Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 146 of 185
Found at i:44339414 original size:34 final size:35
Alignment explanation
Indices: 44339357--44339423 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
44339347 CAAACACCAG
*
44339357 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
44339392 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
44339424 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:44339537 original size:22 final size:24
Alignment explanation
Indices: 44339498--44339549 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 24
44339488 AAATTATTAA
* *
44339498 TAAAAAAATTATATTTTAATCTTT
1 TAAAAAAAGTATATTTTAATCATT
44339522 TAAAAAAAGTA-A-TTTAATCATT
1 TAAAAAAAGTATATTTTAATCATT
*
44339544 TCAAAA
1 TAAAAA
44339550 TTTTAAAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 14 0.56
23 1 0.04
24 10 0.40
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (24 bp):
TAAAAAAAGTATATTTTAATCATT
Found at i:44342849 original size:14 final size:14
Alignment explanation
Indices: 44342832--44342860 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
44342822 TTGCATGGTT
44342832 GCAAATACATGCAC
1 GCAAATACATGCAC
44342846 GCAAATACATGCAC
1 GCAAATACATGCAC
44342860 G
1 G
44342861 TCTTTGGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.28, G:0.17, T:0.14
Consensus pattern (14 bp):
GCAAATACATGCAC
Found at i:44346313 original size:116 final size:117
Alignment explanation
Indices: 44346082--44346315 Score: 398
Period size: 116 Copynumber: 2.0 Consensus size: 117
44346072 TTGCTGAATT
* ** *
44346082 ATTATCATTCATTTTGAGTATGCAGAAAGCTTTATGATACAAAAGCACTGTTACTTTTGCAAATT
1 ATTATCATTCATTTTGAGTATGCAGAAAACTGCATCATACAAAAGCACTGTTACTTTTGCAAATT
44346147 CAAGTGATCCGTTTATTAAAGAATAAACTAATTCCAACCCAAATTAATTATA
66 CAAGTGATCCGTTTATTAAAGAATAAACTAATTCCAACCCAAATTAATTATA
*
44346199 ATTATCATTCATTTTGAGTATGCAGAAAACTGCATCATACAAAAGCACTTTTACTTTTGC-AATT
1 ATTATCATTCATTTTGAGTATGCAGAAAACTGCATCATACAAAAGCACTGTTACTTTTGCAAATT
* *
44346263 CAAGTGATCTGTTTATTGAAGAATAAACTAATTCCAACCCAAATTAATTATA
66 CAAGTGATCCGTTTATTAAAGAATAAACTAATTCCAACCCAAATTAATTATA
44346315 A
1 A
44346316 CTATTATGAA
Statistics
Matches: 110, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
116 55 0.50
117 55 0.50
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (117 bp):
ATTATCATTCATTTTGAGTATGCAGAAAACTGCATCATACAAAAGCACTGTTACTTTTGCAAATT
CAAGTGATCCGTTTATTAAAGAATAAACTAATTCCAACCCAAATTAATTATA
Found at i:44347674 original size:16 final size:16
Alignment explanation
Indices: 44347641--44347674 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
44347631 CATAGTTGTT
* *
44347641 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
44347657 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
44347673 AA
1 AA
44347675 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:44353480 original size:19 final size:17
Alignment explanation
Indices: 44353439--44353476 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
44353429 TTTTCCAATT
44353439 ATAAT-ATTTTTTAAAA
1 ATAATAATTTTTTAAAA
*
44353455 ATTATAATTTTTTAATAA
1 ATAATAATTTTTTAA-AA
44353473 ATAA
1 ATAA
44353477 ATAAAATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
16 4 0.22
17 9 0.50
18 5 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATAATAATTTTTTAAAA
Found at i:44353891 original size:9 final size:9
Alignment explanation
Indices: 44353877--44353946 Score: 104
Period size: 9 Copynumber: 7.8 Consensus size: 9
44353867 TTTGGTTAAA
44353877 AATTACCCG
1 AATTACCCG
44353886 AATTACCCG
1 AATTACCCG
*
44353895 AATTACCTG
1 AATTACCCG
44353904 AATTACCCG
1 AATTACCCG
*
44353913 AATTAACCG
1 AATTACCCG
*
44353922 AATTAACCG
1 AATTACCCG
*
44353931 AATTAACCG
1 AATTACCCG
44353940 AATTACC
1 AATTACC
44353947 AAAAAATACC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 57 1.00
ACGTcount: A:0.39, C:0.27, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:44357588 original size:27 final size:27
Alignment explanation
Indices: 44357549--44357626 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
44357539 TCCCTGAGTG
*
44357549 AAGGGAACACTGTTGGCGGCACCAAAC
1 AAGGGAACCCTGTTGGCGGCACCAAAC
44357576 AAGGGAACCCTGTTGGCGGCACCAAAC
1 AAGGGAACCCTGTTGGCGGCACCAAAC
***
44357603 AAGGGTTTCCTGTTGGCGGCACCA
1 AAGGGAACCCTGTTGGCGGCACCA
44357627 CTCGTGTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.27, C:0.27, G:0.31, T:0.15
Consensus pattern (27 bp):
AAGGGAACCCTGTTGGCGGCACCAAAC
Found at i:44357919 original size:3 final size:3
Alignment explanation
Indices: 44357911--44357936 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
44357901 AATTTTATAG
44357911 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
44357937 AGATGTTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:44358092 original size:14 final size:14
Alignment explanation
Indices: 44358073--44358101 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
44358063 TTTTTGTATC
44358073 AATTTAATTATTCT
1 AATTTAATTATTCT
44358087 AATTTAATTATTCT
1 AATTTAATTATTCT
44358101 A
1 A
44358102 GTTTCAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (14 bp):
AATTTAATTATTCT
Found at i:44358614 original size:9 final size:9
Alignment explanation
Indices: 44358600--44358640 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
44358590 AGTCCAGGTT
44358600 TTTTTTCTG
1 TTTTTTCTG
*
44358609 TTTTTTAT-
1 TTTTTTCTG
44358617 TTTTTTCTG
1 TTTTTTCTG
*
44358626 TTTTTTTTG
1 TTTTTTCTG
44358635 TTTTTT
1 TTTTTT
44358641 TTATATATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
8 7 0.25
9 21 0.75
ACGTcount: A:0.02, C:0.05, G:0.07, T:0.85
Consensus pattern (9 bp):
TTTTTTCTG
Found at i:44358639 original size:17 final size:17
Alignment explanation
Indices: 44358599--44358631 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
44358589 CAGTCCAGGT
44358599 TTTTTTTCTGTTTTTTA
1 TTTTTTTCTGTTTTTTA
44358616 TTTTTTTCTGTTTTTT
1 TTTTTTTCTGTTTTTT
44358632 TTGTTTTTTT
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:0.03, C:0.06, G:0.06, T:0.85
Consensus pattern (17 bp):
TTTTTTTCTGTTTTTTA
Found at i:44358641 original size:9 final size:9
Alignment explanation
Indices: 44358597--44358642 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
44358587 ATCAGTCCAG
44358597 GTTTTTTTT
1 GTTTTTTTT
* *
44358606 CTGTTTTTT
1 GTTTTTTTT
*
44358615 ATTTTTTTCT
1 GTTTTTTT-T
44358625 GTTTTTTTT
1 GTTTTTTTT
44358634 GTTTTTTTT
1 GTTTTTTTT
44358643 ATATATTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
9 23 0.74
10 8 0.26
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.85
Consensus pattern (9 bp):
GTTTTTTTT
Found at i:44358699 original size:27 final size:26
Alignment explanation
Indices: 44358641--44358699 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 26
44358631 TTTGTTTTTT
*
44358641 TTATATATTTTAGTAAATAAAAAAAT
1 TTATATATTTTAGTAAATAAAAAAAA
*
44358667 TATATATATTTTGGTAAATAAAAAAAAA
1 T-TATATATTTTAGTAAAT-AAAAAAAA
44358695 TTATA
1 TTATA
44358700 ACATTTTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 1 0.03
27 20 0.69
28 8 0.28
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (26 bp):
TTATATATTTTAGTAAATAAAAAAAA
Found at i:44359125 original size:20 final size:21
Alignment explanation
Indices: 44359102--44359153 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
44359092 CTTATTTTCA
*
44359102 ATTTATTAATTTTATAAAA-T
1 ATTTATTAATTTTAGAAAATT
44359122 ATTT-TTAATGTTTAGAAAATT
1 ATTTATTAAT-TTTAGAAAATT
*
44359143 ATTTAGTAATT
1 ATTTATTAATT
44359154 GATTTAAGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 5 0.19
20 12 0.44
21 6 0.22
22 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (21 bp):
ATTTATTAATTTTAGAAAATT
Found at i:44359889 original size:28 final size:28
Alignment explanation
Indices: 44359858--44359919 Score: 90
Period size: 27 Copynumber: 2.2 Consensus size: 28
44359848 ACAAAAACGA
*
44359858 TCTCTTTTTATTTAACCCAAACGGAATT
1 TCTCTTTTTATTTAACCCAAACGGAACT
* *
44359886 TCTC-TTTTCTTTAATCCAAACGGAACT
1 TCTCTTTTTATTTAACCCAAACGGAACT
44359913 TCTCTTT
1 TCTCTTT
44359920 AAATTTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 24 0.80
28 6 0.20
ACGTcount: A:0.24, C:0.24, G:0.06, T:0.45
Consensus pattern (28 bp):
TCTCTTTTTATTTAACCCAAACGGAACT
Found at i:44371024 original size:22 final size:22
Alignment explanation
Indices: 44370998--44371065 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 22
44370988 ATATTCAAAT
44370998 AATAACAACAAAATAGTAGCAA
1 AATAACAACAAAATAGTAGCAA
* * *
44371020 TATAATAGCAAAAT-GATAGCAA
1 AATAACAACAAAATAG-TAGCAA
* * *
44371042 AACAACAACATAACAGTAGCAA
1 AATAACAACAAAATAGTAGCAA
44371064 AA
1 AA
44371066 CATGGAAAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.60, C:0.15, G:0.10, T:0.15
Consensus pattern (22 bp):
AATAACAACAAAATAGTAGCAA
Found at i:44372331 original size:61 final size:61
Alignment explanation
Indices: 44372252--44372366 Score: 158
Period size: 61 Copynumber: 1.9 Consensus size: 61
44372242 TATTTTTTAA
* * * * *
44372252 TTTTTAGAGTTAGGACTAAATTGACAATTTTTGTAAATATTGAGGACCAAATTTATTGAAT
1 TTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTGAGGACCAAATTTATTGAAT
* * *
44372313 TTTTTTGAATTAGAACTAAAATGACAAATTTTGTAAACATTGAGGGCTAAATTT
1 TTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTGAGGACCAAATTT
44372367 GTTGGTATAT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 46 1.00
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (61 bp):
TTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAACATTGAGGACCAAATTTATTGAAT
Found at i:44373779 original size:154 final size:154
Alignment explanation
Indices: 44373499--44373801 Score: 545
Period size: 154 Copynumber: 2.0 Consensus size: 154
44373489 TTTCACAAAC
*
44373499 TGTCAGGTGTCTGCAACACATGCTAGATCACCCAACACCCGGGACTCACTGTAACACTGTAACAT
1 TGTCAGGTGTCTGCAACACATGCTAGATCACCCAACACCCGGGACTCACTGCAACACTGTAACAT
*
44373564 TTGTCTCTAGTGACATGTCACTTGTATCCACTTCTATTCCTAAGTTCAACCGGGAATTTACACTT
66 CTGTCTCTAGTGACATGTCACTTGTATCCACTTCTATTCCTAAGTTCAACCGGGAATTTACACTT
*
44373629 AACACTTTATTTTAAACACCAAGA
131 AACAATTTATTTTAAACACCAAGA
*
44373653 TGTCAGGTGTCTGCAACACATGCTAGATCACCCAGCACCCGGGACTCACTGCAACACTGTAACA-
1 TGTCAGGTGTCTGCAACACATGCTAGATCACCCAACACCCGGGACTCACTGCAACACTGTAACAT
*
44373717 CTGATCTCTAGTGACATGTCACTTGTATCCACTTCTATTCCTAAGTTCAATCGGGAATTTACACT
66 CTG-TCTCTAGTGACATGTCACTTGTATCCACTTCTATTCCTAAGTTCAACCGGGAATTTACACT
44373782 TAACAATTTATTTTAAACAC
130 TAACAATTTATTTTAAACAC
44373802 TTTATCACTT
Statistics
Matches: 143, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
153 2 0.01
154 141 0.99
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.30
Consensus pattern (154 bp):
TGTCAGGTGTCTGCAACACATGCTAGATCACCCAACACCCGGGACTCACTGCAACACTGTAACAT
CTGTCTCTAGTGACATGTCACTTGTATCCACTTCTATTCCTAAGTTCAACCGGGAATTTACACTT
AACAATTTATTTTAAACACCAAGA
Found at i:44380079 original size:22 final size:22
Alignment explanation
Indices: 44380049--44380302 Score: 93
Period size: 21 Copynumber: 11.3 Consensus size: 22
44380039 TGGATTAGAA
* *
44380049 TTTTGTATGAATATTCTAATTT
1 TTTTATATGAATATTGTAATTT
*
44380071 TTTTATATGAACATTGTAA-TT
1 TTTTATATGAATATTGTAATTT
*
44380092 TTTT-TATGAATATTGTAATTA
1 TTTTATATGAATATTGTAATTT
*
44380113 TTTTATAATTAA-ATTTGT-ATTT
1 TTTTAT-ATGAATA-TTGTAATTT
* * *
44380135 ATAGTT-T-TGGAT-TAGT-A---
1 -T-TTTATATGAATATTGTAATTT
* *
44380152 TTTTGTATGACTATTGTAATTTTAT
1 TTTTATATGAATATTGTAA--TT-T
*
44380177 AATTTTATATGAATATTGCAA-TT
1 --TTTTATATGAATATTGTAATTT
*
44380200 TTTTGTATGAATATTGTAATATTGT
1 TTTTATATGAATATTGT-A-ATT-T
*
44380225 AATTTTGTATGAATATTGTAATGTCT
1 --TTTTATATGAATATTGTAAT-T-T
***
44380251 AGATATACTGTAATATTGTAA-TT
1 TTTTATA-TG-AATATTGTAATTT
* *
44380274 TTTTGTATGAATATTGTAATTA
1 TTTTATATGAATATTGTAATTT
44380296 TTTTATA
1 TTTTATA
44380303 ATTAATTTGT
Statistics
Matches: 172, Mismatches: 31, Indels: 58
0.66 0.12 0.22
Matches are distributed among these distances:
15 2 0.01
16 2 0.01
17 3 0.02
18 3 0.02
19 1 0.01
20 17 0.10
21 38 0.22
22 31 0.18
23 16 0.09
24 8 0.05
25 5 0.03
26 13 0.08
27 33 0.19
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.54
Consensus pattern (22 bp):
TTTTATATGAATATTGTAATTT
Found at i:44380099 original size:20 final size:20
Alignment explanation
Indices: 44380049--44380118 Score: 86
Period size: 20 Copynumber: 3.4 Consensus size: 20
44380039 TGGATTAGAA
* *
44380049 TTTTGTATGAATATTCTAATT
1 TTTTTTATGAATATTGTAA-T
*
44380070 TTTTTATATGAACATTGTAAT
1 TTTTT-TATGAATATTGTAAT
44380091 TTTTTTATGAATATTGTAAT
1 TTTTTTATGAATATTGTAAT
*
44380111 TATTTTAT
1 TTTTTTAT
44380119 AATTAAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
20 21 0.49
21 10 0.23
22 12 0.28
ACGTcount: A:0.30, C:0.03, G:0.09, T:0.59
Consensus pattern (20 bp):
TTTTTTATGAATATTGTAAT
Found at i:44380111 original size:103 final size:107
Alignment explanation
Indices: 44380004--44380219 Score: 264
Period size: 103 Copynumber: 2.0 Consensus size: 107
44379994 TATTAATTAT
* * *
44380004 TAATTA-TAAATTATCTATATTTAGTGTTTATAG-TTTGGATTAGAATTTTGTATGAATATTCTA
1 TAATTATTAAATAAT-TAAATTT-GTATTTATAGTTTTGGATTAGAATTTTGTATGAATATTCTA
*
44380067 A-TT-T-TTTTATATGAACATTGTAATTTTTT-TATGAATATTG
64 ATTTATATTTTATATGAACATTGCAATTTTTTGTATGAATATTG
** * * *
44380107 TAATTATTTTATAATTAAATTTGTATTTATAGTTTTGGATTAGTATTTTGTATGACTATTGTAAT
1 TAATTATTAAATAATTAAATTTGTATTTATAGTTTTGGATTAGAATTTTGTATGAATATTCTAA-
*
44380172 TTTATAATTTTATATGAATATTGCAATTTTTTGTATGAATATTG
65 TTTAT-ATTTTATATGAACATTGCAATTTTTTGTATGAATATTG
44380216 TAAT
1 TAAT
44380220 ATTGTAATTT
Statistics
Matches: 95, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
102 9 0.09
103 40 0.42
104 5 0.05
105 2 0.02
106 1 0.01
108 23 0.24
109 15 0.16
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (107 bp):
TAATTATTAAATAATTAAATTTGTATTTATAGTTTTGGATTAGAATTTTGTATGAATATTCTAAT
TTATATTTTATATGAACATTGCAATTTTTTGTATGAATATTG
Found at i:44380181 original size:27 final size:25
Alignment explanation
Indices: 44380151--44380246 Score: 101
Period size: 27 Copynumber: 3.8 Consensus size: 25
44380141 TTGGATTAGT
*
44380151 ATTTTGTATGACTATTGTAATTTTATA
1 ATTTTGTATGAATATTGTAA-TTT-TA
* *
44380178 ATTTTATATGAATATTGCAA--TT-
1 ATTTTGTATGAATATTGTAATTTTA
44380200 -TTTTGTATGAATATTGTAATATTGTA
1 ATTTTGTATGAATATTGTAAT-TT-TA
44380226 ATTTTGTATGAATATTGTAAT
1 ATTTTGTATGAATATTGTAAT
44380247 GTCTAGATAT
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
21 17 0.29
23 1 0.02
24 2 0.03
25 1 0.02
27 37 0.64
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.53
Consensus pattern (25 bp):
ATTTTGTATGAATATTGTAATTTTA
Found at i:44380366 original size:58 final size:56
Alignment explanation
Indices: 44380288--44380404 Score: 146
Period size: 58 Copynumber: 2.1 Consensus size: 56
44380278 GTATGAATAT
* * * * *
44380288 TGTAATTATTTTATAATTAATTTGTTAGTAATTTAGGATTATGGTATAAAGTTGTGTG
1 TGTAATTATTTTAAAATTAATTTATTAGTAATTGAGGATTAAGCTAT-AAGTTGT-TG
*
44380346 TGTAATTA-TTTAAAATTTAATTTATTGGTAATTGAGGATTAAGCTATAAGTTGTTG
1 TGTAATTATTTTAAAA-TTAATTTATTAGTAATTGAGGATTAAGCTATAAGTTGTTG
44380402 TGT
1 TGT
44380405 TTAGTTTAGT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
56 5 0.10
57 13 0.25
58 34 0.65
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.49
Consensus pattern (56 bp):
TGTAATTATTTTAAAATTAATTTATTAGTAATTGAGGATTAAGCTATAAGTTGTTG
Found at i:44380491 original size:37 final size:37
Alignment explanation
Indices: 44380440--44380520 Score: 144
Period size: 37 Copynumber: 2.2 Consensus size: 37
44380430 CATATAAAGT
*
44380440 TTATAAAAAAATTAAAAATCATTTTATTAAAAGTTTAA
1 TTAT-AAAAAATTAAAAATCATTTTATTAAAAGATTAA
44380478 TTATAAAAAATTAAAAATCATTTTATTAAAAGATTAA
1 TTATAAAAAATTAAAAATCATTTTATTAAAAGATTAA
44380515 TTATAA
1 TTATAA
44380521 CTGACTTTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
37 38 0.90
38 4 0.10
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (37 bp):
TTATAAAAAATTAAAAATCATTTTATTAAAAGATTAA
Found at i:44383705 original size:22 final size:22
Alignment explanation
Indices: 44383678--44383719 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
44383668 AAAATACCTT
*
44383678 TTTTTTTCTTCT-TTTCCTTCC
1 TTTTTTTCTTCTGCTTCCTTCC
44383699 TTTTTTTCTTCTGCTTCCTTC
1 TTTTTTTCTTCTGCTTCCTTC
44383720 TTATTTCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.00, C:0.29, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTTTTTCTTCTGCTTCCTTCC
Found at i:44383707 original size:18 final size:18
Alignment explanation
Indices: 44383680--44383729 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 18
44383670 AATACCTTTT
*
44383680 TTTTTCTTCTTTTCCTTCC
1 TTTTT-TTCTTCTCCTTCC
*
44383699 TTTTTTTCTTCTGCTTCC
1 TTTTTTTCTTCTCCTTCC
44383717 TTCTTATTTCTTC
1 TT-TT-TTTCTTC
44383730 CGTTTCTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 13 0.48
19 7 0.26
20 7 0.26
ACGTcount: A:0.02, C:0.28, G:0.02, T:0.68
Consensus pattern (18 bp):
TTTTTTTCTTCTCCTTCC
Found at i:44383836 original size:27 final size:27
Alignment explanation
Indices: 44383806--44383869 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
44383796 CTCTTAGTAT
44383806 GGCACCAATAATGGCGCCTCCCAGATA
1 GGCACCAATAATGGCGCCTCCCAGATA
** * **
44383833 GGCACCACCATTGGCGCCTCTGAGATA
1 GGCACCAATAATGGCGCCTCCCAGATA
*
44383860 GGCGCCAATA
1 GGCACCAATA
44383870 CTATGTATTA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.27, C:0.33, G:0.25, T:0.16
Consensus pattern (27 bp):
GGCACCAATAATGGCGCCTCCCAGATA
Found at i:44385587 original size:17 final size:17
Alignment explanation
Indices: 44385542--44385587 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
44385532 AAACTATAAC
44385542 AAAATTATTT--TTTAA
1 AAAATTATTTAATTTAA
*
44385557 AATATT-TTTAAATTTAA
1 AAAATTATTT-AATTTAA
44385574 AAAATTATTTAATT
1 AAAATTATTTAATT
44385588 ATTAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 3 0.12
15 5 0.20
17 14 0.56
18 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
AAAATTATTTAATTTAA
Found at i:44389805 original size:21 final size:21
Alignment explanation
Indices: 44389759--44389809 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
44389749 TATCTGATAA
*
44389759 AAAAATAAATTAATTTATTAG
1 AAAAATAAATTAATTTATCAG
*
44389780 AAAAATAAATTTATTTATCA-
1 AAAAATAAATTAATTTATCAG
44389800 ATAAAATAAA
1 A-AAAATAAA
44389810 AATACTGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
AAAAATAAATTAATTTATCAG
Found at i:44392605 original size:39 final size:39
Alignment explanation
Indices: 44392562--44392656 Score: 172
Period size: 39 Copynumber: 2.4 Consensus size: 39
44392552 CCCGGTGCTT
44392562 GTCCCTGTTGTCGGTGTCCCCGTTGTTGGTGTGGTAGGA
1 GTCCCTGTTGTCGGTGTCCCCGTTGTTGGTGTGGTAGGA
44392601 GTCCCTGTTGTCGGTGTCCCCGTTGTTGGTGTGGTAGGA
1 GTCCCTGTTGTCGGTGTCCCCGTTGTTGGTGTGGTAGGA
* *
44392640 GTCCCTGTGGTTGGTGT
1 GTCCCTGTTGTCGGTGT
44392657 TGAGGTAGGC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.04, C:0.20, G:0.39, T:0.37
Consensus pattern (39 bp):
GTCCCTGTTGTCGGTGTCCCCGTTGTTGGTGTGGTAGGA
Found at i:44392652 original size:24 final size:24
Alignment explanation
Indices: 44392616--44392707 Score: 94
Period size: 24 Copynumber: 3.7 Consensus size: 24
44392606 TGTTGTCGGT
* *
44392616 GTCCCCGTTGTTGGTGTGGTAGGA
1 GTCCCTGTGGTTGGTGTGGTAGGA
*
44392640 GTCCCTGTGGTTGGTGTTGAGGTAGGC
1 GTCCCTGTGGTTGGTG-T--GGTAGGA
* * *
44392667 GTCCCTGTGGTCGGTGTCGTCGGA
1 GTCCCTGTGGTTGGTGTGGTAGGA
*
44392691 GTCCCTGTGGATGGTGT
1 GTCCCTGTGGTTGGTGT
44392708 TGTGCTTGTA
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
24 33 0.59
25 1 0.02
26 1 0.02
27 21 0.38
ACGTcount: A:0.07, C:0.18, G:0.42, T:0.33
Consensus pattern (24 bp):
GTCCCTGTGGTTGGTGTGGTAGGA
Found at i:44394193 original size:19 final size:19
Alignment explanation
Indices: 44394114--44394199 Score: 54
Period size: 19 Copynumber: 4.5 Consensus size: 19
44394104 TCGAATTTAA
* *
44394114 ATTTATTTAAAAATATAAA
1 ATTTTTTTAAAAATATAAT
* *
44394133 ATTATTTTT-ATATTATAAT
1 ATT-TTTTTAAAAATATAAT
*
44394152 ATTTAAATTTT--AAATAT-AC
1 ATTT---TTTTAAAAATATAAT
44394171 ATTTTTTTAAAAATATAAT
1 ATTTTTTTAAAAATATAAT
*
44394190 ATTTTATTAA
1 ATTTTTTTAA
44394200 TTAAATTTTA
Statistics
Matches: 51, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
16 4 0.08
18 7 0.14
19 28 0.55
20 8 0.16
21 4 0.08
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTTTTTTAAAAATATAAT
Found at i:44401220 original size:39 final size:38
Alignment explanation
Indices: 44401172--44401360 Score: 118
Period size: 39 Copynumber: 4.8 Consensus size: 38
44401162 GTTTAGTTAT
*
44401172 TAATAATTATTGTTACTTAGTATTATTATTAGTAAAAAAC
1 TAAT-ATTATTGTTAGTTAGTATTATTATTAGT-AAAAAC
* * **
44401212 TAATATTATTATCATGGTTAGTTATTAGGATTAGTAAAAACCC
1 TAATATTATTGT--TAGTTAG-TATTATTATTAGTAAAAA--C
* * ****
44401255 TAATTATTATT-TTAGTTAGTATGATTGTTAGTTTTTAC
1 TAA-TATTATTGTTAGTTAGTATTATTATTAGTAAAAAC
*
44401293 ATTATATTATTGTTAGTTAGTATTATT-TTGAGT-AAAAC
1 -TAATATTATTGTTAGTTAGTATTATTATT-AGTAAAAAC
* *
44401331 TATTATTATTGTTA-TT-GTGTTAGTTATTAG
1 TAATATTATTGTTAGTTAGTATTA-TTATTAG
44401361 GATTAGTGGT
Statistics
Matches: 116, Mismatches: 22, Indels: 26
0.71 0.13 0.16
Matches are distributed among these distances:
35 5 0.04
36 6 0.05
37 14 0.12
38 12 0.10
39 26 0.22
40 14 0.12
41 16 0.14
42 11 0.09
43 5 0.04
44 7 0.06
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (38 bp):
TAATATTATTGTTAGTTAGTATTATTATTAGTAAAAAC
Found at i:44404207 original size:8 final size:8
Alignment explanation
Indices: 44404175--44404230 Score: 69
Period size: 8 Copynumber: 7.1 Consensus size: 8
44404165 GGAATTGAGC
44404175 TAATGTTG
1 TAATGTTG
**
44404183 TAAAATTG
1 TAATGTTG
*
44404191 TTATG-TG
1 TAATGTTG
44404198 TAATGTTG
1 TAATGTTG
44404206 TAATGTTG
1 TAATGTTG
44404214 TAATGTTG
1 TAATGTTG
*
44404222 CAATGTTG
1 TAATGTTG
44404230 T
1 T
44404231 TTTAACACCC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
7 6 0.15
8 33 0.85
ACGTcount: A:0.27, C:0.02, G:0.23, T:0.48
Consensus pattern (8 bp):
TAATGTTG
Found at i:44406580 original size:153 final size:156
Alignment explanation
Indices: 44406380--44406679 Score: 441
Period size: 157 Copynumber: 1.9 Consensus size: 156
44406370 TGCCTGCAAC
* * *
44406380 TTAAAAAAGAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTA-TTTTTTCCCGAATTTT
1 TTAAAAAAGAATTTAGAAAAAAACCCTTATTTCGGCCCTTTGCTCGTATTTTTTTCCCGAATTTT
* *
44406444 ATTACTTT-A-AAAAATATAATATTTTC-TAATTTTATTGTATTACATTATTTTAGTACATTATG
66 ATTACTTTAATAAAAATATAATATTTTCGT-ATTTTATTATATTACATTATTTAAGTACATTATG
44406506 TTTGAAAT-TCATTAATTTAGTGAGTTT
130 TTTGAAATGT-ATTAATTTAGTGAGTTT
* *
44406533 TTAAAATA-AATTTAGAAAAATAACCCTTATTTCGGCCCTTTGCTCGTATTTTTTTCCCGGATTT
1 TTAAAAAAGAATTTAGAAAAA-AACCCTTATTTCGGCCCTTTGCTCGTATTTTTTTCCCGAATTT
* *
44406597 TATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTACATTATTTAAGTACATTAT
65 TATTACTTT-AATAAAAATATAATATTTTCGTATTTTATTATATTACATTATTTAAGTACATTAT
44406662 GTTTGAAATGTATTAATT
129 GTTTGAAATGTATTAATT
44406680 AATTCTATTT
Statistics
Matches: 131, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
152 11 0.08
153 32 0.24
154 23 0.18
156 1 0.01
157 62 0.47
158 2 0.02
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.48
Consensus pattern (156 bp):
TTAAAAAAGAATTTAGAAAAAAACCCTTATTTCGGCCCTTTGCTCGTATTTTTTTCCCGAATTTT
ATTACTTTAATAAAAATATAATATTTTCGTATTTTATTATATTACATTATTTAAGTACATTATGT
TTGAAATGTATTAATTTAGTGAGTTT
Found at i:44406755 original size:120 final size:119
Alignment explanation
Indices: 44406630--44406847 Score: 330
Period size: 120 Copynumber: 1.8 Consensus size: 119
44406620 TATTTTCGTA
* *
44406630 TTTTATTATTTTACATTATTTAAGTACATTATGTTTGAAATGTATTAATTAATTCTATTTTTTTA
1 TTTTATTATTTTACATTATTTAAGTACATTATGTTTGAAATGTATTAATTAAGTCT-GTTTTTTA
*
44406695 AA-AAATAGTAAAAAACTCTTATTTCTGCCCTTTAAAAAAATATACTACTTTTTAT
65 AATAAAT-GTAAAAAACTCTTATTTCGGCCCTTTAAAAAAATATACTACTTTTTAT
* * * * *
44406750 TTTTATTATTTTACATTATTTTAGTACATTATGTTTTAAATTTATTAATTTAGTGTGTTTTTTAA
1 TTTTATTATTTTACATTATTTAAGTACATTATGTTTGAAATGTATTAATTAAGTCTGTTTTTTAA
*
44406815 ATAAATTTAAAAAACTCTTATTTCGGCCCTTTA
66 ATAAATGTAAAAAACTCTTATTTCGGCCCTTTA
44406848 CTCGTATTTT
Statistics
Matches: 88, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
119 34 0.39
120 54 0.61
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (119 bp):
TTTTATTATTTTACATTATTTAAGTACATTATGTTTGAAATGTATTAATTAAGTCTGTTTTTTAA
ATAAATGTAAAAAACTCTTATTTCGGCCCTTTAAAAAAATATACTACTTTTTAT
Found at i:44406909 original size:152 final size:151
Alignment explanation
Indices: 44406730--44407228 Score: 600
Period size: 152 Copynumber: 3.3 Consensus size: 151
44406720 TGCCCTTTAA
* *
44406730 AAAAATATACTACTTTTTATTTTTATTATTTTACATTATTTTAGTACATTATGTTTTAAATTTAT
1 AAAAATATACTATTTTTTA-TTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTAT
* * *
44406795 TAATTTAGTGTGTTTTTTAAATAAATTTAAAAAACTCTTATTTCGGCCCTTTACTCGTATTTTTT
65 TAATTTAGTATGTTTTTTAAATAAATTTAAAAAACCCTTATTTCGGCCCTTTGCTCGTATTTTTT
44406860 CCCGAATTTTATTACTTTCAAT
130 CCCGAATTTTATTACTTTCAAT
* *
44406882 AAAAATATATTATTTTTGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTAT
1 AAAAATATACTATTTTT-TATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTAT
* ** * * * *
44406947 TAAGTAATT-CTAT-TTTTTTAAATTTA-GTAAAATACCCTTATTTCGACCCTTTGTTCGTATTT
65 TAA-T--TTAGTATGTTTTTTAAATAAATTTAAAAAACCCTTATTTCGGCCCTTTGCTCGTA--T
*
44407009 TTTTTCTCCGGATTTTATTACTTT--A-
125 TTTTTC-CCGAATTTTATTACTTTCAAT
* * *
44407034 CAAAATATACGATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTAT
1 AAAAATATACTATTTT-TTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTAT
* * * * *
44407099 TAATTTAGTATGTTTTCTAAATAAAGTTCAAAAAATAACCCTTATTTCGGCCATTTGCTTGTCTT
65 TAATTTAGTATGTTTTTTAAATAAA-TT--TAAAA-AACCCTTATTTCGGCCCTTTGCTCGTATT
*
44407164 TTTTCCCAAATTTTATTACTTTCAAT
126 TTTTCCCGAATTTTATTACTTTCAAT
*
44407190 AAAAATATA-TATTTTTTATTTTGTTATTTTACATT-TTTT
1 AAAAATATACTATTTTTTATTTTATTATTTTACATTATTTT
44407229 CGGATTTTAT
Statistics
Matches: 291, Mismatches: 38, Indels: 35
0.80 0.10 0.10
Matches are distributed among these distances:
149 2 0.01
150 3 0.01
151 11 0.04
152 149 0.51
153 35 0.12
154 34 0.12
155 28 0.10
156 29 0.10
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.53
Consensus pattern (151 bp):
AAAAATATACTATTTTTTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTATT
AATTTAGTATGTTTTTTAAATAAATTTAAAAAACCCTTATTTCGGCCCTTTGCTCGTATTTTTTC
CCGAATTTTATTACTTTCAAT
Found at i:44406943 original size:272 final size:273
Alignment explanation
Indices: 44406448--44406998 Score: 851
Period size: 272 Copynumber: 2.0 Consensus size: 273
44406438 AATTTTATTA
*
44406448 CTTTAAAAAATATAATATTTTCTAATTTTATTGTATTACATTATTTTAGTACATTATGTTTGAAA
1 CTTTAAAAAATATAATATTTTCTAATTTTATTATATTACATTATTTTAGTACATTATGTTTGAAA
*
44406513 TTCATTAATTTAGTGAGTTTTTAAAATAAATTTAGAAAAATAACCCTTATTTCGGCCCTTTGCTC
66 TTCATTAATTTAGTGAGTTTTTAAAATAAATTT--AAAAATAACCCTTATTTCGGCCCTTTACTC
*
44406578 GTATTTTTTTCCCGGATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTA
129 GTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTA
*
44406643 CATTATTTAAGTACATTATGTTTGAAATGTATTAATTAATTCTATTTTTTTAAAAAATAGTAAAA
194 CATTATTTAAGTACATTATGTTTGAAATGTATTAAGTAATTCTATTTTTTT-AAAAATAGTAAAA
*
44406708 AACTCTTATTTCTG-CC
258 AACCCTTATTTC-GACC
* * * *
44406724 CTTTAAAAAAATATACTACTTTT-TATTTTTATTATTTTACATTATTTTAGTACATTATGTTTTA
1 CTTT-AAAAAATATAATA-TTTTCTAATTTTATTATATTACATTATTTTAGTACATTATGTTTGA
* * * *
44406788 AATTTATTAATTTAGTGTGTTTTTTAAATAAATTT-AAAA-AACTCTTATTTCGGCCCTTTACTC
64 AATTCATTAATTTAGTGAGTTTTTAAAATAAATTTAAAAATAACCCTTATTTCGGCCCTTTACTC
*
44406851 GTA-TTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTTGTATTTTATTATTTTA
129 GTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTA
* ** *
44406915 CATTATTTTAGTACATTATGTTTGAAATGTATTAAGTAATTCTATTTTTTTAAATTTAGTAAAAT
194 CATTATTTAAGTACATTATGTTTGAAATGTATTAAGTAATTCTATTTTTTTAAAAATAGTAAAAA
44406980 ACCCTTATTTCGACC
259 ACCCTTATTTCGACC
44406995 CTTT
1 CTTT
44406999 GTTCGTATTT
Statistics
Matches: 254, Mismatches: 18, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
270 1 0.00
271 27 0.11
272 108 0.43
273 25 0.10
274 4 0.02
276 4 0.02
277 81 0.32
278 4 0.02
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.50
Consensus pattern (273 bp):
CTTTAAAAAATATAATATTTTCTAATTTTATTATATTACATTATTTTAGTACATTATGTTTGAAA
TTCATTAATTTAGTGAGTTTTTAAAATAAATTTAAAAATAACCCTTATTTCGGCCCTTTACTCGT
ATTTTTTTCCCGAATTTTATTACTTTCAATAAAAATATATTATTTTCGTATTTTATTATTTTACA
TTATTTAAGTACATTATGTTTGAAATGTATTAAGTAATTCTATTTTTTTAAAAATAGTAAAAAAC
CCTTATTTCGACC
Found at i:44407583 original size:21 final size:19
Alignment explanation
Indices: 44407557--44407606 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
44407547 TTATTTATTT
44407557 CTTTCTTTTTCCTTCCTTCC
1 CTTTCTTTTTCC-TCCTTCC
* *
44407577 CTCTTCTTCTT-CTCCTTTC
1 CT-TTCTTTTTCCTCCTTCC
44407596 CTTTCTTTTTC
1 CTTTCTTTTTC
44407607 TTTCTTTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 7 0.28
19 8 0.32
20 3 0.12
21 7 0.28
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (19 bp):
CTTTCTTTTTCCTCCTTCC
Found at i:44407623 original size:14 final size:14
Alignment explanation
Indices: 44407583--44407629 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
44407573 TTCCCTCTTC
44407583 TTCTTCTCCTTTCCT
1 TTCTTCTCCTTT-CT
* *
44407598 TTCTTTTTCTTTCT
1 TTCTTCTCCTTTCT
*
44407612 TTCTTCTCCTTTCC
1 TTCTTCTCCTTTCT
44407626 TTCT
1 TTCT
44407630 CCACCCCACC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 17 0.63
15 10 0.37
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (14 bp):
TTCTTCTCCTTTCT
Found at i:44407743 original size:5 final size:5
Alignment explanation
Indices: 44407735--44407809 Score: 52
Period size: 5 Copynumber: 15.4 Consensus size: 5
44407725 TGGGGTGGAG
* *
44407735 AAGGA AAGGA GAA-GA AA-GA AAGAA AATGA AAGGA GAA-GA AAGGA AAGGA
1 AAGGA AAGGA -AAGGA AAGGA AAGGA AAGGA AAGGA -AAGGA AAGGA AAGGA
* *
44407784 AAGGA GAA-G- AAGAA AAGGG AAGGA AA
1 AAGGA -AAGGA AAGGA AAGGA AAGGA AA
44407810 AAGAAAGAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
3 2 0.04
4 8 0.15
5 39 0.71
6 6 0.11
ACGTcount: A:0.63, C:0.00, G:0.36, T:0.01
Consensus pattern (5 bp):
AAGGA
Found at i:44407775 original size:10 final size:11
Alignment explanation
Indices: 44407731--44407792 Score: 58
Period size: 10 Copynumber: 5.6 Consensus size: 11
44407721 CTGGTGGGGT
44407731 GGAGAAGGAAA
1 GGAGAAGGAAA
44407742 GGAGAA-GAAA
1 GGAGAAGGAAA
* *
44407752 GAAAGAAAATGAAA
1 G---GAGAAGGAAA
44407766 GGAGAA-GAAA
1 GGAGAAGGAAA
44407776 GGA-AAGGAAA
1 GGAGAAGGAAA
44407786 GGAGAAG
1 GGAGAAG
44407793 AAGAAAAGGG
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
9 2 0.05
10 19 0.44
11 13 0.30
13 4 0.09
14 5 0.12
ACGTcount: A:0.60, C:0.00, G:0.39, T:0.02
Consensus pattern (11 bp):
GGAGAAGGAAA
Found at i:44407775 original size:20 final size:20
Alignment explanation
Indices: 44407750--44407820 Score: 90
Period size: 20 Copynumber: 3.5 Consensus size: 20
44407740 AAGGAGAAGA
*
44407750 AAGAAAGAAAATGAAAGGAG
1 AAGAAAGAAAAGGAAAGGAG
*
44407770 AAGAAAGGAAAGGAAAGGAG
1 AAGAAAGAAAAGGAAAGGAG
* *
44407790 AAG-AAGAAAAGGGAAGGAAA
1 AAGAAAGAAAAGGAAAGG-AG
44407810 AAGAAAGAAAA
1 AAGAAAGAAAA
44407821 AAAATAAGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
19 12 0.27
20 25 0.57
21 7 0.16
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.01
Consensus pattern (20 bp):
AAGAAAGAAAAGGAAAGGAG
Found at i:44407806 original size:24 final size:24
Alignment explanation
Indices: 44407735--44407809 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 24
44407725 TGGGGTGGAG
*
44407735 AAGGAAAGGAGAAGAA-AGAAAGAA
1 AAGGAAAGGAGAAGAAGA-AAAGGA
*
44407759 AATGAAA-G-G-AGAAG-AAAGGA
1 AAGGAAAGGAGAAGAAGAAAAGGA
*
44407779 AAGGAAAGGAGAAGAAGAAAAGGG
1 AAGGAAAGGAGAAGAAGAAAAGGA
44407803 AAGGAAA
1 AAGGAAA
44407810 AAGAAAGAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
20 11 0.26
21 5 0.12
22 2 0.05
23 6 0.14
24 18 0.43
ACGTcount: A:0.63, C:0.00, G:0.36, T:0.01
Consensus pattern (24 bp):
AAGGAAAGGAGAAGAAGAAAAGGA
Found at i:44408357 original size:154 final size:151
Alignment explanation
Indices: 44408144--44408997 Score: 944
Period size: 154 Copynumber: 5.6 Consensus size: 151
44408134 ATAAAATCTG
* * * *
44408144 AAAAAAATATAAAATAACAAAATAAAAAATA-TATATATTTTTATTGAAAGTAATAAAATTCGGG
1 AAAATAATGTAAAATAATAAAATAGAAAATAGTATAT-TTTTTA---AAAGTAATAAAATTCGGG
* * *
44408208 AAAAAATACGAACAAAGGGCCGAAATAAGGGTTATTTTTTGAAATTTATTTAACAAACACATTAA
62 AAAAAATACGAATAAAGGGCCGAAATAAGGGTT-TTTTTT-AAATTTATTTAAAAAACAAATTAA
*
44408273 ATTAATAAATTTCAAACATAATGTACT
125 ATTAATAAATTTAAAACATAATGTACT
* *
44408300 AAAATAATGTACAATAATAAAATTAGAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGAAAA
1 AAAATAATGTAAAATAATAAAA-TAGAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGAAA
* ** * ***
44408365 AAATACGAACAAAGGGCCGAAATAAGAATATTTTACCAATTTA---AAAAAACAGAATT-AATTA
65 AAATACGAATAAAGGGCCGAAATAAGGGTTTTTTTTAAATTTATTTAAAAAACA-AATTAAATTA
* *
44408426 ATACATTTCAAACATAATGTACT
129 ATAAATTTAAAACATAATGTACT
*
44408449 AAAATAATGTAAAATAATAAAATACGAAAATAATATATTTTTATTAAAAGTAATAAAATTCGGGA
1 AAAATAATGTAAAATAATAAAATA-GAAAATAGTATA-TTTT-TTAAAAGTAATAAAATTCGGGA
* * * * *
44408514 AAAAATACTAGTAAACGGCCGAAATAA-GGCTTTTTTTAAATTTATTTAAAAAAACAAACTAAAT
63 AAAAATACGAATAAAGGGCCGAAATAAGGGTTTTTTTTAAATTTATTT-AAAAAACAAATTAAAT
44408578 TAATAAATTTAAAACATAATGTACT
127 TAATAAATTTAAAACATAATGTACT
* *
44408603 AAAATAATGTAAAATAATAAAAATAAAAAATAGTATATTTTTTTAAAGTAATAAAATTCGGGGAA
1 AAAATAATGTAAAATAAT-AAAATAGAAAATAGTATATTTTTTAAAAGTAATAAAATTC-GGG-A
* * *
44408668 AAAAATACGAAGAAAGTGCCGAAATAAGGGTTTTTTACTAAA-TTA---AAAAAACAGAATT-AA
63 AAAAATACGAATAAAGGGCCGAAATAAGGGTTTTTT-TTAAATTTATTTAAAAAACA-AATTAAA
* *
44408728 TTAATACATTTGAAACATAATG---T
126 TTAATAAATTTAAAACATAATGTACT
** *
44408751 AAAATAA--TAAAATACA-AAAAT--AAAATA-T-T-TTAATTGAAAGTAATAAAATTCGGGAAA
1 AAAATAATGTAAAATA-ATAAAATAGAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGAAA
* * * *
44408808 AAATACGAGTAAAGGGCCGAAATAAGGGTTACTTTTCTAAATTTATTTAAAAAAACACACTAAAT
65 AAATACGAATAAAGGGCCGAAATAAGGGTT--TTTTTTAAATTTATTT-AAAAAACAAATTAAAT
* *
44408873 TAATGAATTTAAAATATAATGTACT
127 TAATAAATTTAAAACATAATGTACT
* *
44408898 AAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTTT-AAAGTATTAAAATCCGGGGAA
1 AAAATAATGTAAAATAATAAAA-TAGAAAATAGTATATTTTTTAAAAGTAATAAAATTC-GGG-A
44408962 AAAAATACGAATAAAGGGCCGAAATAAGGGTTTTTT
63 AAAAATACGAATAAAGGGCCGAAATAAGGGTTTTTT
44408998 ACTAATTTTT
Statistics
Matches: 596, Mismatches: 62, Indels: 82
0.81 0.08 0.11
Matches are distributed among these distances:
138 30 0.05
139 8 0.01
140 26 0.04
141 1 0.00
142 1 0.00
143 8 0.01
144 28 0.05
145 5 0.01
146 7 0.01
147 9 0.02
148 11 0.02
149 77 0.13
150 18 0.03
151 74 0.12
152 32 0.05
153 15 0.03
154 150 0.25
155 23 0.04
156 54 0.09
157 14 0.02
158 5 0.01
ACGTcount: A:0.53, C:0.07, G:0.11, T:0.30
Consensus pattern (151 bp):
AAAATAATGTAAAATAATAAAATAGAAAATAGTATATTTTTTAAAAGTAATAAAATTCGGGAAAA
AATACGAATAAAGGGCCGAAATAAGGGTTTTTTTTAAATTTATTTAAAAAACAAATTAAATTAAT
AAATTTAAAACATAATGTACT
Found at i:44408917 original size:144 final size:140
Alignment explanation
Indices: 44408606--44409002 Score: 400
Period size: 138 Copynumber: 2.8 Consensus size: 140
44408596 ATGTACTAAA
** *
44408606 ATAATGTAAAATAATAAAAATA-AAAAATAGTATATTTT--TTTAAAGTAATAAAATTCGGGGAA
1 ATAATGTAAAATAAT-AAAATACAAAAATAAAATATTTTAATTGAAAGTAATAAAATTCGGGGAA
* * *
44408668 AAAAATACGAAGAAAGTGCCGAAATAAGGGTTTTTTACTAAATTAAAAAAACAGAATTAATTAAT
65 AAAAATACGAAGAAAGGGCCGAAATAAGGGTTTTTTACTAAATTAAAAAAACACAATAAATTAAT
*
44408733 ACATTTGAAAC
130 ACATTTAAAAC
44408744 ATAATGTAAAATAATAAAATACAAAAATAAAATATTTTAATTGAAAGTAATAAAATTC-GGG-AA
1 ATAATGTAAAATAATAAAATACAAAAATAAAATATTTTAATTGAAAGTAATAAAATTCGGGGAAA
*
44408807 AAAATACG-AGTAAAGGGCCGAAATAAGGGTTACTTTT-CTAAATTTATTTAAAAAAACACACTA
66 AAAATACGAAG-AAAGGGCCGAAATAAGGGTT--TTTTACT-AA---A-TTAAAAAAACACAATA
*
44408870 AATTAATGA-ATTTAAAAT
123 AATTAAT-ACATTTAAAAC
* * *
44408888 ATAATGTACTAAAATAATGTAAAATA-ATAAAATTAGAAAATAGTATATT-TTTTAAAGTATTAA
1 ATAATG---TAAAATAA--TAAAATACA-AAAA-T--AAAATA-T-T-TTAATTGAAAGTAATAA
* *
44408951 AATCCGGGGAAAAAAATACGAATAAAGGGCCGAAATAAGGGTTTTTTACTAA
54 AATTCGGGGAAAAAAATACGAAGAAAGGGCCGAAATAAGGGTTTTTTACTAA
44409003 TTTTTTTTGA
Statistics
Matches: 217, Mismatches: 14, Indels: 40
0.80 0.05 0.15
Matches are distributed among these distances:
137 8 0.04
138 58 0.27
139 5 0.02
140 23 0.11
143 1 0.00
144 33 0.15
145 1 0.00
147 8 0.04
148 1 0.00
149 11 0.05
150 1 0.00
152 6 0.03
153 1 0.00
154 22 0.10
155 7 0.03
156 30 0.14
157 1 0.00
ACGTcount: A:0.52, C:0.06, G:0.13, T:0.29
Consensus pattern (140 bp):
ATAATGTAAAATAATAAAATACAAAAATAAAATATTTTAATTGAAAGTAATAAAATTCGGGGAAA
AAAATACGAAGAAAGGGCCGAAATAAGGGTTTTTTACTAAATTAAAAAAACACAATAAATTAATA
CATTTAAAAC
Found at i:44408936 original size:295 final size:294
Alignment explanation
Indices: 44408152--44409002 Score: 1230
Period size: 305 Copynumber: 2.9 Consensus size: 294
44408142 TGAAAAAAAT
* *
44408152 ATAAAATAACAAAATAAAAAATATATATATTTTTATTGAAAGTAATAAAATTCGGGAAAAAATAC
1 ATAAAATAATAAAATAAAAAATATAAATATTTTTATTGAAAGTAATAAAATTCGGGAAAAAATAC
** * *
44408217 GAACAAAGGGCCGAAATAAGGGTTATTTTTTGAAATTTATTT-AACAAACACATTAAATTAATAA
66 GAGTAAAGGGCCGAAATAAGGGTTA-TTTTT-AAATTTATTTAAAAAAACACACTAAATTAATAA
* * *
44408281 ATTTCAAACATAATGTACTAAAATAATGTACAATAATAAAATTAGAAAATAGTATATTTTTTAAA
129 ATTTAAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTTTTAA
** * * *
44408346 AGTAATAAAATTC--GGAAAAAAATACGAACAAAGGGCCGAAATAAGAATATTTTACCAATTTAA
194 AGTAATAAAATTCGGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTACTAAATTAA
44408409 AAAAACAGAATTAATTAATACATTTCAAACATAATG
259 AAAAACAGAATTAATTAATACATTTCAAACATAATG
*
44408445 TACTAAAATAATGTAAAATAATAAAATACGAAAATAATATATTTTTATTAAAAGTAATAAAATTC
1 -A-TAAAATAA--TAAAATAA-AAAAT------ATAA-ATATTTTTATTGAAAGTAATAAAATTC
* * * *
44408510 GGGAAAAAATACTAGTAAACGGCCGAAATAAGGCTT-TTTTTAAATTTATTTAAAAAAACAAACT
54 GGGAAAAAATACGAGTAAAGGGCCGAAATAAGGGTTATTTTTAAATTTATTTAAAAAAACACACT
* *
44408574 AAATTAATAAATTTAAAACATAATGTACTAAAATAATGTAAAATAATAAAAATAAAAAATAGTAT
119 AAATTAATAAATTTAAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTAT
* *
44408639 ATTTTTTTAAAGTAATAAAATTCGGGGAAAAAAATACGAAGAAAGTGCCGAAATAAGGGTTTTTT
184 ATTTTTTTAAAGTAATAAAATTCGGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTT
*
44408704 ACTAAATTAAAAAAACAGAATTAATTAATACATTTGAAACATAATG
249 ACTAAATTAAAAAAACAGAATTAATTAATACATTTCAAACATAATG
*
44408750 -TAAAATAATAAAATACAAAAATA-AAATATTTTAATTGAAAGTAATAAAATTCGGGAAAAAATA
1 ATAAAATAATAAAATA-AAAAATATAAATATTTTTATTGAAAGTAATAAAATTCGGGAAAAAATA
*
44408813 CGAGTAAAGGGCCGAAATAAGGGTTACTTTTCTAAATTTATTTAAAAAAACACACTAAATTAATG
65 CGAGTAAAGGGCCGAAATAAGGGTTA-TTTT-TAAATTTATTTAAAAAAACACACTAAATTAATA
*
44408878 AATTTAAAATATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATA-TTTTTTA
128 AATTTAAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTTTTA
* * *
44408942 AAGTATTAAAATCCGGGGAAAAAAATACGAATAAAGGGCCGAAATAAGGGTTTTTTACTAA
193 AAGTAATAAAATTCGGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTACTAA
44409003 TTTTTTTTGA
Statistics
Matches: 501, Mismatches: 38, Indels: 36
0.87 0.07 0.06
Matches are distributed among these distances:
292 58 0.12
293 2 0.00
294 70 0.14
295 93 0.19
297 7 0.01
298 5 0.01
300 12 0.02
301 1 0.00
302 18 0.04
303 97 0.19
304 3 0.01
305 135 0.27
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (294 bp):
ATAAAATAATAAAATAAAAAATATAAATATTTTTATTGAAAGTAATAAAATTCGGGAAAAAATAC
GAGTAAAGGGCCGAAATAAGGGTTATTTTTAAATTTATTTAAAAAAACACACTAAATTAATAAAT
TTAAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTTTTAAAG
TAATAAAATTCGGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTACTAAATTAAAA
AAACAGAATTAATTAATACATTTCAAACATAATG
Found at i:44412507 original size:84 final size:84
Alignment explanation
Indices: 44412362--44412519 Score: 214
Period size: 84 Copynumber: 1.9 Consensus size: 84
44412352 ATATGTGTTA
* * * *
44412362 TCGTGTAAGACCACGTTTGGGACGTTGGCATCGACTTGTGTTTACGTGTAAGACCATGTCTGGGA
1 TCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTACATGTAAGACCACGTCTGGGA
44412427 CATTGGCATCGTATTTGAT
66 CATTGGCATCGTATTTGAT
*
44412446 TCGTGTAAGACC-CTGTCTGGGACAG-TGGCATTGA-TATGTGATTACATGTAAGACCACGTCTG
1 TCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACT-TGTGATTACATGTAAGACCACGTCTG
*
44412508 GGACGTTGGCAT
63 GGACATTGGCAT
44412520 TGTACGAGTC
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
83 2 0.03
84 62 0.95
85 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (84 bp):
TCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTACATGTAAGACCACGTCTGGGA
CATTGGCATCGTATTTGAT
Found at i:44412521 original size:43 final size:43
Alignment explanation
Indices: 44412350--44412519 Score: 199
Period size: 43 Copynumber: 4.0 Consensus size: 43
44412340 ATAGGATTTC
*
44412350 CGATATGTG-TTATCGTGTAAGACCACGTTTGGGACGTTGGCAT
1 CGATATGTGATTA-CGTGTAAGACCACGTCTGGGACGTTGGCAT
* * *
44412393 CGACT-TGTGTTTACGTGTAAGACCATGTCTGGGACATTGGCAT
1 CGA-TATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
*
44412436 CG-TATTTGATT-CGTGTAAGACC-CTGTCTGGGACAG-TGGCAT
1 CGATATGTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCAT
* *
44412477 TGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
44412520 TGTACGAGTC
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
41 28 0.26
42 14 0.13
43 61 0.56
44 5 0.05
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.32
Consensus pattern (43 bp):
CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:44412709 original size:16 final size:17
Alignment explanation
Indices: 44412680--44412711 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
44412670 TGAATTGATG
44412680 ATATGAAGTTATGTGAA
1 ATATGAAGTTATGTGAA
44412697 ATATGAA-TTATGTGA
1 ATATGAAGTTATGTGA
44412712 TTGCATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (17 bp):
ATATGAAGTTATGTGAA
Found at i:44414372 original size:39 final size:38
Alignment explanation
Indices: 44414328--44414529 Score: 139
Period size: 39 Copynumber: 5.3 Consensus size: 38
44414318 ACTAACACAA
44414328 TAACAATAATAATAGTTTTTTACTCAAAATAATACTAAC
1 TAACAATAATAATAGTTTTTTACT-AAAATAATACTAAC
** *
44414367 TAACAATAATAATTAGAGTTTTACT-AAA-AATAATAAC
1 TAACAATAATAA-TAGTTTTTTACTAAAATAATACTAAC
* **** *
44414404 TAACAATAAT-ATAATGTAAAAACTAACAATCATACTAAC
1 TAACAATAATAATAGT-TTTTTACTAA-AATAATACTAAC
* *
44414443 TAA-AATAATAATTAGGGTTTTTACT--AATCCATAACTAAC
1 TAACAATAATAA-TA-GTTTTTTACTAAAAT-AAT-ACTAAC
* * * *
44414482 -CATAATAATATTAGTTTTTTACTAATAATAATACTAAG
1 TAACAATAATAATAGTTTTTTACTAA-AATAATACTAAC
44414520 TAACAATAAT
1 TAACAATAAT
44414530 TATTAATAAC
Statistics
Matches: 123, Mismatches: 25, Indels: 30
0.69 0.14 0.17
Matches are distributed among these distances:
35 2 0.02
36 4 0.03
37 31 0.25
38 22 0.18
39 45 0.37
40 19 0.15
ACGTcount: A:0.50, C:0.11, G:0.04, T:0.34
Consensus pattern (38 bp):
TAACAATAATAATAGTTTTTTACTAAAATAATACTAAC
Found at i:44414413 original size:37 final size:38
Alignment explanation
Indices: 44414328--44414414 Score: 115
Period size: 37 Copynumber: 2.3 Consensus size: 38
44414318 ACTAACACAA
** *
44414328 TAACAATAATAATAGTTTTTTACTCAAAATAATACTAAC
1 TAACAATAATAATAGAGTTTTACT-AAAATAATAATAAC
44414367 TAACAATAATAATTAGAGTTTTACT-AAA-AATAATAAC
1 TAACAATAATAA-TAGAGTTTTACTAAAATAATAATAAC
44414404 TAACAATAATA
1 TAACAATAATA
44414415 TAATGTAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
37 19 0.43
38 3 0.07
39 12 0.27
40 10 0.23
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.33
Consensus pattern (38 bp):
TAACAATAATAATAGAGTTTTACTAAAATAATAATAAC
Found at i:44414446 original size:23 final size:23
Alignment explanation
Indices: 44414401--44414447 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
44414391 TAAAAATAAT
*
44414401 AACTAACAATAATATAATGTAAA
1 AACTAACAATAATATAATCTAAA
*
44414424 AACTAACAATCATACTAA-CTAAA
1 AACTAACAATAATA-TAATCTAAA
44414447 A
1 A
44414448 TAATAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.23
Consensus pattern (23 bp):
AACTAACAATAATATAATCTAAA
Found at i:44414487 original size:36 final size:36
Alignment explanation
Indices: 44414439--44414507 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 36
44414429 ACAATCATAC
44414439 TAACTAAAATAAT-A-ATTAGGGTTTTTACTAATCCA
1 TAACTAAAATAATAATATTA-GGTTTTTACTAATCCA
* *
44414474 TAACTAACCATAATAATATTAGTTTTTTACTAAT
1 TAACTAA-AATAATAATATTAGGTTTTTACTAAT
44414508 AATAATACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 7 0.24
36 5 0.17
37 13 0.45
38 4 0.14
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.41
Consensus pattern (36 bp):
TAACTAAAATAATAATATTAGGTTTTTACTAATCCA
Found at i:44415136 original size:21 final size:22
Alignment explanation
Indices: 44415112--44415163 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
44415102 TGGCCAGTAC
*
44415112 AAATAACAA-AAACAATAGC-AA
1 AAATAACAACAAA-AACAGCAAA
44415133 AAATAACAACAAAAACAGCAGAA
1 AAATAACAACAAAAACAGCA-AA
44415156 AAATAACA
1 AAATAACA
44415164 GCACCAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 14 0.52
22 3 0.11
23 10 0.37
ACGTcount: A:0.71, C:0.15, G:0.06, T:0.08
Consensus pattern (22 bp):
AAATAACAACAAAAACAGCAAA
Found at i:44415157 original size:23 final size:24
Alignment explanation
Indices: 44415116--44415163 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
44415106 CAGTACAAAT
*
44415116 AACAAAAACAATAGCAAAAATAAC
1 AACAAAAACAACAGCAAAAATAAC
*
44415140 AACAAAAACAGCAG-AAAAATAAC
1 AACAAAAACAACAGCAAAAATAAC
44415163 A
1 A
44415164 GCACCAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.71, C:0.17, G:0.06, T:0.06
Consensus pattern (24 bp):
AACAAAAACAACAGCAAAAATAAC
Found at i:44417578 original size:16 final size:16
Alignment explanation
Indices: 44417557--44417610 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
44417547 AAATTTTATC
*
44417557 TTTAAAAATAATATAT
1 TTTAAAAATATTATAT
* *
44417573 TTTAAATATTTTATAAT
1 TTTAAAAATATTAT-AT
*
44417590 ATTAAAAA-ATTATAT
1 TTTAAAAATATTATAT
44417605 TTTAAA
1 TTTAAA
44417611 TTTTATAAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
15 7 0.23
16 15 0.50
17 8 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTTAAAAATATTATAT
Found at i:44417586 original size:31 final size:32
Alignment explanation
Indices: 44417558--44417618 Score: 90
Period size: 30 Copynumber: 1.9 Consensus size: 32
44417548 AATTTTATCT
44417558 TTAAAAATAATATATTTTAAATATTTTATAATA
1 TTAAAAA-AATATATTTTAAATATTTTATAATA
*
44417591 TTAAAAAATTATATTTT-AA-ATTTTATAA
1 TTAAAAAAATATATTTTAAATATTTTATAA
44417619 AATCAGTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 9 0.33
31 2 0.07
32 9 0.33
33 7 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (32 bp):
TTAAAAAAATATATTTTAAATATTTTATAATA
Found at i:44417606 original size:32 final size:31
Alignment explanation
Indices: 44417546--44417618 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 31
44417536 AAACAAACAA
*
44417546 TAAATTTTAT-CT-TTAAAAATAATATATTT
1 TAAATTTTATAATATTAAAAATAATATATTT
*
44417575 TAAATATTTTATAATATTAAAAA-ATTATATTT
1 T-AA-ATTTTATAATATTAAAAATAATATATTT
44417607 TAAATTTTATAA
1 TAAATTTTATAA
44417619 AATCAGTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
29 1 0.03
30 11 0.29
31 9 0.24
32 10 0.26
33 7 0.18
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (31 bp):
TAAATTTTATAATATTAAAAATAATATATTT
Found at i:44417607 original size:23 final size:22
Alignment explanation
Indices: 44417578--44417621 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
44417568 TATATTTTAA
44417578 ATATTTTATAATATTAAAAAATT
1 ATATTTTA-AATATTAAAAAATT
* *
44417601 ATATTTTAAATTTTATAAAAT
1 ATATTTTAAATATTAAAAAAT
44417622 CAGTAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATATTTTAAATATTAAAAAATT
Found at i:44418270 original size:18 final size:20
Alignment explanation
Indices: 44418247--44418289 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
44418237 TTTATAATAT
*
44418247 TATTTTTTAA-ATT-TTAAA
1 TATTTTTTAATATTATAAAA
44418265 TATTTTTTAATATTATAAAA
1 TATTTTTTAATATTATAAAA
44418285 TATTT
1 TATTT
44418290 AAAATATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.45
19 3 0.14
20 9 0.41
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTTTTTAATATTATAAAA
Found at i:44418358 original size:13 final size:13
Alignment explanation
Indices: 44418342--44418389 Score: 50
Period size: 14 Copynumber: 3.9 Consensus size: 13
44418332 TGTTTTTATA
44418342 ATATTTTAAATAT
1 ATATTTTAAATAT
44418355 ATATTTT-AA-A-
1 ATATTTTAAATAT
44418365 A-ATTTTAAATAT
1 ATATTTTAAATAT
*
44418377 AATTTTTTAAATA
1 -ATATTTTAAATA
44418390 ATTATTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
9 5 0.17
10 3 0.10
11 2 0.07
12 2 0.07
13 8 0.28
14 9 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATTTTAAATAT
Found at i:44418372 original size:22 final size:23
Alignment explanation
Indices: 44418335--44418392 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
44418325 TATTATTTGT
*
44418335 TTTTATAATATTTTAAATAT-ATA
1 TTTTA-AAAATTTTAAATATAATA
*
44418358 TTTTAAAAATTTTAAATATAATT
1 TTTTAAAAATTTTAAATATAATA
44418381 TTTTAAATAATT
1 TTTTAAA-AATT
44418393 ATTTTTTAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
22 13 0.42
23 14 0.45
24 4 0.13
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTTAAAAATTTTAAATATAATA
Found at i:44418386 original size:14 final size:15
Alignment explanation
Indices: 44418367--44418400 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
44418357 ATTTTAAAAA
44418367 TTTTAAAT-ATAATT
1 TTTTAAATAATAATT
*
44418381 TTTTAAATAATTATT
1 TTTTAAATAATAATT
44418396 TTTTA
1 TTTTA
44418401 GAGATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTAAATAATAATT
Found at i:44418464 original size:22 final size:23
Alignment explanation
Indices: 44418422--44418472 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
44418412 ACGTTTTAAA
*
44418422 AAAAATTATATTTAAAATTTTTT
1 AAAAATAATATTTAAAATTTTTT
*
44418445 AAAAATAATATTT-AATTTTTTT
1 AAAAATAATATTTAAAATTTTTT
44418467 AAAAAT
1 AAAAAT
44418473 TTTAAATGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AAAAATAATATTTAAAATTTTTT
Found at i:44418529 original size:21 final size:22
Alignment explanation
Indices: 44418494--44418535 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
44418484 GCACCGAGTA
*
44418494 AAATATTATTTTTAAAAATTTT
1 AAATATTAATTTTAAAAATTTT
44418516 AAATA-TAATTTTAAAAATTT
1 AAATATTAATTTTAAAAATTT
44418536 CGAATATCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AAATATTAATTTTAAAAATTTT
Found at i:44418541 original size:21 final size:21
Alignment explanation
Indices: 44418494--44418542 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
44418484 GCACCGAGTA
* *
44418494 AAATATTATTTTTAAAAATTTT
1 AAATA-TAATTTTAAAAATTTC
44418516 AAATATAATTTTAAAAATTTC
1 AAATATAATTTTAAAAATTTC
*
44418537 GAATAT
1 AAATAT
44418543 CTTTAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
AAATATAATTTTAAAAATTTC
Found at i:44418608 original size:23 final size:22
Alignment explanation
Indices: 44418562--44418611 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
44418552 TAATTTAAAA
* *
44418562 AAAAT-TATATTTAAAAATTTT
1 AAAATATACATTTAAAAATTAT
44418583 AAAATATACATTTAAAATATTAT
1 AAAATATACATTTAAAA-ATTAT
44418606 AAAATA
1 AAAATA
44418612 AAAAAAAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 5 0.20
22 10 0.40
23 10 0.40
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAATATACATTTAAAAATTAT
Found at i:44418650 original size:24 final size:23
Alignment explanation
Indices: 44418607--44418651 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
44418597 AAATATTATA
**
44418607 AAATAAAAAAAAACTGAAAAAGT
1 AAATAAAAAAAAACAAAAAAAGT
44418630 AAATAAAGAAAAAACAAAAAAA
1 AAATAAA-AAAAAACAAAAAAA
44418652 ATGAAAAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.80, C:0.04, G:0.07, T:0.09
Consensus pattern (23 bp):
AAATAAAAAAAAACAAAAAAAGT
Found at i:44433011 original size:11 final size:12
Alignment explanation
Indices: 44432994--44433026 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
44432984 GTATAATTTA
44432994 AAAAAATTATAT
1 AAAAAATTATAT
*
44433006 -AAAAATAATAT
1 AAAAAATTATAT
44433017 AAAAAATTAT
1 AAAAAATTAT
44433027 TCTAAGAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAAAATTATAT
Found at i:44434341 original size:44 final size:44
Alignment explanation
Indices: 44434249--44434342 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
44434239 AGATAGAAAG
* * * *
44434249 AAAGTTTATATAGGATGATGATGTTAATGTATTGTTGTCCCTTA
1 AAAGTTTATACAGGATGATGATGTTAATGTATTGCTATCCCCTA
*
44434293 AAAGTTTATACAGGATGATGATGTTAATGTATTGCTATCCCCTC
1 AAAGTTTATACAGGATGATGATGTTAATGTATTGCTATCCCCTA
44434337 AAAGTT
1 AAAGTT
44434343 AAGTTATGAC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (44 bp):
AAAGTTTATACAGGATGATGATGTTAATGTATTGCTATCCCCTA
Found at i:44436236 original size:14 final size:13
Alignment explanation
Indices: 44436217--44436273 Score: 55
Period size: 14 Copynumber: 4.2 Consensus size: 13
44436207 ATTTAGCCGA
44436217 ATATGCATCACCAC
1 ATATGCATCA-CAC
44436231 ATATGCAT-ACAC
1 ATATGCATCACAC
*
44436243 ATAGTTACATCATCAC
1 ATA--TGCATCA-CAC
44436259 ATATGCAT-ACAC
1 ATATGCATCACAC
44436271 ATA
1 ATA
44436274 GCTCACATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
12 12 0.32
13 2 0.05
14 16 0.43
15 1 0.03
16 6 0.16
ACGTcount: A:0.40, C:0.26, G:0.07, T:0.26
Consensus pattern (13 bp):
ATATGCATCACAC
Found at i:44442449 original size:25 final size:26
Alignment explanation
Indices: 44442395--44442451 Score: 64
Period size: 28 Copynumber: 2.2 Consensus size: 26
44442385 AGTAAATGTC
44442395 TATTTTTGTAATTAATCAATTTTCCCTA
1 TATTTTTGTAATTAATCAATTTT--CTA
*
44442423 TATTTTTCGTAATTAAT-TATTTT-TA
1 TATTTTT-GTAATTAATCAATTTTCTA
44442448 TATT
1 TATT
44442452 ATTTAGGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 6 0.22
28 12 0.44
29 9 0.33
ACGTcount: A:0.28, C:0.09, G:0.04, T:0.60
Consensus pattern (26 bp):
TATTTTTGTAATTAATCAATTTTCTA
Found at i:44444606 original size:6 final size:6
Alignment explanation
Indices: 44444595--44444626 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
44444585 AGCTGTGATT
44444595 TCCATC TCCATC TCCATC TCCATC TCCATC TC
1 TCCATC TCCATC TCCATC TCCATC TCCATC TC
44444627 TAACCAGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.50, G:0.00, T:0.34
Consensus pattern (6 bp):
TCCATC
Found at i:44447210 original size:21 final size:21
Alignment explanation
Indices: 44447185--44447228 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
44447175 TTTTGTTACA
44447185 ATGGCTTCTACAGATTCATCC
1 ATGGCTTCTACAGATTCATCC
44447206 ATGGCTTCTACAGATTCATCC
1 ATGGCTTCTACAGATTCATCC
44447227 AT
1 AT
44447229 TCTTTGGCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (21 bp):
ATGGCTTCTACAGATTCATCC
Found at i:44457250 original size:9 final size:9
Alignment explanation
Indices: 44457236--44457261 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
44457226 CGTGTTATAA
44457236 AATAAAGAG
1 AATAAAGAG
44457245 AATAAAGAG
1 AATAAAGAG
44457254 AATAAAGA
1 AATAAAGA
44457262 ACAAAGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.19, T:0.12
Consensus pattern (9 bp):
AATAAAGAG
Found at i:44475796 original size:11 final size:11
Alignment explanation
Indices: 44475774--44475835 Score: 63
Period size: 11 Copynumber: 5.6 Consensus size: 11
44475764 AACTAATCTT
44475774 CTCTCAAATTTC
1 CTCTC-AATTTC
44475786 CTCTCAATTTC
1 CTCTCAATTTC
* *
44475797 TTCTAAATTTC
1 CTCTCAATTTC
* *
44475808 CTCCCAATTTG
1 CTCTCAATTTC
*
44475819 CTCTCAAATTC
1 CTCTCAATTTC
44475830 CT-TCAA
1 CTCTCAA
44475836 AATTTCTCTC
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
10 4 0.10
11 32 0.78
12 5 0.12
ACGTcount: A:0.24, C:0.32, G:0.02, T:0.42
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:44475797 original size:22 final size:22
Alignment explanation
Indices: 44475772--44475847 Score: 86
Period size: 22 Copynumber: 3.4 Consensus size: 22
44475762 CAAACTAATC
44475772 TTCTCTCAAATTTCCTCTCAAT
1 TTCTCTCAAATTTCCTCTCAAT
*
44475794 TTCT-TCTAAATTTCCTCCCAAT
1 TTCTCTC-AAATTTCCTCTCAAT
44475816 TTGCTCTCAAA-TTCCT-TCAAAAT
1 TT-CTCTCAAATTTCCTCTC--AAT
44475839 TTCTCTCAA
1 TTCTCTCAA
44475848 GTCCATATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
21 3 0.06
22 32 0.68
23 10 0.21
24 2 0.04
ACGTcount: A:0.25, C:0.30, G:0.01, T:0.43
Consensus pattern (22 bp):
TTCTCTCAAATTTCCTCTCAAT
Found at i:44475908 original size:51 final size:51
Alignment explanation
Indices: 44475812--44475908 Score: 124
Period size: 51 Copynumber: 1.9 Consensus size: 51
44475802 AATTTCCTCC
* *
44475812 CAATTTGCTCTCAAATTCCTTCAAAATTTCTCTCAAGTCCATATTTATTTT
1 CAATTTGCTCTCAAACTCCTTCAAAATTTCTCTCAAATCCATATTTATTTT
* * * *
44475863 CAATTTGCTCTCAAGCTCC-TCTTAAATTTCTCTTAAATCCCTATTT
1 CAATTTGCTCTCAAACTCCTTC-AAAATTTCTCTCAAATCCATATTT
44475909 TTAAATAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
50 2 0.05
51 37 0.95
ACGTcount: A:0.26, C:0.26, G:0.04, T:0.44
Consensus pattern (51 bp):
CAATTTGCTCTCAAACTCCTTCAAAATTTCTCTCAAATCCATATTTATTTT
Found at i:44477160 original size:16 final size:17
Alignment explanation
Indices: 44477139--44477174 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
44477129 TACAGTAAGC
44477139 TTTTTTAATATAT-ATA
1 TTTTTTAATATATAATA
*
44477155 TTTTTTAATTTATAATA
1 TTTTTTAATATATAATA
44477172 TTT
1 TTT
44477175 AGATTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTTAATATATAATA
Found at i:44478136 original size:12 final size:12
Alignment explanation
Indices: 44478121--44478145 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44478111 TTGTAAGTTT
44478121 TGCAACAAAAGG
1 TGCAACAAAAGG
44478133 TGCAACAAAAGG
1 TGCAACAAAAGG
44478145 T
1 T
44478146 TCTCATGTTG
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:0.48, C:0.16, G:0.24, T:0.12
Consensus pattern (12 bp):
TGCAACAAAAGG
Found at i:44484967 original size:6 final size:6
Alignment explanation
Indices: 44484954--44484986 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
44484944 TAAAAGTAAA
*
44484954 TTTA-T TTTACT TTTATT TTTATT TTTATT TTTA
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTA
44484987 ATAATACATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:44494600 original size:18 final size:18
Alignment explanation
Indices: 44494573--44494607 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
44494563 TATATGTGAT
44494573 ATTAATTA-TTATAAAAC
1 ATTAATTATTTATAAAAC
44494590 ATTATATTATTTATAAAA
1 ATTA-ATTATTTATAAAA
44494608 ATAATATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 4 0.25
19 8 0.50
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTAATTATTTATAAAAC
Found at i:44494614 original size:18 final size:18
Alignment explanation
Indices: 44494577--44494615 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
44494567 TGTGATATTA
*
44494577 ATTATTATAAAACATTAT
1 ATTATTATAAAACATAAT
44494595 ATTATTTATAAAA-ATAAT
1 ATTA-TTATAAAACATAAT
44494613 ATT
1 ATT
44494616 TGATTGCAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTATTATAAAACATAAT
Found at i:44500828 original size:18 final size:19
Alignment explanation
Indices: 44500791--44500828 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
44500781 TTATAAATAT
*
44500791 AAATAAAAACTCTTGTAAA
1 AAATAAAAACTCTTGCAAA
*
44500810 AAATAAAACCTCTT-CAAA
1 AAATAAAAACTCTTGCAAA
44500828 A
1 A
44500829 CAAGTCTCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.58, C:0.16, G:0.03, T:0.24
Consensus pattern (19 bp):
AAATAAAAACTCTTGCAAA
Found at i:44502466 original size:18 final size:18
Alignment explanation
Indices: 44502443--44502478 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
44502433 TGGAGCATAT
*
44502443 TATGACCTTTGAATTTTC
1 TATGACCTTTGAACTTTC
44502461 TATGACCTTTGAACTTTC
1 TATGACCTTTGAACTTTC
44502479 ACTTTATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.19, G:0.11, T:0.47
Consensus pattern (18 bp):
TATGACCTTTGAACTTTC
Found at i:44511579 original size:13 final size:13
Alignment explanation
Indices: 44511561--44511587 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
44511551 TATAATTATT
44511561 TTATTTTATTTGA
1 TTATTTTATTTGA
44511574 TTATTTTATTTGA
1 TTATTTTATTTGA
44511587 T
1 T
44511588 AATAGTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.70
Consensus pattern (13 bp):
TTATTTTATTTGA
Found at i:44511932 original size:23 final size:23
Alignment explanation
Indices: 44511902--44511945 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
44511892 TTGGTTTGGT
*
44511902 TTTTAAAA-ATATTTTCTATTTTA
1 TTTTAAAATA-ATTTTATATTTTA
44511925 TTTTAAAATAATTTTATATTT
1 TTTTAAAATAATTTTATATTT
44511946 GAAAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTTAAAATAATTTTATATTTTA
Found at i:44520268 original size:20 final size:22
Alignment explanation
Indices: 44520225--44520272 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
44520215 CTACTAAAAA
*
44520225 TTAAAGAAAAACATCAAAGATT
1 TTAAAGAAAAACATAAAAGATT
* *
44520247 TTAAA-AAAATCATAAAAGTTT
1 TTAAAGAAAAACATAAAAGATT
44520268 TTAAA
1 TTAAA
44520273 TTTTGAATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.29
Consensus pattern (22 bp):
TTAAAGAAAAACATAAAAGATT
Found at i:44520465 original size:112 final size:112
Alignment explanation
Indices: 44520328--44520542 Score: 369
Period size: 112 Copynumber: 1.9 Consensus size: 112
44520318 GGGTTCTATA
* *
44520328 TTTTAAAATAAAAAACAATAATTTTTGAAAAAAAATCTTCAAAATCAAAACTATGAACTTTTTAA
1 TTTTAAAATAAAAAACAATAATTTTTGAAAAAAAATCTTCAAAATCAAAACTATGAACTTCTAAA
44520393 TATTAGATCTGAAATATATAAAAATAGAAAATCCAATTAGTTTTGTG
66 TATTAGATCTGAAATATATAAAAATAGAAAATCCAATTAGTTTTGTG
* **
44520440 TTTTAAAATAAAAAA-AATGATTTTTTGAAAAAAGCTCTTCAAAATCAAAACTATGAACTTCTAA
1 TTTTAAAATAAAAAACAAT-AATTTTTGAAAAAAAATCTTCAAAATCAAAACTATGAACTTCTAA
44520504 ATATTAGATCTGAAATATATAAAAATAGAAAATCCAATT
65 ATATTAGATCTGAAATATATAAAAATAGAAAATCCAATT
44520543 GCAGTTTTAG
Statistics
Matches: 97, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
111 3 0.03
112 94 0.97
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (112 bp):
TTTTAAAATAAAAAACAATAATTTTTGAAAAAAAATCTTCAAAATCAAAACTATGAACTTCTAAA
TATTAGATCTGAAATATATAAAAATAGAAAATCCAATTAGTTTTGTG
Found at i:44523990 original size:184 final size:174
Alignment explanation
Indices: 44523690--44524059 Score: 436
Period size: 184 Copynumber: 2.1 Consensus size: 174
44523680 AGGGGCATCA
* * * *
44523690 TCTTCCAATTCCGCAACATGTATCAAGCCATCTTCAGTGAAAATATGGAGCATGGACAAGGTATG
1 TCTTCCAATTCCGCAACATATATCAAACCATCTTCACTGAAAACATGGAGCATGGACAAGGTATG
* * * * *
44523755 TGAAAGTTTGGGAATCGTAGTAGGAGTGATGCCATCATTACTTTCAGCATTGAGAGGGAACTGAA
66 TGAAAGTTGGGGAATCGTAGTAGGAGTGATACCAACATCACTTTCAGCATTGAGAGGGAACCGAA
* * * *
44523820 GAGCCTCCAAAAAAATCAGAGGCATTAAAGAGTAATGCAGCGTCG
131 GAG-CTCCAAAAAAATCAAAGGCATTAAAAAGTAAAGCAGAGTCG
* * *
44523865 TCTTCCAATTCCTCAACATATATCAAACTATCTTCACTGAAAACATGGAGCATTGACAAGATATG
1 TCTTCCAATTCCGCAACATATATCAAACCATCTTCACTGAAAACATGGAGCATGGACAAG----G
* *
44523930 ATGATCGTGTGAAAGTTGGGGAATCGTAGTAGGGGT-ATTATCAACATCACTTTCAGCATTGAGA
62 -T-A---TGTGAAAGTTGGGGAATCGTAGTAGGAGTGA-TACCAACATCACTTTCAGCATTGAGA
* * *
44523994 GGGAACCGAAGAGCTCCCAGAAAATCAAAGGCATTAAAAAGTAAAGCGGAGTCG
121 GGGAACCGAAGAGCTCCAAAAAAATCAAAGGCATTAAAAAGTAAAGCAGAGTCG
*
44524048 TCTTCCATTTCC
1 TCTTCCAATTCC
44524060 ATACTGTCTT
Statistics
Matches: 163, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
175 53 0.33
179 1 0.01
180 1 0.01
181 1 0.01
183 46 0.28
184 61 0.37
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (174 bp):
TCTTCCAATTCCGCAACATATATCAAACCATCTTCACTGAAAACATGGAGCATGGACAAGGTATG
TGAAAGTTGGGGAATCGTAGTAGGAGTGATACCAACATCACTTTCAGCATTGAGAGGGAACCGAA
GAGCTCCAAAAAAATCAAAGGCATTAAAAAGTAAAGCAGAGTCG
Found at i:44524827 original size:22 final size:22
Alignment explanation
Indices: 44524764--44524818 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
44524754 CCACCAAATA
*
44524764 AGAAAACGATGGAAGAAGAAGC
1 AGAAATCGATGGAAGAAGAAGC
44524786 AGAAATCGATGGAAGAAGAAGC
1 AGAAATCGATGGAAGAAGAAGC
44524808 AGAAATCGATG
1 AGAAATCGATG
44524819 AGGGCAGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.51, C:0.09, G:0.31, T:0.09
Consensus pattern (22 bp):
AGAAATCGATGGAAGAAGAAGC
Found at i:44526364 original size:18 final size:18
Alignment explanation
Indices: 44526343--44526377 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44526333 TGAGTTTTCG
44526343 AATTCAAATAACTCGAAC
1 AATTCAAATAACTCGAAC
* *
44526361 AATTCGAATAATTCGAA
1 AATTCAAATAACTCGAA
44526378 TATCAAACTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.17, G:0.09, T:0.26
Consensus pattern (18 bp):
AATTCAAATAACTCGAAC
Found at i:44526771 original size:17 final size:16
Alignment explanation
Indices: 44526737--44526767 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
44526727 CCTATTTACT
44526737 TTCCCTCAAACTTTTA
1 TTCCCTCAAACTTTTA
44526753 TTCCCTCAAACTTTT
1 TTCCCTCAAACTTTT
44526768 TATTTTCTCC
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:0.23, C:0.32, G:0.00, T:0.45
Consensus pattern (16 bp):
TTCCCTCAAACTTTTA
Found at i:44526796 original size:20 final size:21
Alignment explanation
Indices: 44526754--44526799 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
44526744 AAACTTTTAT
*
44526754 TCCCTCAAACTTTTTATTTTC
1 TCCCTCAAACTTTTTATTCTC
44526775 TCCCT-AAAC-TTTTACTTCTC
1 TCCCTCAAACTTTTTA-TTCTC
44526795 TCCCT
1 TCCCT
44526800 TTACTCTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 5 0.22
20 13 0.57
21 5 0.22
ACGTcount: A:0.17, C:0.35, G:0.00, T:0.48
Consensus pattern (21 bp):
TCCCTCAAACTTTTTATTCTC
Found at i:44541214 original size:31 final size:31
Alignment explanation
Indices: 44541173--44541233 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
44541163 AAAATAACAA
*
44541173 TTCAGTAACTTAAAAT-AAAAATTTTGAATAG
1 TTCAATAACTT-AAATGAAAAATTTTGAATAG
*
44541204 TTCAATAACTTAAATGAAAACTTTTGAATA
1 TTCAATAACTTAAATGAAAAATTTTGAATA
44541234 ACTGAATGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 4 0.15
31 23 0.85
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (31 bp):
TTCAATAACTTAAATGAAAAATTTTGAATAG
Found at i:44542056 original size:22 final size:22
Alignment explanation
Indices: 44542008--44542049 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
44541998 CTTTGGAATA
* *
44542008 TTATTTTAAAGAAAGTGGGTAG
1 TTATTGTAAAGAAAGTGAGTAG
44542030 TTATTGTAAAGAAAGTGAGT
1 TTATTGTAAAGAAAGTGAGT
44542050 TTTTATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (22 bp):
TTATTGTAAAGAAAGTGAGTAG
Found at i:44548480 original size:32 final size:32
Alignment explanation
Indices: 44548444--44548510 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
44548434 ACATGACAGC
*
44548444 CTGGTGGAGGGCCTGCCACAGGCGACACTGGA
1 CTGGTGGAGGGCCTGCCACAGGCGACACCGGA
*
44548476 CTGGTGGAGGGCCTGCTACAGGCGACACCGGA
1 CTGGTGGAGGGCCTGCCACAGGCGACACCGGA
44548508 CTG
1 CTG
44548511 AAATGTAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.18, C:0.28, G:0.40, T:0.13
Consensus pattern (32 bp):
CTGGTGGAGGGCCTGCCACAGGCGACACCGGA
Found at i:44561083 original size:16 final size:16
Alignment explanation
Indices: 44561062--44561107 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
44561052 TCTTAATCCT
44561062 TTATTTGTTTATTTAG
1 TTATTTGTTTATTTAG
* *
44561078 TTATTTGTTTGTTTAT
1 TTATTTGTTTATTTAG
* *
44561094 TTATATCTTTATTT
1 TTATTTGTTTATTT
44561108 GAAATTTTGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.17, C:0.02, G:0.09, T:0.72
Consensus pattern (16 bp):
TTATTTGTTTATTTAG
Found at i:44561108 original size:20 final size:20
Alignment explanation
Indices: 44561060--44561108 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
44561050 TCTCTTAATC
44561060 CTTTATTTGTTTATTTAGTT
1 CTTTATTTGTTTATTTAGTT
* *
44561080 ATTTGTTTGTTTATTTA-TAT
1 CTTTATTTGTTTATTTAGT-T
44561100 CTTTATTTG
1 CTTTATTTG
44561109 AAATTTTGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.16, C:0.04, G:0.10, T:0.69
Consensus pattern (20 bp):
CTTTATTTGTTTATTTAGTT
Found at i:44561846 original size:107 final size:106
Alignment explanation
Indices: 44561660--44561881 Score: 322
Period size: 107 Copynumber: 2.1 Consensus size: 106
44561650 CATAAAAAAG
* * *
44561660 AAACTTTCAAAATAAGGCAATATTTCGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGG
1 AAACTTTCAAAACAAGGCAATATTTCGCGTTTGAAAATTCGAGAAAACGTACCCTAACGTGCTGG
*
44561725 GTTTCAATTTCTCGTTTGACCAAATAGCAAAATATCCTTT-TT
66 GTTTCAATTTCTCGTTCGACCAAATAGCAAAATAT--TTTCTT
* * * * *
44561767 AAACTTTCAAAACGAGGCAATGTTTTGTGTTTGAAAATTCGAGAGAACGTACCCTAACGTGCTGG
1 AAACTTTCAAAACAAGGCAATATTTCGCGTTTGAAAATTCGAGAAAACGTACCCTAACGTGCTGG
*
44561832 GTTTCAATTTCTCGTTCGACCAAATAGCTAAATATTTTCTT
66 GTTTCAATTTCTCGTTCGACCAAATAGCAAAATATTTTCTT
44561873 -AACTTTCAA
1 AAACTTTCAA
44561882 TCAATATTAT
Statistics
Matches: 104, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
105 12 0.12
106 2 0.02
107 90 0.87
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (106 bp):
AAACTTTCAAAACAAGGCAATATTTCGCGTTTGAAAATTCGAGAAAACGTACCCTAACGTGCTGG
GTTTCAATTTCTCGTTCGACCAAATAGCAAAATATTTTCTT
Found at i:44565351 original size:21 final size:20
Alignment explanation
Indices: 44565302--44565356 Score: 51
Period size: 20 Copynumber: 2.7 Consensus size: 20
44565292 ATCTAAAATA
*
44565302 AAATATAATTTAAATATTTTT
1 AAAT-TAATTTAAATAGTTTT
*
44565323 ATAA-TAATTTAAGGTAGTTTT
1 A-AATTAATTTAA-ATAGTTTT
44565344 AAATTAA-TTAAAT
1 AAATTAATTTAAAT
44565357 TTTCATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
19 1 0.04
20 14 0.50
21 11 0.39
22 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
AAATTAATTTAAATAGTTTT
Found at i:44566439 original size:153 final size:149
Alignment explanation
Indices: 44566161--44566443 Score: 345
Period size: 153 Copynumber: 1.9 Consensus size: 149
44566151 ATTAGTCCAA
* * * * *
44566161 AACTTTAGTTAAAAGTCAATAGAAAATTACTACATGTCATTCATTGAGCTAATGTGCCATGTAGT
1 AACTTTAGTCAAAAGTCAATAAAAAATTACTACATGTCAATCAATGAGCTAATGTGCCATGTAGC
* * * * * *
44566226 AATTTGTTAAAAGAAAACGAAAATGTTAAGAACGATAAATAATTCGCACAATCATCTTATTTAAA
66 AATATGTTAAAAGAAAACAAAAATGTTAACAACAACAAATAATTCGCACAATCATATTATTTAAA
44566291 TTTTATAGAGTGATCACTG
131 TTTTATAGAGTGATCACTG
44566310 AACTTTAGTCAAAAGTCAATAAAAAAATATCACATATCA-GTCAATCAATGAGCTAATGTGCCAT
1 AACTTTAGTCAAAAGTCAAT-AAAAAAT-T-AC-TA-CATGTCAATCAATGAGCTAATGTGCCAT
*** * * *
44566374 GTAGCAATATGTTAAAA-ATAGTTAAAAATGTTATCAACAACAAATAATTCGTACAATTATATTA
61 GTAGCAATATGTTAAAAGA-AAACAAAAATGTTAACAACAACAAATAATTCGCACAATCATATTA
44566438 TTTAAA
125 TTTAAA
44566444 GTGATTAAAT
Statistics
Matches: 111, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
149 19 0.17
150 6 0.05
151 1 0.01
152 3 0.03
153 80 0.72
154 2 0.02
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (149 bp):
AACTTTAGTCAAAAGTCAATAAAAAATTACTACATGTCAATCAATGAGCTAATGTGCCATGTAGC
AATATGTTAAAAGAAAACAAAAATGTTAACAACAACAAATAATTCGCACAATCATATTATTTAAA
TTTTATAGAGTGATCACTG
Found at i:44566633 original size:6 final size:6
Alignment explanation
Indices: 44566622--44566647 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
44566612 TCGTAAACAG
44566622 GCCGAC GCCGAC GCCGAC GCCGAC GC
1 GCCGAC GCCGAC GCCGAC GCCGAC GC
44566648 GGCTCAGGCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.50, G:0.35, T:0.00
Consensus pattern (6 bp):
GCCGAC
Found at i:44572522 original size:27 final size:27
Alignment explanation
Indices: 44572479--44572542 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 27
44572469 TGTTTTAAAT
44572479 AATT-AAAAAAGCATTAAAATTATTTTAA
1 AATTAAAAAAAG-ATTAAAATT-TTTTAA
**
44572507 AATTAAAAAAAG-TTAATCTTTTTTAA
1 AATTAAAAAAAGATTAAAATTTTTTAA
*
44572533 ATTTAAAAAA
1 AATTAAAAAA
44572543 TTAATTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 15 0.47
27 6 0.19
28 4 0.12
29 7 0.22
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (27 bp):
AATTAAAAAAAGATTAAAATTTTTTAA
Found at i:44572535 original size:25 final size:24
Alignment explanation
Indices: 44572501--44572547 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
44572491 ATTAAAATTA
44572501 TTTTAAAATTAAAAAAAGTTAATCT
1 TTTTAAAATTAAAAAAA-TTAATCT
* *
44572526 TTTTTAAATTTAAAAAATTAAT
1 TTTTAAAATTAAAAAAATTAAT
44572548 TAAAAGCTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (24 bp):
TTTTAAAATTAAAAAAATTAATCT
Found at i:44594698 original size:34 final size:34
Alignment explanation
Indices: 44594655--44594723 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
44594645 TATTTCTAGG
44594655 ATTGCATGCAACTCTATTCAATTATACTAGATCT
1 ATTGCATGCAACTCTATTCAATTATACTAGATCT
44594689 ATTGCATGCAACTCTATTCAATTATACTAGATCT
1 ATTGCATGCAACTCTATTCAATTATACTAGATCT
44594723 A
1 A
44594724 CTTTTAAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.38
Consensus pattern (34 bp):
ATTGCATGCAACTCTATTCAATTATACTAGATCT
Found at i:44597170 original size:29 final size:28
Alignment explanation
Indices: 44597138--44597244 Score: 107
Period size: 29 Copynumber: 3.8 Consensus size: 28
44597128 TAAGAATAAT
44597138 AATAAATAA-ATAAAATTAAAAAATTAAAA
1 AATAAATAATATAAAA-TAAAAAA-TAAAA
*
44597167 AATAGTAA-AATAGTAAAAT-AAAAATAAAT
1 AATA--AATAATA-TAAAATAAAAAATAAAA
44597196 AAT--ATAATATAAAATAAAAAATAAAA
1 AATAAATAATATAAAATAAAAAATAAAA
*
44597222 AATAAAATAAAATAAAATAAAAA
1 AAT-AAATAATATAAAATAAAAA
44597245 TGGGGTGGCT
Statistics
Matches: 66, Mismatches: 3, Indels: 18
0.76 0.03 0.21
Matches are distributed among these distances:
25 7 0.11
26 16 0.24
29 27 0.41
30 7 0.11
31 4 0.06
32 5 0.08
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (28 bp):
AATAAATAATATAAAATAAAAAATAAAA
Found at i:44597178 original size:57 final size:55
Alignment explanation
Indices: 44597095--44597225 Score: 148
Period size: 57 Copynumber: 2.4 Consensus size: 55
44597085 AAAAAGAAAG
* * *
44597095 ATAAAA-AAAAAA-AAAAAAT-TTAAAATA-TAAGTATAAGAAT-AATAATA-AAT
1 ATAAAATAAAAAATAAAAAATAGTAAAATAGTAA-AATAAAAATAAATAATATAAT
44597145 AAATAAAATTAAAAAATTAAAAAATAGTAAAATAGTAAAATAAAAATAAATAATATAAT
1 --ATAAAA-TAAAAAA-TAAAAAATAGTAAAATAGTAAAATAAAAATAAATAATATAAT
44597204 ATAAAATAAAAAATAAAAAATA
1 ATAAAATAAAAAATAAAAAATA
44597226 AAATAAAATA
Statistics
Matches: 68, Mismatches: 3, Indels: 13
0.81 0.04 0.15
Matches are distributed among these distances:
52 6 0.09
54 6 0.09
55 9 0.13
56 14 0.21
57 20 0.29
58 10 0.15
59 3 0.04
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (55 bp):
ATAAAATAAAAAATAAAAAATAGTAAAATAGTAAAATAAAAATAAATAATATAAT
Found at i:44597192 original size:6 final size:6
Alignment explanation
Indices: 44597074--44597245 Score: 66
Period size: 6 Copynumber: 26.8 Consensus size: 6
44597064 TAAAGCAACT
* * * * *
44597074 AAAACA AAATTA AAAAGA AAGATA AAAA-A AAAAAA AAAATTTA AAATATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAA--TA AAA-ATA
** * * *
44597124 AGTATA AGAATA ATAATAA ATAAATA AAATTAA AAAATTAA AAAATA GTAAAATA
1 AAAATA AAAATA AAAAT-A A-AAATA AAAAT-A AAAA-T-A AAAATA --AAAATA
*
44597179 GTAAAATA AAAATA AATAAT- ATAATA TAAAATAA AAAATA AAAA-A TAAAAT-
1 --AAAATA AAAATA AA-AATA AAAATA -AAAAT-A AAAATA AAAATA -AAAATA
44597230 AAAAT- AAAATA AAAAT
1 AAAATA AAAATA AAAAT
44597246 GGGGTGGCTT
Statistics
Matches: 132, Mismatches: 17, Indels: 34
0.72 0.09 0.19
Matches are distributed among these distances:
5 19 0.14
6 59 0.45
7 24 0.18
8 29 0.22
9 1 0.01
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.22
Consensus pattern (6 bp):
AAAATA
Found at i:44597195 original size:26 final size:25
Alignment explanation
Indices: 44597126--44597245 Score: 102
Period size: 26 Copynumber: 4.6 Consensus size: 25
44597116 AAAATATAAG
*
44597126 TATAAGAATAATAATAAATAAATAAAA
1 TATAA-AATAAAAATAAAT-AATAAAA
*
44597153 T-TAAAA-AATTAAA-AAATAGTAAAA
1 TATAAAATAA--AAATAAATAATAAAA
*
44597177 TAGTAAAATAAAAATAAATAATATAA
1 TA-TAAAATAAAAATAAATAATAAAA
*
44597203 TATAAAATAAAAAATAAAAAATAAAA
1 TATAAAAT-AAAAATAAATAATAAAA
44597229 TAAAATAAAATAAAAAT
1 T---ATAAAATAAAAAT
44597246 GGGGTGGCTT
Statistics
Matches: 77, Mismatches: 6, Indels: 19
0.75 0.06 0.19
Matches are distributed among these distances:
24 9 0.12
25 15 0.19
26 37 0.48
27 3 0.04
28 6 0.08
29 7 0.09
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (25 bp):
TATAAAATAAAAATAAATAATAAAA
Found at i:44597209 original size:19 final size:19
Alignment explanation
Indices: 44597180--44597245 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
44597170 AGTAAAATAG
*
44597180 TAAAATA-AAAATAAATAA
1 TAAAATATAAAATAAAAAA
*
44597198 TATAATATAAAATAAAAAA
1 TAAAATATAAAATAAAAAA
*
44597217 TAAAAAATAAAAT--AAAA
1 TAAAATATAAAATAAAAAA
44597234 TAAAATA-AAAAT
1 TAAAATATAAAAT
44597246 GGGGTGGCTT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
16 5 0.12
17 10 0.24
18 6 0.14
19 21 0.50
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (19 bp):
TAAAATATAAAATAAAAAA
Found at i:44597211 original size:7 final size:7
Alignment explanation
Indices: 44597109--44597245 Score: 58
Period size: 7 Copynumber: 19.7 Consensus size: 7
44597099 AAAAAAAAAA
*
44597109 AAAATTT
1 AAAATAT
44597116 AAAATAT
1 AAAATAT
*
44597123 -AAGTAT
1 AAAATAT
44597129 AAGAATAAT
1 AA-AAT-AT
44597138 AATAA-AT
1 AA-AATAT
44597145 -AAATA-
1 AAAATAT
* *
44597150 AAATTAA
1 AAAATAT
*
44597157 AAAATTAA
1 AAAA-TAT
44597165 AAAATAGT
1 AAAATA-T
44597173 AAAATAGT
1 AAAATA-T
44597181 AAAATA-
1 AAAATAT
44597187 AAAATA-
1 AAAATAT
44597193 AATAATAT
1 AA-AATAT
44597201 --AATAT
1 AAAATAT
*
44597206 AAAATAA
1 AAAATAT
*
44597213 AAAATAA
1 AAAATAT
*
44597220 AAAATAA
1 AAAATAT
*
44597227 AATAAAAT
1 AA-AATAT
44597235 AAAATA-
1 AAAATAT
44597241 AAAAT
1 AAAAT
44597246 GGGGTGGCTT
Statistics
Matches: 106, Mismatches: 11, Indels: 27
0.74 0.08 0.19
Matches are distributed among these distances:
5 7 0.07
6 24 0.23
7 41 0.39
8 28 0.26
9 6 0.06
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (7 bp):
AAAATAT
Found at i:44597213 original size:5 final size:5
Alignment explanation
Indices: 44597127--44597243 Score: 72
Period size: 5 Copynumber: 24.2 Consensus size: 5
44597117 AAATATAAGT
* *
44597127 ATAAGA ATAATA AT-AA AT-AA ATAAA ATTAA A-AAA TTAAA A-AATA
1 ATAA-A ATAA-A ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAA-A
* * * *
44597171 GTAAA AT--A GTAAA ATAAA A-ATAA ATAAT ATAAT ATAAA ATAAA A-AATA
1 ATAAA ATAAA ATAAA ATAAA ATA-AA ATAAA ATAAA ATAAA ATAAA ATAA-A
44597219 A-AAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
44597244 ATGGGGTGGC
Statistics
Matches: 90, Mismatches: 11, Indels: 21
0.74 0.09 0.17
Matches are distributed among these distances:
3 2 0.02
4 16 0.18
5 62 0.69
6 10 0.11
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (5 bp):
ATAAA
Found at i:44600947 original size:5 final size:5
Alignment explanation
Indices: 44600939--44600999 Score: 104
Period size: 5 Copynumber: 12.2 Consensus size: 5
44600929 TATTTAATTT
* *
44600939 ATATA ATATA ATACA ATATA TTATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
44600989 ATATA ATATA A
1 ATATA ATATA A
44601000 AACATAAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 52 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:44610312 original size:29 final size:29
Alignment explanation
Indices: 44610279--44610336 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
44610269 CGAAAGCACG
44610279 CCAAAATTATTCTAAATATAAATAAATTA
1 CCAAAATTATTCTAAATATAAATAAATTA
44610308 CCAAAATTATTCTAAATATAAATAAATTA
1 CCAAAATTATTCTAAATATAAATAAATTA
44610337 AATGTTAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (29 bp):
CCAAAATTATTCTAAATATAAATAAATTA
Found at i:44616405 original size:18 final size:18
Alignment explanation
Indices: 44616371--44616405 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44616361 ATGATTGTTC
* *
44616371 AAAATAATTAAATAATTA
1 AAAATAATAAAAGAATTA
44616389 AAAATAATAAAAGAATT
1 AAAATAATAAAAGAATT
44616406 TTCTTTTACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
AAAATAATAAAAGAATTA
Found at i:44618453 original size:40 final size:38
Alignment explanation
Indices: 44618394--44618476 Score: 139
Period size: 39 Copynumber: 2.1 Consensus size: 38
44618384 AATTTATTTT
*
44618394 AAAAATTAAAAAAAGTATTTTAAAAAAATTTTAAAATTA
1 AAAAATAAAAAAAAGTATTTT-AAAAAATTTTAAAATTA
44618433 AAAAATAATAAAAAAGTATTTTAAAAAATTTTAAAATTA
1 AAAAATAA-AAAAAAGTATTTTAAAAAATTTTAAAATTA
44618472 AAAAA
1 AAAAA
44618477 ATTTTAAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
39 29 0.69
40 13 0.31
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.31
Consensus pattern (38 bp):
AAAAATAAAAAAAAGTATTTTAAAAAATTTTAAAATTA
Found at i:44618474 original size:16 final size:17
Alignment explanation
Indices: 44618413--44618485 Score: 65
Period size: 17 Copynumber: 4.0 Consensus size: 17
44618403 AAAAAGTATT
44618413 TTAAAAAAATTTTAAAA
1 TTAAAAAAATTTTAAAA
***
44618430 TTAAAAAATAATAAAAAAGTA
1 TT-AAAAA-AATTTTAAA--A
*
44618451 TTTTAAAAAATTTTAAAA
1 -TTAAAAAAATTTTAAAA
44618469 TTAAAAAAATTTTAAAA
1 TTAAAAAAATTTTAAAA
44618486 AATAAATATA
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
17 18 0.42
18 6 0.14
19 6 0.14
20 6 0.14
21 5 0.12
22 2 0.05
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (17 bp):
TTAAAAAAATTTTAAAA
Done.