Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009617.1 Hibiscus syriacus cultivar Beakdansim tig00117005_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: 3386631
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 16
Found at i:886945 original size:23 final size:23
Alignment explanation
Indices: 886919--886966 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
886909 ATAAAGTACA
*
886919 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
** *
886942 ATAATGTAATAGGTAGTGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
886965 AT
1 AT
886967 TTACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:887471 original size:21 final size:21
Alignment explanation
Indices: 887441--887509 Score: 111
Period size: 21 Copynumber: 3.3 Consensus size: 21
887431 GATAGATACT
* *
887441 TTACAATATAAGCACTACCTA
1 TTACATTATAAGCGCTACCTA
*
887462 TTACATTATAAACGCTACCTA
1 TTACATTATAAGCGCTACCTA
887483 TTACATTATAAGCGCTACCTA
1 TTACATTATAAGCGCTACCTA
887504 TTACAT
1 TTACAT
887510 CATATTTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (21 bp):
TTACATTATAAGCGCTACCTA
Found at i:887921 original size:23 final size:23
Alignment explanation
Indices: 887868--887926 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
887858 AATATAACCA
* *
887868 CTACCTATTACATTATATAAATG
1 CTACCTATTACATTATACAAACG
* * *
887891 ATATCTATTACATTATACAAGCG
1 CTACCTATTACATTATACAAACG
887914 CTACCTATTACAT
1 CTACCTATTACAT
887927 CATATTTTAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.37
Consensus pattern (23 bp):
CTACCTATTACATTATACAAACG
Found at i:888220 original size:424 final size:423
Alignment explanation
Indices: 887292--888754 Score: 2442
Period size: 424 Copynumber: 3.5 Consensus size: 423
887282 AATTTAATAA
* *
887292 TAAT-ATATATTATCATAACGTAAAAAAGAAATCATTAGACGCTTATAATTACTAAATTAATATC
1 TAATAATATA-TATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACTAAATTAATATC
* *
887356 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTTCACAGTAAAAAAAGTATGGACACTT
65 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTAAAAAAAGTATAGACACTT
* *
887421 TTATAAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACA-T-TATAAACGCTACCTAT
130 TTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
887484 TACATTAT-AAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTT
195 TACATTATAAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTT
*
887548 TTATAAAAATGATCGATAC-T-TTTTAAAGTTATGTAATTTATGTTTCAATTTTTTAATAGTGTT
260 TTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTAATAGTGTT
887611 TCATGTTTTCCACCTACAATA-TAATTTAATAATTTCATTTGCACAAAAAATTATTTGATT-TTT
325 TCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTT
*
887674 TGATATTTTATAA-AAT-TATTAGAATTTTTAATT
390 TGATATTTTAAAATAATAT-TTAGAATTTTTAATT
* * *
887707 TAATAATATATAT-GTAACGTAAAAAA-TAATCATTAGACGCCAATAATTACTAAATTAATATAT
1 TAATAATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACTAAATTAATATCT
* *
887770 TAAAACTTACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTT
66 TAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTAAAAAAAGTATAGACACTTT
* *
887835 TATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAATGATATCTATT
131 TATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATT
* *
887900 ACATTATACAAGCGCTACCTATTACATCATATTTTAACTTATTATATTGAAAGTGTCCATACTTT
196 ACATTATA-AAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTT
*
887965 TTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAAATTTTTTTATTAGTG
260 TTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTC-AA-TTTTTTAATAGTG
888030 TTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGT
323 TTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGT
888095 TTTGATATTTTAAAATAATATTTAGAATTTTTAATT
388 TTTGATATTTTAAAATAATATTTAGAATTTTTAATT
*
888131 TAATAATATATATCGTAACGTAAAAAA-TAATCATTAGACG-CTATAATTACTAAATTAATATCT
1 TAATAATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACTAAATTAATATCT
*
888194 TAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTT
66 TAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTAAAAAAAGTATAGACACTTT
*
888259 TATAAAAATGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATT
131 TATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATT
* * *
888324 ACATTATATAAACACTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTTCATACTTT
196 ACATTATA-AAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTT
*
888389 TT-TATAAAAGGATCGAT-CTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTAATAGTCT
260 TTATA-AAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTAATAGTGT
888452 TTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAAATTATTTGATTGT
324 TTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC-AAAAAATTATTTGATTGT
888517 TTTGATATTTGATAAAATAATA-TTAGAATTTTTAATT
388 TTTGATATTT--TAAAATAATATTTAGAATTTTTAATT
888554 TAATATAATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTAT--TTACTAAATTAATAT
1 T-A-ATAATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACTAAATTAATAT
*
888617 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATATTTTCCACAGTAAAAAAAGTATAGACACT
64 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTAAAAAAAGTATAGACACT
*
888682 TTTATAAAATGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
129 TTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
888747 TTACATTA
194 TTACATTA
888755 GAGAAAATCG
Statistics
Matches: 989, Mismatches: 37, Indels: 34
0.93 0.03 0.03
Matches are distributed among these distances:
413 138 0.14
414 13 0.01
415 28 0.03
416 5 0.01
417 72 0.07
418 1 0.00
419 26 0.03
420 2 0.00
421 93 0.09
422 69 0.07
423 63 0.06
424 262 0.26
425 201 0.20
426 12 0.01
427 4 0.00
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.39
Consensus pattern (423 bp):
TAATAATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACTAAATTAATATCT
TAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTAAAAAAAGTATAGACACTTT
TATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATT
ACATTATAAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTT
TATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTAATAGTGTTT
CATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTT
GATATTTTAAAATAATATTTAGAATTTTTAATT
Found at i:888319 original size:23 final size:23
Alignment explanation
Indices: 888283--888355 Score: 112
Period size: 23 Copynumber: 3.2 Consensus size: 23
888273 ATACTTTACA
*
888283 ATATAACCACTACCTATTACATT
1 ATATAAACACTACCTATTACATT
888306 ATATAAACGA-TACCTATTACATT
1 ATATAAAC-ACTACCTATTACATT
*
888329 ATATAAACACTACCTATTACATC
1 ATATAAACACTACCTATTACATT
888352 ATAT
1 ATAT
888356 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.02
23 44 0.96
24 1 0.02
ACGTcount: A:0.42, C:0.22, G:0.01, T:0.34
Consensus pattern (23 bp):
ATATAAACACTACCTATTACATT
Found at i:888862 original size:20 final size:20
Alignment explanation
Indices: 888837--889131 Score: 120
Period size: 20 Copynumber: 14.6 Consensus size: 20
888827 AAATGCCAAT
888837 AAAATCGCAACGCGATATCA-
1 AAAATCGCAACGCGAT-TCAG
*
888857 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTCAG
* *
888877 AAAATCGCAA--CG-TTAAA
1 AAAATCGCAACGCGATTCAG
*
888894 AAGAATCGCAACG-G--TCAA
1 AA-AATCGCAACGCGATTCAG
*
888912 AGAAATCGCAACGCGAGCTTC-C
1 A-AAATCGCAACGCGA--TTCAG
** *
888934 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGA-TT--CAG
* * *
888957 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTCAG
** * *
888977 TGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTCAG
* * *
888997 AGAGTCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTCAG
* * *
889017 AAGAGAATCGCAATGCGACTGAG
1 -A-A-AATCGCAACGCGATTCAG
* * * * *
889040 AGATTCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTCAG
* * * *
889060 AGAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTCAG
* * *
889080 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTCAG
* *
889100 AGAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTCAG
889120 AAAATCGCAACG
1 AAAATCGCAACG
889132 TTAAAAAGAA
Statistics
Matches: 225, Mismatches: 34, Indels: 32
0.77 0.12 0.11
Matches are distributed among these distances:
17 5 0.02
18 24 0.11
19 5 0.02
20 146 0.65
21 13 0.06
22 4 0.02
23 28 0.12
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (20 bp):
AAAATCGCAACGCGATTCAG
Found at i:888915 original size:17 final size:19
Alignment explanation
Indices: 888878--888924 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
888868 GCGATTTAGA
*
888878 AAATCGCAACGTTAAAAAG
1 AAATCGCAACGGTAAAAAG
*
888897 -AATCGCAACGGT-CAAAG
1 AAATCGCAACGGTAAAAAG
888914 AAATCGCAACG
1 AAATCGCAACG
888925 CGAGCTTCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.13
Consensus pattern (19 bp):
AAATCGCAACGGTAAAAAG
Found at i:889008 original size:63 final size:63
Alignment explanation
Indices: 888938--889131 Score: 259
Period size: 63 Copynumber: 3.1 Consensus size: 63
888928 GCTTCCAAGT
* ** *
888938 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATTGAATCGCAATGCGATTGAGAGAG
1 TCGCAACGCGATTTAGAAGAGAATCGCAATGCGATTGAGAGAATCGCAATGCGATTGAGAGAA
* * *
889001 TCGCAACGCGATTTAGAAGAGAATCGCAATGCGACTGAGAGATTCGCAATGCGACTGAGAGAA
1 TCGCAACGCGATTTAGAAGAGAATCGCAATGCGATTGAGAGAATCGCAATGCGATTGAGAGAA
* * * * *
889064 TCGCAATGCGA-CT-G-AGAGAATCGCAATGCGATTGAGAGAATCGCAACGCGATTTAGAAAA
1 TCGCAACGCGATTTAGAAGAGAATCGCAATGCGATTGAGAGAATCGCAATGCGATTGAGAGAA
889124 TCGCAACG
1 TCGCAACG
889132 TTAAAAAGAA
Statistics
Matches: 115, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
60 47 0.41
61 1 0.01
62 1 0.01
63 66 0.57
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (63 bp):
TCGCAACGCGATTTAGAAGAGAATCGCAATGCGATTGAGAGAATCGCAATGCGATTGAGAGAA
Found at i:889013 original size:40 final size:40
Alignment explanation
Indices: 888959--889129 Score: 216
Period size: 40 Copynumber: 4.2 Consensus size: 40
888949 TTTAGAAGAA
** *
888959 AATCGCAATGCGATTGATTGAATCGCAATGCGATTGAGAG
1 AATCGCAATGCGATTGAGAGAATCGCAATGCGACTGAGAG
* *
888999 AGTCGCAACGCGATTTAGAAGAGAATCGCAATGCGACTGAGAG
1 AATCGCAATGCGA-TT-G-AGAGAATCGCAATGCGACTGAGAG
* *
889042 ATTCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAG
1 AATCGCAATGCGATTGAGAGAATCGCAATGCGACTGAGAG
* * * *
889082 AATCGCAATGCGATTGAGAGAATCGCAACGCGATTTAGAA
1 AATCGCAATGCGATTGAGAGAATCGCAATGCGACTGAGAG
889122 AATCGCAA
1 AATCGCAA
889130 CGTTAAAAAG
Statistics
Matches: 114, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
40 77 0.68
41 3 0.03
42 2 0.02
43 32 0.28
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.19
Consensus pattern (40 bp):
AATCGCAATGCGATTGAGAGAATCGCAATGCGACTGAGAG
Found at i:889141 original size:20 final size:20
Alignment explanation
Indices: 889118--889161 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
889108 AACGCGATTT
*
889118 AGAAAATCGCAACGTTAAAA
1 AGAAAATCGCAACGGTAAAA
*
889138 AGAAAATCGCAACGGTCAAA
1 AGAAAATCGCAACGGTAAAA
889158 AGAA
1 AGAA
889162 TAGTTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.55, C:0.16, G:0.18, T:0.11
Consensus pattern (20 bp):
AGAAAATCGCAACGGTAAAA
Found at i:889971 original size:6 final size:6
Alignment explanation
Indices: 889955--890016 Score: 117
Period size: 6 Copynumber: 10.5 Consensus size: 6
889945 TCTCGTCTCG
889955 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
890002 GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGT
890017 AATACGTGTC
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 5 0.09
6 51 0.91
ACGTcount: A:0.00, C:0.16, G:0.52, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:890119 original size:20 final size:20
Alignment explanation
Indices: 890094--890137 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
890084 TTTTTAACTA
* *
890094 TTCTTTTGACCGTTGCGATT
1 TTCTTTTGAACGTTACGATT
*
890114 TTCTTTTTAACGTTACGATT
1 TTCTTTTGAACGTTACGATT
890134 TTCT
1 TTCT
890138 AAATCGCGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.18, G:0.14, T:0.55
Consensus pattern (20 bp):
TTCTTTTGAACGTTACGATT
Found at i:890173 original size:40 final size:40
Alignment explanation
Indices: 890129--890317 Score: 225
Period size: 40 Copynumber: 4.6 Consensus size: 40
890119 TTTAACGTTA
890129 CGATTTTCTAAATCGCGTTGCGATTCTCTCAATCGCATTG
1 CGATTTTCTAAATCGCGTTGCGATTCTCTCAATCGCATTG
* * * * *
890169 CGATTCTCTCAGTCGCATTGCGATTCTCTCAGTCGCATTG
1 CGATTTTCTAAATCGCGTTGCGATTCTCTCAATCGCATTG
*
890209 CGATTTTCTTCTAAATCGCGTTGCGACTCTCTCAATCGCATTG
1 CGA--TT-TTCTAAATCGCGTTGCGATTCTCTCAATCGCATTG
* * * **
890252 CGATTCTATAAATCGCATTGCGATTCAATCAATCGCATTG
1 CGATTTTCTAAATCGCGTTGCGATTCTCTCAATCGCATTG
890292 CGATTTTCTTCTAAATCGCGTTGCGA
1 CGA--TT-TTCTAAATCGCGTTGCGA
890318 ACTTGGAAGC
Statistics
Matches: 123, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
40 70 0.57
41 2 0.02
42 4 0.03
43 47 0.38
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (40 bp):
CGATTTTCTAAATCGCGTTGCGATTCTCTCAATCGCATTG
Found at i:890233 original size:83 final size:83
Alignment explanation
Indices: 890134--890317 Score: 305
Period size: 83 Copynumber: 2.2 Consensus size: 83
890124 CGTTACGATT
* * * * **
890134 TTCTAAATCGCGTTGCGATTCTCTCAATCGCATTGCGATTCTCTCAGTCGCATTGCGATTCTCTC
1 TTCTAAATCGCGTTGCGACTCTCTCAATCGCATTGCGATTCTATAAATCGCATTGCGATTCAATC
*
890199 AGTCGCATTGCGATTTTC
66 AATCGCATTGCGATTTTC
890217 TTCTAAATCGCGTTGCGACTCTCTCAATCGCATTGCGATTCTATAAATCGCATTGCGATTCAATC
1 TTCTAAATCGCGTTGCGACTCTCTCAATCGCATTGCGATTCTATAAATCGCATTGCGATTCAATC
890282 AATCGCATTGCGATTTTC
66 AATCGCATTGCGATTTTC
890300 TTCTAAATCGCGTTGCGA
1 TTCTAAATCGCGTTGCGA
890318 ACTTGGAAGC
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 94 1.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (83 bp):
TTCTAAATCGCGTTGCGACTCTCTCAATCGCATTGCGATTCTATAAATCGCATTGCGATTCAATC
AATCGCATTGCGATTTTC
Found at i:890285 original size:20 final size:20
Alignment explanation
Indices: 890129--890296 Score: 201
Period size: 20 Copynumber: 8.2 Consensus size: 20
890119 TTTAACGTTA
* * *
890129 CGATTTTCTAAATCGCGTTG
1 CGATTCTCTCAATCGCATTG
890149 CGATTCTCTCAATCGCATTG
1 CGATTCTCTCAATCGCATTG
*
890169 CGATTCTCTCAGTCGCATTG
1 CGATTCTCTCAATCGCATTG
*
890189 CGATTCTCTCAGTCGCATTG
1 CGATTCTCTCAATCGCATTG
* *
890209 CGATTTTCTTCTAAATCGCGTTG
1 CGA--TTC-TCTCAATCGCATTG
*
890232 CGACTCTCTCAATCGCATTG
1 CGATTCTCTCAATCGCATTG
* *
890252 CGATTCTATAAATCGCATTG
1 CGATTCTCTCAATCGCATTG
**
890272 CGATTCAATCAATCGCATTG
1 CGATTCTCTCAATCGCATTG
890292 CGATT
1 CGATT
890297 TTCTTCTAAA
Statistics
Matches: 130, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
20 111 0.85
21 2 0.02
22 3 0.02
23 14 0.11
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (20 bp):
CGATTCTCTCAATCGCATTG
Found at i:890394 original size:20 final size:20
Alignment explanation
Indices: 890124--890421 Score: 152
Period size: 20 Copynumber: 14.6 Consensus size: 20
890114 TTCTTTTTAA
*
890124 CGTTACGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
890144 CGTTGCGATTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
890164 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
* * * *
890184 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
*
890204 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
* * *
890227 CGTTGCGACTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * *
890247 CATTGCGATTCTATAAATCG
1 CGTTGCGATTTTCTAAATCG
* *** *
890267 CATTGCGATTCAATCAATCG
1 CGTTGCGATTTTCTAAATCG
*
890287 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
** ** *
890310 CGTTGCGAACTTGGAAGCTCG
1 CGTTGCGATTTTCTAA-ATCG
* *
890331 CGTTGCGATTTTCT--TTTG
1 CGTTGCGATTTTCTAAATCG
*** **
890349 ACCGTTGCGATTTTCTTTTTAA
1 --CGTTGCGATTTTCTAAATCG
890371 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
890391 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCTAAATCG
890410 CGTTGCGATTTT
1 CGTTGCGATTTT
890422 ATTGGTCATT
Statistics
Matches: 224, Mismatches: 43, Indels: 23
0.77 0.15 0.08
Matches are distributed among these distances:
18 2 0.01
19 17 0.08
20 158 0.71
21 14 0.06
22 6 0.03
23 27 0.12
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (20 bp):
CGTTGCGATTTTCTAAATCG
Found at i:890411 original size:19 final size:20
Alignment explanation
Indices: 890371--890421 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
890361 TTCTTTTTAA
*
890371 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCGAAATCG
*
890391 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCGAAATCG
890410 CGTTGCGATTTT
1 CGTTGCGATTTT
890422 ATTGGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTCGAAATCG
Found at i:890913 original size:25 final size:25
Alignment explanation
Indices: 890885--890949 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
890875 ACTCAAAAGA
*
890885 TGTATATACCTAAATATATAGTTAT
1 TGTACATACCTAAATATATAGTTAT
*
890910 TGTACATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATATAGTTAT
890935 TGTACATACCTAAAT
1 TGTACATACCTAAAT
890950 TTAATGATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.40
Consensus pattern (25 bp):
TGTACATACCTAAATATATAGTTAT
Found at i:892911 original size:199 final size:199
Alignment explanation
Indices: 892002--893172 Score: 2195
Period size: 200 Copynumber: 5.9 Consensus size: 199
891992 TTTAAATTAG
892002 TATCGACACAAACT-AAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
892066 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
*
892131 CGATACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
892196 AAAA
196 AAAA
892200 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
892265 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGTTTTTGGGA
*
892330 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGGACC
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
892395 AAAAA
195 AAAAA
*
892400 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAATCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
892465 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
* *
892530 CGACACTTTTTATATATGGATCGACACTTTATAGTTGCACCCTATTTTCCATTCATTCTGGACCA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
892595 AAAA
196 AAAA
*
892599 TATCGACACAAACT-AAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACTGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
892663 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGAGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
892728 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
892793 AAAA
196 AAAA
892797 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
892862 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGG-TTCGATGTTTTTGGGA
*
892927 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
892992 AAAAA
195 AAAAA
892997 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
893062 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGGTTCGATG-TTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTT-GGGTTCGATGTTTTTGGGA
*
893126 TCGACACTTTTTATATATGGTTCGACACTTTATGGTTGCACCCTGTT
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
893173 GGCCATATTG
Statistics
Matches: 949, Mismatches: 19, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
198 206 0.22
199 344 0.36
200 396 0.42
201 3 0.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (199 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
AAAA
Found at i:893135 original size:597 final size:597
Alignment explanation
Indices: 892002--893169 Score: 2230
Period size: 597 Copynumber: 2.0 Consensus size: 597
891992 TTTAAATTAG
892002 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
*
892067 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGAGATC
*
892132 GATACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAA
892197 AAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
196 AAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
*
892262 ATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTG
261 ATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTG
892327 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGG
*
892392 ACCAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA
391 AACAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA
* *
892457 TCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTGATGTT
456 CCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTT
892522 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATAGTTGCACCCTATTTTCCATTCATT
521 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATAGTTGCACCCTATTTTCCATTCATT
892587 CTGGACCAAAAA
586 CTGGACCAAAAA
*
892599 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACTGGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
892664 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGAGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGAGATC
892729 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAA
892794 AAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
196 AAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
892859 ATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTG
261 ATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTG
*
892924 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGG
892989 AACAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA
391 AACAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA
893054 CCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGGTTCGATG-
456 CCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTT-GGGTTCGATGT
* *
893118 TTTTGGGATCGACACTTTTTATATATGGTTCGACACTTTATGGTTGCACCCT
520 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATAGTTGCACCCT
893170 GTTGGCCATA
Statistics
Matches: 560, Mismatches: 10, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
597 551 0.98
598 9 0.02
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (597 bp):
TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGAGATC
GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAA
AAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
ATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTG
GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGG
AACAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA
CCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTT
TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATAGTTGCACCCTATTTTCCATTCATT
CTGGACCAAAAA
Found at i:893337 original size:19 final size:19
Alignment explanation
Indices: 893291--893339 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
893281 TTATATTCAC
*
893291 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
893310 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
893329 ATACAAAATTA
1 ATACAAAATTA
893340 ACCCTATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:895169 original size:33 final size:33
Alignment explanation
Indices: 895132--895197 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
895122 CATCTTAATA
*
895132 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* * *
895165 TCACCCCTCAATACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
895198 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:895256 original size:21 final size:21
Alignment explanation
Indices: 895231--895274 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
895221 CCCCTTATGC
895231 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
895252 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
895273 CT
1 CT
895275 TGATTATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:897338 original size:24 final size:24
Alignment explanation
Indices: 897301--897353 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
897291 CCGTTCTATC
897301 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
897325 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
897349 TATTT
1 TATTT
897354 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:897515 original size:17 final size:19
Alignment explanation
Indices: 897493--897535 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
897483 ATATATCCGG
897493 TATCATTTT-AT-CGGTTT
1 TATCATTTTGATACGGTTT
897510 TATCATTTTGATACCGGTTT
1 TATCATTTTGATA-CGGTTT
897530 TATCAT
1 TATCAT
897536 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 2 0.09
20 12 0.52
ACGTcount: A:0.21, C:0.14, G:0.12, T:0.53
Consensus pattern (19 bp):
TATCATTTTGATACGGTTT
Found at i:897544 original size:20 final size:19
Alignment explanation
Indices: 897498--897544 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
897488 TCCGGTATCA
*
897498 TTTTATCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
897517 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
897538 TTTTACC
1 TTTTACC
897545 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.19, C:0.15, G:0.11, T:0.55
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:897706 original size:20 final size:20
Alignment explanation
Indices: 897679--897725 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
897669 TCCGGTAACG
897679 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
897698 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
897719 TTTTACC
1 TTTTACC
897726 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:897778 original size:181 final size:182
Alignment explanation
Indices: 897465--897937 Score: 725
Period size: 181 Copynumber: 2.6 Consensus size: 182
897455 CGTACTTACG
* * * *
897465 AAAGTATCAACACTTTCAATATATCCGGTATCATTTTATCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
897530 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
*
897595 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* *
897646 AAAGCATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
897711 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** *
897776 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * *
897828 AAAGTACCGACACTTTAAATGTATCCGGTAACGCTTTACCGGTTTTATCATTTCT-ATACCGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TGATACCGGTT
* * *
897892 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
897938 AATTTGGATC
Statistics
Matches: 265, Mismatches: 25, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
181 165 0.62
182 99 0.37
183 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:898405 original size:229 final size:228
Alignment explanation
Indices: 898004--898498 Score: 875
Period size: 229 Copynumber: 2.2 Consensus size: 228
897994 ACATACTTTT
898004 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
*
898069 ATATTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAA
66 ATATTTTTAATAGTGTTTCACGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAA
898134 AAATTATTTGATTATTTGATATTTTATAAAAATATTATTTAGAATTTAAATTTAAAAATATTAAC
131 AAATTATTTGATTATTTGATATTTTATAAAAATATTATTTAGAATTTAAATTTAAAAATATTAAC
* * *
898199 TAAATATAATAATAAATATGTTTTCCACAGTGAA
196 CAAAGATAATAATAAATATATTTT-CACAGTGAA
*
898233 ATAAGTATGGACACTTTTATAAAAATGATATATATTTTTTTTAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
*
898298 ATTTTTTTAATAGTGTTTCACGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAA
66 ATATTTTTAATAGTGTTTCACGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAA
* *
898363 AAATTATTTGATTGTTTTGATATTTTAT-AAAATATTATTTAGAATTTAAATTTAACAATATTAA
131 AAATTATTTGATT-ATTTGATATTTTATAAAAATATTATTTAGAATTTAAATTTAAAAATATTAA
898427 CCAAAGATAATAATAAATATATTTTCACAGTGAA
195 CCAAAGATAATAATAAATATATTTTCACAGTGAA
* *
898461 ATAAGTATGGACACTTTTATAAAAAGGATAAATACTTT
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTT
898499 ACAATATAAC
Statistics
Matches: 254, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
228 44 0.17
229 197 0.78
230 13 0.05
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (228 bp):
ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
ATATTTTTAATAGTGTTTCACGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAA
AAATTATTTGATTATTTGATATTTTATAAAAATATTATTTAGAATTTAAATTTAAAAATATTAAC
CAAAGATAATAATAAATATATTTTCACAGTGAA
Found at i:902438 original size:19 final size:19
Alignment explanation
Indices: 902414--902459 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
902404 GAAGGTGTAC
902414 CGATGCACAAGTAGTGCAT
1 CGATGCACAAGTAGTGCAT
902433 CGATGCACAAGTAGTGCAT
1 CGATGCACAAGTAGTGCAT
902452 CGATGCAC
1 CGATGCAC
902460 TTCTTAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.30, C:0.24, G:0.26, T:0.20
Consensus pattern (19 bp):
CGATGCACAAGTAGTGCAT
Found at i:902523 original size:72 final size:72
Alignment explanation
Indices: 902447--902596 Score: 176
Period size: 72 Copynumber: 2.1 Consensus size: 72
902437 GCACAAGTAG
** * * * *
902447 TGCATCGATGCA-CTTCTTAATAATAGAAACATCAAATGCAATTAATGCATCGATGCATAAGGCG
1 TGCATCGATGCATCACCTTAAT-ATAGAAACATCAAAGGCAATTAATGCACCGATGCACAAGGAG
902511 TGCATCGA
65 TGCATCGA
* * * * * *
902519 TGCATCGATGCATCACCTTAATATTGAAACATCGAAGGTATTTTATGCACCGATGCACAAGTAGT
1 TGCATCGATGCATCACCTTAATATAGAAACATCAAAGGCAATTAATGCACCGATGCACAAGGAGT
902584 GCATCGA
66 GCATCGA
902591 TGCATC
1 TGCATC
902597 ATTAAAGAAT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
72 58 0.89
73 7 0.11
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (72 bp):
TGCATCGATGCATCACCTTAATATAGAAACATCAAAGGCAATTAATGCACCGATGCACAAGGAGT
GCATCGA
Found at i:903964 original size:22 final size:19
Alignment explanation
Indices: 903939--903992 Score: 65
Period size: 18 Copynumber: 2.7 Consensus size: 19
903929 GGGTATATTA
903939 GTCCTTCGGGACGTATCTAGTG
1 GTCCTTCGGGACG-A--TAGTG
903961 GTCCTTCGGGAC-ATAGTG
1 GTCCTTCGGGACGATAGTG
*
903979 GTCATTCGGGACGA
1 GTCCTTCGGGACGA
903993 ATACTGAACA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 16 0.53
19 1 0.03
20 1 0.03
22 12 0.40
ACGTcount: A:0.17, C:0.22, G:0.33, T:0.28
Consensus pattern (19 bp):
GTCCTTCGGGACGATAGTG
Found at i:904092 original size:17 final size:18
Alignment explanation
Indices: 904057--904095 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
904047 AGCATTAGTG
904057 CACA-ACCTTAATGTACT
1 CACATACCTTAATGTACT
*
904074 CACATACCTTAA-GTTCT
1 CACATACCTTAATGTACT
904091 CACAT
1 CACAT
904096 GTGTATATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.33, C:0.31, G:0.05, T:0.31
Consensus pattern (18 bp):
CACATACCTTAATGTACT
Found at i:908894 original size:14 final size:14
Alignment explanation
Indices: 908875--908903 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
908865 GTTTACATGA
908875 ACAAATGAGGAATG
1 ACAAATGAGGAATG
908889 ACAAATGAGGAATG
1 ACAAATGAGGAATG
908903 A
1 A
908904 TATAAGTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.28, T:0.14
Consensus pattern (14 bp):
ACAAATGAGGAATG
Found at i:909131 original size:22 final size:22
Alignment explanation
Indices: 909106--909183 Score: 104
Period size: 22 Copynumber: 3.5 Consensus size: 22
909096 GGGTATATTA
909106 GTCTTTCGGGACGTATCCAGTG
1 GTCTTTCGGGACGTATCCAGTG
*
909128 GTCTTTCGGGATGTATCCAGTG
1 GTCTTTCGGGACGTATCCAGTG
* * *
909150 GTCCTTCGAGACGTATCTAGTG
1 GTCTTTCGGGACGTATCCAGTG
909172 GT-TCTTCGGGAC
1 GTCT-TTCGGGAC
909184 AAATACTGAA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.14, C:0.22, G:0.31, T:0.33
Consensus pattern (22 bp):
GTCTTTCGGGACGTATCCAGTG
Found at i:912965 original size:3 final size:3
Alignment explanation
Indices: 912957--913012 Score: 76
Period size: 3 Copynumber: 17.7 Consensus size: 3
912947 CGGGTCTTTT
*
912957 TTA TTA TTA TCA TTTA TATA TTTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
913005 TTA TTA TT
1 TTA TTA TT
913013 TAACTTACAA
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
3 41 0.85
4 6 0.12
5 1 0.02
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:913845 original size:24 final size:22
Alignment explanation
Indices: 913804--913847 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
913794 GGCATCTCCG
*
913804 GCCGCCGTGCGCCGCCGTCGTC
1 GCCGCCGTGCGCCACCGTCGTC
913826 GCCGCCGTGAGCGCCACCGTCG
1 GCCGCCGT--GCGCCACCGTCG
913848 ACGGCGTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
24 11 0.58
ACGTcount: A:0.05, C:0.48, G:0.36, T:0.11
Consensus pattern (22 bp):
GCCGCCGTGCGCCACCGTCGTC
Found at i:914202 original size:19 final size:19
Alignment explanation
Indices: 914156--914202 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
914146 CATTAATTTG
*
914156 TATATTATGTTTGCTGATAT
1 TATATT-TGGTTGCTGATAT
914176 TATAATTTGGTTG-TGATATT
1 TAT-ATTTGGTTGCTGATA-T
914196 TATATTT
1 TATATTT
914203 ATTTCGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 9 0.38
20 12 0.50
21 3 0.12
ACGTcount: A:0.26, C:0.02, G:0.15, T:0.57
Consensus pattern (19 bp):
TATATTTGGTTGCTGATAT
Found at i:916744 original size:31 final size:32
Alignment explanation
Indices: 916708--916769 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
916698 ATTTTACATG
*
916708 TACTAACTTATTT-TTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTCTTCTCATTTGTTTGTGTA
916739 TACTAACTTATTTCTTCTCATTTGTTTGTGT
1 TACTAACTTATTTCTTCTCATTTGTTTGTGT
916770 CAATTTGTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 13 0.45
32 16 0.55
ACGTcount: A:0.16, C:0.15, G:0.10, T:0.60
Consensus pattern (32 bp):
TACTAACTTATTTCTTCTCATTTGTTTGTGTA
Found at i:920908 original size:4 final size:4
Alignment explanation
Indices: 920899--920940 Score: 54
Period size: 4 Copynumber: 11.2 Consensus size: 4
920889 GATCGAGAAA
*
920899 ACAT ACAT ACAT ACAT ATAT AC-- ACAT ACAT ACAT A-AT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
920941 AAATTTGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 2 0.06
3 3 0.09
4 28 0.85
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:920926 original size:18 final size:17
Alignment explanation
Indices: 920903--920938 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
920893 GAGAAAACAT
920903 ACATACATACATATATAC
1 ACATACATACATA-ATAC
920921 ACATACATACATAATAC
1 ACATACATACATAATAC
920938 A
1 A
920939 TAAAATTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.25
Consensus pattern (17 bp):
ACATACATACATAATAC
Found at i:921337 original size:36 final size:35
Alignment explanation
Indices: 921282--921419 Score: 170
Period size: 36 Copynumber: 3.9 Consensus size: 35
921272 TTTTGAGAAT
921282 TTTAAAACAAATTTTTGTCTCGCTTGAGACAATTTC
1 TTTAAAACAAA-TTTTGTCTCGCTTGAGACAATTTC
* *
921318 TTTCAAAGCAAATTTTGTCTCGCTTGAGACAGCTTTC
1 TTT-AAAACAAATTTTGTCTCGCTTGAGACA-ATTTC
* * *
921355 -TAAAAACAAATTTTGTCTCGTTTGAGACAAATTC
1 TTTAAAACAAATTTTGTCTCGCTTGAGACAATTTC
* *
921389 TCTTAAAACAAACTTCGTCTCGCTTGAGACA
1 T-TTAAAACAAATTTTGTCTCGCTTGAGACA
921420 TTTTTCCTTT
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
34 3 0.03
35 25 0.29
36 48 0.55
37 11 0.13
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (35 bp):
TTTAAAACAAATTTTGTCTCGCTTGAGACAATTTC
Found at i:921371 original size:71 final size:72
Alignment explanation
Indices: 921285--921419 Score: 202
Period size: 71 Copynumber: 1.9 Consensus size: 72
921275 TGAGAATTTT
* * * *
921285 AAAACAAATTTTTGTCTCGCTTGAGACAATTTCT-TTCAAAGCAAATTTTGTCTCGCTTGAGACA
1 AAAACAAATTTTTGTCTCGCTTGAGACAAATTCTCTT-AAAACAAACTTCGTCTCGCTTGAGACA
921349 GCTTTCTA
65 GCTTTCTA
*
921357 AAAACAAA-TTTTGTCTCGTTTGAGACAAATTCTCTTAAAACAAACTTCGTCTCGCTTGAGACA
1 AAAACAAATTTTTGTCTCGCTTGAGACAAATTCTCTTAAAACAAACTTCGTCTCGCTTGAGACA
921420 TTTTTCCTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
71 47 0.82
72 10 0.18
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (72 bp):
AAAACAAATTTTTGTCTCGCTTGAGACAAATTCTCTTAAAACAAACTTCGTCTCGCTTGAGACAG
CTTTCTA
Found at i:921999 original size:30 final size:29
Alignment explanation
Indices: 921920--922008 Score: 128
Period size: 29 Copynumber: 3.1 Consensus size: 29
921910 CTCTTGAGAT
*
921920 AAATCTTTGAGTCTGTTCCTTTTGAATA-A
1 AAATCTTTGAGTCTGTTTCTTTTGAA-ACA
921949 AAATCTTTGAGT-TGTTTCTTTTGAAACA
1 AAATCTTTGAGTCTGTTTCTTTTGAAACA
*
921977 AATATCTTTGAGTCTATTTCTTTTGAAACA
1 AA-ATCTTTGAGTCTGTTTCTTTTGAAACA
922007 AA
1 AA
922009 GTTTTGTCTC
Statistics
Matches: 55, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
27 1 0.02
28 15 0.27
29 22 0.40
30 17 0.31
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (29 bp):
AAATCTTTGAGTCTGTTTCTTTTGAAACA
Found at i:922122 original size:28 final size:28
Alignment explanation
Indices: 922091--922158 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 28
922081 ATTTTGTGAA
*
922091 AAAAAAATCTTTGAGAT-TGTTTCTTTTG
1 AAAAAAATCTTTGAG-TCTGTTTCTTTGG
922119 -AAAAAATCTTTGAGTCTGTTTCTTTGG
1 AAAAAAATCTTTGAGTCTGTTTCTTTGG
922146 AAACAAAAT-TTTG
1 AAA-AAAATCTTTG
922159 TCTCTCTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
26 1 0.03
27 24 0.67
28 6 0.17
29 5 0.14
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.43
Consensus pattern (28 bp):
AAAAAAATCTTTGAGTCTGTTTCTTTGG
Found at i:922144 original size:26 final size:27
Alignment explanation
Indices: 922092--922148 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
922082 TTTTGTGAAA
922092 AAAAAATCTTTGAGATTGTTTCTTTTG
1 AAAAAATCTTTGAGATTGTTTCTTTTG
*
922119 AAAAAATCTTTGAG-TCTGTTTCTTTGG
1 AAAAAATCTTTGAGAT-TGTTTCTTTTG
922146 AAA
1 AAA
922149 CAAAATTTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.44
Consensus pattern (27 bp):
AAAAAATCTTTGAGATTGTTTCTTTTG
Found at i:922179 original size:37 final size:36
Alignment explanation
Indices: 922137--922253 Score: 106
Period size: 37 Copynumber: 3.3 Consensus size: 36
922127 TTTGAGTCTG
922137 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
1 TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT-A
* **
922174 TTTCTTTTGAAACAAAAATCTTTG--AGTC-T--G---
1 TTTCTTTGGAAAC-AAAAT-TTTGTCTCTCTTAAGATA
922204 TTTCTTTGGAAACAAAATTTTTGTCTCTCTTAAGATA
1 TTTCTTTGGAAACAAAA-TTTTGTCTCTCTTAAGATA
922241 TTTCTTTTGGAAA
1 TTTC-TTTGGAAA
922254 AACTCTTTGA
Statistics
Matches: 62, Mismatches: 6, Indels: 23
0.68 0.07 0.25
Matches are distributed among these distances:
29 8 0.13
30 13 0.21
31 2 0.03
32 1 0.02
34 2 0.03
36 1 0.02
37 18 0.29
38 13 0.21
39 4 0.06
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (36 bp):
TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATA
Found at i:922239 original size:68 final size:64
Alignment explanation
Indices: 922110--922297 Score: 258
Period size: 67 Copynumber: 2.9 Consensus size: 64
922100 TTTGAGATTG
922110 TTTCTTTTG-AAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA
1 TTTCTTTTGAAAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT-A
922174 TTTCTTTTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTTGTCTCTCTTAAGA
1 TTTCTTTTG-AA-AAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAA-TTTTGTCTCTCTTAAGA
922239 TA
63 TA
* * * *
922241 TTTCTTTTGGAAAAACTCTTTGAATCTGTTTCTCTT--AAA-ATGAATTTTGTCTCTCTT
1 TTTCTTTTGAAAAAAATCTTTGAGTCTGTTTCT-TTGGAAACA-AAATTTTGTCTCTCTT
922298 GAAACAGTTT
Statistics
Matches: 114, Mismatches: 4, Indels: 13
0.87 0.03 0.10
Matches are distributed among these distances:
63 14 0.12
64 14 0.12
65 20 0.18
66 4 0.04
67 44 0.39
68 18 0.16
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.47
Consensus pattern (64 bp):
TTTCTTTTGAAAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATA
Found at i:922528 original size:28 final size:28
Alignment explanation
Indices: 922496--922549 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
922486 ATATAATCCA
922496 ATCTTTGAGTTT-GTTTCTATTGAAACAC
1 ATCTTTGA-TTTGGTTTCTATTGAAACAC
*
922524 ATCTTTGATTTGGTTTCTCTTGAAAC
1 ATCTTTGATTTGGTTTCTATTGAAAC
922550 CATAACTCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 3 0.12
28 21 0.88
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.48
Consensus pattern (28 bp):
ATCTTTGATTTGGTTTCTATTGAAACAC
Found at i:922629 original size:46 final size:45
Alignment explanation
Indices: 922578--923021 Score: 310
Period size: 46 Copynumber: 10.2 Consensus size: 45
922568 CCAGCCGTCC
* *
922578 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGGAACCGTGTCATCACC-TTAGATGACCAGAACTCT
* * * *
922624 TCATCACGTATGAGCCGTGTCATTC-CC---CA-GACCAGATCTCT
1 TCATCACGTAGGAACCGTGTCA-TCACCTTAGATGACCAGAACTCT
* * * * * *
922665 TCATCACGTATGAGCCGTGTCA--ACCATAGATAACCAG-CCGTCC
1 TCATCACGTAGGAACCGTGTCATCACCTTAGATGACCAGAAC-TCT
* *
922708 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGGAACCGTGTCATCACC-TTAGATGACCAGAACTCT
* * *
922754 TCATCACGTATGAGCCGTGTCATCCACC------GACCAGATCTCT
1 TCATCACGTAGGAACCGTGTCAT-CACCTTAGATGACCAGAACTCT
* * * *
922794 TCATCACGTAGGAACCGTGTCA--ACCATAGATAACCAG-CCGTCC
1 TCATCACGTAGGAACCGTGTCATCACCTTAGATGACCAGAAC-TCT
* *
922837 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGGAACCGTGTCATCACC-TTAGATGACCAGAACTCT
* * *
922883 TCATCACGTATGAGCCGTGTCATCCACC------GACCAGATCTCT
1 TCATCACGTAGGAACCGTGTCAT-CACCTTAGATGACCAGAACTCT
* * * *
922923 TCATCACGTAGGAACCGTGTCA--ACCATAGATAACCAG-CCGTCC
1 TCATCACGTAGGAACCGTGTCATCACCTTAGATGACCAGAAC-TCT
* * * *
922966 TCATCAAGTAGGAACCGAGTTATCACCCTTAGACGACCAGAACTCT
1 TCATCACGTAGGAACCGTGTCATCA-CCTTAGATGACCAGAACTCT
923012 TCATCACGTA
1 TCATCACGTA
923022 TGAGCAGTGT
Statistics
Matches: 310, Mismatches: 53, Indels: 70
0.72 0.12 0.16
Matches are distributed among these distances:
37 6 0.02
39 2 0.01
40 60 0.19
41 32 0.10
42 5 0.02
43 80 0.26
45 7 0.02
46 105 0.34
47 13 0.04
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (45 bp):
TCATCACGTAGGAACCGTGTCATCACCTTAGATGACCAGAACTCT
Found at i:922715 original size:43 final size:43
Alignment explanation
Indices: 922578--922982 Score: 258
Period size: 43 Copynumber: 9.4 Consensus size: 43
922568 CCAGCCGTCC
* * ** *
922578 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGGAACCGTGTCA--ACC-ATAGATAACCAGACCTCT
* * * ** *
922624 TCATCACGTATGAGCCGTGTCATTCCCCAG---ACCAGATCTCT
1 TCATCACGTAGGAACCGTGTCA-ACCATAGATAACCAGACCTCT
* * *
922665 TCATCACGTATGAGCCGTGTCAACCATAGATAACCAG-CCGTCC
1 TCATCACGTAGGAACCGTGTCAACCATAGATAACCAGACC-TCT
* * ** *
922708 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGGAACCGTGTCA--ACC-ATAGATAACCAGACCTCT
* * * ** *
922754 TCATCACGTATGAGCCGTGTCATCCACCG---ACCAGATCTCT
1 TCATCACGTAGGAACCGTGTCAACCATAGATAACCAGACCTCT
*
922794 TCATCACGTAGGAACCGTGTCAACCATAGATAACCAG-CCGTCC
1 TCATCACGTAGGAACCGTGTCAACCATAGATAACCAGACC-TCT
* * ** *
922837 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGGAACCGTGTCA--ACC-ATAGATAACCAGACCTCT
* * * ** *
922883 TCATCACGTATGAGCCGTGTCATCCACCG---ACCAGATCTCT
1 TCATCACGTAGGAACCGTGTCAACCATAGATAACCAGACCTCT
*
922923 TCATCACGTAGGAACCGTGTCAACCATAGATAACCAG-CCGTCC
1 TCATCACGTAGGAACCGTGTCAACCATAGATAACCAGACC-TCT
*
922966 TCATCAAGTAGGAACCG
1 TCATCACGTAGGAACCG
922983 AGTTATCACC
Statistics
Matches: 278, Mismatches: 61, Indels: 43
0.73 0.16 0.11
Matches are distributed among these distances:
40 70 0.25
41 31 0.11
42 3 0.01
43 79 0.28
44 6 0.02
45 8 0.03
46 79 0.28
47 2 0.01
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (43 bp):
TCATCACGTAGGAACCGTGTCAACCATAGATAACCAGACCTCT
Found at i:922765 original size:89 final size:88
Alignment explanation
Indices: 922653--923032 Score: 311
Period size: 89 Copynumber: 4.4 Consensus size: 88
922643 TCATTCCCCA
*
922653 GACCAGATCTCTTCATCACGTATGAGCCGTGTCAACCATAGATAACCAG-CCGTCCTCATCACGT
1 GACCAGAACTCTTCATCACGTATGAGCCGTGTCAACCATAGATAACCAGACC-TCCTCATCACGT
*
922717 AGGAACCGTGTTATCACCTTTAGAT
65 AGGAACCGTGTCATCACC-TTAGAT
* * ** * *
922742 GGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCACCG---ACCAGATCTCTTCATCACGTA
1 GACCAGAACTCTTCATCACGTATGAGCCGTGTCAACCATAGATAACCAGACCTCCTCATCACGTA
*
922804 GGAACCGTGTCA--ACCATAGAT
66 GGAACCGTGTCATCACCTTAGAT
* * * * * * * ** * *
922825 AACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCA
1 GACCAGAAC-TCTTCATCACGTATGAGCCGTGTCA--ACC-ATAGATAACCAGACCTCCTCATCA
* *
922889 CGTATGAGCCGTGTCATCCACC------
62 CGTAGGAACCGTGTCAT-CACCTTAGAT
* * * *
922911 GACCAGATCTCTTCATCACGTAGGAACCGTGTCAACCATAGATAACCAG-CCGTCCTCATCAAGT
1 GACCAGAACTCTTCATCACGTATGAGCCGTGTCAACCATAGATAACCAGACC-TCCTCATCACGT
* * *
922975 AGGAACCGAGTTATCACCCTTAGAC
65 AGGAACCGTGTCATCA-CCTTAGAT
*
923000 GACCAGAACTCTTCATCACGTATGAGCAGTGTC
1 GACCAGAACTCTTCATCACGTATGAGCCGTGTC
923033 GTCCCCACCA
Statistics
Matches: 229, Mismatches: 42, Indels: 40
0.74 0.14 0.13
Matches are distributed among these distances:
82 4 0.02
83 61 0.27
84 6 0.03
85 2 0.01
86 57 0.25
87 2 0.01
89 94 0.41
92 3 0.01
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.24
Consensus pattern (88 bp):
GACCAGAACTCTTCATCACGTATGAGCCGTGTCAACCATAGATAACCAGACCTCCTCATCACGTA
GGAACCGTGTCATCACCTTAGAT
Found at i:922864 original size:129 final size:129
Alignment explanation
Indices: 922568--923032 Score: 833
Period size: 129 Copynumber: 3.6 Consensus size: 129
922558 CTAAAGATGG
922568 CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGT
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGT
* *
922633 ATGAGCCGTGTCATTCC-CCAGACCAGATCTCTTCATCACGTATGAGCCGTGTCAACCATAGATA
66 ATGAGCCGTGTCA-TCCACC-GACCAGATCTCTTCATCACGTAGGAACCGTGTCAACCATAGATA
922697 A
129 A
922698 CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGT
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGT
922763 ATGAGCCGTGTCATCCACCGACCAGATCTCTTCATCACGTAGGAACCGTGTCAACCATAGATAA
66 ATGAGCCGTGTCATCCACCGACCAGATCTCTTCATCACGTAGGAACCGTGTCAACCATAGATAA
922827 CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGT
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGT
922892 ATGAGCCGTGTCATCCACCGACCAGATCTCTTCATCACGTAGGAACCGTGTCAACCATAGATAA
66 ATGAGCCGTGTCATCCACCGACCAGATCTCTTCATCACGTAGGAACCGTGTCAACCATAGATAA
* * * * *
922956 CCAGCCGTCCTCATCAAGTAGGAACCGAGTTATCACCCTTAGACGACCAGAACTCTTCATCACGT
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGT
*
923021 ATGAGCAGTGTC
66 ATGAGCCGTGTC
923033 GTCCCCACCA
Statistics
Matches: 326, Mismatches: 8, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
129 246 0.75
130 80 0.25
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (129 bp):
CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGT
ATGAGCCGTGTCATCCACCGACCAGATCTCTTCATCACGTAGGAACCGTGTCAACCATAGATAA
Found at i:923188 original size:3 final size:3
Alignment explanation
Indices: 923180--923229 Score: 64
Period size: 3 Copynumber: 15.7 Consensus size: 3
923170 CGGGTCTTTT
*
923180 TTA TTA TTA TCA TTTA TATA TTTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
923228 TT
1 TT
923230 TAACTTACAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
3 35 0.83
4 6 0.14
5 1 0.02
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:924062 original size:24 final size:22
Alignment explanation
Indices: 924021--924064 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
924011 GGCATCTCCG
*
924021 GCCGCCGTGCGCCGCCGTCGTC
1 GCCGCCGTGCGCCACCGTCGTC
924043 GCCGCCGTGAGCGCCACCGTCG
1 GCCGCCGT--GCGCCACCGTCG
924065 ACGGCGTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
24 11 0.58
ACGTcount: A:0.05, C:0.48, G:0.36, T:0.11
Consensus pattern (22 bp):
GCCGCCGTGCGCCACCGTCGTC
Found at i:924419 original size:19 final size:19
Alignment explanation
Indices: 924373--924419 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
924363 CATTAATTTG
*
924373 TATATTATGTTTGCTGATAT
1 TATATT-TGGTTGCTGATAT
924393 TATAATTTGGTTG-TGATATT
1 TAT-ATTTGGTTGCTGATA-T
924413 TATATTT
1 TATATTT
924420 ATTTCGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 9 0.38
20 12 0.50
21 3 0.12
ACGTcount: A:0.26, C:0.02, G:0.15, T:0.57
Consensus pattern (19 bp):
TATATTTGGTTGCTGATAT
Found at i:930378 original size:51 final size:51
Alignment explanation
Indices: 930282--930379 Score: 117
Period size: 51 Copynumber: 1.9 Consensus size: 51
930272 CTCCTGCAGT
* * * * *
930282 GCGTTTTACGCTAATCTGGTGCCACGTGTGGTAAGGCGCGCCCCCTGAAGC
1 GCGTCTTACGCTAATATGGTGACACGTGTGGTAAAGCACGCCCCCTGAAGC
* *
930333 GCGTCTTACGCTAATATGGATTACACGTGT-GTAAAGCACGGCCCCTG
1 GCGTCTTACGCTAATATGG-TGACACGTGTGGTAAAGCACGCCCCCTG
930380 GGGTGCGCCT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
51 31 0.79
52 8 0.21
ACGTcount: A:0.19, C:0.28, G:0.29, T:0.24
Consensus pattern (51 bp):
GCGTCTTACGCTAATATGGTGACACGTGTGGTAAAGCACGCCCCCTGAAGC
Found at i:936461 original size:12 final size:12
Alignment explanation
Indices: 936434--936507 Score: 53
Period size: 12 Copynumber: 6.0 Consensus size: 12
936424 TTTATATCTG
*
936434 TAAAAAAAATTAT
1 TAAATAAAA-TAT
936447 TAAATAAAATAT
1 TAAATAAAATAT
** *
936459 TAAATAATTTAAA
1 TAAATAAAAT-AT
*
936472 TAAATTAAATAT
1 TAAATAAAATAT
936484 TAAATATTAAATA-
1 TAAATA--AAATAT
936497 T-AATAAAATAT
1 TAAATAAAATAT
936508 ATCTTAAACA
Statistics
Matches: 48, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
10 5 0.10
12 21 0.44
13 17 0.35
14 5 0.10
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TAAATAAAATAT
Found at i:936475 original size:25 final size:23
Alignment explanation
Indices: 936447--936507 Score: 86
Period size: 25 Copynumber: 2.5 Consensus size: 23
936437 AAAAAATTAT
936447 TAAATAAAATATTAAATAATTTAAA
1 TAAATAAAATATTAAAT-A-TTAAA
*
936472 TAAATTAAATATTAAATATTAAA
1 TAAATAAAATATTAAATATTAAA
936495 TATAATAAAATAT
1 TA-AATAAAATAT
936508 ATCTTAAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 7 0.21
24 10 0.30
25 16 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
TAAATAAAATATTAAATATTAAA
Found at i:936487 original size:7 final size:7
Alignment explanation
Indices: 936444--936497 Score: 58
Period size: 7 Copynumber: 7.4 Consensus size: 7
936434 TAAAAAAAAT
936444 TATTAAA
1 TATTAAA
936451 TA--AAA
1 TATTAAA
936456 TATTAAA
1 TATTAAA
936463 TAATTTAAA
1 T-A-TTAAA
936472 TAAATTAAA
1 T--ATTAAA
936481 TATTAAA
1 TATTAAA
936488 TATTAAA
1 TATTAAA
936495 TAT
1 TAT
936498 AATAAAATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
5 5 0.12
7 22 0.52
8 1 0.02
9 12 0.29
10 2 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
TATTAAA
Found at i:946041 original size:2 final size:2
Alignment explanation
Indices: 946036--946072 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
946026 TTTATGTGTA
946036 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
946073 ATCCATTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:946194 original size:24 final size:24
Alignment explanation
Indices: 946148--946194 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
946138 TTCAAATATA
* **
946148 TTATTTAATTGTTTATTTTAAAAG
1 TTATTTAATTATTTATTAAAAAAG
946172 TTATTTAATTATTTATTAAAAAA
1 TTATTTAATTATTTATTAAAAAA
946195 ATATTATATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (24 bp):
TTATTTAATTATTTATTAAAAAAG
Found at i:946574 original size:8 final size:8
Alignment explanation
Indices: 946550--946614 Score: 66
Period size: 7 Copynumber: 8.4 Consensus size: 8
946540 ATATTCGTAA
946550 TTTAAT-T
1 TTTAATAT
946557 TTTAAT-T
1 TTTAATAT
946564 TTTAATATT
1 TTTAATA-T
946573 TTTAATAT
1 TTTAATAT
*
946581 TTAAAT-T
1 TTTAATAT
946588 TTTGAATAT
1 TTT-AATAT
946597 TTTAATAT
1 TTTAATAT
*
946605 TATAA-AT
1 TTTAATAT
946612 TTT
1 TTT
946615 TTAAAAAATA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
7 20 0.40
8 18 0.36
9 12 0.24
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (8 bp):
TTTAATAT
Found at i:946575 original size:9 final size:9
Alignment explanation
Indices: 946561--946618 Score: 54
Period size: 9 Copynumber: 6.9 Consensus size: 9
946551 TTAATTTTTA
946561 ATTTTTAAT
1 ATTTTTAAT
946570 ATTTTTAAT
1 ATTTTTAAT
946579 A--TTTAA-
1 ATTTTTAAT
946585 ATTTTTGAAT
1 ATTTTT-AAT
946595 A-TTTTAAT
1 ATTTTTAAT
* *
946603 ATTATAAAT
1 ATTTTTAAT
946612 -TTTTTAA
1 ATTTTTAA
946619 AAAATATTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
6 1 0.03
7 5 0.12
8 12 0.30
9 21 0.52
10 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:946575 original size:16 final size:16
Alignment explanation
Indices: 946554--946615 Score: 72
Period size: 16 Copynumber: 3.8 Consensus size: 16
946544 TCGTAATTTA
946554 ATTTTTAATTTTTAAT
1 ATTTTTAATTTTTAAT
*
946570 ATTTTTAATATTTAA-
1 ATTTTTAATTTTTAAT
946585 ATTTTTGAATATTTTAAT
1 ATTTTT-AAT-TTTTAAT
* *
946603 ATTATAAATTTTT
1 ATTTTTAATTTTT
946616 TAAAAAATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
15 6 0.15
16 21 0.54
17 8 0.21
18 4 0.10
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
ATTTTTAATTTTTAAT
Found at i:946590 original size:25 final size:24
Alignment explanation
Indices: 946550--946618 Score: 88
Period size: 25 Copynumber: 2.9 Consensus size: 24
946540 ATATTCGTAA
*
946550 TTTAAT-TTTTAA-TTTTTAATATT
1 TTTAATATTTAAATTTTTTAATA-T
*
946573 TTTAATATTTAAATTTTTGAATAT
1 TTTAATATTTAAATTTTTTAATAT
946597 TTTAATATTATAAATTTTTTAA
1 TTTAATATT-TAAATTTTTTAA
946619 AAAATATTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
23 6 0.15
24 15 0.38
25 19 0.47
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (24 bp):
TTTAATATTTAAATTTTTTAATAT
Found at i:946599 original size:24 final size:24
Alignment explanation
Indices: 946550--946615 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
946540 ATATTCGTAA
*
946550 TTTAAT-TTTTAATTTTTAATATT
1 TTTAATATTTAAATTTTTAATATT
946573 TTTAATATTTAAATTTTTGAATA-T
1 TTTAATATTTAAATTTTT-AATATT
946597 TTTAATATTATAAATTTTT
1 TTTAATATT-TAAATTTTT
946616 TAAAAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
23 6 0.15
24 20 0.51
25 13 0.33
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (24 bp):
TTTAATATTTAAATTTTTAATATT
Found at i:947364 original size:18 final size:19
Alignment explanation
Indices: 947329--947365 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
947319 CACAGAATGT
947329 AAGATTATCAGTGGGAATAA
1 AAGATTATCAG-GGGAATAA
947349 AAGATTATCA-GGGAATA
1 AAGATTATCAGGGGAATA
947366 GGATTATTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.05, G:0.24, T:0.24
Consensus pattern (19 bp):
AAGATTATCAGGGGAATAA
Found at i:959538 original size:2 final size:2
Alignment explanation
Indices: 959531--959561 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
959521 TAATTTCTGG
959531 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
959562 GTGTGTGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:964038 original size:2 final size:2
Alignment explanation
Indices: 964031--964059 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
964021 GGAATTAGTG
964031 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
964060 GCGCTGAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:976471 original size:18 final size:18
Alignment explanation
Indices: 976448--976482 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
976438 TTCGATTCAG
*
976448 TCATTTGAATATAAAAAT
1 TCATTTGAAGATAAAAAT
*
976466 TCATTTTAAGATAAAAA
1 TCATTTGAAGATAAAAA
976483 ACTTCAATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (18 bp):
TCATTTGAAGATAAAAAT
Found at i:978717 original size:2 final size:2
Alignment explanation
Indices: 978710--978780 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
978700 TTTTTCACAA
978710 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
978752 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
978781 ATAAATCAAT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:980557 original size:18 final size:20
Alignment explanation
Indices: 980530--980567 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
980520 AAAGAGTTAA
980530 AAAAATATGT-TAAAAATAT
1 AAAAATATGTATAAAAATAT
980549 AAAAA-ATGTCATAAAAATA
1 AAAAATATGT-ATAAAAATA
980568 AATATGTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (20 bp):
AAAAATATGTATAAAAATAT
Found at i:980610 original size:2 final size:2
Alignment explanation
Indices: 980605--980646 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
980595 AATTAAAAAA
*
980605 AT AT AT AC A- 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
980646 A
1 A
980647 AGATACTAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:993817 original size:3 final size:3
Alignment explanation
Indices: 993809--993848 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
993799 TATTTTTAAA
* *
993809 ATT ATT ATT ATT ATT ATA AAT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
993849 CATGCCCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:993832 original size:18 final size:19
Alignment explanation
Indices: 993798--993843 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
993788 TTTTTTCATT
*
993798 TTATTTTTA-AAATTATTA
1 TTATTATTATAAATTATTA
993816 TTATTATTATAAA-TATTA
1 TTATTATTATAAATTATTA
993834 TTATTATTAT
1 TTATTATTAT
993844 TATTACATGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 23 0.88
19 3 0.12
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTATTATTATAAATTATTA
Found at i:993845 original size:21 final size:20
Alignment explanation
Indices: 993805--993846 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 20
993795 ATTTTATTTT
993805 TAAAATTATTATTATTATTA
1 TAAAATTATTATTATTATTA
993825 TAAATATTATTATTATTATTA
1 TAAA-ATTATTATTATTATTA
993846 T
1 T
993847 TACATGCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TAAAATTATTATTATTATTA
Found at i:994099 original size:23 final size:23
Alignment explanation
Indices: 994067--994121 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
994057 CCATGTCCCT
*
994067 CCAACTACTCCGCCGCTTCTACG
1 CCAACCACTCCGCCGCTTCTACG
*
994090 CCAACCACTCCGTCGCTTCTACG
1 CCAACCACTCCGCCGCTTCTACG
994113 CCAACCACT
1 CCAACCACT
994122 ACGTCGTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.20, C:0.49, G:0.11, T:0.20
Consensus pattern (23 bp):
CCAACCACTCCGCCGCTTCTACG
Found at i:994126 original size:23 final size:23
Alignment explanation
Indices: 994080--994127 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
994070 ACTACTCCGC
*
994080 CGCTTCTACGCCAACCACTCCGT
1 CGCTTCTACGCCAACCACTACGT
994103 CGCTTCTACGCCAACCACTACGT
1 CGCTTCTACGCCAACCACTACGT
994126 CG
1 CG
994128 TTATGTTCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.19, C:0.46, G:0.15, T:0.21
Consensus pattern (23 bp):
CGCTTCTACGCCAACCACTACGT
Found at i:995191 original size:11 final size:11
Alignment explanation
Indices: 995166--995223 Score: 55
Period size: 11 Copynumber: 4.9 Consensus size: 11
995156 ATATATATTC
995166 TAATAATATATAT
1 TAATAATA-A-AT
995179 TAATAATAAAT
1 TAATAATAAAT
995190 TACAAATAATAAA-
1 T---AATAATAAAT
*
995203 TAATAATAAAA
1 TAATAATAAAT
995214 TAATAATAAA
1 TAATAATAAA
995224 AGACAAAATG
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
10 9 0.22
11 13 0.32
12 1 0.02
13 9 0.22
14 9 0.22
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (11 bp):
TAATAATAAAT
Found at i:995221 original size:24 final size:25
Alignment explanation
Indices: 995166--995222 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
995156 ATATATATTC
* *
995166 TAATAAT-ATATATTAATAATAAAT
1 TAATAATAATATAATAATAATAAAA
995190 TACA-AATAATA-AATAATAATAAAA
1 TA-ATAATAATATAATAATAATAAAA
995214 TAATAATAA
1 TAATAATAA
995223 AAGACAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
23 1 0.04
24 23 0.82
25 4 0.14
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (25 bp):
TAATAATAATATAATAATAATAAAA
Found at i:995465 original size:3 final size:3
Alignment explanation
Indices: 995459--995515 Score: 66
Period size: 3 Copynumber: 20.0 Consensus size: 3
995449 CTTTTTTTAT
* * *
995459 TTA TTA TTT TTA TTA -TA TTA -TA TAA TTA TTA TTA TTA TTA TTA -GA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
995504 TTA TTA TTA TTA
1 TTA TTA TTA TTA
995516 ATTTTTCTTG
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 5 0.11
3 40 0.89
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:995477 original size:14 final size:14
Alignment explanation
Indices: 995455--995515 Score: 72
Period size: 14 Copynumber: 4.4 Consensus size: 14
995445 TTGTCTTTTT
*
995455 TTATT-TATTATTT
1 TTATTATATTATTA
995468 TTATTATATTA-TA
1 TTATTATATTATTA
*
995481 TAATTATTATTATTA
1 TTATTA-TATTATTA
*
995496 TTATTAGATTATTA
1 TTATTATATTATTA
995510 TTATTA
1 TTATTA
995516 ATTTTTCTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
13 11 0.27
14 23 0.56
15 7 0.17
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (14 bp):
TTATTATATTATTA
Found at i:1000973 original size:73 final size:72
Alignment explanation
Indices: 1000855--1000991 Score: 213
Period size: 73 Copynumber: 1.9 Consensus size: 72
1000845 ATACAATAAA
*
1000855 GCTTGAGTTATCCCCCTAAAGTAATTAGTTAAAAGCCCCGGCTTTATGGATAATATTCAGCTAAT
1 GCTTGAGTTATCCCCCTAAAGCAATTAGTTAAAAGCCCCGGCTTTATGGATAATATTCAGCTAAT
1000920 ATGTTAT
66 ATGTTAT
* * *
1000927 GCTTGAGTTATCCCCCCTAAAGCAATTGGTTAATCA-CCCTGGCTTTATGGATAATATTCAGCTA
1 GCTTGAGTTAT-CCCCCTAAAGCAATTAGTTAA-AAGCCCCGGCTTTATGGATAATATTCAGCTA
1000991 A
64 A
1000992 CTTATTATAC
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
72 11 0.19
73 47 0.80
74 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (72 bp):
GCTTGAGTTATCCCCCTAAAGCAATTAGTTAAAAGCCCCGGCTTTATGGATAATATTCAGCTAAT
ATGTTAT
Found at i:1005598 original size:22 final size:22
Alignment explanation
Indices: 1005570--1005648 Score: 122
Period size: 22 Copynumber: 3.6 Consensus size: 22
1005560 ACATCTATAT
*
1005570 TCTTCAAAAATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
* *
1005592 TCTTCAAATATGGTAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
1005614 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
1005636 TTTTCAAAGATGA
1 TCTTCAAAGATGA
1005649 AAGCCTTATT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:1006385 original size:45 final size:45
Alignment explanation
Indices: 1006321--1006719 Score: 559
Period size: 45 Copynumber: 8.7 Consensus size: 45
1006311 ATTTCCCACG
1006321 TCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCA
1 TCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCA
*
1006366 TCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGAGTCA
1 TCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCA
* *
1006411 TCTATAAGCCCTTAAGTGCATGATGTTTTCAAAACCTTCGGGTCA
1 TCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCA
*
1006456 TCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACTTTCGGGTCA
1 TCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCA
1006501 TCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCA
1 TCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAACCTTCGGGTCA
* * * *
1006547 TTTGTAAGACCTTCAGTGCAGGATGTTTTCAAAAAGCCTTCGGGT-T
1 TCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAA-CCTTCGGGTCA
* *
1006593 TAC-GTAAGACCTTCAGTGCATGACGTTTTCGAAAAGCCTTCGGGTCA
1 T-CTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAA-CCTTCGGGTCA
* * * * *
1006640 TCCGTAAGACCTTCTGTGCAAGATGTTTTCAAAAAGCCTTCGAGTCA
1 TCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAA-CCTTCGGGTCA
* *
1006687 TCCGTAAGACCTTCAGTGCATGATGTTTTCAAA
1 TCTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
1006720 TGAGATTTTA
Statistics
Matches: 325, Mismatches: 24, Indels: 9
0.91 0.07 0.03
Matches are distributed among these distances:
45 158 0.49
46 90 0.28
47 77 0.24
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (45 bp):
TCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCA
Found at i:1006989 original size:3 final size:3
Alignment explanation
Indices: 1006981--1007035 Score: 83
Period size: 3 Copynumber: 18.3 Consensus size: 3
1006971 TATTTTTAAA
* * *
1006981 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTA AAT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1007029 ATT ATT A
1 ATT ATT A
1007036 CAGGCCCAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:1008379 original size:7 final size:7
Alignment explanation
Indices: 1008342--1008399 Score: 55
Period size: 7 Copynumber: 8.0 Consensus size: 7
1008332 ATATGTATTC
1008342 TAATAATA
1 TAATAA-A
*
1008350 TATATTAA
1 TA-ATAAA
1008358 TAATAAA
1 TAATAAA
* *
1008365 TTACAAA
1 TAATAAA
1008372 TAATAAA
1 TAATAAA
1008379 TAATTAAA
1 TAA-TAAA
1008387 TAAT-AA
1 TAATAAA
1008393 TAATAAA
1 TAATAAA
1008400 AGACAAAATG
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
6 6 0.15
7 20 0.49
8 12 0.29
9 3 0.07
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (7 bp):
TAATAAA
Found at i:1008645 original size:3 final size:3
Alignment explanation
Indices: 1008633--1008694 Score: 69
Period size: 3 Copynumber: 22.0 Consensus size: 3
1008623 TCCTTTTTAT
* *
1008633 TTA TTA -TA TTA TTA -TA ATA TTA -TA TTA TTA GTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
1008678 TTA -GA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
1008695 ATTTTTATTT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
2 7 0.14
3 43 0.86
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:1008646 original size:8 final size:8
Alignment explanation
Indices: 1008629--1008694 Score: 80
Period size: 8 Copynumber: 8.0 Consensus size: 8
1008619 TTTGTCCTTT
1008629 TTAT-TTA
1 TTATATTA
1008636 TTATATTA
1 TTATATTA
*
1008644 TTATAATA
1 TTATATTA
1008652 TTATATTA
1 TTATATTA
1008660 TTAGTATTA
1 TTA-TATTA
1008669 TTATTATTA
1 TTA-TATTA
*
1008678 TTAGATTA
1 TTATATTA
1008686 TTATTATTA
1 TTA-TATTA
1008695 ATTTTTATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
7 4 0.08
8 27 0.53
9 20 0.39
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (8 bp):
TTATATTA
Found at i:1008669 original size:14 final size:14
Alignment explanation
Indices: 1008633--1008703 Score: 76
Period size: 14 Copynumber: 5.1 Consensus size: 14
1008623 TCCTTTTTAT
1008633 TTATTATATTATTA
1 TTATTATATTATTA
1008647 TAATATTATATTATTA
1 T--TATTATATTATTA
*
1008663 GTA-T-TATTATTA
1 TTATTATATTATTA
*
1008675 TTATTAGATTATTA
1 TTATTATATTATTA
*
1008689 TTATTA-ATTTTTA
1 TTATTATATTATTA
1008702 TT
1 TT
1008704 TTTCTTGAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
12 10 0.20
13 10 0.20
14 16 0.33
16 13 0.27
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (14 bp):
TTATTATATTATTA
Found at i:1014453 original size:21 final size:21
Alignment explanation
Indices: 1014412--1014458 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
1014402 ACCCTCCTAT
*
1014412 AATTTTAGTTCGTCTCCCTTA
1 AATTTTAGTTCATCTCCCTTA
*
1014433 GAATTTTATTTCATC-CCCTTA
1 -AATTTTAGTTCATCTCCCTTA
1014454 AATTT
1 AATTT
1014459 AGGTTCACCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 5 0.22
21 6 0.26
22 12 0.52
ACGTcount: A:0.23, C:0.21, G:0.06, T:0.49
Consensus pattern (21 bp):
AATTTTAGTTCATCTCCCTTA
Found at i:1017511 original size:17 final size:17
Alignment explanation
Indices: 1017484--1017522 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
1017474 AATTTACAAT
1017484 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
1017500 TAATTATAAATAATATC
1 TAATTATAAATAATATC
1017517 TAATTA
1 TAATTA
1017523 ATTTGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:1025265 original size:15 final size:15
Alignment explanation
Indices: 1025245--1025275 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1025235 TTGTGTTCTT
1025245 GATGTATAGTAGACA
1 GATGTATAGTAGACA
1025260 GATGTATAGTAGACA
1 GATGTATAGTAGACA
1025275 G
1 G
1025276 CATTTTACTT
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:0.39, C:0.06, G:0.29, T:0.26
Consensus pattern (15 bp):
GATGTATAGTAGACA
Found at i:1028887 original size:24 final size:22
Alignment explanation
Indices: 1028827--1028892 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 22
1028817 TAATTTAATT
1028827 TTTTATAATATAAAAAATTTTA
1 TTTTATAATATAAAAAATTTTA
1028849 TATTTCA-AATAATAAATATAATTTTA
1 T-TTT-ATAAT-ATAAA-A-AATTTTA
*
1028875 TTTTATTATATAAAAAAT
1 TTTTATAATATAAAAAAT
1028893 AGTAATTATT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
22 4 0.11
23 7 0.19
24 12 0.32
25 6 0.16
26 8 0.22
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTTATAATATAAAAAATTTTA
Found at i:1028905 original size:27 final size:27
Alignment explanation
Indices: 1028827--1028908 Score: 70
Period size: 27 Copynumber: 3.3 Consensus size: 27
1028817 TAATTTAATT
*
1028827 TTTTATAATATAAAAAAT-T--TTATA
1 TTTTATTATATAAAAAATATAATTATA
* * *
1028851 TTTCA--A-ATAATAAATATAATTTTA
1 TTTTATTATATAAAAAATATAATTATA
1028875 TTTTATTATATAAAAAATAGTAATTAT-
1 TTTTATTATATAAAAAATA-TAATTATA
1028902 TTTTATT
1 TTTTATT
1028909 TGTTTCAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
21 8 0.18
22 2 0.04
24 12 0.27
26 1 0.02
27 16 0.36
28 6 0.13
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (27 bp):
TTTTATTATATAAAAAATATAATTATA
Found at i:1029475 original size:14 final size:14
Alignment explanation
Indices: 1029456--1029494 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
1029446 ATGCGAAGTT
1029456 ATCCCTGCA-AATAA
1 ATCCCTGCATAA-AA
1029470 ATCCCTGCATAAAA
1 ATCCCTGCATAAAA
*
1029484 ATCTCTGCATA
1 ATCCCTGCATA
1029495 TAGACAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 21 0.91
15 2 0.09
ACGTcount: A:0.38, C:0.28, G:0.08, T:0.26
Consensus pattern (14 bp):
ATCCCTGCATAAAA
Found at i:1031210 original size:2 final size:2
Alignment explanation
Indices: 1031125--1031198 Score: 148
Period size: 2 Copynumber: 37.0 Consensus size: 2
1031115 CTCCCTCTTC
1031125 TA TA TA TA TA TA 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
1031167 TA 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
1031199 ATTAAGATAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1031890 original size:13 final size:13
Alignment explanation
Indices: 1031872--1031923 Score: 104
Period size: 13 Copynumber: 4.0 Consensus size: 13
1031862 AAAATGTCAG
1031872 AATAAGAAGATAC
1 AATAAGAAGATAC
1031885 AATAAGAAGATAC
1 AATAAGAAGATAC
1031898 AATAAGAAGATAC
1 AATAAGAAGATAC
1031911 AATAAGAAGATAC
1 AATAAGAAGATAC
1031924 GGTCTCAGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.62, C:0.08, G:0.15, T:0.15
Consensus pattern (13 bp):
AATAAGAAGATAC
Found at i:1033274 original size:24 final size:24
Alignment explanation
Indices: 1033247--1033300 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
1033237 TTTATATAAA
*
1033247 ATTTAAGAATTAAATTAATA-TTAT
1 ATTTAAGAATTAAAATAATACTT-T
1033271 ATTTAAGAATTAAAATAATACTTT
1 ATTTAAGAATTAAAATAATACTTT
1033295 ATTTAA
1 ATTTAA
1033301 ATTTTAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 26 0.93
25 2 0.07
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (24 bp):
ATTTAAGAATTAAAATAATACTTT
Found at i:1035561 original size:18 final size:17
Alignment explanation
Indices: 1035514--1035565 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 17
1035504 TTTATGCAAG
*
1035514 ATAGAAAATATCTCAAA
1 ATAGAAAATATATCAAA
* *
1035531 TTACAATAA-ATATTCAAA
1 ATAGAA-AATATA-TCAAA
1035549 ATAGAAAATATATCAAA
1 ATAGAAAATATATCAAA
1035566 TTACAATAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.60, C:0.10, G:0.04, T:0.27
Consensus pattern (17 bp):
ATAGAAAATATATCAAA
Found at i:1036646 original size:101 final size:101
Alignment explanation
Indices: 1036509--1036690 Score: 249
Period size: 101 Copynumber: 1.8 Consensus size: 101
1036499 TGCTCCTAAT
*
1036509 TTAAAATCATGCATCCATCTCTAGATACAGACATGATC-TGAGCTAGATATAAATGTTAAGAATT
1 TTAAAATCATGCATCCATCTCTAGATACAGACATGATCTTG-GCTAGATATAAACGTTAAGAATT
1036573 ACTTTAAATATTATACAAGTTTAAATTCATTCATAAC
65 ACTTTAAATATTATACAAGTTTAAATTCATTCATAAC
* * * ** * * * * *
1036610 TTAAAATCCTGCATCCGTCTCTGGATATGGATATGATCTTGGGTAGATTTAAACGTTAAGTATTG
1 TTAAAATCATGCATCCATCTCTAGATACAGACATGATCTTGGCTAGATATAAACGTTAAGAATTA
1036675 CTTTAAATATTATACA
66 CTTTAAATATTATACA
1036691 TATAAAATAT
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
101 67 0.97
102 2 0.03
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.36
Consensus pattern (101 bp):
TTAAAATCATGCATCCATCTCTAGATACAGACATGATCTTGGCTAGATATAAACGTTAAGAATTA
CTTTAAATATTATACAAGTTTAAATTCATTCATAAC
Found at i:1038022 original size:20 final size:21
Alignment explanation
Indices: 1037997--1038048 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
1037987 TTTTCCCAAT
*
1037997 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
1038017 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
1038038 TCGCAATGCGA
1 TCGCAATGCGA
1038049 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:1038062 original size:20 final size:20
Alignment explanation
Indices: 1038037--1038171 Score: 148
Period size: 20 Copynumber: 6.7 Consensus size: 20
1038027 AATTGGGAAA
1038037 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
1038057 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
1038077 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
1038097 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
1038118 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
1038138 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
1038158 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
1038172 TTTCAAAGCG
Statistics
Matches: 98, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
19 4 0.04
20 68 0.69
21 24 0.24
22 2 0.02
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:1038150 original size:41 final size:41
Alignment explanation
Indices: 1038034--1038171 Score: 181
Period size: 41 Copynumber: 3.4 Consensus size: 41
1038024 GCGAATTGGG
*
1038034 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTGAC
1 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAAT-AC
* *
1038076 --TATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAC
* * * *
1038115 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAC
*
1038156 ATAATCGCAATGCGAT
1 AAAATCGCAATGCGAT
1038172 TTTCAAAGCG
Statistics
Matches: 82, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 2 0.02
40 34 0.41
41 46 0.56
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.23
Consensus pattern (41 bp):
AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAC
Found at i:1038367 original size:22 final size:22
Alignment explanation
Indices: 1038339--1038382 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1038329 CACTCTCTCA
*
1038339 CCCATCTCCGTCGAAATCCGTC
1 CCCATCTCCGGCGAAATCCGTC
1038361 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGGCGAAATCCGTC
1038383 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.45, G:0.16, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGGCGAAATCCGTC
Found at i:1038699 original size:20 final size:20
Alignment explanation
Indices: 1038645--1038703 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
1038635 GCGATTCTCT
**
1038645 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
1038665 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
1038685 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
1038704 AAAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:1040044 original size:18 final size:18
Alignment explanation
Indices: 1040023--1040067 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
1040013 TCCACTTCGG
* *
1040023 GAGCCATCACCTCGCCCA
1 GAGCTATCACCTCACCCA
*
1040041 GAGCTATTACCTCACCCA
1 GAGCTATCACCTCACCCA
1040059 GAGCTATCA
1 GAGCTATCA
1040068 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.40, G:0.16, T:0.18
Consensus pattern (18 bp):
GAGCTATCACCTCACCCA
Found at i:1040479 original size:12 final size:12
Alignment explanation
Indices: 1040464--1040501 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
1040454 TTTGTTAGTA
1040464 TTTGTTTTTGGT
1 TTTGTTTTTGGT
*
1040476 TTTGTTTTTGTT
1 TTTGTTTTTGGT
1040488 TTTGTCTTTTGGT
1 TTTGT-TTTTGGT
1040501 T
1 T
1040502 GAAGTAATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 16 0.70
13 7 0.30
ACGTcount: A:0.00, C:0.03, G:0.21, T:0.76
Consensus pattern (12 bp):
TTTGTTTTTGGT
Found at i:1040497 original size:7 final size:6
Alignment explanation
Indices: 1040464--1040498 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
1040454 TTTGTTAGTA
*
1040464 TTTGTT TTTGGT TTTGTT TTTGTT TTTGTCT TTTG
1 TTTGTT TTTGTT TTTGTT TTTGTT TTTGT-T TTTG
1040499 GTTGAAGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.00, C:0.03, G:0.20, T:0.77
Consensus pattern (6 bp):
TTTGTT
Found at i:1040589 original size:20 final size:19
Alignment explanation
Indices: 1040566--1040621 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 19
1040556 TGCAACACGA
1040566 AAATGACAATCGCAACGCGG
1 AAATGACAATCGCAACGC-G
* * *
1040586 AAATGGCTATCGCAATGCG
1 AAATGACAATCGCAACGCG
*
1040605 AAATGAAAATCGCAACG
1 AAATGACAATCGCAACG
1040622 ACAAAATCGC
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.41, C:0.21, G:0.23, T:0.14
Consensus pattern (19 bp):
AAATGACAATCGCAACGCG
Found at i:1040616 original size:19 final size:19
Alignment explanation
Indices: 1040566--1040690 Score: 81
Period size: 19 Copynumber: 7.1 Consensus size: 19
1040556 TGCAACACGA
* *
1040566 AAATGACAATCGCAACGCGG
1 AAATGAAAATCGCAATGC-G
***
1040586 AAATGGCTATCGCAATGCG
1 AAATGAAAATCGCAATGCG
1040605 AAATGAAAATCGCAA--CG
1 AAATGAAAATCGCAATGCG
*
1040622 --A-CAAAATCGCAATGCG
1 AAATGAAAATCGCAATGCG
*
1040638 AAATGAAAAGCGCAA--CG
1 AAATGAAAATCGCAATGCG
* * *
1040655 --A-CAAAATCACAACGCG
1 AAATGAAAATCGCAATGCG
1040671 AAATGAAAATCGCAATGCG
1 AAATGAAAATCGCAATGCG
1040690 A
1 A
1040691 TTTGTGTTTC
Statistics
Matches: 80, Mismatches: 15, Indels: 21
0.69 0.13 0.18
Matches are distributed among these distances:
14 18 0.22
15 2 0.03
16 4 0.05
17 4 0.05
18 2 0.03
19 35 0.44
20 15 0.19
ACGTcount: A:0.46, C:0.22, G:0.21, T:0.12
Consensus pattern (19 bp):
AAATGAAAATCGCAATGCG
Found at i:1040636 original size:33 final size:33
Alignment explanation
Indices: 1040594--1040685 Score: 157
Period size: 33 Copynumber: 2.8 Consensus size: 33
1040584 GGAAATGGCT
1040594 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
1040627 ATCGCAATGCGAAATGAAAAGCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
1040660 ATCACAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
1040686 TGCGATTTGT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.49, C:0.22, G:0.18, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:1040765 original size:20 final size:20
Alignment explanation
Indices: 1040740--1040783 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1040730 TTTCGCATTG
1040740 CGATAGCCATTTCCGCGTTA
1 CGATAGCCATTTCCGCGTTA
* * *
1040760 CGATAGTCATTTTCGCGTTG
1 CGATAGCCATTTCCGCGTTA
1040780 CGAT
1 CGAT
1040784 TTTAAGTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (20 bp):
CGATAGCCATTTCCGCGTTA
Found at i:1042671 original size:14 final size:14
Alignment explanation
Indices: 1042652--1042687 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1042642 ATTGTTTAAT
1042652 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
1042666 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
1042680 TGATTTGT
1 TGATTTGT
1042688 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1042848 original size:19 final size:19
Alignment explanation
Indices: 1042824--1042872 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
1042814 ATCGCAACGA
1042824 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
1042843 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
1042862 GAAAATCGCAA
1 GAAAATCGCAA
1042873 CGAGAATGCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.49, C:0.16, G:0.20, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:1042927 original size:20 final size:20
Alignment explanation
Indices: 1042910--1042997 Score: 106
Period size: 20 Copynumber: 4.4 Consensus size: 20
1042900 CGATTTTCTA
1042910 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
*** *
1042930 GTTGCGATTTTTCA-TTTCGA
1 GTTGCGA-TAGCCATTTTCGC
* *
1042950 ATTGCGATAGCCAGTTTCGC
1 GTTGCGATAGCCATTTTCGC
1042970 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
1042990 GTTGCGAT
1 GTTGCGAT
1042998 TTCCCCGTTG
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
19 3 0.05
20 49 0.89
21 3 0.05
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.38
Consensus pattern (20 bp):
GTTGCGATAGCCATTTTCGC
Found at i:1042935 original size:34 final size:36
Alignment explanation
Indices: 1042890--1042977 Score: 99
Period size: 40 Copynumber: 2.4 Consensus size: 36
1042880 GCGATTTTCA
* * *
1042890 TTTCGCATTGCGATTTTC-T-AGTTGCGATAGCCAT
1 TTTCGCGTTGCGATTTTCTTCAATTGCGATAGCCAG
1042924 TTTCGCGTTGCGATTTTTCATTTCGAATTGCGATAGCCAG
1 TTTCGCGTTGCGA-TTTTC--TTC-AATTGCGATAGCCAG
1042964 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
1042978 AGCCATTTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
34 12 0.27
35 5 0.11
38 1 0.02
39 1 0.02
40 26 0.58
ACGTcount: A:0.16, C:0.20, G:0.23, T:0.41
Consensus pattern (36 bp):
TTTCGCGTTGCGATTTTCTTCAATTGCGATAGCCAG
Found at i:1043236 original size:20 final size:20
Alignment explanation
Indices: 1043220--1043266 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
1043210 ATTGCGATTT
1043220 TCAGAATCTCGTTGCGAAAG
1 TCAGAATCTCGTTGCGAAAG
1043240 TCAGAATCTCGTTGCGAAAG
1 TCAGAATCTCGTTGCGAAAG
1043260 TCA-AATC
1 TCAGAATC
1043267 GCATTGCGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (20 bp):
TCAGAATCTCGTTGCGAAAG
Found at i:1043273 original size:19 final size:20
Alignment explanation
Indices: 1043220--1043275 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
1043210 ATTGCGATTT
* *
1043220 TCAGAATCTCGTTGCGAAAG
1 TCAGAATCGCATTGCGAAAG
* *
1043240 TCAGAATCTCGTTGCGAAAG
1 TCAGAATCGCATTGCGAAAG
1043260 TCA-AATCGCATTGCGA
1 TCAGAATCGCATTGCGA
1043276 TTTTCCAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 11 0.32
20 23 0.68
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.25
Consensus pattern (20 bp):
TCAGAATCGCATTGCGAAAG
Done.