Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008942.1 Hibiscus syriacus cultivar Beakdansim tig00112261_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2383254
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 11
Found at i:1556586 original size:20 final size:19
Alignment explanation
Indices: 1556540--1556647 Score: 82
Period size: 20 Copynumber: 5.8 Consensus size: 19
1556530 GCGATTCTCT
**
1556540 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
*
1556559 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTT-CG
**
1556579 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
1556598 CATTGCGAT--TC---TCT
1 CGTTGCGATAGTCATTTCG
*
1556612 CGTTGCGATAGTAATTTCCG
1 CGTTGCGATAGTCATTT-CG
*
1556632 CGTTGCGATAGACATT
1 CGTTGCGATAGTCATT
1556648 AAGATGATTG
Statistics
Matches: 69, Mismatches: 13, Indels: 13
0.73 0.14 0.14
Matches are distributed among these distances:
14 10 0.14
16 1 0.01
17 2 0.03
19 25 0.36
20 31 0.45
ACGTcount: A:0.17, C:0.22, G:0.21, T:0.40
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:1556606 original size:72 final size:71
Alignment explanation
Indices: 1556475--1556647 Score: 230
Period size: 72 Copynumber: 2.5 Consensus size: 71
1556465 CTAAATTCGA
*
1556475 GTTGCGATTTTCATTTCGCATTGCGAT--TC---CCTCGTTGCAATTTTCATTTCGCATTGCGAT
1 GTTGCGATTTTCATTTCGCATTGCGATAGTCATTCCGCGTTGCAATTTTCATTTCGCATTGCGAT
1556535 TCTCTC
66 TCTCTC
*
1556541 GTTGCGATTTTCATTTCGCATTGCGATAGTCATTTCCGCGTTGCGATTTTCATTTCGCATTGCGA
1 GTTGCGATTTTCATTTCGCATTGCGATAGTCA-TTCCGCGTTGCAATTTTCATTTCGCATTGCGA
1556606 TTCTCTC
65 TTCTCTC
** * * *
1556613 GTTGCGATAGTAATTTCCGCGTTGCGATAGACATT
1 GTTGCGATTTTCATTT-CGCATTGCGATAGTCATT
1556648 AAGATGATTG
Statistics
Matches: 93, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
66 27 0.29
68 2 0.02
72 50 0.54
73 14 0.15
ACGTcount: A:0.16, C:0.23, G:0.20, T:0.42
Consensus pattern (71 bp):
GTTGCGATTTTCATTTCGCATTGCGATAGTCATTCCGCGTTGCAATTTTCATTTCGCATTGCGAT
TCTCTC
Found at i:1556629 original size:33 final size:33
Alignment explanation
Indices: 1556475--1556620 Score: 211
Period size: 33 Copynumber: 4.2 Consensus size: 33
1556465 CTAAATTCGA
*
1556475 GTTGCGATTTTCATTTCGCATTGCGATTCCCTC
1 GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
*
1556508 GTTGCAATTTTCATTTCGCATTGCGATTCTCTC
1 GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
*
1556541 GTTGCGATTTTCATTTCGCATTGCGATAGTCATTTCCGC
1 GTTGCGATTTTCATTTCGCATTGCGAT--TC---T-CTC
1556580 GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
1556613 GTTGCGAT
1 GTTGCGAT
1556621 AGTAATTTCC
Statistics
Matches: 102, Mismatches: 5, Indels: 12
0.86 0.04 0.10
Matches are distributed among these distances:
33 67 0.66
34 1 0.01
35 2 0.02
37 2 0.02
38 1 0.01
39 29 0.28
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (33 bp):
GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
Found at i:1560082 original size:20 final size:19
Alignment explanation
Indices: 1560061--1560340 Score: 152
Period size: 20 Copynumber: 13.9 Consensus size: 19
1560051 GCGATAGTCA
*
1560061 GAATCTCGTTGCGATTTAC
1 GAATCGCGTTGCGATTTAC
* * *
1560080 AGATTCGCATTGTGATTTAC
1 -GAATCGCGTTGCGATTTAC
* *
1560100 GTATTCGCATTGCGATTTAC
1 G-AATCGCGTTGCGATTTAC
* *
1560120 GTATTCGCATTGCGATTTAC
1 G-AATCGCGTTGCGATTTAC
* * *
1560140 GGATACGCATTGCGATTTAT
1 GAAT-CGCGTTGCGATTTAC
* *
1560160 GTATTCTCGTTGCGATTTA-
1 G-AATCGCGTTGCGATTTAC
*
1560179 TAGATACGCGTTGCGATTTAC
1 GA-AT-CGCGTTGCGATTTAC
1560200 -AGATACGCGTTGCGATTTAC
1 GA-AT-CGCGTTGCGATTTAC
* *
1560220 GTATTCTCGTTGCGATTTAC
1 G-AATCGCGTTGCGATTTAC
*
1560240 GGATACGCGTTGCGATTTTAC
1 GAAT-CGCGTTGCGA-TTTAC
* ** *
1560261 GTATTTTCGGTGCGATTTAC
1 G-AATCGCGTTGCGATTTAC
*
1560281 GGATACGCGTTGCGATTTTAC
1 GAAT-CGCGTTGCGA-TTTAC
* * *
1560302 GGATGCTCGTTGCGATAGT-C
1 GAAT-CGCGTTGCGAT-TTAC
1560322 AGAATCGCGTTGCGATTTA
1 -GAATCGCGTTGCGATTTA
1560341 TATGTTCGCG
Statistics
Matches: 208, Mismatches: 36, Indels: 32
0.75 0.13 0.12
Matches are distributed among these distances:
18 1 0.00
19 6 0.03
20 162 0.78
21 37 0.18
22 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (19 bp):
GAATCGCGTTGCGATTTAC
Found at i:1560126 original size:40 final size:39
Alignment explanation
Indices: 1560069--1560378 Score: 219
Period size: 40 Copynumber: 7.7 Consensus size: 39
1560059 CAGAATCTCG
* *
1560069 TTGCGATTTACAGATTCGCATTGTGATTTACGTATTCGCA
1 TTGCGATTTAC-GATTCGCGTTGCGATTTACGTATTCGCA
* * *
1560109 TTGCGATTTACGTATTCGCATTGCGATTTACGGATACGCA
1 TTGCGATTTACG-ATTCGCGTTGCGATTTACGTATTCGCA
* * * * *
1560149 TTGCGATTTATGTATTCTCGTTGCGATTTATAG-ATACGCG
1 TTGCGATTTACG-ATTCGCGTTGCGATTTA-CGTATTCGCA
* * *
1560189 TTGCGATTTACAGATACGCGTTGCGATTTACGTATTCTCG
1 TTGCGATTTAC-GATTCGCGTTGCGATTTACGTATTCGCA
* ** *
1560229 TTGCGATTTACGGATACGCGTTGCGATTTTACGTATTTTCG
1 TTGCGATTTAC-GATTCGCGTTGCGA-TTTACGTATTCGCA
* * * * * *
1560270 GTGCGATTTACGGATACGCGTTGCGATTTTACGGATGCTCG
1 TTGCGATTTAC-GATTCGCGTTGCGA-TTTACGTATTCGCA
* * ** * *
1560311 TTGCGATAGT-CAGAATCGCGTTGCGATTTATATGTTCGCG
1 TTGCGAT-TTAC-GATTCGCGTTGCGATTTACGTATTCGCA
* *
1560351 TTGCGATTTTCATATTCGCGTTGCGATT
1 TTGCGATTTAC-GATTCGCGTTGCGATT
1560379 CTGGAAAATC
Statistics
Matches: 229, Mismatches: 34, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.01
40 154 0.67
41 71 0.31
42 1 0.00
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.38
Consensus pattern (39 bp):
TTGCGATTTACGATTCGCGTTGCGATTTACGTATTCGCA
Found at i:1560149 original size:60 final size:59
Alignment explanation
Indices: 1560067--1560257 Score: 265
Period size: 60 Copynumber: 3.2 Consensus size: 59
1560057 GTCAGAATCT
* * * * *
1560067 CGTTGCGATTTACAGATTCGCATTGTGATTTACGTATTCGCATTGCGATTTACGTATTCG
1 CGTTGCGATTTACAGATACGCATTGCGATTTACGTATTCTCGTTGCGATTTACG-ATACG
* * * *
1560127 CATTGCGATTTACGGATACGCATTGCGATTTATGTATTCTCGTTGCGATTTATAGATACG
1 CGTTGCGATTTACAGATACGCATTGCGATTTACGTATTCTCGTTGCGATTTA-CGATACG
*
1560187 CGTTGCGATTTACAGATACGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACG
1 CGTTGCGATTTACAGATACGCATTGCGATTTACGTATTCTCGTTGCGATTTAC-GATACG
1560247 CGTTGCGATTT
1 CGTTGCGATTT
1560258 TACGTATTTT
Statistics
Matches: 115, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
60 114 0.99
61 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.38
Consensus pattern (59 bp):
CGTTGCGATTTACAGATACGCATTGCGATTTACGTATTCTCGTTGCGATTTACGATACG
Found at i:1560339 original size:41 final size:41
Alignment explanation
Indices: 1560064--1560317 Score: 248
Period size: 40 Copynumber: 6.3 Consensus size: 41
1560054 ATAGTCAGAA
* * * *
1560064 TCTCGTTGCGATTTACAGATTCGCATTGTGA-TTTACGTAT
1 TCTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTAT
* * * * * *
1560104 TCGCATTGCGATTTACGTATTCGCATTGCGA-TTTACGGAT
1 TCTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTAT
* * * * * * *
1560144 ACGCATTGCGATTTATGTATTCTCGTTGCGATTTATA-G-AT
1 TCTCGTTGCGATTTACGGATACGCGTTGCGATTT-TACGTAT
* * *
1560184 ACGCGTTGCGATTTACAGATACGCGTTGCGA-TTTACGTAT
1 TCTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTAT
1560224 TCTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTAT
1 TCTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTAT
* * *
1560265 TTTCGGTGCGATTTACGGATACGCGTTGCGATTTTACGGAT
1 TCTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTAT
*
1560306 GCTCGTTGCGAT
1 TCTCGTTGCGAT
1560318 AGTCAGAATC
Statistics
Matches: 184, Mismatches: 25, Indels: 9
0.84 0.11 0.04
Matches are distributed among these distances:
38 2 0.01
39 3 0.02
40 118 0.64
41 59 0.32
42 2 0.01
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (41 bp):
TCTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGTAT
Found at i:1560349 original size:20 final size:20
Alignment explanation
Indices: 1560326--1560378 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
1560316 ATAGTCAGAA
*
1560326 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
1560346 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
1560366 TCGCGTTGCGATT
1 TCGCGTTGCGATT
1560379 CTGGAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.13, C:0.19, G:0.25, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:1560477 original size:20 final size:19
Alignment explanation
Indices: 1560428--1560481 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
1560418 ATTCTTCATA
*
1560428 ATCGCGTTACGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
*
1560447 AACG-GATTTGCGATTCTGGAG
1 ATCGCG--TTGCGATTCTGG-G
1560468 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
1560482 TTTATTTCGC
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 1 0.04
19 3 0.11
20 19 0.68
21 4 0.14
22 1 0.04
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:1561451 original size:13 final size:13
Alignment explanation
Indices: 1561433--1561463 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
1561423 GTGCTCGAGA
1561433 TGTCTTCGTCATC
1 TGTCTTCGTCATC
1561446 TGTCTTCGTCATC
1 TGTCTTCGTCATC
1561459 TGTCT
1 TGTCT
1561464 CCGAGGATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.06, C:0.29, G:0.16, T:0.48
Consensus pattern (13 bp):
TGTCTTCGTCATC
Found at i:1562570 original size:45 final size:45
Alignment explanation
Indices: 1562488--1562707 Score: 363
Period size: 45 Copynumber: 4.9 Consensus size: 45
1562478 CATTTATCCC
*
1562488 ATATACTTACCATTTATTACCATAAGCTTGTAAGCTTATTTTACCA
1 ATATACTTACCATTTATT-CCATAAGCTCGTAAGCTTATTTTACCA
1562534 ATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCA
1 ATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCA
* *
1562579 ATATACTTACCATTTATTCCATAAGCTCATAAGCTTATTTTACAA
1 ATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCA
1562624 ATATACTTACCATTTATTCCATAAGC-CTGTAAGCTTATTTTACCA
1 ATATACTTACCATTTATTCCATAAGCTC-GTAAGCTTATTTTACCA
* *
1562669 ATATACTTGCCA-TTATTCTATAAGCTCGTAAGCTTATTT
1 ATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
1562708 GCTAGTTTTT
Statistics
Matches: 165, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
44 25 0.15
45 122 0.74
46 18 0.11
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (45 bp):
ATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCA
Found at i:1562868 original size:40 final size:40
Alignment explanation
Indices: 1562789--1562869 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
1562779 ATAGGAGTCA
* * * *
1562789 AATATTGCACCGAAGTGCTGAGGTCGAGCTTTGCTCACCT
1 AATAATGCACCGAAGTGCTGAGGTCGAGATTTACCCACCT
* * *
1562829 AATAATGCACCGTAGTGCTGAGGTTGGGATTTACCCACCT
1 AATAATGCACCGAAGTGCTGAGGTCGAGATTTACCCACCT
1562869 A
1 A
1562870 GTACACCGTA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (40 bp):
AATAATGCACCGAAGTGCTGAGGTCGAGATTTACCCACCT
Found at i:1572185 original size:45 final size:46
Alignment explanation
Indices: 1572134--1572239 Score: 151
Period size: 46 Copynumber: 2.3 Consensus size: 46
1572124 TTAATCAAGG
* **
1572134 CTTTTGATTATTGGGTTGTCAAAAG-AAAAAGTAAAGGATTAGTTC
1 CTTTTGATTATTGGGTTGGCAAAAGTAAAAACCAAAGGATTAGTTC
** *
1572179 CTTTTGATTATTATGTTGGCAAAAGTTAAAACCAAAGGATTAGTTC
1 CTTTTGATTATTGGGTTGGCAAAAGTAAAAACCAAAGGATTAGTTC
1572225 CTTTTGATTATTGGG
1 CTTTTGATTATTGGG
1572240 CTGCGAAAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
45 22 0.42
46 30 0.58
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (46 bp):
CTTTTGATTATTGGGTTGGCAAAAGTAAAAACCAAAGGATTAGTTC
Found at i:1572640 original size:57 final size:58
Alignment explanation
Indices: 1572455--1572920 Score: 435
Period size: 58 Copynumber: 8.1 Consensus size: 58
1572445 TATCTTGCGT
* * * * *
1572455 TGATTCTAAATTTGTAAGGGAAATAAATTATTAAATTTTATTTTCTTAAGAATCTTAAA
1 TGATTCTAACTTTGTAAGGAAAATAAATTATTGAA-TTTATTTCCTTGAGAATCTTAAA
* * *
1572514 TGATTCTAACTTTGTAAGTAAAATAAATCATTGAA-TTATTT-TTTGAGAATC-TAGAA
1 TGATTCTAACTTTGTAAGGAAAATAAATTATTGAATTTATTTCCTTGAGAATCTTA-AA
* * * *
1572570 TGATTCTAACTTTGTTAGGGAAATAAATTATTGGA-TTATTTCCTTGATAATCTTAAA
1 TGATTCTAACTTTGTAAGGAAAATAAATTATTGAATTTATTTCCTTGAGAATCTTAAA
* ** *
1572627 TGATTCTAACTTTGTAAGCAAAATAAATCGTTGAATTTATTTCCTTGAGAAT-GTAGAA
1 TGATTCTAACTTTGTAAGGAAAATAAATTATTGAATTTATTTCCTTGAGAATCTTA-AA
* * * * *
1572685 TGATTCTAACCTTGTTAGGGAAATAAATTATTAAATTTATTTCCTTGAGAATCATAAA
1 TGATTCTAACTTTGTAAGGAAAATAAATTATTGAATTTATTTCCTTGAGAATCTTAAA
* * * * * * *
1572743 TGATTCTAACTTAGTAAGGAAAATAAATTGTCGAATTT-TTTTCTTGAGAACCGTGAA
1 TGATTCTAACTTTGTAAGGAAAATAAATTATTGAATTTATTTCCTTGAGAATCTTAAA
* ** * * * *
1572800 TGATTCTATCTTT-TAAAAAGAAATAAATTGTTAAATTTATTTTCTTTAGAATCTTAAA
1 TGATTCTAACTTTGTAAGGA-AAATAAATTATTGAATTTATTTCCTTGAGAATCTTAAA
* * * ** * * * *
1572858 TGATTCT-ATTTTATAAAAGTTAATAAATTGTTAAATTTATTTTCTTCAGAATCTTAAA
1 TGATTCTAACTTTGT-AAGGAAAATAAATTATTGAATTTATTTCCTTGAGAATCTTAAA
1572916 TGATT
1 TGATT
1572921 ATATTTTCTT
Statistics
Matches: 340, Mismatches: 57, Indels: 21
0.81 0.14 0.05
Matches are distributed among these distances:
55 2 0.01
56 50 0.15
57 92 0.27
58 161 0.47
59 35 0.10
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.42
Consensus pattern (58 bp):
TGATTCTAACTTTGTAAGGAAAATAAATTATTGAATTTATTTCCTTGAGAATCTTAAA
Found at i:1572687 original size:115 final size:115
Alignment explanation
Indices: 1572455--1572865 Score: 524
Period size: 115 Copynumber: 3.6 Consensus size: 115
1572445 TATCTTGCGT
* * *
1572455 TGATTCTAAATTTGTAAGGGAAATAAATTATTAAATTTTATTTTCTTAAGAATCTTAAATGATTC
1 TGATTCTAACTTTGTAAGGGAAATAAATTATTAAA-TTTATTTCCTTGAGAATCTTAAATGATTC
* * * *
1572520 TAACTTTGTAAGTAAAATAAATCATTGAA-TTATTTTTTGAGAATCTAGAA
65 TAACTTTGTAAGCAAAATAAATCGTTGAATTTATTTCTTGAGAATGTAGAA
* ** *
1572570 TGATTCTAACTTTGTTAGGGAAATAAATTATTGGA-TTATTTCCTTGATAATCTTAAATGATTCT
1 TGATTCTAACTTTGTAAGGGAAATAAATTATTAAATTTATTTCCTTGAGAATCTTAAATGATTCT
1572634 AACTTTGTAAGCAAAATAAATCGTTGAATTTATTTCCTTGAGAATGTAGAA
66 AACTTTGTAAGCAAAATAAATCGTTGAATTTATTT-CTTGAGAATGTAGAA
* * *
1572685 TGATTCTAACCTTGTTAGGGAAATAAATTATTAAATTTATTTCCTTGAGAATCATAAATGATTCT
1 TGATTCTAACTTTGTAAGGGAAATAAATTATTAAATTTATTTCCTTGAGAATCTTAAATGATTCT
* * * * * *
1572750 AACTTAGTAAGGAAAATAAATTGTCGAATTTTTTTCTTGAGAACCGT-GAA
66 AACTTTGTAAGCAAAATAAATCGTTGAATTTATTTCTTGAGAA-TGTAGAA
* ** * * *
1572800 TGATTCTATCTTT-TAAAAAGAAATAAATTGTTAAATTTATTTTCTTTAGAATCTTAAATGATTC
1 TGATTCTAACTTTGT-AAGGGAAATAAATTATTAAATTTATTTCCTTGAGAATCTTAAATGATTC
1572864 TA
65 TA
1572866 TTTTATAAAA
Statistics
Matches: 260, Mismatches: 31, Indels: 10
0.86 0.10 0.03
Matches are distributed among these distances:
113 52 0.20
114 7 0.03
115 142 0.55
116 59 0.23
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.42
Consensus pattern (115 bp):
TGATTCTAACTTTGTAAGGGAAATAAATTATTAAATTTATTTCCTTGAGAATCTTAAATGATTCT
AACTTTGTAAGCAAAATAAATCGTTGAATTTATTTCTTGAGAATGTAGAA
Found at i:1572883 original size:115 final size:117
Alignment explanation
Indices: 1572455--1572960 Score: 482
Period size: 115 Copynumber: 4.4 Consensus size: 117
1572445 TATCTTGCGT
** * * *
1572455 TGATTCTAAATTTGTAAGGGAAATAAATTATTAAATTTTATTTTCTTAAGAATCTTAAATGATTC
1 TGATTCTATCTTTCTAAAGGAAATAAATTATTAAA-TTTATTTTCTTGAGAATCTTAAATGATTC
* *
1572520 TAACTTTGT-AAGTAAAATAAATCATTGAA-TTATTTT-TTGAGAATC-TAGAA
65 TAACTTTATAAAGT-AAATAAATCGTTGAATTTATTTTCTTGAGAATCGTAGAA
* * * * ** * *
1572570 TGATTCTAACTTTGTTAGGGAAATAAATTATTGGA-TTATTTCCTTGATAATCTTAAATGATTCT
1 TGATTCTATCTTTCTAAAGGAAATAAATTATTAAATTTATTTTCTTGAGAATCTTAAATGATTCT
* * *
1572634 AACTTTGT-AAGCAAAATAAATCGTTGAATTTATTTCCTTGAGAAT-GTAGAA
66 AACTTTATAAAG-TAAATAAATCGTTGAATTTATTTTCTTGAGAATCGTAGAA
* * * * * * *
1572685 TGATTCTAACCTTGTTAGGGAAATAAATTATTAAATTTATTTCCTTGAGAATCATAAATGATTCT
1 TGATTCTATCTTTCTAAAGGAAATAAATTATTAAATTTATTTTCTTGAGAATCTTAAATGATTCT
* * * * *
1572750 AAC-TTAGTAAGGAAAATAAATTGTCGAATTT-TTTTCTTGAGAACCGT-GAA
66 AACTTTA-TAAAGTAAATAAATCGTTGAATTTATTTTCTTGAGAATCGTAGAA
* * *
1572800 TGATTCTATCTTT-TAAAAAGAAATAAATTGTTAAATTTATTTTCTTTAGAATCTTAAATGATTC
1 TGATTCTATCTTTCT-AAAGGAAATAAATTATTAAATTTATTTTCTTGAGAATCTTAAATGATTC
* * * * * *
1572864 T-ATTTTATAAAAGTTAATAAATTGTTAAATTTATTTTCTTCAGAATCTTA-AA
65 TAACTTTAT-AAAGTAAATAAATCGTTGAATTTATTTTCTTGAGAATCGTAGAA
* *
1572916 TGATTATAT-TTTCTTAAAGGAAATAAATTGTTAAATTTATTTTCT
1 TGATTCTATCTTTC-TAAAGGAAATAAATTATTAAATTTATTTTCT
1572961 CGGTGATCTT
Statistics
Matches: 335, Mismatches: 41, Indels: 29
0.83 0.10 0.07
Matches are distributed among these distances:
113 51 0.15
114 9 0.03
115 170 0.51
116 102 0.30
117 3 0.01
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.43
Consensus pattern (117 bp):
TGATTCTATCTTTCTAAAGGAAATAAATTATTAAATTTATTTTCTTGAGAATCTTAAATGATTCT
AACTTTATAAAGTAAATAAATCGTTGAATTTATTTTCTTGAGAATCGTAGAA
Found at i:1572885 original size:173 final size:171
Alignment explanation
Indices: 1572455--1572920 Score: 467
Period size: 173 Copynumber: 2.7 Consensus size: 171
1572445 TATCTTGCGT
* ** *
1572455 TGATTCTAAATTTGT-AAGGGAAATAAATTATTAAATTTTATTTTCTTAAGAATCTTAAATGATT
1 TGATTCTAACTTTGTAAAAAGAAATAAATTGTTAAA-TTTATTTTCTTAAGAATCTTAAATGATT
* * * *
1572519 CTAACTTTGTAAGTAAAATAAATCATTGAA-TTATTTTTTGAGAATCTAGAATGATTCTAACTTT
65 CTAACTTTGTAAGT-AAATAAATTATTAAATTTATTTCTTGAGAATCTA-AATGATTCTAACTTA
* * * * * * *
1572583 GTTAGGGAAATAAATTATTGGATTATTTCCTTGATAATCTTAAA
128 GTAAGGAAAATAAATTATCGAATTATTTCCTTGAGAACCGTAAA
** * * * * *
1572627 TGATTCTAACTTTGTAAGCA-AAATAAATCGTTGAATTTATTTCCTTGAGAAT-GTAGAATGATT
1 TGATTCTAACTTTGTAAAAAGAAATAAATTGTTAAATTTATTTTCTTAAGAATCTTA-AATGATT
* * *
1572690 CTAACCTTGTTAGGGAAATAAATTATTAAATTTATTTCCTTGAGAATCATAAATGATTCTAACTT
65 CTAACTTTG-TAAGTAAATAAATTATTAAATTTATTT-CTTGAGAATC-TAAATGATTCTAACTT
* * * *
1572755 AGTAAGGAAAATAAATTGTCGAATTTTTTTCTTGAGAACCGTGAA
127 AGTAAGGAAAATAAATTATCGAATTATTTCCTTGAGAACCGTAAA
* *
1572800 TGATTCTATCTTT-TAAAAAGAAATAAATTGTTAAATTTATTTTCTTTAGAATCTTAAATGATTC
1 TGATTCTAACTTTGTAAAAAGAAATAAATTGTTAAATTTATTTTCTTAAGAATCTTAAATGATTC
* * * * *
1572864 T-ATTTTATAAAAGTTAATAAATTGTTAAATTTATTTTCTTCAGAATCTTAAATGATT
66 TAACTTTGT--AAGTAAATAAATTATTAAATTTA-TTTCTTGAGAATC-TAAATGATT
1572921 ATATTTTCTT
Statistics
Matches: 238, Mismatches: 45, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
170 2 0.01
171 44 0.18
172 42 0.18
173 143 0.60
174 7 0.03
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.42
Consensus pattern (171 bp):
TGATTCTAACTTTGTAAAAAGAAATAAATTGTTAAATTTATTTTCTTAAGAATCTTAAATGATTC
TAACTTTGTAAGTAAATAAATTATTAAATTTATTTCTTGAGAATCTAAATGATTCTAACTTAGTA
AGGAAAATAAATTATCGAATTATTTCCTTGAGAACCGTAAA
Found at i:1572970 original size:58 final size:57
Alignment explanation
Indices: 1572798--1572970 Score: 190
Period size: 58 Copynumber: 3.0 Consensus size: 57
1572788 GAGAACCGTG
* * *
1572798 AATGATTCTATCTTT-TAAAAAGAAATAAATTGTTAAATTTATTTTCT-TTAGAATCTTA
1 AATGATTATAT-TTTATAAAAGGAAATAAATTGTTAAATTTATTTTCTCGT-G-ATCTTA
* ** *
1572856 AATGATTCTATTTTATAAAAGTTAATAAATTGTTAAATTTATTTTCTTCAG-AATCTTA
1 AATGATTATATTTTATAAAAGGAAATAAATTGTTAAATTTATTTTC-TC-GTGATCTTA
* *
1572914 AATGATTATATTTTCTTAAAGGAAATAAATTGTTAAATTTATTTTCTCGGTGATCTT
1 AATGATTATATTTTATAAAAGGAAATAAATTGTTAAATTTATTTTCTC-GTGATCTT
1572971 GAATAAAGAA
Statistics
Matches: 98, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
57 6 0.06
58 91 0.93
59 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.47
Consensus pattern (57 bp):
AATGATTATATTTTATAAAAGGAAATAAATTGTTAAATTTATTTTCTCGTGATCTTA
Found at i:1573051 original size:38 final size:39
Alignment explanation
Indices: 1573001--1573074 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
1572991 GAATATATAA
*
1573001 TTTTAAAAAGAAA-TAAATTGTT-ATATTTATTTTCTTAT
1 TTTTAAAAAGAAACTAAATAGTTGA-ATTTATTTTCTTAT
* *
1573039 TTTTTAAAAGAAACTAAATAGTTGAATTTTTTTTCT
1 TTTTAAAAAGAAACTAAATAGTTGAATTTATTTTCT
1573075 GAGAATATCA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 12 0.39
39 18 0.58
40 1 0.03
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (39 bp):
TTTTAAAAAGAAACTAAATAGTTGAATTTATTTTCTTAT
Found at i:1573148 original size:39 final size:38
Alignment explanation
Indices: 1573105--1573230 Score: 119
Period size: 39 Copynumber: 3.2 Consensus size: 38
1573095 ATTTGTAAAG
* *
1573105 ATTTATTTTTATGTTTTGTGAAAGGAAATAAATCATTGA
1 ATTTATTTTT-TATTTTGTAAAAGGAAATAAATCATTGA
* *
1573144 ATTTATTTTCTTATTTTATTAAAGGAAATAAAT-AGTTGA
1 ATTTATTTT-TTATTTTGTAAAAGGAAATAAATCA-TTGA
** * * *
1573183 GCTTATTTTTCTATTTTGTAAAATGCAATAAATCATTAA
1 ATTTATTTTT-TATTTTGTAAAAGGAAATAAATCATTGA
*
1573222 ATTAATTTT
1 ATTTATTTT
1573231 CCTAAGAATC
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
38 2 0.03
39 66 0.94
40 2 0.03
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.48
Consensus pattern (38 bp):
ATTTATTTTTTATTTTGTAAAAGGAAATAAATCATTGA
Found at i:1586990 original size:3 final size:3
Alignment explanation
Indices: 1586972--1587030 Score: 52
Period size: 3 Copynumber: 20.0 Consensus size: 3
1586962 CGTCCGAGTG
* * *
1586972 TTA TT- TTA TTA TTTA TTA -TA TTA TTA -CA TTA TCA CTA TATA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
1587016 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
1587031 CAAATATTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
2 5 0.11
3 34 0.76
4 6 0.13
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:1595479 original size:20 final size:20
Alignment explanation
Indices: 1595454--1595526 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1595444 TTTCCCTCAA
*
1595454 ATTTGTAAATCCTCCGGGCC
1 ATTTGTAAATCCTCCGGGTC
1595474 ATTTGTAAATCCTCCGGGTC
1 ATTTGTAAATCCTCCGGGTC
* * *
1595494 ATTTGTAAAACCTTCGGGTA
1 ATTTGTAAATCCTCCGGGTC
*
1595514 ATTTATAAATCCT
1 ATTTGTAAATCCT
1595527 TCAGGTCATC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (20 bp):
ATTTGTAAATCCTCCGGGTC
Found at i:1595498 original size:40 final size:40
Alignment explanation
Indices: 1595454--1595535 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 40
1595444 TTTCCCTCAA
* * * *
1595454 ATTTGTAAATCCTCCGGGCCATTTGTAAATCCTCCGGGTC
1 ATTTGTAAAACCTCCGGGCAATTTATAAATCCTCCAGGTC
* * *
1595494 ATTTGTAAAACCTTCGGGTAATTTATAAATCCTTCAGGTC
1 ATTTGTAAAACCTCCGGGCAATTTATAAATCCTCCAGGTC
1595534 AT
1 AT
1595536 CTGTCAGTCT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (40 bp):
ATTTGTAAAACCTCCGGGCAATTTATAAATCCTCCAGGTC
Found at i:1595724 original size:42 final size:41
Alignment explanation
Indices: 1595613--1595731 Score: 127
Period size: 40 Copynumber: 2.9 Consensus size: 41
1595603 GGAAGCAAAT
* *
1595613 CAACCTCGAATCTGATCTTCACGAAAGAGTAGTGAAGTAATG
1 CAACCTCGAATCTGATCTTCACG-AAGAGTAGTGAAATAATC
* * * *
1595655 C-A-GTCAAAT-TCAACTTTCACGGAAGAGTAGTGAAATAATC
1 CAACCTCGAATCTGATC-TTCAC-GAAGAGTAGTGAAATAATC
1595695 CAACCTCGAATCTGATCTTCACAGAAGAGTAGTGAAA
1 CAACCTCGAATCTGATCTTCAC-GAAGAGTAGTGAAA
1595732 CATATTCTTT
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
39 3 0.05
40 27 0.44
41 3 0.05
42 25 0.41
43 3 0.05
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (41 bp):
CAACCTCGAATCTGATCTTCACGAAGAGTAGTGAAATAATC
Found at i:1595857 original size:128 final size:128
Alignment explanation
Indices: 1595629--1595914 Score: 419
Period size: 128 Copynumber: 2.2 Consensus size: 128
1595619 CGAATCTGAT
* ** * **
1595629 CTTCACGAAAGAGTAGTGAAGTAATGCAGTCAAATTCAACTTTCACGGAAGAGTAGTGAAATAAT
1 CTTCACGAAAGAGTAGTGAAGTAAAGCAACCAAATTCAACCTTCACAAAAGAGTAGTGAAATAAT
* * * * *
1595694 CCAACCTCGAATCTGATCTTCACAGAAGAGTAGTGAAACATATTCTTTTCAAGTTAATTCAGC
66 CCAACCTCGAATATGATCTTCACAGAAGAGTAGTGAAACAAATTATTTTCAAATCAATTCAGC
*
1595757 CTTCACGAAAGAGTAGTGAAGTAAAGCAACCAAATTCAACCTTGACAAAAGAGTAGTGAAATAAT
1 CTTCACGAAAGAGTAGTGAAGTAAAGCAACCAAATTCAACCTTCACAAAAGAGTAGTGAAATAAT
* *
1595822 CCAACTTCGAATATGATCTTCACGGAAGAGTAGTGAAACAAATTATTTTCAAATCAATTCAGC
66 CCAACCTCGAATATGATCTTCACAGAAGAGTAGTGAAACAAATTATTTTCAAATCAATTCAGC
* *
1595885 CTTCACGGAAGAGTAGTGAAGCAAGAGCAA
1 CTTCACGAAAGAGTAGTGAAGTAA-AGCAA
1595915 GATCAAAATT
Statistics
Matches: 141, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
128 136 0.96
129 5 0.04
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (128 bp):
CTTCACGAAAGAGTAGTGAAGTAAAGCAACCAAATTCAACCTTCACAAAAGAGTAGTGAAATAAT
CCAACCTCGAATATGATCTTCACAGAAGAGTAGTGAAACAAATTATTTTCAAATCAATTCAGC
Found at i:1601307 original size:9 final size:10
Alignment explanation
Indices: 1601281--1601309 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
1601271 TATAATCCTT
1601281 CAAAATTTTC
1 CAAAATTTTC
1601291 CAAAATTTTC
1 CAAAATTTTC
1601301 C-AAATTTTC
1 CAAAATTTTC
1601310 AATTAGATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (10 bp):
CAAAATTTTC
Found at i:1609346 original size:22 final size:22
Alignment explanation
Indices: 1609319--1609363 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
1609309 AATTAGTTGC
1609319 AAAAATATACTTGTCTACTCGA
1 AAAAATATACTTGTCTACTCGA
1609341 AAAAATATACTTGTCTACTCGA
1 AAAAATATACTTGTCTACTCGA
1609363 A
1 A
1609364 CCAGCATATT
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:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (22 bp):
AAAAATATACTTGTCTACTCGA
Found at i:1611467 original size:21 final size:21
Alignment explanation
Indices: 1611428--1611467 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1611418 ATGCATGCAT
* *
1611428 ATATGTTTATTTAAAAAGCAA
1 ATATGATTATTGAAAAAGCAA
*
1611449 ATATGATTATTGAATAAGC
1 ATATGATTATTGAAAAAGC
1611468 TTATGATCCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (21 bp):
ATATGATTATTGAAAAAGCAA
Found at i:1612462 original size:20 final size:20
Alignment explanation
Indices: 1612420--1612471 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
1612410 ACTTTTCAAT
**
1612420 AGTTTCAAAACTTTGATTCA
1 AGTTTCAAAACTTTGACCCA
1612440 AGTTTCAAAACTTT-ACCCAA
1 AGTTTCAAAACTTTGACCC-A
*
1612460 AGTTTCGAAACT
1 AGTTTCAAAACT
1612472 ACATGTGCAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 2 0.07
20 26 0.93
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.35
Consensus pattern (20 bp):
AGTTTCAAAACTTTGACCCA
Found at i:1624059 original size:92 final size:87
Alignment explanation
Indices: 1623876--1624046 Score: 254
Period size: 92 Copynumber: 1.9 Consensus size: 87
1623866 TAAACTCGTG
* *
1623876 TTTTAGGATATTATTTTAATTTTATCTTATTTTTAGGTATTTTAGTTTAAATAGTTTTAAGTATT
1 TTTTAGGATATTATATTAATTTTATCTTATTTTTAGGCATTTTAGTTTAAATAGTTTTAAGTATT
1623941 CTAATTAGGATTTAGGTTATTA
66 CTAATTAGGATTTAGGTTATTA
1623963 TTTTA-GATATTATATTATATTTTATCTTATAGTTGTTTTAGGCATTTTAGTTTAAATAGTTTTA
1 TTTTAGGATATTATATTA-ATTTTATC-T-TA--T-TTTTAGGCATTTTAGTTTAAATAGTTTTA
*
1624027 AGTATTTTAATTAGGATTTA
60 AGTATTCTAATTAGGATTTA
1624047 TTTCTTTATT
Statistics
Matches: 75, Mismatches: 3, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
86 11 0.15
87 13 0.17
88 1 0.01
89 2 0.03
91 1 0.01
92 47 0.63
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.56
Consensus pattern (87 bp):
TTTTAGGATATTATATTAATTTTATCTTATTTTTAGGCATTTTAGTTTAAATAGTTTTAAGTATT
CTAATTAGGATTTAGGTTATTA
Found at i:1628534 original size:24 final size:24
Alignment explanation
Indices: 1628507--1628558 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
1628497 GTGCATTTGT
1628507 TGCACTCCTATATCAATGCAATTA
1 TGCACTCCTATATCAATGCAATTA
*
1628531 TGCACTCCTATATCAGTGCAATTA
1 TGCACTCCTATATCAATGCAATTA
1628555 TGCA
1 TGCA
1628559 GTCATGTACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.33
Consensus pattern (24 bp):
TGCACTCCTATATCAATGCAATTA
Found at i:1636552 original size:24 final size:24
Alignment explanation
Indices: 1636520--1636578 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
1636510 GAATTTTCTC
*
1636520 CTTTTTCAAAACATTTTGTTCCAA
1 CTTTATCAAAACATTTTGTTCCAA
*
1636544 CTTTATCAAAACGTTTTGTTCCAA
1 CTTTATCAAAACATTTTGTTCCAA
1636568 CTTTATCAAAA
1 CTTTATCAAAA
1636579 GAAGTTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.42
Consensus pattern (24 bp):
CTTTATCAAAACATTTTGTTCCAA
Found at i:1636762 original size:21 final size:21
Alignment explanation
Indices: 1636738--1636789 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
1636728 AGTTTGTTTC
*
1636738 CATTTTTCA-ATTTTTAAACAT
1 CATTTTTCATATTTTAAAAC-T
1636759 CATTTTT-ATATTTTAAAACT
1 CATTTTTCATATTTTAAAACT
*
1636779 AATTTTTCATA
1 CATTTTTCATA
1636790 ATCCGAAGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 8 0.30
21 19 0.70
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.54
Consensus pattern (21 bp):
CATTTTTCATATTTTAAAACT
Found at i:1639368 original size:11 final size:11
Alignment explanation
Indices: 1639350--1639390 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
1639340 TGCAAATGAG
1639350 GTAAAAATTAT
1 GTAAAAATTAT
* * *
1639361 GTACAAATGAG
1 GTAAAAATTAT
1639372 GTAAAAATTAT
1 GTAAAAATTAT
1639383 GTAAAAAT
1 GTAAAAAT
1639391 GATTCTAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.54, C:0.02, G:0.15, T:0.29
Consensus pattern (11 bp):
GTAAAAATTAT
Found at i:1639368 original size:22 final size:22
Alignment explanation
Indices: 1639342--1639392 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
1639332 TCTTATGATG
1639342 CAAATGAGGTAAAAATTATGTA
1 CAAATGAGGTAAAAATTATGTA
1639364 CAAATGAGGTAAAAATTATGTA
1 CAAATGAGGTAAAAATTATGTA
*
1639386 AAAATGA
1 CAAATGA
1639393 TTCTAATATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.53, C:0.04, G:0.18, T:0.25
Consensus pattern (22 bp):
CAAATGAGGTAAAAATTATGTA
Found at i:1640978 original size:29 final size:30
Alignment explanation
Indices: 1640919--1640980 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
1640909 TTTTTTATTG
* *
1640919 TTTAAACATATTTGAAATATTAAGTCATTA
1 TTTAAACATATTTAAAATATTAACTCATTA
*
1640949 TTTAAATAT-TTTAAAATATTAAACTC-TTA
1 TTTAAACATATTTAAAATATT-AACTCATTA
1640978 TTT
1 TTT
1640981 TTTAACTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 16 0.57
30 12 0.43
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (30 bp):
TTTAAACATATTTAAAATATTAACTCATTA
Found at i:1651596 original size:19 final size:20
Alignment explanation
Indices: 1651572--1651617 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
1651562 CAAAATGACC
*
1651572 CAATTTC-ACATTCTAACAT
1 CAATTTCAACACTCTAACAT
1651591 CAATTTCAACACTCTAACAT
1 CAATTTCAACACTCTAACAT
*
1651611 TAATTTC
1 CAATTTC
1651618 CAGCATAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (20 bp):
CAATTTCAACACTCTAACAT
Found at i:1653018 original size:14 final size:14
Alignment explanation
Indices: 1652999--1653032 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
1652989 ATTTGACGTT
1652999 TATTTTTAATTTCC
1 TATTTTTAATTTCC
*
1653013 TA-TTTTAATTTCT
1 TATTTTTAATTTCC
1653026 TATTTTT
1 TATTTTT
1653033 TTGTACAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.71
Consensus pattern (14 bp):
TATTTTTAATTTCC
Found at i:1660328 original size:81 final size:80
Alignment explanation
Indices: 1660174--1660336 Score: 218
Period size: 81 Copynumber: 2.0 Consensus size: 80
1660164 GTGCCTTTGA
* * * * * *** *
1660174 GGCCTAACTGTGCAAATGATAGAAATGTGTCATTTATGCAGTTAGATTAATGGTTAAATACCGTT
1 GGCCTAACTGTGCAAATGACAGAAAGGTGTCAATTATCCAGTTAGATGAACAATTAAACACCGTT
1660239 GAGTAAAAGAATAAT
66 GAGTAAAAGAATAAT
* *
1660254 GGCCTAACTGTGCAATTGACAGAAAGGTGTCAATTATTCCAGTTAGATGAACAATTAAACACTGT
1 GGCCTAACTGTGCAAATGACAGAAAGGTGTCAATTA-TCCAGTTAGATGAACAATTAAACACCGT
1660319 TGAGTAAAAGAATAAT
65 TGAGTAAAAGAATAAT
1660335 GG
1 GG
1660337 ATTAGTTGTG
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
80 32 0.45
81 39 0.55
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (80 bp):
GGCCTAACTGTGCAAATGACAGAAAGGTGTCAATTATCCAGTTAGATGAACAATTAAACACCGTT
GAGTAAAAGAATAAT
Found at i:1660347 original size:81 final size:79
Alignment explanation
Indices: 1660177--1660367 Score: 211
Period size: 81 Copynumber: 2.4 Consensus size: 79
1660167 CCTTTGAGGC
* * * * *** *
1660177 CTAACTGTGCAAATGATAGAAATGTGTCATTTATGCAGTTAGATTAATGGTTAAATACCGTTGAG
1 CTAACTGTGCAATTGATAGAAA-GTGTCAATTATCCAGTTAGATGAACAATTAAACACCGTTGAG
*
1660242 TAAAAGAATAATGGC
65 TAAAAGAATAATGGA
* *
1660257 CTAACTGTGCAATTGACAGAAAGGTGTCAATTATTCCAGTTAGATGAACAATTAAACACTGTTGA
1 CTAACTGTGCAATTGATAGAAA-GTGTCAATTA-TCCAGTTAGATGAACAATTAAACACCGTTGA
1660322 GTAAAAGAATAATGGA
64 GTAAAAGAATAATGGA
* ** *
1660338 TTAGTTGTGCATTTGATAGGAAAGTGTCAA
1 CTAACTGTGCAATTGATA-GAAAGTGTCAA
1660368 ATATGTAAGC
Statistics
Matches: 92, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
80 29 0.32
81 59 0.64
82 4 0.04
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.30
Consensus pattern (79 bp):
CTAACTGTGCAATTGATAGAAAGTGTCAATTATCCAGTTAGATGAACAATTAAACACCGTTGAGT
AAAAGAATAATGGA
Found at i:1660385 original size:81 final size:81
Alignment explanation
Indices: 1660227--1660385 Score: 178
Period size: 81 Copynumber: 2.0 Consensus size: 81
1660217 AGATTAATGG
* * *
1660227 TTAAATACCGTTGAGTAAAAGAATAATGGCCTAACTGTGCAATTGACAGAAAGGTGTCAATTATT
1 TTAAACACCGTTGAGTAAAAGAATAATGGACTAACTGTGCAATTGACAGAAAGGTGTCAAATATT
* * *
1660292 CCAGTTAGATGAACAA
66 CAAGCTAAATGAACAA
* * ** * *
1660308 TTAAACACTGTTGAGTAAAAGAATAATGGATTAGTTGTGCATTTGATAGGAAA-GTGTCAAATAT
1 TTAAACACCGTTGAGTAAAAGAATAATGGACTAACTGTGCAATTGACA-GAAAGGTGTCAAATAT
1660372 GT-AAGCTAAATGAA
65 -TCAAGCTAAATGAA
1660386 ACGCTAAATA
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
81 59 0.92
82 5 0.08
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (81 bp):
TTAAACACCGTTGAGTAAAAGAATAATGGACTAACTGTGCAATTGACAGAAAGGTGTCAAATATT
CAAGCTAAATGAACAA
Found at i:1660605 original size:26 final size:26
Alignment explanation
Indices: 1660575--1660847 Score: 207
Period size: 26 Copynumber: 11.4 Consensus size: 26
1660565 GCATTAAGGA
***
1660575 ATGAAAGGATGATGTAATTAAAATGC
1 ATGAAAGGATGCCATAATTAAAATGC
* *
1660601 ATGAAATGATG----AATT--AAGGC
1 ATGAAAGGATGCCATAATTAAAATGC
** *
1660621 ATGAAAATATGCCATAATTAAAATAC
1 ATGAAAGGATGCCATAATTAAAATGC
1660647 ATGAAAGGATGCCATAATTAAAATGC
1 ATGAAAGGATGCCATAATTAAAATGC
1660673 ATGAAAGGATGCCATAATTAAAATGC
1 ATGAAAGGATGCCATAATTAAAATGC
*
1660699 ATGAAAGGATG-C---ATT--AAGGC
1 ATGAAAGGATGCCATAATTAAAATGC
* * *
1660719 ATGAAATGATG-C---ATT--AAGGA
1 ATGAAAGGATGCCATAATTAAAATGC
* *
1660739 ATGAAAGGATGCCATAAGTAAAATTC
1 ATGAAAGGATGCCATAATTAAAATGC
* *
1660765 ATGAAAGGAT----TCATT--AAGGC
1 ATGAAAGGATGCCATAATTAAAATGC
*
1660785 ATGAAAGGATGCTATAATTAAAATGC
1 ATGAAAGGATGCCATAATTAAAATGC
1660811 ATGAAAGGATGCCATAATTAAAATGC
1 ATGAAAGGATGCCATAATTAAAATGC
* *
1660837 ATAAAAAGATG
1 ATGAAAGGATG
1660848 GATTAAGGCA
Statistics
Matches: 203, Mismatches: 26, Indels: 36
0.77 0.10 0.14
Matches are distributed among these distances:
20 58 0.29
21 1 0.00
22 10 0.05
24 10 0.05
25 1 0.00
26 123 0.61
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.24
Consensus pattern (26 bp):
ATGAAAGGATGCCATAATTAAAATGC
Found at i:1660617 original size:46 final size:46
Alignment explanation
Indices: 1660547--1660924 Score: 217
Period size: 46 Copynumber: 8.1 Consensus size: 46
1660537 AAACAAAACA
* * ***
1660547 TAAAATGCATGAAAGGATGCATTAAGGAATGAAAGGATGATGTAAT
1 TAAAATGCATGAAAGGATGAATTAAGGCATGAAAGGATGCCATAAT
* **
1660593 TAAAATGCATGAAATGATGAATTAAGGCATGAAAATATGCCATAAT
1 TAAAATGCATGAAAGGATGAATTAAGGCATGAAAGGATGCCATAAT
* *
1660639 TAAAATACATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCCATAAT
1 TAAAATGCATGAAAGGATG----AATT--AAGGCATGAAAGGATGCCATAAT
* *
1660691 TAAAATGCATGAAAGGATGCATTAAGGCATGAAATGATG-C---AT
1 TAAAATGCATGAAAGGATGAATTAAGGCATGAAAGGATGCCATAAT
* * * ** *
1660733 T--AAGGAATGAAAGGATGCCATAAGTAAAATTCATGAAAGGAT----TCAT
1 TAAAATGCATGAAAGGATG----AA-T-TAAGGCATGAAAGGATGCCATAAT
* *
1660779 T--AAGGCATGAAAGGATGCTATAATTAAAATGCATGAAAGGATGCCATAAT
1 TAAAATGCATGAAAGGATG----AATT--AAGGCATGAAAGGATGCCATAAT
* * * * *
1660829 TAAAATGCATAAAAAGATGGATTAAGGCATG-AAGGGTGTCATAAT
1 TAAAATGCATGAAAGGATGAATTAAGGCATGAAAGGATGCCATAAT
* * * *
1660874 TAAGATGTATGAAATGAT-ACATTAAGGCAGGAAAGGATGCCATAAAT
1 TAAAATGCATGAAAGGATGA-ATTAAGGCATGAAAGGATGCCAT-AAT
1660921 TAAA
1 TAAA
1660925 TGTATAAATG
Statistics
Matches: 262, Mismatches: 45, Indels: 49
0.74 0.13 0.14
Matches are distributed among these distances:
40 14 0.05
42 3 0.01
44 1 0.00
45 39 0.15
46 134 0.51
47 6 0.02
48 6 0.02
50 8 0.03
52 51 0.19
ACGTcount: A:0.46, C:0.08, G:0.22, T:0.24
Consensus pattern (46 bp):
TAAAATGCATGAAAGGATGAATTAAGGCATGAAAGGATGCCATAAT
Found at i:1660624 original size:20 final size:20
Alignment explanation
Indices: 1660553--1660626 Score: 58
Period size: 20 Copynumber: 3.4 Consensus size: 20
1660543 AACATAAAAT
* *
1660553 GCATGAAAGGATGCATTAAG
1 GCATGAAATGATGAATTAAG
* *
1660573 GAATGAAAGGATGATGTAATTAAAAT
1 GCATG-AA--ATGATG-AATT--AAG
1660599 GCATGAAATGATGAATTAAG
1 GCATGAAATGATGAATTAAG
1660619 GCATGAAA
1 GCATGAAA
1660627 ATATGCCATA
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
20 14 0.33
21 2 0.05
22 4 0.10
23 11 0.26
24 3 0.07
25 2 0.05
26 6 0.14
ACGTcount: A:0.46, C:0.05, G:0.26, T:0.23
Consensus pattern (20 bp):
GCATGAAATGATGAATTAAG
Found at i:1660694 original size:98 final size:92
Alignment explanation
Indices: 1660575--1660774 Score: 249
Period size: 98 Copynumber: 2.1 Consensus size: 92
1660565 GCATTAAGGA
** *
1660575 ATGAAAGGATGATGTAATTAAAATGCATGAAATGATGAATTAAGGCATGAAAAT-ATGCCATAAT
1 ATGAAAGGATGACATAATTAAAATGCATGAAAGGATGAATTAAGGCATG-AAATGATG-C---AT
* *
1660639 TAAAATACATGAAAGGATGCCATAATTAAAATGC
61 T-AAAGA-ATGAAAGGATGCCATAAGTAAAATGC
* * *
1660673 ATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAATGATGCATTAAGG
1 ATGAAAGGATGACATAATTAAAATGCATGAAAGGATGAATTAAGGCATGAAATGATGCATTAAAG
*
1660738 AATGAAAGGATGCCATAAGTAAAATTC
66 AATGAAAGGATGCCATAAGTAAAATGC
1660765 ATGAAAGGAT
1 ATGAAAGGAT
1660775 TCATTAAGGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
92 34 0.37
93 3 0.03
94 3 0.03
97 5 0.05
98 47 0.51
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.24
Consensus pattern (92 bp):
ATGAAAGGATGACATAATTAAAATGCATGAAAGGATGAATTAAGGCATGAAATGATGCATTAAAG
AATGAAAGGATGCCATAAGTAAAATGC
Found at i:1660722 original size:20 final size:20
Alignment explanation
Indices: 1660697--1660796 Score: 101
Period size: 20 Copynumber: 4.7 Consensus size: 20
1660687 TAATTAAAAT
1660697 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
1660717 GCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
1660737 GAATGAAAGGATGCCATAAGTAAAAT
1 GCATGAAAGGATG-CAT---T--AAG
* *
1660763 TCATGAAAGGATTCATTAAG
1 GCATGAAAGGATGCATTAAG
1660783 GCATGAAAGGATGC
1 GCATGAAAGGATGC
1660797 TATAATTAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
20 44 0.69
21 3 0.05
22 1 0.02
24 1 0.02
25 3 0.05
26 12 0.19
ACGTcount: A:0.42, C:0.10, G:0.26, T:0.22
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:1660750 original size:66 final size:68
Alignment explanation
Indices: 1660646--1660861 Score: 247
Period size: 72 Copynumber: 3.1 Consensus size: 68
1660636 AATTAAAATA
* *
1660646 CATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGC
1 CATGAAAGGATG-C--AATT-AAAGGAATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGC
1660711 ATTAAGG
62 ATTAAGG
* * * *
1660718 CATGAAATGATGC-ATT-AAGGAATGAAAGGATGCCATAAGTAAAATTCATGAAAGGATTCATTA
1 CATGAAAGGATGCAATTAAAGGAATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTA
1660781 AGG
66 AGG
* * * * *
1660784 CATGAAAGGATGCTATAATTAAAATGCATGAAAGGATGCCATAATTAAAATGCATAAAAAGATGG
1 CATGAAAGGATGC---AATT-AAAGGAATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGC
1660849 ATTAAGG
62 ATTAAGG
1660856 CATGAA
1 CATGAA
1660862 GGGTGTCATA
Statistics
Matches: 123, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
66 57 0.46
68 3 0.02
70 3 0.02
71 1 0.01
72 59 0.48
ACGTcount: A:0.45, C:0.10, G:0.22, T:0.23
Consensus pattern (68 bp):
CATGAAAGGATGCAATTAAAGGAATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTA
AGG
Found at i:1660928 original size:46 final size:44
Alignment explanation
Indices: 1660813--1660934 Score: 129
Period size: 45 Copynumber: 2.7 Consensus size: 44
1660803 TAAAATGCAT
* * ** *
1660813 GAAAGGATGCCATAATTAAAATGCATAAAAAGATGGATTAAGGCAT
1 GAAAGGATGCCATAATT-AAATGTAT-AAATGATACATTAAGGCAG
* *
1660859 G-AAGGGTGTCATAATTAAGATGTATGAAATGATACATTAAGGCAG
1 GAAAGGATGCCATAATTAA-ATGTAT-AAATGATACATTAAGGCAG
1660904 GAAAGGATGCCATAAATTAAATGTATAAATG
1 GAAAGGATGCCAT-AATTAAATGTATAAATG
1660935 GATGTGTTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
44 2 0.03
45 39 0.62
46 16 0.25
47 6 0.10
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.25
Consensus pattern (44 bp):
GAAAGGATGCCATAATTAAATGTATAAATGATACATTAAGGCAG
Found at i:1664417 original size:75 final size:74
Alignment explanation
Indices: 1664337--1664496 Score: 169
Period size: 74 Copynumber: 2.1 Consensus size: 74
1664327 ATGGTAAGGG
** * * * * *
1664337 TATTGATACCAGGTCACATCGAATCTAAAA-TGATTATCGTTACTATAAGGGGCTATCGGTATCA
1 TATTGATACCAGGAAACATCGAATC-AAAATTG-GTATCGATACCAGAAGGGGCTATCGGTACCA
1664401 TAATATAGTAA
64 TAATATAGTAA
* * *
1664412 TATTGATACTAGGAAATATCGAATCAAAATTGGTATCGATACCAGAAGGGGGTATCGGTACCATA
1 TATTGATACCAGGAAACATCGAATCAAAATTGGTATCGATACCAGAAGGGGCTATCGGTACCATA
* * *
1664477 GTGTAGTAG
66 ATATAGTAA
*
1664486 TATCGATACCA
1 TATTGATACCA
1664497 TGGTAGGGGT
Statistics
Matches: 69, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
74 46 0.67
75 23 0.33
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (74 bp):
TATTGATACCAGGAAACATCGAATCAAAATTGGTATCGATACCAGAAGGGGCTATCGGTACCATA
ATATAGTAA
Found at i:1665301 original size:68 final size:68
Alignment explanation
Indices: 1665164--1665301 Score: 186
Period size: 68 Copynumber: 2.0 Consensus size: 68
1665154 AAAAGATTAT
* * * * * *
1665164 AGGCCTAACTATGTAAATGACAGAAATGTTTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTATGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAATACCG
1665229 TTG
66 TTG
* * * *
1665232 AGGCCTAACTGTGCAAATGACAGATAGGTGTCATTTATGCCAGTTAGATGAACGGTTAAATACCG
1 AGGCCTAACTATGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAATACCG
1665297 TTG
66 TTG
1665300 AG
1 AG
1665302 TAAAAGAATA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
68 60 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (68 bp):
AGGCCTAACTATGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAATACCG
TTG
Found at i:1665371 original size:81 final size:81
Alignment explanation
Indices: 1665233--1665425 Score: 244
Period size: 81 Copynumber: 2.4 Consensus size: 81
1665223 GTGCCTTTGA
* * * * * *
1665233 GGCCTAACTGTGCAAATGACAGATAGGTGTCATTTATGCCAGTTAGATGAACGGTTAAATACCGT
1 GGCCTAACTGTGCAATTGACAGAAAGGTGTCAATTATGCCAGTTAAATGAACAGTTAAACACCGT
*
1665298 TGAGTAAAAGAATATT
66 TGAGTAAAAGAATAAT
* *
1665314 GGCCTAACTGTGCAATTGACAGAAAGGTGTCAATTATGCCATTTAAATGAACAGTTAAACACTGT
1 GGCCTAACTGTGCAATTGACAGAAAGGTGTCAATTATGCCAGTTAAATGAACAGTTAAACACCGT
*
1665379 TGAGTATAAGAATAAT
66 TGAGTAAAAGAATAAT
** * *
1665395 GGATTAGCTGTGCATTTGACAGGAAA-GTGTC
1 GGCCTAACTGTGCAATTGACA-GAAAGGTGTC
1665426 TAATATGTAA
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 93 0.96
82 4 0.04
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.28
Consensus pattern (81 bp):
GGCCTAACTGTGCAATTGACAGAAAGGTGTCAATTATGCCAGTTAAATGAACAGTTAAACACCGT
TGAGTAAAAGAATAAT
Found at i:1665526 original size:2 final size:2
Alignment explanation
Indices: 1665519--1665571 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
1665509 AGGGATGATG
* *
1665519 TA TA TA TA TG CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1665561 TA TA TA TA TA T
1 TA TA TA TA TA T
1665572 GCATAATTAG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1665675 original size:26 final size:25
Alignment explanation
Indices: 1665646--1665817 Score: 158
Period size: 26 Copynumber: 6.6 Consensus size: 25
1665636 ATGCATTTAG
*
1665646 GCATGAAATGATGCTATAATTAAAAT
1 GCATGAAAGGATGC-ATAATTAAAAT
1665672 GCATGAAAGGATGCCATAATTAAAAT
1 GCATGAAAGGATG-CATAATTAAAAT
*
1665698 GCATGAAAGGATGC---ATT--AAG
1 GCATGAAAGGATGCATAATTAAAAT
1665718 GCATGAAAGGATGCATAATTAAAAAT
1 GCATGAAAGGATGCATAATT-AAAAT
1665744 -CATGAAAGGATGCCATAATTAAAATGCATT
1 GCATGAAAGGATG-CATAATT-AAA---A-T
* *
1665774 AAGGCATGAAAGGATCCATAATTAAGAT
1 ---GCATGAAAGGATGCATAATTAAAAT
1665802 GCATGAAAGGATGCAT
1 GCATGAAAGGATGCAT
1665818 CAAGGCAGGA
Statistics
Matches: 124, Mismatches: 6, Indels: 33
0.76 0.04 0.20
Matches are distributed among these distances:
20 16 0.13
22 3 0.02
23 3 0.02
25 28 0.23
26 49 0.40
27 1 0.01
28 1 0.01
29 2 0.02
30 1 0.01
32 2 0.02
33 7 0.06
34 11 0.09
ACGTcount: A:0.45, C:0.10, G:0.21, T:0.24
Consensus pattern (25 bp):
GCATGAAAGGATGCATAATTAAAAT
Found at i:1665767 original size:71 final size:72
Alignment explanation
Indices: 1665620--1665772 Score: 238
Period size: 72 Copynumber: 2.1 Consensus size: 72
1665610 AAACAGAACA
* * * *
1665620 TAAAATACAAGAAAAGATGCATTTAGGCATGAAATGATGCTATAATTAAAATGCATGAAAGGATG
1 TAAAATGCATGAAAAGATGCATTAAGGCATGAAAGGATGCTATAATTAAAATGCATGAAAGGATG
1665685 CCATAAT
66 CCATAAT
*
1665692 TAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC-ATAATTAAAAAT-CATGAAAGGAT
1 TAAAATGCATGAAAAGATGCATTAAGGCATGAAAGGATGCTATAATT-AAAATGCATGAAAGGAT
1665755 GCCATAAT
65 GCCATAAT
1665763 TAAAATGCAT
1 TAAAATGCAT
1665773 TAAGGCATGA
Statistics
Matches: 75, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
71 35 0.47
72 40 0.53
ACGTcount: A:0.47, C:0.10, G:0.19, T:0.24
Consensus pattern (72 bp):
TAAAATGCATGAAAAGATGCATTAAGGCATGAAAGGATGCTATAATTAAAATGCATGAAAGGATG
CCATAAT
Found at i:1669837 original size:55 final size:55
Alignment explanation
Indices: 1669791--1669900 Score: 141
Period size: 55 Copynumber: 2.0 Consensus size: 55
1669781 TTTCCGTATG
*
1669791 GGAAATAGATGT-GAAATGGTCAAAAGTTCATAATAGAAAGGTGAATTGTTGTAGT
1 GGAAATAGAT-TAGAAATGGTCAAAAGTTCATAATAGAAAGGTGAATTGTCGTAGT
* * * * * *
1669846 TGTACTGGATTAGTAATGGTCAAAAGTTCATAATAGAAAGGTGAATTGTTGTAGT
1 GGAAATAGATTAGAAATGGTCAAAAGTTCATAATAGAAAGGTGAATTGTCGTAGT
1669901 TGTAATGGAT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
54 1 0.02
55 48 0.98
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.32
Consensus pattern (55 bp):
GGAAATAGATTAGAAATGGTCAAAAGTTCATAATAGAAAGGTGAATTGTCGTAGT
Found at i:1669901 original size:55 final size:55
Alignment explanation
Indices: 1669805--1669917 Score: 208
Period size: 55 Copynumber: 2.1 Consensus size: 55
1669795 ATAGATGTGA
* *
1669805 AATGGTCAAAAGTTCATAATAGAAAGGTGAATTGTTGTAGTTGTACTGGATTAGT
1 AATGGTCAAAAGTTCATAATAGAAAGGTGAATTGTTGTAGTTGTAATGGATGAGT
1669860 AATGGTCAAAAGTTCATAATAGAAAGGTGAATTGTTGTAGTTGTAATGGATGAGT
1 AATGGTCAAAAGTTCATAATAGAAAGGTGAATTGTTGTAGTTGTAATGGATGAGT
1669915 AAT
1 AAT
1669918 CCATATAAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.34
Consensus pattern (55 bp):
AATGGTCAAAAGTTCATAATAGAAAGGTGAATTGTTGTAGTTGTAATGGATGAGT
Found at i:1670143 original size:68 final size:68
Alignment explanation
Indices: 1670058--1670194 Score: 202
Period size: 68 Copynumber: 2.0 Consensus size: 68
1670048 AAAGATTATA
* * * *
1670058 GGCCTAACTGTGTAAATGACATAAAGGTGGCATTTACGCCAGTTAGATGAAAGGCTAAGTACCTT
1 GGCCTAACTGTGCAAATGACAGAAAGGTGGCATTTACGCCAGTTAGATGAAAGGCTAAATACCGT
1670123 TGT
66 TGT
* * * *
1670126 GGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAACGGTTAAATACCGT
1 GGCCTAACTGTGCAAATGACAGAAAGGTGGCATTTACGCCAGTTAGATGAAAGGCTAAATACCGT
1670191 TGT
66 TGT
1670194 G
1 G
1670195 TAAAAGCATA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 61 1.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.28
Consensus pattern (68 bp):
GGCCTAACTGTGCAAATGACAGAAAGGTGGCATTTACGCCAGTTAGATGAAAGGCTAAATACCGT
TGT
Found at i:1670279 original size:81 final size:81
Alignment explanation
Indices: 1670125--1670286 Score: 198
Period size: 81 Copynumber: 2.0 Consensus size: 81
1670115 AGTACCTTTG
* * * * * *
1670125 TGGCCTAACTGTGCAAATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAACGGTTAAATACCG
1 TGGCCTAACTATGCAAATGACAGAAAGGTGTCAATTATGCCAGTGACATGAACGGTTAAACACCA
* *
1670190 TTGTGTAAAAGCATAA
66 TTGAGTAAAAGAATAA
* * * * **
1670206 TGGCCTAACTATGCAATTGATAGAAAGGTGTCAATTATGCCAGTGACATGAATGGTTAAGCATTA
1 TGGCCTAACTATGCAAATGACAGAAAGGTGTCAATTATGCCAGTGACATGAACGGTTAAACACCA
1670271 TTGAGTAAAAGAATAA
66 TTGAGTAAAAGAATAA
1670287 GGGATTAGTT
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 67 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (81 bp):
TGGCCTAACTATGCAAATGACAGAAAGGTGTCAATTATGCCAGTGACATGAACGGTTAAACACCA
TTGAGTAAAAGAATAA
Found at i:1670423 original size:2 final size:2
Alignment explanation
Indices: 1670416--1670459 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1670406 AGAATGGATG
1670416 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1670458 AT
1 AT
1670460 TGTGTGTGTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1670465 original size:2 final size:2
Alignment explanation
Indices: 1670460--1670500 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
1670450 ATATATATAT
* * *
1670460 TG TG TG TG TG TG TG TG TG TG TG TG TG TT TA TA TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1670501 TAAAAAATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.05, C:0.00, G:0.41, T:0.54
Consensus pattern (2 bp):
TG
Found at i:1670612 original size:46 final size:46
Alignment explanation
Indices: 1670557--1670898 Score: 603
Period size: 46 Copynumber: 7.4 Consensus size: 46
1670547 AAAGAGGACA
1670557 TAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAT
1 TAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAT
1670603 TAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAT
1 TAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAT
*
1670649 TAAAATGTATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAT
1 TAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAT
*
1670695 TAAAATGCATGAAAGGATGCATTAAGGCATGAGAGGATGCCATAAT
1 TAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAT
* * *
1670741 TAAAATGCATGAAAGGATGCATTAAGGCATGAGAGGATGTCTTAAT
1 TAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAT
*
1670787 TAAAATGCATAAAAGGATGCATTAAGGCATGAAAGGATGCCATAAT
1 TAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAT
* * *
1670833 TAAAATGCATGAAAGGATGAATTAAGGCATGAAGGGATACCATAAT
1 TAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAT
1670879 TAAAATGCATGAAAGGATGC
1 TAAAATGCATGAAAGGATGC
1670899 CATAATTAAA
Statistics
Matches: 282, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 282 1.00
ACGTcount: A:0.43, C:0.10, G:0.24, T:0.23
Consensus pattern (46 bp):
TAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAT
Found at i:1670937 original size:46 final size:46
Alignment explanation
Indices: 1670887--1671047 Score: 207
Period size: 46 Copynumber: 3.5 Consensus size: 46
1670877 ATTAAAATGC
*
1670887 ATGAAAGGATGCCATAATTAAAATCCAT-AAAACTATGCATTAAGGA
1 ATGAAAGGATGCCATAATTAAAATGCATGAAAA-TATGCATTAAGGA
* *
1670933 ATGAAAGGATGTCATAATTAAAATGCATGAAAATATGCATTAAGGC
1 ATGAAAGGATGCCATAATTAAAATGCATGAAAATATGCATTAAGGA
** * * * *
1670979 ATGAAAGGATGAAATAATTAAGATGCATGAAAATATGCATTCATGT
1 ATGAAAGGATGCCATAATTAAAATGCATGAAAATATGCATTAAGGA
*
1671025 AGGAAAGGATGCCATAAATTAAA
1 ATGAAAGGATGCCAT-AATTAAA
1671048 TGTATAAATG
Statistics
Matches: 100, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
46 90 0.90
47 10 0.10
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (46 bp):
ATGAAAGGATGCCATAATTAAAATGCATGAAAATATGCATTAAGGA
Found at i:1670963 original size:118 final size:118
Alignment explanation
Indices: 1670767--1671010 Score: 346
Period size: 118 Copynumber: 2.1 Consensus size: 118
1670757 ATGCATTAAG
* * * * * *
1670767 GCATGAGAGGATGTCTTAATTAAAATGCATAAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
1 GCATGAAAGGATGCCATAATTAAAATCCATAAAACGATGCATTAAGGAATGAAAGGATGCCATAA
* * *
1670832 TTAAAATGCATGAAAGGATGAATTAAGGCATGAAGGGAT-ACCATAATTAAAAT
66 TTAAAATGCATGAAAAGATGAATTAAGGCATGAAAGGATGA-AATAATTAAAAT
* *
1670885 GCATGAAAGGATGCCATAATTAAAATCCATAAAACTATGCATTAAGGAATGAAAGGATGTCATAA
1 GCATGAAAGGATGCCATAATTAAAATCCATAAAACGATGCATTAAGGAATGAAAGGATGCCATAA
* * *
1670950 TTAAAATGCATGAAAATATGCATTAAGGCATGAAAGGATGAAATAATTAAGAT
66 TTAAAATGCATGAAAAGATGAATTAAGGCATGAAAGGATGAAATAATTAAAAT
1671003 GCATGAAA
1 GCATGAAA
1671011 ATATGCATTC
Statistics
Matches: 111, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
118 110 0.99
119 1 0.01
ACGTcount: A:0.46, C:0.09, G:0.21, T:0.24
Consensus pattern (118 bp):
GCATGAAAGGATGCCATAATTAAAATCCATAAAACGATGCATTAAGGAATGAAAGGATGCCATAA
TTAAAATGCATGAAAAGATGAATTAAGGCATGAAAGGATGAAATAATTAAAAT
Found at i:1676053 original size:24 final size:22
Alignment explanation
Indices: 1675982--1676059 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 22
1675972 CTCCTCAAAA
* *
1675982 CCCTAAAAATCCTAAGAGATGATT
1 CCCTAAAAATAC-AA-AGATAATT
1676006 -CCTAATAAATACAAAGATAATT
1 CCCTAA-AAATACAAAGATAATT
1676028 CCCTAAAAATTACAAAGGATAATT
1 CCCTAAAAA-TACAAA-GATAATT
1676052 CCCATAAA
1 CCC-TAAA
1676060 TGTATGAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
22 10 0.21
23 18 0.38
24 15 0.32
25 4 0.09
ACGTcount: A:0.49, C:0.19, G:0.08, T:0.24
Consensus pattern (22 bp):
CCCTAAAAATACAAAGATAATT
Found at i:1679108 original size:17 final size:18
Alignment explanation
Indices: 1679088--1679129 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
1679078 GTCCTTTTAA
1679088 ATATTATAAA-TTAAAAG
1 ATATTATAAACTTAAAAG
*
1679105 ATATTTTAAACTTAAAAG
1 ATATTATAAACTTAAAAG
1679123 ATATTAT
1 ATATTAT
1679130 TATCTGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.40
Consensus pattern (18 bp):
ATATTATAAACTTAAAAG
Found at i:1684600 original size:29 final size:29
Alignment explanation
Indices: 1684567--1684667 Score: 77
Period size: 29 Copynumber: 3.4 Consensus size: 29
1684557 CAAAACAATT
1684567 AACTTTTCAAAATATACTTTTGGTCCCTA
1 AACTTTTCAAAATATACTTTTGGTCCCTA
* * *
1684596 AACTTTTGAAAA-ATACTCTTTTGGT-CTTT
1 AACTTTTCAAAATATA--CTTTTGGTCCCTA
*
1684625 AACTTTTCCAAACTTTATA-TTTTGG-CCACTA
1 AACTTTT-CAAA--ATATACTTTTGGTCC-CTA
1684656 AAC-TTTCAAAAT
1 AACTTTTCAAAAT
1684668 TTATATTTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 18
0.68 0.10 0.22
Matches are distributed among these distances:
27 1 0.02
28 3 0.05
29 24 0.43
30 21 0.38
31 4 0.07
33 3 0.05
ACGTcount: A:0.32, C:0.19, G:0.07, T:0.43
Consensus pattern (29 bp):
AACTTTTCAAAATATACTTTTGGTCCCTA
Found at i:1689227 original size:34 final size:34
Alignment explanation
Indices: 1689163--1689229 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 34
1689153 AATGAGTGTA
1689163 TATATGTTTAATATTTTTAATTTAAAAGATATTAT
1 TATATGTTTAATA-TTTTAATTTAAAAGATATTAT
1689198 TATATGTTTAA-A-TTTAGATATTAAAAGATATT
1 TATATGTTTAATATTTTA-AT-TTAAAAGATATT
1689230 TAGTTGGAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
32 4 0.13
33 2 0.07
34 13 0.43
35 11 0.37
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (34 bp):
TATATGTTTAATATTTTAATTTAAAAGATATTAT
Found at i:1689275 original size:82 final size:82
Alignment explanation
Indices: 1689169--1689408 Score: 339
Period size: 78 Copynumber: 3.0 Consensus size: 82
1689159 TGTATATATG
*
1689169 TTTAATATTTTTAATTTAAAAGATATTATTATATGTTTAAATTTAGATATTAAAAGATATTTAGT
1 TTTAATATTTTAAATTTAAAAGATATTATTATATGTTTAAATTTAGATATTAAAAGAT-TTTAGT
1689234 TGGAGTAAAACTCTCAGA
65 TGGAGTAAAACTCTCAGA
* *
1689252 TTTAATA-TTTAAATTTAAGAGATATTA-T-TA--TTTAAATTTAGATATTAAAA-TTGTTTAGT
1 TTTAATATTTTAAATTTAAAAGATATTATTATATGTTTAAATTTAGATATTAAAAGAT-TTTAGT
* *
1689311 TGTAGTAAAACTCTCATA
65 TGGAGTAAAACTCTCAGA
* *
1689329 TTTGATATTTTAAATTTAAAAGATATTATTATATGTTTAAATTTAGATATTAAAAGAGTTCTAGT
1 TTTAATATTTTAAATTTAAAAGATATTATTATATGTTTAAATTTAGATATTAAAAGA-TTTTAGT
*
1689394 TGGAGTTAAACTCTC
65 TGGAGTAAAACTCTC
1689409 TCGAAACTCC
Statistics
Matches: 138, Mismatches: 12, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
77 29 0.21
78 39 0.28
79 1 0.01
80 4 0.03
81 1 0.01
82 38 0.28
83 25 0.18
84 1 0.01
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.45
Consensus pattern (82 bp):
TTTAATATTTTAAATTTAAAAGATATTATTATATGTTTAAATTTAGATATTAAAAGATTTTAGTT
GGAGTAAAACTCTCAGA
Found at i:1689286 original size:23 final size:22
Alignment explanation
Indices: 1689249--1689291 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
1689239 TAAAACTCTC
1689249 AGATTTAATATTTAAATTTAAG
1 AGATTTAATATTTAAATTTAAG
*
1689271 AGATATTATTATTTAAATTTA
1 AGAT-TTAATATTTAAATTTA
1689292 GATATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (22 bp):
AGATTTAATATTTAAATTTAAG
Found at i:1689325 original size:77 final size:81
Alignment explanation
Indices: 1689169--1689408 Score: 328
Period size: 82 Copynumber: 3.0 Consensus size: 81
1689159 TGTATATATG
* *
1689169 TTTAATATTTTTAATTTAAAAGATATTATTATATGTTTAAATTTAGATATTAAAAGATATTTAGT
1 TTTAATATTTTAAATTTAAAAGATATTATTATA-GTTTAAATTTAGATATTAAAA-ATGTTTAGT
1689234 TGGAGTAAAACTCTCAGA
64 TGGAGTAAAACTCTCAGA
* *
1689252 TTTAATA-TTTAAATTTAAGAGATATTA-T-TA-TTTAAATTTAGATATTAAAATTGTTTAGTTG
1 TTTAATATTTTAAATTTAAAAGATATTATTATAGTTTAAATTTAGATATTAAAAATGTTTAGTTG
* *
1689313 TAGTAAAACTCTCATA
66 GAGTAAAACTCTCAGA
*
1689329 TTTGATATTTTAAATTTAAAAGATATTATTATATGTTTAAATTTAGATATTAAAAGA-GTTCTAG
1 TTTAATATTTTAAATTTAAAAGATATTATTATA-GTTTAAATTTAGATATTAAAA-ATGTT-TAG
*
1689393 TTGGAGTTAAACTCTC
63 TTGGAGTAAAACTCTC
1689409 TCGAAACTCC
Statistics
Matches: 139, Mismatches: 11, Indels: 14
0.85 0.07 0.09
Matches are distributed among these distances:
77 29 0.21
78 39 0.28
79 1 0.01
80 4 0.03
81 1 0.01
82 41 0.29
83 24 0.17
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.45
Consensus pattern (81 bp):
TTTAATATTTTAAATTTAAAAGATATTATTATAGTTTAAATTTAGATATTAAAAATGTTTAGTTG
GAGTAAAACTCTCAGA
Found at i:1698021 original size:13 final size:13
Alignment explanation
Indices: 1697999--1698032 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
1697989 TATACCGACT
*
1697999 AAAGTCATTGGTG
1 AAAGTAATTGGTG
1698012 AAAGTAATTGGTG
1 AAAGTAATTGGTG
1698025 AAAGTAAT
1 AAAGTAAT
1698033 GAAGTAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.41, C:0.03, G:0.26, T:0.29
Consensus pattern (13 bp):
AAAGTAATTGGTG
Found at i:1704712 original size:20 final size:20
Alignment explanation
Indices: 1704689--1704736 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
1704679 TTAGTACTAT
* *
1704689 TATTGTTCATCGAGTATTGG
1 TATTGTTCATCGAGTACTGA
1704709 TATTGTTCATCGAGTACTGA
1 TATTGTTCATCGAGTACTGA
1704729 TATTGTTC
1 TATTGTTC
1704737 TTTGTCAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.46
Consensus pattern (20 bp):
TATTGTTCATCGAGTACTGA
Found at i:1707451 original size:23 final size:23
Alignment explanation
Indices: 1707425--1707471 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
1707415 ACCGATACTA
*
1707425 TATA-CAGTATCGATACTACTTAG
1 TATAGCAGTATCAATACT-CTTAG
*
1707448 TATAGTAGTATCAATACTCTTAG
1 TATAGCAGTATCAATACTCTTAG
1707471 T
1 T
1707472 GGTGGTATCG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (23 bp):
TATAGCAGTATCAATACTCTTAG
Found at i:1725376 original size:116 final size:116
Alignment explanation
Indices: 1725201--1725462 Score: 330
Period size: 116 Copynumber: 2.3 Consensus size: 116
1725191 ATTTATTATA
* * * *
1725201 ATTAGGAGCCC-TTCTACTGGAAATATTGGTCACCTCCTTTTATGATGGACGAGCCAAGGTCAAA
1 ATTAGGAACCCTTTCTACTGGAAATATTGATCACCTCATTCTATGATGGACGAGCCAAGGTCAAA
* *
1725265 TAAGTTATTCTCATTAGGAACTTCTTCTCCCTCATCGGACGAGTTCTTCTC
66 CAAGTTATTCTCATTAGGAACTTCTTCTCCCTCATCGAACGAGTTCTTCTC
* * * * *
1725316 ATTATGAA-CCTTTCTAATGGAAATATTGATCCACCTCATTCTATGATGGACTAGCTAAGGTCGA
1 ATTAGGAACCCTTTCTACTGGAAATATTGAT-CACCTCATTCTATGATGGACGAGCCAAGGTCAA
* * * * * *
1725380 ACAAGTTCTTCTCATTATGAACTTTTTCTTCCTGATTGAACGAGTTCTTCTC
65 ACAAGTTATTCTCATTAGGAACTTCTTCTCCCTCATCGAACGAGTTCTTCTC
* *
1725432 ATTAGGAACCCTTTCTACTAGAAATTTTGAT
1 ATTAGGAACCCTTTCTACTGGAAATATTGAT
1725463 TTGCCCCTTT
Statistics
Matches: 123, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
114 2 0.02
115 23 0.19
116 79 0.64
117 19 0.15
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (116 bp):
ATTAGGAACCCTTTCTACTGGAAATATTGATCACCTCATTCTATGATGGACGAGCCAAGGTCAAA
CAAGTTATTCTCATTAGGAACTTCTTCTCCCTCATCGAACGAGTTCTTCTC
Found at i:1725504 original size:587 final size:589
Alignment explanation
Indices: 1724489--1725639 Score: 1445
Period size: 587 Copynumber: 2.0 Consensus size: 589
1724479 AAATTTTCAT
* * *
1724489 CCAAAATCAAATTCATATGTTTGAAATCTAGGAGCTAGAAGTTCTTCTCATTAGTAAATTTTCAC
1 CCAAAATCAAATTCATATGCTTGAAATCTAAGAGCTAGAAGTTCTTCTCATTAGCAAATTTTCAC
* * * * * * *
1724554 TCCCTTTTTAGACAAGTTCTTCTCATTAGGAACCCTTCCTTATCGGACGAATTCTTCTCATTAGG
66 TCACTTTTCAGACAAGTTCTTCTCATTAGGAACCCTTCCTCATCGAACGAATTATTATAATTAGG
* * * **
1724619 AACCCCTCCACTAGAAATGTTGATCCACATCCTTCTATGATGAACGAGTCAATCTTGAATAAGTT
131 AACCCCTCCACTAGAAATATTGATCCACATCCTTCTATGATGAACGAGCCAAGCTCAAATAAGTT
* * * *
1724684 TTTCTCATTAGGTACTTCTCCTCCCTCATCGAACGAATTCTTTTTATTATGAACCCTTCTAATGA
196 ATTCTCATTAGGAACTTCTCCTCCCTCATCGAACGAATTCTTCTCATTATGAACCCTTCTAATGA
** * * * *
1724749 AAATATTAATCTGCTTTATTCTGTGATGGACGAGCTAAGGTTGAACAAGTTCTTCTCATTAGGAA
261 AAATATTAATCCACCTCATTCTATGATGGACGAGCTAAGGTCGAACAAGTTCTTCTCATTAGGAA
*
1724814 CTTCTTCTCCCTTATTGAGAGAGTTCTTCTAATTACGAACCCTTATACTAAAAATGATGATTCAC
326 CTTCTTCTCCCTGATTGAGAGAGTTCTTCTAATTACGAACCCTTATACTAAAAATGATGATTCAC
* * * *
1724879 CTCCTTTCGTGATTGATGAAACCATGGTTAATCAAGTTCTTCTTATTATGAACTTTTTCTTCCTT
391 CTCCTTTCGTGATTGATGAAACCATAGTTAATCAAGTTCTTCTTATTAGGAACTTGTTCTTCCTG
* * ** * *
1724944 ATCGAATGAATTCTTTTCATTTTGAACCCTTCCATTGGAAATTTTTTATCTAT-CTGTCTTAG-A
456 ATCGAATGAATTCTTCTCATTATGAACCCTTCCATTGGAAATGCTTGATCTATCCTCTCTTAGAA
* ** * *
1725007 TGAATTTTAGTCCTATTAAATATGTATCATGTGTCATTGGTATGTAATTAAAGTACTCAAAGATA
521 T-AATTTTAGACCTAAAAAAGAGGTATCATGTGTCATTGGTATGTAATTAAAGTACTCAAAGATA
1725072 TTGAC
585 TTGAC
* * *
1725077 CCAAAGTCAAATTCATATGCTTGAAATCTAAGAGCTATAATTTCTTCTCATTAGCAAATTTTCAC
1 CCAAAATCAAATTCATATGCTTGAAATCTAAGAGCTAGAAGTTCTTCTCATTAGCAAATTTTCAC
* * * * *
1725142 TCACTTTTCGGACAAGTTCTTCTCATTAGTAACCCTTTCTCCTCGAACGATTTATTATAATTAGG
66 TCACTTTTCAGACAAGTTCTTCTCATTAGGAACCCTTCCTCATCGAACGAATTATTATAATTAGG
* * * * * * * * *
1725207 AGCCCTTCTACTGGAAATATTGGT-CACCTCCTTTTATGATGGACGAGCCAAGGTCAAATAAGTT
131 AACCCCTCCACTAGAAATATTGATCCACATCCTTCTATGATGAACGAGCCAAGCTCAAATAAGTT
* * * * *
1725271 ATTCTCATTAGGAACTTCTTCTCCCTCATCGGACGAGTTCTTCTCATTATGAACCTTTCTAATGG
196 ATTCTCATTAGGAACTTCTCCTCCCTCATCGAACGAATTCTTCTCATTATGAACCCTTCTAATGA
* * *
1725336 AAATATTGATCCACCTCATTCTATGATGGACTAGCTAAGGTCGAACAAGTTCTTCTCATTATGAA
261 AAATATTAATCCACCTCATTCTATGATGGACGAGCTAAGGTCGAACAAGTTCTTCTCATTAGGAA
* * * * * * ** *
1725401 CTTTTTCTTCCTGATTGA-ACGAGTTCTTCTCATTAGGAACCCTTTCTACTAGAAATTTTGATTT
326 CTTCTTCTCCCTGATTGAGA-GAGTTCTTCTAATTACGAACCC-TTATACTAAAAATGATGATTC
* *
1725465 GCC-CCTTTCTGTGATCT-ATG-AACCAATATTTAA-CAAGTTCTTCTTATTAGGAACTTGTTCT
389 ACCTCCTTTC-GTGAT-TGATGAAACC-ATAGTTAATCAAGTTCTTCTTATTAGGAACTTGTTCT
* * *
1725526 TCCTGATCGGATGAGTTCTTCTCATTATGAACCTTTCCATTGGAAATGCTTGATCTATCCTCTCT
451 TCCTGATCGAATGAATTCTTCTCATTATGAACCCTTCCATTGGAAATGCTTGATCTATCCTCTCT
* * *
1725591 TTGAATAATTTTAGACCTAAAAAAGGGGTATCATGTGTCTTTGGTATGT
516 TAGAATAATTTTAGACCTAAAAAAGAGGTATCATGTGTCATTGGTATGT
1725640 GATAAATTAT
Statistics
Matches: 473, Mismatches: 83, Indels: 14
0.83 0.15 0.02
Matches are distributed among these distances:
586 1 0.00
587 264 0.56
588 205 0.43
589 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.38
Consensus pattern (589 bp):
CCAAAATCAAATTCATATGCTTGAAATCTAAGAGCTAGAAGTTCTTCTCATTAGCAAATTTTCAC
TCACTTTTCAGACAAGTTCTTCTCATTAGGAACCCTTCCTCATCGAACGAATTATTATAATTAGG
AACCCCTCCACTAGAAATATTGATCCACATCCTTCTATGATGAACGAGCCAAGCTCAAATAAGTT
ATTCTCATTAGGAACTTCTCCTCCCTCATCGAACGAATTCTTCTCATTATGAACCCTTCTAATGA
AAATATTAATCCACCTCATTCTATGATGGACGAGCTAAGGTCGAACAAGTTCTTCTCATTAGGAA
CTTCTTCTCCCTGATTGAGAGAGTTCTTCTAATTACGAACCCTTATACTAAAAATGATGATTCAC
CTCCTTTCGTGATTGATGAAACCATAGTTAATCAAGTTCTTCTTATTAGGAACTTGTTCTTCCTG
ATCGAATGAATTCTTCTCATTATGAACCCTTCCATTGGAAATGCTTGATCTATCCTCTCTTAGAA
TAATTTTAGACCTAAAAAAGAGGTATCATGTGTCATTGGTATGTAATTAAAGTACTCAAAGATAT
TGAC
Found at i:1728816 original size:13 final size:13
Alignment explanation
Indices: 1728794--1728838 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
1728784 TAGAGCTAAA
1728794 TCAACTCATTCAG
1 TCAACTCATTCAG
*
1728807 TCAA-TCCATTGAG
1 TCAACT-CATTCAG
*
1728820 TCAACTCACTCAG
1 TCAACTCATTCAG
1728833 TCAACT
1 TCAACT
1728839 AGATGAGTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 1 0.04
13 25 0.93
14 1 0.04
ACGTcount: A:0.31, C:0.31, G:0.09, T:0.29
Consensus pattern (13 bp):
TCAACTCATTCAG
Found at i:1728845 original size:26 final size:26
Alignment explanation
Indices: 1728794--1728851 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
1728784 TAGAGCTAAA
* *
1728794 TCAACTCATTCAGTCAATCCATTGAG
1 TCAACTCACTCAGTCAATCCAATGAG
*
1728820 TCAACTCACTCAGTCAA-CTAGATGAG
1 TCAACTCACTCAGTCAATCCA-ATGAG
1728846 TCAACT
1 TCAACT
1728852 TGAACAGAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 2 0.07
26 26 0.93
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.28
Consensus pattern (26 bp):
TCAACTCACTCAGTCAATCCAATGAG
Found at i:1731054 original size:72 final size:71
Alignment explanation
Indices: 1730927--1731061 Score: 198
Period size: 72 Copynumber: 1.9 Consensus size: 71
1730917 GTCTCTGTAG
* * *
1730927 GTTCAGTTCTATTAAGCTGGTAATTCCTTATATAGGTTTAGCACCGATAAACTGGTAATTCCTTA
1 GTTCAGTTATATCAAGCTGGTAATTCCTTATATAGGTTCAGCACCGATAAACTGGTAATTCCTTA
1730992 TTGCAA
66 TTGCAA
* * * *
1730998 GTTCAGTTATGATCAAGTTGGTAATTCCTTATATAGGTTCAGCATCGATCAGCTGGTAATTCCT
1 GTTCAGTTAT-ATCAAGCTGGTAATTCCTTATATAGGTTCAGCACCGATAAACTGGTAATTCCT
1731062 AAAGGACCTA
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
71 9 0.16
72 47 0.84
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.38
Consensus pattern (71 bp):
GTTCAGTTATATCAAGCTGGTAATTCCTTATATAGGTTCAGCACCGATAAACTGGTAATTCCTTA
TTGCAA
Found at i:1734771 original size:21 final size:20
Alignment explanation
Indices: 1734743--1734781 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
1734733 CATTGCAGGA
*
1734743 ATTTATGGCCTCGACAAAAT
1 ATTTATGGCCTCAACAAAAT
1734763 ATTTCATGGCCTCAACAAA
1 ATTT-ATGGCCTCAACAAA
1734782 GGCCTTGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (20 bp):
ATTTATGGCCTCAACAAAAT
Found at i:1737269 original size:10 final size:10
Alignment explanation
Indices: 1737239--1737271 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
1737229 AAAAAAAAAA
*
1737239 AAAAAAAGGC
1 AAAAAAAGCC
1737249 AAAAAAA-CC
1 AAAAAAAGCC
1737258 AAAAAAAGCC
1 AAAAAAAGCC
1737268 AAAA
1 AAAA
1737272 TTTCAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.76, C:0.15, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAAAAAGCC
Found at i:1748332 original size:61 final size:61
Alignment explanation
Indices: 1748247--1748361 Score: 167
Period size: 61 Copynumber: 1.9 Consensus size: 61
1748237 TAAGGTGGAT
* * * *
1748247 ACGACCTAATGTATCATGTTCGGATTAGCACTATAGCGTAAGCTTAGTGTAGGTGGTGGGC
1 ACGACCTAATGTATCATATCCGGATTAGCACTATAGCATAAGCTTAGTGCAGGTGGTGGGC
* * *
1748308 ACGACCTTATGTGTCATATCCGGATTAGCACTATGGCATAAGCTTAGTGCAGGT
1 ACGACCTAATGTATCATATCCGGATTAGCACTATAGCATAAGCTTAGTGCAGGT
1748362 TTAGCACTAC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (61 bp):
ACGACCTAATGTATCATATCCGGATTAGCACTATAGCATAAGCTTAGTGCAGGTGGTGGGC
Found at i:1752563 original size:10 final size:10
Alignment explanation
Indices: 1752548--1752572 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1752538 TGCACAGCAT
1752548 TTTAGTTGCA
1 TTTAGTTGCA
1752558 TTTAGTTGCA
1 TTTAGTTGCA
1752568 TTTAG
1 TTTAG
1752573 GTTATATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.08, G:0.20, T:0.52
Consensus pattern (10 bp):
TTTAGTTGCA
Found at i:1755501 original size:9 final size:10
Alignment explanation
Indices: 1755428--1755506 Score: 65
Period size: 10 Copynumber: 7.8 Consensus size: 10
1755418 ATTTATTTTG
1755428 TTTTTATTAT
1 TTTTTATTAT
*
1755438 TATTTTGTTAT
1 T-TTTTATTAT
1755449 TGTTTTA-T-T
1 T-TTTTATTAT
**
1755458 TTCGT-TTAT
1 TTTTTATTAT
*
1755467 TTGTTATTCAAT
1 TTTTTATT--AT
1755479 TTTTTATTAT
1 TTTTTATTAT
1755489 TTTTTATTAT
1 TTTTTATTAT
1755499 TTTTTATT
1 TTTTTATT
1755507 TAAATATTGT
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
8 3 0.05
9 6 0.11
10 24 0.44
11 13 0.24
12 9 0.16
ACGTcount: A:0.18, C:0.03, G:0.05, T:0.75
Consensus pattern (10 bp):
TTTTTATTAT
Found at i:1755507 original size:17 final size:18
Alignment explanation
Indices: 1755414--1755507 Score: 61
Period size: 17 Copynumber: 5.1 Consensus size: 18
1755404 TATATGTGTA
1755414 TTTTATTTATTTTGTT-TT
1 TTTTA-TTATTTTGTTATT
*
1755432 TATTATTATTTTGTTATT
1 TTTTATTATTTTGTTATT
*
1755450 GTTTTA-T-TTTCGTTTATT
1 -TTTTATTATTTTG-TTATT
* *
1755468 TGTTATTCAATTTTTTATTATT
1 TTTTATT--A--TTTTGTTATT
1755490 TTTTATTATTTT-TTATT
1 TTTTATTATTTTGTTATT
1755507 T
1 T
1755508 AAATATTGTA
Statistics
Matches: 60, Mismatches: 7, Indels: 19
0.70 0.08 0.22
Matches are distributed among these distances:
17 24 0.40
18 17 0.28
19 4 0.07
20 1 0.02
22 11 0.18
23 3 0.05
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTTATTATTTTGTTATT
Found at i:1756310 original size:3 final size:3
Alignment explanation
Indices: 1756302--1756705 Score: 668
Period size: 3 Copynumber: 137.7 Consensus size: 3
1756292 TTTACCCAAA
1756302 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T-T TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1756349 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1756397 TCT TCT TCT TCT TCT TCT TCT TCTT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TC-T TCT TCT TCT TCT TCT TCT TCT
*
1756443 TCT TCT TCT TCT TC- TCT TC- TCT TCT TCC TCT TCT TCT TCT TC- TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1756488 TCT TCT TC- TCT TC- TCTT TCT TCT TCT TCT TCT TCT TC- TCT TCT
1 TCT TCT TCT TCT TCT TC-T TCT TCT TCT TCT TCT TCT TCT TCT TCT
1756531 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC- TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
1756578 TCT TCT TCT TC- TCT TCT TCT TCT TCC TCT TCT TCT TCT TC- TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* * *
1756624 TCT TCT TCC TCT TCT TCT TCT TCC TCT TCT TCT TCT TCC TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1756672 TCT TC- TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1756706 ACTTCTAATG
Statistics
Matches: 378, Mismatches: 10, Indels: 26
0.91 0.02 0.06
Matches are distributed among these distances:
2 22 0.06
3 351 0.93
4 5 0.01
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:1763626 original size:17 final size:20
Alignment explanation
Indices: 1763606--1763646 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
1763596 TTTTATAAAT
1763606 TTAT-ATTTTTAT-GTAT-A
1 TTATCATTTTTATAGTATAA
*
1763623 TTATCTTTTTTATAGTATAA
1 TTATCATTTTTATAGTATAA
1763643 TTAT
1 TTAT
1763647 TTTCATGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 4 0.20
18 7 0.35
19 4 0.20
20 5 0.25
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.63
Consensus pattern (20 bp):
TTATCATTTTTATAGTATAA
Found at i:1764730 original size:18 final size:18
Alignment explanation
Indices: 1764697--1764736 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
1764687 TTTTCGTCTT
*
1764697 TTATATTTATTATTATTC
1 TTATATTTATTATTATTA
1764715 TTATATTT-TTATTTATTA
1 TTATATTTATTA-TTATTA
1764733 TTAT
1 TTAT
1764737 TATTACTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (18 bp):
TTATATTTATTATTATTA
Found at i:1764781 original size:22 final size:22
Alignment explanation
Indices: 1764753--1764815 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 22
1764743 TAAAAATATA
*
1764753 TTACAAATCGAGCCCAAACCAT
1 TTACAAATCGAGCCCAAACAAT
*
1764775 TTACAAATCGGGCCCAAACAAT
1 TTACAAATCGAGCCCAAACAAT
* * *
1764797 TTATAAATTGATCCCAAAC
1 TTACAAATCGAGCCCAAAC
1764816 TAAACCCAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.41, C:0.27, G:0.10, T:0.22
Consensus pattern (22 bp):
TTACAAATCGAGCCCAAACAAT
Found at i:1764859 original size:22 final size:22
Alignment explanation
Indices: 1764809--1764903 Score: 57
Period size: 22 Copynumber: 4.3 Consensus size: 22
1764799 ATAAATTGAT
*
1764809 CCCAAACTAAACCCAAACCGGA
1 CCCAAACCAAACCCAAACCGGA
* * * *
1764831 CCAAAACCAAACCCGAATCGGG
1 CCCAAACCAAACCCAAACCGGA
** * *
1764853 CCCAAA-CAAAATCAAACATGGT
1 CCCAAACCAAACCCAAAC-CGGA
* * *
1764875 TCCAAACCAAGCCCAAACTCGGG
1 CCCAAACCAAACCCAAAC-CGGA
1764898 CCCAAA
1 CCCAAA
1764904 TTAAAACTTA
Statistics
Matches: 51, Mismatches: 20, Indels: 3
0.69 0.27 0.04
Matches are distributed among these distances:
21 7 0.14
22 29 0.57
23 15 0.29
ACGTcount: A:0.43, C:0.37, G:0.13, T:0.07
Consensus pattern (22 bp):
CCCAAACCAAACCCAAACCGGA
Found at i:1766239 original size:23 final size:23
Alignment explanation
Indices: 1766204--1766247 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
1766194 AAGATTAATT
*
1766204 ATTATTAGTATTTATACTTTAGG
1 ATTATTAGTATTTATAATTTAGG
1766227 ATTATTA-TAATTTATAATTTA
1 ATTATTAGT-ATTTATAATTTA
1766248 ATATATGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (23 bp):
ATTATTAGTATTTATAATTTAGG
Found at i:1768513 original size:18 final size:18
Alignment explanation
Indices: 1768490--1768530 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
1768480 TTTACACCCT
1768490 TTCATACATGCATTTACA
1 TTCATACATGCATTTACA
** *
1768508 TTCATATTTGTATTTACA
1 TTCATACATGCATTTACA
1768526 TTCAT
1 TTCAT
1768531 GTTCTCCATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.05, T:0.49
Consensus pattern (18 bp):
TTCATACATGCATTTACA
Found at i:1772600 original size:64 final size:64
Alignment explanation
Indices: 1772492--1772615 Score: 176
Period size: 64 Copynumber: 1.9 Consensus size: 64
1772482 ACCTTATTCG
* * * * *
1772492 AGATCTGATTAGATATAGAGATATGAAAGGAATTAGGATGAATCCTTTTTGTGATATGTTCAAA
1 AGATATGATTAGATATAGAGACATGAAAGGAATTAAGATAAATCCTTCTTGTGATATGTTCAAA
* * *
1772556 AGATATGATTAGATGTGGAGACATGAAAGGAATTAAGATAAATCCTTCTTGTGATGTGTT
1 AGATATGATTAGATATAGAGACATGAAAGGAATTAAGATAAATCCTTCTTGTGATATGTT
1772616 TCAAGAGTCA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.34
Consensus pattern (64 bp):
AGATATGATTAGATATAGAGACATGAAAGGAATTAAGATAAATCCTTCTTGTGATATGTTCAAA
Found at i:1773368 original size:20 final size:20
Alignment explanation
Indices: 1773343--1773475 Score: 180
Period size: 20 Copynumber: 6.8 Consensus size: 20
1773333 TTTCCCATAA
1773343 ATTTGTAAAGCCTTCGGGTC
1 ATTTGTAAAGCCTTCGGGTC
*
1773363 ATTTGTAAAGCC-TC-CGTC
1 ATTTGTAAAGCCTTCGGGTC
*
1773381 ATTTGTAAAGCCTCCGGGTC
1 ATTTGTAAAGCCTTCGGGTC
*
1773401 ATTTTTAAAGCCTTCGGGTC
1 ATTTGTAAAGCCTTCGGGTC
*
1773421 ATTTGTAAAGCCTTCGGGTT
1 ATTTGTAAAGCCTTCGGGTC
* * *
1773441 ATTTGTAAAACCTCCGGGTA
1 ATTTGTAAAGCCTTCGGGTC
*
1773461 ATTTGTAAATCCTTC
1 ATTTGTAAAGCCTTC
1773476 AAGTCATCTT
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
18 15 0.15
19 3 0.03
20 81 0.82
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (20 bp):
ATTTGTAAAGCCTTCGGGTC
Found at i:1773418 original size:58 final size:60
Alignment explanation
Indices: 1773342--1773475 Score: 200
Period size: 60 Copynumber: 2.3 Consensus size: 60
1773332 ATTTCCCATA
*
1773342 AATTTGTAAAGCCTTCGGGTCATTTGTAAAGCC-TC-CGTCATTTGTAAAGCCTCCGGGT
1 AATTTGTAAAGCCTTCGGGTCATTTGTAAAGCCTTCGCGTCATTTGTAAAACCTCCGGGT
* * * *
1773400 CATTTTTAAAGCCTTCGGGTCATTTGTAAAGCCTTCGGGTTATTTGTAAAACCTCCGGGT
1 AATTTGTAAAGCCTTCGGGTCATTTGTAAAGCCTTCGCGTCATTTGTAAAACCTCCGGGT
*
1773460 AATTTGTAAATCCTTC
1 AATTTGTAAAGCCTTC
1773476 AAGTCATCTT
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
58 31 0.47
59 2 0.03
60 33 0.50
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (60 bp):
AATTTGTAAAGCCTTCGGGTCATTTGTAAAGCCTTCGCGTCATTTGTAAAACCTCCGGGT
Found at i:1774125 original size:2 final size:2
Alignment explanation
Indices: 1774118--1774145 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1774108 TGTTATTTTA
1774118 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1774146 TATTTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1776989 original size:13 final size:13
Alignment explanation
Indices: 1776963--1777020 Score: 53
Period size: 13 Copynumber: 4.2 Consensus size: 13
1776953 ACAGGGTCGA
*
1776963 GTTGAGACAACTC
1 GTTGAGTCAACTC
*
1776976 GTTGAGTCATCTC
1 GTTGAGTCAACTC
*
1776989 GGCTGAGTCAACTC
1 -GTTGAGTCAACTC
*
1777003 GAATAGAGTCAACTC
1 G--TTGAGTCAACTC
1777018 GTT
1 GTT
1777021 AACTTTGACT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
13 13 0.37
14 11 0.31
15 11 0.31
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (13 bp):
GTTGAGTCAACTC
Found at i:1780792 original size:64 final size:65
Alignment explanation
Indices: 1780716--1780853 Score: 170
Period size: 64 Copynumber: 2.1 Consensus size: 65
1780706 CGGTACACTA
* * * *
1780716 AGTGTGCATCGATGCATAAAATGCATTCGATGTTTTGAATAA-GCCTAAGTGCACCGATGCATGG
1 AGTGTGCTTCGATGCATAAAATGCAATCGATGTTTTCAATAACACCTAAGTGCACCGATGCATGG
* * * * * *
1780780 TGTGTGCTTCGATGCATAAGATGTAATCGATGTTTTCATTAACACCTGAGTGCATCGATGCATGG
1 AGTGTGCTTCGATGCATAAAATGCAATCGATGTTTTCAATAACACCTAAGTGCACCGATGCATGG
*
1780845 AGAGTGCTT
1 AGTGTGCTT
1780854 AGAGGGTTTG
Statistics
Matches: 61, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
64 35 0.57
65 26 0.43
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (65 bp):
AGTGTGCTTCGATGCATAAAATGCAATCGATGTTTTCAATAACACCTAAGTGCACCGATGCATGG
Found at i:1789318 original size:64 final size:64
Alignment explanation
Indices: 1789249--1789428 Score: 184
Period size: 64 Copynumber: 2.8 Consensus size: 64
1789239 TGGAACACTT
* * * *
1789249 AGTGCATCGGTGCACTAAGTGTGCAACGATGCATAAAATGCATTCGATGTTTTGAAT-AAGCCTA
1 AGTGCATCGATGCA-TAAGTGTGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAAACCTA
* * * * *
1789313 AGTGCATCGATGCAT-GGTGTGGGCATCGATGCATAAGATGCAATCGATGTTTTCATTAAAACTT
1 AGTGCATCGATGCATAAGTGT--GCATCGATGCATAAAATGCATTCGATGTTTTCAATAAAACCT
*
1789377 G
64 A
* * * *
1789378 AGTGCATCGATGCATGAAGAGTGCATCGAAGCATAAACTACATTCGATGTT
1 AGTGCATCGATGCAT-AAGTGTGCATCGATGCATAAAATGCATTCGATGTT
1789429 CAATTTATTC
Statistics
Matches: 94, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
62 4 0.04
63 1 0.01
64 43 0.46
65 43 0.46
67 3 0.03
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (64 bp):
AGTGCATCGATGCATAAGTGTGCATCGATGCATAAAATGCATTCGATGTTTTCAATAAAACCTA
Found at i:1790286 original size:55 final size:55
Alignment explanation
Indices: 1790183--1791696 Score: 1762
Period size: 55 Copynumber: 27.7 Consensus size: 55
1790173 TTCTAAAAAC
* * * **
1790183 GGGTTCACTCCCTATTGCTTCAAGGAGTATAG-ACTCGAACAATCTTCTGAAAAT
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAAT
* * * * * *
1790237 GGGTTTGCTTCCTATTACTTTAGGGAATATAGAACTCGAACAATCTTCTGCCAAT
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAAT
* * * *
1790292 GGGTTCGCTCCCTATTGCTTTAGGGAGTATAGAACTCGAACAATCTTATG-AAAT
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAAT
* * * * *
1790346 AGGTTCGCTCCCTATTGCTTCAGGGAGTATAGAACTTGAACAATCTTCTACCAAC
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAAT
* **
1790401 GGGTTCGCTCCCTATTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGAAAAT
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAAT
** * * * * * *
1790456 GAATTCACTCCCTATTGCTTCAGGGAGTATAGAACTCAAACAATCTTCTACAAAC
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAAT
* * * *
1790511 GGGTTCGCTCCCTATTGTTTCAGGGAGTATGGAACT-GAACAATCTTCTTCCAAT
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAAT
* *
1790565 AGGTTCGCTCCCTCTTGCTTCAGGGAGTGTAGAACTCGAACAATCTTCTGCCAAT
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAAT
* * * * * * *
1790620 GGGTTCGCTACCTCTTACTTCAGCGAGTGTATAATTCGAACAATCTTCTACCAAT
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAAT
* *
1790675 GGGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTACCAACCT
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAA--T
*** * * * *
1790732 -GGTTTATTCCCTCTTACTTCAGGGAATGTAGAACTCGAACAATCTTCTGCCAAC
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAAT
* * *
1790786 GGGTTCGCTCCCTCTCGCTTCAGGGAGTATGGAACTCAAACAATCTTCTGCCAAT
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAAT
* * *
1790841 GGGTTCGCTCCCTCTTGCTTCAAGGAGTAT-GAAACTCGAAC-ATCTTTTGCCAAC
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTATAG-AACTCGAACAATCTTCTGCCAAT
* * *
1790895 GGGTTCGCTCCCTCTTGCTTCAGGGAGTGTAGAACTCAAACAATCTTCTGCCAAC
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAAT
* * * * *
1790950 AGGTTTGCTCCCTCTTGCTTCAGGGAATGTAGAACTTGAACAATCTTCTGCCAAT
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAAT
* * * * *
1791005 GGGTTCGTTCCCTCTTACTTCAGAGAGTGTAGAACTCGAACAATCTTCTACCAAT
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAAT
* *
1791060 GGGTTCGCTCTCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTACCAACCT
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAA--T
* * * * * * *
1791117 -GGTTTGTTCTCTCTTGCTTCAGGGAATGTAGAACTTGAACAATCTTCTCCCAA-
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAAT
* * *
1791170 CGGTTCGCTCCCTCTCGCTTCAGGGAGTATGGAACTCGAACAATCTTCTGCCAAT
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAAT
* * *
1791225 GGGTTCGCTCCCTCTTGCTTCAAGGAGTAT-GAAACTCGAAC-ATCTTTTGCCAAC
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTATAG-AACTCGAACAATCTTCTGCCAAT
* * *
1791279 GGGTTCGCTCCCTCTTGTTTCAGGGAGTGTAGAACTCGAACAATCTTCTGCCAAC
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAAT
** * * * * * * *
1791334 AAGTTTGCTCCCTCTTGCTTCAGGGACTATAAAAATAGAACAATCTTCTACCAAC
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAAT
*
1791389 GGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAAC
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAAT
* * * * * **
1791444 AGGTTCGCTCCATCTTACTTCAGGGAGTATGGAACTCAAACAATCTTCTATCAAT
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAAT
* * *
1791499 GGGTTTGCTCCCTCTTACTTCAGGGAGTAT-GAAACTCGAAC-A--TTCTGCCAAC
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTATAG-AACTCGAACAATCTTCTGCCAAT
* * * *
1791551 GGGTTTGCTCTCTCTTGCTTCAGGGAGTATAGAACTCGAACAATATTCTGCCAAC
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAAT
* * * * * *
1791606 GGGTTTGCTCCTTCTGGTTTC-TGGAGTATAGAACTCGAACAATCTTCTGCCAAC
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAAT
* *
1791660 GGGTTCGCTCCTTCTTGCTTCAGGGAATATAGAACTC
1 GGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTC
1791697 AAATAATATT
Statistics
Matches: 1259, Mismatches: 179, Indels: 43
0.85 0.12 0.03
Matches are distributed among these distances:
52 44 0.03
53 2 0.00
54 309 0.25
55 808 0.64
56 94 0.07
57 2 0.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (55 bp):
GGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAAT
Found at i:1790568 original size:219 final size:220
Alignment explanation
Indices: 1790161--1791696 Score: 1799
Period size: 219 Copynumber: 7.0 Consensus size: 220
1790151 GGGATATCTG
* ** * * * *
1790161 ACTCGAAAAATCTTCTAAAAACGGGTTCACTCCCTATTGCTTCAAGGAGTATAG-ACTCGAACAA
1 ACTCGAACAATCTTCTACCAATGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAA
* * * * * * *
1790225 TCTTCTGAAAATGGGTTTGCTTCCTATTACTTTAGGGAATATAGAACTCGAACAATCTTCTGCCA
66 TCTTCTGACAATGGGTTTGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTACCA
* * * * * *
1790290 ATGGGTTCGCTCCCTATTGCTTTAGGGAGTATAGAACTCGAACAATCTTATG-AAATAGGTTCGC
131 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAATGGGTTCGC
*
1790354 TCCCTATTGCTTCAGGGAGTATAGA
196 TCCCTCTTGCTTCAGGGAGTATAGA
* * *
1790379 ACTTGAACAATCTTCTACCAACGGGTTCGCTCCCTATTGCTTCAGGGAGTATAGAACTCGAACAA
1 ACTCGAACAATCTTCTACCAATGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAA
* ** ** * * *
1790444 TCTTCTGAAAATGAATTCACTCCCTATTGCTTCAGGGAGTATAGAACTCAAACAATCTTCTACAA
66 TCTTCTGACAATGGGTTTGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTACCA
* * * * *
1790509 ACGGGTTCGCTCCCTATTGTTTCAGGGAGTATGGAACT-GAACAATCTTCTTCCAATAGGTTCGC
131 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAATGGGTTCGC
*
1790573 TCCCTCTTGCTTCAGGGAGTGTAGA
196 TCCCTCTTGCTTCAGGGAGTATAGA
* * * * * * *
1790598 ACTCGAACAATCTTCTGCCAATGGGTTCGCTACCTCTTACTTCAGCGAGTGTATAATTCGAACAA
1 ACTCGAACAATCTTCTACCAATGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAA
**
1790663 TCTTCT-ACCAATGGGTTCACTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTACC
66 TCTTCTGA-CAATGGGTTTGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTACC
* *** * * * *
1790727 AACCTGGTTTATTCCCTCTTACTTCAGGGAATGTAGAACTCGAACAATCTTCTGCCAACGGGTTC
130 AA-CGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAATGGGTTC
* *
1790792 GCTCCCTCTCGCTTCAGGGAGTATGGA
194 GCTCCCTCTTGCTTCAGGGAGTATAGA
* * *
1790819 ACTCAAACAATCTTCTGCCAATGGGTTCGCTCCCTCTTGCTTCAAGGAGTAT-GAAACTCGAAC-
1 ACTCGAACAATCTTCTACCAATGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAG-AACTCGAACA
* * * * * * *
1790882 ATCTTTTGCCAACGGGTTCGCTCCCTCTTGCTTCAGGGAGTGTAGAACTCAAACAATCTTCTGCC
65 ATCTTCTGACAATGGGTTTGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTACC
* * * * *
1790947 AACAGGTTTGCTCCCTCTTGCTTCAGGGAATGTAGAACTTGAACAATCTTCTGCCAATGGGTTCG
130 AACGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAATGGGTTCG
* * * *
1791012 TTCCCTCTTACTTCAGAGAGTGTAGA
195 CTCCCTCTTGCTTCAGGGAGTATAGA
*
1791038 ACTCGAACAATCTTCTACCAATGGGTTCGCTCTCTCTTGCTTCAGGGAGTATAGAACTCGAACAA
1 ACTCGAACAATCTTCTACCAATGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAA
* * * * * *
1791103 TCTTCT-ACCAACCT-GGTTTGTTCTCTCTTGCTTCAGGGAATGTAGAACTTGAACAATCTTCTC
66 TCTTCTGA-CAA--TGGGTTTGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTA
* *
1791166 CCAAC-GGTTCGCTCCCTCTCGCTTCAGGGAGTATGGAACTCGAACAATCTTCTGCCAATGGGTT
128 CCAACGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAATGGGTT
*
1791230 CGCTCCCTCTTGCTTCAAGGAGTAT-GAA
193 CGCTCCCTCTTGCTTCAGGGAGTATAG-A
* * * * *
1791258 ACTCGAAC-ATCTTTTGCCAACGGGTTCGCTCCCTCTTGTTTCAGGGAGTGTAGAACTCGAACAA
1 ACTCGAACAATCTTCTACCAATGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAA
* *** * * * *
1791322 TCTTCTGCCAACAAGTTTGCTCCCTCTTGCTTCAGGGACTATAAAAATAGAACAATCTTCTACCA
66 TCTTCTGACAATGGGTTTGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTACCA
**
1791387 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAACAGGTTCGC
131 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAATGGGTTCGC
* * *
1791452 TCCATCTTACTTCAGGGAGTATGGA
196 TCCCTCTTGCTTCAGGGAGTATAGA
* * * *
1791477 ACTCAAACAATCTTCTATCAATGGGTTTGCTCCCTCTTACTTCAGGGAGTAT-GAAACTCGAAC-
1 ACTCGAACAATCTTCTACCAATGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAG-AACTCGAACA
* * * * *
1791540 A--TTCTGCCAACGGGTTTGCTCTCTCTTGCTTCAGGGAGTATAGAACTCGAACAATATTCTGCC
65 ATCTTCTGACAATGGGTTTGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTACC
* * * * * *
1791603 AACGGGTTTGCTCCTTCTGGTTTC-TGGAGTATAGAACTCGAACAATCTTCTGCCAACGGGTTCG
130 AACGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAATGGGTTCG
* *
1791667 CTCCTTCTTGCTTCAGGGAATATAGA
195 CTCCCTCTTGCTTCAGGGAGTATAGA
1791693 ACTC
1 ACTC
1791697 AAATAATATT
Statistics
Matches: 1137, Mismatches: 162, Indels: 40
0.85 0.12 0.03
Matches are distributed among these distances:
216 64 0.06
217 73 0.06
218 105 0.09
219 526 0.46
220 223 0.20
221 146 0.13
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (220 bp):
ACTCGAACAATCTTCTACCAATGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAA
TCTTCTGACAATGGGTTTGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTACCA
ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTGCCAATGGGTTCGC
TCCCTCTTGCTTCAGGGAGTATAGA
Found at i:1792868 original size:7 final size:7
Alignment explanation
Indices: 1792858--1793021 Score: 100
Period size: 7 Copynumber: 21.3 Consensus size: 7
1792848 TTTTCTCTCT
1792858 TTTTTTC
1 TTTTTTC
1792865 TTTTTTC
1 TTTTTTC
1792872 TTTTTTC
1 TTTTTTC
*
1792879 TTTCTCTTT
1 TTT-T-TTC
1792888 TTCTTTTC
1 TT-TTTTC
1792896 -TTTTTC
1 TTTTTTC
*
1792902 ATTTTTC
1 TTTTTTC
*
1792909 CTTTTTC
1 TTTTTTC
1792916 ATTTTTTTC
1 --TTTTTTC
1792925 TTTTTTTC
1 -TTTTTTC
1792933 ATTTTTTTC
1 --TTTTTTC
*
1792942 ATTTTTC
1 TTTTTTC
1792949 ATTTTTT-
1 -TTTTTTC
1792956 TTTCATTT-
1 TTT--TTTC
*
1792964 TTTTCTC
1 TTTTTTC
1792971 TTTTTTTC
1 -TTTTTTC
1792979 ATTTTTTCTC
1 --TTTTT-TC
1792989 TTTTTTTCC
1 -TTTTTT-C
1792998 TTTTTTCC
1 TTTTTT-C
1793006 TTTTTTC
1 TTTTTTC
1793013 TTTTTTC
1 TTTTTTC
1793020 TT
1 TT
1793022 CTTCAAGCAA
Statistics
Matches: 134, Mismatches: 8, Indels: 30
0.78 0.05 0.17
Matches are distributed among these distances:
6 10 0.07
7 46 0.34
8 43 0.32
9 32 0.24
10 3 0.02
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTTTC
Found at i:1792868 original size:8 final size:8
Alignment explanation
Indices: 1792841--1793018 Score: 128
Period size: 9 Copynumber: 20.6 Consensus size: 8
1792831 TTAGACCTGC
*
1792841 TTTTTTAT
1 TTTTTTCT
*
1792849 TTTCTCTCT
1 TTT-TTTCT
1792858 TTTTTTCT
1 TTTTTTCT
*
1792866 TTTTTCTTT
1 TTTTT-TCT
1792875 TTTCTTTCT
1 TTT-TTTCT
*
1792884 CTTTTTCT
1 TTTTTTCT
1792892 TTTCTTT-T
1 TTT-TTTCT
1792900 TCATTTTTC-
1 T--TTTTTCT
*
1792909 CTTTTTCAT
1 TTTTTTC-T
1792918 TTTTTTCT
1 TTTTTTCT
1792926 TTTTTTCAT
1 TTTTTTC-T
1792935 TTTTTTCAT
1 TTTTTTC-T
1792944 TTTTCATT-T
1 TTTT--TTCT
1792953 TTTTTTCATT
1 TTTTTTC--T
1792963 TTTTTCTCT
1 TTTTT-TCT
1792972 TTTTTTCAT
1 TTTTTTC-T
1792981 TTTTTCTCT
1 TTTTT-TCT
*
1792990 TTTTTTCC
1 TTTTTTCT
*
1792998 TTTTTTCC
1 TTTTTTCT
1793006 TTTTTTCT
1 TTTTTTCT
1793014 TTTTT
1 TTTTT
1793019 CTTCTTCAAG
Statistics
Matches: 141, Mismatches: 11, Indels: 36
0.75 0.06 0.19
Matches are distributed among these distances:
7 8 0.06
8 53 0.38
9 64 0.45
10 12 0.09
11 4 0.03
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTTCT
Found at i:1792869 original size:18 final size:17
Alignment explanation
Indices: 1792841--1793020 Score: 141
Period size: 18 Copynumber: 9.9 Consensus size: 17
1792831 TTAGACCTGC
* *
1792841 TTTTTTATTTTCTCTCT
1 TTTTTTCTTTTTTCTCT
*
1792858 TTTTTTCTTTTTTCTTT
1 TTTTTTCTTTTTTCTCT
*
1792875 TTTCTTTCTCTTTTTCTTT
1 TTT-TTTCT-TTTTTCTCT
*
1792894 TCTTTTTCATTTTTCCTTTTTCAT
1 T-TTTTTC---TTT--TTTCTC-T
1792918 TTTTTTCTTTTTT-TCAT
1 TTTTTTCTTTTTTCTC-T
* *
1792935 TTTTTTCATTTTTCATTT
1 TTTTTTCTTTTTTC-TCT
1792953 TTTTTTCATTTTTTTCTCT
1 TTTTTTC--TTTTTTCTCT
1792972 TTTTTTCATTTTTTCTCT
1 TTTTTTC-TTTTTTCTCT
1792990 TTTTTTCCTTTTTTC-C-
1 TTTTTT-CTTTTTTCTCT
1793006 TTTTTTCTTTTTTCT
1 TTTTTTCTTTTTTCT
1793021 TCTTCAAGCA
Statistics
Matches: 138, Mismatches: 10, Indels: 31
0.77 0.06 0.17
Matches are distributed among these distances:
15 8 0.06
16 6 0.04
17 34 0.25
18 39 0.28
19 25 0.18
20 11 0.08
21 2 0.01
22 1 0.01
23 10 0.07
24 2 0.01
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTCTTTTTTCTCT
Found at i:1792870 original size:26 final size:26
Alignment explanation
Indices: 1792841--1793024 Score: 85
Period size: 26 Copynumber: 6.7 Consensus size: 26
1792831 TTAGACCTGC
1792841 TTTTTTATTTTCTCTCTTTTTTTCTT
1 TTTTTTATTTTCTCTCTTTTTTTCTT
* *
1792867 TTTTCTT-TTTTCTTTCTCTTTTTCTTT
1 TTTT-TTATTTTCTCTCTTTTTTTC-TT
*
1792894 TCTTTTTCATTTTTCCTTTTTCATTTTTTTCTT
1 T-TTTTT-A-TTTT-C--TCTC-TTTTTTTCTT
* *
1792927 TTTTTCATTTT-TTTCATTTTTCATT-TT
1 TTTTTTATTTTCTCTC-TTTTT--TTCTT
* *
1792954 TTTTTCATTTTTTTCTCTTTTTTTCATT
1 TTTTTTA-TTTTCTCTCTTTTTTTC-TT
* *
1792982 TTTTCTCT-TTTTTTC-CTTTTTTCCTT
1 TTTT-T-TATTTTCTCTCTTTTTTTCTT
1793008 TTTTCTT-TTTTCT-TCTT
1 TTTT-TTATTTTCTCTCTT
1793025 CAAGCAAAAT
Statistics
Matches: 131, Mismatches: 8, Indels: 39
0.74 0.04 0.22
Matches are distributed among these distances:
25 9 0.07
26 39 0.30
27 24 0.18
28 27 0.21
29 4 0.03
30 8 0.06
31 2 0.02
32 4 0.03
33 7 0.05
34 7 0.05
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (26 bp):
TTTTTTATTTTCTCTCTTTTTTTCTT
Found at i:1792907 original size:37 final size:36
Alignment explanation
Indices: 1792859--1793002 Score: 125
Period size: 37 Copynumber: 3.8 Consensus size: 36
1792849 TTTCTCTCTT
*
1792859 TTTTTCTTTTTTCTTTTTTCTTTCTCTTTTTCTTTTC
1 TTTTTCATTTTTCTTTTTT-TTTCTCTTTTTCTTTTC
*
1792896 TTTTTCATTTTTCCTTTTTCATTTTTTTCTTTTT-TTCATT-
1 TTTTTCATTTTT-C-TTTT--TTTTTCTCTTTTTCTT--TTC
* *
1792936 TTTTTCATTTTTCATTTTTTTTTCATTTTTTTCTCTT-
1 TTTTTCATTTTTC-TTTTTTTTTC-TCTTTTTCTTTTC
*
1792973 TTTTTCATTTTTTCTCTTTTTTTC-CTTTTT
1 TTTTTCA-TTTTTCTTTTTTTTTCTCTTTTT
1793003 TCCTTTTTTC
Statistics
Matches: 90, Mismatches: 8, Indels: 20
0.76 0.07 0.17
Matches are distributed among these distances:
35 5 0.06
37 34 0.38
38 13 0.14
39 12 0.13
40 22 0.24
41 4 0.04
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (36 bp):
TTTTTCATTTTTCTTTTTTTTTCTCTTTTTCTTTTC
Found at i:1794213 original size:15 final size:15
Alignment explanation
Indices: 1794193--1794223 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1794183 TCATTCTTCT
1794193 AATGGTTCTCTTATC
1 AATGGTTCTCTTATC
1794208 AATGGTTCTCTTATC
1 AATGGTTCTCTTATC
1794223 A
1 A
1794224 TTCTCAGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.19, G:0.13, T:0.45
Consensus pattern (15 bp):
AATGGTTCTCTTATC
Found at i:1802482 original size:36 final size:35
Alignment explanation
Indices: 1802441--1802581 Score: 133
Period size: 36 Copynumber: 3.9 Consensus size: 35
1802431 AAGTCTCTGC
1802441 AGGTTCAGTTCTGATCAAGCTGGTAATTCCTTATAT
1 AGGTTCAGTTCTGATCAA-CTGGTAATTCCTTATAT
** * *
1802477 AGGTTCAGCACCGATCAACTCGTAATTCCTTAT-T
1 AGGTTCAGTTCTGATCAACTGGTAATTCCTTATAT
* * *
1802511 GCATGTTTAGTTCTGATCAAGATGGTAATTCCTTATAT
1 --AGGTTCAGTTCTGATCAA-CTGGTAATTCCTTATAT
** *
1802549 AGGTTCAACATC-GATCAACTGATAATTCCTTAT
1 AGGTTC-AGTTCTGATCAACTGGTAATTCCTTAT
1802582 GAACCTAAGA
Statistics
Matches: 83, Mismatches: 17, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
34 1 0.01
35 27 0.33
36 38 0.46
37 16 0.19
38 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (35 bp):
AGGTTCAGTTCTGATCAACTGGTAATTCCTTATAT
Found at i:1802564 original size:72 final size:72
Alignment explanation
Indices: 1802438--1802581 Score: 227
Period size: 72 Copynumber: 2.0 Consensus size: 72
1802428 ATGAAGTCTC
* *
1802438 TGCAGGTTCAGTTCTGATCAAGCTGGTAATTCCTTATATAGGTTCAGCACCGATCAACTCG-TAA
1 TGCAGGTTCAGTTCTGATCAAGATGGTAATTCCTTATATAGGTTCAACACCGATCAACT-GATAA
1802502 TTCCTTAT
65 TTCCTTAT
* * *
1802510 TGCATGTTTAGTTCTGATCAAGATGGTAATTCCTTATATAGGTTCAACATCGATCAACTGATAAT
1 TGCAGGTTCAGTTCTGATCAAGATGGTAATTCCTTATATAGGTTCAACACCGATCAACTGATAAT
1802575 TCCTTAT
66 TCCTTAT
1802582 GAACCTAAGA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
71 1 0.02
72 65 0.98
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (72 bp):
TGCAGGTTCAGTTCTGATCAAGATGGTAATTCCTTATATAGGTTCAACACCGATCAACTGATAAT
TCCTTAT
Found at i:1804479 original size:23 final size:25
Alignment explanation
Indices: 1804439--1804485 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
1804429 TACTGTTTTA
*
1804439 TTTTCATTTATTTGTTA-TTAAATT
1 TTTTCATTAATTTGTTATTTAAATT
*
1804463 TTTTTATTAATTT-TTATTTAAAT
1 TTTTCATTAATTTGTTATTTAAAT
1804486 ATATGTATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (25 bp):
TTTTCATTAATTTGTTATTTAAATT
Found at i:1808134 original size:14 final size:14
Alignment explanation
Indices: 1808115--1808151 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
1808105 AACCGGACAG
1808115 CAGATTCTGCAAAA
1 CAGATTCTGCAAAA
1808129 CAGATTCTGCAAAA
1 CAGATTCTGCAAAA
1808143 CAGATTCTG
1 CAGATTCTG
1808152 TTGATCAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (14 bp):
CAGATTCTGCAAAA
Found at i:1820212 original size:43 final size:46
Alignment explanation
Indices: 1820149--1820259 Score: 122
Period size: 47 Copynumber: 2.5 Consensus size: 46
1820139 GGTAAGTATG
* * * *
1820149 AAAATAAGCTTGCAAACTTAT-GAA-T-AATGGCAAGTATATT-GAT
1 AAAATAAGCTTACGAGCTTATGGAATTAAATGGCAAATAT-TTAGAT
* *
1820192 AAAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAATATTTAGCT
1 AAAATAAGCTTACGAGCTTATGGAA-TTAAATGGCAAATATTTAGAT
1820239 AAAATAAGCTTACGAGCTTAT
1 AAAATAAGCTTACGAGCTTAT
1820260 TGGATAAATG
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
43 18 0.32
44 3 0.05
46 3 0.05
47 33 0.58
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (46 bp):
AAAATAAGCTTACGAGCTTATGGAATTAAATGGCAAATATTTAGAT
Found at i:1825484 original size:645 final size:648
Alignment explanation
Indices: 1821189--1825720 Score: 8960
Period size: 647 Copynumber: 7.0 Consensus size: 648
1821179 TAAACTTTCA
1821189 AAAATTTCATTTTGGTTACTAGCCAAAATTTTGGGTATTAAAAAATAGTCAAGATTTGGGGCTTT
1 AAAATTTCATTTTGGTTACTAGCCAAAATTTTGGGTATTAAAAAATAGTCAAGATTTGGGGCTTT
1821254 CGATCGAAGAGAGATAACCTTCTAATACAAGATAGAACTATGATATCTCTTTCCAACCAAAGTGG
66 CGATCGAAGAGAGATAACCTTCTAATACAAGATAGAACTATGATATCTCTTTCCAACCAAAGTGG
1821319 AGAAATATCGATATTTTTCTCCTAGAATTTCAGGCTTCCAAGGTAAAAAGATGTCATCTCGACAC
131 AGAAATATCGATATTTTTCTCCTAGAATTTCAGGCTTCCAAGGTAAAAAGATGTCATCTCGACAC
1821384 TTTTGATCGAGGATAAATGCCCTCTTATAAGAAGTAGAGTGGCAATTTCTGATTCTTAAAGAATA
196 TTTTGATCGAGGATAAATGCCCTCTTATAAGAAGTAGAGTGGCAATTTCTGATTCTTAAAGAATA
1821449 AATATCGATGTTTTCCTTAGGACCTAGCACTATTCTTAATTCAAATTGAAATCATGCAACAAAAA
261 AATATCGATGTTTTCCTTAGGACCTAGCACTATTCTTAATTCAAATTGAAATCATGCAACAAAAA
1821514 CTCAAATTAATTAAAACTACCTATCCAATTAAGATGGACAAAGGACATTCAATTATTTAAAAATA
326 CTCAAATTAATTAAAACTACCTATCCAATTAAGATGGACAAAGGACATTCAATTATTTAAAAATA
1821579 CTAAAACTGACCTTCAAATAGGATCAAACAGTCTATTCTCGATAAGAGTTTTTCCATTCTCCTGA
391 CTAAAACTGACCTTCAAATAGGATCAAACAGTCTATTCTCGATAAGAGTTTTTCCATTCTCCTGA
1821644 TCAATGTTAATGTGTCATCATTTTTATTTAATTACACATGAGAGTATTTTCTTATTTTAAATTAT
456 TCAATGTTAATGTGTCATCATTTTTATTTAATTACACATGAGAGTATTTTCTTATTTTAAATTAT
1821709 CAGGATAAGACTATAAGTTGGATTAGGACAACCTTTACTTGAAGATCTAAAATAATCAAACATTT
521 CAGGATAAGACTATAAGTTGGATTAGGACAACCTTTACTTGAAGATCTAAAATAATCAAACATTT
1821774 ACATTAGTCCAAGTATGAAATCAATTGAGCCGTGTTTTATGTGGCTATCATGCATAATTAATT
586 ACATTAGTCCAAGTATGAAATCAATTGAGCCGTGTTTTATGTGGCTATCATGCATAATTAATT
1821837 AAAATTTCATTTTGGTTACTAGCCAAAATTTTGGGTATTAAAAAATAGTCAAGATTTGGGGCTTT
1 AAAATTTCATTTTGGTTACTAGCCAAAATTTTGGGTATTAAAAAATAGTCAAGATTTGGGGCTTT
1821902 CGATCGAAGAGAGATAACCTTCTAATACAAGATAGAACTATGATATCTCTTTCCAACCAAAGTGG
66 CGATCGAAGAGAGATAACCTTCTAATACAAGATAGAACTATGATATCTCTTTCCAACCAAAGTGG
1821967 AGAAATATCGATATTTTTCTCCTAGAATTTCAGGCTTCCAAGGTAAAAAGATGTCATCTCGACAC
131 AGAAATATCGATATTTTTCTCCTAGAATTTCAGGCTTCCAAGGTAAAAAGATGTCATCTCGACAC
1822032 -TTTGATCGAGGATAAATGCCCTCTTATAAGAAGTAGAGTGGCAATTTCTGATTCTTAAAGAATA
196 TTTTGATCGAGGATAAATGCCCTCTTATAAGAAGTAGAGTGGCAATTTCTGATTCTTAAAGAATA
1822096 AATATCGATGTTTTCCTTAGGACCTAGCACTATTCTTAATTCAAATTGAAATCATGCAACAAAAA
261 AATATCGATGTTTTCCTTAGGACCTAGCACTATTCTTAATTCAAATTGAAATCATGCAACAAAAA
1822161 CTCAAATTAATTAAAACTACCTATCCAATTAAGATGGACAAAGGACATTCAATTATTTAAAAATA
326 CTCAAATTAATTAAAACTACCTATCCAATTAAGATGGACAAAGGACATTCAATTATTTAAAAATA
1822226 CTAAAACTGACCTTCAAATAGGATCAAACAGTCTATTCTCGATAAGAGTTTTTCCATTCTCCTGA
391 CTAAAACTGACCTTCAAATAGGATCAAACAGTCTATTCTCGATAAGAGTTTTTCCATTCTCCTGA
1822291 TCAATGTTAATGTGTCATCATTTTTATTTAATTACACATGAGAGTATTTTCTTATTTTAAATTAT
456 TCAATGTTAATGTGTCATCATTTTTATTTAATTACACATGAGAGTATTTTCTTATTTTAAATTAT
*
1822356 CAAGATAAGACTATAAGTTGGATTAGGACAACCTTTACTTGAAGATCTAAAATAATCAAACATTT
521 CAGGATAAGACTATAAGTTGGATTAGGACAACCTTTACTTGAAGATCTAAAATAATCAAACATTT
1822421 ACATTAGTCCAAGTATGAAATCAATTGAGCCGTGTTTTATGTGGCTATCATGCATAATTAATT
586 ACATTAGTCCAAGTATGAAATCAATTGAGCCGTGTTTTATGTGGCTATCATGCATAATTAATT
1822484 AAAATTTCATTTTGGTTACTAGCCAAAATTTTGGGTA-TAAAAAATAGTCAAGATTTGGGGCTTT
1 AAAATTTCATTTTGGTTACTAGCCAAAATTTTGGGTATTAAAAAATAGTCAAGATTTGGGGCTTT
1822548 CGATCGAAGAGAGATAACCTTCTAATACAAGATAGAACTATGATATCTCTTTCCAACCAAAGTGG
66 CGATCGAAGAGAGATAACCTTCTAATACAAGATAGAACTATGATATCTCTTTCCAACCAAAGTGG
1822613 AGAAATATCGATATTTTTCTCCTAGAATTTCAGGCTTCCAAGGTAAAAAGATGTCATCTCGACAC
131 AGAAATATCGATATTTTTCTCCTAGAATTTCAGGCTTCCAAGGTAAAAAGATGTCATCTCGACAC
1822678 TTTTGATCGAGGATAAATGCCCTCTTATAAGAAGTAGAGTGGCAATTTCTGATTCTTAAAGAATA
196 TTTTGATCGAGGATAAATGCCCTCTTATAAGAAGTAGAGTGGCAATTTCTGATTCTTAAAGAATA
1822743 AATATCGATGTTTTCCTTAGGACCTAGCACTATTCTTAATTCAAATTGAAATCATGCAACAAAAA
261 AATATCGATGTTTTCCTTAGGACCTAGCACTATTCTTAATTCAAATTGAAATCATGCAACAAAAA
1822808 CTCAAATTAATTAAAACTACCTATCCAATTAAGATGGACAAAGGACATTCAATTATTTAAAAATA
326 CTCAAATTAATTAAAACTACCTATCCAATTAAGATGGACAAAGGACATTCAATTATTTAAAAATA
1822873 CTAAAACTGACCTTCAAATAGGATCAAACAGTCTATTCTCGATAAGAGTTTTTCCATTCTCCTGA
391 CTAAAACTGACCTTCAAATAGGATCAAACAGTCTATTCTCGATAAGAGTTTTTCCATTCTCCTGA
1822938 TCAATGTTAATGTGTCATCATTTTTATTTAATTACACATGAGAGTATTTTCTTATTTTAAATTAT
456 TCAATGTTAATGTGTCATCATTTTTATTTAATTACACATGAGAGTATTTTCTTATTTTAAATTAT
1823003 CAGGATAAGACTATAAGTTGGATTAGGACAACCTTTACTTGAAGATCTAAAATAATCAAACATTT
521 CAGGATAAGACTATAAGTTGGATTAGGACAACCTTTACTTGAAGATCTAAAATAATCAAACATTT
1823068 ACATTAGTCCAAGTATGAAATCAATTGAGCCGTGTTTTATGTGGCTATCATGCATAATTAATT
586 ACATTAGTCCAAGTATGAAATCAATTGAGCCGTGTTTTATGTGGCTATCATGCATAATTAATT
1823131 AAAATTTCATTTTGGTTACTAGCC-AAA-TTTGGGTATT-AAAAATAGTCAAGATTTGGGGCTTT
1 AAAATTTCATTTTGGTTACTAGCCAAAATTTTGGGTATTAAAAAATAGTCAAGATTTGGGGCTTT
1823193 CGATCGAAGAGAGATAACCTTCTAATACAAGATAGAACTATGATATCTCTTTCC-ACCAAAGTGG
66 CGATCGAAGAGAGATAACCTTCTAATACAAGATAGAACTATGATATCTCTTTCCAACCAAAGTGG
1823257 AGAAATATCGATATTTTTCTCCTAGAATTTCAGGCTTCCAAGGTAAAAAGATGTCATCTCGACAC
131 AGAAATATCGATATTTTTCTCCTAGAATTTCAGGCTTCCAAGGTAAAAAGATGTCATCTCGACAC
1823322 TTTTGATCGAGGATAAATGCCCTCTTATAAGAAGTAGAGTGGCAATTTCTGATTCTTAAAGAATA
196 TTTTGATCGAGGATAAATGCCCTCTTATAAGAAGTAGAGTGGCAATTTCTGATTCTTAAAGAATA
1823387 AATATCGATGTTTTCCTTAGGACCTAGCACTATTCTTAATTCAAATTGAAATCATGCAACAAAAA
261 AATATCGATGTTTTCCTTAGGACCTAGCACTATTCTTAATTCAAATTGAAATCATGCAACAAAAA
1823452 CTCAAA-TAATTAAAACTACCTATCCAATTAAGATGGACAAAGGACATTCAATTATTTAAAAATA
326 CTCAAATTAATTAAAACTACCTATCCAATTAAGATGGACAAAGGACATTCAATTATTTAAAAATA
1823516 CTAAAACTGACCTTCAAATAGGATCAAACAGTCTATTCTCGATAAGAGTTTTTCCATTCTCCTGA
391 CTAAAACTGACCTTCAAATAGGATCAAACAGTCTATTCTCGATAAGAGTTTTTCCATTCTCCTGA
1823581 TCAATGTTAATGTGTCATCATTTTTATTTAATTACACATGAGAGTATTTTCTTATTTTAAATTAT
456 TCAATGTTAATGTGTCATCATTTTTATTTAATTACACATGAGAGTATTTTCTTATTTTAAATTAT
1823646 CAGGATAAGACTATAAGTTGGATTAGGACAACCTTTACTTGAAGATCTAAAATAATCAAACATTT
521 CAGGATAAGACTATAAGTTGGATTAGGACAACCTTTACTTGAAGATCTAAAATAATCAAACATTT
1823711 ACATTAGTCCAAGTATGAAATCAATTGAGCCGTGTTTTATGTGGCTATCATGCATAATTAATT
586 ACATTAGTCCAAGTATGAAATCAATTGAGCCGTGTTTTATGTGGCTATCATGCATAATTAATT
1823774 AAAATTTCATTTTGGTTACTAGCCAAAATTTTGGGTATTAAAAAATAGTCAAGATTTGGGGCTTT
1 AAAATTTCATTTTGGTTACTAGCCAAAATTTTGGGTATTAAAAAATAGTCAAGATTTGGGGCTTT
1823839 CGATCGAAGAGAGATAACCTTCTAATACAAGATAGAACTATGATATCTCTTTCCAACCAAAGTGG
66 CGATCGAAGAGAGATAACCTTCTAATACAAGATAGAACTATGATATCTCTTTCCAACCAAAGTGG
1823904 AGAAATATCGATATTTTTCTCCTAGAATTTCAGGCTTCCAAGGTAAAAAGATGTCATCTCGACAC
131 AGAAATATCGATATTTTTCTCCTAGAATTTCAGGCTTCCAAGGTAAAAAGATGTCATCTCGACAC
1823969 TTTTGATCGAGGATAAATGCCCTCTTATAAGAAGTAGAGTGGCAATTTCTGATTCTTAAAGAATA
196 TTTTGATCGAGGATAAATGCCCTCTTATAAGAAGTAGAGTGGCAATTTCTGATTCTTAAAGAATA
1824034 AATATCGATGTTTTCCTTAGGACCTAGCACTATTCTTAATTCAAATTGAAATCATGCAACAAAAA
261 AATATCGATGTTTTCCTTAGGACCTAGCACTATTCTTAATTCAAATTGAAATCATGCAACAAAAA
1824099 CTCAAATTAATTAAAACTACCTATCCAATTAAGATGGACAAAGGACATTCAATTATTTAAAAATA
326 CTCAAATTAATTAAAACTACCTATCCAATTAAGATGGACAAAGGACATTCAATTATTTAAAAATA
1824164 CTAAAACTGACCTTCAAATAGGATC-AACAGTCTATTCTCGATAAGAGTTTTTCCATTCTCCTGA
391 CTAAAACTGACCTTCAAATAGGATCAAACAGTCTATTCTCGATAAGAGTTTTTCCATTCTCCTGA
1824228 TCAATGTTAATGTGTCATCATTTTTATTTAATTACACATGAGAGTATTTTCTTATTTTAAATTAT
456 TCAATGTTAATGTGTCATCATTTTTATTTAATTACACATGAGAGTATTTTCTTATTTTAAATTAT
*
1824293 CAAGATAAGACTATAAGTTGGATTAGGACAACCTTTACTTGAAGATCTAAAATAATCAAACATTT
521 CAGGATAAGACTATAAGTTGGATTAGGACAACCTTTACTTGAAGATCTAAAATAATCAAACATTT
1824358 ACATTAGTCCAAGTATGAAATCAATTGAGCCGTGTTTTATGTGGCTATCATGCATAATTAATT
586 ACATTAGTCCAAGTATGAAATCAATTGAGCCGTGTTTTATGTGGCTATCATGCATAATTAATT
1824421 AAAATTTCATTTTGGTTACTAGCCAAAATTTTGGGTATTAAAAAATAGTCAAGATTTGGGGCTTT
1 AAAATTTCATTTTGGTTACTAGCCAAAATTTTGGGTATTAAAAAATAGTCAAGATTTGGGGCTTT
1824486 CGATCGAAGAGAGATAACCTTCTAATACAAGATAGAACTATGATATCTCTTTCCAACCAAAGTGG
66 CGATCGAAGAGAGATAACCTTCTAATACAAGATAGAACTATGATATCTCTTTCCAACCAAAGTGG
1824551 AGAAATATCGATATTTTTCTCCTAGAATTTCAGGCTTCCAAGGTAAAAAGATGTCATCTCGACAC
131 AGAAATATCGATATTTTTCTCCTAGAATTTCAGGCTTCCAAGGTAAAAAGATGTCATCTCGACAC
1824616 TTTTGATCGAGGATAAATGCCCTCTTATAAGAAGTAGAGTGGCAATTTCTGATTCTTAAAGAATA
196 TTTTGATCGAGGATAAATGCCCTCTTATAAGAAGTAGAGTGGCAATTTCTGATTCTTAAAGAATA
1824681 AATATCGATGTTTTCCTTAGGACCTAGCACTATTCTTAATTCAAATTGAAATCATGCAACAAAAA
261 AATATCGATGTTTTCCTTAGGACCTAGCACTATTCTTAATTCAAATTGAAATCATGCAACAAAAA
1824746 CTCAAATTAATTAAAACTACCTATCCAATTAAGATGGACAAAGGACATTCAATTATTTAAAAATA
326 CTCAAATTAATTAAAACTACCTATCCAATTAAGATGGACAAAGGACATTCAATTATTTAAAAATA
1824811 CTAAAACTGACCTTCAAATAGGATCAAACAGTCTATTCTCGATAAGAGTTTTTCCATTCTCCTGA
391 CTAAAACTGACCTTCAAATAGGATCAAACAGTCTATTCTCGATAAGAGTTTTTCCATTCTCCTGA
1824876 TCAATGTTAATGTGTCATCATTTTTATTTAATTACACATGAGAGTATTTTCTTATTTTAAATTAT
456 TCAATGTTAATGTGTCATCATTTTTATTTAATTACACATGAGAGTATTTTCTTATTTTAAATTAT
1824941 CAGGATAAGACTATAAGTTGGATTAGGACAACCTTTACTTGAAGATCTAAAATAATCAAACATTT
521 CAGGATAAGACTATAAGTTGGATTAGGACAACCTTTACTTGAAGATCTAAAATAATCAAACATTT
1825006 ACATTAGTCCAAGTATGAAATCAATTGAGCCGTGTTTTATGTGGCTATCATGCATAATTAATT
586 ACATTAGTCCAAGTATGAAATCAATTGAGCCGTGTTTTATGTGGCTATCATGCATAATTAATT
1825069 AAAATTTCATTTTGGTTACTAGCC-AAATTTTGGGTATTAAAAAATAGTCAAGATTTGGGGCTTT
1 AAAATTTCATTTTGGTTACTAGCCAAAATTTTGGGTATTAAAAAATAGTCAAGATTTGGGGCTTT
1825133 CGATCG-A-AGAGATAACCTTCTAATACAAGATAGAACTATGATATCTCTTTCCAACCAAAGTGG
66 CGATCGAAGAGAGATAACCTTCTAATACAAGATAGAACTATGATATCTCTTTCCAACCAAAGTGG
1825196 AGAAATATCGATATTTTTCTCCTAGAATTTCAGGCTTCCAAGGTAAAAAGATGTCATCTCGACAC
131 AGAAATATCGATATTTTTCTCCTAGAATTTCAGGCTTCCAAGGTAAAAAGATGTCATCTCGACAC
1825261 TTTTGATCGAGGATAAATGCCCTCTTATAAGAAGTAGAGTGGCAATTTCTGATTCTTAAAGAATA
196 TTTTGATCGAGGATAAATGCCCTCTTATAAGAAGTAGAGTGGCAATTTCTGATTCTTAAAGAATA
1825326 AATATCGATGTTTTCCTTAGGACCTAGCACTATTCTTAATTCAAATTGAAATCATGCAACAAAAA
261 AATATCGATGTTTTCCTTAGGACCTAGCACTATTCTTAATTCAAATTGAAATCATGCAACAAAAA
*
1825391 CTCAAATTAATTAAAACTACCTATCCAATTAAGATGGACAAAGTACATTCAATTATTTAAAAATA
326 CTCAAATTAATTAAAACTACCTATCCAATTAAGATGGACAAAGGACATTCAATTATTTAAAAATA
1825456 CTAAAACTGACCTTCAAATAGGATCAAACAGTCTATTCTCGATAAGAGTTTTTCCATTCTCCTGA
391 CTAAAACTGACCTTCAAATAGGATCAAACAGTCTATTCTCGATAAGAGTTTTTCCATTCTCCTGA
1825521 TCAATGTTAATGTGTCATCATTTTTATTTAATTACACATGAGAGTATTTTCTTATTTTAAATTAT
456 TCAATGTTAATGTGTCATCATTTTTATTTAATTACACATGAGAGTATTTTCTTATTTTAAATTAT
1825586 CAGGATAAGACTATAAGTTGGATTAGGACAACCTTTACTTGAAGATCTAAAATAATCAAACATTT
521 CAGGATAAGACTATAAGTTGGATTAGGACAACCTTTACTTGAAGATCTAAAATAATCAAACATTT
1825651 ACATTAGTCCAAGTATGAAATCAATTGAGCCGTGTTTTATGTGGCTATCATGCATAATTAATT
586 ACATTAGTCCAAGTATGAAATCAATTGAGCCGTGTTTTATGTGGCTATCATGCATAATTAATT
1825714 AAAATTT
1 AAAATTT
1825721 TCATGGACAA
Statistics
Matches: 3871, Mismatches: 5, Indels: 19
0.99 0.00 0.00
Matches are distributed among these distances:
643 340 0.09
644 214 0.06
645 677 0.17
646 241 0.06
647 1866 0.48
648 533 0.14
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (648 bp):
AAAATTTCATTTTGGTTACTAGCCAAAATTTTGGGTATTAAAAAATAGTCAAGATTTGGGGCTTT
CGATCGAAGAGAGATAACCTTCTAATACAAGATAGAACTATGATATCTCTTTCCAACCAAAGTGG
AGAAATATCGATATTTTTCTCCTAGAATTTCAGGCTTCCAAGGTAAAAAGATGTCATCTCGACAC
TTTTGATCGAGGATAAATGCCCTCTTATAAGAAGTAGAGTGGCAATTTCTGATTCTTAAAGAATA
AATATCGATGTTTTCCTTAGGACCTAGCACTATTCTTAATTCAAATTGAAATCATGCAACAAAAA
CTCAAATTAATTAAAACTACCTATCCAATTAAGATGGACAAAGGACATTCAATTATTTAAAAATA
CTAAAACTGACCTTCAAATAGGATCAAACAGTCTATTCTCGATAAGAGTTTTTCCATTCTCCTGA
TCAATGTTAATGTGTCATCATTTTTATTTAATTACACATGAGAGTATTTTCTTATTTTAAATTAT
CAGGATAAGACTATAAGTTGGATTAGGACAACCTTTACTTGAAGATCTAAAATAATCAAACATTT
ACATTAGTCCAAGTATGAAATCAATTGAGCCGTGTTTTATGTGGCTATCATGCATAATTAATT
Found at i:1825809 original size:23 final size:23
Alignment explanation
Indices: 1825778--1825833 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
1825768 TATTAAATTT
1825778 AAAA-ATTAAAATGC-AAGGCATAA
1 AAAATATTAAAAT-CAAAGGCA-AA
*
1825801 ATAAT-TTAAAATCAAAGGCAAA
1 AAAATATTAAAATCAAAGGCAAA
1825823 AAAATATTAAA
1 AAAATATTAAA
1825834 GAGATAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
22 7 0.25
23 21 0.75
ACGTcount: A:0.62, C:0.07, G:0.09, T:0.21
Consensus pattern (23 bp):
AAAATATTAAAATCAAAGGCAAA
Found at i:1834494 original size:38 final size:36
Alignment explanation
Indices: 1834412--1834494 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 36
1834402 AATATAATTT
1834412 TAAATACAACAAACTTACAATAAGTATTAAATGGTAA
1 TAAATA-AACAAACTTACAATAAGTATTAAATGGTAA
*
1834449 -ATGATAAACAAA-TTACAATAACTGATATTAAATGGTAA
1 TA-AATAAACAAACTTACAATAA--G-TATTAAATGGTAA
1834487 TAAATAAA
1 TAAATAAA
1834495 ATTAACCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
35 9 0.23
36 7 0.18
37 4 0.10
38 18 0.46
39 1 0.03
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.28
Consensus pattern (36 bp):
TAAATAAACAAACTTACAATAAGTATTAAATGGTAA
Found at i:1834531 original size:34 final size:33
Alignment explanation
Indices: 1834493--1834567 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 33
1834483 GTAATAAATA
*
1834493 AAATTAACCAAAATACATTAACAAAAAATCTAA-C
1 AAATTAA-CAAAATACATTAA-AAAAAATCCAACC
* *
1834527 AAATTTAACAAAATATATTAAAATAAATCCAACC
1 AAA-TTAACAAAATACATTAAAAAAAATCCAACC
1834561 AAATTAA
1 AAATTAA
1834568 TGAAATAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
33 13 0.36
34 19 0.53
35 4 0.11
ACGTcount: A:0.61, C:0.15, G:0.00, T:0.24
Consensus pattern (33 bp):
AAATTAACAAAATACATTAAAAAAAATCCAACC
Found at i:1834703 original size:55 final size:55
Alignment explanation
Indices: 1834631--1834760 Score: 226
Period size: 55 Copynumber: 2.3 Consensus size: 55
1834621 ACTAAACAAC
1834631 TAAATACAA-AAATTAAATAATTACAAAAATTAATTTTTAAACTAATAATCATGCAT
1 TAAATA-AATAAA-TAAATAATTACAAAAATTAATTTTTAAACTAATAATCATGCAT
*
1834687 TAAATAAATAAATAAATTATTACAAAAATTAATTTTTAAACTAATAATCATGCAT
1 TAAATAAATAAATAAATAATTACAAAAATTAATTTTTAAACTAATAATCATGCAT
1834742 TAAATAAATAAATAAATAA
1 TAAATAAATAAATAAATAA
1834761 ATTATTACTA
Statistics
Matches: 71, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
55 62 0.87
56 9 0.13
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.34
Consensus pattern (55 bp):
TAAATAAATAAATAAATAATTACAAAAATTAATTTTTAAACTAATAATCATGCAT
Found at i:1834704 original size:43 final size:43
Alignment explanation
Indices: 1834642--1834775 Score: 103
Period size: 55 Copynumber: 2.9 Consensus size: 43
1834632 AAATACAAAA
*
1834642 ATTAAATAATTACAA-AAATTAATTTTTAAACTAATAATCATGC
1 ATTAAATAAATA-AATAAATTAATTTTTAAACTAATAATCATGC
1834685 ATTAAATAAATAAATAAATTATTACAAAAATTAATTTTTAAACTAATAATCATGC
1 A-T---TAAATAAAT-AA--A-T----AAATTAATTTTTAAACTAATAATCATGC
* *
1834740 ATTAAATAAATAAATAAATAAATTATT--ACTAATAAT
1 ATTAAATAAATAAATAAATTAATTTTTAAACTAATAAT
1834776 TTAAATTATA
Statistics
Matches: 75, Mismatches: 3, Indels: 28
0.71 0.03 0.26
Matches are distributed among these distances:
41 9 0.12
43 11 0.15
44 1 0.01
47 10 0.13
48 2 0.03
49 1 0.01
50 2 0.03
51 9 0.12
54 1 0.01
55 29 0.39
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.37
Consensus pattern (43 bp):
ATTAAATAAATAAATAAATTAATTTTTAAACTAATAATCATGC
Found at i:1834915 original size:17 final size:18
Alignment explanation
Indices: 1834895--1834932 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
1834885 TAATTAAATA
1834895 AAATA-TTAAAAAAATTT
1 AAATACTTAAAAAAATTT
*
1834912 AAATACTTAAATAAATTT
1 AAATACTTAAAAAAATTT
1834930 AAA
1 AAA
1834933 AGAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATACTTAAAAAAATTT
Found at i:1837262 original size:28 final size:28
Alignment explanation
Indices: 1837229--1837285 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
1837219 AATTTCAGAC
1837229 ACAAATATAATTTTAAGGATTAAATTGA
1 ACAAATATAATTTTAAGGATTAAATTGA
1837257 ACAAATATAATTTTAAGGATTAAATTGA
1 ACAAATATAATTTTAAGGATTAAATTGA
1837285 A
1 A
1837286 TAATATGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.51, C:0.04, G:0.11, T:0.35
Consensus pattern (28 bp):
ACAAATATAATTTTAAGGATTAAATTGA
Found at i:1838243 original size:16 final size:16
Alignment explanation
Indices: 1838222--1838252 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1838212 ATTTTTTGTG
1838222 TGCATAAAAAACTTTC
1 TGCATAAAAAACTTTC
*
1838238 TGCATAAAAATCTTT
1 TGCATAAAAAACTTT
1838253 AAATATTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.35
Consensus pattern (16 bp):
TGCATAAAAAACTTTC
Done.