATCCCTGATGAAATAAC
1 -GGGTTGGAGTATCCCTGAGGAAATAAC
1630933 GAGGTTGGAGTATCC
1 G-GGTTGGAGTATCC
1630948 TCGATTGTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
27 1 0.03
28 35 0.97
ACGTcount: A:0.24, C:0.16, G:0.34, T:0.26
Consensus pattern (27 bp):
GGGTTGGAGTATCCCTGAGGAAATAAC
Found at i:1631084 original size:51 final size:50
Alignment explanation
Indices: 1630935--1631158 Score: 225
Period size: 51 Copynumber: 4.4 Consensus size: 50
1630925 GAAATAACGA
* * * * *
1630935 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGGAAAATTAGTG-TTTT-GAAATAAAACCGG
* * * *
1630987 AGTTGGAGTATCCCCAATTAAAGGAAAATTGGTGTTTTGAAGATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGGAAAATTAGTGTTTTGAA-ATAAAACCGG
* * *
1631039 GGTTGGAGTATCCTCGATTGTGGAAAATTAGTGTTTTAGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTT-GAAATAAAACCGG
* * * * *
1631090 GGTTGGAGTATCACCGATTAT-GAGAAATCAATATTTTGTAAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTATGGA-AAATTAGTGTTTTG-AAATAAAACCGG
1631141 GGTTGGAGTATCCCCGAT
1 GGTTGGAGTATCCCCGAT
1631159 GAAATAACGA
Statistics
Matches: 144, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
50 3 0.02
51 82 0.57
52 48 0.33
53 11 0.08
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.31
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTGAAATAAAACCGG
Found at i:1633623 original size:13 final size:13
Alignment explanation
Indices: 1633605--1633630 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1633595 ACAAAGATTG
1633605 ATGTATCGATACA
1 ATGTATCGATACA
1633618 ATGTATCGATACA
1 ATGTATCGATACA
1633631 TTTCCTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1636344 original size:19 final size:20
Alignment explanation
Indices: 1636300--1636353 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
1636290 CTACCAGTTT
**
1636300 CATGTATCGATACAACTATC
1 CATGTATCGATACAACTAAA
1636320 CATGTATCGATACAA-TAAA
1 CATGTATCGATACAACTAAA
1636339 CATGTATCGATACAA
1 CATGTATCGATACAA
1636354 AGCATAATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (20 bp):
CATGTATCGATACAACTAAA
Found at i:1645053 original size:18 final size:19
Alignment explanation
Indices: 1645030--1645066 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
1645020 AAAAAATTAG
1645030 CTTGGTGTT-TGTTGCTTT
1 CTTGGTGTTATGTTGCTTT
1645048 CTTGGTGTTGATGTTGCTT
1 CTTGGTGTT-ATGTTGCTT
1645067 ATTGAAGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.03, C:0.11, G:0.30, T:0.57
Consensus pattern (19 bp):
CTTGGTGTTATGTTGCTTT
Found at i:1646078 original size:8 final size:8
Alignment explanation
Indices: 1646065--1646127 Score: 56
Period size: 8 Copynumber: 7.5 Consensus size: 8
1646055 ATGATGATTT
1646065 TTTTTTAC
1 TTTTTTAC
*
1646073 TTTTTTTTAT
1 --TTTTTTAC
1646083 TTTTTTAC
1 TTTTTTAC
*
1646091 TTTTATT-T
1 TTTT-TTAC
1646099 TTATTTTAC
1 TT-TTTTAC
*
1646108 TTTTTTAT
1 TTTTTTAC
1646116 TTTTTTAC
1 TTTTTTAC
1646124 TTTT
1 TTTT
1646128 ATTTTATTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
8 31 0.70
9 6 0.14
10 7 0.16
ACGTcount: A:0.13, C:0.06, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTTAC
Found at i:1646085 original size:5 final size:5
Alignment explanation
Indices: 1646061--1646139 Score: 58
Period size: 6 Copynumber: 15.4 Consensus size: 5
1646051 TTTCATGATG
*
1646061 ATTTT TTTTT ACTTTT -TTTT A-TTT -TTTT ACTTTT ATTTTT ATTTT
1 ATTTT ATTTT A-TTTT ATTTT ATTTT ATTTT A-TTTT A-TTTT ATTTT
*
1646106 ACTTTT -TTATT TTTTT ACTTTT ATTTT ATTTT AT
1 A-TTTT ATT-TT ATTTT A-TTTT ATTTT ATTTT AT
1646140 ATCGAATAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
4 12 0.20
5 24 0.39
6 25 0.41
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:1646094 original size:14 final size:14
Alignment explanation
Indices: 1646077--1646132 Score: 67
Period size: 14 Copynumber: 3.6 Consensus size: 14
1646067 TTTTACTTTT
1646077 TTTTATTTTTTTAC
1 TTTTATTTTTTTAC
1646091 TTTTATTTTTATTTTAC
1 TTTTA--TTT-TTTTAC
1646108 TTTTTTATTTTTTTAC
1 --TTTTATTTTTTTAC
1646124 TTTTATTTT
1 TTTTATTTT
1646133 ATTTTATATC
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
14 14 0.38
16 9 0.24
17 9 0.24
19 5 0.14
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTATTTTTTTAC
Found at i:1646112 original size:33 final size:34
Alignment explanation
Indices: 1646061--1646138 Score: 126
Period size: 33 Copynumber: 2.4 Consensus size: 34
1646051 TTTCATGATG
1646061 ATTTTT-TTTTACTTTTTTTTATTTTTTTACTTTT
1 ATTTTTATTTTAC-TTTTTTTATTTTTTTACTTTT
1646095 ATTTTTATTTTAC-TTTTTTATTTTTTTACTTTT
1 ATTTTTATTTTACTTTTTTTATTTTTTTACTTTT
1646128 A-TTTTATTTTA
1 ATTTTTATTTTA
1646139 TATCGAATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
32 10 0.23
33 21 0.49
34 6 0.14
35 6 0.14
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (34 bp):
ATTTTTATTTTACTTTTTTTATTTTTTTACTTTT
Found at i:1647509 original size:13 final size:13
Alignment explanation
Indices: 1647485--1647539 Score: 51
Period size: 13 Copynumber: 4.1 Consensus size: 13
1647475 AGTATTTTTT
*
1647485 TAAAAAAAT-AAA
1 TAAAATAATAAAA
1647497 TAATAATAATAAAA
1 TAA-AATAATAAAA
1647511 TAAAA-AATAATAA
1 TAAAATAATAA-AA
1647524 TAAAATGAAATAAAA
1 TAAAAT--AATAAAA
1647539 T
1 T
1647540 GTGGTAATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
12 8 0.22
13 14 0.39
14 6 0.17
15 3 0.08
16 5 0.14
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (13 bp):
TAAAATAATAAAA
Found at i:1647512 original size:18 final size:18
Alignment explanation
Indices: 1647489--1647536 Score: 78
Period size: 18 Copynumber: 2.6 Consensus size: 18
1647479 TTTTTTTAAA
1647489 AAAATAAATAATAATAAT
1 AAAATAAATAATAATAAT
*
1647507 AAAATAAAAAATAATAAT
1 AAAATAAATAATAATAAT
1647525 AAAATGAAATAA
1 AAAAT-AAATAA
1647537 AATGTGGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 22 0.81
19 5 0.19
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (18 bp):
AAAATAAATAATAATAAT
Found at i:1647518 original size:21 final size:21
Alignment explanation
Indices: 1647485--1647526 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
1647475 AGTATTTTTT
1647485 TAAAAAAATAAATAATAATAA
1 TAAAAAAATAAATAATAATAA
1647506 TAAAATAAA-AAATAATAATAA
1 TAAAA-AAATAAATAATAATAA
1647527 AATGAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAAAAAATAAATAATAATAA
Found at i:1647710 original size:14 final size:16
Alignment explanation
Indices: 1647691--1647729 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
1647681 TGAATTTCAA
1647691 AAAAATAAAAA-A-AT
1 AAAAATAAAAATAGAT
1647705 AAAAATAAAAATAGAT
1 AAAAATAAAAATAGAT
*
1647721 AATAATAAA
1 AAAAATAAA
1647730 GATTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 1 0.05
16 10 0.45
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (16 bp):
AAAAATAAAAATAGAT
Found at i:1649197 original size:22 final size:22
Alignment explanation
Indices: 1649172--1649224 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
1649162 AGTCATCAAG
1649172 ATAACAATACTTCATTATTTAC
1 ATAACAATACTTCATTATTTAC
1649194 ATAACAATACTTCATTATTTAC
1 ATAACAATACTTCATTATTTAC
1649216 ATAATCAAT
1 ATAA-CAAT
1649225 CGATATTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 26 0.87
23 4 0.13
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (22 bp):
ATAACAATACTTCATTATTTAC
Found at i:1650034 original size:9 final size:9
Alignment explanation
Indices: 1650020--1650053 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
1650010 AATAAATCAA
1650020 ACTTTGAAT
1 ACTTTGAAT
1650029 ACTTTGAAT
1 ACTTTGAAT
1650038 ACTTTGAAT
1 ACTTTGAAT
1650047 ACTTTGA
1 ACTTTGA
1650054 TCTCTTGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (9 bp):
ACTTTGAAT
Found at i:1650323 original size:20 final size:20
Alignment explanation
Indices: 1650280--1650330 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
1650270 AAAAGCAATG
* *
1650280 TATCGATACAATTCATCATG
1 TATCGATACAATTCACCATA
1650300 TATCGATACAATGT-ACCATA
1 TATCGATACAAT-TCACCATA
*
1650320 TATCGAAACAA
1 TATCGATACAA
1650331 ACAGTGGTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 26 0.96
21 1 0.04
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (20 bp):
TATCGATACAATTCACCATA
Found at i:1650403 original size:19 final size:19
Alignment explanation
Indices: 1650359--1650414 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
1650349 CTGCCAGTTT
**
1650359 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
*
1650379 CATGTATCAATACAATGAA
1 CATGTATCGATACAATGAA
1650398 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1650415 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1650417 original size:13 final size:13
Alignment explanation
Indices: 1650399--1650425 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1650389 TACAATGAAC
1650399 ATGTATCGATACA
1 ATGTATCGATACA
1650412 ATGTATCGATACA
1 ATGTATCGATACA
1650425 A
1 A
1650426 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1651047 original size:30 final size:31
Alignment explanation
Indices: 1651004--1651061 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
1650994 TAAAGCTTAT
*
1651004 GTTAAAAAAATTT-CTCCCACTTGATAATCG
1 GTTAAAAAAATTTCCTCCCACTAGATAATCG
* * *
1651034 GTTAAAGAGATTTCCTCCCCCTAGATAA
1 GTTAAAAAAATTTCCTCCCACTAGATAA
1651062 ATAAAAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 11 0.48
31 12 0.52
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.31
Consensus pattern (31 bp):
GTTAAAAAAATTTCCTCCCACTAGATAATCG
Found at i:1652974 original size:13 final size:13
Alignment explanation
Indices: 1652956--1652982 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1652946 ACAGTAACCC
1652956 ATGTATCGATACA
1 ATGTATCGATACA
1652969 ATGTATCGATACA
1 ATGTATCGATACA
1652982 A
1 A
1652983 AGATTATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1653056 original size:20 final size:20
Alignment explanation
Indices: 1653016--1653057 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
1653006 GGTTTTCCAG
*
1653016 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTCAAAA
1653036 ATGTATCGATACATTCTAAAA
1 ATGTATCGATACATTC-AAAA
1653057 A
1 A
1653058 AGTTTCAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACATTCAAAA
Found at i:1657539 original size:9 final size:9
Alignment explanation
Indices: 1657525--1657558 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
1657515 TTCGAGTCAC
1657525 CATCATTAT
1 CATCATTAT
1657534 CATCATTAT
1 CATCATTAT
*
1657543 CATCTTTAT
1 CATCATTAT
1657552 CATCATT
1 CATCATT
1657559 GATGGTTGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (9 bp):
CATCATTAT
Found at i:1658852 original size:257 final size:256
Alignment explanation
Indices: 1658386--1658893 Score: 693
Period size: 257 Copynumber: 2.0 Consensus size: 256
1658376 TGATACCAAT
*
1658386 TGAAAGCTCAAGAAATAATGAACCAAGAGGGGAGGTGAATTGGTTCTTTTTGAATTTTGAGAATT
1 TGAAAGCTCAAGAAATAATGAACCAAGAGGGGAGGTGAATTGGTTCTTTTCGAATTTTGAGAATT
** ** * *
1658451 TTGAAAGGTTTAGTGCAAAATAATTCGAAAGATAAAAAAGATTAGGGAATAAAAGATCGACACAA
66 TTGAAAAATTTAGAACAAAACAATTCGAAAGATAAAAAAGATTAGGGAAGAAAAGATCGACACAA
* * * * *
1658516 GAGTTTATAGAGGTTTGGTCCAAACCGGTACCTACGTCATCTCTCCTCGACACTTCCTTGTCGAG
131 AAATTTATAGAGGTTCGGTCCAAAACGGCACCTACGTCATCTCTCCTCGACACTTCCTTGTCGAG
* * * * *
1658581 TGGTTATCCAATTCATTACTAGAATTGATTACCTTTAAGGCAAAGGTATAACCTTAGAAAC
196 TGATTACCCAATTCACTAATAGAATTGACTACCTTTAAGGCAAAGGTATAACCTTAGAAAC
* * * *
1658642 TGAAAGCTTATGAAGTAATGAACCAAGAGGGG-GGTGAATTGGTTCTTTTCGAATTTTCG-G-GT
1 TGAAAGCTCAAGAAATAATGAACCAAGAGGGGAGGTGAATTGGTTCTTTTCGAATTTT-GAGAAT
* * * *
1658704 TTTGAACAAATTTAGAACAAAACAATTCTAAATGA-AAAAGAGATTAGGGAAGGAAAA-CTTGAC
65 TTTGAA-AAATTTAGAACAAAACAATTCGAAA-GATAAAAAAGATTAGGGAA-GAAAAGATCGAC
*
1658767 ACAAAATATTTATAGAGGTTCGGTCCAAAAACGGCACCTACGTCCTCTCTCCTCGACACTTCCTT
127 ACAAAA-ATTTATAGAGGTTCGGTCC-AAAACGGCACCTACGTCATCTCTCCTCGACACTTCCTT
1658832 GTCGAGTGATTACCCAATTCACTAATAGAATTGACTACCTTTAAGGCAAAGGTATAACCTTA
190 GTCGAGTGATTACCCAATTCACTAATAGAATTGACTACCTTTAAGGCAAAGGTATAACCTTA
1658894 CAACTCGTAT
Statistics
Matches: 220, Mismatches: 26, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
254 7 0.03
255 68 0.31
256 53 0.24
257 92 0.42
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.28
Consensus pattern (256 bp):
TGAAAGCTCAAGAAATAATGAACCAAGAGGGGAGGTGAATTGGTTCTTTTCGAATTTTGAGAATT
TTGAAAAATTTAGAACAAAACAATTCGAAAGATAAAAAAGATTAGGGAAGAAAAGATCGACACAA
AAATTTATAGAGGTTCGGTCCAAAACGGCACCTACGTCATCTCTCCTCGACACTTCCTTGTCGAG
TGATTACCCAATTCACTAATAGAATTGACTACCTTTAAGGCAAAGGTATAACCTTAGAAAC
Found at i:1659413 original size:13 final size:13
Alignment explanation
Indices: 1659395--1659419 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1659385 CATTTTATGG
1659395 TGTATCGATACAA
1 TGTATCGATACAA
1659408 TGTATCGATACA
1 TGTATCGATACA
1659420 TACTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1659518 original size:20 final size:21
Alignment explanation
Indices: 1659471--1659521 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
1659461 TCCAATGACT
**
1659471 TGTATCGATACATGTTTTTCA
1 TGTATCGATACATGTTAGTCA
*
1659492 AGTATCGATACAT-TTAGTCA
1 TGTATCGATACATGTTAGTCA
1659512 TGTATCGATA
1 TGTATCGATA
1659522 TAATGTATCG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (21 bp):
TGTATCGATACATGTTAGTCA
Found at i:1661550 original size:20 final size:20
Alignment explanation
Indices: 1661509--1661562 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 20
1661499 GCTGCTAGTG
*
1661509 TGGGGGCTGCTCGGTTGTGACC
1 TGGGGG-TGCT-GGTTGCGACC
1661531 TGGGGGTGCTGGTTGCGACC
1 TGGGGGTGCTGGTTGCGACC
1661551 TGGTGGGTGCTG
1 TGG-GGGTGCTG
1661563 CCTAGGAGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 12 0.40
21 12 0.40
22 6 0.20
ACGTcount: A:0.04, C:0.19, G:0.50, T:0.28
Consensus pattern (20 bp):
TGGGGGTGCTGGTTGCGACC
Found at i:1662014 original size:13 final size:13
Alignment explanation
Indices: 1661996--1662034 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1661986 ATAATCCCCT
1661996 TGTATCGATACAG
1 TGTATCGATACAG
*
1662009 TGTATCGATACAA
1 TGTATCGATACAG
1662022 TGTATCGATACAG
1 TGTATCGATACAG
1662035 AGAATGCTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1662249 original size:8 final size:8
Alignment explanation
Indices: 1662236--1662261 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
1662226 AACATCATTC
1662236 ATCACAAA
1 ATCACAAA
1662244 ATCACAAA
1 ATCACAAA
1662252 ATCACAAA
1 ATCACAAA
1662260 AT
1 AT
1662262 TTAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (8 bp):
ATCACAAA
Found at i:1666590 original size:3 final size:3
Alignment explanation
Indices: 1666582--1666615 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
1666572 TCTAAGTCAC
* *
1666582 CAT CAT CAT CAT CAT CTT CAT CAT CTT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1666616 CTTGATGGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.26, C:0.35, G:0.00, T:0.38
Consensus pattern (3 bp):
CAT
Found at i:1666596 original size:9 final size:9
Alignment explanation
Indices: 1666582--1666615 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
1666572 TCTAAGTCAC
*
1666582 CATCATCAT
1 CATCATCTT
1666591 CATCATCTT
1 CATCATCTT
1666600 CATCATCTT
1 CATCATCTT
1666609 CATCATC
1 CATCATC
1666616 CTTGATGGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.26, C:0.35, G:0.00, T:0.38
Consensus pattern (9 bp):
CATCATCTT
Found at i:1668227 original size:13 final size:13
Alignment explanation
Indices: 1668209--1668233 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1668199 CATTTTATGG
1668209 TGTATCGATACAA
1 TGTATCGATACAA
1668222 TGTATCGATACA
1 TGTATCGATACA
1668234 TACTATGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1668249 original size:32 final size:33
Alignment explanation
Indices: 1668187--1668253 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
1668177 GTTACAAGCT
**
1668187 AATGTATCGATACATTTTATGGTGTATCGATAC
1 AATGTATCGATACATACTATGGTGTATCGATAC
1668220 AATGTATCGATACATACTAT-GTGTATCGATAC
1 AATGTATCGATACATACTATGGTGTATCGATAC
1668252 AA
1 AA
1668254 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.36
Consensus pattern (33 bp):
AATGTATCGATACATACTATGGTGTATCGATAC
Found at i:1668332 original size:20 final size:21
Alignment explanation
Indices: 1668285--1668337 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
1668275 TCCAATGACT
**
1668285 TGTATCGATACATGTTTTTCA
1 TGTATCGATACATGTTAGTCA
*
1668306 AGTATCGATACAT-TTAGTCA
1 TGTATCGATACATGTTAGTCA
1668326 TGTATCGATACA
1 TGTATCGATACA
1668338 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATGTTAGTCA
Found at i:1668343 original size:13 final size:13
Alignment explanation
Indices: 1668325--1668349 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1668315 ACATTTAGTC
1668325 ATGTATCGATACA
1 ATGTATCGATACA
1668338 ATGTATCGATAC
1 ATGTATCGATAC
1668350 TGTGCAACAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1669145 original size:20 final size:20
Alignment explanation
Indices: 1669120--1669173 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
1669110 CGTTAAAGCA
*
1669120 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
1669140 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
1669160 ATGTATCGATACAA
1 ATGTATCGATACAA
1669174 ATAGTGGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:1678777 original size:20 final size:20
Alignment explanation
Indices: 1678752--1678876 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
1678742 TTTTAACTAG
1678752 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
1678772 ATGTATCGATACATCTGGGTAAAAAGATAGA
1 ATGTATCGATACAT-T--G-----A-A-A-A
* * *
1678803 ATGTATCGTTCCATTGAAGA
1 ATGTATCGATACATTGAAAA
* * *
1678823 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTGAAAA
*
1678843 ATATATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
1678863 ATGTATCGATACAT
1 ATGTATCGATACAT
1678877 CTAGGTACTT
Statistics
Matches: 80, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
20 58 0.73
21 1 0.01
22 1 0.01
23 2 0.03
28 2 0.03
29 1 0.01
30 2 0.03
31 13 0.16
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:1686764 original size:52 final size:52
Alignment explanation
Indices: 1686686--1686813 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
1686676 CGAAATATGA
*
1686686 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
1686738 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1686790 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1686814 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 21 0.28
52 48 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:1686840 original size:13 final size:13
Alignment explanation
Indices: 1686822--1686846 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1686812 CAAAGATCAG
1686822 TGTATCGATACAA
1 TGTATCGATACAA
1686835 TGTATCGATACA
1 TGTATCGATACA
1686847 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1686924 original size:33 final size:33
Alignment explanation
Indices: 1686887--1686953 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1686877 AGTAGCTTAA
1686887 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1686920 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1686953 A
1 A
1686954 AATCATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1686927 original size:13 final size:13
Alignment explanation
Indices: 1686909--1686933 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1686899 CAAAAAAATA
1686909 TGTATCGATACAT
1 TGTATCGATACAT
1686922 TGTATCGATACA
1 TGTATCGATACA
1686934 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1687032 original size:21 final size:21
Alignment explanation
Indices: 1686991--1687032 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1686981 GTTGGGACCT
*
1686991 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
1687012 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
1687033 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:1687968 original size:49 final size:49
Alignment explanation
Indices: 1687851--1688427 Score: 755
Period size: 49 Copynumber: 11.7 Consensus size: 49
1687841 AAAAGGATGT
* *
1687851 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
1687903 CGATATGCTGATTCAAGGCCAGCTATATTGGACTGAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1687952 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1688001 CAATATGCTGATTCAAGGCCAGCTATA-TGGACTTAATGGTG--GGCATGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGG--TGC
* * * *
1688049 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1688098 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1688147 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1688196 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1688245 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1688294 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1688343 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1688392 CAATATGCTGATTCAGGGCCAGCTATATTGGGCTTA
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTA
1688428 GAAGGGTTGC
Statistics
Matches: 451, Mismatches: 69, Indels: 13
0.85 0.13 0.02
Matches are distributed among these distances:
46 2 0.00
48 38 0.08
49 373 0.83
51 2 0.00
52 36 0.08
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:1688026 original size:98 final size:98
Alignment explanation
Indices: 1687851--1688427 Score: 962
Period size: 98 Copynumber: 5.9 Consensus size: 98
1687841 AAAAGGATGT
* * *
1687851 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCTGATT
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAATATGCTGATT
* * *
1687916 CAAGGCCAGCTATATTGGACTGAAAGATGAAGGTGC
63 CAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1687952 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1688017 GGCCAGCTATA-TGGACTTAATGGTG--GGCATGC
66 GGCCAGCTATATTGGACTTAATGGTGAAGG--TGC
*
1688049 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAAGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
*
1688114 GGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
66 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1688147 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1688212 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
66 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
* * *
1688245 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATATGCTGATTCAA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1688310 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
66 GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
* *
1688343 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAG
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
*
1688408 GGCCAGCTATATTGGGCTTA
66 GGCCAGCTATATTGGACTTA
1688428 GAAGGGTTGC
Statistics
Matches: 454, Mismatches: 17, Indels: 13
0.94 0.04 0.03
Matches are distributed among these distances:
95 2 0.00
97 89 0.20
98 322 0.71
100 2 0.00
101 39 0.09
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (98 bp):
CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAATGGTGAAGGTGC
Found at i:1688549 original size:34 final size:33
Alignment explanation
Indices: 1688448--1688565 Score: 173
Period size: 34 Copynumber: 3.4 Consensus size: 33
1688438 CACCGACTTG
* *
1688448 TGTGGGCTTTAGAAGAAAAAAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGT
1688481 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAA--GAAAAAG-GTGCCACGGAGT
1688518 TGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAA-AGAAAAAGGTGCCACGGAGT
1688552 TGTGGGCTTTAAAA
1 TGTGGGCTTTAAAA
1688566 AGGGAAAGAG
Statistics
Matches: 78, Mismatches: 2, Indels: 10
0.87 0.02 0.11
Matches are distributed among these distances:
33 11 0.14
34 28 0.36
35 7 0.09
36 9 0.12
37 23 0.29
ACGTcount: A:0.32, C:0.12, G:0.34, T:0.22
Consensus pattern (33 bp):
TGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGT
Found at i:1688549 original size:71 final size:70
Alignment explanation
Indices: 1688448--1688583 Score: 227
Period size: 71 Copynumber: 1.9 Consensus size: 70
1688438 CACCGACTTG
* *
1688448 TGTGGGCTTTAGAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCAC
1 TGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAGAGTGCCAC
1688513 GGAGT
66 GGAGT
* *
1688518 TGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAGAGAGTGCCA
1 TGTGGGCTTTAAA-AGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAGAGTGCCA
1688583 C
65 C
1688584 AAAGTTGTAG
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
70 12 0.20
71 49 0.80
ACGTcount: A:0.33, C:0.12, G:0.35, T:0.20
Consensus pattern (70 bp):
TGTGGGCTTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAGAGTGCCAC
GGAGT
Found at i:1688654 original size:87 final size:88
Alignment explanation
Indices: 1688506--1688678 Score: 294
Period size: 87 Copynumber: 2.0 Consensus size: 88
1688496 GGGAAAAAGA
* * *
1688506 GTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGA
1 GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACAGAGTTGTGGGCTTTAAAAAGGAA
*
1688571 AAGAGAGTGCCACAAAGTTGTAG
66 AAAAGAGTGCCACAAAGTTGTAG
*
1688594 GTGCCACAGAGTTGTGGGCTTTAAA-AGAAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGGAA
1 GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACAGAGTTGTGGGCTTTAAAAAGGAA
1688658 AAAAGAGTGCCACAAAGTTGT
66 AAAAGAGTGCCACAAAGTTGT
1688679 GGGCTTTAAA
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
87 56 0.70
88 24 0.30
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (88 bp):
GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACAGAGTTGTGGGCTTTAAAAAGGAA
AAAAGAGTGCCACAAAGTTGTAG
Found at i:1688729 original size:34 final size:33
Alignment explanation
Indices: 1688592--1689005 Score: 443
Period size: 34 Copynumber: 12.8 Consensus size: 33
1688582 ACAAAGTTGT
* *
1688592 AGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAGA
* *
1688625 AGGTGCCACAGAGTTGTGGGCTTTGAAAAGGAAAAA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAA-G-AAGA
**
1688661 AGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGA
1 AG-GTGCCACGGAGTTGTGGGCTTTAAAAGAAGA
1688695 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAGA
**
1688729 AGGTGCCACAAAGTTGTGGGCTTTAAAAGAAGA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAGA
1688762 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAGA
*
1688796 AGGTGCCACGGAGTTGTGGGC-TT--AA-ACG-
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAGA
1688824 -GGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAGA
*
1688857 AGGTGCCACGGAGTTGTGGGC-TT--AA-ACG-
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAGA
* *
1688885 -GGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAA-A-GAAGA
* *
1688918 AAGTGCCACGGAATTGTGGGCTTT--AA-AAG-
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAGA
* * *
1688947 -GGTGCCACGGCGTTGTGGAC-TTAAAAGGAACA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAA-GAAGA
*
1688979 AGGTGCCATGGAGTTGTGGGCTTTAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAA
1689006 GAAAAAATGC
Statistics
Matches: 327, Mismatches: 26, Indels: 55
0.80 0.06 0.13
Matches are distributed among these distances:
27 43 0.13
28 18 0.06
29 7 0.02
30 7 0.02
31 4 0.01
32 4 0.01
33 97 0.30
34 112 0.34
35 4 0.01
36 10 0.03
37 21 0.06
ACGTcount: A:0.30, C:0.13, G:0.35, T:0.21
Consensus pattern (33 bp):
AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAGA
Found at i:1688832 original size:61 final size:63
Alignment explanation
Indices: 1688592--1689005 Score: 441
Period size: 61 Copynumber: 6.4 Consensus size: 63
1688582 ACAAAGTTGT
* *
1688592 AGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGGA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAG-----GGTGCCACGGAGTTGTGGGCTTTGAAAAGG-
*
1688657 AAAA
60 AAGA
**
1688661 AGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-G
1 AG-GTGCCACGGAGTTGTGGGCTTT--AA-AAG--GGTGCCACGGAGTTGTGGGCTTTGAAAAGG
1688725 AAGA
60 AAGA
**
1688729 AGGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-GA
1 AGGTGCCACGGAGTTGTGGGCTTT--AA-AAG--GGTGCCACGGAGTTGTGGGCTTTGAAAAGGA
1688793 AGA
61 AGA
*
1688796 AGGTGCCACGGAGTTGTGGGC-TTAAACGGGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAGA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAGA
* * * *
1688857 AGGTGCCACGGAGTTGTGGGC-TTAAACGGGTGCCACGGAGTTGTGGAC-TT-AAAGATGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGGCTTTGAAA-AGGAAGA
* * * * *
1688918 AAGTGCCACGGAATTGTGGGCTTTAAAAGGGTGCCACGGCGTTGTGGAC-TT-AAAAGGAACA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAGA
*
1688979 AGGTGCCATGGAGTTGTGGGCTTTAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAA
1689006 GAAAAAATGC
Statistics
Matches: 321, Mismatches: 17, Indels: 22
0.89 0.05 0.06
Matches are distributed among these distances:
59 3 0.01
60 3 0.01
61 132 0.41
62 30 0.09
63 2 0.01
64 2 0.01
66 2 0.01
67 84 0.26
68 5 0.02
69 3 0.01
70 50 0.16
72 2 0.01
73 3 0.01
ACGTcount: A:0.30, C:0.13, G:0.35, T:0.21
Consensus pattern (63 bp):
AGGTGCCACGGAGTTGTGGGCTTTAAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAGA
Found at i:1688835 original size:27 final size:27
Alignment explanation
Indices: 1688797--1688974 Score: 158
Period size: 27 Copynumber: 6.0 Consensus size: 27
1688787 AAAAGAAGAA
*
1688797 GGTGCCACGGAGTTGTGGGCTTAAACG
1 GGTGCCACGGAGTTGTGGGCTTAAAAG
1688824 GGTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
1 GGTGCCACGGAGTTGTGGGC-TT---AA-AAG
*
1688856 AAGGTGCCACGGAGTTGTGGGCTTAAACG
1 --GGTGCCACGGAGTTGTGGGCTTAAAAG
*
1688885 GGTGCCACGGAGTTGTGGACTTAAAGATG
1 GGTGCCACGGAGTTGTGGGCTTAAA-A-G
* *
1688914 AAAAAAGTGCCACGGAATTGTGGGCTTTAAAAG
1 -----GGTGCCACGGAGTTGTGGGC-TTAAAAG
* *
1688947 GGTGCCACGGCGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGGCTTAAAAG
1688974 G
1 G
1688975 AACAAGGTGC
Statistics
Matches: 125, Mismatches: 11, Indels: 30
0.75 0.07 0.18
Matches are distributed among these distances:
27 52 0.42
28 18 0.14
29 3 0.02
30 2 0.02
31 2 0.02
32 2 0.02
33 3 0.02
34 38 0.30
35 5 0.04
ACGTcount: A:0.26, C:0.15, G:0.37, T:0.22
Consensus pattern (27 bp):
GGTGCCACGGAGTTGTGGGCTTAAAAG
Found at i:1689047 original size:61 final size:61
Alignment explanation
Indices: 1688989--1689127 Score: 183
Period size: 61 Copynumber: 2.3 Consensus size: 61
1688979 AGGTGCCATG
* *
1688989 GAGTTGTGGGCTTTAAAGAA-AAAATGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACT
1 GAGTCGTGGACTTT-AAGAAGAAAATGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACT
* * * *
1689050 GAGTCGTGGACTTTGAGAAGAGATTGCCACTGAGTCGTGGACTTTGAGA-AGAGATTGCCACT
1 GAGTCGTGGACTTTAAGAAGAAAATGCCACTGAGTCGTGGACTTTGAGACA-A-AATGCCACT
1689112 GAGTCGTGGACTTTAA
1 GAGTCGTGGACTTTAA
1689128 AAAGGTATTT
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
60 5 0.07
61 40 0.59
62 23 0.34
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (61 bp):
GAGTCGTGGACTTTAAGAAGAAAATGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACT
Found at i:1689081 original size:31 final size:31
Alignment explanation
Indices: 1689013--1689125 Score: 194
Period size: 31 Copynumber: 3.7 Consensus size: 31
1689003 AAAGAAAAAA
*
1689013 TGCCACTGAGTCGTGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGACTTTGAGA-AGAGAT
1689043 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1689074 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1689105 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
1689126 AAAAAGGTAT
Statistics
Matches: 80, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
29 1 0.01
30 26 0.32
31 53 0.66
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.27
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
Found at i:1690161 original size:9 final size:9
Alignment explanation
Indices: 1690135--1690174 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
1690125 CTTATCGAGA
1690135 TTTTCTGTTT
1 TTTTCT-TTT
*
1690145 TGTT-TTTT
1 TTTTCTTTT
1690153 TTTTCTTTT
1 TTTTCTTTT
1690162 TTTTCTTTT
1 TTTTCTTTT
1690171 TTTT
1 TTTT
1690175 TTGTCCCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 6 0.22
9 18 0.67
10 3 0.11
ACGTcount: A:0.00, C:0.07, G:0.05, T:0.88
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:1690174 original size:18 final size:18
Alignment explanation
Indices: 1690135--1690173 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
1690125 CTTATCGAGA
1690135 TTTTCTGTTTTGTTTTTT
1 TTTTCTGTTTTGTTTTTT
1690153 TTTTCT-TTTT-TTTCTTT
1 TTTTCTGTTTTGTTT-TTT
1690170 TTTT
1 TTTT
1690174 TTTGTCCCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 3 0.15
17 11 0.55
18 6 0.30
ACGTcount: A:0.00, C:0.08, G:0.05, T:0.87
Consensus pattern (18 bp):
TTTTCTGTTTTGTTTTTT
Found at i:1694148 original size:21 final size:21
Alignment explanation
Indices: 1694124--1694166 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1694114 ATCAAAATGA
1694124 CATTCATTGCATGACGAGATG
1 CATTCATTGCATGACGAGATG
1694145 CATTCATTGCATGACGAGATG
1 CATTCATTGCATGACGAGATG
1694166 C
1 C
1694167 TCCTGACATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (21 bp):
CATTCATTGCATGACGAGATG
Found at i:1698412 original size:3 final size:3
Alignment explanation
Indices: 1698406--1698444 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
1698396 TACTACTGTA
1698406 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1698445 GTTGCTACTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:1698470 original size:15 final size:15
Alignment explanation
Indices: 1698447--1698507 Score: 68
Period size: 15 Copynumber: 4.1 Consensus size: 15
1698437 TGTTGTTGGT
1698447 TGCTACTGGTGTTGC
1 TGCTACTGGTGTTGC
* *
1698462 TGCTGCTGGTGTTTC
1 TGCTACTGGTGTTGC
* * *
1698477 TGCTAATGGCGTTGT
1 TGCTACTGGTGTTGC
*
1698492 TGCTGCTGGTGTTGC
1 TGCTACTGGTGTTGC
1698507 T
1 T
1698508 ATTTCAGTTG
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.05, C:0.18, G:0.34, T:0.43
Consensus pattern (15 bp):
TGCTACTGGTGTTGC
Found at i:1698481 original size:30 final size:30
Alignment explanation
Indices: 1698447--1698504 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1698437 TGTTGTTGGT
* *
1698447 TGCTACTGGTGTTGCTGCTGCTGGTGTTTC
1 TGCTAATGGCGTTGCTGCTGCTGGTGTTTC
*
1698477 TGCTAATGGCGTTGTTGCTGCTGGTGTT
1 TGCTAATGGCGTTGCTGCTGCTGGTGTT
1698505 GCTATTTCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.05, C:0.17, G:0.34, T:0.43
Consensus pattern (30 bp):
TGCTAATGGCGTTGCTGCTGCTGGTGTTTC
Found at i:1699041 original size:9 final size:9
Alignment explanation
Indices: 1699027--1699098 Score: 60
Period size: 9 Copynumber: 7.9 Consensus size: 9
1699017 AAAAATAAAT
1699027 TTATATATA
1 TTATATATA
1699036 TTATATATA
1 TTATATATA
1699045 TT-TATTATTA
1 TTATA-TA-TA
1699055 TTATATATA
1 TTATATATA
*
1699064 TT-TATTTTA
1 TTATA-TATA
*
1699073 TTATATTTAA
1 TTATATAT-A
*
1699083 TTAT-TTTA
1 TTATATATA
1699091 TTATATAT
1 TTATATAT
1699099 TAAACAAACC
Statistics
Matches: 54, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
8 9 0.17
9 30 0.56
10 13 0.24
11 2 0.04
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
TTATATATA
Found at i:1699044 original size:13 final size:13
Alignment explanation
Indices: 1699028--1699100 Score: 50
Period size: 13 Copynumber: 5.8 Consensus size: 13
1699018 AAAATAAATT
1699028 TATATATATTATA
1 TATATATATTATA
*
1699041 TATATTTATTATTA
1 TATATATATTA-TA
1699055 TTATATATATT-TA
1 -TATATATATTATA
1699068 T-T-T-TATTATA
1 TATATATATTATA
* *
1699078 TTTA-ATTATTTTA
1 TATATA-TATTATA
1699091 T-TATATATTA
1 TATATATATTA
1699101 AACAAACCAA
Statistics
Matches: 48, Mismatches: 4, Indels: 17
0.70 0.06 0.25
Matches are distributed among these distances:
9 4 0.08
10 4 0.08
11 2 0.04
12 7 0.15
13 20 0.42
14 2 0.04
15 9 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TATATATATTATA
Found at i:1699049 original size:19 final size:18
Alignment explanation
Indices: 1699025--1699098 Score: 94
Period size: 18 Copynumber: 4.0 Consensus size: 18
1699015 TCAAAAATAA
1699025 ATTTATATATATTATATAT
1 ATTTAT-TATATTATATAT
1699044 ATTTATTATTATTATATAT
1 ATTTATTA-TATTATATAT
* *
1699063 ATTTATTTTATTATATTT
1 ATTTATTATATTATATAT
* *
1699081 AATTATTTTATTATATAT
1 ATTTATTATATTATATAT
1699099 TAAACAAACC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
18 27 0.54
19 23 0.46
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTATTATATTATATAT
Found at i:1699075 original size:18 final size:18
Alignment explanation
Indices: 1699034--1699098 Score: 103
Period size: 18 Copynumber: 3.6 Consensus size: 18
1699024 AATTTATATA
1699034 TATTATATATATTTATTAT
1 TATTATATATATTTATT-T
1699053 TATTATATATATTTATTT
1 TATTATATATATTTATTT
* *
1699071 TATTATATTTAATTATTT
1 TATTATATATATTTATTT
1699089 TATTATATAT
1 TATTATATAT
1699099 TAAACAAACC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
18 26 0.60
19 17 0.40
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TATTATATATATTTATTT
Found at i:1699079 original size:14 final size:16
Alignment explanation
Indices: 1699028--1699100 Score: 64
Period size: 16 Copynumber: 4.7 Consensus size: 16
1699018 AAAATAAATT
*
1699028 TATATATATTA-TATA
1 TATATTTATTATTATA
*
1699043 TATTTATTATTATTATA
1 TATAT-TTATTATTATA
1699060 TATATTTATT-TTAT-
1 TATATTTATTATTATA
*
1699074 TATATTTAATTATTTTA
1 TATATTT-ATTATTATA
*
1699091 T-TATATATTA
1 TATATTTATTA
1699101 AACAAACCAA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
14 7 0.15
15 15 0.31
16 17 0.35
17 9 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TATATTTATTATTATA
Found at i:1699659 original size:42 final size:42
Alignment explanation
Indices: 1699612--1699755 Score: 173
Period size: 42 Copynumber: 3.4 Consensus size: 42
1699602 ATGTTGATCG
* *
1699612 GGGACTAAGCCGATAGGTCACCAAAGGATAAAGAGTTTACCA
1 GGGACTAAGCCGACAGGTCACCAAGGGATAAAGAGTTTACCA
* * *
1699654 GGGACTAAGCCGACAGGTAAACAAGGGGATAAAG-GTTGACCA
1 GGGACTAAGCCGACAGGTCACCAA-GGGATAAAGAGTTTACCA
* * *
1699696 GGGACTAAGCCGACATGTCACCTAGGGATAAAAAGTTTACCA
1 GGGACTAAGCCGACAGGTCACCAAGGGATAAAGAGTTTACCA
* * *
1699738 AGGACTATGCCGATAGGT
1 GGGACTAAGCCGACAGGT
1699756 GTAGACACCT
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
41 8 0.09
42 69 0.81
43 8 0.09
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (42 bp):
GGGACTAAGCCGACAGGTCACCAAGGGATAAAGAGTTTACCA
Found at i:1700765 original size:166 final size:163
Alignment explanation
Indices: 1700568--1701283 Score: 742
Period size: 166 Copynumber: 4.3 Consensus size: 163
1700558 TTTTATTTTT
* *
1700568 CGTAAATTTTTTTGAGAGGATTTTGCTTGGTTTATAATTTTTAAAATTCATCAAATATTATTATT
1 CGTAAATTTTTTCGAGA-GATTTTTCTTGGTTT-TAATTTTTAAAATTCAT-AAATATTATTATT
* * *
1700633 TATTTTATAGTAATTTATTTTTAAAAAAATTCATTCATTTTCATAAATTTTGAATTTTTT-CTTG
63 TATTTCATATTAATTTATTTTT-AAAAAATTCATTCATTTCCATAAATTTTGAATTTTTTCCTTG
* *
1700697 AAATTTCTCTTTTTTTGAAATACGGAGGTTTCTACTC
127 AAATTTCTCTTTTTTCGAAATACGGAGTTTTCTACTC
*
1700734 CGTAAATTTTTTTGAGAAGATTTTTCTTGGTTTTAAATTTTTAAAATTCATCAAATATTATTATT
1 CGTAAATTTTTTCGAG-AGATTTTTCTTGGTTTT-AATTTTTAAAATTCAT-AAATATTATTATT
* ** *
1700799 TATTCCATATTAATTTATTTTTAAAATTTTCATTCATTTCCATAAATTTTTAATTTTTTCCTTGA
63 TATTTCATATTAATTTATTTTTAAAAAATTCATTCATTTCCATAAATTTTGAATTTTTTCCTTGA
* * * * * *
1700864 AATTCCCCCTTTTTCGAAATATGAAGTTTTTTACTC
128 AATTTCTCTTTTTTCGAAATACGGAGTTTTCTACTC
* * * **
1700900 CGTAAATTTTTTCAAGAGGTTTTTCTTGGGTTTTAATTTTTCAAATTTTTAAAATATTATTATTT
1 CGTAAATTTTTTCGAGAGATTTTTCTT-GGTTTTAATTTTTAAAATTCAT-AAATATTATTATTT
* * * *
1700965 ATTTCATATTAA-TTCTGTTTCAAAAATTCATTCATTTCCATAAATTTTGAATTTTTTCCTTAAA
64 ATTTCATATTAATTTATTTTTAAAAAATTCATTCATTTCCATAAATTTTGAATTTTTTCCTTGAA
* * * *
1701029 ATTT-TCCTTTTTTCAAAATATGGAATTTTCTATTC
129 ATTTCT-CTTTTTTCGAAATACGGAGTTTTCTACTC
* * * *
1701064 TGTAAATTTTTTCGAGGGATTTTTCTTGGATTTT-ATTTTTAAAATTCATAAATATTATTGTTTT
1 CGTAAATTTTTTCGAGAGATTTTTCTTGG-TTTTAATTTTTAAAATTCATAAATATTATTATTTA
* * * * * * * * *
1701128 TTTCATATTAAATCAATTTTAAAAAATTAATTCATTTTCATGAGTTTTGAA-GTTTTCTTTGAAA
65 TTTCATATTAATTTATTTTTAAAAAATTCATTCATTTCCATAAATTTTGAATTTTTTCCTTGAAA
* ** * * ** *
1701192 -ATCTCTTTTTTTTAAGAAACCGAGTTTTCTTTTT
130 TTTCTCTTTTTTCGAA-ATACGGAGTTTTCTACTC
** * ** *
1701226 CGTAAATTTTTAAGGGAGATTTTTCTTGGTCTAAAATTTTTAGAATTCATATAATATT
1 CGTAAATTTTTTCGAGAGATTTTTCTTGGT-TTTAATTTTTAAAATTCATA-AATATT
1701284 GTCATTTAAC
Statistics
Matches: 461, Mismatches: 77, Indels: 26
0.82 0.14 0.05
Matches are distributed among these distances:
161 11 0.02
162 72 0.16
163 59 0.13
164 104 0.23
165 82 0.18
166 132 0.29
167 1 0.00
ACGTcount: A:0.30, C:0.10, G:0.09, T:0.52
Consensus pattern (163 bp):
CGTAAATTTTTTCGAGAGATTTTTCTTGGTTTTAATTTTTAAAATTCATAAATATTATTATTTAT
TTCATATTAATTTATTTTTAAAAAATTCATTCATTTCCATAAATTTTGAATTTTTTCCTTGAAAT
TTCTCTTTTTTCGAAATACGGAGTTTTCTACTC
Found at i:1701699 original size:15 final size:15
Alignment explanation
Indices: 1701681--1701713 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
1701671 GAGGAAAAAA
1701681 AAAGAAAGAAA-AGAG
1 AAAGAAA-AAATAGAG
1701696 AAAGAAAAAATAGAG
1 AAAGAAAAAATAGAG
1701711 AAA
1 AAA
1701714 ATAAGTAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.18
15 14 0.82
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (15 bp):
AAAGAAAAAATAGAG
Found at i:1701703 original size:22 final size:21
Alignment explanation
Indices: 1701674--1701714 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
1701664 AAAAAGAGAG
1701674 GAAAAAAAAAGAAAGAAAAGA
1 GAAAAAAAAAGAAAGAAAAGA
* *
1701695 GAAAGAAAAAATAGAGAAAA
1 GAAA-AAAAAAGAAAGAAAA
1701715 TAAGTAGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (21 bp):
GAAAAAAAAAGAAAGAAAAGA
Found at i:1707483 original size:20 final size:20
Alignment explanation
Indices: 1707458--1707534 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
1707448 GTAAAAAGAT
*
1707458 AGAATGTATCGATCCATTGA
1 AGAATGTATCGATACATTGA
*
1707478 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
* *
1707498 TA-CATGTATTGATACATTGA
1 -AGAATGTATCGATACATTGA
*
1707518 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
1707535 CTAGGTACTT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:1713506 original size:3 final size:3
Alignment explanation
Indices: 1713500--1713529 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
1713490 TACTACTGTA
1713500 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1713530 GTTGCTACTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:1713555 original size:15 final size:15
Alignment explanation
Indices: 1713532--1713592 Score: 77
Period size: 15 Copynumber: 4.1 Consensus size: 15
1713522 TGTTGTTGGT
1713532 TGCTACTGGTGTTGC
1 TGCTACTGGTGTTGC
* *
1713547 TGCTGCTGGTGTTTC
1 TGCTACTGGTGTTGC
* * *
1713562 TGCTAATGGCGTTGT
1 TGCTACTGGTGTTGC
1713577 TGCTACTGGTGTTGC
1 TGCTACTGGTGTTGC
1713592 T
1 T
1713593 ATTTCAGTTG
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.07, C:0.18, G:0.33, T:0.43
Consensus pattern (15 bp):
TGCTACTGGTGTTGC
Found at i:1714159 original size:18 final size:18
Alignment explanation
Indices: 1714118--1714182 Score: 94
Period size: 18 Copynumber: 3.6 Consensus size: 18
1714108 AATTTATATA
1714118 TATTATATATATTTATTAT
1 TATTATATATATTTATT-T
*
1714137 TATTATATATGTTTATTT
1 TATTATATATATTTATTT
* *
1714155 TATTATATTTAATTATTT
1 TATTATATATATTTATTT
1714173 TATTATATAT
1 TATTATATAT
1714183 TAAACAAACC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
18 25 0.61
19 16 0.39
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
TATTATATATATTTATTT
Found at i:1717694 original size:3 final size:3
Alignment explanation
Indices: 1717688--1717726 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
1717678 TACTACTGTA
1717688 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1717727 GTTGCTACTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:1717752 original size:15 final size:15
Alignment explanation
Indices: 1717729--1717789 Score: 68
Period size: 15 Copynumber: 4.1 Consensus size: 15
1717719 TGTTGTTGGT
1717729 TGCTACTGGTGTTGC
1 TGCTACTGGTGTTGC
* *
1717744 TGCTGCTGGTGTTTC
1 TGCTACTGGTGTTGC
* * *
1717759 TGCTAATGGCGTTGT
1 TGCTACTGGTGTTGC
*
1717774 TGCTGCTGGTGTTGC
1 TGCTACTGGTGTTGC
1717789 T
1 T
1717790 ATTTCAGTTG
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.05, C:0.18, G:0.34, T:0.43
Consensus pattern (15 bp):
TGCTACTGGTGTTGC
Found at i:1717763 original size:30 final size:30
Alignment explanation
Indices: 1717729--1717786 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1717719 TGTTGTTGGT
* *
1717729 TGCTACTGGTGTTGCTGCTGCTGGTGTTTC
1 TGCTAATGGCGTTGCTGCTGCTGGTGTTTC
*
1717759 TGCTAATGGCGTTGTTGCTGCTGGTGTT
1 TGCTAATGGCGTTGCTGCTGCTGGTGTT
1717787 GCTATTTCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.05, C:0.17, G:0.34, T:0.43
Consensus pattern (30 bp):
TGCTAATGGCGTTGCTGCTGCTGGTGTTTC
Found at i:1718323 original size:9 final size:9
Alignment explanation
Indices: 1718309--1718380 Score: 60
Period size: 9 Copynumber: 7.9 Consensus size: 9
1718299 AAAAATAAAT
1718309 TTATATATA
1 TTATATATA
1718318 TTATATATA
1 TTATATATA
1718327 TT-TATTATTA
1 TTATA-TA-TA
1718337 TTATATATA
1 TTATATATA
*
1718346 TT-TATTTTA
1 TTATA-TATA
*
1718355 TTATATTTAA
1 TTATATAT-A
*
1718365 TTAT-TTTA
1 TTATATATA
1718373 TTATATAT
1 TTATATAT
1718381 TAAACAAACC
Statistics
Matches: 54, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
8 9 0.17
9 30 0.56
10 13 0.24
11 2 0.04
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
TTATATATA
Found at i:1718326 original size:13 final size:13
Alignment explanation
Indices: 1718310--1718382 Score: 50
Period size: 13 Copynumber: 5.8 Consensus size: 13
1718300 AAAATAAATT
1718310 TATATATATTATA
1 TATATATATTATA
*
1718323 TATATTTATTATTA
1 TATATATATTA-TA
1718337 TTATATATATT-TA
1 -TATATATATTATA
1718350 T-T-T-TATTATA
1 TATATATATTATA
* *
1718360 TTTA-ATTATTTTA
1 TATATA-TATTATA
1718373 T-TATATATTA
1 TATATATATTA
1718383 AACAAACCAA
Statistics
Matches: 48, Mismatches: 4, Indels: 17
0.70 0.06 0.25
Matches are distributed among these distances:
9 4 0.08
10 4 0.08
11 2 0.04
12 7 0.15
13 20 0.42
14 2 0.04
15 9 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TATATATATTATA
Found at i:1718331 original size:19 final size:18
Alignment explanation
Indices: 1718307--1718380 Score: 94
Period size: 18 Copynumber: 4.0 Consensus size: 18
1718297 TCAAAAATAA
1718307 ATTTATATATATTATATAT
1 ATTTAT-TATATTATATAT
1718326 ATTTATTATTATTATATAT
1 ATTTATTA-TATTATATAT
* *
1718345 ATTTATTTTATTATATTT
1 ATTTATTATATTATATAT
* *
1718363 AATTATTTTATTATATAT
1 ATTTATTATATTATATAT
1718381 TAAACAAACC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
18 27 0.54
19 23 0.46
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTATTATATTATATAT
Found at i:1718357 original size:18 final size:18
Alignment explanation
Indices: 1718316--1718380 Score: 103
Period size: 18 Copynumber: 3.6 Consensus size: 18
1718306 AATTTATATA
1718316 TATTATATATATTTATTAT
1 TATTATATATATTTATT-T
1718335 TATTATATATATTTATTT
1 TATTATATATATTTATTT
* *
1718353 TATTATATTTAATTATTT
1 TATTATATATATTTATTT
1718371 TATTATATAT
1 TATTATATAT
1718381 TAAACAAACC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
18 26 0.60
19 17 0.40
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TATTATATATATTTATTT
Found at i:1718361 original size:14 final size:16
Alignment explanation
Indices: 1718310--1718382 Score: 64
Period size: 16 Copynumber: 4.7 Consensus size: 16
1718300 AAAATAAATT
*
1718310 TATATATATTA-TATA
1 TATATTTATTATTATA
*
1718325 TATTTATTATTATTATA
1 TATAT-TTATTATTATA
1718342 TATATTTATT-TTAT-
1 TATATTTATTATTATA
*
1718356 TATATTTAATTATTTTA
1 TATATTT-ATTATTATA
*
1718373 T-TATATATTA
1 TATATTTATTA
1718383 AACAAACCAA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
14 7 0.15
15 15 0.31
16 17 0.35
17 9 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TATATTTATTATTATA
Found at i:1718941 original size:42 final size:42
Alignment explanation
Indices: 1718894--1719037 Score: 173
Period size: 42 Copynumber: 3.4 Consensus size: 42
1718884 ATGTTGATCG
* *
1718894 GGGACTAAGCCGATAGGTCACCAAAGGATAAAGAGTTTACCA
1 GGGACTAAGCCGACAGGTCACCAAGGGATAAAGAGTTTACCA
* * *
1718936 GGGACTAAGCCGACAGGTAAACAAGGGGATAAAG-GTTGACCA
1 GGGACTAAGCCGACAGGTCACCAA-GGGATAAAGAGTTTACCA
* * *
1718978 GGGACTAAGCCGACATGTCACCTAGGGATAAAAAGTTTACCA
1 GGGACTAAGCCGACAGGTCACCAAGGGATAAAGAGTTTACCA
* * *
1719020 AGGACTATGCCGATAGGT
1 GGGACTAAGCCGACAGGT
1719038 GTAGACACCT
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
41 8 0.09
42 69 0.81
43 8 0.09
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (42 bp):
GGGACTAAGCCGACAGGTCACCAAGGGATAAAGAGTTTACCA
Found at i:1720047 original size:166 final size:163
Alignment explanation
Indices: 1719850--1720566 Score: 753
Period size: 166 Copynumber: 4.3 Consensus size: 163
1719840 TTTTATTTTT
*
1719850 CGTAAATTTTTTTGAGAGGATTTTGCTTGGTTTATAATTTTTAAAATTCATCAAATATTATTATT
1 CGTAAATTTTTTTGAGA-GATTTTTCTTGGTTT-TAATTTTTAAAATTCAT-AAATATTATTATT
* * *
1719915 TATTTTATAGTAATTTATTTTTAAAAAAATTCATTCATTTTCATAAATTTTGAATTTTTT-CTTG
63 TATTTCATATTAATTTATTTTT-AAAAAATTCATTCATTTCCATAAATTTTGAATTTTTTCCTTG
*
1719979 AAATTTCTCTTTTTTTGAAATACGGAGTTTTCTACTC
127 AAATTTCTCTTTTTTCGAAATACGGAGTTTTCTACTC
1720016 CGTAAATTTTTTTGAGAAGATTTTTCTTGGTTTTAAATTTTTAAAATTCATCAAATATTATTATT
1 CGTAAATTTTTTTGAG-AGATTTTTCTTGGTTTT-AATTTTTAAAATTCAT-AAATATTATTATT
* ** *
1720081 TATTCCATATTAATTTATTTTTAAAATTTTCATTCATTTCCATAAATTTTTAATTTTTTCCTTGA
63 TATTTCATATTAATTTATTTTTAAAAAATTCATTCATTTCCATAAATTTTGAATTTTTTCCTTGA
* * * * * *
1720146 AATTCCCCCTTTTTCGAAATATGAAGTTTTTTACTC
128 AATTTCTCTTTTTTCGAAATACGGAGTTTTCTACTC
** * * *
1720182 CGTAAATTTTTTCAAGAGGTTTTTCTTGGGTTTTAATTTTTCAAATTTATAAAATATTATTATTT
1 CGTAAATTTTTTTGAGAGATTTTTCTT-GGTTTTAATTTTTAAAATTCAT-AAATATTATTATTT
* * * *
1720247 ATTTCATATTAA-TTCTGTTTCAAAAATTCATTCATTTCCATAAATTTTGAATTTTTTCCTTAAA
64 ATTTCATATTAATTTATTTTTAAAAAATTCATTCATTTCCATAAATTTTGAATTTTTTCCTTGAA
* * * * *
1720311 ATTT-TCCTTTTTCCAAAATATGGAATTTTCTATTC
129 ATTTCT-CTTTTTTCGAAATACGGAGTTTTCTACTC
* * * * *
1720346 TGTAAATTTTTTCGAGGGATTTTTCTTGGATTTT-ATTTTTAAAATTCATAAATATTATTGTTTT
1 CGTAAATTTTTTTGAGAGATTTTTCTTGG-TTTTAATTTTTAAAATTCATAAATATTATTATTTA
* * * * * * * * *
1720410 TTTCATATTAAATCAATTTTAAAAAATTAATTCATTTTCATGAGTTTTGAA-GTTTTCTTTGAAA
65 TTTCATATTAATTTATTTTTAAAAAATTCATTCATTTCCATAAATTTTGAATTTTTTCCTTGAAA
* ** * * ** *
1720474 -ATCTCTTTTTTTTAAGAAACCGAGTTTTCTTTTT
130 TTTCTCTTTTTTCGAA-ATACGGAGTTTTCTACTC
* * ** *
1720508 CGTAAATTTTTTAAGGGAGATTTTTCTTGGTCTAAAATTTTTAGAATTCATATAATATT
1 CGTAAATTTTTT-TGAGAGATTTTTCTTGGT-TTTAATTTTTAAAATTCATA-AATATT
1720567 GTCATTTAAC
Statistics
Matches: 463, Mismatches: 75, Indels: 27
0.82 0.13 0.05
Matches are distributed among these distances:
161 9 0.02
162 59 0.13
163 60 0.13
164 112 0.24
165 89 0.19
166 133 0.29
167 1 0.00
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (163 bp):
CGTAAATTTTTTTGAGAGATTTTTCTTGGTTTTAATTTTTAAAATTCATAAATATTATTATTTAT
TTCATATTAATTTATTTTTAAAAAATTCATTCATTTCCATAAATTTTGAATTTTTTCCTTGAAAT
TTCTCTTTTTTCGAAATACGGAGTTTTCTACTC
Found at i:1720996 original size:15 final size:15
Alignment explanation
Indices: 1720967--1720999 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
1720957 GGAAAAAAAA
1720967 AAAGAAAGAAAAGAG
1 AAAGAAAGAAAAGAG
1720982 AAAGAAA-AAATAGAG
1 AAAGAAAGAAA-AGAG
1720997 AAA
1 AAA
1721000 ATAAGTAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.18
15 14 0.82
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (15 bp):
AAAGAAAGAAAAGAG
Found at i:1729410 original size:12 final size:12
Alignment explanation
Indices: 1729395--1729436 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
1729385 TGATCACTTG
1729395 TTAATTTAAACT
1 TTAATTTAAACT
1729407 TTAATTT--A-T
1 TTAATTTAAACT
1729416 GTTAATTTAAACT
1 -TTAATTTAAACT
1729429 TTAATTTA
1 TTAATTTA
1729437 TATCTAGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
9 1 0.04
10 8 0.31
12 16 0.62
13 1 0.04
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (12 bp):
TTAATTTAAACT
Found at i:1729421 original size:22 final size:22
Alignment explanation
Indices: 1729393--1729437 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
1729383 GTTGATCACT
1729393 TGTTAATTTAAACTTTAATTTA
1 TGTTAATTTAAACTTTAATTTA
1729415 TGTTAATTTAAACTTTAATTTA
1 TGTTAATTTAAACTTTAATTTA
1729437 T
1 T
1729438 ATCTAGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (22 bp):
TGTTAATTTAAACTTTAATTTA
Found at i:1733259 original size:13 final size:13
Alignment explanation
Indices: 1733241--1733265 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1733231 CAAAGATCAG
1733241 TGTATCGATACAA
1 TGTATCGATACAA
1733254 TGTATCGATACA
1 TGTATCGATACA
1733266 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1733342 original size:19 final size:19
Alignment explanation
Indices: 1733318--1733382 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
1733308 AGCAATACAT
1733318 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
1733337 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
1733350 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
1733369 TGTATCGATACAAA
1 TGTATCGATACAAA
1733383 TCATTGAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 1 0.03
19 24 0.62
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:1733353 original size:32 final size:32
Alignment explanation
Indices: 1733312--1733380 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
1733302 CTTCGTAGCA
1733312 ATACATTGTATCGATACAAAACTTATGTATCG
1 ATACATTGTATCGATACAAAACTTATGTATCG
*
1733344 ATACATTGTATCGATACAACACTTATGTATCG
1 ATACATTGTATCGATACAAAACTTATGTATCG
1733376 ATACA
1 ATACA
1733381 AATCATTGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (32 bp):
ATACATTGTATCGATACAAAACTTATGTATCG
Found at i:1733355 original size:13 final size:13
Alignment explanation
Indices: 1733337--1733361 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1733327 ACAAAACTTA
1733337 TGTATCGATACAT
1 TGTATCGATACAT
1733350 TGTATCGATACA
1 TGTATCGATACA
1733362 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1735600 original size:19 final size:19
Alignment explanation
Indices: 1735576--1735636 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
1735566 CAAGTAACTA
1735576 TATCGATACATAAGTGTTG
1 TATCGATACATAAGTGTTG
1735595 TATCGATAC--AA----TG
1 TATCGATACATAAGTGTTG
*
1735608 TATCGATATATAAGTGTTG
1 TATCGATACATAAGTGTTG
1735627 TATCGATACA
1 TATCGATACA
1735637 ATGTATCGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
13 10 0.29
15 2 0.06
17 2 0.06
19 20 0.59
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.36
Consensus pattern (19 bp):
TATCGATACATAAGTGTTG
Found at i:1735621 original size:32 final size:32
Alignment explanation
Indices: 1735576--1735644 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
1735566 CAAGTAACTA
1735576 TATCGATACATAAGTGTTGTATCGATACAATG
1 TATCGATACATAAGTGTTGTATCGATACAATG
*
1735608 TATCGATATATAAGTGTTGTATCGATACAATG
1 TATCGATACATAAGTGTTGTATCGATACAATG
1735640 TATCG
1 TATCG
1735645 CTACGAAGCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (32 bp):
TATCGATACATAAGTGTTGTATCGATACAATG
Found at i:1742705 original size:13 final size:14
Alignment explanation
Indices: 1742673--1742709 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
1742663 GTCAAAAGTA
1742673 AACAC-AAAAAAAC
1 AACACAAAAAAAAC
*
1742686 AAAACAAAAAAAAC
1 AACACAAAAAAAAC
1742700 -ACACAAAAAA
1 AACACAAAAAA
1742710 GTGCAAAGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (14 bp):
AACACAAAAAAAAC
Found at i:1744063 original size:31 final size:30
Alignment explanation
Indices: 1743992--1744153 Score: 121
Period size: 31 Copynumber: 5.1 Consensus size: 30
1743982 TTCAAATACC
**
1743992 TTCTTAAAGTCCATGACTCAGTGGCAATCTCT
1 TTCTTAAAGTCCACAACTCAGTGGC-ATCT-T
1744024 TT-TTAAAGTCCACAACTCAGTGGCATCTT
1 TTCTTAAAGTCCACAACTCAGTGGCATCTT
* *
1744053 TTCTTCAAAGTTCACAACTCTA-TGGCACCCTT
1 TTCTT-AAAGTCCACAACTC-AGTGGCA-TCTT
* * *
1744085 TTCCCTTTTAAAGCCCACAACTCCGTGGCACCTT
1 TT--C--TTAAAGTCCACAACTCAGTGGCATCTT
* *
1744119 GTTCCTTTTAAGTCCACAACTCCGTGGCATCTT
1 -TT-C-TTAAAGTCCACAACTCAGTGGCATCTT
1744152 TT
1 TT
1744154 TCCTTTTAAG
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
29 3 0.03
30 6 0.05
31 38 0.35
32 10 0.09
33 25 0.23
34 7 0.06
35 19 0.17
36 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.35
Consensus pattern (30 bp):
TTCTTAAAGTCCACAACTCAGTGGCATCTT
Found at i:1744141 original size:33 final size:32
Alignment explanation
Indices: 1744024--1744387 Score: 302
Period size: 33 Copynumber: 10.9 Consensus size: 32
1744014 GGCAATCTCT
* *
1744024 TTTTAAAGTCCACAACTCAGTGGCATCTTTT-C
1 TTTT-AAGTCCACAACTCCGTGGCACCTTTTCC
** * **
1744056 TTCAAAGTTCACAACTCTATGGCACCCTTTTCCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCTTTT-CC
*
1744090 TTTTAAAGCCCACAACTCCGTGGCACCTTGTTCC
1 TTTT-AAGTCCACAACTCCGTGGCACCTT-TTCC
*
1744124 TTTTAAGTCCACAACTCCGTGGCATCTTTTTCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCTTTTCC
* *** *
1744157 TTTTAAGTCCACGACTTTATGGCACCCTTTCCCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCTTT-TCC
*
1744191 TTTTAAAGCCCACAACTCCGTGGCACCTTGTTCC
1 TTTT-AAGTCCACAACTCCGTGGCACCTT-TTCC
** *
1744225 TTTTAAGTCCACAACTCTATGGCATCTTTTTCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCTTTTCC
* * *
1744258 TTTTAAATCCATGAGACT--GTGGCACATTTTCCTC
1 TTTTAAGTCCA-CA-ACTCCGTGGCACCTTTT-C-C
*
1744292 TTTTAAAGCCCACAACTCCGTGGCACCTTATTCC
1 TTTT-AAGTCCACAACTCCGTGGCACCTT-TTCC
*
1744326 TTTTAAGTCCACAACTCCGTGGCATCTTTCTCC
1 TTTTAAGTCCACAACTCCGTGGCACCTTT-TCC
* * *
1744359 TTTTAAGCCCACAAGTCAGTGGCAACCTT
1 TTTTAAGTCCACAACTCCGTGGC-ACCTT
1744388 CAAAAGCACA
Statistics
Matches: 267, Mismatches: 45, Indels: 38
0.76 0.13 0.11
Matches are distributed among these distances:
31 17 0.06
32 13 0.05
33 132 0.49
34 51 0.19
35 52 0.19
36 2 0.01
ACGTcount: A:0.22, C:0.31, G:0.13, T:0.34
Consensus pattern (32 bp):
TTTTAAGTCCACAACTCCGTGGCACCTTTTCC
Found at i:1744197 original size:101 final size:101
Alignment explanation
Indices: 1744024--1744370 Score: 491
Period size: 101 Copynumber: 3.4 Consensus size: 101
1744014 GGCAATCTCT
* ** * * *
1744024 TTTTAAAGTCCACAACTCAGTGGCATC-TTTT-CTTCAAAGTTCACAACTCTATGGCACCCTTTT
1 TTTT-AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACGACTCTATGGCACCCTTTC
1744087 CCCTTTTAAAGCCCACAACTCCGTGGCACCTTGTTCC
65 CCCTTTTAAAGCCCACAACTCCGTGGCACCTTGTTCC
*
1744124 TTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACGACTTTATGGCACCCTTTCC
1 TTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACGACTCTATGGCACCCTTTCC
1744189 CCTTTTAAAGCCCACAACTCCGTGGCACCTTGTTCC
66 CCTTTTAAAGCCCACAACTCCGTGGCACCTTGTTCC
** * * ** * **
1744225 TTTTAAGTCCACAACTCTATGGCATCTTTTTCCTTTTAAATCCATGAGACTGTGGCACATTTTCC
1 TTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACGACTCTATGGCACCCTTTCC
* *
1744290 TCTTTTAAAGCCCACAACTCCGTGGCACCTTATTCC
66 CCTTTTAAAGCCCACAACTCCGTGGCACCTTGTTCC
* *
1744326 TTTTAAGTCCACAACTCCGTGGCATCTTTCTCCTTTTAAGCCCAC
1 TTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCAC
1744371 AAGTCAGTGG
Statistics
Matches: 220, Mismatches: 25, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
99 21 0.10
100 8 0.04
101 191 0.87
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.35
Consensus pattern (101 bp):
TTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACGACTCTATGGCACCCTTTCC
CCTTTTAAAGCCCACAACTCCGTGGCACCTTGTTCC
Found at i:1744204 original size:68 final size:67
Alignment explanation
Indices: 1744065--1744372 Score: 213
Period size: 68 Copynumber: 4.6 Consensus size: 67
1744055 CTTCAAAGTT
** * ** *
1744065 CACAACTCTATGGCACCCTT-TTCCCTTTTAAAGCCCACAACTCCGTGGCA-CCTTGT-TCCTTT
1 CACAACTCCGTGGCA-CCTTGTT-CCTTTT-AAGTCCACAACTCTATGGCACCCTT-TCCCCTTT
*
1744127 TAAGTC
62 TAAGCC
* * * *
1744133 CACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACGACTTTATGGCACCCTTTCCCCTTTTAAA
1 CACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCTATGGCACCCTTTCCCCTTTT-AA
1744198 GCC
65 GCC
* ** *
1744201 CACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCTATGGCA-TCTTTTTCCTTTTAAA
1 CACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCTATGGCACCCTTTCCCCTTTTAAG
*
1744265 TC
66 CC
* * * ** *
1744267 CATGAGACT--GTGGCACATT-TTCCTCTTTTAAAGCCCACAACTCCGTGGCA-CCTTAT-TCCT
1 CA-CA-ACTCCGTGGCACCTTGTT-C-CTTTT-AAGTCCACAACTCTATGGCACCCTT-TCCCCT
*
1744327 TTTAAGTC
60 TTTAAGCC
* *
1744335 CACAACTCCGTGGCATCTT-TCTCCTTTTAAGCCCACAA
1 CACAACTCCGTGGCACCTTGT-TCCTTTTAAGTCCACAA
1744373 GTCAGTGGCA
Statistics
Matches: 198, Mismatches: 29, Indels: 28
0.78 0.11 0.11
Matches are distributed among these distances:
65 2 0.01
66 44 0.22
67 41 0.21
68 109 0.55
69 2 0.01
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.34
Consensus pattern (67 bp):
CACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCTATGGCACCCTTTCCCCTTTTAAG
CC
Found at i:1744684 original size:91 final size:90
Alignment explanation
Indices: 1744449--1745080 Score: 738
Period size: 91 Copynumber: 7.0 Consensus size: 90
1744439 GCGTCTTCTT
* * *
1744449 TTAAGCCCAATATCCCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAAACCAATGT
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGT-ATCTTTAAGACCAATGT
1744514 CGCTGGCCTTGAATCAGCACATTGGCA
64 CGCTGGCCTTGAATCAGCACATTGGCA
* * *
1744541 TCTTTAAGTCTAATATCACTGGCCTTGAATCAGCATATTGGCACCTTG--TCTTTAAGACAAATG
1 ---TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTATCTTTAAGACCAATG
*
1744604 TCGCTGTCCTTGAATCAGCACATTGGCA
63 TCGCTGGCCTTGAATCAGCACATTGGCA
* *
1744632 -TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGACCAATGT
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGT-ATCTTTAAGACCAATGT
* *
1744696 CCCTGGCCTTGAATTAGCACATTGGCA
64 CGCTGGCCTTGAATCAGCACATTGGCA
**
1744723 CCTTTAAGTCCGGTATCGCTGGCCTTGAATCAGCATATTGGCACCTTG--TCTTTAAGACCAATG
1 ---TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTATCTTTAAGACCAATG
* *
1744786 TCACTGGCCTTGAATTAGCACATTGGCA
63 TCGCTGGCCTTGAATCAGCACATTGGCA
* * *
1744814 CCTTTAAGTCCAATATCGCTGGCCTTCAATCAGCATATTGGCACC-T-TATTTTTAAGACAAATG
1 ---TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTATCTTTAAGACCAATG
1744877 TCGCTGGCCTTGAATCAGCACATTGGCA
63 TCGCTGGCCTTGAATCAGCACATTGGCA
* * *
1744905 -TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGACTAATGT
1 TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGT-ATCTTTAAGACCAATGT
*
1744969 CCCTGGCCTTGAATCAGCACA-TGGCA
64 CGCTGGCCTTGAATCAGCACATTGGCA
** * * *
1744995 CCTTTAAGTCCGGTATCGCTGGCCTTGAATCAGCACATTGGCA-C-----T-TTTAAGTCCAATA
1 ---TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTATCTTTAAGACCAATG
*
1745053 TCGCTGGCCTTGAATCAGCATATTGGCA
63 TCGCTGGCCTTGAATCAGCACATTGGCA
1745081 CCTTGTCTTT
Statistics
Matches: 476, Mismatches: 42, Indels: 47
0.84 0.07 0.08
Matches are distributed among these distances:
85 30 0.06
86 6 0.01
87 75 0.16
88 3 0.01
89 1 0.00
90 7 0.01
91 237 0.50
93 1 0.00
94 40 0.08
95 76 0.16
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (90 bp):
TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTATCTTTAAGACCAATGTCG
CTGGCCTTGAATCAGCACATTGGCA
Found at i:1744990 original size:273 final size:272
Alignment explanation
Indices: 1744459--1745084 Score: 1019
Period size: 273 Copynumber: 2.3 Consensus size: 272
1744449 TTAAGCCCAA
* *
1744459 TATCCCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAAACCAATGTCGCTGGCCTT
1 TATCGCTGGCCTTGAATCAGCATATTGGCACC-TTG---TCTTTAAGACCAATGTCGCTGGCCTT
* * * *
1744524 GAATCAGCACATTGGCATCTTTAAGTCTAATATCACTGGCCTTGAATCAGCATATTGGCACCTTG
62 GAATCAGCACATTGGCACCTTTAAGTCCAATATCACTGGCCTTCAATCAGCATATTGGCACCTTA
*
1744589 TCTTTAAGACAAATGTCGCTGTCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTT
127 TCTTTAAGACAAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTT
*
1744654 GAATCAGCATATTGGCGCCTTTGTCATCTTTAAGACCAATGTCCCTGGCCTTGAATTAGCACATT
192 GAATCAGCATATTGGCGCCTTTGTCATCTTTAAGACCAATGTCCCTGGCCTTGAATCAGCACA-T
1744719 GGCACCTTTAAGTCCGG
256 GGCACCTTTAAGTCCGG
*
1744736 TATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCACTGGCCTTGAAT
1 TATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAAT
* * *
1744801 TAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTCAATCAGCATATTGGCACCTTATTTT
66 CAGCACATTGGCACCTTTAAGTCCAATATCACTGGCCTTCAATCAGCATATTGGCACCTTATCTT
1744866 TAAGACAAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAAT
131 TAAGACAAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAAT
*
1744931 CAGCATATTGGCGCCTTTGTCATCTTTAAGACTAATGTCCCTGGCCTTGAATCAGCACATGGCAC
196 CAGCATATTGGCGCCTTTGTCATCTTTAAGACCAATGTCCCTGGCCTTGAATCAGCACATGGCAC
1744996 CTTTAAGTCCGG
261 CTTTAAGTCCGG
* * *
1745008 TATCGCTGGCCTTGAATCAGCACATTGGCA-C---T-TTTAAGTCCAATATCGCTGGCCTTGAAT
1 TATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAAT
*
1745068 CAGCATATTGGCACCTT
66 CAGCACATTGGCACCTT
1745085 GTCTTTAAGA
Statistics
Matches: 330, Mismatches: 19, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
267 40 0.12
268 1 0.00
271 1 0.00
272 47 0.14
273 207 0.63
276 3 0.01
277 31 0.09
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (272 bp):
TATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAAT
CAGCACATTGGCACCTTTAAGTCCAATATCACTGGCCTTCAATCAGCATATTGGCACCTTATCTT
TAAGACAAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAAT
CAGCATATTGGCGCCTTTGTCATCTTTAAGACCAATGTCCCTGGCCTTGAATCAGCACATGGCAC
CTTTAAGTCCGG
Found at i:1745046 original size:224 final size:226
Alignment explanation
Indices: 1744789--1745315 Score: 878
Period size: 224 Copynumber: 2.3 Consensus size: 226
1744779 ACCAATGTCA
* * *
1744789 CTGGCCTTGAATTAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTCAATCAGCATATTG
1 CTGGCCTTGAATCAGCACATTGGCACTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
*
1744854 GCACCTTATTTTTAAGACAAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCG
66 GCACCTTATCTTTAAGACAAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCG
* *
1744919 CTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGACTAATGTCCCTGGCCTTGAATC
131 CTGGCCTTAAATCAGCATATTGGCGCCTTTGTCATCTTTAAGACCAATGTCCCTGGCCTTGAATC
1744984 AGCAC-A-TGGCACCTTTAAGTCCGGTATCG
196 AGCACTATTGGCACCTTTAAGTCCGGTATCG
1745013 CTGGCCTTGAATCAGCACATTGGCACTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
1 CTGGCCTTGAATCAGCACATTGGCACTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
*
1745078 GCACCTTGTCTTTAAGACAAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCG
66 GCACCTTATCTTTAAGACAAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCG
1745143 CTGGCCTTAAATCAGCATATTGGCGCCTTTGTCATCTTTAAGACCAATGTCCCTGGCCTTGAATC
131 CTGGCCTTAAATCAGCATATTGGCGCCTTTGTCATCTTTAAGACCAATGTCCCTGGCCTTGAATC
1745208 AGCACTATTGGCACCTTTAAGTCCGGTATCG
196 AGCACTATTGGCACCTTTAAGTCCGGTATCG
* * * * *
1745239 CTGGCCTTGAATCAGAATATTGGCACCTTGTCTTTAAGACCAATGTCACTGGCCTTGAATCAGCA
1 CTGGCCTTGAATCAGCACATTGGCA-C---T-TTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
*
1745304 CATTGGCACCTT
61 TATTGGCACCTT
1745316 TAAGTCCAAT
Statistics
Matches: 283, Mismatches: 13, Indels: 7
0.93 0.04 0.02
Matches are distributed among these distances:
224 193 0.68
225 1 0.00
226 46 0.16
227 1 0.00
230 1 0.00
231 41 0.14
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (226 bp):
CTGGCCTTGAATCAGCACATTGGCACTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
GCACCTTATCTTTAAGACAAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATCG
CTGGCCTTAAATCAGCATATTGGCGCCTTTGTCATCTTTAAGACCAATGTCCCTGGCCTTGAATC
AGCACTATTGGCACCTTTAAGTCCGGTATCG
Found at i:1745121 original size:91 final size:92
Alignment explanation
Indices: 1745010--1745653 Score: 679
Period size: 101 Copynumber: 6.7 Consensus size: 92
1745000 AAGTCCGGTA
1745010 TCGCTGGCCTTGAATCAGCACATTGGCACTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
1 TCGCTGGCCTTGAATCAGCACATTGGCACTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
*
1745075 TTGGCACC-TTGTCTTTAAGACAAATG
66 TTGGCACCTTTGTCTTTAAGACCAATG
* *
1745101 TCGCTGGCCTTGAATCAGCACATTGGCA----TAAGCCCAATATCGCTGGCCTTAAATCAGCATA
1 TCGCTGGCCTTGAATCAGCACATTGGCACTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
*
1745162 TTGGCGCCTTTGTCATCTTTAAGACCAATG
66 TTGGCACCTTTG---TCTTTAAGACCAATG
* * ** *
1745192 TCCCTGGCCTTGAATCAGCACTATTGGCACCTTTAAGTCCGGTATCGCTGGCCTTGAATCAGAAT
1 TCGCTGGCCTTGAATCAGCAC-ATTGGCACTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
1745257 ATTGGCACC-TTGTCTTTAAGACCAATG
65 ATTGGCACCTTTGTCTTTAAGACCAATG
* * *
1745284 TCACTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATA
1 TCGCTGGCCTTGAATCAGCACATTGGCACTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
** * *
1745349 TTGGTGCCTTCATCATCTTTAAGTCCAATG
66 TTGGCACCTT--T-GTCTTTAAGACCAATG
1745379 TCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATC
1 TCGCTGGCCTTGAATCAGCACATTGGCA----C-T-TTTAAGTCCAATATCGCTGGCCTTGAATC
* *
1745444 AGCATATTGGCTCCTTTGTCATCTTTAAGTCCAATG
60 AGCATATTGGCACCTTTG---TCTTTAAGACCAATG
**
1745480 TCGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGGTATCGCTGGCCTTGAATC
1 TCGCTGGCCTTGAATCAGCACATTGGCA----C-T-TTTAAGTCCAATATCGCTGGCCTTGAATC
* * ** *
1745545 AACATATTGGCATCTTTAACATTCCTAAGCCCAATG
60 AGCATATTGGCACCTTTGTC-TT--TAAGACCAATG
* ** * * * *
1745581 TCGCTAGCCTTGCCTCAGCACATTGGCATGTTTCTTCAAGTCTAAATGTCGCTGGCCATGAATCA
1 TCGCTGGCCTTGAATCAGCACATTGGCA--CTT-TT-AAGTC-CAATATCGCTGGCCTTGAATCA
*
1745646 GCACATTG
61 GCATATTG
1745654 TCATTCTTCG
Statistics
Matches: 479, Mismatches: 46, Indels: 47
0.84 0.08 0.08
Matches are distributed among these distances:
87 38 0.08
88 3 0.01
91 108 0.23
92 43 0.09
94 1 0.00
95 44 0.09
96 35 0.07
97 1 0.00
98 4 0.01
99 10 0.02
100 23 0.05
101 169 0.35
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (92 bp):
TCGCTGGCCTTGAATCAGCACATTGGCACTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
TTGGCACCTTTGTCTTTAAGACCAATG
Found at i:1745391 original size:52 final size:50
Alignment explanation
Indices: 1745313--1745653 Score: 325
Period size: 52 Copynumber: 6.8 Consensus size: 50
1745303 ACATTGGCAC
* * *
1745313 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGTGCCTTCATCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG-G-CATCTTCAT
* *
1745365 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATT-GGCATCTTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGGCATCTTCAT
* * *
1745414 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCTCCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG-GCATCT-TCAT
* *
1745466 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATT-GGCATCTTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGGCATCTTCAT
** * * *
1745515 CTTTAAGTCCGGTATCGCTGGCCTTGAATCAACATATT-GGCATCTTTAA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGGCATCTTCAT
* * * ** * *
1745564 CATTCCTAAGCCCAATGTCGCTAGCCTTGCCTCAGCACATT-GGCATGTT--T
1 C-TT--TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGGCATCTTCAT
* * * * *
1745614 CTTCAAGTCTAAATGTCGCTGGCCATGAATCAGCACATTG
1 CTTTAAGTC-CAATATCGCTGGCCTTGAATCAGCATATTG
1745654 TCATTCTTCG
Statistics
Matches: 241, Mismatches: 40, Indels: 19
0.80 0.13 0.06
Matches are distributed among these distances:
47 4 0.02
48 24 0.10
49 92 0.38
50 8 0.03
51 5 0.02
52 108 0.45
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (50 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGGCATCTTCAT
Found at i:1751659 original size:28 final size:30
Alignment explanation
Indices: 1751626--1751698 Score: 109
Period size: 28 Copynumber: 2.6 Consensus size: 30
1751616 AAATAAAGCT
*
1751626 GGGGTTAGAGTATCCCCTC-A-GAAATAAC
1 GGGGTTGGAGTATCCCCTCGATGAAATAAC
1751654 GGGGTTGGAGTAT--CCTCGATGAAATAAC
1 GGGGTTGGAGTATCCCCTCGATGAAATAAC
1751682 GGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
1751699 AATTGTGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
26 4 0.10
27 1 0.03
28 33 0.82
30 2 0.05
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (30 bp):
GGGGTTGGAGTATCCCCTCGATGAAATAAC
Found at i:1751741 original size:158 final size:159
Alignment explanation
Indices: 1751531--1751832 Score: 378
Period size: 158 Copynumber: 1.9 Consensus size: 159
1751521 AACGGTGCTA
* * * * *
1751531 GAGTATCCCCGATTATGGAAAATAGGTGTTTTGGAAGTAAAATCGGGGTTGGAGTATC-CCTGAT
1 GAGTATCCCCAATTATGAAAAATAGGTGTTTTGGAAATAAAATCGGAGTTGGAATATCTCC-GAT
* * * *
1751595 TAT-GAGAAATCAATATTTTAAAAATAAAGCTGGGGTTAGAGTA-TCCCCTCAGAAATAACGGGG
65 TATGGAG-AATCAATATTTTAAAAATAAAACCGGGGTTAGAGTATTCCCCTCAAAAATAACAGGG
*
1751658 TTGGAGTATCCTCGATGAAATAACGGGGTTG
129 TTGGAGTATCCCCGATGAAATAACGGGGTTG
*
1751689 GAGTATCCCCAATTGTGAAAAATTA-GTGTTTTGGAAATAAAATCGGAGTTGGAATATCTCCGAT
1 GAGTATCCCCAATTATGAAAAA-TAGGTGTTTTGGAAATAAAATCGGAGTTGGAATATCTCCGAT
* *** * * * *
1751753 TGTGGAGAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATTCTCCTCAAAAATAACAGGGT
65 TATGGAGAATCAATATTTTAAAAATAAAACCGGGGTTAGAGTATTCCCCTCAAAAATAACAGGGT
1751818 TGGAGTATCCCCGAT
130 TGGAGTATCCCCGAT
1751833 TATGAAAAAT
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
158 82 0.68
159 39 0.32
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (159 bp):
GAGTATCCCCAATTATGAAAAATAGGTGTTTTGGAAATAAAATCGGAGTTGGAATATCTCCGATT
ATGGAGAATCAATATTTTAAAAATAAAACCGGGGTTAGAGTATTCCCCTCAAAAATAACAGGGTT
GGAGTATCCCCGATGAAATAACGGGGTTG
Found at i:1751755 original size:51 final size:51
Alignment explanation
Indices: 1751685--1751801 Score: 144
Period size: 51 Copynumber: 2.3 Consensus size: 51
1751675 AAATAACGGG
* * *
1751685 GTTGGAGTATCCCCAATTGTGAAAAATTAGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCTCCAATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGA
* * * * * *
1751736 GTTGGAATATCTCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCTCCAATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGA
1751787 GTTGGAGTATTCTCC
1 GTTGGAGTA-TCTCC
1751802 TCAAAAATAA
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
51 50 0.91
52 5 0.09
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCTCCAATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGGA
Found at i:1751869 original size:80 final size:80
Alignment explanation
Indices: 1751736--1751956 Score: 317
Period size: 80 Copynumber: 2.8 Consensus size: 80
1751726 TAAAATCGGA
* * * * * * *
1751736 GTTGGAATATCTCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATTCTC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATTCCC
1751801 CTCAAAAATAACAGG
66 CTCAAAAATAACAGG
1751816 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTA-TCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATTCCC
* *
1751880 CTCGAAAATAACGGG
66 CTCAAAAATAACAGG
*
1751895 GTTGGAGTATCCCCG---ATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTA-TCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATTCCC
1751956 C
66 C
1751957 GATTAAGAAA
Statistics
Matches: 131, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
76 46 0.35
79 31 0.24
80 54 0.41
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.28
Consensus pattern (80 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATTCCC
CTCAAAAATAACAGG
Done.