Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 168 of 207
Found at i:51857469 original size:22 final size:24
Alignment explanation
Indices: 51857429--51857473 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
51857419 GTGATGTTAC
51857429 ATAATACATTGATATATGAAATGA
1 ATAATACATTGATATATGAAATGA
51857453 ATAATACA-TG-TATATGAAATG
1 ATAATACATTGATATATGAAATG
51857474 TGATTACTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 11 0.52
23 2 0.10
24 8 0.38
ACGTcount: A:0.49, C:0.04, G:0.13, T:0.33
Consensus pattern (24 bp):
ATAATACATTGATATATGAAATGA
Found at i:51870928 original size:19 final size:19
Alignment explanation
Indices: 51870904--51870954 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
51870894 CATATCTTCT
51870904 AAGATTGCATATCATATCA
1 AAGATTGCATATCATATCA
* *
51870923 AAGATTACATATCATATCT
1 AAGATTGCATATCATATCA
51870942 AAGATTGCATATC
1 AAGATTGCATATC
51870955 CTTGAAGATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (19 bp):
AAGATTGCATATCATATCA
Found at i:51872998 original size:12 final size:11
Alignment explanation
Indices: 51872977--51873006 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
51872967 GGAGATGAGG
*
51872977 GAAAATAAAAA
1 GAAAAAAAAAA
51872988 GAAAAAAAAAA
1 GAAAAAAAAAA
51872999 GAAAAAAA
1 GAAAAAAA
51873007 GAGGTACAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:51875282 original size:42 final size:43
Alignment explanation
Indices: 51875182--51875300 Score: 134
Period size: 42 Copynumber: 2.8 Consensus size: 43
51875172 TTCCAGAAAT
* ** **
51875182 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGTTTGTGGGTA
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCATGTGCCTA
* *
51875225 AAGCGCCGCTAAAGACCATGGCCTTTAGCGGCGCAT-T-CCTA
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCATGTGCCTA
* *
51875266 CAAACGCCGCTAAAGACTATGACCTTTAACGGCGC
1 -AAACGCCGCTAAAGACCATGACCTTTAGCGGCGC
51875301 TTTTTTCACA
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
41 2 0.03
42 31 0.48
43 31 0.48
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCATGTGCCTA
Found at i:51877400 original size:24 final size:23
Alignment explanation
Indices: 51877363--51877418 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
51877353 AAAATAGTAC
51877363 AAAT-TAAAACTAAAAAAAATATT
1 AAATATAAAACTAAAAAAAAT-TT
51877386 AACATATAAAA-TAAAAAAAATTT
1 AA-ATATAAAACTAAAAAAAATTT
*
51877409 AAATAAAAAA
1 AAATATAAAA
51877419 GTTTTTCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 7 0.23
23 6 0.20
24 12 0.40
25 5 0.17
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (23 bp):
AAATATAAAACTAAAAAAAATTT
Found at i:51877407 original size:40 final size:39
Alignment explanation
Indices: 51877343--51877418 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 39
51877333 ATTATGTATA
** *
51877343 ATTAACATATAAAATAGTACAAATTAAAACTAAAAAAAAT
1 ATTAACATATAAAATAAAAAAAATTAAAA-TAAAAAAAAT
*
51877383 ATTAACATATAAAATAAAAAAAATTTAAATAAAAAA
1 ATTAACATATAAAATAAAAAAAATTAAAATAAAAAA
51877419 GTTTTTCTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
39 7 0.22
40 25 0.78
ACGTcount: A:0.68, C:0.05, G:0.01, T:0.25
Consensus pattern (39 bp):
ATTAACATATAAAATAAAAAAAATTAAAATAAAAAAAAT
Found at i:51879580 original size:87 final size:87
Alignment explanation
Indices: 51879421--51879580 Score: 259
Period size: 87 Copynumber: 1.8 Consensus size: 87
51879411 AAAATTTTTT
* * *
51879421 ATTTTGAACAAAATGACGCCATTTTGCTATTCATAAATTTTTATTTTGTTTTTTTATAAATTGAT
1 ATTTTGAACAAAATGACGCCATTTTGCTATACAAAAATTTTTATTTTATTTTTTTATAAATTGAT
51879486 TTATTTTTTGCGCCGCTATTTC
66 TTATTTTTTGCGCCGCTATTTC
*
51879508 ATTTTGAACAAAATGACGCCGTTTTGCTATACTAAAAATTTTTTATTTTATTTTTTTATAAATTG
1 ATTTTGAACAAAATGACGCCATTTTGCTATAC-AAAAA-TTTTTATTTTATTTTTTTATAAATTG
51879573 ATTT-TTTT
64 ATTTATTTT
51879581 GCGGCATTTT
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
87 30 0.45
88 8 0.12
89 29 0.43
ACGTcount: A:0.28, C:0.11, G:0.09, T:0.53
Consensus pattern (87 bp):
ATTTTGAACAAAATGACGCCATTTTGCTATACAAAAATTTTTATTTTATTTTTTTATAAATTGAT
TTATTTTTTGCGCCGCTATTTC
Found at i:51879847 original size:103 final size:104
Alignment explanation
Indices: 51879655--51879865 Score: 266
Period size: 103 Copynumber: 2.0 Consensus size: 104
51879645 CAAATTTTTT
**
51879655 TTTCATTTTGAACAAAATGACGCCGTTTTGCTATTATAAAAAATTTTTATTTTGTTTTTTATAAA
1 TTTCATTTTGAACAAAATGACGCCGTTTTGCTAGGAT--AAAATTTTTATTTTGTTTTTTATAAA
*
51879720 TTGATTTATTTTTTGCGCCATTTTT-TATAAAAACGCCGCTA
64 TTGATTTATTTTTTGCGCCATTTTTATAAAAAAACGCC-CTA
* * * * *
51879761 TTTCATTTTGAACAAAATGACGCTGTTTTGCTCGGCT-AAATTTTT-TTTTATTTTTTTATATAT
1 TTTCATTTTGAACAAAATGACGCCGTTTTGCTAGGATAAAATTTTTATTTT-GTTTTTTATAAAT
***
51879824 TGATTTATTTTTTGCGGTGTTTTTATAAAAAAACGCCCTA
65 TGATTTATTTTTTGCGCCATTTTTATAAAAAAACGCCCTA
51879864 TT
1 TT
51879866 GCTTGCCTTT
Statistics
Matches: 92, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
102 4 0.04
103 45 0.49
104 11 0.12
106 32 0.35
ACGTcount: A:0.27, C:0.12, G:0.11, T:0.50
Consensus pattern (104 bp):
TTTCATTTTGAACAAAATGACGCCGTTTTGCTAGGATAAAATTTTTATTTTGTTTTTTATAAATT
GATTTATTTTTTGCGCCATTTTTATAAAAAAACGCCCTA
Found at i:51879960 original size:256 final size:256
Alignment explanation
Indices: 51879496--51879982 Score: 705
Period size: 256 Copynumber: 1.9 Consensus size: 256
51879486 TTATTTTTTG
*
51879496 CGCCGCTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATACTAAAAATTTTTTATTTTATTT
1 CGCCGCTATTTCATTTTGAACAAAATGACGCCGTTTTGCTAGACT-AAAATTTTTTATTTTATTT
* *
51879561 TTTTATAAATTGATTTTTTTGCGGCATTTTTATGAAAAACGCCGCTATTGCTTACCTTTAGCGGC
65 TTTTATAAATTGATTTTTTTGCGGCATTTTTATAAAAAACGCCGCTATTGCTTACCTTTAACGGC
* * *** *
51879626 GTTTTTCATAAAAACGCTGCAAATTTTTTTTTCATTTTGAACAAAATGACGCCGTTTTGCTATTA
130 GTTTGTCATAAAAACGCCGCAAAAAATTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATTA
*
51879691 TAAAAAATTTTTATTTTGTTTTTTATAAATTGATTTATTTTTTGCGCCATTTTTTATAAAAA
195 TAAAAAATTTTTATTTTATTTTTTATAAATTGATTTATTTTTTGCGCCATTTTTTATAAAAA
* * *
51879753 CGCCGCTATTTCATTTTGAACAAAATGACGCTGTTTTGCTCGGCT-AAA-TTTTT-TTTTATTTT
1 CGCCGCTATTTCATTTTGAACAAAATGACGCCGTTTTGCTAGACTAAAATTTTTTATTTTATTTT
* ** *
51879815 TTTATATATTGATTTATTTTTTGCGGTGTTTTTATAAAAAAACGCC-CTATTGCTTGCCTTTAAC
66 TTTATAAATTGA--T-TTTTTTGCGGCATTTTTAT-AAAAAACGCCGCTATTGCTTACCTTTAAC
*
51879879 GGCGTTTGTCATAAAAACGCCGCAAAAAATTATTTCATTTTGAACAAAATGACGTCGTTTTGCT-
127 GGCGTTTGTCATAAAAACGCCGCAAAAAATTATTTCATTTTGAACAAAATGACGCCGTTTTGCTA
* *
51879943 TTGCTAAAAATTTTTTATTTTATTTTTTATAAATTGATTT
192 TT-ATAAAAAATTTTTATTTTATTTTTTATAAATTGATTT
51879983 TTTATAAAAT
Statistics
Matches: 205, Mismatches: 20, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
253 20 0.10
254 5 0.02
255 6 0.03
256 124 0.60
257 50 0.24
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.46
Consensus pattern (256 bp):
CGCCGCTATTTCATTTTGAACAAAATGACGCCGTTTTGCTAGACTAAAATTTTTTATTTTATTTT
TTTATAAATTGATTTTTTTGCGGCATTTTTATAAAAAACGCCGCTATTGCTTACCTTTAACGGCG
TTTGTCATAAAAACGCCGCAAAAAATTATTTCATTTTGAACAAAATGACGCCGTTTTGCTATTAT
AAAAAATTTTTATTTTATTTTTTATAAATTGATTTATTTTTTGCGCCATTTTTTATAAAAA
Found at i:51880571 original size:7 final size:7
Alignment explanation
Indices: 51880551--51880613 Score: 54
Period size: 7 Copynumber: 8.9 Consensus size: 7
51880541 AACCTTAAAT
51880551 CCCTAAC
1 CCCTAAC
* *
51880558 TCTTAAC
1 CCCTAAC
51880565 CCCTAAC
1 CCCTAAC
**
51880572 ATCTAAC
1 CCCTAAC
**
51880579 ATCTAAC
1 CCCTAAC
51880586 CCCTAAC
1 CCCTAAC
*
51880593 CCCGAAAC
1 CCC-TAAC
51880601 CCCTAAC
1 CCCTAAC
51880608 CCCTAA
1 CCCTAA
51880614 ACCTTAAATC
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
7 39 0.87
8 6 0.13
ACGTcount: A:0.33, C:0.46, G:0.02, T:0.19
Consensus pattern (7 bp):
CCCTAAC
Found at i:51880577 original size:21 final size:21
Alignment explanation
Indices: 51880553--51880592 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
51880543 CCTTAAATCC
51880553 CTAAC-TCTTAACCCCTAACAT
1 CTAACATC-TAACCCCTAACAT
51880574 CTAACATCTAACCCCTAAC
1 CTAACATCTAACCCCTAAC
51880593 CCCGAAACCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.35, C:0.40, G:0.00, T:0.25
Consensus pattern (21 bp):
CTAACATCTAACCCCTAACAT
Found at i:51880603 original size:15 final size:15
Alignment explanation
Indices: 51880583--51880616 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
51880573 TCTAACATCT
51880583 AACCCCTAACCCCGA
1 AACCCCTAACCCCGA
*
51880598 AACCCCTAACCCCTA
1 AACCCCTAACCCCGA
51880613 AACC
1 AACC
51880617 TTAAATCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.53, G:0.03, T:0.09
Consensus pattern (15 bp):
AACCCCTAACCCCGA
Found at i:51880654 original size:14 final size:14
Alignment explanation
Indices: 51880636--51880677 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
51880626 AACCCTTAAA
51880636 CCATAATCCCTAAT
1 CCATAATCCCTAAT
*
51880650 TCATAATCCCTAAAT
1 CCATAATCCCT-AAT
*
51880665 CCATACTCCCTAA
1 CCATAATCCCTAA
51880678 ACCTTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.29
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:51880674 original size:15 final size:15
Alignment explanation
Indices: 51880632--51880678 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
51880622 TCTCAACCCT
51880632 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
*
51880646 T-AATTCATAATCCC
1 TAAATCCATAATCCC
*
51880660 TAAATCCATACTCCC
1 TAAATCCATAATCCC
51880675 TAAA
1 TAAA
51880679 CCTTAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 2 0.07
14 11 0.39
15 15 0.54
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:51881379 original size:73 final size:73
Alignment explanation
Indices: 51881226--51881380 Score: 217
Period size: 73 Copynumber: 2.1 Consensus size: 73
51881216 AGCATTTTTG
* *
51881226 GCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGAATTTTTTGCGGCGCTTTC
1 GCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTGGGCTTAGAATTTTTTGCGGCGCTTTC
51881291 CTAAAAAC
66 CTAAAAAC
* *
51881299 GCTGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTGGGCTTAG-GTTTTCTTGCGGCG-TTT
1 GCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTGGGCTTAGAATTTT-TTGCGGCGCTTT
*
51881362 -TTGAAAAAGC
65 CCT-AAAAA-C
51881372 GCCGCTAAA
1 GCCGCTAAA
51881381 GCCCTGAGCA
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
71 1 0.01
72 12 0.16
73 60 0.82
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (73 bp):
GCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTGGGCTTAGAATTTTTTGCGGCGCTTTC
CTAAAAAC
Found at i:51881614 original size:113 final size:113
Alignment explanation
Indices: 51881280--51881720 Score: 652
Period size: 114 Copynumber: 3.9 Consensus size: 113
51881270 AGAATTTTTT
* * *
51881280 GCGGCGCTTTCCTAAAAACGCTGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAG
* *
51881345 GTTTTCTTGCGGCG-TTTTTGAAAAAGCGCCGCTAAAGCCCTGAGCATTA
66 GTTTT-TTGCGGCGCTTTCTCAAAAA-CGCCGCTAAAGCCCTGAGCATTA
* * * *
51881394 GCGGTGCTTTCTTAAAAAAGCCGCTAAATCCCTGAAAGCTCACAAAACGGCGTCATTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAG
*
51881459 GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGGCCTGAGCATTA
66 G-TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* *
51881508 GCAGCGCTTTCTTAAAAACGCCGCTAAA-CCCTCGAAAGCTCACAAAACGTCGTCGTTGGGCTTA
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCC-CGAAAGCTCACAAAACGGCGTCGTTGGGCTTA
* *
51881572 TGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCGTTA
65 GGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * *
51881621 GCGGCGCTTTATTAAAAACGCCGCTAAATCCCCGAAAGCTTACAAAACGGCGTTGTTGGGCTTAT
1 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAG
* *
51881686 GTTTTTTGCGGCGCTTTCTCAGAAATGCCGCTAAA
66 GTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAA
51881721 TCCCCGAAAG
Statistics
Matches: 297, Mismatches: 26, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
113 137 0.46
114 147 0.49
115 13 0.04
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (113 bp):
GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAG
GTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:51881682 original size:227 final size:227
Alignment explanation
Indices: 51881283--51881720 Score: 666
Period size: 227 Copynumber: 1.9 Consensus size: 227
51881273 ATTTTTTGCG
*
51881283 GCGCTTTCCTAAAAACGCTGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTT
1 GCGCTTTCCTAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTT
* * * *
51881348 TTCTTGCGGCGTTTTTGAAAAAGCGCCGCTAAAGCCCTGAGCATTAGCGGTGCTTTCTTAAAAAA
66 TTCTTGCGGCGTTTCTCAAAAAGCGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTATTAAAAAA
*
51881413 GCCGCTAAATCCCTGAAAGCTCACAAAACGGCGTCATTGGGCTTAGGTTTTTTTGCGGCGCTTTC
131 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCATTGGGCTTAGG-TTTTTTGCGGCGCTTTC
51881478 TCAAAAACGCCGCTAAAGGCCTGAGCATTAGCA
195 TCAAAAACGCCGCTAAAGGCCTGAGCATTAGCA
* * * *
51881511 GCGCTTTCTTAAAAACGCCGCTAAA-CCCTCGAAAGCTCACAAAACGTCGTCGTTGGGCTTATGT
1 GCGCTTTCCTAAAAACGCCGCTAAATCCC-CAAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGT
*
51881575 TTT-TTGCGGCGCTTTCTCAAAAA-CGCCGCTAAAGCCCTGAGCGTTAGCGGCGCTTTATTAAAA
65 TTTCTTGCGGCG-TTTCTCAAAAAGCGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTATTAAAA
* * ** *
51881638 ACGCCGCTAAATCCCCGAAAGCTTACAAAACGGCGTTGTTGGGCTTATGTTTTTTGCGGCGCTTT
129 AAGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCATTGGGCTTAGGTTTTTTGCGGCGCTTT
* *
51881703 CTCAGAAATGCCGCTAAA
194 CTCAAAAACGCCGCTAAA
51881721 TCCCCGAAAG
Statistics
Matches: 190, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
226 32 0.17
227 91 0.48
228 67 0.35
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (227 bp):
GCGCTTTCCTAAAAACGCCGCTAAATCCCCAAAAGCTCACAAAACGGCGTCGTTGGGCTTAGGTT
TTCTTGCGGCGTTTCTCAAAAAGCGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTATTAAAAAA
GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCATTGGGCTTAGGTTTTTTGCGGCGCTTTCT
CAAAAACGCCGCTAAAGGCCTGAGCATTAGCA
Found at i:51881716 original size:72 final size:72
Alignment explanation
Indices: 51881621--51881764 Score: 198
Period size: 72 Copynumber: 2.0 Consensus size: 72
51881611 CTGAGCGTTA
* * * *
51881621 GCGGCGCTTTATTAAAAACGCCGCTAAATCCCCGAAAGCTTACAAAACGGCGTTGTTGGGCTTAT
1 GCGGCGCTTTATCAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAG
51881686 GTTTTTT
66 GTTTTTT
* * * ***
51881693 GCGGCGCTTTCTCAGAAATGCCGCTAAATCCCCGAAAGCTCGGGAAACGGCGTCGTTGGGCTTAG
1 GCGGCGCTTTATCAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAG
51881758 GTTTTTT
66 GTTTTTT
51881765 TGCAAAAACG
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (72 bp):
GCGGCGCTTTATCAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAG
GTTTTTT
Found at i:51916101 original size:25 final size:26
Alignment explanation
Indices: 51916069--51916123 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
51916059 TTATTAAATT
*
51916069 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
51916094 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
51916119 A-ATAT
1 ATATAT
51916124 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:51916310 original size:44 final size:45
Alignment explanation
Indices: 51916261--51916355 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
51916251 TTACACCTCT
* *
51916261 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
51916305 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
51916350 ATTACA
1 ATTACA
51916356 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:51916355 original size:16 final size:16
Alignment explanation
Indices: 51916336--51916387 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
51916326 GATTTGCTAT
* *
51916336 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
51916352 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
51916368 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
51916384 TACA
1 TACA
51916388 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:51921420 original size:12 final size:12
Alignment explanation
Indices: 51921403--51921436 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
51921393 TTTGTATCTT
51921403 TAACTCATCAGG
1 TAACTCATCAGG
51921415 TAACTCATCAGG
1 TAACTCATCAGG
* *
51921427 AAACACATCA
1 TAACTCATCA
51921437 AAAAAGTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.41, C:0.26, G:0.12, T:0.21
Consensus pattern (12 bp):
TAACTCATCAGG
Found at i:51923887 original size:18 final size:18
Alignment explanation
Indices: 51923860--51923901 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
51923850 CGCTATAATA
*
51923860 GGGTTTGCATAAACACAT
1 GGGTTCGCATAAACACAT
* *
51923878 GGGTTCGCATAAATATAT
1 GGGTTCGCATAAACACAT
51923896 GGGTTC
1 GGGTTC
51923902 ACACAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (18 bp):
GGGTTCGCATAAACACAT
Found at i:51924677 original size:49 final size:49
Alignment explanation
Indices: 51924603--51924765 Score: 211
Period size: 49 Copynumber: 3.3 Consensus size: 49
51924593 AACATGCTTA
* * * * *
51924603 CACACTTGTCCTATCAGAATGGTTGAGAAACATAAGATATGTTCTCGCC
1 CACACTTATCTTATCAAAATGGTTGAGGAACATAAAATATGTTCTCGCC
* *
51924652 CACACTTATCTTATCAAAATAGTTGAGGAACATAAAACT-TGTTCTCGCT
1 CACACTTATCTTATCAAAATGGTTGAGGAACATAAAA-TATGTTCTCGCC
* * * *
51924701 CACACTTATCTTATCACAATGGCTGAGGAACATAAAACATGTTCTCACC
1 CACACTTATCTTATCAAAATGGTTGAGGAACATAAAATATGTTCTCGCC
51924750 CACACTTATCTTATCA
1 CACACTTATCTTATCA
51924766 GAATCTGTTG
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
49 98 0.99
50 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (49 bp):
CACACTTATCTTATCAAAATGGTTGAGGAACATAAAATATGTTCTCGCC
Found at i:51926199 original size:133 final size:134
Alignment explanation
Indices: 51925947--51926576 Score: 687
Period size: 134 Copynumber: 4.7 Consensus size: 134
51925937 TCGACTTGAT
*
51925947 GATCATGAACAATTCATTAAGAGTTCATAGATTTACGATCGCAACTCCATTTAAATAGTTC-TCT
1 GATCATGAACAATTCATTAAGAGTTCATCGATTTACGATCGCAACTCCATTTAAATAGTTCAT-T
* * * * * * * *
51926011 AATTTATGACCACAACTGTCATTTTTCAAGCTCGTTGATTTACGACCACAACTTCAGTTCATTTA
65 GATTTATGATCACAACTATCATTTTTAAAGCTCGTTGATTTACGATCACAGCTTCAGTTGATTGA
51926076 TTTAC
130 TTTAC
* ** * *
51926081 GATCATGAACAATTCATTAAGATTTCATCGATTTAAAATCGTAACT-CATTTAAATAATTCATTG
1 GATCATGAACAATTCATTAAGAGTTCATCGATTTACGATCGCAACTCCATTTAAATAGTTCATTG
* * * *
51926145 ATTTACGATCACAATTGTCA-TTTTAAAGGCTCGTTGATTTATGATCACAGCTTCAGTTGATTGA
66 ATTTATGATCACAACTATCATTTTTAAA-GCTCGTTGATTTACGATCACAGCTTCAGTTGATTGA
*
51926209 GTTAC
130 TTTAC
* * * * * * * *
51926214 AATCATGAACAATTCATTAAGACTTCGTCGACTTAC-ATTGCAACTCGATTTAAATAGTACACTG
1 GATCATGAACAATTCATTAAGAGTTCATCGATTTACGATCGCAACTCCATTTAAATAGTTCATTG
* * * *
51926278 ATTTATGATTACAACTATCATTTTTAAAGCTTGTTGATTTACAATCAAAGCTTCAGTTGATTGAT
66 ATTTATGATCACAACTATCATTTTTAAAGCTCGTTGATTTACGATCACAGCTTCAGTTGATTGAT
*
51926343 TTAT
131 TTAC
* * * *
51926347 GATCATGAACAATTCATTAAGAGTTCACCGACTTACGATCGCAACTCCATTTAAACAGTTCACTG
1 GATCATGAACAATTCATTAAGAGTTCATCGATTTACGATCGCAACTCCATTTAAATAGTTCATTG
** * * ** ** * * * * *
51926412 ATTTATGATCACAGGTATCCTTTTCAAATATCACTAATTAATGAGCACA-ATCTCAGTTGATTGA
66 ATTTATGATCACAACTATCATTTTTAAAGCTCGTTGATTTACGATCACAGCT-TCAGTTGATTGA
51926476 TTTAC
130 TTTAC
* * * * *
51926481 GATCAAGAACAATTCATTAAGAGTTCACCGATTTACGATCGTAA-TACCATTTCAATAGTTCGTT
1 GATCATGAACAATTCATTAAGAGTTCATCGATTTACGATCGCAACT-CCATTTAAATAGTTCATT
*
51926545 GATTTATGATCACAACTATAATTTTTAAAGCT
65 GATTTATGATCACAACTATCATTTTTAAAGCT
51926577 TGCCAATTTA
Statistics
Matches: 411, Mismatches: 78, Indels: 14
0.82 0.16 0.03
Matches are distributed among these distances:
132 13 0.03
133 196 0.48
134 202 0.49
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.36
Consensus pattern (134 bp):
GATCATGAACAATTCATTAAGAGTTCATCGATTTACGATCGCAACTCCATTTAAATAGTTCATTG
ATTTATGATCACAACTATCATTTTTAAAGCTCGTTGATTTACGATCACAGCTTCAGTTGATTGAT
TTAC
Found at i:51926797 original size:134 final size:134
Alignment explanation
Indices: 51926659--51926946 Score: 339
Period size: 134 Copynumber: 2.1 Consensus size: 134
51926649 GCTTATTTGG
* * *
51926659 AATCACAACTTGAGTTCATTGATTTACGATCATGA-ACAATTCATTAAGTA-TT-TTCTGATTTA
1 AATCACAACTTCAGTTCATTGATTTACGATCATGAGA-AATTCATTAAG-AGTTCGTC-AATTTA
** * * *
51926721 TGATCACAACTCCATTTAAATAGTTTGTTGATTTACGACCACAACTTTAAGTTTAAAAGCTCATT
63 AAATCACAACTCCATTTAAATAGTTAGTTGATTTACGACCACAACTTTAACTTTAAAAGCTCAGT
*
51926786 GATTTAC
128 AATTTAC
* * * * *
51926793 AATCATAGCTTTAGTTCATTGATTTACGATCATGAGAAATTTATTCAGAGTTCGTCAATTTAAAA
1 AATCACAACTTCAGTTCATTGATTTACGATCATGAGAAATTCATTAAGAGTTCGTCAATTTAAAA
* * * * *
51926858 TCGCAACTCCATTTAAATAGTTAGTTGATTTACGATCACAACTTTCACTTTTAAAGTTCAGTAAT
66 TCACAACTCCATTTAAATAGTTAGTTGATTTACGACCACAACTTTAACTTTAAAAGCTCAGTAAT
51926923 TTAC
131 TTAC
* *
51926927 GATTACAACTTCAGTTCATT
1 AATCACAACTTCAGTTCATT
51926947 AAGAGTTTGT
Statistics
Matches: 128, Mismatches: 23, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
133 1 0.01
134 124 0.97
135 3 0.02
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.39
Consensus pattern (134 bp):
AATCACAACTTCAGTTCATTGATTTACGATCATGAGAAATTCATTAAGAGTTCGTCAATTTAAAA
TCACAACTCCATTTAAATAGTTAGTTGATTTACGACCACAACTTTAACTTTAAAAGCTCAGTAAT
TTAC
Found at i:51926985 original size:243 final size:243
Alignment explanation
Indices: 51926698--51927152 Score: 578
Period size: 243 Copynumber: 1.9 Consensus size: 243
51926688 TCATGAACAA
* ****
51926698 TTCATTAAGTATTTTCTGATTTATGATCACAACTCCATTTAAATAGTTTGTTGATTTACGACCAC
1 TTCATTAAGTATTTTCTGATTTACGATCACAACTCCATTTAAATAGTACACTGATTTACGACCAC
* * * * *
51926763 AACTT-TAAGTTTAAAAGCTCATTGATTTACAATCATAGCTTTAGTTCATTGATTTACGATCATG
66 -ACTTGTAAGTTTAAAAGCTCAGTGATTTACAATCACAACTTCAGATCATTGATTTACGATCATG
* * *
51926827 AGA-AATTTATTCAGAGTTCGTCAATTTAAAATCGCAACTCCATTTAAATAGTTAGTTGATTTAC
130 A-ACAATTCATTAAGAGTTCGTCAATTTAAAATCGCAACTCCATTTAAAAAGTTAGTTGATTTAC
* *
51926891 GATCACAACTTTCACTTTTAAAGTTCAGTAATTTACGATTACAACTTCAG
194 CATCACAACTGTCACTTTTAAAGTTCAGTAATTTACGATTACAACTTCAG
*
51926941 TTCATTAAG-AGTTTGT-TGATTTACGATC-CTAACTCCATTTAAATAGTACACTGATTTACGAT
1 TTCATTAAGTA-TTT-TCTGATTTACGATCAC-AACTCCATTTAAATAGTACACTGATTTACGAC
* * * * * * *
51927003 CACAGTTGTCATTTTTAAAGCTCGGTGATTTACAATCACAACTTCAGATCATTGATTTACTATTA
63 CACACTTGTAAGTTTAAAAGCTCAGTGATTTACAATCACAACTTCAGATCATTGATTTACGATCA
* * * *
51927068 TGAACAATTCATTAAGAGTTTGTCGATTTATAATCGCAACTCCATTTAAAAAGTTTGTTGATTTA
128 TGAACAATTCATTAAGAGTTCGTCAATTTAAAATCGCAACTCCATTTAAAAAGTTAGTTGATTTA
*
51927133 CCATCACCACTGTCACTTTT
193 CCATCACAACTGTCACTTTT
51927153 CTTGCAAACT
Statistics
Matches: 179, Mismatches: 28, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
242 6 0.03
243 172 0.96
244 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (243 bp):
TTCATTAAGTATTTTCTGATTTACGATCACAACTCCATTTAAATAGTACACTGATTTACGACCAC
ACTTGTAAGTTTAAAAGCTCAGTGATTTACAATCACAACTTCAGATCATTGATTTACGATCATGA
ACAATTCATTAAGAGTTCGTCAATTTAAAATCGCAACTCCATTTAAAAAGTTAGTTGATTTACCA
TCACAACTGTCACTTTTAAAGTTCAGTAATTTACGATTACAACTTCAG
Found at i:51927187 original size:54 final size:54
Alignment explanation
Indices: 51927105--51927208 Score: 199
Period size: 54 Copynumber: 1.9 Consensus size: 54
51927095 TTATAATCGC
51927105 AACTCCATTTAAAAAGTTTGTTGATTTACCATCACCACTGTCACTTTTCTTGCA
1 AACTCCATTTAAAAAGTTTGTTGATTTACCATCACCACTGTCACTTTTCTTGCA
*
51927159 AACTCCATTTAAACAGTTTGTTGATTTACCATCACCACTGTCACTTTTCT
1 AACTCCATTTAAAAAGTTTGTTGATTTACCATCACCACTGTCACTTTTCT
51927209 AGCTCATTAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.27, C:0.25, G:0.09, T:0.39
Consensus pattern (54 bp):
AACTCCATTTAAAAAGTTTGTTGATTTACCATCACCACTGTCACTTTTCTTGCA
Found at i:51929075 original size:71 final size:71
Alignment explanation
Indices: 51928959--51929155 Score: 204
Period size: 71 Copynumber: 2.8 Consensus size: 71
51928949 ATAACGATCT
* * *** * * *
51928959 GTGATGGCTAAGATCCAACATAAGTTGGGGATTCTTGACAGCTTGAGTGAGCAGCATCGGATCGT
1 GTGATGGATGAGATCCAACACGTGTTGTGGATTCTTGACAGCTTGAGTGAGCAACATCGCAT--T
51929024 -TA-TTTA
64 ATACTTTA
51929030 GTGATGGATGAGATCCAACACGTGTTGTGGATTCTTGACAGCTTGAGTGAGCAACATCGCATTAT
1 GTGATGGATGAGATCCAACACGTGTTGTGGATTCTTGACAGCTTGAGTGAGCAACATCGCATTAT
51929095 ACTTTA
66 ACTTTA
* * * * * *
51929101 -TCGATGGTTGAGATCTAGCACGTGTTACT-GATTCTCGACATCTTGAGTGAGCAAC
1 GT-GATGGATGAGATCCAACACGTGTT-GTGGATTCTTGACAGCTTGAGTGAGCAAC
51929156 GTCAAATAAA
Statistics
Matches: 108, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
69 1 0.01
70 3 0.03
71 103 0.95
72 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (71 bp):
GTGATGGATGAGATCCAACACGTGTTGTGGATTCTTGACAGCTTGAGTGAGCAACATCGCATTAT
ACTTTA
Found at i:51932747 original size:15 final size:15
Alignment explanation
Indices: 51932727--51932756 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
51932717 AACTAAGAAT
51932727 GAATCAAAAACCTAA
1 GAATCAAAAACCTAA
*
51932742 GAATCAAAACCCTAA
1 GAATCAAAAACCTAA
51932757 AATTGTGTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.23, G:0.07, T:0.13
Consensus pattern (15 bp):
GAATCAAAAACCTAA
Found at i:51950666 original size:34 final size:36
Alignment explanation
Indices: 51950616--51950700 Score: 95
Period size: 36 Copynumber: 2.4 Consensus size: 36
51950606 AGAATTTGTC
* *
51950616 GATTTACGACCGCAACTCT-A-TTTAAACAGTT-CAT
1 GATTTACGATCACAACTCTCATTTTAAA-AGTTCCAT
* * *
51950650 GATTTACGATCACAACTGTCATTTTTAAAGTTCCCT
1 GATTTACGATCACAACTCTCATTTTAAAAGTTCCAT
51950686 GATTTACGATCACAA
1 GATTTACGATCACAA
51950701 TTTCAATTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
34 16 0.37
35 5 0.12
36 22 0.51
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (36 bp):
GATTTACGATCACAACTCTCATTTTAAAAGTTCCAT
Found at i:51950977 original size:133 final size:133
Alignment explanation
Indices: 51950575--51951119 Score: 558
Period size: 133 Copynumber: 4.1 Consensus size: 133
51950565 GGGTGTTTCA
* * ** * * *
51950575 TCATTGATTTAAGGTCATAAACAATTCATTAAGAATTTGTCGATTTACGACCGCAACTCTATTTA
1 TCATTGATTTACGATCATAAACAATTCATTAAGAATTCATCGATTTACTATCGCAACTCCATTTA
** * *
51950640 AACAGTTCATGATTTACGATCACAACTGTCATTTTTAAAGTTCCCTGATTTACGATCACAATTTC
66 AACAGTTCATGATTTACGATCACAACTGTCATTTTTAAAACTCACTGATTTACGATCACAGTTTC
*
51950705 AAT
131 AGT
* * * * **
51950708 TCATTTATTTACGATCATAAACAATTCATTAA-AAGTTTACCGACTT-CTTATTACAACTCCATT
1 TCATTGATTTACGATCATAAACAATTCATTAAGAA-TTCATCGATTTAC-TATCGCAACTCCATT
* * * * *
51950771 TAAACAGTTCACTGATTTATGATCACAACTGTCACTTTTAAAACTCGCTAATTTACGATCACAGC
64 TAAACAGTTCA-TGATTTACGATCACAACTGTCATTTTTAAAACTCACTGATTTACGATCACAGT
*
51950836 TTGAGT
128 TTCAGT
* *
51950842 TCATTGATTTACGATCATGAACAATTCATTAAGAATTCGTCGATTTACTATCGCAACTCCA-TTA
1 TCATTGATTTACGATCATAAACAATTCATTAAGAATTCATCGATTTACTATCGCAACTCCATTTA
* * * * * * *
51950906 AGCAGTTCATTGATATA-GAATCATAATTGTCATTTTTAAAACTCATTGGTTTACGACCACAGTT
66 AACAGTTCA-TGATTTACG-ATCACAACTGTCATTTTTAAAACTCACTGATTTACGATCACAGTT
51950970 TCAGT
129 TCAGT
* * * * *
51950975 TCATTGATTTACGATCATGAGCAATTCATTAAGAGTTCATCGATTTACAATCGAAACTCCATTTA
1 TCATTGATTTACGATCATAAACAATTCATTAAGAATTCATCGATTTACTATCGCAACTCCATTTA
* * * * * * ** * * **
51951040 AACAATTCGTTGATTTACAATCACAACAGTCACTTTTAAAGCTTGCTTATTTACTATCACAACTT
66 AACAGTTC-ATGATTTACGATCACAACTGTCATTTTTAAAACTCACTGATTTACGATCACAGTTT
51951105 CAGT
130 CAGT
51951109 TCATTGATTTA
1 TCATTGATTTA
51951120 TGATTGCATC
Statistics
Matches: 337, Mismatches: 66, Indels: 17
0.80 0.16 0.04
Matches are distributed among these distances:
132 4 0.01
133 171 0.51
134 159 0.47
135 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (133 bp):
TCATTGATTTACGATCATAAACAATTCATTAAGAATTCATCGATTTACTATCGCAACTCCATTTA
AACAGTTCATGATTTACGATCACAACTGTCATTTTTAAAACTCACTGATTTACGATCACAGTTTC
AGT
Found at i:51951056 original size:267 final size:267
Alignment explanation
Indices: 51950575--51951119 Score: 666
Period size: 267 Copynumber: 2.0 Consensus size: 267
51950565 GGGTGTTTCA
* * *
51950575 TCATTGATTTAAGGTCATAAACAATTCATTAAGAATTTGTCGATTTACGACCGCAACTCTATTTA
1 TCATTGATTTAAGATCATAAACAATTCATTAAGAATTCGTCGATTTACGACCGCAACTCCATTTA
* ** * *
51950640 AACAGTTCATGATTTACGATCACAACTGTCATTTTTAAAGTTCCCTGATTTACGATCACAATTTC
66 AACAGTTCATGATATACGATCACAACTGTCATTTTTAAAACTCACTGATTTACGACCACAATTTC
* * * *
51950705 AATTCATTTATTTACGATCATAAACAATTCATTAAAAGTTTACCGACTTCTTATTACAACTCCAT
131 AATTCATTGATTTACGATCATAAACAATTCATTAAAAGTTCACCGACTTCTAATGACAACTCCAT
* ** * *
51950770 TTAAACAGTTCACTGATTTATGATCACAACTGTCACTTTTAAAACTCGCTAATTTACGATCACAG
196 TTAAACAATTCACTGATTTACAATCACAACAGTCACTTTTAAAACTCGCTAATTTACGATCACAA
*
51950835 CTTGAGT
261 CTTCAGT
* * * *
51950842 TCATTGATTTACGATCATGAACAATTCATTAAGAATTCGTCGATTTACTATCGCAACTCCA-TTA
1 TCATTGATTTAAGATCATAAACAATTCATTAAGAATTCGTCGATTTACGACCGCAACTCCATTTA
* * * * * *
51950906 AGCAGTTCATTGATATA-GAATCATAATTGTCATTTTTAAAACTCATTGGTTTACGACCACAGTT
66 AACAGTTCA-TGATATACG-ATCACAACTGTCATTTTTAAAACTCACTGATTTACGACCACAATT
* * * * * *
51950970 TCAGTTCATTGATTTACGATCATGAGCAATTCATTAAGAGTTCATCGATTTAC-AATCGA-AACT
129 TCAATTCATTGATTTACGATCATAAACAATTCATTAAAAGTTCACCGACTT-CTAAT-GACAACT
** * * * *
51951033 CCATTTAAACAATTCGTTGATTTACAATCACAACAGTCACTTTTAAAGCTTGCTTATTTACTATC
192 CCATTTAAACAATTCACTGATTTACAATCACAACAGTCACTTTTAAAACTCGCTAATTTACGATC
51951098 ACAACTTCAGT
257 ACAACTTCAGT
51951109 TCATTGATTTA
1 TCATTGATTTA
51951120 TGATTGCATC
Statistics
Matches: 234, Mismatches: 40, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
266 12 0.05
267 220 0.94
268 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (267 bp):
TCATTGATTTAAGATCATAAACAATTCATTAAGAATTCGTCGATTTACGACCGCAACTCCATTTA
AACAGTTCATGATATACGATCACAACTGTCATTTTTAAAACTCACTGATTTACGACCACAATTTC
AATTCATTGATTTACGATCATAAACAATTCATTAAAAGTTCACCGACTTCTAATGACAACTCCAT
TTAAACAATTCACTGATTTACAATCACAACAGTCACTTTTAAAACTCGCTAATTTACGATCACAA
CTTCAGT
Found at i:51951133 original size:98 final size:98
Alignment explanation
Indices: 51951031--51951217 Score: 223
Period size: 98 Copynumber: 1.9 Consensus size: 98
51951021 ACAATCGAAA
* * * * * *
51951031 CTCCATTTAAACAATTCGTTGATTTACAATCACAACAGTCACTTTTAAAGCTTGCTTATTTACTA
1 CTCCATTTAAACAATTCGCTAATTTACAATCACAACAGTCACTTTTAAAGCTCGCTGATGTACGA
51951096 TCACAACTTCAGTTCA-TTGATTTATGATTGCAT
66 TCACAACTTCAGTT-ATTTGATTTATGATTGCAT
* * ** *** *
51951129 CTCCATTTAAACACTTTGCTAATTTATGATCACAATTTTTACTTTTAAAGCTCGCTGATGTACGA
1 CTCCATTTAAACAATTCGCTAATTTACAATCACAACAGTCACTTTTAAAGCTCGCTGATGTACGA
*
51951194 TCACAGCTTCAGTTATTTGATTTA
66 TCACAACTTCAGTTATTTGATTTA
51951218 CAATCATGAA
Statistics
Matches: 73, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
97 1 0.01
98 72 0.99
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (98 bp):
CTCCATTTAAACAATTCGCTAATTTACAATCACAACAGTCACTTTTAAAGCTCGCTGATGTACGA
TCACAACTTCAGTTATTTGATTTATGATTGCAT
Found at i:51951425 original size:134 final size:134
Alignment explanation
Indices: 51951144--51951398 Score: 332
Period size: 134 Copynumber: 1.9 Consensus size: 134
51951134 TTTAAACACT
* * * * * *
51951144 TTGCTAATTTATGATCACAATTTTTACTTTTAAAGCTCGCTGATGTACGATCACAGCTTCAGTTA
1 TTGCTGATTTACGATCACAAATGTCATTTTTAAAGCTCGCTGATGTACGATCACAGCTTCAGTTA
* ** *
51951209 TTTGATTTACAATCATGAACAATTCATTAAGAATTCGCCAATTTATGATCGCAACTTCATTTAAA
66 TTTGATTTACAATCATGAACAATTCATTAAGAATTCGCAAATTTACAATCACAACTTCATTTAAA
51951274 AAGC
131 AAGC
* * * *
51951278 TTGTTGATTTACGATCACAAATGTCATTTTTAAAGCTCGTTGATTTACGATCACAGCTTCTGTTC
1 TTGCTGATTTACGATCACAAATGTCATTTTTAAAGCTCGCTGATGTACGATCACAGCTTCAGTT-
* * * *
51951343 A-TTGATTTACGATTATGAACAATTCATTAAGAGTTCGTAAATTTACAATCACAACT
65 ATTTGATTTACAATCATGAACAATTCATTAAGAATTCGCAAATTTACAATCACAACT
51951399 CTATTCTCAC
Statistics
Matches: 102, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
134 101 0.99
135 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (134 bp):
TTGCTGATTTACGATCACAAATGTCATTTTTAAAGCTCGCTGATGTACGATCACAGCTTCAGTTA
TTTGATTTACAATCATGAACAATTCATTAAGAATTCGCAAATTTACAATCACAACTTCATTTAAA
AAGC
Found at i:51957224 original size:26 final size:27
Alignment explanation
Indices: 51957190--51957247 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
51957180 ATGATTTGGC
* *
51957190 TTTTTATTAT-TTAAATTTTT-ATAAT
1 TTTTTATTATATAAAATTTTTAATAAG
51957215 TTTTTAATTATATAAAATTTTTAATAAG
1 TTTTT-ATTATATAAAATTTTTAATAAG
51957243 TTTTT
1 TTTTT
51957248 CTCGTCCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 5 0.18
26 5 0.18
27 9 0.32
28 9 0.32
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (27 bp):
TTTTTATTATATAAAATTTTTAATAAG
Found at i:51964701 original size:18 final size:18
Alignment explanation
Indices: 51964678--51964712 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
51964668 CAAGAACAGG
51964678 AAGCACCAAAATAGTTTC
1 AAGCACCAAAATAGTTTC
* *
51964696 AAGCACGAAAGTAGTTT
1 AAGCACCAAAATAGTTT
51964713 GACACATCAT
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:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (18 bp):
AAGCACCAAAATAGTTTC
Found at i:51974409 original size:6 final size:6
Alignment explanation
Indices: 51974398--51974428 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
51974388 ATAATGGCCA
51974398 TTTGTT TTTGTT TTTGTT TTTGTT TTT-TT TT
1 TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TT
51974429 AACTTACCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (6 bp):
TTTGTT
Found at i:51985346 original size:153 final size:153
Alignment explanation
Indices: 51985068--51985373 Score: 533
Period size: 153 Copynumber: 2.0 Consensus size: 153
51985058 ATATTTTCGA
* * *
51985068 AGAAAGTTTGAACTGGTCATAGAGGGAGTTGAGAAGAAATCGGTGGAGTGATAATGGGAGAGATT
1 AGAAAGTTTGAACTAGTCATAGAAGGAGTTGAGAAGAAATCGGTGGAGTGATAAGGGGAGAGATT
*
51985133 TGAGGAGAGAATATTGAGATTTGGTGAGGTTGTTGTTGTGGAGAGTTATATATATCACATCTCAT
66 TGAGGAGAGAATATTGAGATTTGGTGAGGTTCTTGTTGTGGAGAGTTATATATATCACATCTCAT
51985198 TTGTTCATTGTTCTGAATGGGGG
131 TTGTTCATTGTTCTGAATGGGGG
*
51985221 AGAAAGTTTGAACTAGTCATAGAATGAGTTGAGAAGAAATCGGTGGAGTGATAAGGGGAGAGATT
1 AGAAAGTTTGAACTAGTCATAGAAGGAGTTGAGAAGAAATCGGTGGAGTGATAAGGGGAGAGATT
*
51985286 TGAGGAGAGAATATTTAGATTTTGG-GAGGTTCTTGTTGTGGAGAGTTATATATATCACATCTCA
66 TGAGGAGAGAATATTGAGA-TTTGGTGAGGTTCTTGTTGTGGAGAGTTATATATATCACATCTCA
*
51985350 TTTGTTCCTTGTTCTGAATGGGGG
130 TTTGTTCATTGTTCTGAATGGGGG
51985374 GAGATCGGCG
Statistics
Matches: 145, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
153 140 0.97
154 5 0.03
ACGTcount: A:0.29, C:0.07, G:0.32, T:0.32
Consensus pattern (153 bp):
AGAAAGTTTGAACTAGTCATAGAAGGAGTTGAGAAGAAATCGGTGGAGTGATAAGGGGAGAGATT
TGAGGAGAGAATATTGAGATTTGGTGAGGTTCTTGTTGTGGAGAGTTATATATATCACATCTCAT
TTGTTCATTGTTCTGAATGGGGG
Found at i:51986248 original size:27 final size:27
Alignment explanation
Indices: 51985955--51986262 Score: 325
Period size: 27 Copynumber: 11.5 Consensus size: 27
51985945 ATACCCCCGA
*
51985955 AGGGTAAAATGACCGTAATGCCCCTAT
1 AGGGTAAAATGACCGTAATGCCCCTGT
** ** *
51985982 AATGTAAAATGGTCGTAATGCCCCTAT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* * * *
51986009 AAGGTAAAATAACTGTAATACCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
** *
51986036 AGGGTAAAATGGTCGTAATGCCCCTAT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* *
51986063 AGGGTAAAATGACCGTAATACCCCTAT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* * *
51986090 AGGTTAGAATGACCGTAATGCCCCTAT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* * * *
51986117 AGGGTAAAATAATCGTAAAGCACCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
*
51986144 AGGGTAAAATGACCGTAATACCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* * *
51986171 AGGATAAAATGACTGTAATGCCCTTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* * *
51986198 AGGGTAAAATGACTGTAATACCCTTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
51986225 AGGGTAAAATGACCGTAATG-CCCTAGT
1 AGGGTAAAATGACCGTAATGCCCCT-GT
51986252 -GGG-AAAATGAC
1 AGGGTAAAATGAC
51986263 TATTTTGCCC
Statistics
Matches: 235, Mismatches: 45, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
25 8 0.03
26 6 0.03
27 221 0.94
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.25
Consensus pattern (27 bp):
AGGGTAAAATGACCGTAATGCCCCTGT
Found at i:51986334 original size:24 final size:24
Alignment explanation
Indices: 51986306--51986364 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
51986296 TCTGTGGTTA
*
51986306 AATGACTGATTTGTCTGTG-TTTGG
1 AATGACTGATTTGTCTGCGATTT-G
*
51986330 TATGACTGATTTGTCTGCGATTTG
1 AATGACTGATTTGTCTGCGATTTG
51986354 AATGACTGATT
1 AATGACTGATT
51986365 CTGAGCACGG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 28 0.90
25 3 0.10
ACGTcount: A:0.20, C:0.10, G:0.25, T:0.44
Consensus pattern (24 bp):
AATGACTGATTTGTCTGCGATTTG
Found at i:51986654 original size:32 final size:32
Alignment explanation
Indices: 51986536--51986866 Score: 187
Period size: 32 Copynumber: 10.4 Consensus size: 32
51986526 ACTGCGATGC
* * * *
51986536 TACTAATGGCTTTCTG-TCGATCATAGTACCAT
1 TACTGATGGCTTTGTGCT-GATCATATTACCGT
* * * *
51986568 TACTGATGGCTTTGTACCGATCACAGTACCGT
1 TACTGATGGCTTTGTGCTGATCATATTACCGT
* *
51986600 TACTAATGGCTTTGTG-TCGATCATATTACCAT
1 TACTGATGGCTTTGTGCT-GATCATATTACCGT
* * * *
51986632 TACTGATGGCTATATTCTGATCAT-TTCACTGT
1 TACTGATGGCTTTGTGCTGATCATATT-ACCGT
* *
51986664 TACTGATGG-TTGTGTGCCGATCATATTACCAT
1 TACTGATGGCTT-TGTGCTGATCATATTACCGT
** * *
51986696 TACCAATGG-TTGTATGCTGATCAT-TTCACTGT
1 TACTGATGGCTT-TGTGCTGATCATATT-ACCGT
* * * *
51986728 TACTGATGGCTATGTG-TCGATCATATCACTGC
1 TACTGATGGCTTTGTGCT-GATCATATTACCGT
* * *
51986760 CACTGATGGCTTTATGCTGATCATGTTACCGT
1 TACTGATGGCTTTGTGCTGATCATATTACCGT
* * * *
51986792 TACTGATGG-TTGTGTG-TCAATCATATCACTGC
1 TACTGATGGCTT-TGTGCT-GATCATATTACCGT
** * *
51986824 TACTGATGGCTTTGTGCCAATCACATTACTG-
1 TACTGATGGCTTTGTGCTGATCATATTACCGT
*
51986855 TACTTATGGCTT
1 TACTGATGGCTT
51986867 GTAGCAATTC
Statistics
Matches: 230, Mismatches: 54, Indels: 31
0.73 0.17 0.10
Matches are distributed among these distances:
31 20 0.09
32 202 0.88
33 8 0.03
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCTGATCATATTACCGT
Found at i:51986654 original size:64 final size:64
Alignment explanation
Indices: 51986536--51986836 Score: 277
Period size: 64 Copynumber: 4.7 Consensus size: 64
51986526 ACTGCGATGC
* * * * * * *
51986536 TACTAATGGCTTTCTGTCGATCATAGTACCATTACTGATGGCTTTGTACCGATCACAGT-ACCGT
1 TACTGATGGCTTTGTGTCGATCATATTACCATTACTGATGGCTTTATGCTGATCA-TGTCACCGT
* * * * *
51986600 TACTAATGGCTTTGTGTCGATCATATTACCATTACTGATGGCTATATTCTGATCATTTCACTGT
1 TACTGATGGCTTTGTGTCGATCATATTACCATTACTGATGGCTTTATGCTGATCATGTCACCGT
* ** * *
51986664 TACTGATGG-TTGTGTGCCGATCATATTACCATTACCAATGG-TTGTATGCTGATCATTTCACTG
1 TACTGATGGCTT-TGTGTCGATCATATTACCATTACTGATGGCTT-TATGCTGATCATGTCACCG
51986727 T
64 T
* * **** *
51986728 TACTGATGGCTATGTGTCGATCATATCACTGCCACTGATGGCTTTATGCTGATCATGTTACCGT
1 TACTGATGGCTTTGTGTCGATCATATTACCATTACTGATGGCTTTATGCTGATCATGTCACCGT
* * ***
51986792 TACTGATGG-TTGTGTGTCAATCATATCACTGCTACTGATGGCTTT
1 TACTGATGGCTT-TGTGTCGATCATATTACCATTACTGATGGCTTT
51986837 GTGCCAATCA
Statistics
Matches: 201, Mismatches: 30, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
63 5 0.02
64 193 0.96
65 3 0.01
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (64 bp):
TACTGATGGCTTTGTGTCGATCATATTACCATTACTGATGGCTTTATGCTGATCATGTCACCGT
Found at i:51986718 original size:96 final size:96
Alignment explanation
Indices: 51986536--51986834 Score: 259
Period size: 96 Copynumber: 3.1 Consensus size: 96
51986526 ACTGCGATGC
* * * ** * * *
51986536 TACTAATGGCTTTCTGTCGATCATAGT-ACCATTACTGATGGCTTTGTACCGATCACAGTACCGT
1 TACTGATGGCTATATGTCGATCATA-TCACTGTTACTGATGGCTTTGTGCCGATCATATTACCGT
*
51986600 TACTAATGGCTT-TGTGTCGATCATATT-ACCAT
65 TACTAATGG-TTGTATGTCGATCAT-TTCACCAT
* *
51986632 TACTGATGGCTATAT-TCTGATCATTTCACTGTTACTGATGG-TTGTGTGCCGATCATATTACCA
1 TACTGATGGCTATATGTC-GATCATATCACTGTTACTGATGGCTT-TGTGCCGATCATATTACCG
* **
51986695 TTACCAATGGTTGTATG-CTGATCATTTCACTGT
64 TTACTAATGGTTGTATGTC-GATCATTTCACCAT
* ** * * *
51986728 TACTGATGGCTATGTGTCGATCATATCACTGCCACTGATGGCTTTATGCTGATCATGTTACCGTT
1 TACTGATGGCTATATGTCGATCATATCACTGTTACTGATGGCTTTGTGCCGATCATATTACCGTT
* * * * ***
51986793 ACTGATGGTTGTGTGTCAATCATATCACTGC
66 ACTAATGGTTGTATGTCGATCATTTCACCAT
51986824 TACTGATGGCT
1 TACTGATGGCT
51986835 TTGTGCCAAT
Statistics
Matches: 166, Mismatches: 28, Indels: 18
0.78 0.13 0.08
Matches are distributed among these distances:
95 10 0.06
96 151 0.91
97 5 0.03
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (96 bp):
TACTGATGGCTATATGTCGATCATATCACTGTTACTGATGGCTTTGTGCCGATCATATTACCGTT
ACTAATGGTTGTATGTCGATCATTTCACCAT
Found at i:51988731 original size:23 final size:23
Alignment explanation
Indices: 51988705--51988754 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
51988695 ACAGGCTTTT
51988705 AAGTGTTTTAAAAACACACAAGA
1 AAGTGTTTTAAAAACACACAAGA
51988728 AAGTGTTTTAAAAACACACAAGA
1 AAGTGTTTTAAAAACACACAAGA
51988751 AAGT
1 AAGT
51988755 CATAGGATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.52, C:0.12, G:0.14, T:0.22
Consensus pattern (23 bp):
AAGTGTTTTAAAAACACACAAGA
Found at i:51995515 original size:17 final size:17
Alignment explanation
Indices: 51995489--51995523 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
51995479 ACTTGTCCCC
51995489 AGCCTCAAAACGTTACA
1 AGCCTCAAAACGTTACA
*
51995506 AGCCTTAAAACGTTACA
1 AGCCTCAAAACGTTACA
51995523 A
1 A
51995524 CTTGAAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.26, G:0.11, T:0.20
Consensus pattern (17 bp):
AGCCTCAAAACGTTACA
Found at i:51999444 original size:24 final size:24
Alignment explanation
Indices: 51999417--51999463 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
51999407 TTCTATAATC
*
51999417 ATGAATTTGAATTTAATTTATTAT
1 ATGAATTTCAATTTAATTTATTAT
*
51999441 ATGAATTTCAATTTTATTTATTA
1 ATGAATTTCAATTTAATTTATTA
51999464 GGTAAATGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (24 bp):
ATGAATTTCAATTTAATTTATTAT
Found at i:52001694 original size:44 final size:44
Alignment explanation
Indices: 52001645--52002003 Score: 304
Period size: 44 Copynumber: 8.2 Consensus size: 44
52001635 TATAGAGACT
* * *
52001645 AATCTTTC-ACCTATTCCGCTGTTAGTTAGGGAGATAGGACTTGT
1 AATC-TTCAACCTATTCCGCTGCTAGTTAGGGAAATAGGACTTGC
* *
52001689 AATCTTCAACCTATTCCGCTGCTAGTCAGGGATATAGGACTTGC
1 AATCTTCAACCTATTCCGCTGCTAGTTAGGGAAATAGGACTTGC
* * *
52001733 AAT-TCTCAACCTATTCCGCTGCTGGTCT-GGGAAATAGGACATAC
1 AATCT-TCAACCTATTCCGCTGCTAGT-TAGGGAAATAGGACTTGC
* *
52001777 AATCTTCAACCTATTCCGCTACTGGTCT-GGGAAATAGGACATT-C
1 AATCTTCAACCTATTCCGCTGCTAGT-TAGGGAAATAGGAC-TTGC
* * * * * *
52001821 AATCTTCAACCTATTTCGCTTCTGGTCT-GGGAAATAGGGCATAC
1 AATCTTCAACCTATTCCGCTGCTAGT-TAGGGAAATAGGACTTGC
* * * * *
52001865 AGTCTTCAACCTATTCCGCTGCTGGTCT-GGGAAATAGGGCATAC
1 AATCTTCAACCTATTCCGCTGCTAGT-TAGGGAAATAGGACTTGC
* ** * * *
52001909 AATCTTCAACCTATTCCACTATTGGTCT-GGGAAATAGGACATAC
1 AATCTTCAACCTATTCCGCTGCTAGT-TAGGGAAATAGGACTTGC
* * *
52001953 AATCTTCAACCTATCCCACTGCTGGTCT-GGGAAATAGGACTTGC
1 AATCTTCAACCTATTCCGCTGCTAGT-TAGGGAAATAGGACTTGC
52001997 AATCTTC
1 AATCTTC
52002004 TACCGGCTTC
Statistics
Matches: 281, Mismatches: 28, Indels: 12
0.88 0.09 0.04
Matches are distributed among these distances:
43 5 0.02
44 274 0.98
45 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTTCAACCTATTCCGCTGCTAGTTAGGGAAATAGGACTTGC
Found at i:52001814 original size:88 final size:88
Alignment explanation
Indices: 52001645--52002003 Score: 456
Period size: 88 Copynumber: 4.1 Consensus size: 88
52001635 TATAGAGACT
* * * * **
52001645 AATCTTTC-ACCTATTCCGCTGTTAGT-TAGGGAGATAGGACTTGTAATCTTCAACCTATTCCGC
1 AATC-TTCAACCTATTCCGCTGCTGGTCT-GGGAAATAGGACATACAATCTTCAACCTATTCCGC
* * *
52001708 TGCTAGTCAGGGATATAGGACTTGC
64 TGCTGGTCTGGGAAATAGGACTTGC
52001733 AAT-TCTCAACCTATTCCGCTGCTGGTCTGGGAAATAGGACATACAATCTTCAACCTATTCCGCT
1 AATCT-TCAACCTATTCCGCTGCTGGTCTGGGAAATAGGACATACAATCTTCAACCTATTCCGCT
*
52001797 ACTGGTCTGGGAAATAGGACATT-C
65 GCTGGTCTGGGAAATAGGAC-TTGC
* * * *
52001821 AATCTTCAACCTATTTCGCTTCTGGTCTGGGAAATAGGGCATACAGTCTTCAACCTATTCCGCTG
1 AATCTTCAACCTATTCCGCTGCTGGTCTGGGAAATAGGACATACAATCTTCAACCTATTCCGCTG
* * *
52001886 CTGGTCTGGGAAATAGGGCATAC
66 CTGGTCTGGGAAATAGGACTTGC
* ** * *
52001909 AATCTTCAACCTATTCCACTATTGGTCTGGGAAATAGGACATACAATCTTCAACCTATCCCACTG
1 AATCTTCAACCTATTCCGCTGCTGGTCTGGGAAATAGGACATACAATCTTCAACCTATTCCGCTG
52001974 CTGGTCTGGGAAATAGGACTTGC
66 CTGGTCTGGGAAATAGGACTTGC
52001997 AATCTTC
1 AATCTTC
52002004 TACCGGCTTC
Statistics
Matches: 237, Mismatches: 28, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
86 1 0.00
87 3 0.01
88 229 0.97
89 4 0.02
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (88 bp):
AATCTTCAACCTATTCCGCTGCTGGTCTGGGAAATAGGACATACAATCTTCAACCTATTCCGCTG
CTGGTCTGGGAAATAGGACTTGC
Found at i:52002003 original size:132 final size:132
Alignment explanation
Indices: 52001689--52002003 Score: 479
Period size: 132 Copynumber: 2.4 Consensus size: 132
52001679 TAGGACTTGT
* * *
52001689 AATCTTCAACCTATTCCGCTGCTAGTCAGGGATATAGGACTTGCAAT-TCTCAACCTATTCCGCT
1 AATCTTCAACCTATTCCGCTGCTGGTCTGGGAAATAGGACTTGCAATCT-TCAACCTATTCCGCT
*
52001753 GCTGGTCTGGGAAATAGGACATACAATCTTCAACCTATTCCGCTACTGGTCTGGGAAATAGGACA
65 GCTGGTCTGGGAAATAGGACATACAATCTTCAACCTATTCCACTACTGGTCTGGGAAATAGGACA
*
52001818 TTC
130 TAC
* * * * * *
52001821 AATCTTCAACCTATTTCGCTTCTGGTCTGGGAAATAGGGCATACAGTCTTCAACCTATTCCGCTG
1 AATCTTCAACCTATTCCGCTGCTGGTCTGGGAAATAGGACTTGCAATCTTCAACCTATTCCGCTG
* *
52001886 CTGGTCTGGGAAATAGGGCATACAATCTTCAACCTATTCCACTATTGGTCTGGGAAATAGGACAT
66 CTGGTCTGGGAAATAGGACATACAATCTTCAACCTATTCCACTACTGGTCTGGGAAATAGGACAT
52001951 AC
131 AC
* *
52001953 AATCTTCAACCTATCCCACTGCTGGTCTGGGAAATAGGACTTGCAATCTTC
1 AATCTTCAACCTATTCCGCTGCTGGTCTGGGAAATAGGACTTGCAATCTTC
52002004 TACCGGCTTC
Statistics
Matches: 161, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
132 160 0.99
133 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (132 bp):
AATCTTCAACCTATTCCGCTGCTGGTCTGGGAAATAGGACTTGCAATCTTCAACCTATTCCGCTG
CTGGTCTGGGAAATAGGACATACAATCTTCAACCTATTCCACTACTGGTCTGGGAAATAGGACAT
AC
Found at i:52003175 original size:42 final size:42
Alignment explanation
Indices: 52003087--52003175 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
52003077 ATCACCACAT
* * *
52003087 GCCCCAATTCAGTCAAAATTCAAGTCGTTCTGATCCCCTCGT
1 GCCCCAATTCAGTCAAAATTCAAGTCGTTCTAATCACCTCGC
*
52003129 GCCCCAATTCAGTCAAAATTCAAGTCGTTCTAATCACTTCGC
1 GCCCCAATTCAGTCAAAATTCAAGTCGTTCTAATCACCTCGC
52003171 GCCCC
1 GCCCC
52003176 CTTTTGATCC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.25, C:0.35, G:0.13, T:0.27
Consensus pattern (42 bp):
GCCCCAATTCAGTCAAAATTCAAGTCGTTCTAATCACCTCGC
Found at i:52022684 original size:18 final size:19
Alignment explanation
Indices: 52022661--52022697 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
52022651 AATTCTTTTA
52022661 AATTTTTTCAAA-AAAAAG
1 AATTTTTTCAAATAAAAAG
*
52022679 AATTTTTTTAAATAAAAAG
1 AATTTTTTCAAATAAAAAG
52022698 CAGAAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (19 bp):
AATTTTTTCAAATAAAAAG
Found at i:52030788 original size:21 final size:20
Alignment explanation
Indices: 52030763--52030805 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
52030753 ACTAAAACAG
*
52030763 AATGAGTAAAGGAAACAAAAA
1 AATGAATAAA-GAAACAAAAA
*
52030784 AATGAATAAATAAACAAAAA
1 AATGAATAAAGAAACAAAAA
52030804 AA
1 AA
52030806 CGAGATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.72, C:0.05, G:0.12, T:0.12
Consensus pattern (20 bp):
AATGAATAAAGAAACAAAAA
Found at i:52031917 original size:15 final size:15
Alignment explanation
Indices: 52031897--52031925 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
52031887 ATCCTTAAGG
52031897 TTTTTTT-CTTTTAA
1 TTTTTTTCCTTTTAA
52031911 TTTTTTTCCTTTTAA
1 TTTTTTTCCTTTTAA
52031926 GTAGCGAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTTCCTTTTAA
Found at i:52035549 original size:14 final size:15
Alignment explanation
Indices: 52035517--52035551 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
52035507 GGGTTAGTTC
*
52035517 TTTATTTTTAAAGAT
1 TTTATTGTTAAAGAT
52035532 TTTATTGTTAAA-AT
1 TTTATTGTTAAAGAT
52035546 TTTATT
1 TTTATT
52035552 TAATTATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (15 bp):
TTTATTGTTAAAGAT
Found at i:52042478 original size:21 final size:19
Alignment explanation
Indices: 52042432--52042506 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
52042422 AATCTTCAAG
52042432 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
52042451 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
52042470 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATAT
52042491 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
52042507 AGATATGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 34 0.65
21 18 0.35
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:52043112 original size:29 final size:27
Alignment explanation
Indices: 52043070--52043146 Score: 84
Period size: 29 Copynumber: 2.8 Consensus size: 27
52043060 CATACATACG
*
52043070 TTTTATAATATATATATTTTTAAATTAA
1 TTTTATAATATATATATTATTAAATT-A
* *
52043098 TTTTGATAATGTATATATTATTCAATTA
1 TTTT-ATAATATATATATTATTAAATTA
*
52043126 TTTT-TAATCTATATATATATT
1 TTTTATAATATATATAT-TATT
52043147 TCTTTTATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
26 11 0.26
27 4 0.09
28 9 0.21
29 19 0.44
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (27 bp):
TTTTATAATATATATATTATTAAATTA
Found at i:52043161 original size:23 final size:22
Alignment explanation
Indices: 52043127--52043170 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
52043117 ATTCAATTAT
52043127 TTTTAATCTATATATATATTTC
1 TTTTAATCTATATATATATTTC
*
52043149 TTTTATATGTATATATATATTT
1 TTTTA-ATCTATATATATATTT
52043171 TTCTTCCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (22 bp):
TTTTAATCTATATATATATTTC
Found at i:52043187 original size:25 final size:25
Alignment explanation
Indices: 52043135--52043187 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
52043125 ATTTTTAATC
* *
52043135 TATATATATATTTCTTTTATATGTA
1 TATATATATATTTCTTCTATATGAA
*
52043160 TATATATATTTTTCTTCCTA-ATGAA
1 TATATATATATTTCTT-CTATATGAA
52043185 TAT
1 TAT
52043188 TCTTTTATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.57
Consensus pattern (25 bp):
TATATATATATTTCTTCTATATGAA
Found at i:52047450 original size:36 final size:36
Alignment explanation
Indices: 52047409--52047681 Score: 303
Period size: 36 Copynumber: 7.0 Consensus size: 36
52047399 GGTAGCTTTA
52047409 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
52047445 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
52047490 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
52047527 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
52047572 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
52047609 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
52047645 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
52047681 G
1 G
52047682 TTAGCCTTAG
Statistics
Matches: 207, Mismatches: 10, Indels: 40
0.81 0.04 0.16
Matches are distributed among these distances:
36 131 0.63
37 4 0.02
40 4 0.02
42 4 0.02
45 4 0.02
46 60 0.29
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:52047618 original size:118 final size:118
Alignment explanation
Indices: 52047491--52047727 Score: 420
Period size: 118 Copynumber: 2.0 Consensus size: 118
52047481 GGTAGCTTTA
52047491 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
*
52047556 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
66 GATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * *
52047609 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTATACTTATCTGATCAAGTGACAAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
* *
52047674 GATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT
66 GATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
52047727 G
1 G
52047728 GTAGCCTAGC
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
118 113 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.29
Consensus pattern (118 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGCTACACTTATCTGATCAAGAGACAAAGT
GATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:52047629 original size:21 final size:20
Alignment explanation
Indices: 52047601--52047666 Score: 52
Period size: 21 Copynumber: 3.5 Consensus size: 20
52047591 AGTGAAAAAG
52047601 TGATAAGTGCTATACTTATC
1 TGATAAGTGCTATACTTATC
* **
52047621 TGATCAAGTG--A-A--AAAG
1 TGAT-AAGTGCTATACTTATC
52047637 TGATAAGTGCTATACTTATC
1 TGATAAGTGCTATACTTATC
52047657 TGATCAAGTG
1 TGAT-AAGTG
52047667 ACAAAGTGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 13
0.63 0.12 0.25
Matches are distributed among these distances:
15 5 0.15
16 5 0.15
17 1 0.03
18 2 0.06
19 1 0.03
20 9 0.27
21 10 0.30
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (20 bp):
TGATAAGTGCTATACTTATC
Found at i:52047763 original size:82 final size:82
Alignment explanation
Indices: 52047373--52047751 Score: 528
Period size: 82 Copynumber: 4.6 Consensus size: 82
52047363 TTTGAGTACT
*
52047373 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
52047438 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
52047455 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
52047520 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
52047537 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
52047602 GATAAGTGCTATACTTA
66 GATAAGTGCTACACTTA
* * *
52047619 TCTGATCAAGTGAAAAAGTGATAA---GT-GC--TA--T--ACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
52047674 GATAAGTGTTAGCCTTAGCTACACTTA
66 GAT-A-----AG---T-GCTACACTTA
* *
52047701 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGAT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
52047752 TAGGGACAAG
Statistics
Matches: 271, Mismatches: 7, Indels: 29
0.88 0.02 0.09
Matches are distributed among these distances:
72 26 0.10
73 1 0.00
74 1 0.00
76 2 0.01
78 4 0.01
79 2 0.01
81 1 0.00
82 216 0.80
85 2 0.01
86 2 0.01
87 2 0.01
89 1 0.00
91 11 0.04
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTACACTTA
Found at i:52052726 original size:88 final size:88
Alignment explanation
Indices: 52052577--52053075 Score: 746
Period size: 88 Copynumber: 5.7 Consensus size: 88
52052567 AGCAGATTAG
* * *
52052577 TAAAAATAGAAGATCTTGCATTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
52052642 CCCTAGGTTGTAGCGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
*
52052665 TAAAAATAGTAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
52052730 CCTTGGGTTGCAGCGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * * *
52052753 TAAAAATAGCAGATTTTGCCTTCCTGCACCGATAGCGAAGCAGATCGAAGACACCAACCTTGCTT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
52052818 CCCTGGGTTGCAACGGAGCTGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * * *
52052841 TAAAAATAGCAGATCTTACCTTCCTGTACCGACATCGAAGTAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
52052906 CCCTGGGTTACAGCGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * *
52052929 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGTGAAGCATATCGTAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
52052994 CCCTGGGTTGCAGCAGAACAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * * * *
52053017 TAAAAATAGCATATATTGCCTTCCTGCACCGACAGCGAAGCATATCGATGACCCCAGCC
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
52053076 CTATCTTCCT
Statistics
Matches: 370, Mismatches: 41, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 370 1.00
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.21
Consensus pattern (88 bp):
TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
CCCTGGGTTGCAGCGGAGCAGGT
Found at i:52053975 original size:21 final size:19
Alignment explanation
Indices: 52053929--52054003 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
52053919 AATCTTCAAG
52053929 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
52053948 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
52053967 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATAT
52053988 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
52054004 AGATATGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 34 0.65
21 18 0.35
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:52063086 original size:41 final size:41
Alignment explanation
Indices: 52063022--52063212 Score: 224
Period size: 41 Copynumber: 4.7 Consensus size: 41
52063012 AAATTAATTA
*
52063022 TACCC-TGAATTACACATACGTGCCCCTATTTGTACTTCGG
1 TACCCTTGAATTACACATACGTGCCCCTGTTTGTACTTCGG
* * *
52063062 TACCATTGAATTACACATATGTGCCCTTGTTTGTACTTCGG
1 TACCCTTGAATTACACATACGTGCCCCTGTTTGTACTTCGG
**
52063103 TACCCTTGAATTACACATACGTGCCCCTGTTTGTACTTCAA
1 TACCCTTGAATTACACATACGTGCCCCTGTTTGTACTTCGG
* * * * **
52063144 TACCCCTGAGTTGCATATATATGCCCCTGTTTGTACTTCGG
1 TACCCTTGAATTACACATACGTGCCCCTGTTTGTACTTCGG
* * *
52063185 TACCCCT-AAATAGCACATACATGCCCCT
1 TACCCTTGAATTA-CACATACGTGCCCCT
52063213 ATTTACACTA
Statistics
Matches: 127, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
40 6 0.05
41 121 0.95
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.34
Consensus pattern (41 bp):
TACCCTTGAATTACACATACGTGCCCCTGTTTGTACTTCGG
Found at i:52063117 original size:82 final size:81
Alignment explanation
Indices: 52063022--52063216 Score: 248
Period size: 82 Copynumber: 2.4 Consensus size: 81
52063012 AAATTAATTA
** * *
52063022 TACCCTGAATTACACATACGTGCCCCTATTTGTACTTCGGTACCATTGAATTACACATATGTGCC
1 TACCCTGAATTACACATACGTGCCCCTATTTGTACTTCAATACCACTGAATTACACATATATGCC
*
52063087 CTTGTTTGTACTTCGG
66 CCTGTTTGTACTTCGG
* * * * *
52063103 TACCCTTGAATTACACATACGTGCCCCTGTTTGTACTTCAATACCCCTGAGTTGCATATATATGC
1 TACCC-TGAATTACACATACGTGCCCCTATTTGTACTTCAATACCACTGAATTACACATATATGC
52063168 CCCTGTTTGTACTTCGG
65 CCCTGTTTGTACTTCGG
* *
52063185 TACCCCT-AAATAGCACATACATGCCCCTATTT
1 TA-CCCTGAATTA-CACATACGTGCCCCTATTT
52063217 ACACTATGGT
Statistics
Matches: 98, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
81 9 0.09
82 86 0.88
83 3 0.03
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.34
Consensus pattern (81 bp):
TACCCTGAATTACACATACGTGCCCCTATTTGTACTTCAATACCACTGAATTACACATATATGCC
CCTGTTTGTACTTCGG
Found at i:52064746 original size:21 final size:21
Alignment explanation
Indices: 52064726--52064766 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
52064716 CGTTTGTTTA
52064726 ATTTTC-TTATTTATTTATTT
1 ATTTTCATTATTTATTTATTT
52064746 ATTTTCATTATTTATTTATTT
1 ATTTTCATTATTTATTTATTT
52064767 TTATCCTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (21 bp):
ATTTTCATTATTTATTTATTT
Found at i:52066704 original size:10 final size:9
Alignment explanation
Indices: 52066676--52066742 Score: 59
Period size: 10 Copynumber: 7.4 Consensus size: 9
52066666 AAAATTGTTA
*
52066676 TTTTAAAAT
1 TTTTATAAT
52066685 TTTT-TAAT
1 TTTTATAAT
52066693 TTTTATATAT
1 TTTTATA-AT
*
52066703 TTTTAGAACT
1 TTTTATAA-T
52066713 TTTTATAA-
1 TTTTATAAT
52066721 -TTTATAAT
1 TTTTATAAT
*
52066729 TTATATAAT
1 TTTTATAAT
52066738 ATTTT
1 -TTTT
52066743 CTAAAATATA
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
7 7 0.15
8 7 0.15
9 14 0.30
10 19 0.40
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:52077492 original size:26 final size:26
Alignment explanation
Indices: 52077461--52077512 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
52077451 TCGGAGTGTG
52077461 ATTCCTGAGGAACCCCAGGTTTGATA
1 ATTCCTGAGGAACCCCAGGTTTGATA
52077487 ATTCCTGAGGAACCCCAGGTTTGATA
1 ATTCCTGAGGAACCCCAGGTTTGATA
52077513 CTTGGCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
ATTCCTGAGGAACCCCAGGTTTGATA
Found at i:52083246 original size:21 final size:21
Alignment explanation
Indices: 52083222--52083262 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
52083212 CATGCTTAAA
52083222 CATTCATTAATC-TTTCCCAAT
1 CATTC-TTAATCATTTCCCAAT
*
52083243 CATTCTTAATCATTTTCCAA
1 CATTCTTAATCATTTCCCAA
52083263 ACTTAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (21 bp):
CATTCTTAATCATTTCCCAAT
Found at i:52085734 original size:26 final size:25
Alignment explanation
Indices: 52085694--52085743 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
52085684 TTCCTTTCTT
* * *
52085694 TCCCTTTTTCTTTTCTTTCTTTTTTC
1 TCCCTATTTCATTTCTAT-TTTTTTC
52085720 TCCCTATTTCATTTCTATTTTTTT
1 TCCCTATTTCATTTCTATTTTTTT
52085744 GTTTCTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.06, C:0.24, G:0.00, T:0.70
Consensus pattern (25 bp):
TCCCTATTTCATTTCTATTTTTTTC
Found at i:52085784 original size:7 final size:7
Alignment explanation
Indices: 52085772--52085835 Score: 58
Period size: 7 Copynumber: 8.6 Consensus size: 7
52085762 ATTTACTTAT
52085772 TATAATA
1 TATAATA
52085779 TATAATA
1 TATAATA
52085786 TAATATATA
1 T-ATA-ATA
*
52085795 TTTAATA
1 TATAATA
*
52085802 -ATTAAGA
1 TA-TAATA
52085809 TATAATA
1 TATAATA
52085816 TTATAATA
1 -TATAATA
52085824 TTATAATA
1 -TATAATA
52085832 TATA
1 TATA
52085836 TTTTAACTTG
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
7 23 0.48
8 21 0.44
9 4 0.08
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (7 bp):
TATAATA
Found at i:52085822 original size:8 final size:8
Alignment explanation
Indices: 52085769--52085832 Score: 64
Period size: 8 Copynumber: 8.4 Consensus size: 8
52085759 TATATTTACT
52085769 TATTATAA
1 TATTATAA
52085777 TA-TATAA
1 TATTATAA
*
52085784 TATAATATA
1 TATTATA-A
52085793 TATT-TAA
1 TATTATAA
*
52085800 TAAT-TAA
1 TATTATAA
*
52085807 GA-TATAA
1 TATTATAA
52085814 TATTATAA
1 TATTATAA
52085822 TATTATAA
1 TATTATAA
52085830 TAT
1 TAT
52085833 ATATTTTAAC
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
6 1 0.02
7 19 0.40
8 23 0.49
9 4 0.09
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (8 bp):
TATTATAA
Found at i:52091919 original size:9 final size:9
Alignment explanation
Indices: 52091905--52091931 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
52091895 AAAAAAAATC
52091905 AGTCAAAAA
1 AGTCAAAAA
52091914 AGTCAAAAA
1 AGTCAAAAA
52091923 AGTCAAAAA
1 AGTCAAAAA
52091932 TACGAAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.11, G:0.11, T:0.11
Consensus pattern (9 bp):
AGTCAAAAA
Found at i:52104410 original size:44 final size:44
Alignment explanation
Indices: 52104351--52104460 Score: 157
Period size: 44 Copynumber: 2.5 Consensus size: 44
52104341 CATAGTATTG
* * *
52104351 CAACATCGGTACATAGTACCTGCTGAATATAAATGGCACATAGC
1 CAACATCGGTACATAGTACCTACGGAATATAAATGACACATAGC
* *
52104395 CAACATCGGTGCATAGTACCTACGGGATATAAATGACACATAGC
1 CAACATCGGTACATAGTACCTACGGAATATAAATGACACATAGC
* *
52104439 CAGCACCGGTACATAGTACCTA
1 CAACATCGGTACATAGTACCTA
52104461 TTACATATAA
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 58 1.00
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (44 bp):
CAACATCGGTACATAGTACCTACGGAATATAAATGACACATAGC
Found at i:52105497 original size:17 final size:17
Alignment explanation
Indices: 52105461--52105493 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
52105451 TTTTTATGTT
*
52105461 TTATTTAACTTATTTTA
1 TTATTTAACTAATTTTA
52105478 TTATTTAAC-AATTTTA
1 TTATTTAACTAATTTTA
52105494 ATTAATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATTTAACTAATTTTA
Found at i:52111427 original size:27 final size:27
Alignment explanation
Indices: 52111380--52111432 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
52111370 ATTGTTATTC
*
52111380 TTGTGAATTAGTAACTAGCTTTATATG
1 TTGTGAATTAGTAACTAGCTTAATATG
* *
52111407 TTGTGAATTGGTATAGT-GCTTAATAT
1 TTGTGAATTAGTA-ACTAGCTTAATAT
52111433 ATGGTAAGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45
Consensus pattern (27 bp):
TTGTGAATTAGTAACTAGCTTAATATG
Found at i:52119160 original size:28 final size:28
Alignment explanation
Indices: 52119097--52119154 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
52119087 AATTAAACTG
* *
52119097 ATAAAATGAATTAAACTAAAATGACCTA
1 ATAAAATTAATTAAACTAAAATAACCTA
* *
52119125 ATAAAATTAATTAACCTAAAATAACGTA
1 ATAAAATTAATTAAACTAAAATAACCTA
52119153 AT
1 AT
52119155 GGAATTTCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.28
Consensus pattern (28 bp):
ATAAAATTAATTAAACTAAAATAACCTA
Found at i:52120177 original size:18 final size:18
Alignment explanation
Indices: 52120156--52120203 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
52120146 CAAAGTTATT
52120156 AAAAATAACAAATATAA-A
1 AAAAATAACAAAT-TAATA
52120174 AAAAATAA-AAATTAATTA
1 AAAAATAACAAATTAA-TA
*
52120192 AAAATTAACAAA
1 AAAAATAACAAA
52120204 CAATCGAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 3 0.12
17 4 0.15
18 16 0.62
19 3 0.12
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAAATAACAAATTAATA
Found at i:52121114 original size:30 final size:30
Alignment explanation
Indices: 52121080--52121140 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
52121070 AAAGAGAATG
*
52121080 CTCATTCATAATTAAATTGGAGTGTAGTTT
1 CTCATTCATAATTAAATTGGAGTGCAGTTT
52121110 CTCATTCATAATTAAATTGGAGTGCAGTTT
1 CTCATTCATAATTAAATTGGAGTGCAGTTT
52121140 C
1 C
52121141 GAAACAATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (30 bp):
CTCATTCATAATTAAATTGGAGTGCAGTTT
Found at i:52122395 original size:26 final size:28
Alignment explanation
Indices: 52122352--52122415 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 28
52122342 TCGCAAGTGA
* *
52122352 GGGTTTGCCAAGATTTAGGTGAACT-AG
1 GGGTTCGCCAAGATTTAGGCGAACTGAG
*
52122379 GGGTTCGCTAAGA-TTAGGCGAACTGA-
1 GGGTTCGCCAAGATTTAGGCGAACTGAG
*
52122405 GGGTTCACCAA
1 GGGTTCGCCAA
52122416 AAGAGTATCT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 19 0.61
27 12 0.39
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.25
Consensus pattern (28 bp):
GGGTTCGCCAAGATTTAGGCGAACTGAG
Found at i:52131313 original size:17 final size:17
Alignment explanation
Indices: 52131293--52131331 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
52131283 CTCTTTTAGC
*
52131293 ATATTGTAATTG-ACGAA
1 ATATTATAATTGAAC-AA
52131310 ATATTATAATTGAACAA
1 ATATTATAATTGAACAA
52131327 ATATT
1 ATATT
52131332 TATATATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.38
Consensus pattern (17 bp):
ATATTATAATTGAACAA
Found at i:52143636 original size:25 final size:26
Alignment explanation
Indices: 52143607--52143655 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
52143597 TGGAAAAGGC
*
52143607 AATTA-ACAAAAATTCATAATTCTTT
1 AATTATACAAAAAGTCATAATTCTTT
**
52143632 AATTATGGAAAAAGTCATAATTCT
1 AATTATACAAAAAGTCATAATTCT
52143656 GGTAATAGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 5 0.25
26 15 0.75
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.37
Consensus pattern (26 bp):
AATTATACAAAAAGTCATAATTCTTT
Found at i:52156984 original size:75 final size:75
Alignment explanation
Indices: 52156898--52157069 Score: 211
Period size: 75 Copynumber: 2.3 Consensus size: 75
52156888 GCGCCCAGCA
* * * * *
52156898 CTAGTCAGATAAACCGACGAAATAATTAGTGAGCCTAACTTTGGTTGGATAAACCAACAATATTT
1 CTAGTCGGATAAATCGACGAAATAATTAGTGAGCCCAACTCTAGTTGGATAAACCAACAATATTT
*
52156963 GCACCCAATG
66 GCACCCAACG
* * * * *
52156973 CTAGTCGGATAAATCAATGAAATAATTAGTGATCCCAGCTCTAGTTGGATAAACCAACGATATTT
1 CTAGTCGGATAAATCGACGAAATAATTAGTGAGCCCAACTCTAGTTGGATAAACCAACAATATTT
* *
52157038 GCACCTAGCG
66 GCACCCAACG
*
52157048 CTACTCGGATAAATCGAC-AAAT
1 CTAGTCGGATAAATCGACGAAAT
52157070 GTGTGCCCAA
Statistics
Matches: 81, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
74 4 0.05
75 77 0.95
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (75 bp):
CTAGTCGGATAAATCGACGAAATAATTAGTGAGCCCAACTCTAGTTGGATAAACCAACAATATTT
GCACCCAACG
Found at i:52159076 original size:25 final size:26
Alignment explanation
Indices: 52159048--52159107 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 26
52159038 CATAGCTCTT
52159048 ATGAGCTTCCCA-ATACTCAGCTCGC
1 ATGAGCTTCCCAGATACTCAGCTCGC
* *
52159073 ATGAGCTT-CTAGATACTCTGCTCGC
1 ATGAGCTTCCCAGATACTCAGCTCGC
52159098 ATGAGCTTCC
1 ATGAGCTTCC
52159108 TATTATTCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 2 0.06
25 28 0.90
26 1 0.03
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.28
Consensus pattern (26 bp):
ATGAGCTTCCCAGATACTCAGCTCGC
Found at i:52160483 original size:21 final size:21
Alignment explanation
Indices: 52160457--52160496 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
52160447 ATTATATGAA
*
52160457 ATGTCTAATTAGTTGATCTGT
1 ATGTCTAATTAATTGATCTGT
*
52160478 ATGTCTGATTAATTGATCT
1 ATGTCTAATTAATTGATCT
52160497 ATAAACTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.10, G:0.17, T:0.47
Consensus pattern (21 bp):
ATGTCTAATTAATTGATCTGT
Found at i:52173574 original size:6 final size:6
Alignment explanation
Indices: 52173563--52173596 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
52173553 GACTTCTTTC
*
52173563 AAAAAT AAAAAT GAAAATT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT -AAAAAT AAAAAT AAAAAT AAA
52173597 TAAATATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:52175896 original size:45 final size:45
Alignment explanation
Indices: 52175847--52175951 Score: 176
Period size: 45 Copynumber: 2.3 Consensus size: 45
52175837 TTCCATGACG
52175847 TCTTTCAGCCATGGTCTTAGTCC-TATTTATCATGATGCCATGGCT
1 TCTTTCAGCCATGGTCTTAG-CCTTATTTATCATGATGCCATGGCT
*
52175892 TCTTTCAGCCATGGTCTTAGCCTTGTTTATCATGATGCCATGGCT
1 TCTTTCAGCCATGGTCTTAGCCTTATTTATCATGATGCCATGGCT
*
52175937 TTTTTCAGCCATGGT
1 TCTTTCAGCCATGGT
52175952 TTTACTCATT
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
44 2 0.04
45 55 0.96
ACGTcount: A:0.16, C:0.24, G:0.19, T:0.41
Consensus pattern (45 bp):
TCTTTCAGCCATGGTCTTAGCCTTATTTATCATGATGCCATGGCT
Found at i:52175968 original size:45 final size:43
Alignment explanation
Indices: 52175847--52176003 Score: 154
Period size: 45 Copynumber: 3.5 Consensus size: 43
52175837 TTCCATGACG
*
52175847 TCTTTCAGCCATGGTCTTAGTCCTATTTATCATGATGCCATGGCT
1 TCTTTCAGCCATGGTCTTACT-CT-TTTATCATGATGCCATGGCT
52175892 TCTTTCAGCCATGGTCTTAGC-CTTGTTTATCATGATGCCATGGCT
1 TCTTTCAGCCATGGTCTTA-CTC-T-TTTATCATGATGCCATGGCT
* * ** * * *
52175937 TTTTTCAGCCATGGTTTTACTCATTTATATCATGGCGGCATAGCA
1 TCTTTCAGCCATGGTCTTACTC-TTT-TATCATGATGCCATGGCT
* *
52175982 TCTTTCAGCTATGGCCTTACTC
1 TCTTTCAGCCATGGTCTTACTC
52176004 ATCTCTAGTG
Statistics
Matches: 94, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
44 4 0.04
45 90 0.96
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (43 bp):
TCTTTCAGCCATGGTCTTACTCTTTTATCATGATGCCATGGCT
Found at i:52179355 original size:39 final size:38
Alignment explanation
Indices: 52179306--52179405 Score: 128
Period size: 39 Copynumber: 2.6 Consensus size: 38
52179296 TAAATATAAT
** * *
52179306 AATTATAATTACCGTAATTATAATAATGTTTGATCGAAA
1 AATTATAATTACAATAATTATAATAATATTCGATCG-AA
* * *
52179345 AATTACAATTACAATAATTATAGTAATATTCGATCGTA
1 AATTATAATTACAATAATTATAATAATATTCGATCGAA
52179383 AATTATAATTACAATAATTATAA
1 AATTATAATTACAATAATTATAA
52179406 CAAGGATTTC
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
38 22 0.42
39 30 0.58
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.38
Consensus pattern (38 bp):
AATTATAATTACAATAATTATAATAATATTCGATCGAA
Found at i:52180524 original size:90 final size:90
Alignment explanation
Indices: 52180422--52180602 Score: 317
Period size: 90 Copynumber: 2.0 Consensus size: 90
52180412 ATAGAAAAGA
* * *
52180422 AACTGAAATAATAATGGCAATGCCTTATATTAAGAAACGGGGTAAAACAAGTATGTTATTACAAT
1 AACTGAAATAATAATCGCAATACCTTATATTAAGAAACGAGGTAAAACAAGTATGTTATTACAAT
52180487 CATCTCATGATTGGTCTTTGGGCAT
66 CATCTCATGATTGGTCTTTGGGCAT
*
52180512 AACTGAAATAATAATCGCAATACCTTATATTAAGAAATGAGGTAAAACAAGTATGTTATTACAAT
1 AACTGAAATAATAATCGCAATACCTTATATTAAGAAACGAGGTAAAACAAGTATGTTATTACAAT
*
52180577 CATCTTATGATTGGTCTTTGGGCAT
66 CATCTCATGATTGGTCTTTGGGCAT
52180602 A
1 A
52180603 CTCCAATAGT
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 86 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (90 bp):
AACTGAAATAATAATCGCAATACCTTATATTAAGAAACGAGGTAAAACAAGTATGTTATTACAAT
CATCTCATGATTGGTCTTTGGGCAT
Found at i:52184139 original size:21 final size:21
Alignment explanation
Indices: 52184114--52184157 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
52184104 ATCTTCGAGG
52184114 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
52184135 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
52184156 AT
1 AT
52184158 GTAATCTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:52184163 original size:19 final size:19
Alignment explanation
Indices: 52184113--52184168 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
52184103 AATCTTCGAG
52184113 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
52184132 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
52184153 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
52184169 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 15 0.44
21 19 0.56
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:52184175 original size:22 final size:23
Alignment explanation
Indices: 52184126--52184191 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
52184116 ATGCAATCTT
*
52184126 AGATATGATATATGCAATCTT---
1 AGATATGAT-TATGTAATCTTAGA
52184147 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
52184169 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
52184192 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 10 0.26
21 8 0.21
22 8 0.21
23 13 0.33
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:52184201 original size:22 final size:23
Alignment explanation
Indices: 52184157--52184201 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
52184147 AGATATGATA
*
52184157 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
52184180 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
52184202 GTAGATACTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:52184391 original size:19 final size:21
Alignment explanation
Indices: 52184367--52184405 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
52184357 TGTTTTCTTT
*
52184367 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
52184386 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
52184406 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:52184637 original size:3 final size:3
Alignment explanation
Indices: 52184629--52184671 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
52184619 ATTAATTTTG
* *
52184629 TTA TTA TTA TTT TTA TTA TTA -TA TTA TATA TTG TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T
52184672 ACCTACATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:52184637 original size:15 final size:15
Alignment explanation
Indices: 52184617--52184670 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
52184607 TTAGTCTATT
52184617 TTATTAATTTTGTTA
1 TTATTAATTTTGTTA
* *
52184632 TTATTATTTTTATTA
1 TTATTAATTTTGTTA
*
52184647 TTATATTATATATTGTTA
1 -T-TATTA-ATTTTGTTA
52184665 TTATTA
1 TTATTA
52184671 TACCTACATA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
15 13 0.42
16 6 0.19
17 6 0.19
18 6 0.19
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (15 bp):
TTATTAATTTTGTTA
Found at i:52184644 original size:12 final size:12
Alignment explanation
Indices: 52184613--52184671 Score: 56
Period size: 12 Copynumber: 5.2 Consensus size: 12
52184603 GTTTTTAGTC
52184613 TATT-TTATTAAT
1 TATTGTTATT-AT
52184625 T-TTGTTATTAT
1 TATTGTTATTAT
*
52184636 TATTTTTATTAT
1 TATTGTTATTAT
*
52184648 TA-TATTA-TA-
1 TATTGTTATTAT
52184657 TATTGTTATTAT
1 TATTGTTATTAT
52184669 TAT
1 TAT
52184672 ACCTACATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
9 2 0.05
10 6 0.15
11 11 0.28
12 20 0.51
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (12 bp):
TATTGTTATTAT
Found at i:52184665 original size:21 final size:20
Alignment explanation
Indices: 52184630--52184672 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
52184620 TTAATTTTGT
*
52184630 TATTATTATTTTTATTATTA
1 TATTATTATTGTTATTATTA
52184650 TATTATATATTGTTATTATTA
1 TATTAT-TATTGTTATTATTA
52184671 TA
1 TA
52184673 CCTACATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
TATTATTATTGTTATTATTA
Found at i:52184919 original size:17 final size:16
Alignment explanation
Indices: 52184897--52184928 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
52184887 AATTTTTAGG
52184897 ATGTAATTATTATTTTT
1 ATGTAATTATT-TTTTT
52184914 ATGTAATTATTTTTT
1 ATGTAATTATTTTTT
52184929 AATTATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (16 bp):
ATGTAATTATTTTTTT
Found at i:52185466 original size:19 final size:20
Alignment explanation
Indices: 52185425--52185466 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
52185415 ATTTCCATGC
* *
52185425 CATTGTAATATTTATTGTTG
1 CATTGTAATATTTAATGTAG
52185445 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATGTAG
52185464 CAT
1 CAT
52185467 CACATCATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATGTAG
Found at i:52194826 original size:40 final size:39
Alignment explanation
Indices: 52194757--52194838 Score: 128
Period size: 40 Copynumber: 2.1 Consensus size: 39
52194747 CGCACTAGAA
*
52194757 AGAAGCTCATAGAGCTAATACAACTGAAACACGCCAAAC
1 AGAAGCTCATAGAGCTAATACAACCGAAACACGCCAAAC
* *
52194796 AGAAGCTCATGAGAGCTGATCCAACCGAAACACGCCAAAC
1 AGAAGCTCAT-AGAGCTAATACAACCGAAACACGCCAAAC
52194836 AGA
1 AGA
52194839 GTATAACACG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
39 10 0.26
40 29 0.74
ACGTcount: A:0.44, C:0.27, G:0.18, T:0.11
Consensus pattern (39 bp):
AGAAGCTCATAGAGCTAATACAACCGAAACACGCCAAAC
Found at i:52195931 original size:17 final size:18
Alignment explanation
Indices: 52195899--52195932 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52195889 TAAGGAAATC
52195899 CAATTATAATTCTTTAAT
1 CAATTATAATTCTTTAAT
*
52195917 CAATTATCA-TCTTTAA
1 CAATTATAATTCTTTAA
52195933 ATTAATAGCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (18 bp):
CAATTATAATTCTTTAAT
Found at i:52196732 original size:33 final size:34
Alignment explanation
Indices: 52196655--52196734 Score: 92
Period size: 33 Copynumber: 2.4 Consensus size: 34
52196645 AGCTTACCTC
* * *
52196655 GTGTTTACTGTCCTACTGGACTTACCTTTGTTCT
1 GTGTTTATTGTCCTACTGGACTTACCTCTGGTCT
* *
52196689 ATGTTTATTGTCCTAGC-GGACTT-TCTCTGGTCT
1 GTGTTTATTGTCCTA-CTGGACTTACCTCTGGTCT
52196722 GTGTTTATTGTCC
1 GTGTTTATTGTCC
52196735 CAACAAACTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
33 19 0.49
34 19 0.49
35 1 0.03
ACGTcount: A:0.11, C:0.21, G:0.20, T:0.47
Consensus pattern (34 bp):
GTGTTTATTGTCCTACTGGACTTACCTCTGGTCT
Found at i:52196745 original size:33 final size:33
Alignment explanation
Indices: 52196683--52196849 Score: 138
Period size: 33 Copynumber: 5.1 Consensus size: 33
52196673 GACTTACCTT
* * **
52196683 TGTTCTATGTTTATTGTCCTAGCGGACTTTCTC
1 TGTTCTATGTTTATTGTCCCAACAAACTTTCTC
* * *
52196716 TGGTCTGTGTTTATTGTCCCAACAAACTTTATC
1 TGTTCTATGTTTATTGTCCCAACAAACTTTCTC
* **
52196749 TGTTCTATGTTTAGTGTCCCAACCGAC-TTCTC
1 TGTTCTATGTTTATTGTCCCAACAAACTTTCTC
* * * * * * *
52196781 TGTTTTGTGTTTACTATTCCAACAAACTATCTT
1 TGTTCTATGTTTATTGTCCCAACAAACTTTCTC
* ** *
52196814 TGTTTTATGTTTATTGTCTTAACGAACTTTCTC
1 TGTTCTATGTTTATTGTCCCAACAAACTTTCTC
52196847 TGT
1 TGT
52196850 GGATGCTATG
Statistics
Matches: 102, Mismatches: 31, Indels: 2
0.76 0.23 0.01
Matches are distributed among these distances:
32 24 0.24
33 78 0.76
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.47
Consensus pattern (33 bp):
TGTTCTATGTTTATTGTCCCAACAAACTTTCTC
Found at i:52196806 original size:65 final size:66
Alignment explanation
Indices: 52196683--52196848 Score: 174
Period size: 65 Copynumber: 2.5 Consensus size: 66
52196673 GACTTACCTT
* * * * * *
52196683 TGTTCTATGTTTATTGTCCTAGCGGACTTTCTCTGGTCTGTGTTTATTGTCCCAACAAACTTTAT
1 TGTTCTATGTTTATTGTCCCAACCGACTTTCTCTGGTCTGTGTTTACTATCCCAACAAACTATAT
52196748 C
66 C
* * * * *
52196749 TGTTCTATGTTTAGTGTCCCAACCGAC-TTCTCTGTTTTGTGTTTACTATTCCAACAAACTATCT
1 TGTTCTATGTTTATTGTCCCAACCGACTTTCTCTGGTCTGTGTTTACTATCCCAACAAACTATAT
*
52196813 T
66 C
* **
52196814 TGTTTTATGTTTATTGTCTTAA-CGAACTTTCTCTG
1 TGTTCTATGTTTATTGTCCCAACCG-ACTTTCTCTG
52196849 TGGATGCTAT
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
64 2 0.02
65 50 0.61
66 30 0.37
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.47
Consensus pattern (66 bp):
TGTTCTATGTTTATTGTCCCAACCGACTTTCTCTGGTCTGTGTTTACTATCCCAACAAACTATAT
C
Found at i:52199567 original size:137 final size:138
Alignment explanation
Indices: 52199370--52199647 Score: 495
Period size: 139 Copynumber: 2.0 Consensus size: 138
52199360 ATTTCAAATT
*
52199370 CACTCATTCACATAACACTATAACAATTTATTATGTAGGCACGGTACAAAACTCCATCACTCCAA
1 CACTCATTCACATAACACTATAACAATTTATTATGTAGACACGGTACAAAACTCCATCACTCCAA
*
52199435 TTA-CTCTTTTGGAACTCATCACATTTCAATCACACATTCATATTTGCTTGCAATTTCTCATATC
66 TTATATCTTTTGGAACTCATCACATTTCAATCACACATTCATATTTGCTTGCAATTTCTCATATC
52199499 CCGTTGAA
131 CCGTTGAA
*
52199507 CACTCATTCACATAACACTATAGCAATTTATTATGTAGACACGGTACAAAACTCCATCACTCCAA
1 CACTCATTCACATAACACTATAACAATTTATTATGTAGACACGGTACAAAACTCCATCACTCCAA
* *
52199572 TTATTATTTTTTTGAACTCATCACATTTCAATCACACATTCATATTTGCTTGCAATTTCTCATAT
66 TTA-TATCTTTTGGAACTCATCACATTTCAATCACACATTCATATTTGCTTGCAATTTCTCATAT
52199637 CCCGTTGAA
130 CCCGTTGAA
52199646 CA
1 CA
52199648 TGTTGGTATA
Statistics
Matches: 134, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
137 66 0.49
139 68 0.51
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.35
Consensus pattern (138 bp):
CACTCATTCACATAACACTATAACAATTTATTATGTAGACACGGTACAAAACTCCATCACTCCAA
TTATATCTTTTGGAACTCATCACATTTCAATCACACATTCATATTTGCTTGCAATTTCTCATATC
CCGTTGAA
Found at i:52202702 original size:23 final size:22
Alignment explanation
Indices: 52202659--52202716 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
52202649 AAAGGGTATC
* *
52202659 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
52202680 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
52202703 TGCATATCATATCT
1 TACAAATCATATCT
52202717 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:52205756 original size:22 final size:23
Alignment explanation
Indices: 52205715--52205758 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
52205705 CCCGGCCCAT
*
52205715 ATTAAATATATAACATATATTTG
1 ATTAAAAATATAACATATATTTG
*
52205738 ATTAAAAATA-AATATATATTT
1 ATTAAAAATATAACATATATTT
52205759 AATATATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
ATTAAAAATATAACATATATTTG
Found at i:52215991 original size:30 final size:30
Alignment explanation
Indices: 52215936--52215992 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
52215926 AATGAGCATC
*
52215936 ACACATGGCCTAGACACACGGGTGTGTGTG
1 ACACATGGCCTAGACACACGAGTGTGTGTG
* *
52215966 ACACATGGCCTAGAGACATGAGTGTGT
1 ACACATGGCCTAGACACACGAGTGTGT
52215993 TTTCAGCCGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.21
Consensus pattern (30 bp):
ACACATGGCCTAGACACACGAGTGTGTGTG
Found at i:52217033 original size:6 final size:6
Alignment explanation
Indices: 52217019--52217072 Score: 56
Period size: 6 Copynumber: 8.7 Consensus size: 6
52217009 TCTTATTCTA
* *
52217019 AAAAGAG AAAAAG AAAAAG AAAGAA- AAAAAT AAAAAG AAAGAG AAAAGAG
1 AAAA-AG AAAAAG AAAAAG AAA-AAG AAAAAG AAAAAG AAAAAG AAAA-AG
52217069 AAAA
1 AAAA
52217073 TTAAAAAAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
5 2 0.05
6 27 0.66
7 12 0.29
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:52217047 original size:18 final size:18
Alignment explanation
Indices: 52217020--52217072 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
52217010 CTTATTCTAA
*
52217020 AAAGAGAAAAAGAAAAAG
1 AAAGAAAAAAAGAAAAAG
*
52217038 AAAGAAAAAAATAAAAAG
1 AAAGAAAAAAAGAAAAAG
*
52217056 AAAGAGAAAAGAGAAAA
1 AAAGA-AAAAAAGAAAA
52217073 TTAAAAAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 21 0.70
19 9 0.30
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (18 bp):
AAAGAAAAAAAGAAAAAG
Found at i:52217053 original size:24 final size:25
Alignment explanation
Indices: 52217026--52217079 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
52217016 CTAAAAAGAG
52217026 AAAAAGAAAAAG-AAAGAAAAAAAT
1 AAAAAGAAAAAGAAAAGAAAAAAAT
* * *
52217050 AAAAAGAAAGAGAAAAGAGAAAATT
1 AAAAAGAAAAAGAAAAGAAAAAAAT
52217075 AAAAA
1 AAAAA
52217080 AAGTTTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 11 0.42
25 15 0.58
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.06
Consensus pattern (25 bp):
AAAAAGAAAAAGAAAAGAAAAAAAT
Found at i:52218118 original size:17 final size:17
Alignment explanation
Indices: 52218096--52218128 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
52218086 TAAATGAAAA
52218096 AAATGCTAGGGCAATTG
1 AAATGCTAGGGCAATTG
*
52218113 AAATGCTATGGCAATT
1 AAATGCTAGGGCAATT
52218129 CTCAAAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.27
Consensus pattern (17 bp):
AAATGCTAGGGCAATTG
Found at i:52221671 original size:44 final size:45
Alignment explanation
Indices: 52221601--52221691 Score: 157
Period size: 44 Copynumber: 2.0 Consensus size: 45
52221591 TAAATTTGTC
* *
52221601 AAAACTTGGTTGAGTCCTTTAGTTGTCATTATCTTGACAAATTGA
1 AAAACTTGGTTGAGTCCTTCAATTGTCATTATCTTGACAAATTGA
52221646 AAAACTTGG-TGAGTCCTTCAATTGTCATTATCTTGACAAATTGA
1 AAAACTTGGTTGAGTCCTTCAATTGTCATTATCTTGACAAATTGA
52221690 AA
1 AA
52221692 GTGTTCATCA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
44 35 0.80
45 9 0.20
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.37
Consensus pattern (45 bp):
AAAACTTGGTTGAGTCCTTCAATTGTCATTATCTTGACAAATTGA
Found at i:52223827 original size:46 final size:45
Alignment explanation
Indices: 52223774--52224190 Score: 516
Period size: 46 Copynumber: 9.6 Consensus size: 45
52223764 TTTGAGTACT
* *
52223774 TCTGATCAAGTGATAAAGTGGTAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
52223820 TCTGATC-AGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
52223865 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
52223911 TCTGATCAAGTGAAAAAGTGAT-A-----AG-TT--CTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
52223947 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
52223993 TCTGATCAAGTGAAAAAGTGATAA---GT-G-TTA--T--ACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
52224029 TCTGATCAAGTGACCAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
52224075 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTCTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
52224121 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
52224166 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
52224191 ATCATATGTA
Statistics
Matches: 332, Mismatches: 18, Indels: 45
0.84 0.05 0.11
Matches are distributed among these distances:
36 56 0.17
37 1 0.00
38 3 0.01
39 1 0.00
40 6 0.02
42 6 0.02
43 14 0.04
44 8 0.02
45 63 0.19
46 174 0.52
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:52223943 original size:36 final size:36
Alignment explanation
Indices: 52223902--52224054 Score: 155
Period size: 36 Copynumber: 4.0 Consensus size: 36
52223892 GTAGCATTAG
52223902 CTACACTTATCTGATCAAGTGAAAAAGTGATAAGTT
1 CTACACTTATCTGATCAAGTGAAAAAGTGATAAGTT
* *
52223938 CTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 CTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG--TT
52223982 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
1 --CTACACTTATCTGATCAAGTGAAAAAGTGATAAGT-T
* **
52224021 -TATACTTATCTGATCAAGTGACCAAGTGATAAGT
1 CTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
52224055 GTTAGCCTTA
Statistics
Matches: 99, Mismatches: 7, Indels: 22
0.77 0.05 0.17
Matches are distributed among these distances:
36 60 0.61
37 1 0.01
38 1 0.01
39 1 0.01
40 2 0.02
42 2 0.02
44 2 0.02
45 1 0.01
46 29 0.29
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (36 bp):
CTACACTTATCTGATCAAGTGAAAAAGTGATAAGTT
Found at i:52223948 original size:82 final size:82
Alignment explanation
Indices: 52223856--52224190 Score: 453
Period size: 82 Copynumber: 4.0 Consensus size: 82
52223846 GTAGCATTAG
*
52223856 CTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAG
1 CTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAG
52223921 TGAAAAAGTGATAAGT-T
65 TGAAAAAGTGATAAGTGT
*
52223938 CTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAG
1 CTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAG
52224003 TGAAAAAGTGATAAGTGT
65 TGAAAAAGTGATAAGTGT
* * *
52224021 -TATACTTATCTGATCAAGTGACCAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAG
1 CTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAAG
*
52224085 TGAGAAAGTGATAAGTGGT
65 TGAAAAAGTGATAAGT-GT
*
52224104 AGCCTTAGCTACTCTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCT
1 ---C-TA-C-A--CTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCT
* *
52224169 GATC-AG-GGACAAGTGATAAGTG
58 GATCAAGTGAAAAAGTGATAAGTG
52224191 ATCATATGTA
Statistics
Matches: 226, Mismatches: 15, Indels: 18
0.87 0.06 0.07
Matches are distributed among these distances:
82 151 0.67
83 4 0.02
88 3 0.01
89 12 0.05
90 3 0.01
91 20 0.09
92 33 0.15
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.29
Consensus pattern (82 bp):
CTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGT
GAAAAAGTGATAAGTGT
Done.