Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 142 of 161
Found at i:44231337 original size:59 final size:58
Alignment explanation
Indices: 44231168--44231339 Score: 150
Period size: 61 Copynumber: 2.9 Consensus size: 58
44231158 ATCATATTTA
* * * *
44231168 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAAT
1 AACATATTTATTATTAAATATATTCTAATTAAAATATATAATTTAATAAAA-TATAAAT
* * * * * * * * *
44231227 AATCA-ATATTCTTATATGAATTTACTCAAATCATAATATATGATACT-ATAAAATATAAATT
1 AA-CATAT-TTATTAT-TAAATATATTCTAATTAAAATATATAAT-TTAATAAAATATAAA-T
*
44231288 AACATATTTATTATTAAATATATTGTAATTAAAATATATAATTTAATAAAAT
1 AACATATTTATTATTAAATATATTCTAATTAAAATATATAATTTAATAAAAT
44231340 TCTTAATAAT
Statistics
Matches: 83, Mismatches: 23, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
58 1 0.01
59 30 0.36
60 20 0.24
61 31 0.37
62 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (58 bp):
AACATATTTATTATTAAATATATTCTAATTAAAATATATAATTTAATAAAATATAAAT
Found at i:44231467 original size:77 final size:77
Alignment explanation
Indices: 44231372--44231598 Score: 418
Period size: 77 Copynumber: 2.9 Consensus size: 77
44231362 ATGAATTTAC
* *
44231372 TGAACTTGACAATTAGATATATTTTAATCTTTGAACTTAAAAAATATAAAATTTTATTGACATAA
1 TGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTTATTGACATAA
44231437 CACTTTAATAAT
66 CACTTTAATAAT
**
44231449 TGAACTTGACAAAAAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTTATTGACATAA
1 TGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTTATTGACATAA
44231514 CACTTTAATAAT
66 CACTTTAATAAT
44231526 TGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTTATTGACATAA
1 TGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTTATTGACATAA
44231591 CACTTTAA
66 CACTTTAA
44231599 GATTGTCTCA
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 144 1.00
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.40
Consensus pattern (77 bp):
TGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTTATTGACATAA
CACTTTAATAAT
Found at i:44234172 original size:15 final size:15
Alignment explanation
Indices: 44234152--44234180 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
44234142 ATGAAGGAAA
44234152 AAAGGGAAATAAGAT
1 AAAGGGAAATAAGAT
44234167 AAAGGGAAATAAGA
1 AAAGGGAAATAAGA
44234181 AGGAAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.28, T:0.10
Consensus pattern (15 bp):
AAAGGGAAATAAGAT
Found at i:44236539 original size:42 final size:42
Alignment explanation
Indices: 44236425--44236587 Score: 159
Period size: 42 Copynumber: 3.9 Consensus size: 42
44236415 GCGTTTACAG
* * *
44236425 ATAAAAACACTGCTAAAGGTCATGTTCTTTAGCGGCCCTTTAA
1 ATAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGC-TTAA
* * *
44236468 A-ATTAAACACCACTAAAGATCATGTTCTTTAGCGGCGCTTGA
1 ATA-AAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTTAA
** * *
44236510 ATAAAAAGGCCGCTAAAGAACATGTTCTTTAGCGGCGATTAA
1 ATAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTTAA
* * * *
44236552 ATAAAAACGCAGCTATAA-ATCACGTACTTTAGCGGC
1 ATAAAAACACCGCTA-AAGATCATGTTCTTTAGCGGC
44236588 ACCTTTTCAC
Statistics
Matches: 99, Mismatches: 18, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
42 65 0.66
43 34 0.34
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (42 bp):
ATAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTTAA
Found at i:44237372 original size:18 final size:17
Alignment explanation
Indices: 44237337--44237369 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
44237327 AACCTACTTT
44237337 ATATGTACAAAAAATTA
1 ATATGTACAAAAAATTA
44237354 ATATGTACAAAAAATT
1 ATATGTACAAAAAATT
44237370 TAAAATAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (17 bp):
ATATGTACAAAAAATTA
Found at i:44240385 original size:145 final size:146
Alignment explanation
Indices: 44240121--44240444 Score: 508
Period size: 146 Copynumber: 2.2 Consensus size: 146
44240111 TTATTTTTCT
* *
44240121 GGCGTTTTTTTATAAAAACGCCGCTATTGCTTACCTTTAGCGGCGTTGTTATGACAAACGCCGCA
1 GGCG-TTTTTTA-AAAAACGCCGCTATTGCTTACCTTTACCGGCGTTGTTATGAAAAACGCCGCA
* * *
44240186 ATTTTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTTTAAT
64 AATTTTTTTCATTTTGAACAAAACGACGCCGTCTTGCTATTCTAAAATTTTTTTATTTTTTT-AT
44240251 AAATTGATTTATTTTTTGC
128 AAATTGATTTATTTTTTGC
* * *
44240270 GGCG-TTTTTAAAAAACGCCGCTATTGCTTATCTTTTCCGGCGTTTTTATGAAAAACGCCGCAAA
1 GGCGTTTTTTAAAAAACGCCGCTATTGCTTACCTTTACCGGCGTTGTTATGAAAAACGCCGCAAA
44240334 TTTTTTT-ATTTTGAACAAAACGACGCCGTCTTGCTATTCTAAAATTTTTTTATTTTTTTATAAA
66 TTTTTTTCATTTTGAACAAAACGACGCCGTCTTGCTATTCTAAAATTTTTTTATTTTTTTATAAA
44240398 TTGATTTATTTTTTGC
131 TTGATTTATTTTTTGC
44240414 GGCGTTTTTATAAAAAAAACGCCGCTATTGC
1 GGCGTTTTT-T--AAAAAACGCCGCTATTGC
44240445 ATTTTGAACA
Statistics
Matches: 163, Mismatches: 8, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
144 25 0.15
145 54 0.33
146 56 0.34
147 6 0.04
148 18 0.11
149 4 0.02
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (146 bp):
GGCGTTTTTTAAAAAACGCCGCTATTGCTTACCTTTACCGGCGTTGTTATGAAAAACGCCGCAAA
TTTTTTTCATTTTGAACAAAACGACGCCGTCTTGCTATTCTAAAATTTTTTTATTTTTTTATAAA
TTGATTTATTTTTTGC
Found at i:44240530 original size:31 final size:31
Alignment explanation
Indices: 44240494--44240565 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
44240484 TTTTTATTTT
*
44240494 ATTTTTTAT-AAATTGATTTATTTTTTGCGGC
1 ATTTTTTATGAAATTG-TTTATCTTTTGCGGC
* **
44240525 GTTTTTTATGCTATTGTTTATCTTTTGCGGC
1 ATTTTTTATGAAATTGTTTATCTTTTGCGGC
44240556 A-TTTTTATGA
1 ATTTTTTATGA
44240566 CAAAAGCCTC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
30 8 0.24
31 22 0.65
32 4 0.12
ACGTcount: A:0.18, C:0.08, G:0.15, T:0.58
Consensus pattern (31 bp):
ATTTTTTATGAAATTGTTTATCTTTTGCGGC
Found at i:44240626 original size:245 final size:246
Alignment explanation
Indices: 44240195--44240661 Score: 676
Period size: 245 Copynumber: 1.9 Consensus size: 246
44240185 AATTTTTTTT
* *
44240195 CATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTTTAATAAATTGATT
1 CATTTTGAACAAAACGACACCGTTTTGCTATGCTAAATTTTTTTTATTTTTTTAATAAATTGATT
*
44240260 TATTTTTTGCGGCGTTTTTAAAAAACGCCGCTATTGCTTATCTTTTCCGGCGTTTTTATGAAAAA
66 TATTTTTTGCGGCGTTTTT---AAA--CCGCTATTGCTTATCTTTTCCGGCATTTTTATGAAAAA
44240325 CGCCGCAAATTTTTTTATTTTGAACAAAACGACGCCGTCTTGCTATTCTAAAA-TTTTTTTATTT
126 CGCCGCAAATTTTTTTATTTTGAACAAAACGACGCCGTCTTGCTATTCTAAAATTTTTTTTATTT
44240389 TTTT-ATAAATTGATTTATTTTTTGCGGCGTTTTTATAAAAAAAACGCCGCTATTG
191 TTTTAATAAATTGATTTATTTTTTGCGGCGTTTTTATAAAAAAAACGCCGCTATTG
* *
44240444 CATTTTGAACAAAATGACACCGTTTTGCTATGCTAAAAATTTTTTATT-TTATTTTTTATAAATT
1 CATTTTGAACAAAACGACACCGTTTTGCTATGCT--AAATTTTTT-TTATT-TTTTTAATAAATT
* * * *
44240508 GATTTATTTTTTGCGGCGTTTTT-TA-TGCTATTGTTTATCTTTTGCGGCATTTTTATGACAAAA
62 GATTTATTTTTTGCGGCGTTTTTAAACCGCTATTGCTTATCTTTTCCGGCATTTTTATGA-AAAA
* * * *
44240571 -GCCTCAAATTTTTTTCATTTTGAACAAAACGTCGCCGTTTTGCTATTCTAAATTTTTTTTTATT
126 CGCCGCAAATTTTTTT-ATTTTGAACAAAACGACGCCGTCTTGCTATTCTAAAATTTTTTTTATT
44240635 TTTTTAATAAATTGATTTATTTTTTGC
190 TTTTTAATAAATTGATTTATTTTTTGC
44240662 AAACGCCGCT
Statistics
Matches: 197, Mismatches: 13, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
245 43 0.22
246 38 0.19
247 15 0.08
248 22 0.11
249 31 0.16
251 11 0.06
252 37 0.19
ACGTcount: A:0.26, C:0.13, G:0.12, T:0.48
Consensus pattern (246 bp):
CATTTTGAACAAAACGACACCGTTTTGCTATGCTAAATTTTTTTTATTTTTTTAATAAATTGATT
TATTTTTTGCGGCGTTTTTAAACCGCTATTGCTTATCTTTTCCGGCATTTTTATGAAAAACGCCG
CAAATTTTTTTATTTTGAACAAAACGACGCCGTCTTGCTATTCTAAAATTTTTTTTATTTTTTTA
ATAAATTGATTTATTTTTTGCGGCGTTTTTATAAAAAAAACGCCGCTATTG
Found at i:44240716 original size:135 final size:133
Alignment explanation
Indices: 44240534--44240794 Score: 434
Period size: 135 Copynumber: 1.9 Consensus size: 133
44240524 CGTTTTTTAT
* *
44240534 GCTATTGTTTATCTTTTGCGGCATTTTTATGACAAAAGCCTCAAATTTTTTTCATTTTGAACAAA
1 GCTATTGCTTATCTTTTGCGGCATTTTTATGACAAAAGCCGCAAATTTTTTTCATTTTGAACAAA
* * *
44240599 ACGTCGCCGTTTTGCTATTCTAAATTTTTTTTTATTTTTTTAATAAATTGATTTATTTTTTGCAA
66 ACGACGCCGTCTTGCTATTCTAAA-TTTTTTTTATTTCTTT-ATAAATTGATTTATTTTTTGCAA
44240664 ACGCC
129 ACGCC
*
44240669 GCTATTGCTTATCTTTTGCGGCGTTTTTATGA-AAAACGCCGCAAATTTTTTTCATTTTGAACAA
1 GCTATTGCTTATCTTTTGCGGCATTTTTATGACAAAA-GCCGCAAATTTTTTTCATTTTGAACAA
44240733 AACGACGCCGTCTTGCTATTCTAAATTTTTTTTATTTCTTTATAAATTGATTTATTTTTTGC
65 AACGACGCCGTCTTGCTATTCTAAATTTTTTTTATTTCTTTATAAATTGATTTATTTTTTGC
44240795 GGCGTTTTTT
Statistics
Matches: 119, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
133 21 0.18
134 19 0.16
135 79 0.66
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.48
Consensus pattern (133 bp):
GCTATTGCTTATCTTTTGCGGCATTTTTATGACAAAAGCCGCAAATTTTTTTCATTTTGAACAAA
ACGACGCCGTCTTGCTATTCTAAATTTTTTTTATTTCTTTATAAATTGATTTATTTTTTGCAAAC
GCC
Found at i:44240911 original size:107 final size:104
Alignment explanation
Indices: 44240677--44240912 Score: 298
Period size: 107 Copynumber: 2.2 Consensus size: 104
44240667 CCGCTATTGC
* * *
44240677 TTATCTTTTGCGGCG-TTTTTATGAAAAACGCCGCAAATTTTTTTCATTTTGAACAAAACGACGC
1 TTATTTTTTGCGGCGTTTTTTATGAAAAACGCCGC--A--TATTTCATTTTGAACAAAACGACAC
*
44240741 CGTCTTGCTATTCTAAATTTTTTTTATTTCTTTATAAATTGAT
62 CGTCTTGCTATGCTAAATTTTTTTTATTTCTTTATAAATTGAT
* *
44240784 TTATTTTTTGCGGCGTTTTTTAT-AAAAACGCCGC-TATTTCATTTTGAACAAAATGACACCGTT
1 TTATTTTTTGCGGCGTTTTTTATGAAAAACGCCGCATATTTCATTTTGAACAAAACGACACCGTC
* *
44240847 TTGTTATGCTAAAAATTTTTTATTTTATTTTTTTATAAATTGAT
66 TTGCTATGCT--AAA--TTTT-TTTTATTTCTTTATAAATTGAT
44240891 TTATTTTTTGCGGCGTTTTTTA
1 TTATTTTTTGCGGCGTTTTTTA
44240913 GCTATTTCTT
Statistics
Matches: 115, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
102 33 0.29
104 3 0.03
106 4 0.03
107 68 0.59
108 7 0.06
ACGTcount: A:0.25, C:0.13, G:0.12, T:0.49
Consensus pattern (104 bp):
TTATTTTTTGCGGCGTTTTTTATGAAAAACGCCGCATATTTCATTTTGAACAAAACGACACCGTC
TTGCTATGCTAAATTTTTTTTATTTCTTTATAAATTGAT
Found at i:44240961 original size:379 final size:380
Alignment explanation
Indices: 44240143--44241038 Score: 1471
Period size: 379 Copynumber: 2.3 Consensus size: 380
44240133 TAAAAACGCC
* * * * *
44240143 GCTATTGCTTACCTTTAGCGGCGTTGTTATGACAAACGCCGCAATTTTTTTTCATTTTGAACAAA
1 GCTATTTCTTATCTTTTGCGGCGTTTTTATGACAAACGCCGCAAATTTTTTTCATTTTGAACAAA
44240208 ACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTTTAATAAATTGATTTATTTTTTGCGGC
66 ACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTTTAATAAATTGATTTATTTTTT---GC
44240273 GTTTTTAAAAAACGCCGCTATTGCTTATCTTTTCCGGCGTTTTTATGAAAAACGCCGCAAATTTT
128 -----T---AAACGCCGCTATTGCTTATCTTTTCCGGCGTTTTTATGAAAAACGCCGCAAATTTT
*
44240338 TTTATTTTGAACAAAACGACGCCGTCTTGCTATTCTAAAATTTTTTTATTTTTTTATAAATTGAT
185 TTTATTTTGAACAAAACGACGCCGTCTTGCTATTCTAAAATTTTTTTATTTCTTTATAAATTGAT
44240403 TTATTTTTTGCGGCGTTTTTATAAAAAAAACGCCGCTATTGCATTTTGAACAAAATGACACCGTT
250 TTATTTTTTGCGGCGTTTTTATAAAAAAAACGCCGCTATTGCATTTTGAACAAAATGACACCGTT
44240468 TTGCTATGCTAAAAATTTTTTATTTTATTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTTA
315 TTGCTATGCTAAAAATTTTTTATTTTATTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTTA
44240533 T
380 T
* * *
44240534 GCTATTGT-TTATCTTTTGCGGCATTTTTATGACAAAAGCCTCAAATTTTTTTCATTTTGAACAA
1 GCTATT-TCTTATCTTTTGCGGCGTTTTTATGACAAACGCCGCAAATTTTTTTCATTTTGAACAA
*
44240598 AACGTCGCCGTTTTGCTATTCTAAATTTTTTTTTATTTTTTTAATAAATTGATTTATTTTTTGC-
65 AACGACGCCGTTTTGCTATTCTAAA-TTTTTTTTATTTTTTTAATAAATTGATTTATTTTTTGCT
*
44240662 AAACGCCGCTATTGCTTATCTTTTGCGGCGTTTTTATGAAAAACGCCGCAAATTTTTTTCATTTT
129 AAACGCCGCTATTGCTTATCTTTTCCGGCGTTTTTATGAAAAACGCCGCAAATTTTTTT-ATTTT
*
44240727 GAACAAAACGACGCCGTCTTGCTATTCTAAATTTTTTTTATTTCTTTATAAATTGATTTATTTTT
193 GAACAAAACGACGCCGTCTTGCTATTCTAAAATTTTTTTATTTCTTTATAAATTGATTTATTTTT
* * *
44240792 TGCGGCGTTTTT-T-ATAAAAACGCCGCTATTTCATTTTGAACAAAATGACACCGTTTTGTTATG
258 TGCGGCGTTTTTATAAAAAAAACGCCGCTATTGCATTTTGAACAAAATGACACCGTTTTGCTATG
44240855 CTAAAAATTTTTTATTTTATTTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTTA-
323 CTAAAAATTTTTTATTTTA-TTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTTAT
44240913 GCTATTTCTTATCTTTTGCGGCGTTTTTATGACAAACGCCGCAAATTTTTTTCATTTTGAACAAA
1 GCTATTTCTTATCTTTTGCGGCGTTTTTATGACAAACGCCGCAAATTTTTTTCATTTTGAACAAA
*
44240978 ACGACGCCTTTTTGCTATTCTAAA-TTTTTTTATTTTTTTAATAAATTGATTTATTTTTTGC
66 ACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTTTAATAAATTGATTTATTTTTTGC
44241039 GGCGTTTTTA
Statistics
Matches: 480, Mismatches: 20, Indels: 24
0.92 0.04 0.05
Matches are distributed among these distances:
377 37 0.08
378 1 0.00
379 148 0.31
380 97 0.20
381 80 0.17
389 2 0.00
391 79 0.16
392 36 0.08
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.48
Consensus pattern (380 bp):
GCTATTTCTTATCTTTTGCGGCGTTTTTATGACAAACGCCGCAAATTTTTTTCATTTTGAACAAA
ACGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTTTTAATAAATTGATTTATTTTTTGCTAA
ACGCCGCTATTGCTTATCTTTTCCGGCGTTTTTATGAAAAACGCCGCAAATTTTTTTATTTTGAA
CAAAACGACGCCGTCTTGCTATTCTAAAATTTTTTTATTTCTTTATAAATTGATTTATTTTTTGC
GGCGTTTTTATAAAAAAAACGCCGCTATTGCATTTTGAACAAAATGACACCGTTTTGCTATGCTA
AAAATTTTTTATTTTATTTTTTATAAATTGATTTATTTTTTGCGGCGTTTTTTAT
Found at i:44241692 original size:21 final size:21
Alignment explanation
Indices: 44241668--44241719 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
44241658 ATCTAACCCC
*
44241668 TAAACCCTTAACCC-TAAACCT
1 TAAACCC-TAACCCTTAAACCA
44241689 TAAATCCC-AACCCTTAAACCA
1 TAAA-CCCTAACCCTTAAACCA
*
44241710 TAATCCCTAA
1 TAAACCCTAA
44241720 TTCATAATCC
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 8 0.31
21 15 0.58
22 3 0.12
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAACCCTAACCCTTAAACCA
Found at i:44241714 original size:20 final size:20
Alignment explanation
Indices: 44241677--44241716 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
44241667 CTAAACCCTT
*
44241677 AACCCTAAACCTTAAATCCC
1 AACCCTAAACCATAAATCCC
44241697 AACCCTTAAACCAT-AATCCC
1 AACCC-TAAACCATAAATCCC
44241717 TAATTCATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (20 bp):
AACCCTAAACCATAAATCCC
Found at i:44241725 original size:14 final size:14
Alignment explanation
Indices: 44241707--44241748 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
44241697 AACCCTTAAA
44241707 CCATAATCCCTAAT
1 CCATAATCCCTAAT
*
44241721 TCATAATCCCTAAAT
1 CCATAATCCCT-AAT
*
44241736 CCATACTCCCTAA
1 CCATAATCCCTAA
44241749 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:44241745 original size:15 final size:15
Alignment explanation
Indices: 44241703--44241749 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
44241693 TCCCAACCCT
44241703 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
*
44241717 T-AATTCATAATCCC
1 TAAATCCATAATCCC
*
44241731 TAAATCCATACTCCC
1 TAAATCCATAATCCC
44241746 TAAA
1 TAAA
44241750 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:44241968 original size:22 final size:22
Alignment explanation
Indices: 44241914--44241987 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 22
44241904 CCCTAACTCG
* *
44241914 ACCCCTAAATCCCT-AACTTTTA
1 ACCCCTAAA-CCCTAAACCTCTA
*
44241936 ATCCCTAAAACCCTAAACCTCTA
1 ACCCCT-AAACCCTAAACCTCTA
** *
44241959 ACCCCTAAACATTAAATC-CTA
1 ACCCCTAAACCCTAAACCTCTA
44241980 ACCCCTAA
1 ACCCCTAA
44241988 TCCATAATCC
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
21 11 0.26
22 18 0.42
23 14 0.33
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.24
Consensus pattern (22 bp):
ACCCCTAAACCCTAAACCTCTA
Found at i:44242579 original size:114 final size:113
Alignment explanation
Indices: 44242427--44242810 Score: 562
Period size: 114 Copynumber: 3.4 Consensus size: 113
44242417 GAAAGCTCGC
* *
44242427 CGTTGGACTTAGGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGG
1 CGTTGGGCTTAGGATTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGG
* * *
44242492 TGCGTTCTTAAAAACGCCGCTAAATCGCCGAAAGCTCAGAAAACAGCGT
66 CGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAG-AAACAGCGT
*
44242541 CGTTGGGCTTAGGATTTTTTGCGGCGCTTTCCCAAAAACGCTGCTAAAGCCCTGAGCATTAGCGG
1 CGTTGGGCTTAGGATTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGG
*
44242606 CGCTTTCTTAAAAACGCTGCTAAATCCCCGAAAGCTCAGAAA-A-CG-
66 CGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAACAGCGT
* ** *
44242651 CGTTGGGCTTAAGATTTTTTGCGGCGCTTTTTCAAAAACGCCGTTAAAGCCCTGAGCATTAGCGG
1 CGTTGGGCTTAGGATTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGG
* *
44242716 CGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCGGGAAAC-GATGT
66 CGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTC-AGAAACAG-CGT
** *
44242765 CGTTTCGCTTAGG-TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAA
1 CGTTGGGCTTAGGATTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAA
44242811 TGCTTATTTT
Statistics
Matches: 245, Mismatches: 20, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
110 96 0.39
111 6 0.02
112 1 0.00
113 35 0.14
114 107 0.44
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (113 bp):
CGTTGGGCTTAGGATTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGG
CGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAACAGCGT
Found at i:44242738 original size:224 final size:216
Alignment explanation
Indices: 44242268--44242810 Score: 766
Period size: 224 Copynumber: 2.5 Consensus size: 216
44242258 TAAATTATTT
* *
44242268 TTAGCGGCGCTTT-TCCAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGC
1 TTAGCGGCGCTTTCT-TAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC-GCGTCGTTGGGC
* *
44242332 TTAGGTTTTCTTGCGGCGCGTT-CCAAAAACGCCGCTAAAGCCCTGAGCGTTAGCGGCACTTTCT
64 TTAGGTTTT-TTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCACTTTCT
* *
44242396 TAAAAACGCCGCTAAATCCCCGAAAGCTCGCCGTTGGACTTAGGTTTTTTTGCGGCGCTTTCCCA
128 TAAAAACGCCGCTAAATCCCCGAAAGCTCGCCGTTGGACTTAAGATTTTTTGCGGCGCTTTCCCA
44242461 AAAACGCCGCTAAAGCCCTGAGCA
193 AAAACGCCGCTAAAGCCCTGAGCA
* * *
44242485 TTAGCGGTGCGTTCTTAAAAACGCCGCTAAATCGCCGAAAGCTCAGAAAACAGCGTCGTTGGGCT
1 TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC-GCGTCGTTGGGCT
* *
44242550 TAGGATTTTTTGCGGCGCTTTCCCAAAAACGCTGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTT
65 TAGG-TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCACTTTCTT
* *
44242615 AAAAACGCTGCTAAATCCCCGAAAGCTCAGAAAACGCGTTGGGCTTAAGATTTTTTGCGGCGCTT
129 AAAAACGCCGCTAAATCCCCGAAAGCTC-G----C-CGTTGGACTTAAGATTTTTTGCGGCGCTT
** *
44242680 TTTCAAAAACGCCGTTAAAGCCCTGAGCA
188 TCCCAAAAACGCCGCTAAAGCCCTGAGCA
* * * **
44242709 TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCGGGAAACGATGTCGTTTCGCT
1 TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACG-CGTCGTTGGGCT
*
44242774 TAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAA
65 TAGGTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAA
44242811 TGCTTATTTT
Statistics
Matches: 289, Mismatches: 27, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
217 72 0.25
218 72 0.25
219 1 0.00
223 33 0.11
224 111 0.38
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (216 bp):
TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGCGTCGTTGGGCTT
AGGTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCACTTTCTTAA
AAACGCCGCTAAATCCCCGAAAGCTCGCCGTTGGACTTAAGATTTTTTGCGGCGCTTTCCCAAAA
ACGCCGCTAAAGCCCTGAGCA
Found at i:44252705 original size:13 final size:13
Alignment explanation
Indices: 44252687--44252711 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44252677 AAAATAAAAA
44252687 TATTTATAATTTT
1 TATTTATAATTTT
44252700 TATTTATAATTT
1 TATTTATAATTT
44252712 AGCATAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTTATAATTTT
Found at i:44252729 original size:36 final size:37
Alignment explanation
Indices: 44252680--44252767 Score: 103
Period size: 36 Copynumber: 2.5 Consensus size: 37
44252670 TTTACTAAAA
* *
44252680 ATAAAAAT-ATTTATAATTTTTA-TTTATAATTT-AG
1 ATAAATATAATTTATAATTTATATTTTATAATTTGAG
*
44252714 CATAAATATAATTTAT-ATTTATATTTTATTATTTGAG
1 -ATAAATATAATTTATAATTTATATTTTATAATTTGAG
*
44252751 TTAAATATAATTTATAA
1 ATAAATATAATTTATAA
44252768 AATATTTTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
35 13 0.29
36 29 0.64
37 3 0.07
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.52
Consensus pattern (37 bp):
ATAAATATAATTTATAATTTATATTTTATAATTTGAG
Found at i:44269139 original size:21 final size:22
Alignment explanation
Indices: 44269113--44269159 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
44269103 CTCTGCTCAA
*
44269113 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
44269134 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
44269156 ACTC
1 ACTC
44269160 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:44275558 original size:26 final size:26
Alignment explanation
Indices: 44275529--44275578 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
44275519 TCTGATTTTG
44275529 CTTTTTG-GAATTTTCTTAATAGAATA
1 CTTTTTGTGAATTTTCTTAA-AGAATA
**
44275555 CTTTTTGTTCATTTTCTTAAAGAA
1 CTTTTTGTGAATTTTCTTAAAGAA
44275579 CTTGAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 11 0.52
27 10 0.48
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.52
Consensus pattern (26 bp):
CTTTTTGTGAATTTTCTTAAAGAATA
Found at i:44275639 original size:17 final size:17
Alignment explanation
Indices: 44275600--44275639 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
44275590 TATGGTACTT
*
44275600 TATTTATATATATATAA
1 TATTTATATATATACAA
*
44275617 TATTTATATATTTACAA
1 TATTTATATATATACAA
*
44275634 TTTTTA
1 TATTTA
44275640 AGCTTCCACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
TATTTATATATATACAA
Found at i:44275949 original size:14 final size:13
Alignment explanation
Indices: 44275930--44275961 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
44275920 CATTTCGTTA
44275930 TTTTATTGTTATT
1 TTTTATTGTTATT
44275943 GTTTTATTGTTATT
1 -TTTTATTGTTATT
44275957 TTTTA
1 TTTTA
44275962 AATATTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.16, C:0.00, G:0.09, T:0.75
Consensus pattern (13 bp):
TTTTATTGTTATT
Found at i:44276752 original size:32 final size:29
Alignment explanation
Indices: 44276693--44276750 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
44276683 TGGGATAAAA
44276693 TTAGTTTTTGTATTATTAAATAGATTAAT
1 TTAGTTTTTGTATTATTAAATAGATTAAT
* *
44276722 TTAGTTTTTTTATTATTAAA-AAATTAAT
1 TTAGTTTTTGTATTATTAAATAGATTAAT
44276750 T
1 T
44276751 AAATATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 8 0.30
29 19 0.70
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (29 bp):
TTAGTTTTTGTATTATTAAATAGATTAAT
Found at i:44276776 original size:21 final size:20
Alignment explanation
Indices: 44276752--44276790 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
44276742 AAATTAATTA
44276752 AATATAAATTGTAATAAAACT
1 AATATAAATTGT-ATAAAACT
**
44276773 AATATTTATTGTATAAAA
1 AATATAAATTGTATAAAA
44276791 ATGTCTTGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (20 bp):
AATATAAATTGTATAAAACT
Found at i:44295145 original size:28 final size:29
Alignment explanation
Indices: 44295100--44295156 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 29
44295090 AAACTTTCTC
44295100 CTTTTATTTTTTATTTATTCTCATGGTTG
1 CTTTTATTTTTTATTTATTCTCATGGTTG
*
44295129 CTTTTA-TTTTTATTTATTCTCATTGTTG
1 CTTTTATTTTTTATTTATTCTCATGGTTG
44295157 TTGGAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 21 0.78
29 6 0.22
ACGTcount: A:0.14, C:0.11, G:0.09, T:0.67
Consensus pattern (29 bp):
CTTTTATTTTTTATTTATTCTCATGGTTG
Found at i:44295165 original size:28 final size:28
Alignment explanation
Indices: 44295107--44295165 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
44295097 CTCCTTTTAT
**
44295107 TTTTTATTTATTCTCATGGTTGCTTTTA
1 TTTTTATTTATTCTCATGGTTGCTTGAA
*
44295135 TTTTTATTTATTCTCATTGTTG-TTGGAA
1 TTTTTATTTATTCTCATGGTTGCTT-GAA
44295163 TTT
1 TTT
44295166 AGAGGTATGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 2 0.07
28 25 0.93
ACGTcount: A:0.15, C:0.08, G:0.12, T:0.64
Consensus pattern (28 bp):
TTTTTATTTATTCTCATGGTTGCTTGAA
Found at i:44295505 original size:19 final size:19
Alignment explanation
Indices: 44295481--44295535 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
44295471 AAAGTAATAA
44295481 TAAAATTAACAAATGTCTT
1 TAAAATTAACAAATGTCTT
44295500 TAAAA-TAAC-AA---C--
1 TAAAATTAACAAATGTCTT
44295512 -AAAATTAACAAATGTCTT
1 TAAAATTAACAAATGTCTT
44295530 TAAAAT
1 TAAAAT
44295536 AATAACAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 16
0.64 0.00 0.36
Matches are distributed among these distances:
11 4 0.14
12 4 0.14
13 2 0.07
14 1 0.04
16 1 0.04
17 2 0.07
18 4 0.14
19 10 0.36
ACGTcount: A:0.55, C:0.11, G:0.04, T:0.31
Consensus pattern (19 bp):
TAAAATTAACAAATGTCTT
Found at i:44295516 original size:30 final size:30
Alignment explanation
Indices: 44295482--44295552 Score: 133
Period size: 30 Copynumber: 2.4 Consensus size: 30
44295472 AAGTAATAAT
44295482 AAAATTAACAAATGTCTTTAAAATAACAAC
1 AAAATTAACAAATGTCTTTAAAATAACAAC
*
44295512 AAAATTAACAAATGTCTTTAAAATAATAAC
1 AAAATTAACAAATGTCTTTAAAATAACAAC
44295542 AAAATTAACAA
1 AAAATTAACAA
44295553 TAAAATATGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.59, C:0.11, G:0.03, T:0.27
Consensus pattern (30 bp):
AAAATTAACAAATGTCTTTAAAATAACAAC
Found at i:44297161 original size:15 final size:15
Alignment explanation
Indices: 44297129--44297166 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
44297119 ATTTATTACT
*
44297129 TTAAAAAGTAAAATA
1 TTAAAAATTAAAATA
44297144 TTAATAAATTAAAA-A
1 TTAA-AAATTAAAATA
44297159 TTAAAAAT
1 TTAAAAAT
44297167 ATTATTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 4 0.19
15 9 0.43
16 8 0.38
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (15 bp):
TTAAAAATTAAAATA
Found at i:44302507 original size:24 final size:25
Alignment explanation
Indices: 44302479--44302535 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 25
44302469 AAAGTATGAC
*
44302479 AAAAATTAAATTA-CTATTTTTTTT
1 AAAAATTAAATTATCTATTTTCTTT
44302503 AAAAA--AAATTATCTATTTTCTTT
1 AAAAATTAAATTATCTATTTTCTTT
*
44302526 -AGAATTAAAT
1 AAAAATTAAAT
44302536 AAATAAAGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
22 9 0.32
23 10 0.36
24 9 0.32
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (25 bp):
AAAAATTAAATTATCTATTTTCTTT
Found at i:44303710 original size:24 final size:25
Alignment explanation
Indices: 44303677--44303726 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
44303667 GATTTGAATT
44303677 TTAAAATTTTGAAAAATAAAG-AAA
1 TTAAAATTTTGAAAAATAAAGTAAA
* * *
44303701 TTAAACTTTTGGAAATTAAAGTAAA
1 TTAAAATTTTGAAAAATAAAGTAAA
44303726 T
1 T
44303727 GGACTAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.34
Consensus pattern (25 bp):
TTAAAATTTTGAAAAATAAAGTAAA
Found at i:44304420 original size:19 final size:19
Alignment explanation
Indices: 44304386--44304430 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
44304376 ACAAATGACC
* *
44304386 TAAATTTTTATTTTAT-AT
1 TAAATTCTTATATTATAAT
44304404 TAATATTCTTATATTATAAT
1 TAA-ATTCTTATATTATAAT
44304424 TAAATTC
1 TAAATTC
44304431 AAGTTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 3 0.13
19 15 0.65
20 5 0.22
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (19 bp):
TAAATTCTTATATTATAAT
Found at i:44306480 original size:933 final size:933
Alignment explanation
Indices: 44304674--44306543 Score: 3740
Period size: 933 Copynumber: 2.0 Consensus size: 933
44304664 CAATAATGGC
44304674 GAAGCCATAAAACATTTTAGGGGGTCAAAATTAAATTATAATTTTTACGATAGTAAAAATATAAT
1 GAAGCCATAAAACATTTTAGGGGGTCAAAATTAAATTATAATTTTTACGATAGTAAAAATATAAT
44304739 TTCATCATTTTAATAGCCTATATTTTTATAAATTTTAAAATATTAAATTAAAAATTTATCATTTT
66 TTCATCATTTTAATAGCCTATATTTTTATAAATTTTAAAATATTAAATTAAAAATTTATCATTTT
44304804 TAGGAGAACTAAAGTGTAATTTTACGTTTATTAATTTAAAATTTTAAAAAAATTATTTTAGGGGG
131 TAGGAGAACTAAAGTGTAATTTTACGTTTATTAATTTAAAATTTTAAAAAAATTATTTTAGGGGG
44304869 CTCTCGCCAAACTCCTAGTTTTGCCCTTGACTGTTAGTCGATGAAGTGTCAATACACTGACCCAC
196 CTCTCGCCAAACTCCTAGTTTTGCCCTTGACTGTTAGTCGATGAAGTGTCAATACACTGACCCAC
44304934 TTAAAAAGTGACACATGGTGGTCAATGTGAGATATTTTTCCTCTTTAATTTCACCAGGGACCTGA
261 TTAAAAAGTGACACATGGTGGTCAATGTGAGATATTTTTCCTCTTTAATTTCACCAGGGACCTGA
44304999 TAATAAATATACCCTCTTCTTTCCTTTTCACTTCTTCCACTCTTTGAATGGTTTTGCTGCAGACA
326 TAATAAATATACCCTCTTCTTTCCTTTTCACTTCTTCCACTCTTTGAATGGTTTTGCTGCAGACA
44305064 TTGCAGAATGGCTTTGTTGAAAAAATGGAAGAAACCACCGTCCACAAAGCCCAAAAAACACTTAA
391 TTGCAGAATGGCTTTGTTGAAAAAATGGAAGAAACCACCGTCCACAAAGCCCAAAAAACACTTAA
44305129 CCCACTAATTCAACCTCTTAATGAATCAAATCAAACACTAATTCTTAACTCTCCCCGAAATTAAT
456 CCCACTAATTCAACCTCTTAATGAATCAAATCAAACACTAATTCTTAACTCTCCCCGAAATTAAT
44305194 TCTCGAAAATCTCTCCACCTAACTTCTCGAATAACTCAAAACACTAAAATCGACTTTTCAACACC
521 TCTCGAAAATCTCTCCACCTAACTTCTCGAATAACTCAAAACACTAAAATCGACTTTTCAACACC
44305259 GACAAAAATCAGGTCATTACAAAAATGAACACCCAGTGCTCAAAGGCGGCATTGAGGGAGAGCTG
586 GACAAAAATCAGGTCATTACAAAAATGAACACCCAGTGCTCAAAGGCGGCATTGAGGGAGAGCTG
44305324 GCAAGGACCCGGGCATCCTAAAATGAGAAATCGCACTTTTAACCCTTCAAATTTTATAAAATTAT
651 GCAAGGACCCGGGCATCCTAAAATGAGAAATCGCACTTTTAACCCTTCAAATTTTATAAAATTAT
44305389 AAGTTAGTACATGGTAAAAGTACTCTTTAACCCCTTAAAATGATAAAATTTTAATTGCCCTTTAA
716 AAGTTAGTACATGGTAAAAGTACTCTTTAACCCCTTAAAATGATAAAATTTTAATTGCCCTTTAA
44305454 AAAATTATAAAGATACAAATCAATGAAACAATAAAATTATATTTTAACTCTTATAAAAATATATA
781 AAAATTATAAAGATACAAATCAATGAAACAATAAAATTATATTTTAACTCTTATAAAAATATATA
44305519 AGTTAATTTTAATCCTAAAAATTTATAGTTTAGTCCTTGTCTAACATAGAGGTGGTTTTGATTTG
846 AGTTAATTTTAATCCTAAAAATTTATAGTTTAGTCCTTGTCTAACATAGAGGTGGTTTTGATTTG
44305584 TTTGCTAAATAATTGTTTCAAAT
911 TTTGCTAAATAATTGTTTCAAAT
44305607 GAAGCCATAAAACATTTTAGGGGGTCAAAATTAAATTATAATTTTTACGATAGTAAAAATATAAT
1 GAAGCCATAAAACATTTTAGGGGGTCAAAATTAAATTATAATTTTTACGATAGTAAAAATATAAT
44305672 TTCATCATTTTAATAGCCTATATTTTTATAAATTTTAAAATATTAAATTAAAAATTTATCATTTT
66 TTCATCATTTTAATAGCCTATATTTTTATAAATTTTAAAATATTAAATTAAAAATTTATCATTTT
44305737 TAGGAGAACTAAAGTGTAATTTTACGTTTATTAATTTAAAATTTTAAAAAAATTATTTTAGGGGG
131 TAGGAGAACTAAAGTGTAATTTTACGTTTATTAATTTAAAATTTTAAAAAAATTATTTTAGGGGG
44305802 CTCTCGCCAAACTCCTAGTTTTGCCCTTGACTGTTAGTCGATGAAGTGTCAATACACTGACCCAC
196 CTCTCGCCAAACTCCTAGTTTTGCCCTTGACTGTTAGTCGATGAAGTGTCAATACACTGACCCAC
44305867 TTAAAAAGTGACACATGGTGGTCAATGTGAGATATTTTTCCTCTTTAATTTCACCAGGGACCTGA
261 TTAAAAAGTGACACATGGTGGTCAATGTGAGATATTTTTCCTCTTTAATTTCACCAGGGACCTGA
44305932 TAATAAATATACCCTCTTCTTTCCTTTTCACTTCTTCCACTCTTTGAATGGTTTTGCTGCAGACA
326 TAATAAATATACCCTCTTCTTTCCTTTTCACTTCTTCCACTCTTTGAATGGTTTTGCTGCAGACA
44305997 TTGCAGAATGGCTTTGTTGAAAAAATGGAAGAAACCACCGTCCACAAAGCCCAAAAAACACTTAA
391 TTGCAGAATGGCTTTGTTGAAAAAATGGAAGAAACCACCGTCCACAAAGCCCAAAAAACACTTAA
44306062 CCCACTAATTCAACCTCTTAATGAATCAAATCAAACACTAATTCTTAACTCTCCCCGAAATTAAT
456 CCCACTAATTCAACCTCTTAATGAATCAAATCAAACACTAATTCTTAACTCTCCCCGAAATTAAT
44306127 TCTCGAAAATCTCTCCACCTAACTTCTCGAATAACTCAAAACACTAAAATCGACTTTTCAACACC
521 TCTCGAAAATCTCTCCACCTAACTTCTCGAATAACTCAAAACACTAAAATCGACTTTTCAACACC
44306192 GACAAAAATCAGGTCATTACAAAAATGAACACCCAGTGCTCAAAGGCGGCATTGAGGGAGAGCTG
586 GACAAAAATCAGGTCATTACAAAAATGAACACCCAGTGCTCAAAGGCGGCATTGAGGGAGAGCTG
44306257 GCAAGGACCCGGGCATCCTAAAATGAGAAATCGCACTTTTAACCCTTCAAATTTTATAAAATTAT
651 GCAAGGACCCGGGCATCCTAAAATGAGAAATCGCACTTTTAACCCTTCAAATTTTATAAAATTAT
44306322 AAGTTAGTACATGGTAAAAGTACTCTTTAACCCCTTAAAATGATAAAATTTTAATTGCCCTTTAA
716 AAGTTAGTACATGGTAAAAGTACTCTTTAACCCCTTAAAATGATAAAATTTTAATTGCCCTTTAA
44306387 AAAATTATAAAGATACAAATCAATGAAACAATAAAATTATATTTTAACTCTTATAAAAATATATA
781 AAAATTATAAAGATACAAATCAATGAAACAATAAAATTATATTTTAACTCTTATAAAAATATATA
44306452 AGTTAATTTTAATCCTAAAAATTTATAGTTTAGTCCTTGTCTAACATAGAGGTGGTTTTGATTTG
846 AGTTAATTTTAATCCTAAAAATTTATAGTTTAGTCCTTGTCTAACATAGAGGTGGTTTTGATTTG
44306517 TTTGCTAAATAATTGTTTCAAAT
911 TTTGCTAAATAATTGTTTCAAAT
44306540 GAAG
1 GAAG
44306544 AAGGTGATAT
Statistics
Matches: 937, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
933 937 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (933 bp):
GAAGCCATAAAACATTTTAGGGGGTCAAAATTAAATTATAATTTTTACGATAGTAAAAATATAAT
TTCATCATTTTAATAGCCTATATTTTTATAAATTTTAAAATATTAAATTAAAAATTTATCATTTT
TAGGAGAACTAAAGTGTAATTTTACGTTTATTAATTTAAAATTTTAAAAAAATTATTTTAGGGGG
CTCTCGCCAAACTCCTAGTTTTGCCCTTGACTGTTAGTCGATGAAGTGTCAATACACTGACCCAC
TTAAAAAGTGACACATGGTGGTCAATGTGAGATATTTTTCCTCTTTAATTTCACCAGGGACCTGA
TAATAAATATACCCTCTTCTTTCCTTTTCACTTCTTCCACTCTTTGAATGGTTTTGCTGCAGACA
TTGCAGAATGGCTTTGTTGAAAAAATGGAAGAAACCACCGTCCACAAAGCCCAAAAAACACTTAA
CCCACTAATTCAACCTCTTAATGAATCAAATCAAACACTAATTCTTAACTCTCCCCGAAATTAAT
TCTCGAAAATCTCTCCACCTAACTTCTCGAATAACTCAAAACACTAAAATCGACTTTTCAACACC
GACAAAAATCAGGTCATTACAAAAATGAACACCCAGTGCTCAAAGGCGGCATTGAGGGAGAGCTG
GCAAGGACCCGGGCATCCTAAAATGAGAAATCGCACTTTTAACCCTTCAAATTTTATAAAATTAT
AAGTTAGTACATGGTAAAAGTACTCTTTAACCCCTTAAAATGATAAAATTTTAATTGCCCTTTAA
AAAATTATAAAGATACAAATCAATGAAACAATAAAATTATATTTTAACTCTTATAAAAATATATA
AGTTAATTTTAATCCTAAAAATTTATAGTTTAGTCCTTGTCTAACATAGAGGTGGTTTTGATTTG
TTTGCTAAATAATTGTTTCAAAT
Found at i:44308538 original size:21 final size:21
Alignment explanation
Indices: 44308483--44308538 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
44308473 TGAAAATATT
*
44308483 AAATATTAAT-AT-TTTAATAA
1 AAATATTAATAATAATT-ATAA
* *
44308503 AAATATTTATTATAATTATAA
1 AAATATTAATAATAATTATAA
*
44308524 ATATATTAATAATAA
1 AAATATTAATAATAA
44308539 ATATTTTGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 9 0.31
21 18 0.62
22 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AAATATTAATAATAATTATAA
Found at i:44314404 original size:23 final size:23
Alignment explanation
Indices: 44314378--44314447 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
44314368 TTCATTTAAC
*
44314378 TTAATCGAACATGTTCACGGACA
1 TTAATCGAACATGTTCACGAACA
* *
44314401 TTAAACGAACATGTTCATGAACA
1 TTAATCGAACATGTTCACGAACA
**
44314424 TATAATTAAACATGTTCACGAACA
1 T-TAATCGAACATGTTCACGAACA
44314448 ATGTTAATAA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 21 0.54
24 18 0.46
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (23 bp):
TTAATCGAACATGTTCACGAACA
Found at i:44314659 original size:12 final size:12
Alignment explanation
Indices: 44314630--44314683 Score: 67
Period size: 12 Copynumber: 4.6 Consensus size: 12
44314620 ATCATTAATA
44314630 AATAAACGAGTC
1 AATAAACGAGTC
44314642 -ATAAACGAGTC
1 AATAAACGAGTC
44314653 AATAAACGAG-C
1 AATAAACGAGTC
* *
44314664 TTATAAACGAGCC
1 -AATAAACGAGTC
44314677 AATAAAC
1 AATAAAC
44314684 AAGCTTTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
11 12 0.32
12 24 0.65
13 1 0.03
ACGTcount: A:0.50, C:0.19, G:0.15, T:0.17
Consensus pattern (12 bp):
AATAAACGAGTC
Found at i:44314674 original size:24 final size:24
Alignment explanation
Indices: 44314630--44314697 Score: 93
Period size: 24 Copynumber: 2.9 Consensus size: 24
44314620 ATCATTAATA
* *
44314630 AATAAACGAG-TCATAAACGAGTC
1 AATAAACGAGCTTATAAACGAGCC
44314653 AATAAACGAGCTTATAAACGAGCC
1 AATAAACGAGCTTATAAACGAGCC
* *
44314677 AATAAACAAGCTTTTAAACGA
1 AATAAACGAGCTTATAAACGA
44314698 ACTTGTTCGT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 10 0.25
24 30 0.75
ACGTcount: A:0.49, C:0.18, G:0.15, T:0.19
Consensus pattern (24 bp):
AATAAACGAGCTTATAAACGAGCC
Found at i:44319751 original size:27 final size:25
Alignment explanation
Indices: 44319713--44319764 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
44319703 TAATTTTAAT
44319713 TTAAAATAAGAATAATTTTTTAATATA
1 TTAAAATAAGAAT--TTTTTTAATATA
44319740 TTAACAAT-AGAATTTTTTTAATATA
1 TTAA-AATAAGAATTTTTTTAATATA
44319765 AAAGGTTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 12 0.50
27 9 0.38
28 3 0.12
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (25 bp):
TTAAAATAAGAATTTTTTTAATATA
Found at i:44321438 original size:29 final size:29
Alignment explanation
Indices: 44321375--44321446 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
44321365 ATTCACAATA
* *
44321375 AATTGAGCCTTCAACATCTATTTTCATGC
1 AATTGACCCTTCAACATCTATTTTCATCC
*
44321404 ATTTGAACCCTTCAA-ATCTATTTTCATCC
1 AATTG-ACCCTTCAACATCTATTTTCATCC
*
44321433 AATTGAGCCTTCAA
1 AATTGACCCTTCAA
44321447 TCTGACAATT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
28 8 0.22
29 21 0.57
30 8 0.22
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (29 bp):
AATTGACCCTTCAACATCTATTTTCATCC
Found at i:44332041 original size:15 final size:15
Alignment explanation
Indices: 44332021--44332069 Score: 89
Period size: 15 Copynumber: 3.3 Consensus size: 15
44332011 AACCTTCTGA
*
44332021 TGATTCTCTACCAAT
1 TGATTCTCTACCAGT
44332036 TGATTCTCTACCAGT
1 TGATTCTCTACCAGT
44332051 TGATTCTCTACCAGT
1 TGATTCTCTACCAGT
44332066 TGAT
1 TGAT
44332070 GCAATGGAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.41
Consensus pattern (15 bp):
TGATTCTCTACCAGT
Found at i:44348959 original size:6 final size:6
Alignment explanation
Indices: 44348950--44348980 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
44348940 ATTGTTGTTG
44348950 TTGCCA TTGCCA TTGCCA TTGCCA TTGCCA T
1 TTGCCA TTGCCA TTGCCA TTGCCA TTGCCA T
44348981 CAACAGCATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.35
Consensus pattern (6 bp):
TTGCCA
Found at i:44351927 original size:42 final size:43
Alignment explanation
Indices: 44351819--44351983 Score: 165
Period size: 43 Copynumber: 3.8 Consensus size: 43
44351809 AGCTCGTATA
*
44351819 ATGCC-ATCGTCCCAGACATGGTCTTACATGTAATCAAATATCG
1 ATGCCAAT-GTCCCAGACATGGTCTTACACGTAATCAAATATCG
* * * *
44351862 ATGCCACTGTCCTAGACAGGGTCTTATACG-AAGTCAAATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAA-TCAAATATCG
* ***
44351904 ATGCCAATGTCCCAGATATGGTCTTACACGTAATTTTCATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAA-TCAAATATCG
* * * *
44351948 ATGCCAACGTCCTAGACGTGGTCTTACACGAAATCA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCA
44351984 CATACCAGAA
Statistics
Matches: 97, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
42 29 0.30
43 37 0.38
44 31 0.32
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATCG
Found at i:44351979 original size:86 final size:85
Alignment explanation
Indices: 44351819--44351988 Score: 211
Period size: 86 Copynumber: 2.0 Consensus size: 85
44351809 AGCTCGTATA
*
44351819 ATGCCATCGTCCCAGACATGGTCTTACATGTAATCAAATATCGATGCCACTGTCCTAGACAGGGT
1 ATGCCATCGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCTAGACAGGGT
* *
44351884 CTTATACGAAGTCAAATACG
66 CTTACACGAAATCAAATACG
* ***
44351904 ATGCCAAT-GTCCCAGATATGGTCTTACACGTAATTTTCATATCGATGCCAAC-GTCCTAGAC-G
1 ATGCC-ATCGTCCCAGACATGGTCTTACACGTAA-TCAAATATCGATGCC-ACTGTCCTAGACAG
*
44351966 TGGTCTTACACGAAATCACATAC
63 -GGTCTTACACGAAATCAAATAC
44351989 CAGAATCCTA
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
85 29 0.40
86 42 0.58
87 2 0.03
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (85 bp):
ATGCCATCGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCTAGACAGGGT
CTTACACGAAATCAAATACG
Found at i:44353576 original size:30 final size:30
Alignment explanation
Indices: 44353532--44353594 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
44353522 ACTTAACAAG
44353532 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
44353562 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
44353592 CAA
1 CAA
44353595 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:44357627 original size:3 final size:3
Alignment explanation
Indices: 44357610--44357681 Score: 51
Period size: 3 Copynumber: 23.3 Consensus size: 3
44357600 TTTAGCAATT
* *
44357610 TTA TTA TTTA GTTA TTA TTA TTA -TA TCTA TTA TTA CTA TTA TCA TCT-
1 TTA TTA -TTA -TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T-TA
*
44357657 TTA CTA TTA TTA -TA GTTA TTA TTA T
1 TTA TTA TTA TTA TTA -TTA TTA TTA T
44357682 AGTTTTTTTA
Statistics
Matches: 55, Mismatches: 7, Indels: 14
0.72 0.09 0.18
Matches are distributed among these distances:
2 5 0.09
3 39 0.71
4 11 0.20
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:44357642 original size:12 final size:11
Alignment explanation
Indices: 44357622--44357682 Score: 59
Period size: 12 Copynumber: 5.2 Consensus size: 11
44357612 ATTATTTAGT
44357622 TATTATTATTA
1 TATTATTATTA
44357633 TATCTATTATTA
1 TAT-TATTATTA
* *
44357645 CTATTATCATCTT
1 -TATTATTAT-TA
*
44357658 TACTATTATTA
1 TATTATTATTA
44357669 TAGTTATTATTA
1 TA-TTATTATTA
44357681 TA
1 TA
44357683 GTTTTTTTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
11 6 0.15
12 30 0.75
13 4 0.10
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (11 bp):
TATTATTATTA
Found at i:44357683 original size:12 final size:12
Alignment explanation
Indices: 44357661--44357685 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44357651 TCATCTTTAC
44357661 TATTATTATAGT
1 TATTATTATAGT
44357673 TATTATTATAGT
1 TATTATTATAGT
44357685 T
1 T
44357686 TTTTTATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (12 bp):
TATTATTATAGT
Found at i:44358027 original size:16 final size:16
Alignment explanation
Indices: 44357994--44358027 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
44357984 TTGAATGAAG
44357994 TTTTAATTTTATTCGT
1 TTTTAATTTTATTCGT
44358010 TTTTATATTTTATT-GT
1 TTTTA-ATTTTATTCGT
44358026 TT
1 TT
44358028 GTATGTTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.18, C:0.03, G:0.06, T:0.74
Consensus pattern (16 bp):
TTTTAATTTTATTCGT
Found at i:44362818 original size:41 final size:41
Alignment explanation
Indices: 44362767--44362899 Score: 135
Period size: 41 Copynumber: 3.2 Consensus size: 41
44362757 TTTAAACAGA
* **
44362767 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTTTAATTCAG
1 TTCACCGGCACTT-AGCCTGATAGGCTTATAGCCTAATTCAG
* * *
44362808 TTCACCGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGATAGGCTTATAGCCTAATTCAG
* * * * *
44362849 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCC-GATTCAA
1 TTCACCGGCACTTAGCCTGATAGGCTTATAG-CCTAATTCAG
44362890 TTCACCGGCA
1 TTCACCGGCA
44362900 NNNNNNNNNN
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
40 1 0.01
41 77 0.96
42 2 0.03
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGATAGGCTTATAGCCTAATTCAG
Found at i:44365031 original size:41 final size:41
Alignment explanation
Indices: 44364863--44365008 Score: 213
Period size: 41 Copynumber: 3.6 Consensus size: 41
44364853 TTTAAACAGA
* * * ** * *
44364863 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTTTAATTCCG
1 TTCACCGGCACTT-AGCCTGCTAGGCCTATAGCCTGATTCAG
44364904 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
44364945 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
44364986 TTCACCGGCACTTAGCCTGCTAG
1 TTCACCGGCACTTAGCCTGCTAG
44365009 ACGTATAGTC
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
40 1 0.01
41 96 0.99
ACGTcount: A:0.20, C:0.30, G:0.21, T:0.29
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
Found at i:44365031 original size:82 final size:82
Alignment explanation
Indices: 44364863--44365036 Score: 215
Period size: 82 Copynumber: 2.1 Consensus size: 82
44364853 TTTAAACAGA
* ** * *
44364863 TTCACTGGCACTTCACCTGATAGGCTTATAGTTTAATTCCGTTCACCGGCACTTAGCCTGCTAGG
1 TTCACTGGCACTTCACCTGATAGGCCTATAGCCTAATTCAGTTCACCGGCACTTAGCCTGCTAGA
* *
44364928 CCTATAGCCTGATTCAG
66 CCTATAGCCTGAATAAG
* * *
44364945 TTCACCGGCACTT-AGCCTGCTAGGCCTATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAG
1 TTCACTGGCACTTCA-CCTGATAGGCCTATAGCCTAATTCAGTTCACCGGCACTTAGCCTGCTAG
* * *
44365009 ACGTATAGTCTGAATAAT
65 ACCTATAGCCTGAATAAG
44365027 TTCACTGGCA
1 TTCACTGGCA
44365037 ATAAATCCGA
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
81 1 0.01
82 76 0.99
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (82 bp):
TTCACTGGCACTTCACCTGATAGGCCTATAGCCTAATTCAGTTCACCGGCACTTAGCCTGCTAGA
CCTATAGCCTGAATAAG
Found at i:44369695 original size:54 final size:53
Alignment explanation
Indices: 44369602--44369706 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 53
44369592 ATTAGAAATC
* *
44369602 ATAAAAAATTAAAAATTAAAAATATGAAAATTGAGATAAA-CTTAAAATTTTT
1 ATAAAAAATTAAAAATTAAAAATATAAAAATTGAGATAAATCATAAAATTTTT
*
44369654 ATAAAAAATTATAAATATTATAAAA-ATAAAAATTCTA-ATAAATCATAAAATTT
1 ATAAAAAATTA-AAA-ATTA-AAAATATAAAAATT-GAGATAAATCATAAAATTT
44369707 ATAAAACATA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
52 11 0.24
53 3 0.07
54 17 0.38
55 14 0.31
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (53 bp):
ATAAAAAATTAAAAATTAAAAATATAAAAATTGAGATAAATCATAAAATTTTT
Found at i:44369742 original size:21 final size:21
Alignment explanation
Indices: 44369699--44369759 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
44369689 TAATAAATCA
44369699 TAAAA-TTTATAAAACATATT
1 TAAAATTTTATAAAACATATT
*
44369719 TAAAATTTTATTAAAACGTA-T
1 TAAAATTTTA-TAAAACATATT
44369740 TAAAATTTTATAAAACATAT
1 TAAAATTTTATAAAACATAT
44369760 AAATCATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
20 13 0.36
21 15 0.42
22 8 0.22
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (21 bp):
TAAAATTTTATAAAACATATT
Found at i:44370283 original size:28 final size:25
Alignment explanation
Indices: 44370225--44370285 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 25
44370215 AGTTTATATC
*
44370225 AATTTTAATATTTTATAATTTTTTT
1 AATTTTAATATTTAATAATTTTTTT
*
44370250 ATTTTTAATGATTCTAATACATTTTTTT
1 AATTTTAAT-ATT-TAATA-ATTTTTTT
44370278 AATTTTAA
1 AATTTTAA
44370286 ATAAGTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 8 0.27
26 3 0.10
27 4 0.13
28 15 0.50
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (25 bp):
AATTTTAATATTTAATAATTTTTTT
Found at i:44370368 original size:20 final size:19
Alignment explanation
Indices: 44370311--44370368 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 19
44370301 AATTATATTT
44370311 TATAATATTT-ATAGTTTTT-
1 TATAAT-TTTAATA-TTTTTA
**
44370330 TATAATTTTAATAAGTTTA
1 TATAATTTTAATATTTTTA
44370349 TATAAATTTTAATATTTTTA
1 TAT-AATTTTAATATTTTTA
44370369 CTATTTTTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
18 6 0.19
19 12 0.38
20 14 0.44
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
TATAATTTTAATATTTTTA
Found at i:44370445 original size:9 final size:9
Alignment explanation
Indices: 44370198--44370447 Score: 60
Period size: 9 Copynumber: 27.6 Consensus size: 9
44370188 CTAATTCAAG
*
44370198 TTTTTATGA
1 TTTTTATAA
*
44370207 TTTTTACAA
1 TTTTTATAA
*
44370216 GTTTATATCAA
1 -TTTTTAT-AA
*
44370227 TTTTAAT-A
1 TTTTTATAA
44370235 -TTTTATAA
1 TTTTTATAA
*
44370243 TTTTT-TTA
1 TTTTTATAA
*
44370251 TTTTTAATGA
1 TTTTT-ATAA
* *
44370261 TTCTAATACA
1 TTTTTATA-A
*
44370271 TTTTTTTAA
1 TTTTTATAA
*
44370280 TTTTAAATAA
1 TTTT-TATAA
*
44370290 GTTTTATTAA
1 TTTTTA-TAA
***
44370300 AAATTAT-A
1 TTTTTATAA
44370308 -TTTTATAA
1 TTTTTATAA
* *
44370316 TATTTATAGT
1 TTTTTATA-A
44370326 TTTTTATAA
1 TTTTTATAA
*
44370335 TTTTAATAA
1 TTTTTATAA
*
44370344 GTTTATATAA
1 -TTTTTATAA
*
44370354 ATTTTA-ATA
1 TTTTTATA-A
44370363 TTTTTACT-A
1 TTTTTA-TAA
44370372 TTTTTACT-A
1 TTTTTA-TAA
*
44370381 -TTTAAT-A
1 TTTTTATAA
*
44370388 TTTTT-TAT
1 TTTTTATAA
*
44370396 TTTTTATAG
1 TTTTTATAA
44370405 TTATATT-TAGA
1 TT-T-TTATA-A
44370416 TTTTTAT-A
1 TTTTTATAA
44370424 TTTTT-TGAGA
1 TTTTTAT-A-A
44370434 TTTTTATAA
1 TTTTTATAA
44370443 TTTTT
1 TTTTT
44370448 TATGGGAAAA
Statistics
Matches: 175, Mismatches: 39, Indels: 54
0.65 0.15 0.20
Matches are distributed among these distances:
7 13 0.07
8 30 0.17
9 66 0.38
10 59 0.34
11 7 0.04
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:44388066 original size:13 final size:14
Alignment explanation
Indices: 44388040--44388066 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44388030 TTGTTAATAC
44388040 CATTAAATTTTTTT
1 CATTAAATTTTTTT
44388054 CATTAAATTTTTT
1 CATTAAATTTTTT
44388067 GGTATGACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (14 bp):
CATTAAATTTTTTT
Found at i:44388460 original size:16 final size:16
Alignment explanation
Indices: 44388439--44388469 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
44388429 AATAAAAATA
44388439 AAAATAATATAATTTC
1 AAAATAATATAATTTC
44388455 AAAATAATATAATTT
1 AAAATAATATAATTT
44388470 ACTTTGTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
AAAATAATATAATTTC
Found at i:44395812 original size:11 final size:11
Alignment explanation
Indices: 44395804--44395873 Score: 80
Period size: 11 Copynumber: 6.8 Consensus size: 11
44395794 TAAAAAAAGC
44395804 ATTTTAAAAAT
1 ATTTTAAAAAT
44395815 ATTTTAAAAAT
1 ATTTTAAAAAT
44395826 ATTTT--AAA-
1 ATTTTAAAAAT
44395834 A--TTAAAAA-
1 ATTTTAAAAAT
*
44395842 AATTTAAAAAGT
1 ATTTTAAAAA-T
44395854 ATTTTAAAAAT
1 ATTTTAAAAAT
44395865 ATTTTAAAA
1 ATTTTAAAA
44395874 TTAAAAAAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
6 2 0.04
8 5 0.10
9 3 0.06
10 7 0.13
11 26 0.50
12 9 0.17
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (11 bp):
ATTTTAAAAAT
Found at i:44395846 original size:28 final size:28
Alignment explanation
Indices: 44395807--44395862 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
44395797 AAAAAGCATT
*
44395807 TTAAAAATATTTTAAAAA-TATTTTAAAA
1 TTAAAAA-AATTTAAAAAGTATTTTAAAA
44395835 TTAAAAAAATTTAAAAAGTATTTTAAAA
1 TTAAAAAAATTTAAAAAGTATTTTAAAA
44395863 ATATTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 9 0.35
28 17 0.65
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (28 bp):
TTAAAAAAATTTAAAAAGTATTTTAAAA
Found at i:44395868 original size:39 final size:38
Alignment explanation
Indices: 44395777--44395890 Score: 165
Period size: 39 Copynumber: 2.8 Consensus size: 38
44395767 ATAAATACCA
44395777 AAAAATATTTTTAAAATTAAAAAAAGCATTTTAAAAATATTTT
1 AAAAATA-TTTTAAAATT-AAAAAA--A-TTTAAAAATATTTT
44395820 AAAAATATTTTAAAATTAAAAAAATTTAAAAAGTATTTT
1 AAAAATATTTTAAAATTAAAAAAATTTAAAAA-TATTTT
*
44395859 AAAAATATTTTAAAATTAAAAAAAATTAAAAA
1 AAAAATATTTTAAAATTAAAAAAATTTAAAAA
44395891 AATAAATATA
Statistics
Matches: 69, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
38 8 0.12
39 38 0.55
41 6 0.09
42 10 0.14
43 7 0.10
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (38 bp):
AAAAATATTTTAAAATTAAAAAAATTTAAAAATATTTT
Found at i:44404099 original size:28 final size:28
Alignment explanation
Indices: 44404059--44404113 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
44404049 TTCTCACGCC
44404059 TTGTCATGAGATATGTCACAAAAATACT
1 TTGTCATGAGATATGTCACAAAAATACT
44404087 TTGTCATGAGATATGTCACAAAAATAC
1 TTGTCATGAGATATGTCACAAAAATAC
44404114 AATAGAAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (28 bp):
TTGTCATGAGATATGTCACAAAAATACT
Found at i:44405058 original size:23 final size:23
Alignment explanation
Indices: 44405010--44405061 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
44405000 AAGTTCAAGA
*
44405010 AATG-CAGAAATACAAGATAGAT
1 AATGCCAGAAATACAAGATAGAG
*
44405032 AATGCCAGAAATACAA-ATAAGCG
1 AATGCCAGAAATACAAGAT-AGAG
44405055 AATGCCA
1 AATGCCA
44405062 ACAAAACAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 6 0.23
23 20 0.77
ACGTcount: A:0.52, C:0.15, G:0.17, T:0.15
Consensus pattern (23 bp):
AATGCCAGAAATACAAGATAGAG
Found at i:44405423 original size:13 final size:13
Alignment explanation
Indices: 44405405--44405432 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
44405395 AAAAAATCCG
44405405 AAATCTGTACACA
1 AAATCTGTACACA
44405418 AAATCTGTACACA
1 AAATCTGTACACA
44405431 AA
1 AA
44405433 CTACAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.21, G:0.07, T:0.21
Consensus pattern (13 bp):
AAATCTGTACACA
Found at i:44407612 original size:20 final size:20
Alignment explanation
Indices: 44407589--44407631 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
44407579 TATTTTAAGA
*
44407589 TTTA-GAATTATAGTTTATAG
1 TTTAGGAATTAAAGTTT-TAG
*
44407609 TTTAGGATTTAAAGTTTTAG
1 TTTAGGAATTAAAGTTTTAG
44407629 TTT
1 TTT
44407632 TAGAGTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.53
Consensus pattern (20 bp):
TTTAGGAATTAAAGTTTTAG
Found at i:44407625 original size:21 final size:22
Alignment explanation
Indices: 44407600--44407660 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
44407590 TTAGAATTAT
44407600 AGTTTATAG-TTTAG-GATTTAA
1 AGTTTATAGTTTTAGAG-TTTAA
44407621 AGTTT-TAGTTTTAGAGTTTAA
1 AGTTTATAGTTTTAGAGTTTAA
*
44407642 AGTTTA-AATTTTA-AGTTTA
1 AGTTTATAGTTTTAGAGTTTA
44407661 GGCTTTAAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
20 9 0.25
21 26 0.72
22 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (22 bp):
AGTTTATAGTTTTAGAGTTTAA
Found at i:44407628 original size:35 final size:35
Alignment explanation
Indices: 44407580--44407647 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
44407570 GTTATACTAT
* * *
44407580 ATTTTAAGATTTAGAATTATAGTTTATAGTTTAGG
1 ATTTAAAGATTTAGAATTAGAGTTTAAAGTTTAGG
* **
44407615 ATTTAAAGTTTTAGTTTTAGAGTTTAAAGTTTA
1 ATTTAAAGATTTAGAATTAGAGTTTAAAGTTTA
44407648 AATTTTAAGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (35 bp):
ATTTAAAGATTTAGAATTAGAGTTTAAAGTTTAGG
Found at i:44407674 original size:27 final size:25
Alignment explanation
Indices: 44407582--44407674 Score: 80
Period size: 27 Copynumber: 3.4 Consensus size: 25
44407572 TATACTATAT
* *
44407582 TTTAAGATTTAGAATTATAGTTTATAG
1 TTTAAGATTTA-AATTTTAGTTTA-GG
*
44407609 TTTAGGATTTAAAGTTTTAGTTTTAGAG
1 TTTAAGATTTAAA-TTTTAG-TTTAG-G
44407637 TTTAA-AGTTTAAATTTTAAGTTTAGG
1 TTTAAGA-TTTAAATTTT-AGTTTAGG
44407663 CTTTAAGATTTA
1 -TTTAAGATTTA
44407675 GGGTTTTTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
26 3 0.05
27 34 0.62
28 18 0.33
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.49
Consensus pattern (25 bp):
TTTAAGATTTAAATTTTAGTTTAGG
Found at i:44408128 original size:42 final size:42
Alignment explanation
Indices: 44408070--44408156 Score: 138
Period size: 42 Copynumber: 2.1 Consensus size: 42
44408060 TTTTAAAAAT
* *
44408070 AATATGGGCGAGTTTAAAATGAGCTTAAGTTAATCTTTTGAA
1 AATATGGGCGAATTTAAAATGAGCTTAAGTTAATCTATTGAA
* *
44408112 AATATGGGCGAATTTAAAATGAGCTTACGTTAATCTATTGCA
1 AATATGGGCGAATTTAAAATGAGCTTAAGTTAATCTATTGAA
44408154 AAT
1 AAT
44408157 TTGAGAGGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (42 bp):
AATATGGGCGAATTTAAAATGAGCTTAAGTTAATCTATTGAA
Found at i:44411226 original size:29 final size:30
Alignment explanation
Indices: 44411184--44411263 Score: 90
Period size: 29 Copynumber: 2.6 Consensus size: 30
44411174 GAATTGGATC
*
44411184 AAATCGAAATTTCATGTATAAAATTACACA-
1 AAATC-AAAGTTCATGTATAAAATTACACAT
* *
44411214 AAATCAAAGTTCATGTATATAATTGCACATT
1 AAATCAAAGTTCATGTATAAAATTACACA-T
* *
44411245 AAATTATAGTTCATGTATA
1 AAATCAAAGTTCATGTATA
44411264 GTTTTGGGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 21 0.49
30 5 0.12
31 17 0.40
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.35
Consensus pattern (30 bp):
AAATCAAAGTTCATGTATAAAATTACACAT
Found at i:44421190 original size:21 final size:19
Alignment explanation
Indices: 44421153--44421204 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
44421143 AACTCAAACG
**
44421153 GAAAAAGATGAGTAAACCTA
1 GAAAAAGAAAAGTAAA-CTA
44421173 GAAAAAGAAAAGTGAAACTA
1 GAAAAAGAAAAGT-AAACTA
44421193 GAAAAATGAAAA
1 GAAAAA-GAAAA
44421205 ACCGAATATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 20 0.71
21 8 0.29
ACGTcount: A:0.63, C:0.06, G:0.19, T:0.12
Consensus pattern (19 bp):
GAAAAAGAAAAGTAAACTA
Found at i:44423950 original size:23 final size:22
Alignment explanation
Indices: 44423898--44423950 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
44423888 TCCACGTCTT
*
44423898 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
44423920 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
44423943 TTTCTTTT
1 TTTCTTTT
44423951 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:44426323 original size:22 final size:23
Alignment explanation
Indices: 44426298--44426357 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
44426288 TGGACTGAAT
44426298 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
44426320 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
44426342 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
44426358 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:44426325 original size:4 final size:4
Alignment explanation
Indices: 44426307--44426340 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
44426297 TATAAAAATT
44426307 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
44426341 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:44438771 original size:3 final size:3
Alignment explanation
Indices: 44438763--44438791 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
44438753 TGTGTTTCTA
44438763 TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
44438792 TTCTTATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (3 bp):
TCC
Found at i:44439198 original size:29 final size:28
Alignment explanation
Indices: 44439166--44439227 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 28
44439156 TGTAAAAATG
*
44439166 TATTAAAATTCTATAACAATCATAAAAAA
1 TATTAAAATTATATAA-AATCATAAAAAA
* * *
44439195 TATTAAAATTATATAAACTTATAAAAAT
1 TATTAAAATTATATAAAATCATAAAAAA
44439223 TATTA
1 TATTA
44439228 TAAAAAACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 14 0.48
29 15 0.52
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.37
Consensus pattern (28 bp):
TATTAAAATTATATAAAATCATAAAAAA
Found at i:44440373 original size:15 final size:15
Alignment explanation
Indices: 44440355--44440391 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
44440345 AAATATACTA
44440355 GTTTAAGTTTTTTAT
1 GTTTAAGTTTTTTAT
44440370 GTTTTAAGTTTTTTAT
1 G-TTTAAGTTTTTTAT
*
44440386 CTTTAA
1 GTTTAA
44440392 AATATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.22, C:0.03, G:0.11, T:0.65
Consensus pattern (15 bp):
GTTTAAGTTTTTTAT
Found at i:44440622 original size:16 final size:16
Alignment explanation
Indices: 44440601--44440642 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
44440591 AATAATTTGA
*
44440601 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
44440617 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
44440633 TAGTTTTAAT
1 TAATTTTAAT
44440643 TTTATCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:44447877 original size:17 final size:17
Alignment explanation
Indices: 44447837--44447879 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
44447827 AAATTTATAT
*
44447837 TTTTAAAAAAATTATAA
1 TTTTAAAAAAATGATAA
***
44447854 AAATAAAAAAATGATAA
1 TTTTAAAAAAATGATAA
44447871 TTTTAAAAA
1 TTTTAAAAA
44447880 CTTATTAAAA
Statistics
Matches: 19, Mismatches: 7, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
TTTTAAAAAAATGATAA
Found at i:44451079 original size:15 final size:15
Alignment explanation
Indices: 44451061--44451091 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
44451051 TAAAATTAAG
44451061 ATTTTTAAAATATCT
1 ATTTTTAAAATATCT
*
44451076 ATTTTTACAATATCT
1 ATTTTTAAAATATCT
44451091 A
1 A
44451092 AAATTTTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTTTTAAAATATCT
Found at i:44463466 original size:20 final size:20
Alignment explanation
Indices: 44463428--44463467 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
44463418 AATATTTTCT
* *
44463428 AGTAAATCATTTTATAGAAA
1 AGTAAAACATTTTACAGAAA
*
44463448 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
44463468 TCATTTTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:44463474 original size:14 final size:14
Alignment explanation
Indices: 44463455--44463490 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
44463445 AAAAGTAAAA
*
44463455 CATTTTCCAGAAAT
1 CATTTTACAGAAAT
*
44463469 CATTTTACGGAAAT
1 CATTTTACAGAAAT
44463483 CATTTTAC
1 CATTTTAC
44463491 TGGCAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.39
Consensus pattern (14 bp):
CATTTTACAGAAAT
Found at i:44466689 original size:45 final size:45
Alignment explanation
Indices: 44466625--44466713 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
44466615 TCGCAAAAAA
*
44466625 ACCCAAATTCAACTAGATTTGATGTCTTAGGGTCTGAATTTTTTC
1 ACCCAAATTCAACTAGATTTGATGTCTTAGGGTCAGAATTTTTTC
44466670 ACCCAAATTCAACTAGATTTGATGTCTTAGGGTCAGAATTTTTT
1 ACCCAAATTCAACTAGATTTGATGTCTTAGGGTCAGAATTTTTT
44466714 GAAAAAATTC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (45 bp):
ACCCAAATTCAACTAGATTTGATGTCTTAGGGTCAGAATTTTTTC
Found at i:44469147 original size:21 final size:21
Alignment explanation
Indices: 44469122--44469173 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
44469112 TTGAATGATA
*
44469122 AATAATTTATTTTATAAT-TTT
1 AATAATTTATTTT-TAATATTC
**
44469143 AATAAAATATTTTTAATATTC
1 AATAATTTATTTTTAATATTC
44469164 AA-AATTTATT
1 AATAATTTATT
44469174 AATAAAAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
AATAATTTATTTTTAATATTC
Found at i:44469344 original size:126 final size:126
Alignment explanation
Indices: 44469208--44469455 Score: 460
Period size: 126 Copynumber: 2.0 Consensus size: 126
44469198 TAACAATTTA
44469208 ATAATATAATCATAAATAAATAGTATTTTTATTTATTTTAAAGTTTCTTCACTTTAAAGGTCTAA
1 ATAATATAATCATAAATAAATAGTATTTTTATTTATTTTAAAGTTTCTTCACTTTAAAGGTCTAA
44469273 TTCCAGATTCAGTATCTATACTCTTTGAATTTCTAAAATTTAATTCTTTTATTTTTTAATT
66 TTCCAGATTCAGTATCTATACTCTTTGAATTTCTAAAATTTAATTCTTTTATTTTTTAATT
* * *
44469334 ATAATATAATCATCAATAAATAGTATTTTTATTTATTTTAAAGTTTCTTCTCTTTAAAGGTTTAA
1 ATAATATAATCATAAATAAATAGTATTTTTATTTATTTTAAAGTTTCTTCACTTTAAAGGTCTAA
*
44469399 TTCCAGATTCAGTATCTATACTCTTTGAATTTTTAAAATTTAATTCTTTTATTTTTT
66 TTCCAGATTCAGTATCTATACTCTTTGAATTTCTAAAATTTAATTCTTTTATTTTTT
44469456 TTTAATTTCA
Statistics
Matches: 118, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
126 118 1.00
ACGTcount: A:0.33, C:0.10, G:0.06, T:0.51
Consensus pattern (126 bp):
ATAATATAATCATAAATAAATAGTATTTTTATTTATTTTAAAGTTTCTTCACTTTAAAGGTCTAA
TTCCAGATTCAGTATCTATACTCTTTGAATTTCTAAAATTTAATTCTTTTATTTTTTAATT
Found at i:44474887 original size:36 final size:36
Alignment explanation
Indices: 44474840--44474912 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
44474830 TGCTTACTTG
44474840 TTATGATATATTTAAACATAGTCTATTTTATAATAT
1 TTATGATATATTTAAACATAGTCTATTTTATAATAT
44474876 TTATGATATATTTAAACATAGTCTATTTTATAATAT
1 TTATGATATATTTAAACATAGTCTATTTTATAATAT
44474912 T
1 T
44474913 GGTTGGCTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (36 bp):
TTATGATATATTTAAACATAGTCTATTTTATAATAT
Found at i:44480251 original size:14 final size:14
Alignment explanation
Indices: 44480232--44480259 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
44480222 ATATGCATTG
44480232 AATGTTGGTGTCTA
1 AATGTTGGTGTCTA
44480246 AATGTTGGTGTCTA
1 AATGTTGGTGTCTA
44480260 TTTGTAGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.29, T:0.43
Consensus pattern (14 bp):
AATGTTGGTGTCTA
Found at i:44481577 original size:3 final size:3
Alignment explanation
Indices: 44481569--44481614 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
44481559 AGTAAAATTT
44481569 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
44481615 ATCTACTATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:44488752 original size:30 final size:31
Alignment explanation
Indices: 44488704--44488784 Score: 80
Period size: 30 Copynumber: 2.7 Consensus size: 31
44488694 ATTTTCAAAA
*
44488704 ATATAATAA-TAACTTTAAATATATATAAAT
1 ATATAATAATTAACATTAAATATATATAAAT
* *
44488734 ATATAATAATTAA-ATTAAATTTTATATTAAT
1 ATATAATAATTAACATTAAA-TATATATAAAT
* *
44488765 AGAT-AT-ATTAATATTAAATA
1 ATATAATAATTAACATTAAATA
44488785 AAAAATAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
29 6 0.14
30 22 0.51
31 15 0.35
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (31 bp):
ATATAATAATTAACATTAAATATATATAAAT
Found at i:44490359 original size:42 final size:42
Alignment explanation
Indices: 44490300--44490382 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
44490290 AATTTCAAAG
*
44490300 GGATAAGAACAGGAGTTCAAATGTTTGAATTTCAAACGTTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTT
44490342 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTT
1 GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTT
44490383 CACACATATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (42 bp):
GGATAAGAACAAGAGTTCAAATGTTTGAATTTCAAACGTTTT
Found at i:44500760 original size:114 final size:114
Alignment explanation
Indices: 44500562--44500987 Score: 466
Period size: 114 Copynumber: 3.7 Consensus size: 114
44500552 GTTTACTACC
** * * * * *
44500562 AAGCGCCGCAAAAGCTCTTATCCAAAACGCAGCGCTTTGGTCTTGATGTATAGTAGCCTTAGTGG
1 AAGCGCCGC-AAATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATATTAGCATTAGTGG
* *
44500627 CGCTTATATTCAAACGCCGCTAAAGTATAGTATTAGCGGCGAGTACTGAA
65 CGCTTATATTAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTACTGAA
* *
44500677 AAGCGCCGCAATATTTCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTACATTAGGATTAGTGG
1 AAGCGCCGCAA-ATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATATTAGCATTAGTGG
* * * ** * *
44500741 CGCTTAT-TTAAAAACGCCGCTAACGCATAGTAGTAGCGGCGCTTATTGTA
65 CGCTTATATT-AAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTACTGAA
* * * * * * * *
44500791 AAGCGTCGCAAA-ATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTACCAGTAGTGGC
1 AAGCGCCGCAAATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATATTAGCATTAGTGGC
* ** * *
44500855 ACTTATATTAAAACGCTACTAAAGAATAGTATTAGCAGCGAGTAGTGAA
66 GCTTATATTAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTACTGAA
* *
44500904 AAGCGCCGCAAGATTTCTTAACCAAAACGCAGAG-TTTGGTCTTGCGGTATATTAGGATTAGTGG
1 AAGCGCCGCAA-ATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATATTAGCATTAGTGG
*
44500968 CGCTTAT-TGGAAAACGCCGC
65 CGCTTATAT-TAAAACGCCGC
44500988 AAAATATTAA
Statistics
Matches: 252, Mismatches: 52, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
112 17 0.07
113 74 0.29
114 117 0.46
115 44 0.17
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (114 bp):
AAGCGCCGCAAATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATATTAGCATTAGTGGC
GCTTATATTAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTACTGAA
Found at i:44501095 original size:188 final size:188
Alignment explanation
Indices: 44500778--44501175 Score: 688
Period size: 188 Copynumber: 2.1 Consensus size: 188
44500768 TAGTAGTAGC
* * *
44500778 GGCGCTTATTGTAAAGCGTCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACT
1 GGCGCTTATTGGAAAACGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACT
44500843 ACCAGTAGTGGCACTTATATTAAAACGCTACTAAAGAATAGTATTAGCAGCGAGTAGTGAAAAGC
66 ACCAGTAGTGGCACTTATATTAAAACGCTACTAAAGAATAGTATTAGCAGCGAGTAGTGAAAAGC
* * *
44500908 GCCGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGCGGTATATTAGGATTAGT
131 GCCGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTACGATTAGT
44500966 GGCGCTTATTGGAAAACGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACT
1 GGCGCTTATTGGAAAACGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACT
* * * *
44501031 AGCAGTAGTGGCGCTTATATTAAAACGCTGCTAAAGAATAGTATTAGCGGCGAGTAGTGAAAAGC
66 ACCAGTAGTGGCACTTATATTAAAACGCTACTAAAGAATAGTATTAGCAGCGAGTAGTGAAAAGC
*
44501096 GCCGCAATATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTACGATTAGT
131 GCCGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTACGATTAGT
*
44501154 GGCGCTTATTTGAAAACGCCGC
1 GGCGCTTATTGGAAAACGCCGC
44501176 TAAAGCATAG
Statistics
Matches: 198, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
188 198 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (188 bp):
GGCGCTTATTGGAAAACGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACT
ACCAGTAGTGGCACTTATATTAAAACGCTACTAAAGAATAGTATTAGCAGCGAGTAGTGAAAAGC
GCCGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTACGATTAGT
Found at i:44501303 original size:113 final size:112
Alignment explanation
Indices: 44500960--44501310 Score: 415
Period size: 113 Copynumber: 3.1 Consensus size: 112
44500950 GTATATTAGG
* *
44500960 ATTAGTGGCGCTTATTGGAAAA-CGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGAT
1 ATTAGCGGCGCTTATT-GAAAAGCGCCGCAAAACATTAACCAAAACGCAGCGCTTTGGTCTTGAT
* * *
44501024 GTATACTAGCAGTAGTGGCGCTTATATTAAAACGCTGCTAAAGA-ATAGT
65 GTATACTACCAGTTGTGGCGCTTAT-TTAAAACGCCGCTAAA-ACATAGT
** * * *
44501073 ATTAGCGGCGAGTAGTGAAAAGCGCCGCAATATTTC-TTAACCAAAACGCAGAG-TTTGGTCTTG
1 ATTAGCGGCGCTTATTGAAAAGCGCCGCAA-A--ACATTAACCAAAACGCAGCGCTTTGGTCTTG
* * * * *
44501136 AGGTACATTACGA-TTAGTGGCGCTTATTTGAAAACGCCGCTAAAGCATAGT
63 ATGTATACTACCAGTT-GTGGCGCTTATTT-AAAACGCCGCTAAAACATAGT
*
44501187 ATTAGCGGCGCTTATTGTAAAGCGCCGCAAAACATTAACCAAAACGCAGCGCTTTGGTCTTGATG
1 ATTAGCGGCGCTTATTGAAAAGCGCCGCAAAACATTAACCAAAACGCAGCGCTTTGGTCTTGATG
* * *
44501252 TATACTACCAGTTGTGGCGCTTATGGTAAAACGCCGGTAAAACATATT
66 TATACTACCAGTTGTGGCGCTTAT-TTAAAACGCCGCTAAAACATAGT
44501300 ATTAGCGGCGC
1 ATTAGCGGCGC
44501311 GTTGTGGGAA
Statistics
Matches: 198, Mismatches: 29, Indels: 22
0.80 0.12 0.09
Matches are distributed among these distances:
111 1 0.01
112 21 0.11
113 83 0.42
114 77 0.39
115 16 0.08
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (112 bp):
ATTAGCGGCGCTTATTGAAAAGCGCCGCAAAACATTAACCAAAACGCAGCGCTTTGGTCTTGATG
TATACTACCAGTTGTGGCGCTTATTTAAAACGCCGCTAAAACATAGT
Found at i:44501363 original size:17 final size:17
Alignment explanation
Indices: 44501332--44501381 Score: 84
Period size: 17 Copynumber: 3.0 Consensus size: 17
44501322 CGCCGCTAGA
*
44501332 TTATTATAT-ATGTAGT
1 TTATTATATAATGTAGG
44501348 TTATTATATAATGTAGG
1 TTATTATATAATGTAGG
44501365 TTATTATATAATGTAGG
1 TTATTATATAATGTAGG
44501382 AAATAGGATA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 9 0.28
17 23 0.72
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (17 bp):
TTATTATATAATGTAGG
Found at i:44501434 original size:7 final size:7
Alignment explanation
Indices: 44501422--44501497 Score: 64
Period size: 7 Copynumber: 10.9 Consensus size: 7
44501412 TTGAATTCTA
44501422 GTTTAGG
1 GTTTAGG
*
44501429 GTTTAGA
1 GTTTAGG
44501436 GTTTAGG
1 GTTTAGG
44501443 GTTTAGG
1 GTTTAGG
*
44501450 GTTTACG
1 GTTTAGG
* *
44501457 ATGTA-G
1 GTTTAGG
*
44501463 GTTTAGT
1 GTTTAGG
**
44501470 GTTTTTG
1 GTTTAGG
44501477 GTTTAGG
1 GTTTAGG
*
44501484 GTTTGAGA
1 GTTT-AGG
44501492 GTTTAG
1 GTTTAG
44501498 TGATTAAGGT
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
6 4 0.08
7 43 0.81
8 6 0.11
ACGTcount: A:0.17, C:0.01, G:0.36, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:44503796 original size:18 final size:18
Alignment explanation
Indices: 44503725--44503841 Score: 64
Period size: 18 Copynumber: 6.2 Consensus size: 18
44503715 AATCTTGTCG
44503725 ACATAATACATTTAACTT
1 ACATAATACATTTAACTT
*
44503743 ACATTACTTACA--TAA--T
1 ACA-TA-ATACATTTAACTT
*
44503759 ACATAATA-ACTTACAACTT
1 ACATAATACA-TT-TAACTT
44503778 ACATAATACATTTAACTTACAACTT
1 ACATAATACATTTAAC-T------T
* *
44503803 ACATAATACATTTGACTG
1 ACATAATACATTTAACTT
44503821 ACATAATACATTTAACTT
1 ACATAATACATTTAACTT
44503839 ACA
1 ACA
44503842 ACTTACACAA
Statistics
Matches: 75, Mismatches: 8, Indels: 32
0.65 0.07 0.28
Matches are distributed among these distances:
13 1 0.01
14 2 0.03
15 2 0.03
16 4 0.05
17 2 0.03
18 28 0.37
19 14 0.19
20 5 0.07
24 1 0.01
25 16 0.21
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (18 bp):
ACATAATACATTTAACTT
Found at i:44503799 original size:25 final size:25
Alignment explanation
Indices: 44503725--44504027 Score: 413
Period size: 25 Copynumber: 12.2 Consensus size: 25
44503715 AATCTTGTCG
44503725 ACATAATACATTTAACTTACATTACTT
1 ACATAATACATTTAACTTACA--ACTT
*
44503752 ACATAATACATAATAACTTACAACTT
1 ACATAATACAT-TTAACTTACAACTT
44503778 ACATAATACATTTAACTTACAACTT
1 ACATAATACATTTAACTTACAACTT
* *
44503803 ACATAATACA--T---TT--GACTG
1 ACATAATACATTTAACTTACAACTT
44503821 ACATAATACATTTAACTTACAACTT
1 ACATAATACATTTAACTTACAACTT
* *
44503846 ACACAATACATAATAACTTACAACTT
1 ACATAATACAT-TTAACTTACAACTT
*
44503872 ACATAATACATAATAACTTACAACTT
1 ACATAATACAT-TTAACTTACAACTT
44503898 ACATAATACATTTAACTTACAACTT
1 ACATAATACATTTAACTTACAACTT
* *
44503923 ACACAATACATATAACTTACAACTT
1 ACATAATACATTTAACTTACAACTT
44503948 ACATAATACATTTAACTTACAACTT
1 ACATAATACATTTAACTTACAACTT
*
44503973 ACACAATACATTTAACTTACAACTT
1 ACATAATACATTTAACTTACAACTT
*
44503998 ACATAATACATAATAACTTACAACTT
1 ACATAATACAT-TTAACTTACAACTT
44504024 ACAT
1 ACAT
44504028 TTAACTTACA
Statistics
Matches: 249, Mismatches: 17, Indels: 21
0.87 0.06 0.07
Matches are distributed among these distances:
18 13 0.05
20 3 0.01
23 3 0.01
25 129 0.52
26 81 0.33
27 11 0.04
28 9 0.04
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (25 bp):
ACATAATACATTTAACTTACAACTT
Found at i:44504035 original size:11 final size:10
Alignment explanation
Indices: 44504019--44504072 Score: 55
Period size: 9 Copynumber: 5.7 Consensus size: 10
44504009 AATAACTTAC
44504019 AACTTACATTT
1 AACTTACA-TT
44504030 AACTTACA-T
1 AACTTACATT
44504039 AA--TACATTT
1 AACTTACA-TT
44504048 AACTTACA-T
1 AACTTACATT
44504057 AACTTACA-T
1 AACTTACATT
44504066 AACTTAC
1 AACTTAC
44504073 CATTGCAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
7 4 0.10
9 23 0.59
11 12 0.31
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (10 bp):
AACTTACATT
Found at i:44504056 original size:18 final size:18
Alignment explanation
Indices: 44503993--44504058 Score: 89
Period size: 18 Copynumber: 3.6 Consensus size: 18
44503983 TTTAACTTAC
*
44503993 AACTTACATAATACATAAT
1 AACTTACATAATACAT-TT
*
44504012 AACTTACA-ACTTACATTT
1 AACTTACATA-ATACATTT
44504030 AACTTACATAATACATTT
1 AACTTACATAATACATTT
44504048 AACTTACATAA
1 AACTTACATAA
44504059 CTTACATAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
18 28 0.67
19 14 0.33
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (18 bp):
AACTTACATAATACATTT
Found at i:44504068 original size:18 final size:18
Alignment explanation
Indices: 44503858--44504072 Score: 68
Period size: 18 Copynumber: 12.5 Consensus size: 18
44503848 ACAATACATA
44503858 ATAACTTAC--AACTTAC
1 ATAACTTACATAACTTAC
*
44503874 ATAATACATA-ATAACTTAC
1 AT-A-ACTTACATAACTTAC
44503893 --AACTTACATAA--TAC
1 ATAACTTACATAACTTAC
44503907 ATTTAACTTAC--AACTTAC
1 A--TAACTTACATAACTTAC
*
44503925 ACAA--TACATATAACTTAC
1 ATAACTTAC--ATAACTTAC
44503943 --AACTTACATAA--TAC
1 ATAACTTACATAACTTAC
44503957 ATTTAACTTAC--AACTTAC
1 A--TAACTTACATAACTTAC
*
44503975 ACAA--TACATTTAACTTAC
1 ATAACTTACA--TAACTTAC
*
44503993 --AACTTACATAATACATA-
1 ATAACTTACAT-A-ACTTAC
44504010 ATAACTTAC--AACTTAC
1 ATAACTTACATAACTTAC
44504026 ATTTAACTTACATAA--TAC
1 A--TAACTTACATAACTTAC
44504044 ATTTAACTTACATAACTTAC
1 A--TAACTTACATAACTTAC
44504064 ATAACTTAC
1 ATAACTTAC
44504073 CATTGCAATT
Statistics
Matches: 153, Mismatches: 6, Indels: 78
0.65 0.03 0.33
Matches are distributed among these distances:
14 12 0.08
15 8 0.05
16 26 0.17
17 2 0.01
18 85 0.56
19 14 0.09
20 6 0.04
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (18 bp):
ATAACTTACATAACTTAC
Found at i:44509549 original size:21 final size:21
Alignment explanation
Indices: 44509523--44509593 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
44509513 CTACAACTTA
* *
44509523 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
44509544 AAGCAGCGACTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
44509565 AAGCGGAGGCTGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
44509586 AAGCAGAG
1 AAGCAGAG
44509594 CAGAGCAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.45, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:44509836 original size:14 final size:14
Alignment explanation
Indices: 44509817--44509850 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
44509807 ATTGCTATTG
44509817 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
44509831 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
*
44509845 TTTGCT
1 GTTGCT
44509851 ACAGGAGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.09, G:0.21, T:0.53
Consensus pattern (14 bp):
GTTGCTTTTGAAAT
Found at i:44510016 original size:42 final size:42
Alignment explanation
Indices: 44509910--44510202 Score: 257
Period size: 42 Copynumber: 7.0 Consensus size: 42
44509900 TAGTGGCGTT
* * *
44509910 TTTGTATAAAAGCGCCACTAAAGAACATGTTCTTTTGCGGCG-
1 TTTGTA-AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGA
* *
44509952 TTTGTAAAAAATGCCACTAAAGAACATGTTCTTTAGCGGCGA
1 TTTGTAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGA
* * * *
44509994 TTAGAAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGT
1 TTTGTAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGA
** ** * *
44510036 TTTCCATTAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGT
1 TTTGTAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGA
* *** * * *
44510078 TTTTTCCTAAGCGCCGCTAAAGAACATGGTCTTTAGTGGC-A
1 TTTGTAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGA
* * * *
44510119 TTTTTTTACAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGT
1 -TTTGTAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGA
* *** * * *
44510162 TTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAACGGCG
1 TTTGTAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
44510203 TTTTTGTTTG
Statistics
Matches: 213, Mismatches: 35, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
41 32 0.15
42 181 0.85
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (42 bp):
TTTGTAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGA
Found at i:44510203 original size:42 final size:42
Alignment explanation
Indices: 44510005--44510207 Score: 284
Period size: 42 Copynumber: 4.8 Consensus size: 42
44509995 TAGAAAAAAA
* **
44510005 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCAT-TAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTT-TTTCTAAG
* *
44510047 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTCCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
* * *
44510089 CGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTAC-AAA
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTT-CTAAG
*
44510131 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
*
44510173 CGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
44510208 GTTTGTAAAC
Statistics
Matches: 143, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
41 1 0.01
42 141 0.99
43 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
Found at i:44510207 original size:84 final size:83
Alignment explanation
Indices: 44509919--44510207 Score: 337
Period size: 84 Copynumber: 3.5 Consensus size: 83
44509909 TTTTGTATAA
* * * * ** * *
44509919 AAGCGCCACTAAAGAACATGTTCTTTTGCGGCGTTTGTAAAAAATGCCACTAAAGAACATGTTCT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTAAAACGCCGCTAAAGAACATGTTCT
* *** **
44509984 TTAGCGGCGATTAGAAAA
66 TTAGCGGCGTTTTTTACT
* * * *
44510002 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCATT-AAGCGCCGCTAAAGAACATGTT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTT--TTTAAAACGCCGCTAAAGAACATGTT
*
44510066 CTTTAGCGGCGTTTTTTCCT
64 CTTTAGCGGCGTTTTTTACT
* *
44510086 AAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTACAAACGCCGCTAAAGAACATGTTC
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTA-AAACGCCGCTAAAGAACATGTTC
*
44510151 TTTAGCGGCGTTTTTTTCT
65 TTTAGCGGCGTTTTTTACT
*
44510170 AAGCGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
44510208 GTTTGTAAAC
Statistics
Matches: 174, Mismatches: 28, Indels: 7
0.83 0.13 0.03
Matches are distributed among these distances:
82 2 0.01
83 32 0.18
84 140 0.80
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (83 bp):
AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTAAAACGCCGCTAAAGAACATGTTCT
TTAGCGGCGTTTTTTACT
Found at i:44513446 original size:14 final size:14
Alignment explanation
Indices: 44513394--44513446 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
44513384 GTAATACAAA
*
44513394 AATATGATCGTTAC
1 AATATGATCGTTGC
* *
44513408 AATATGGTCGTTGG
1 AATATGATCGTTGC
* *
44513422 AATCTAATCGTTGC
1 AATATGATCGTTGC
*
44513436 AATATGGTCGT
1 AATATGATCGT
44513447 ATGACCGTTG
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (14 bp):
AATATGATCGTTGC
Found at i:44516413 original size:26 final size:25
Alignment explanation
Indices: 44516363--44516436 Score: 94
Period size: 26 Copynumber: 2.9 Consensus size: 25
44516353 TTTCTCATCC
* * *
44516363 CAATTTTACTCCAATAAAATATTGA
1 CAATTTTACCCCAGTAAAATTTTGA
44516388 CAATTTTACCCCTAGTAAAATTTTGA
1 CAATTTTACCCC-AGTAAAATTTTGA
*
44516414 CGATTTTACCTCCAGTAAAATTT
1 CAATTTTACC-CCAGTAAAATTT
44516437 CGAGAAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
25 11 0.26
26 30 0.70
27 2 0.05
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.38
Consensus pattern (25 bp):
CAATTTTACCCCAGTAAAATTTTGA
Found at i:44520604 original size:90 final size:90
Alignment explanation
Indices: 44520446--44520644 Score: 213
Period size: 90 Copynumber: 2.2 Consensus size: 90
44520436 ATAATCTCCT
* * * * * * *
44520446 TGCTTTTAATGAGTTCATAGCCTAGAGTTTGGGTGGTACTACTAAGACGGATTTGATTAATTCAC
1 TGCTCTTAATGAGTTCATAGCCCAGAGTTTGGGTGGTACAACTAAGACGAACTTGATGAACTCAC
* * *
44520511 TGAATTTCTAGGATGAACTACTAGA
66 TGAATTTATAGGATGAACCACTAAA
* * * * *
44520536 TGCTCTTAATGAGTTTATAGCCCAGGGTTTGGGTGGTCCAATTGAGACGAACTTGATGAAC-CTA
1 TGCTCTTAATGAGTTCATAGCCCAGAGTTTGGGTGGTACAACTAAGACGAACTTGATGAACTC-A
*
44520600 CTGAATTTATAGGATGAGCCACTAAA
65 CTGAATTTATAGGATGAACCACTAAA
*
44520626 TGTTCTTAATG-GATTCATA
1 TGCTCTTAATGAG-TTCATA
44520645 TCTTAAGCTT
Statistics
Matches: 89, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
89 2 0.02
90 87 0.98
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.34
Consensus pattern (90 bp):
TGCTCTTAATGAGTTCATAGCCCAGAGTTTGGGTGGTACAACTAAGACGAACTTGATGAACTCAC
TGAATTTATAGGATGAACCACTAAA
Found at i:44525368 original size:2 final size:2
Alignment explanation
Indices: 44525361--44525392 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
44525351 TAATCTCTAA
44525361 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
44525393 GCTGTAACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:44527995 original size:44 final size:44
Alignment explanation
Indices: 44527946--44528034 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
44527936 TTTACGCAAC
44527946 AACCAACTTCAATAACTCAAAATAGTGATCTATAAATGATTAAA
1 AACCAACTTCAATAACTCAAAATAGTGATCTATAAATGATTAAA
44527990 AACCAACTTCAATAACTCAAAATAGTGATCTATAAATGATTAAA
1 AACCAACTTCAATAACTCAAAATAGTGATCTATAAATGATTAAA
44528034 A
1 A
44528035 GTTGGTATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.51, C:0.16, G:0.07, T:0.27
Consensus pattern (44 bp):
AACCAACTTCAATAACTCAAAATAGTGATCTATAAATGATTAAA
Found at i:44530792 original size:19 final size:20
Alignment explanation
Indices: 44530764--44530812 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
44530754 CTTACATTGA
*
44530764 CATTTTTAACAA-TTT-ATT
1 CATTTGTAACAACTTTAATT
44530782 CCATTTGTAACAACTTTAATT
1 -CATTTGTAACAACTTTAATT
44530803 CATTTTGTAA
1 CA-TTTGTAA
44530813 TAGCCCGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 11 0.42
20 5 0.19
21 10 0.38
ACGTcount: A:0.33, C:0.14, G:0.04, T:0.49
Consensus pattern (20 bp):
CATTTGTAACAACTTTAATT
Found at i:44530809 original size:21 final size:20
Alignment explanation
Indices: 44530764--44530812 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
44530754 CTTACATTGA
44530764 CATTTT-TAACAATTTATTC
1 CATTTTGTAACAATTTATTC
44530783 CA-TTTGTAACAACTTTAATT-
1 CATTTTGTAACAA-TTT-ATTC
44530803 CATTTTGTAA
1 CATTTTGTAA
44530813 TAGCCCGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 3 0.12
19 8 0.31
20 5 0.19
21 10 0.38
ACGTcount: A:0.33, C:0.14, G:0.04, T:0.49
Consensus pattern (20 bp):
CATTTTGTAACAATTTATTC
Found at i:44531085 original size:29 final size:30
Alignment explanation
Indices: 44531038--44531105 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
44531028 TTGCCCAAGA
* * **
44531038 GTAAATACTCAAAATTTGAGGGATTAAA-GT
1 GTAAATA-TCAAAAGTTGAAGGACCAAAGGT
*
44531068 GTAAATATGAAAAGTTGAAGGACCAAAGGT
1 GTAAATATCAAAAGTTGAAGGACCAAAGGT
44531098 GTAAATAT
1 GTAAATAT
44531106 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.46, C:0.06, G:0.22, T:0.26
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACCAAAGGT
Found at i:44532192 original size:160 final size:160
Alignment explanation
Indices: 44531928--44532256 Score: 658
Period size: 160 Copynumber: 2.1 Consensus size: 160
44531918 TTAGAGGATG
44531928 AGAAAAATATGGAATTAAATATTATTTAGTCTAGTTTCCCATAGAAGAAACGGTGTAAGTAATAG
1 AGAAAAATATGGAATTAAATATTATTTAGTCTAGTTTCCCATAGAAGAAACGGTGTAAGTAATAG
44531993 AATTGTAAATCATGAGATATAATAAATTTTGTGAGACAATGTGAGAATGATTTCGGGTTCCCCTG
66 AATTGTAAATCATGAGATATAATAAATTTTGTGAGACAATGTGAGAATGATTTCGGGTTCCCCTG
44532058 TTCTGACTTTGGAAAATCATCAAAAATTGA
131 TTCTGACTTTGGAAAATCATCAAAAATTGA
44532088 AGAAAAATATGGAATTAAATATTATTTAGTCTAGTTTCCCATAGAAGAAACGGTGTAAGTAATAG
1 AGAAAAATATGGAATTAAATATTATTTAGTCTAGTTTCCCATAGAAGAAACGGTGTAAGTAATAG
44532153 AATTGTAAATCATGAGATATAATAAATTTTGTGAGACAATGTGAGAATGATTTCGGGTTCCCCTG
66 AATTGTAAATCATGAGATATAATAAATTTTGTGAGACAATGTGAGAATGATTTCGGGTTCCCCTG
44532218 TTCTGACTTTGGAAAATCATCAAAAATTGA
131 TTCTGACTTTGGAAAATCATCAAAAATTGA
44532248 AGAAAAATA
1 AGAAAAATA
44532257 ATTATGAGTT
Statistics
Matches: 169, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
160 169 1.00
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.32
Consensus pattern (160 bp):
AGAAAAATATGGAATTAAATATTATTTAGTCTAGTTTCCCATAGAAGAAACGGTGTAAGTAATAG
AATTGTAAATCATGAGATATAATAAATTTTGTGAGACAATGTGAGAATGATTTCGGGTTCCCCTG
TTCTGACTTTGGAAAATCATCAAAAATTGA
Found at i:44533060 original size:24 final size:27
Alignment explanation
Indices: 44533005--44533060 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 27
44532995 GGTAATGAAT
* *
44533005 ATTATATATATGGGTGTTTGGAATTGA
1 ATTATATATATGGATGTTTGGAAATGA
*
44533032 ATTAT-TAT-TGGATGTTTTGAAATG-
1 ATTATATATATGGATGTTTGGAAATGA
44533056 ATTAT
1 ATTAT
44533061 CGGAAGCTCG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 5 0.19
25 13 0.50
26 3 0.12
27 5 0.19
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.48
Consensus pattern (27 bp):
ATTATATATATGGATGTTTGGAAATGA
Found at i:44546463 original size:13 final size:13
Alignment explanation
Indices: 44546445--44546469 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44546435 TTACAGTAAG
44546445 TCTTATTTAAAAA
1 TCTTATTTAAAAA
44546458 TCTTATTTAAAA
1 TCTTATTTAAAA
44546470 TGTGGGTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (13 bp):
TCTTATTTAAAAA
Found at i:44561149 original size:8 final size:8
Alignment explanation
Indices: 44561136--44561165 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
44561126 ATAGTCATTC
44561136 CTCTCTGT
1 CTCTCTGT
44561144 CTCTCTGT
1 CTCTCTGT
44561152 CTCTCTGT
1 CTCTCTGT
44561160 CTCTCT
1 CTCTCT
44561166 TTTTTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.00, C:0.40, G:0.10, T:0.50
Consensus pattern (8 bp):
CTCTCTGT
Found at i:44578008 original size:51 final size:50
Alignment explanation
Indices: 44577896--44578009 Score: 115
Period size: 51 Copynumber: 2.2 Consensus size: 50
44577886 TTTAGAAAAA
* * *
44577896 ATTTAAAATTTTAACTTTTTTATAAATATTTTAGAATTTTTATAATTTTT
1 ATTTATAATTTTAACTTTTTTATAAATATTTTAGAATTTTAAAAATTTTT
** *
44577946 AAATATAAATTTTGAA-TTTTTTATAAATATTTT-TAATTTTAAAAATTATTTT
1 ATTTAT-AATTTT-AACTTTTTTATAAATATTTTAGAATTTTAAAAA-T-TTTT
*
44577998 TTTTATAATTTT
1 ATTTATAATTTT
44578010 TGTTGAGAGA
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
50 12 0.24
51 30 0.59
52 9 0.18
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.60
Consensus pattern (50 bp):
ATTTATAATTTTAACTTTTTTATAAATATTTTAGAATTTTAAAAATTTTT
Done.