Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 344 of 362
Found at i:114257591 original size:20 final size:21
Alignment explanation
Indices: 114257568--114257621 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
114257558 AAAATTTGAT
114257568 AAAATTTATAAAATA-ATAGA
1 AAAATTTATAAAATATATAGA
* *
114257588 AAAATCGTA-AAAATATATATA
1 AAAAT-TTATAAAATATATAGA
114257609 AAAA-TTATAAAAT
1 AAAATTTATAAAAT
114257622 TTTATAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 2 0.07
20 16 0.57
21 10 0.36
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (21 bp):
AAAATTTATAAAATATATAGA
Found at i:114257613 original size:21 final size:21
Alignment explanation
Indices: 114257577--114257651 Score: 77
Period size: 21 Copynumber: 3.7 Consensus size: 21
114257567 TAAAATTTAT
*
114257577 AAAATA-ATAGAAAAATCGTA
1 AAAATATATATAAAAATCGTA
114257597 AAAATATATATAAAAAT--TA
1 AAAATATATATAAAAATCGTA
*
114257616 TAAAAT-TTTATAAAAATCGTA
1 -AAAATATATATAAAAATCGTA
* *
114257637 AAAAAATTTATAAAA
1 AAAATATATATAAAA
114257652 TATAAAATTC
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
19 12 0.26
20 15 0.32
21 20 0.43
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (21 bp):
AAAATATATATAAAAATCGTA
Found at i:114257618 original size:40 final size:40
Alignment explanation
Indices: 114257557--114257659 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 40
114257547 TTAAAATATT
* *
114257557 AAAAATTTGATAAAATTTATAAAATAATAGAAAAATCGTAA
1 AAAAATAT-ATAAAAATTATAAAATAATAGAAAAATCGTAA
* ** *
114257598 AAATATATATAAAAATTATAAAATTTTATAAAAATCGTAA
1 AAAAATATATAAAAATTATAAAATAATAGAAAAATCGTAA
*
114257638 AAAAATTTAT-AAAA-TATAAAAT
1 AAAAATATATAAAAATTATAAAAT
114257660 TCTATAAAGT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
38 8 0.15
39 4 0.07
40 36 0.67
41 6 0.11
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (40 bp):
AAAAATATATAAAAATTATAAAATAATAGAAAAATCGTAA
Found at i:114257629 original size:19 final size:19
Alignment explanation
Indices: 114257548--114257667 Score: 77
Period size: 19 Copynumber: 6.2 Consensus size: 19
114257538 AATAAAAAAT
*
114257548 TAAAATATTA-AAAATTTGA
1 TAAAA-ATTATAAAATTTTA
* **
114257567 TAAAATTTATAAAATAATA
1 TAAAAATTATAAAATTTTA
* *
114257586 GAAAAATCGTA-AAAATATATA
1 TAAAAAT--TATAAAAT-TTTA
114257607 TAAAAATTATAAAATTTTA
1 TAAAAATTATAAAATTTTA
* *
114257626 TAAAAATCGTAAAAAAATTTA
1 TAAAAAT--TATAAAATTTTA
*
114257647 T-AAAA-TATAAAATTCTA
1 TAAAAATTATAAAATTTTA
114257664 TAAA
1 TAAA
114257668 GTCATAGAAA
Statistics
Matches: 79, Mismatches: 14, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
17 10 0.13
18 5 0.06
19 28 0.35
20 14 0.18
21 22 0.28
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (19 bp):
TAAAAATTATAAAATTTTA
Found at i:114257753 original size:20 final size:22
Alignment explanation
Indices: 114257725--114257767 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
114257715 AAAATTTATA
* *
114257725 TTTCTTTAC-ATTTTATATAAT
1 TTTCTTTACGACTTTATAAAAT
114257746 TTTC-TTACGACTTTATAAAAT
1 TTTCTTTACGACTTTATAAAAT
114257767 T
1 T
114257768 GTATAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.30, C:0.12, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTCTTTACGACTTTATAAAAT
Found at i:114257782 original size:59 final size:58
Alignment explanation
Indices: 114257719--114257843 Score: 155
Period size: 58 Copynumber: 2.1 Consensus size: 58
114257709 TTTTATAAAA
114257719 TTTATATTTCT-TTACATTTTATATAATTTTCTTACGA-CTTTATAAAATTGTATAATTTT
1 TTTATATTTCTATT-CA-TTT-TATAATTTTCTTACGATCTTTATAAAATTGTATAATTTT
* * * * *
114257778 TTTATATTTCTATTTATTTTATAATTTTTTTATGATTTTTATAAAATTTTATAATTTT
1 TTTATATTTCTATTCATTTTATAATTTTCTTACGATCTTTATAAAATTGTATAATTTT
114257836 TTATATAT
1 TT-TATAT
114257844 ATAAAATGTA
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
57 14 0.24
58 25 0.43
59 17 0.29
60 2 0.03
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.62
Consensus pattern (58 bp):
TTTATATTTCTATTCATTTTATAATTTTCTTACGATCTTTATAAAATTGTATAATTTT
Found at i:114257837 original size:10 final size:10
Alignment explanation
Indices: 114257794--114257840 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
114257784 TTTCTATTTA
114257794 TTTTATAATTT
1 TTTTATAA-TT
*
114257805 TTTTATGA-T
1 TTTTATAATT
**
114257814 TTTTATAAAA
1 TTTTATAATT
114257824 TTTTATAATT
1 TTTTATAATT
114257834 TTTTATA
1 TTTTATA
114257841 TATATAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
9 8 0.27
10 15 0.50
11 7 0.23
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (10 bp):
TTTTATAATT
Found at i:114257837 original size:20 final size:20
Alignment explanation
Indices: 114257757--114257840 Score: 61
Period size: 20 Copynumber: 4.3 Consensus size: 20
114257747 TTCTTACGAC
*
114257757 TTTATAAAATTGTATAATTT
1 TTTATAAAATTTTATAATTT
*
114257777 TTT-T-ATATTTCTAT--TTAT
1 TTTATAAAATTT-TATAATT-T
** *
114257795 TTTATAATTTTTTTATGA-TT
1 TTTATAA-AATTTTATAATTT
114257815 TTTATAAAATTTTATAATTT
1 TTTATAAAATTTTATAATTT
114257835 TTTATA
1 TTTATA
114257841 TATATAAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 16
0.69 0.08 0.22
Matches are distributed among these distances:
17 2 0.04
18 8 0.16
19 12 0.24
20 23 0.46
21 5 0.10
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTATAAAATTTTATAATTT
Found at i:114257839 original size:29 final size:30
Alignment explanation
Indices: 114257740--114257837 Score: 112
Period size: 29 Copynumber: 3.4 Consensus size: 30
114257730 TTACATTTTA
* * * *
114257740 TATAATTTTCTTACGA-CTTTATAAAATTG
1 TATAATTTTTTTATGATTTTTATAAAATTT
* **
114257769 TATAATTTTTTTAT-ATTTCTAT-TTATTT
1 TATAATTTTTTTATGATTTTTATAAAATTT
114257797 TATAATTTTTTTATGATTTTTATAAAATTT
1 TATAATTTTTTTATGATTTTTATAAAATTT
114257827 TATAATTTTTT
1 TATAATTTTTT
114257838 ATATATATAA
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
28 18 0.32
29 23 0.41
30 15 0.27
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (30 bp):
TATAATTTTTTTATGATTTTTATAAAATTT
Found at i:114258077 original size:27 final size:28
Alignment explanation
Indices: 114258047--114258110 Score: 103
Period size: 27 Copynumber: 2.3 Consensus size: 28
114258037 TTTATAAAAA
114258047 ATATTTTTAATAAAATTTAA-ATTTTTT
1 ATATTTTTAATAAAATTTAATATTTTTT
*
114258074 ATATTTTTATTAAAATTTAATATTTTTT
1 ATATTTTTAATAAAATTTAATATTTTTT
114258102 ATAGTTTTT
1 ATA-TTTTT
114258111 TTCTAATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 19 0.56
28 10 0.29
29 5 0.15
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (28 bp):
ATATTTTTAATAAAATTTAATATTTTTT
Found at i:114266363 original size:26 final size:26
Alignment explanation
Indices: 114266305--114266363 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 26
114266295 ATTGTAAGTT
* * ** *
114266305 TTAAGATAATTTTTTTAATTTTAAAT
1 TTAAAATAATTTTTTAAAAATTAAAA
*
114266331 TTGAAATAATTTTTTAAAAATTAAAA
1 TTAAAATAATTTTTTAAAAATTAAAA
114266357 TTAAAAT
1 TTAAAAT
114266364 TTAAAGGTTA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (26 bp):
TTAAAATAATTTTTTAAAAATTAAAA
Found at i:114266522 original size:26 final size:26
Alignment explanation
Indices: 114266466--114266522 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
114266456 TTTTTTATAT
* * *
114266466 AATTTTTTAATTTTAAATTCAAAATA
1 AATTTTTAAAATTGAAATTCAAAATA
* * *
114266492 CATTTTTAAAATTGAAATTGAAATTA
1 AATTTTTAAAATTGAAATTCAAAATA
114266518 AATTT
1 AATTT
114266523 ATTCAAACGC
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (26 bp):
AATTTTTAAAATTGAAATTCAAAATA
Found at i:114266985 original size:18 final size:18
Alignment explanation
Indices: 114266964--114266999 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
114266954 ATTATGCATC
114266964 TTTACCTTATTTTATTAT
1 TTTACCTTATTTTATTAT
114266982 TTTACCTTATTTTATTAT
1 TTTACCTTATTTTATTAT
114267000 AATATTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTACCTTATTTTATTAT
Found at i:114266991 original size:10 final size:10
Alignment explanation
Indices: 114266964--114266995 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
114266954 ATTATGCATC
114266964 TTTACCTTAT
1 TTTACCTTAT
114266974 TTTA--TTAT
1 TTTACCTTAT
114266982 TTTACCTTAT
1 TTTACCTTAT
114266992 TTTA
1 TTTA
114266996 TTATAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
8 8 0.40
10 12 0.60
ACGTcount: A:0.22, C:0.12, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTACCTTAT
Found at i:114268462 original size:12 final size:12
Alignment explanation
Indices: 114268445--114268476 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
114268435 ATTTTTTACC
114268445 TATTTACTCACT
1 TATTTACTCACT
*
114268457 TATTTATTCACT
1 TATTTACTCACT
114268469 TATTTACT
1 TATTTACT
114268477 TCAATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.25, C:0.19, G:0.00, T:0.56
Consensus pattern (12 bp):
TATTTACTCACT
Found at i:114276662 original size:29 final size:30
Alignment explanation
Indices: 114276604--114276659 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
114276594 ATTTGTATTT
*
114276604 TTAAAATAAAAAATAGAAGAATTAAATTCA
1 TTAAAATAAAAAATAAAAGAATTAAATTCA
*
114276634 TTAAAAT-AAAAGTAAAAG-ATTAAATT
1 TTAAAATAAAAAATAAAAGAATTAAATT
114276660 TCAAATGTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 8 0.33
29 9 0.38
30 7 0.29
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (30 bp):
TTAAAATAAAAAATAAAAGAATTAAATTCA
Found at i:114287076 original size:9 final size:10
Alignment explanation
Indices: 114287060--114287102 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
114287050 AAATATACGA
114287060 CTTTTTCTTT
1 CTTTTTCTTT
*
114287070 C-TTTTCTCT
1 CTTTTTCTTT
*
114287079 CTTTTTTTTT
1 CTTTTTCTTT
114287089 CTTTTTCTTT
1 CTTTTTCTTT
114287099 -TTTT
1 CTTTT
114287103 AAATTCCAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
9 12 0.43
10 16 0.57
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
CTTTTTCTTT
Found at i:114287102 original size:19 final size:19
Alignment explanation
Indices: 114287060--114287101 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
114287050 AAATATACGA
114287060 CTTTTTCTTTCTTTTCTCT
1 CTTTTTCTTTCTTTTCTCT
*
114287079 CTTTTTTTTTCTTTT-TCT
1 CTTTTTCTTTCTTTTCTCT
114287097 -TTTTT
1 CTTTTT
114287102 TAAATTCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.23
18 3 0.14
19 14 0.64
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (19 bp):
CTTTTTCTTTCTTTTCTCT
Found at i:114287380 original size:25 final size:25
Alignment explanation
Indices: 114287342--114287390 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 25
114287332 ATTAATTTTG
114287342 TATATTTTAATTAAAAACATAAAAATT
1 TATATTTT-ATT-AAAACATAAAAATT
*
114287369 TATATTTT-TTAAAATATAAAAA
1 TATATTTTATTAAAACATAAAAA
114287391 AATTATGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 11 0.52
25 2 0.10
27 8 0.38
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
TATATTTTATTAAAACATAAAAATT
Found at i:114292649 original size:192 final size:191
Alignment explanation
Indices: 114292320--114292699 Score: 670
Period size: 192 Copynumber: 2.0 Consensus size: 191
114292310 AGTTAAATTG
*
114292320 ATAAAAAAAATCCGTTCCACTCTTAATACGTATTTTGGGCCTCGAGGGTATTTTATAAAGACTTA
1 ATAAAAAAAATCCGTTCCACTCCTAATACGTATTTTGGGCCTCGAGGGTATTTTATAAAGACTTA
114292385 AAAGTTAAACTATGCTATGAATGTTATTTATTTATGAATTATTTCTAAGTTGTTCAATATGTCCG
66 AAAGTTAAACTATGCTATGAATGTTATTTATTTATGAATTATTTCTAAGTTGTTCAATATGTCCG
* *
114292450 ATAATGCTCCGTAACCCTGATCCGGCGACAGTTTAGGGTTAAAGGGTGTTACATTTATATA
131 ATAATGCTCCGTAACCCTGATCCGACGACAATTTAGGGTTAAAGGGTGTTACATTTATATA
** * *
114292511 ATAAAAAAAATTTTGTTCCACTCCTAATACGTATTTTGGGTCTCGAGGGTCTTTTATAAAGACTT
1 ATAAAAAAAA-TCCGTTCCACTCCTAATACGTATTTTGGGCCTCGAGGGTATTTTATAAAGACTT
114292576 AAAAGTTAAACTATGCTATGAATGTTATTTATTTATGAATTATTTCTAAGTTGTTCAATATGTCC
65 AAAAGTTAAACTATGCTATGAATGTTATTTATTTATGAATTATTTCTAAGTTGTTCAATATGTCC
* *
114292641 GATAATGCTCCGTAACCCTGATCTGACGACAATTTAGGGTTAAGGGGTGTTACATTTAT
130 GATAATGCTCCGTAACCCTGATCCGACGACAATTTAGGGTTAAAGGGTGTTACATTTAT
114292700 TGGTATCAGA
Statistics
Matches: 179, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
191 10 0.06
192 169 0.94
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (191 bp):
ATAAAAAAAATCCGTTCCACTCCTAATACGTATTTTGGGCCTCGAGGGTATTTTATAAAGACTTA
AAAGTTAAACTATGCTATGAATGTTATTTATTTATGAATTATTTCTAAGTTGTTCAATATGTCCG
ATAATGCTCCGTAACCCTGATCCGACGACAATTTAGGGTTAAAGGGTGTTACATTTATATA
Found at i:114298669 original size:40 final size:35
Alignment explanation
Indices: 114298579--114298744 Score: 163
Period size: 35 Copynumber: 4.6 Consensus size: 35
114298569 CATGACAAAG
*
114298579 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
114298614 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
* *
114298649 TGTGAAATGTAGATATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
114298689 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
114298724 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
114298745 TTCAATGAGG
Statistics
Matches: 111, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
34 1 0.01
35 78 0.70
37 2 0.02
38 3 0.03
40 27 0.24
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:114298697 original size:75 final size:75
Alignment explanation
Indices: 114298579--114298749 Score: 212
Period size: 75 Copynumber: 2.4 Consensus size: 75
114298569 CATGACAAAG
** *
114298579 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
114298638 CCATACTGAGC
65 CCATACCGAGC
*
114298649 TGTGAAATGTAGATATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
114298714 CATACCGAGT
66 CATACCGAGC
**
114298724 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
114298750 TGAGGAAAAC
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
70 17 0.20
73 4 0.05
74 5 0.06
75 60 0.70
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:114301644 original size:14 final size:16
Alignment explanation
Indices: 114301621--114301654 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
114301611 GAAAAGAAAC
114301621 AAAACGAAAAT-ACAA
1 AAAACGAAAATCACAA
114301636 AAAAC-AAAATCACAA
1 AAAACGAAAATCACAA
114301651 AAAA
1 AAAA
114301655 AAATATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.76, C:0.15, G:0.03, T:0.06
Consensus pattern (16 bp):
AAAACGAAAATCACAA
Found at i:114304196 original size:131 final size:131
Alignment explanation
Indices: 114304044--114304291 Score: 372
Period size: 131 Copynumber: 1.9 Consensus size: 131
114304034 GGCGAGATTT
* **
114304044 GATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGTGTTTGCTCAAAA
1 GATATTTGGCAACTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGCTCAAAA
* * *
114304109 TAATCGAATA-TCACTTCAAAATATCACTCATATCTTTTAAAAATCCCTTAAACGAAGGCGATAT
66 TAATCAAATATTC-CTTCAAAATATCACTCAGATCTTTTAAAAATCCATTAAACGAAGGCGATAT
114304173 GC
130 GC
* * * *
114304175 GATATTTGGCAACTCGTGGAATTGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGTTTAAAA
1 GATATTTGGCAACTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGCTCAAAA
* *
114304240 TAATCAAATATTCCTTCAAAATTTCACTCAGGTCTTTTAAAAATCCATTAAA
66 TAATCAAATATTCCTTCAAAATATCACTCAGATCTTTTAAAAATCCATTAAA
114304292 ATGAAGATAA
Statistics
Matches: 104, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
131 102 0.98
132 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (131 bp):
GATATTTGGCAACTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGCTCAAAA
TAATCAAATATTCCTTCAAAATATCACTCAGATCTTTTAAAAATCCATTAAACGAAGGCGATATG
C
Found at i:114304334 original size:131 final size:131
Alignment explanation
Indices: 114304044--114304385 Score: 350
Period size: 131 Copynumber: 2.6 Consensus size: 131
114304034 GGCGAGATTT
* * ** ** *
114304044 GATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCGTGTTTGCTCAAAA
1 GATATTTGACAACTCGTAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGTTCAAAA
* * * *
114304109 TAATCGAATA-TCACTTCAAAATATCACTCATATCTTTTAAAAATCCCTTAAACGAAGGCGATAT
66 TAATCGAATATTC-CTTCAAAATATCACTCAGATCTTTTAAAAATCCATTAAACGAAGACAATAT
114304173 GC
130 GC
* * * *
114304175 GATATTTGGCAACTCGTGGAATTGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGTTTAAAA
1 GATATTTGACAACTCGTAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGTTCAAAA
* * * * *
114304240 TAATCAAATATTCCTTCAAAATTTCACTCAGGTCTTTTAAAAATCCATTAAAATGAAGATAATAC
66 TAATCGAATATTCCTTCAAAATATCACTCAGATCTTTTAAAAATCCATT-AAACGAAGACAATA-
114304305 T-C
129 TGC
* * * * * ** * *
114304307 GGTGTTTGACAA-TCCG-AGAATCATGCCCTATCGTGTTGGATTGTGATTTCTCGCTTGTTCAAA
1 GATATTTGACAACT-CGTAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGTTCAAA
*
114304370 ACAATCGAATATTCCT
65 ATAATCGAATATTCCT
114304386 CTAGGCTTTC
Statistics
Matches: 176, Mismatches: 31, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
131 151 0.86
132 24 0.14
133 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (131 bp):
GATATTTGACAACTCGTAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCGTTTGTTCAAAA
TAATCGAATATTCCTTCAAAATATCACTCAGATCTTTTAAAAATCCATTAAACGAAGACAATATG
C
Found at i:114315987 original size:65 final size:65
Alignment explanation
Indices: 114315910--114316034 Score: 205
Period size: 65 Copynumber: 1.9 Consensus size: 65
114315900 CATATAATGA
*
114315910 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAACATCCTAATTATTTGACATAAATCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAACATCCTAATTATTTGACATAAATCAT
* * * *
114315975 CACATTTAGTTAGGAGCATTTGATTTATTTCAATCATAGCATCCTAATTATTTGGCATAA
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAACATCCTAATTATTTGACATAA
114316035 GCATAGATAC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 55 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (65 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAACATCCTAATTATTTGACATAAATCAT
Found at i:114316384 original size:133 final size:133
Alignment explanation
Indices: 114316146--114316552 Score: 625
Period size: 133 Copynumber: 3.1 Consensus size: 133
114316136 CAAGCTAAAA
* * * *
114316146 ATTGTAAATCTTGTTTCCCTAAGATTGCAGTGGAGCAGATCGAAGATGGCGAATCTAGGTTTCCT
1 ATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCGAAGACGGCGGATCTAGGTTTCCT
* * *
114316211 GATGTTGTAGCGAAGCAGATTTAAGCCACCATCTTAGCTCCCTAAAGTTGTAATGGAGTAGGTTG
66 GATGTTGCAGCGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAATGGAGTAGGCTG
114316276 AAG
131 AAG
* * *
114316279 ATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGGTCGAAGACAGCGGATCTAGGCTTCCT
1 ATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCGAAGACGGCGGATCTAGGTTTCCT
* *
114316344 GATATTGCAGTGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAATGGAGTAGGCTG
66 GATGTTGCAGCGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAATGGAGTAGGCTG
114316409 AAG
131 AAG
*
114316412 ATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCGAAGACGGCGGATCTAAGTTTCCT
1 ATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCGAAGACGGCGGATCTAGGTTTCCT
* * * * * * **
114316477 GATGTTGCAACGAAGCAGATTTAAGTCACCACCCTAGCTCCCTAAAATTGTAGTGGAGTAGACCC
66 GATGTTGCAGCGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAATGGAGTAGGCTG
114316542 AAG
131 AAG
114316545 ATTGTAGA
1 ATTGTAGA
114316553 CCTCGTCTCC
Statistics
Matches: 248, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
133 248 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (133 bp):
ATTGTAGATCTTGTTTCCCTGAGATTGCAGTGGAGCAGATCGAAGACGGCGGATCTAGGTTTCCT
GATGTTGCAGCGAAGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAATGGAGTAGGCTG
AAG
Found at i:114319636 original size:131 final size:131
Alignment explanation
Indices: 114319370--114319695 Score: 345
Period size: 131 Copynumber: 2.5 Consensus size: 131
114319360 GGCAATTCGC
* *
114319370 GGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCAT-GTTTGCTCAAAATAATCGAACA-TCACT
1 GGAATCGTGCCCTAACGTGTTGGGTTGCAATTTC-TCGTTTGTTCAAAATAATCGAATATTC-CT
* * * ** *
114319433 TCAAAATATCACTCATATCTTTTAAAAATCCCTTAAACGAAGGCGGTATGCGATATTTGGCAACT
64 TCAAAATATCACTCAGATCTTTTAAAAATCCATTAAACGAAGACAATATGCGATATTTGACAACT
**
114319498 CGT
129 CCA
* * * *
114319501 GGAATTGTGCCCTAACGTATTGGGTTGCAATTTCTCGTTTGTTTAAAATAATCAAATATTCCTTC
1 GGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATTCCTTC
* * * * * *
114319566 AAAATTTCACTTAGGTCTTTTAAAAATCCATTAAAACGAAGATAATACT-CGGTGTTTGACAA-T
66 AAAATATCACTCAGATCTTTTAAAAATCCATT-AAACGAAGACAATA-TGCGATATTTGACAACT
114319629 CCA
129 CCA
* * * ** * *
114319632 GGAATCATGCCCTATCGTGTTGGATTGTGATTTCTCGCTTGTTCAAAACAATCGAATATTCCTT
1 GGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATTCCTT
114319696 TAGGCTTTCG
Statistics
Matches: 160, Mismatches: 31, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
130 1 0.01
131 136 0.85
132 22 0.14
133 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (131 bp):
GGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATTCCTTC
AAAATATCACTCAGATCTTTTAAAAATCCATTAAACGAAGACAATATGCGATATTTGACAACTCC
A
Found at i:114320726 original size:22 final size:22
Alignment explanation
Indices: 114320694--114320750 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
114320684 TAGCACGTTA
*
114320694 AGTGCTTTCTGTTTAGCACATCT
1 AGTGCTCTCTGTTTAGCAC-TCT
* *
114320717 -GTGCTCTCTGTATAGCACTTT
1 AGTGCTCTCTGTTTAGCACTCT
114320738 AGTGCTCTCTGTT
1 AGTGCTCTCTGTT
114320751 CGTTTGTGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44
Consensus pattern (22 bp):
AGTGCTCTCTGTTTAGCACTCT
Found at i:114321666 original size:157 final size:157
Alignment explanation
Indices: 114321392--114321690 Score: 537
Period size: 157 Copynumber: 1.9 Consensus size: 157
114321382 TCCTTATATG
*
114321392 TATTTTGGGCCTCGAGGGTCTTTTATAAAGACTTAAAAGTTAAACTATGCTATGAATGTTATTTA
1 TATTTTGGGCCTCGAGGGTCTTTTATAAAGACTTAAAAGTTAAACTATGCTATGAATGTGATTTA
* *
114321457 TTTATGAATTATTTTTAAGTTGTTCAATATGTCCGATAATGCTCCGTAACCCTAATCCGGCGACG
66 TTTATGAATTATTTCTAAGTTGTTCAATATGTCCGATAATGCTCCGTAACCCTAATCCGACGACG
114321522 GTTTAGGGTTAAGGGACTCCTAATACA
131 GTTTAGGGTTAAGGGACTCCTAATACA
*
114321549 TATTTTGGGCCTCGAGGGTCTTTTATAAAGACTTCAAAGTTAAACTATGCTAT-AATTGTGATTT
1 TATTTTGGGCCTCGAGGGTCTTTTATAAAGACTTAAAAGTTAAACTATGCTATGAA-TGTGATTT
*
114321613 ATTTATGAATTATTTCTAAGTTGTTCAATATGTCCGATAATGCTCCGTAACCCTAATCCGACGAT
65 ATTTATGAATTATTTCTAAGTTGTTCAATATGTCCGATAATGCTCCGTAACCCTAATCCGACGAC
114321678 GGTTTAGGGTTAA
130 GGTTTAGGGTTAA
114321691 AGGGGTGTTA
Statistics
Matches: 136, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
156 2 0.01
157 134 0.99
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (157 bp):
TATTTTGGGCCTCGAGGGTCTTTTATAAAGACTTAAAAGTTAAACTATGCTATGAATGTGATTTA
TTTATGAATTATTTCTAAGTTGTTCAATATGTCCGATAATGCTCCGTAACCCTAATCCGACGACG
GTTTAGGGTTAAGGGACTCCTAATACA
Found at i:114322458 original size:22 final size:22
Alignment explanation
Indices: 114322428--114322480 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
114322418 ACTTATCGTC
* *
114322428 TTGCGCTTTAGCGCTTATTG-T
1 TTGCACTTTAGCGCTTAGTGCT
* *
114322449 TTCGCACTTTGGTGCTTAGTGCT
1 TT-GCACTTTAGCGCTTAGTGCT
114322472 TTGCACTTT
1 TTGCACTTT
114322481 GGTGCTACTG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 2 0.08
22 21 0.81
23 3 0.12
ACGTcount: A:0.09, C:0.21, G:0.23, T:0.47
Consensus pattern (22 bp):
TTGCACTTTAGCGCTTAGTGCT
Found at i:114322600 original size:17 final size:17
Alignment explanation
Indices: 114322578--114322611 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
114322568 GTTAAAAAGG
114322578 TAAACGATTTTCATTAT
1 TAAACGATTTTCATTAT
114322595 TAAACGATTTTCATTAT
1 TAAACGATTTTCATTAT
114322612 AAGGTAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (17 bp):
TAAACGATTTTCATTAT
Found at i:114324467 original size:21 final size:20
Alignment explanation
Indices: 114324427--114324468 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
114324417 AAGATTCGAA
114324427 AGAGAATTGAAGAATGAATTG
1 AGAGAATTGAAGAA-GAATTG
114324448 AGAGAATTTGAACGAA-AATTG
1 AGAGAA-TTGAA-GAAGAATTG
114324469 TTTCGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 11 0.58
22 5 0.26
23 3 0.16
ACGTcount: A:0.48, C:0.02, G:0.26, T:0.24
Consensus pattern (20 bp):
AGAGAATTGAAGAAGAATTG
Found at i:114359553 original size:23 final size:21
Alignment explanation
Indices: 114359510--114359554 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
114359500 TTTAACCATT
* *
114359510 AAAATAAAATTTAAATTTTAA
1 AAAATAAAAATTAAATATTAA
114359531 AAAATAAAAAATTATAATATTAA
1 AAAAT-AAAAATTA-AATATTAA
114359554 A
1 A
114359555 TATTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 7 0.35
23 8 0.40
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATAAAAATTAAATATTAA
Found at i:114359791 original size:23 final size:23
Alignment explanation
Indices: 114359765--114359809 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
114359755 ATAAAAAAAA
*
114359765 TTTTTA-AAAAGTTTTAAAATATT
1 TTTTTATAAAA-TTATAAAATATT
114359788 TTTTTATAAAATTATAAAATAT
1 TTTTTATAAAATTATAAAATAT
114359810 ATAATTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TTTTTATAAAATTATAAAATATT
Found at i:114359804 original size:8 final size:8
Alignment explanation
Indices: 114359791--114359835 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
114359781 AAATATTTTT
114359791 TTATAAAA
1 TTATAAAA
114359799 TTATAAAA
1 TTATAAAA
*
114359807 -TATATAA
1 TTATAAAA
*
114359814 TTATAAAT
1 TTATAAAA
114359822 TTA-AAAA
1 TTATAAAA
114359829 TTATAAA
1 TTATAAA
114359836 TAATATATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
7 12 0.39
8 19 0.61
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TTATAAAA
Found at i:114359817 original size:23 final size:21
Alignment explanation
Indices: 114359791--114359851 Score: 63
Period size: 23 Copynumber: 2.9 Consensus size: 21
114359781 AAATATTTTT
114359791 TTATAAAATTATAAAATATATAA
1 TTATAAAATTA-AAAAT-TATAA
*
114359814 TTATAAATTTAAAAATTATAA
1 TTATAAAATTAAAAATTATAA
*
114359835 --ATAATATATAAAAATTA
1 TTATAAAAT-TAAAAATTA
114359852 GAAAAATTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 5 0.15
20 9 0.26
21 5 0.15
22 5 0.15
23 10 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TTATAAAATTAAAAATTATAA
Found at i:114359836 original size:15 final size:16
Alignment explanation
Indices: 114359790--114359836 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 16
114359780 AAAATATTTT
114359790 TTTATAAAATTATAAA
1 TTTATAAAATTATAAA
* *
114359806 -ATATATAATTATAAA
1 TTTATAAAATTATAAA
114359821 TTTA-AAAATTATAAA
1 TTTATAAAATTATAAA
114359836 T
1 T
114359837 AATATATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 24 0.92
16 2 0.08
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TTTATAAAATTATAAA
Found at i:114368495 original size:35 final size:36
Alignment explanation
Indices: 114368432--114368502 Score: 135
Period size: 35 Copynumber: 2.0 Consensus size: 36
114368422 CAATGATATG
114368432 CAATCTTAGATATGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
114368468 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
114368503 TGCAAACTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 19 0.54
36 16 0.46
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (36 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGATA
Found at i:114368521 original size:17 final size:19
Alignment explanation
Indices: 114368424--114368514 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
114368414 ATAATCTTCA
114368424 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
114368443 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
114368462 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
114368479 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
114368497 ATGATATGCAAACTTAGA
1 ATGATATGCAATCTTAGA
114368515 AGATATGATT
Statistics
Matches: 68, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 36 0.53
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:114368826 original size:17 final size:17
Alignment explanation
Indices: 114368804--114368837 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
114368794 TGTTTCCCTG
114368804 ATTTTTT-ATATATTTTA
1 ATTTTTTAATA-ATTTTA
114368821 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
114368838 GTATCATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:114378577 original size:220 final size:220
Alignment explanation
Indices: 114378185--114378774 Score: 930
Period size: 220 Copynumber: 2.7 Consensus size: 220
114378175 CAGGCTAAAG
* * * * * * * * **
114378185 CATAGCAGATTTGACCTTCAGGTATTTACACTGAAGCGGATCCAAGATGATTTAACATCTCTGTA
1 CATAGTAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
* * *
114378250 TTATCAGAGAACAAATCAAAGAAACAGATTTGGCATTTCCATATTCGACAGAGAGCAGATCGAAG
66 CTATCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAAG
*
114378315 ACATAGCAGATCTAACCTTCGGATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTT
131 ACATAGCAGATCTAACCTTCAGATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTT
* * *
114378380 GCGTTGACAAGGAGCAGATCGAAGA
196 ACGTTAACAAGGAGCAAATCGAAGA
* * *
114378405 CATAGTAGATTTGGCTTTCATGTGTTTACGTTGAAGCAGATCTAAGATGATTTGGTATCTCTGTA
1 CATAGTAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
* * *
114378470 CTATCAGAGAACAAATCGAAGAAATAGATTTGGCATCTCCATATTCAACAGAGAGTAGATCGAAG
66 CTATCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAAG
*
114378535 ACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
131 ACATAGCAGATCTAACCTTCAGATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTT
114378600 ACGTTAACAAGGAGCAAATCGAAGA
196 ACGTTAACAAGGAGCAAATCGAAGA
114378625 CATAGTAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
1 CATAGTAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
* *
114378690 CTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCT-CATATTCGACGGAGAGCAGATCGAAG
66 CTATCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAAG
*
114378754 ACATAGCAGATCTGACCTTCA
131 ACATAGCAGATCTAACCTTCA
114378775 TTGAAGCAGA
Statistics
Matches: 338, Mismatches: 32, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
219 43 0.13
220 295 0.87
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (220 bp):
CATAGTAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
CTATCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACAGAGAGCAGATCGAAG
ACATAGCAGATCTAACCTTCAGATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTT
ACGTTAACAAGGAGCAAATCGAAGA
Found at i:114378844 original size:78 final size:78
Alignment explanation
Indices: 114378716--114379009 Score: 484
Period size: 78 Copynumber: 3.8 Consensus size: 78
114378706 CGAAGAAACA
* * *
114378716 GATTTGGCATCTC-ATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
114378780 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * * *
114378793 GATTTGACATCTCTGTATTAGATGGGGAGCAGATCAAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
114378858 GCAGATCCAAGAT
66 GCAGATCCAAGAT
*
114378871 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
114378935 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
*
114378949 GATTTGGCATCTCTGTAATAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
114379010 GTGTTTACAT
Statistics
Matches: 200, Mismatches: 14, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
77 13 0.06
78 186 0.93
79 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.24
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:114379147 original size:44 final size:45
Alignment explanation
Indices: 114378949--114379222 Score: 306
Period size: 45 Copynumber: 6.1 Consensus size: 45
114378939 GATCCAAGAT
* *
114378949 GATTTGGCATCTCTGTAATAGACGGGGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * * * * * * *
114378996 GATCTGACCT-TCATGTGTTTACATC--GAAGCAGATCCAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATAACA
*
114379041 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAA-ATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATC-GAAGATAACA
* *
114379086 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
*
114379130 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * *
114379175 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
114379220 GAT
1 GAT
114379223 ATCGCTTTCC
Statistics
Matches: 191, Mismatches: 27, Indels: 20
0.80 0.11 0.08
Matches are distributed among these distances:
43 1 0.01
44 48 0.25
45 110 0.58
46 6 0.03
47 22 0.12
48 3 0.02
49 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.24
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
Found at i:114379149 original size:89 final size:90
Alignment explanation
Indices: 114378949--114379222 Score: 308
Period size: 89 Copynumber: 3.0 Consensus size: 90
114378939 GATCCAAGAT
* * * * * *
114378949 GATTTGGCATCTCTGTAATAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCT-TCATGTG
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAG--ATAACAGATTTGGCATCTC-TGT-
* * * *
114379013 TTTACATC--GAAGCAGATCCAAGAT-GACA
62 ATTAGA-CGGGGAGCAGATCAAAGATAG-CA
114379041 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAA-ATAACAGATTTGGCATCTCTGTATT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATC-GAAGATAACAGATTTGGCATCTCTGTATT
**
114379105 AGACGGGGAGCAGATTGAAGA-AGCA
65 AGACGGGGAGCAGATCAAAGATAGCA
* * *
114379130 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTA
114379195 GACGGGGAGCAGATCAAAGATAGCA
66 GACGGGGAGCAGATCAAAGATAGCA
114379220 GAT
1 GAT
114379223 ATCGCTTTCC
Statistics
Matches: 159, Mismatches: 16, Indels: 16
0.83 0.08 0.08
Matches are distributed among these distances:
88 4 0.03
89 82 0.52
90 35 0.22
91 2 0.01
92 33 0.21
93 3 0.02
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.24
Consensus pattern (90 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATTA
GACGGGGAGCAGATCAAAGATAGCA
Found at i:114379192 original size:134 final size:136
Alignment explanation
Indices: 114378949--114379205 Score: 344
Period size: 134 Copynumber: 1.9 Consensus size: 136
114378939 GATCCAAGAT
*
114378949 GATTTGGCATCTCTGTAATAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATGTGT
1 GATTTGGCATCTCTGTAATAGACGGGGAGCAGATCGAAGA-ATAGCAGATCTGACCTTCATGTGA
*
114379014 TTACATCGAAGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGA
65 TTACATCGAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGA
114379079 AATAACA
130 AATAACA
* * * * *
114379086 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAG-A-AGCAGATTTGGCGTCTC-TGT-A
1 GATTTGGCATCTCTGTAATAGACGGGGAGCAGATCGAAGAATAGCAGATCTGACCT-TCATGTGA
* * * *
114379147 TTAGA-CGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGGAGCA
65 TTACATC--GAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCA
114379206 GATCAAAGAT
Statistics
Matches: 106, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
132 1 0.01
133 4 0.04
134 61 0.58
135 3 0.03
137 37 0.35
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.25
Consensus pattern (136 bp):
GATTTGGCATCTCTGTAATAGACGGGGAGCAGATCGAAGAATAGCAGATCTGACCTTCATGTGAT
TACATCGAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAA
ATAACA
Found at i:114379596 original size:19 final size:19
Alignment explanation
Indices: 114379572--114379643 Score: 96
Period size: 19 Copynumber: 3.9 Consensus size: 19
114379562 ATAATATTCA
114379572 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
114379591 ATGATA--CAATCTTAAAT
1 ATGATATGCAATCTTAGAT
* *
114379608 ATGAT-TGCCATCTTAGAG
1 ATGATATGCAATCTTAGAT
114379626 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
114379644 AGATATGATT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
17 15 0.33
18 13 0.29
19 17 0.38
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:114379602 original size:17 final size:17
Alignment explanation
Indices: 114379580--114379643 Score: 65
Period size: 17 Copynumber: 3.6 Consensus size: 17
114379570 CAATGATATG
114379580 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
* *
114379597 CAATCTTAAATATGATTG
1 CAATCTTAGATATGA-TA
* *
114379615 CCATCTTAGAGATGATA
1 CAATCTTAGATATGATA
114379632 TGCAATCTTAGA
1 --CAATCTTAGA
114379644 AGATATGATT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
17 15 0.41
18 13 0.35
19 9 0.24
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:114379621 original size:35 final size:37
Alignment explanation
Indices: 114379572--114379669 Score: 101
Period size: 35 Copynumber: 2.6 Consensus size: 37
114379562 ATAATATTCA
*
114379572 ATGATATGCAATCTTAGATATGATA-CAATCTTAAAT
1 ATGATATGCAATCTTAGAGATGATAGCAATCTTAAAT
*
114379608 ATGAT-TGCCATCTTAGAGATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAGATGATA-GCAATCTT--AA-AT
* *
114379648 ATGATTTTGTAATCTTAGAGAT
1 ATGA-TATGCAATCTTAGAGAT
114379670 TTAATTTGTA
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
35 17 0.33
36 5 0.10
37 7 0.14
39 2 0.04
40 6 0.12
41 1 0.02
42 13 0.25
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (37 bp):
ATGATATGCAATCTTAGAGATGATAGCAATCTTAAAT
Found at i:114379956 original size:18 final size:18
Alignment explanation
Indices: 114379933--114379968 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
114379923 TGTTTCCCTG
114379933 ATTTTTTT-ATATATTTTA
1 ATTTTTTTAATA-ATTTTA
114379951 ATTTTTTTAATAATTTTA
1 ATTTTTTTAATAATTTTA
114379969 GTATCATATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTTTTAATAATTTTA
Found at i:114381683 original size:15 final size:15
Alignment explanation
Indices: 114381663--114381693 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
114381653 ACTTGAAAAG
114381663 AAAATATATACATAA
1 AAAATATATACATAA
*
114381678 AAAATATTTACATAA
1 AAAATATATACATAA
114381693 A
1 A
114381694 GTTATATGAA
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:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAATATATACATAA
Found at i:114384173 original size:176 final size:176
Alignment explanation
Indices: 114383566--114384178 Score: 797
Period size: 176 Copynumber: 3.5 Consensus size: 176
114383556 TTACTTGAGA
* * *
114383566 AAATAAGATCTT-TAGTCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCCA-TCTTT
1 AAATAAGATCTTCAAATC-TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT-CATTCTTC
* * * * * * *
114383629 AACCTGCTCTTTTGCTACCTCAGAGAAATAAGGCTAGTGGTAAAATCTACTCCATCACCGATACA
64 AACCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTGGTGATAAAATCTGCTCCATTACCGATACA
* * *
114383694 TGGAGAT-AGAATTCACCATTTTAGATCTGCTCCACTGCAATCTCAGGG
129 TGAAGATAAG-ATTCACCATTCTAGATCTGCTCCACTGCAATCTCAGAG
* * * * *
114383742 AGATAAGATCTTCAAAACTTAATCTGCTTCCTTGCTACCTCAGGAAGATAAGATTCATTCTTCAA
1 AAATAAGATCTTCAAATCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAA
* * * * * * *
114383807 TCTGGTCTATTGCTATCTCAGAGAGATGAGGCTGGTGATAAAATTTGCTCCATTGCCAATACATG
66 CCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTGGTGATAAAATCTGCTCCATTACCGATACATG
* *
114383872 AAGATAAGATTCACCATTCTTGATCTGCTCCACTGCAATCTCAGTG
131 AAGATAAGATTCACCATTCTAGATCTGCTCCACTGCAATCTCAGAG
*
114383918 AAATAAGATCTTCAAATCTCAGTCTGCTTCCTTGCTACCCCAGGAAGATAAGACTCATTCTTCAA
1 AAATAAGATCTTCAAATCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAA
*
114383983 CCTGCTCTCTTGCTACCTTAGAGAGATGAGGCTGGTGATAAAATCTGCTCCATTACCGATACATG
66 CCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTGGTGATAAAATCTGCTCCATTACCGATACATG
* * * **
114384048 AAGATAAGATTCACTATCTGCAAAAATCTGCTCTGCTGCAA-CTCAGAG
131 AAGATAAGATTCACCAT-T-C-TAGATCTGCTCCACTGCAATCTCAGAG
*
114384096 ATATAAGATCTTCAAATCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAA
1 AAATAAGATCTTCAAATCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAA
* *
114384161 ACT-TTC-CTTGCTACCTCA
66 CCTGCTCTCTTGCTACCTCA
114384179 AGAAGATAAG
Statistics
Matches: 380, Mismatches: 51, Indels: 12
0.86 0.12 0.03
Matches are distributed among these distances:
175 2 0.01
176 285 0.75
177 7 0.02
178 72 0.19
179 14 0.04
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (176 bp):
AAATAAGATCTTCAAATCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAA
CCTGCTCTCTTGCTACCTCAGAGAGATGAGGCTGGTGATAAAATCTGCTCCATTACCGATACATG
AAGATAAGATTCACCATTCTAGATCTGCTCCACTGCAATCTCAGAG
Found at i:114384174 original size:41 final size:40
Alignment explanation
Indices: 114384123--114384222 Score: 155
Period size: 41 Copynumber: 2.4 Consensus size: 40
114384113 CTCAGTCTGC
114384123 TTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAAACT
1 TTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTC-AACT
*
114384164 TTCCTTGCTACCTCAAGAAGATAAGACTCATTCTTCAACT
1 TTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAACT
114384204 TGCTCTCTTGCTACCTCAG
1 T--TC-CTTGCTACCTCAG
114384223 AGAGATGAGG
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
40 5 0.09
41 35 0.65
42 2 0.04
43 12 0.22
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (40 bp):
TTCCTTGCTACCTCAGGAAGATAAGACTCATTCTTCAACT
Found at i:114384602 original size:64 final size:63
Alignment explanation
Indices: 114384500--114384626 Score: 173
Period size: 64 Copynumber: 2.0 Consensus size: 63
114384490 TTCATGTATC
* *
114384500 ATGCTTATGCCAAATAATTAGGATATTATAATCAAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATACTATAATCAAAATGAAT-AAATGCTCCTAACTAAATGTG
** * * * *
114384564 ATGCTTATGTTAAATAATTAGGATGCTATGATCGAAATGAATAAATGTTCCTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAGGATACTATAATCAAAATGAATAAATGCTCCTAACTAAATGTG
114384627 TTATGAATGA
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
63 19 0.35
64 36 0.65
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (63 bp):
ATGCTTATGCCAAATAATTAGGATACTATAATCAAAATGAATAAATGCTCCTAACTAAATGTG
Found at i:114390941 original size:33 final size:33
Alignment explanation
Indices: 114390899--114390965 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
114390889 ATAATTCTCT
114390899 ATCCCACTATCACTTTCTTTTGTGCTCGAAATA
1 ATCCCACTATCACTTTCTTTTGTGCTCGAAATA
114390932 ATCCCACTATCACTTTCTTTTGTGCTCGAAATA
1 ATCCCACTATCACTTTCTTTTGTGCTCGAAATA
114390965 A
1 A
114390966 CTAACCCTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.25, C:0.27, G:0.09, T:0.39
Consensus pattern (33 bp):
ATCCCACTATCACTTTCTTTTGTGCTCGAAATA
Found at i:114396973 original size:16 final size:16
Alignment explanation
Indices: 114396954--114396985 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
114396944 ACTTGAAAAG
114396954 AAAATATATACATAAA
1 AAAATATATACATAAA
*
114396970 AAAATATTTACATAAA
1 AAAATATATACATAAA
114396986 GTTATATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAATATATACATAAA
Found at i:114398989 original size:12 final size:12
Alignment explanation
Indices: 114398972--114398998 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
114398962 TTGCAACTCT
114398972 TCATTGAATGGA
1 TCATTGAATGGA
114398984 TCATTGAATGGA
1 TCATTGAATGGA
114398996 TCA
1 TCA
114398999 CCTCTTGTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.33
Consensus pattern (12 bp):
TCATTGAATGGA
Found at i:114400734 original size:5 final size:5
Alignment explanation
Indices: 114400724--114400755 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
114400714 TTGTGTGTTC
114400724 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
114400756 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:114400738 original size:9 final size:9
Alignment explanation
Indices: 114400724--114400754 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
114400714 TTGTGTGTTC
114400724 TTTATTTTA
1 TTTATTTTA
114400733 TTTATTTTA
1 TTTATTTTA
114400742 TTTTATTTTA
1 -TTTATTTTA
114400752 TTT
1 TTT
114400755 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:114404283 original size:28 final size:28
Alignment explanation
Indices: 114404233--114404292 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
114404223 AACTTATTTA
114404233 AATTTTTTAATAATATAAAAACTAAATT
1 AATTTTTTAATAATATAAAAACTAAATT
* *
114404261 AATTTATTTAATAATA-AATAACTAATTT
1 AATTT-TTTAATAATATAAAAACTAAATT
114404289 AATT
1 AATT
114404293 CATTCCTAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 19 0.66
29 10 0.34
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (28 bp):
AATTTTTTAATAATATAAAAACTAAATT
Found at i:114407027 original size:5 final size:5
Alignment explanation
Indices: 114407017--114407041 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
114407007 TATATTGTTC
114407017 CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT
114407042 TTATCATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:114407908 original size:22 final size:23
Alignment explanation
Indices: 114407882--114407924 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
114407872 CTTTTAATGG
*
114407882 TTTAAGGA-AAAAAATTAATTCA
1 TTTAAGAATAAAAAATTAATTCA
*
114407904 TTTAATAATAAAAAATTAATT
1 TTTAAGAATAAAAAATTAATT
114407925 TTACTCAGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (23 bp):
TTTAAGAATAAAAAATTAATTCA
Found at i:114423668 original size:20 final size:20
Alignment explanation
Indices: 114423643--114423689 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
114423633 AGGGGCACAC
114423643 GCCCGTGTGGCCT-GAGACAT
1 GCCCGTGTGGCCTGGA-ACAT
114423663 GCCCGTGTGGCCTGGAACAT
1 GCCCGTGTGGCCTGGAACAT
114423683 GCCCGTG
1 GCCCGTG
114423690 GGCAAATCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.13, C:0.32, G:0.36, T:0.19
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGAACAT
Found at i:114428405 original size:14 final size:13
Alignment explanation
Indices: 114428388--114428462 Score: 54
Period size: 14 Copynumber: 5.9 Consensus size: 13
114428378 TTTATACGCT
114428388 TTATCATATATATA
1 TTATCAT-TATATA
114428402 TTAT-ATTAT-T-
1 TTATCATTATATA
*
114428412 TTA--ATATATATT
1 TTATCAT-TATATA
114428424 TTATTCATTATATCA
1 TTA-TCATTATAT-A
*
114428439 TTTTCATTATATA
1 TTATCATTATATA
114428452 TTAT-ATTATAT
1 TTATCATTATAT
114428463 TTTTATTTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
9 2 0.04
10 6 0.12
11 2 0.04
12 13 0.25
13 6 0.12
14 18 0.35
15 4 0.08
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (13 bp):
TTATCATTATATA
Found at i:114428452 original size:30 final size:29
Alignment explanation
Indices: 114428401--114428458 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
114428391 TCATATATAT
* *
114428401 ATTATATTATTTTAATATATATTTTATTC
1 ATTATATCATTTTAATATATATTATATTC
*
114428430 ATTATATCATTTTCATTATATATTATATT
1 ATTATATCATTTT-AATATATATTATATT
114428459 ATATTTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.60
Consensus pattern (29 bp):
ATTATATCATTTTAATATATATTATATTC
Found at i:114428461 original size:12 final size:12
Alignment explanation
Indices: 114428396--114428486 Score: 52
Period size: 10 Copynumber: 7.8 Consensus size: 12
114428386 CTTTATCATA
114428396 TATATATTATAT
1 TATATATTATAT
114428408 TAT-T-TTA-AT
1 TATATATTATAT
*
114428417 ATATATTTTATTCAT
1 -TATATATTA-T-AT
*
114428432 TATATCATTTTCAT
1 TATAT-ATTAT-AT
114428446 TATATATTATAT
1 TATATATTATAT
*
114428458 TATAT-TTTTAT
1 TATATATTATAT
114428469 T-TAT-TTAT-T
1 TATATATTATAT
*
114428478 TATTTATTA
1 TATATATTA
114428487 CTATGTACAA
Statistics
Matches: 64, Mismatches: 6, Indels: 19
0.72 0.07 0.21
Matches are distributed among these distances:
9 4 0.06
10 14 0.22
11 11 0.17
12 13 0.20
13 4 0.06
14 14 0.22
15 4 0.06
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (12 bp):
TATATATTATAT
Found at i:114435654 original size:38 final size:39
Alignment explanation
Indices: 114435604--114435856 Score: 204
Period size: 46 Copynumber: 5.9 Consensus size: 39
114435594 CTAATATGAA
114435604 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
114435643 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----TG
114435686 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAG
1 --ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G
* * *
114435734 ATGTGTAAGACCATAGTTGAAAGATGCCATGGCAACGTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
** *
114435773 ACATGAAAAATAAGACCATGGTTGAAAGATA-CATGGCAACATG
1 --ATG---TGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
* *
114435816 ACGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 ATG---TG--TAAGACCATGGTTGAAAGATACCATGGCAAC
114435857 ATGACAGAAA
Statistics
Matches: 186, Mismatches: 10, Indels: 31
0.82 0.04 0.14
Matches are distributed among these distances:
38 36 0.19
39 1 0.01
41 10 0.05
43 34 0.18
44 28 0.15
46 76 0.41
48 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (39 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:114435710 original size:46 final size:46
Alignment explanation
Indices: 114435643--114435900 Score: 294
Period size: 46 Copynumber: 5.7 Consensus size: 46
114435633 TGGCAACCTG
* *
114435643 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAA
* * *
114435689 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAA
* * *
114435735 TGTGTAAGACCATAGTTGAAAGATGCCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAA
**
114435781 --AATAAGACCATGGTTGAAAGATA-CATGGCAACATGAC--GAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAA
* **
114435822 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAA
** * * * *
114435867 ACTAGTAAAACCATAGTTGAAAGACACTATGGCA
1 TGT-GTAAGACCATGGTTGAAAGATACCATGGCA
114435901 TCACGTCAAA
Statistics
Matches: 189, Mismatches: 18, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
41 4 0.02
43 36 0.19
44 33 0.17
45 5 0.03
46 111 0.59
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.21
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAA
Found at i:114435880 original size:133 final size:135
Alignment explanation
Indices: 114435647--114435890 Score: 350
Period size: 133 Copynumber: 1.8 Consensus size: 135
114435637 AACCTGTGTG
* * * **
114435647 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGA-ACGAAAAGAATAAGACCATGGTTGAAAGA
* * * ** *
114435712 TACCATGGCAACCTGATATGAGATGTGTAAGACCATAGTTGAAAGATGCCATGGCAACGTGACAT
65 TACCATGGCAACATGACATGAAAACTGTAAAACCATAGTTGAAAGATGCCATGGCAACGTGACAT
114435777 GAAAAA
130 GAAAAA
114435783 TAAGACCATGGTTGAAAGATA-CATGGCAACATG-ACGAAAAGAATAAGACCATGGTTGAAAGAT
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGAACGAAAAGAATAAGACCATGGTTGAAAGAT
114435846 ACCATGGCAACATGACA-GAAAACTAGTAAAACCATAGTTGAAAGA
66 ACCATGGCAACATGACATGAAAACT-GTAAAACCATAGTTGAAAGA
114435891 CACTATGGCA
Statistics
Matches: 96, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
132 4 0.04
133 60 0.62
135 11 0.11
136 21 0.22
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (135 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGAACGAAAAGAATAAGACCATGGTTGAAAGAT
ACCATGGCAACATGACATGAAAACTGTAAAACCATAGTTGAAAGATGCCATGGCAACGTGACATG
AAAAA
Found at i:114436206 original size:23 final size:25
Alignment explanation
Indices: 114436161--114436207 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
114436151 AATAAATATA
*
114436161 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
114436186 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
114436208 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:114444274 original size:18 final size:18
Alignment explanation
Indices: 114444248--114444282 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
114444238 GGTTTGGCAT
114444248 CTCTATATTGACAGAGAG
1 CTCTATATTGACAGAGAG
*
114444266 CTCTGTATTGACAGAGA
1 CTCTATATTGACAGAGA
114444283 ACAGATCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (18 bp):
CTCTATATTGACAGAGAG
Found at i:114444301 original size:62 final size:62
Alignment explanation
Indices: 114444204--114444324 Score: 188
Period size: 62 Copynumber: 2.0 Consensus size: 62
114444194 GATTTGGCGT
* *
114444204 CTCTGTATTGTCAGAGAGCAAATCGAAGATAACAGGTTTGGCATCTCTATATTGACAGAGAG
1 CTCTGTATTGACAGAGAACAAATCGAAGATAACAGGTTTGGCATCTCTATATTGACAGAGAG
* ** *
114444266 CTCTGTATTGACAGAGAACAGATCGAAGATAACAGGTTTGGTGTCTCTGTATTGACAGA
1 CTCTGTATTGACAGAGAACAAATCGAAGATAACAGGTTTGGCATCTCTATATTGACAGA
114444325 AAGCAGATCG
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 53 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (62 bp):
CTCTGTATTGACAGAGAACAAATCGAAGATAACAGGTTTGGCATCTCTATATTGACAGAGAG
Found at i:114444316 original size:44 final size:44
Alignment explanation
Indices: 114444266--114444478 Score: 282
Period size: 44 Copynumber: 4.8 Consensus size: 44
114444256 TGACAGAGAG
* * *
114444266 CTCTGTATTGACAGAGAACAGATCGAAGATAACAGGTTTGGTGT
1 CTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGT
* *
114444310 CTCTGTATTGACAGAAAGCAGATCGAAGATGACAGATTTGGCGT
1 CTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGT
* *
114444354 ATCTGTATTGACAGAGAGCAGATCGAAGATGACAGATTTGGCGT
1 CTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGT
* * * **
114444398 CTCTGTATTGTCGGAGAGCAGATAGAAGATAGTAGATTTGGCGT
1 CTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGT
* * * *
114444442 CTCTGTACTGACAGAGAGTAGATTGAAGATAGCAGAT
1 CTCTGTATTGACAGAGAGCAGATCGAAGATAACAGAT
114444479 CTGATATTTG
Statistics
Matches: 149, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 149 1.00
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (44 bp):
CTCTGTATTGACAGAGAGCAGATCGAAGATAACAGATTTGGCGT
Found at i:114446162 original size:14 final size:13
Alignment explanation
Indices: 114446145--114446217 Score: 50
Period size: 14 Copynumber: 5.8 Consensus size: 13
114446135 TTTATACGCT
114446145 TTATCATATATATA
1 TTATCAT-TATATA
114446159 TTAT-ATTAT-T-
1 TTATCATTATATA
*
114446169 TTA--ATATATATT
1 TTATCAT-TATATA
114446181 TTATTCATTATATCA
1 TTA-TCATTATAT-A
*
114446196 TTTTCATTATATA
1 TTATCATTATATA
114446209 TTAT-ATTAT
1 TTATCATTAT
114446218 TTTATTATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
9 2 0.04
10 6 0.12
11 2 0.04
12 11 0.22
13 6 0.12
14 18 0.37
15 4 0.08
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (13 bp):
TTATCATTATATA
Found at i:114446170 original size:50 final size:50
Alignment explanation
Indices: 114446102--114446220 Score: 117
Period size: 50 Copynumber: 2.4 Consensus size: 50
114446092 TTATATAAAA
*
114446102 ATTAT-TA-TATATATATTTTTAATTAGATA-TTTA-T-TTATA-CGCTTTATC
1 ATTATATATTATAT-TATTTTTAA-TAGATATTTTATTATTATATC-ATTT-TC
*
114446150 ATATATATATTATATTA-TTTTAATATATATTTTATTCATTATATCATTTTC
1 AT-TATATATTATATTATTTTTAATAGATATTTTATT-ATTATATCATTTTC
114446201 ATTATATATTATATTATTTT
1 ATTATATATTATATTATTTT
114446221 ATTATTTATT
Statistics
Matches: 60, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
48 7 0.12
49 13 0.22
50 19 0.32
51 12 0.20
52 8 0.13
53 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (50 bp):
ATTATATATTATATTATTTTTAATAGATATTTTATTATTATATCATTTTC
Found at i:114446190 original size:29 final size:29
Alignment explanation
Indices: 114446151--114446227 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 29
114446141 CGCTTTATCA
114446151 TATATATATTATATTATTTT-AATATATAT
1 TATAT-TATTATATTATTTTCAATATATAT
* * *
114446180 TTTATTCATTATATCATTTTCATTATATAT
1 TATATT-ATTATATTATTTTCAATATATAT
*
114446210 TATATTATTTTATTATTT
1 TATATTATTATATTATTT
114446228 ATTACTATGT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
28 1 0.03
29 26 0.65
30 13 0.32
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (29 bp):
TATATTATTATATTATTTTCAATATATAT
Found at i:114446209 original size:30 final size:29
Alignment explanation
Indices: 114446158--114446215 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
114446148 TCATATATAT
* *
114446158 ATTATATTATTTTAATATATATTTTATTC
1 ATTATATCATTTTAATATATATTATATTC
*
114446187 ATTATATCATTTTCATTATATATTATATT
1 ATTATATCATTTT-AATATATATTATATT
114446216 ATTTTATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.60
Consensus pattern (29 bp):
ATTATATCATTTTAATATATATTATATTC
Found at i:114446211 original size:21 final size:20
Alignment explanation
Indices: 114446187--114446231 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
114446177 TATTTTATTC
114446187 ATTATATCATTTTCATTATAT
1 ATTATATCATTTT-ATTATAT
* *
114446208 ATTATATTATTTTATTATTT
1 ATTATATCATTTTATTATAT
114446228 ATTA
1 ATTA
114446232 CTATGTACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTATATCATTTTATTATAT
Found at i:114450068 original size:135 final size:131
Alignment explanation
Indices: 114449790--114450095 Score: 321
Period size: 135 Copynumber: 2.3 Consensus size: 131
114449780 CGGGAGATTG
* * **
114449790 CAACCCAGCACGATAGGGCACTATTCCTCGAATTTCCAAACAGCGAACATTTCTTTCGTTTTAAA
1 CAACCCAGCACGATAGGGCACGATT-CTCGAATTGCCAAACAGCGAACATGCCTTTCGTTTTAAA
* ** * * * *
114449855 GAGTTTTTAAAAAACGTGAATGAAATTCTGAAGGGATCTTCGATCGTTTTAGACAAATGGAAATG
65 GAGTTTTTAAAAAACATGAATGAAAACCTAAAGGAATATTCGATCGTTTTAGACAAACGGAAATG
*
114449920 CG
130 CA
* * *
114449922 CAACCCAGCACGATAGTGTACGATTCTCGAATTGCCAAACATCGAACATCGCCTTT-GTTTTAAA
1 CAACCCAGCACGATAGGGCACGATTCTCGAATTGCCAAACAGCGAACAT-GCCTTTCGTTTTAAA
* * *
114449986 GGGTTTTCTTAAAAAAAACATGAGTGAAAACCTAAAGGAATATTCGATTGTTTT-GAACAAACGA
65 GAG-TTT-TT--AAAAAACATGAATGAAAACCTAAAGGAATATTCGATCGTTTTAG-ACAAACG-
114450050 GAAAT-CA
124 GAAATGCA
* * * *
114450057 CAATCCAGCACGATAGGGCATGATTCCCGAATTGACAAA
1 CAACCCAGCACGATAGGGCACGATTCTCGAATTGCCAAA
114450096 TACTTAGTAT
Statistics
Matches: 143, Mismatches: 24, Indels: 11
0.80 0.13 0.06
Matches are distributed among these distances:
131 32 0.22
132 29 0.20
133 2 0.01
134 1 0.01
135 74 0.52
136 5 0.03
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (131 bp):
CAACCCAGCACGATAGGGCACGATTCTCGAATTGCCAAACAGCGAACATGCCTTTCGTTTTAAAG
AGTTTTTAAAAAACATGAATGAAAACCTAAAGGAATATTCGATCGTTTTAGACAAACGGAAATGC
A
Found at i:114450894 original size:238 final size:238
Alignment explanation
Indices: 114450476--114450928 Score: 870
Period size: 238 Copynumber: 1.9 Consensus size: 238
114450466 TTGGATTTTG
*
114450476 TAAAACCACGTTTCAAAACTCAAGTGGAAAACGATGATATGGGATAATTGACATATATGAGGTGC
1 TAAAACCACGTTTCAAAACTCAAGTGGAAAACGATGACATGGGATAATTGACATATATGAGGTGC
*
114450541 GATCAACTAACGAACTAATAATTAAATATAGATAACCTAAAAATGTAATCCGATTACAATAATGC
66 GATCAACTAACAAACTAATAATTAAATATAGATAACCTAAAAATGTAATCCGATTACAATAATGC
114450606 ATAGAGAATAATTAACATGACAACATAGGACAATGAACAAATAATATGCTACAACAACATGCATG
131 ATAGAGAATAATTAACATGACAACATAGGACAATGAACAAATAATATGCTACAACAACATGCATG
114450671 ACATAACATAAAATGACTACAACATGGAATAATTAACATAACA
196 ACATAACATAAAATGACTACAACATGGAATAATTAACATAACA
114450714 TAAAACCACGTTTCAAAACTCAAGTGGAAAACGATGACATGGGATAATTGACATATATGAGGTGC
1 TAAAACCACGTTTCAAAACTCAAGTGGAAAACGATGACATGGGATAATTGACATATATGAGGTGC
*
114450779 GATCAACTAACAAACTAATAATTAAATATAGCTAACCTAAAAATGTAATCCGATTACAATAATGC
66 GATCAACTAACAAACTAATAATTAAATATAGATAACCTAAAAATGTAATCCGATTACAATAATGC
*
114450844 ATGGAGAATAATTAACATGACAACATAGGACAATGAACAAATAATATGCTACAACAACATGCATG
131 ATAGAGAATAATTAACATGACAACATAGGACAATGAACAAATAATATGCTACAACAACATGCATG
114450909 ACATAACATAAAATGACTAC
196 ACATAACATAAAATGACTAC
114450929 TACTAGATGC
Statistics
Matches: 211, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
238 211 1.00
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.23
Consensus pattern (238 bp):
TAAAACCACGTTTCAAAACTCAAGTGGAAAACGATGACATGGGATAATTGACATATATGAGGTGC
GATCAACTAACAAACTAATAATTAAATATAGATAACCTAAAAATGTAATCCGATTACAATAATGC
ATAGAGAATAATTAACATGACAACATAGGACAATGAACAAATAATATGCTACAACAACATGCATG
ACATAACATAAAATGACTACAACATGGAATAATTAACATAACA
Found at i:114452913 original size:20 final size:20
Alignment explanation
Indices: 114452875--114452913 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
114452865 TCTGCTCGGG
*
114452875 TACGGGGCCGTGTGCTGGCA
1 TACGGGGCCGTGGGCTGGCA
114452895 TACGGGG-CGTGGGCGTGGC
1 TACGGGGCCGTGGGC-TGGC
114452914 GCCAGGAGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.08, C:0.23, G:0.51, T:0.18
Consensus pattern (20 bp):
TACGGGGCCGTGGGCTGGCA
Found at i:114471473 original size:31 final size:30
Alignment explanation
Indices: 114471437--114471500 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 30
114471427 ATTTGAATAA
*
114471437 AAATATTATATCTGAACAATTAACTTAGGAT
1 AAATATTATATCTGAAAAATTAACTTAGG-T
* *
114471468 AAATATTATATTTGAAAAATTAGCTTAGGT
1 AAATATTATATCTGAAAAATTAACTTAGGT
114471498 AAA
1 AAA
114471501 AAATGTCTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 4 0.13
31 26 0.87
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (30 bp):
AAATATTATATCTGAAAAATTAACTTAGGT
Found at i:114478224 original size:100 final size:100
Alignment explanation
Indices: 114478051--114478250 Score: 382
Period size: 100 Copynumber: 2.0 Consensus size: 100
114478041 CTTCTTTTAT
114478051 TTTATTTTAGAATAAGGTTTTTTAAACCTTATTAAACTCCATCTATTTTATATTGATTAGGATAA
1 TTTATTTTAGAATAAGGTTTTTTAAACCTTATTAAACTCCATCTATTTTATATTGATTAGGATAA
*
114478116 GGTGTTTCAATCTTACTAAAATATGGCTTTACAAG
66 GGTGTTTCAATCCTACTAAAATATGGCTTTACAAG
114478151 TTTATTTTAGAATAAGGTTTTTTAAACCTTATTAAACTCCATCTATTTTATATTGATTAGGATAA
1 TTTATTTTAGAATAAGGTTTTTTAAACCTTATTAAACTCCATCTATTTTATATTGATTAGGATAA
*
114478216 GGTGTTTCAATCCTACTAGAATATGGCTTTACAAG
66 GGTGTTTCAATCCTACTAAAATATGGCTTTACAAG
114478251 CCTATAAATA
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 98 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (100 bp):
TTTATTTTAGAATAAGGTTTTTTAAACCTTATTAAACTCCATCTATTTTATATTGATTAGGATAA
GGTGTTTCAATCCTACTAAAATATGGCTTTACAAG
Found at i:114480376 original size:33 final size:33
Alignment explanation
Indices: 114480334--114480400 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
114480324 ATTTTTATCT
114480334 TAAGTATGAAATTGATCTATTCCATTAATGTAC
1 TAAGTATGAAATTGATCTATTCCATTAATGTAC
114480367 TAAGTATGAAATTGATCTATTCCATTAATGTAC
1 TAAGTATGAAATTGATCTATTCCATTAATGTAC
114480400 T
1 T
114480401 TAGAGTGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (33 bp):
TAAGTATGAAATTGATCTATTCCATTAATGTAC
Found at i:114480696 original size:17 final size:17
Alignment explanation
Indices: 114480676--114480709 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
114480666 AAATAGATTT
114480676 TTAATTAAAAATTTTAA
1 TTAATTAAAAATTTTAA
*
114480693 TTAATTAAAATTTTTAA
1 TTAATTAAAAATTTTAA
114480710 ACCTAAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAATTAAAAATTTTAA
Found at i:114481561 original size:29 final size:30
Alignment explanation
Indices: 114481494--114481570 Score: 68
Period size: 29 Copynumber: 2.5 Consensus size: 30
114481484 GTAACAAAAT
* **
114481494 AATAACATAAGTGACTAAAATGTAATATTTC
1 AATAA-ATAAGTGACTAAAATGTAATACTGA
* *
114481525 AA-ACATAAGTGACTAAAATGTAA-CCTGA
1 AATAAATAAGTGACTAAAATGTAATACTGA
114481553 AATAAATAAAAGTGACTA
1 AATAAAT--AAGTGACTA
114481571 TTTTTGTAGT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
28 3 0.08
29 22 0.59
30 1 0.03
31 11 0.30
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.26
Consensus pattern (30 bp):
AATAAATAAGTGACTAAAATGTAATACTGA
Found at i:114484807 original size:20 final size:20
Alignment explanation
Indices: 114484779--114484817 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
114484769 CAGGTTAATA
114484779 TTCCATATGATCATATATTC
1 TTCCATATGATCATATATTC
* * *
114484799 TTCCGTATGTTCATGTATT
1 TTCCATATGATCATATATT
114484818 GGACGCACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.18, G:0.10, T:0.49
Consensus pattern (20 bp):
TTCCATATGATCATATATTC
Found at i:114502326 original size:15 final size:14
Alignment explanation
Indices: 114502303--114502359 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 14
114502293 TAAATATATT
114502303 TATAA-AAAAGTTAA
1 TATAATAAAAGTT-A
114502317 TATAATAAAAGTTGA
1 TATAATAAAAGTT-A
*
114502332 GATAATAAATA-TTA
1 TATAATAAA-AGTTA
114502346 TGATAATAAAAGTT
1 T-ATAATAAAAGTT
114502360 CAAATCTCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
14 7 0.19
15 28 0.78
16 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (14 bp):
TATAATAAAAGTTA
Found at i:114507441 original size:54 final size:54
Alignment explanation
Indices: 114507379--114507493 Score: 212
Period size: 54 Copynumber: 2.1 Consensus size: 54
114507369 AGAAAAAATC
*
114507379 TCATATTCCACATGTCAAAAAGAACCATCAGTCTAAATTTTTTCTCAATCAAGT
1 TCATATTCCACATGTCAAAAAGAACCATCAGCCTAAATTTTTTCTCAATCAAGT
114507433 TCATATTCCACATGTCAAAAAGAACCATCAGCCTAAATTTTTTCTCAATCAAGT
1 TCATATTCCACATGTCAAAAAGAACCATCAGCCTAAATTTTTTCTCAATCAAGT
*
114507487 ACATATT
1 TCATATT
114507494 GTTTATAGGA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (54 bp):
TCATATTCCACATGTCAAAAAGAACCATCAGCCTAAATTTTTTCTCAATCAAGT
Found at i:114510939 original size:10 final size:10
Alignment explanation
Indices: 114510926--114510951 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
114510916 TATAGTTTCA
114510926 TATATATATG
1 TATATATATG
114510936 TATATATATG
1 TATATATATG
114510946 TATATA
1 TATATA
114510952 CGGATAGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (10 bp):
TATATATATG
Found at i:114511892 original size:14 final size:16
Alignment explanation
Indices: 114511873--114511909 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
114511863 CTTTTTATGT
*
114511873 ATTTTTTAT-TTTA-A
1 ATTTTTTATAATTATA
114511887 ATTTTTTATAATTATA
1 ATTTTTTATAATTATA
114511903 ATTTTTT
1 ATTTTTT
114511910 GAATTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 9 0.45
15 3 0.15
16 8 0.40
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTTTTATAATTATA
Found at i:114512089 original size:12 final size:12
Alignment explanation
Indices: 114512072--114512097 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
114512062 CAATATTTTT
114512072 AACTAGTCATCA
1 AACTAGTCATCA
114512084 AACTAGTCATCA
1 AACTAGTCATCA
114512096 AA
1 AA
114512098 GCATTTTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (12 bp):
AACTAGTCATCA
Found at i:114512231 original size:13 final size:13
Alignment explanation
Indices: 114512213--114512240 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
114512203 CCACTAGCTC
114512213 TAGTTTACCCAAT
1 TAGTTTACCCAAT
114512226 TAGTTTACCCAAT
1 TAGTTTACCCAAT
114512239 TA
1 TA
114512241 ATATCATTAA
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:0.32, C:0.21, G:0.07, T:0.39
Consensus pattern (13 bp):
TAGTTTACCCAAT
Found at i:114514291 original size:28 final size:28
Alignment explanation
Indices: 114514251--114514307 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
114514241 TTCAAAGGTT
114514251 AGTTTAGCAGAATTGATGAATGCTTTAC
1 AGTTTAGCAGAATTGATGAATGCTTTAC
114514279 AGTTTAGCAGAATTGATGAATGCTTTAC
1 AGTTTAGCAGAATTGATGAATGCTTTAC
114514307 A
1 A
114514308 TGCACAAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.35
Consensus pattern (28 bp):
AGTTTAGCAGAATTGATGAATGCTTTAC
Found at i:114520457 original size:9 final size:9
Alignment explanation
Indices: 114520418--114520534 Score: 74
Period size: 9 Copynumber: 12.4 Consensus size: 9
114520408 AAAAATTAAA
114520418 TTTTAAATT
1 TTTTAAATT
114520427 TTTCTATATATT
1 TTT-TA-A-ATT
114520439 TTTTAGAATT
1 TTTTA-AATT
114520449 TTTTAAATT
1 TTTTAAATT
**
114520458 TTTTAAAAA
1 TTTTAAATT
**
114520467 AATTAAA-T
1 TTTTAAATT
*
114520475 TTTGAAATT
1 TTTTAAATT
114520484 TTTATAAATAT
1 TTT-TAAAT-T
*
114520495 TTTTGAATT
1 TTTTAAATT
**
114520504 TTAAAAATT
1 TTTTAAATT
* *
114520513 GTTTAAAAT
1 TTTTAAATT
*
114520522 TTTTGAATT
1 TTTTAAATT
114520531 TTTT
1 TTTT
114520535 TATTTTTTTG
Statistics
Matches: 81, Mismatches: 21, Indels: 12
0.71 0.18 0.11
Matches are distributed among these distances:
8 4 0.05
9 45 0.56
10 18 0.22
11 8 0.10
12 6 0.07
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (9 bp):
TTTTAAATT
Found at i:114520531 original size:27 final size:29
Alignment explanation
Indices: 114520479--114520532 Score: 85
Period size: 27 Copynumber: 1.9 Consensus size: 29
114520469 TTAAATTTTG
*
114520479 AAATTTTTATAAATATTTTTGAATTTTAA
1 AAATTGTTATAAATATTTTTGAATTTTAA
114520508 AAATTGTT-TAAA-ATTTTTGAATTTT
1 AAATTGTTATAAATATTTTTGAATTTT
114520533 TTTATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 13 0.54
28 4 0.17
29 7 0.29
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (29 bp):
AAATTGTTATAAATATTTTTGAATTTTAA
Found at i:114520532 original size:55 final size:56
Alignment explanation
Indices: 114520403--114520520 Score: 168
Period size: 56 Copynumber: 2.1 Consensus size: 56
114520393 AAAATTATTA
* * ** *
114520403 TTTAAAAAAATTAAATTTTAAATTTTTCTATATATTTTTTAGAATTTTTTAAATTT
1 TTTAAAAAAATTAAATTTTAAATTTTTATAAATATTTTTTAGAATTTTAAAAATTG
114520459 TTTAAAAAAATTAAATTTTGAAATTTTTATAAATA-TTTTT-GAATTTTAAAAATTG
1 TTTAAAAAAATTAAATTTT-AAATTTTTATAAATATTTTTTAGAATTTTAAAAATTG
114520514 TTTAAAA
1 TTTAAAA
114520521 TTTTTGAATT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
55 19 0.34
56 24 0.43
57 13 0.23
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (56 bp):
TTTAAAAAAATTAAATTTTAAATTTTTATAAATATTTTTTAGAATTTTAAAAATTG
Found at i:114520869 original size:29 final size:30
Alignment explanation
Indices: 114520836--114520895 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
114520826 GTATATTTAG
114520836 AATTTAATTGTTCTA-TTTT-GATTTTCAAA
1 AATTTAATTGTTCTACTTTTAGA-TTTCAAA
* *
114520865 AATTTAGTTTTTCTACTTTTAGATTTCAAA
1 AATTTAATTGTTCTACTTTTAGATTTCAAA
114520895 A
1 A
114520896 TTTTGATTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 13 0.48
30 12 0.44
31 2 0.07
ACGTcount: A:0.32, C:0.08, G:0.07, T:0.53
Consensus pattern (30 bp):
AATTTAATTGTTCTACTTTTAGATTTCAAA
Found at i:114522636 original size:18 final size:18
Alignment explanation
Indices: 114522605--114522643 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
114522595 TTTCTTCCTT
114522605 TTTTCTCTTTTTTTCTTCG
1 TTTTCTCTTTTTTTCTT-G
114522624 TTTTCTC-TTTTTTCTTG
1 TTTTCTCTTTTTTTCTTG
114522641 TTT
1 TTT
114522644 CAAACTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.20
18 9 0.45
19 7 0.35
ACGTcount: A:0.00, C:0.18, G:0.05, T:0.77
Consensus pattern (18 bp):
TTTTCTCTTTTTTTCTTG
Found at i:114542722 original size:3 final size:3
Alignment explanation
Indices: 114542714--114542765 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
114542704 TTCAAAAATG
114542714 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
114542762 CTT C
1 CTT C
114542766 ATGATAATTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:114544767 original size:40 final size:40
Alignment explanation
Indices: 114544723--114544927 Score: 272
Period size: 41 Copynumber: 5.0 Consensus size: 40
114544713 TTGTAAAACA
*
114544723 CAGAGCAATAGCGGCG-TTTTACTAAAAACGCCGCTAAAA-A
1 CAGAGCAATAGCGGCGCTTTTA-T-AAAACGCCGCTAAAAGT
*
114544763 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
1 CAGAGCAATAGCGGCGCTTTT-ATAAAACGCCGCTAAAAGT
* *
114544804 CGGAGCAATAGCGGCGCTTTTTGTAAAACGCCGCTAAAAGT
1 CAGAGCAATAGCGGCGC-TTTTATAAAACGCCGCTAAAAGT
* *
114544845 CGGAGCATTAGCGGCGCTTTTGATAAAACGCCGC-AAAAGT
1 CAGAGCAATAGCGGCGCTTTT-ATAAAACGCCGCTAAAAGT
*
114544885 CAGAGCATTAGCGGCGCTTTTGATAAAACGCCGCTAAAAGT
1 CAGAGCAATAGCGGCGCTTTT-ATAAAACGCCGCTAAAAGT
114544926 CA
1 CA
114544928 TATAACCCCT
Statistics
Matches: 153, Mismatches: 6, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
40 74 0.48
41 75 0.49
42 4 0.03
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.20
Consensus pattern (40 bp):
CAGAGCAATAGCGGCGCTTTTATAAAACGCCGCTAAAAGT
Found at i:114544790 original size:41 final size:41
Alignment explanation
Indices: 114544723--114544927 Score: 294
Period size: 40 Copynumber: 5.0 Consensus size: 41
114544713 TTGTAAAACA
*
114544723 CAGAGCAATAGCGGCG-TTTT-ACTAAAAACGCCGCTAAAA-A
1 CAGAGCAATAGCGGCGCTTTTGA-T-AAAACGCCGCTAAAAGT
*
114544763 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
1 CAGAGCAATAGCGGCGCTTTTGATAAAACGCCGCTAAAAGT
*
114544804 CGGAGCAATAGCGGCGCTTTTTG-TAAAACGCCGCTAAAAGT
1 CAGAGCAATAGCGGCGC-TTTTGATAAAACGCCGCTAAAAGT
* *
114544845 CGGAGCATTAGCGGCGCTTTTGATAAAACGCCGC-AAAAGT
1 CAGAGCAATAGCGGCGCTTTTGATAAAACGCCGCTAAAAGT
*
114544885 CAGAGCATTAGCGGCGCTTTTGATAAAACGCCGCTAAAAGT
1 CAGAGCAATAGCGGCGCTTTTGATAAAACGCCGCTAAAAGT
114544926 CA
1 CA
114544928 TATAACCCCT
Statistics
Matches: 154, Mismatches: 5, Indels: 11
0.91 0.03 0.06
Matches are distributed among these distances:
40 75 0.49
41 74 0.48
42 5 0.03
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.20
Consensus pattern (41 bp):
CAGAGCAATAGCGGCGCTTTTGATAAAACGCCGCTAAAAGT
Found at i:114544883 original size:81 final size:82
Alignment explanation
Indices: 114544723--114544927 Score: 292
Period size: 81 Copynumber: 2.5 Consensus size: 82
114544713 TTGTAAAACA
** * *
114544723 CAGAGCAATAGCGGCG-TTTTACTAAAAACGCCGCTAAAA-ACAGAGCAATAGCGGCGCTTTTGG
1 CAGAGCAATAGCGGCGCTTTTTGT-AAAACGCCGCTAAAAGTCAGAGCAATAGCGGCGCTTTTGA
114544786 TAAAACGCCGCTAAAAGT
65 TAAAACGCCGCTAAAAGT
* * *
114544804 CGGAGCAATAGCGGCGCTTTTTGTAAAACGCCGCTAAAAGTCGGAGCATTAGCGGCGCTTTTGAT
1 CAGAGCAATAGCGGCGCTTTTTGTAAAACGCCGCTAAAAGTCAGAGCAATAGCGGCGCTTTTGAT
114544869 AAAACGCCGC-AAAAGT
66 AAAACGCCGCTAAAAGT
*
114544885 CAGAGCATTAGCGGCGC-TTTTGATAAAACGCCGCTAAAAGTCA
1 CAGAGCAATAGCGGCGCTTTTTG-TAAAACGCCGCTAAAAGTCA
114544928 TATAACCCCT
Statistics
Matches: 111, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
80 5 0.05
81 70 0.63
82 36 0.32
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.20
Consensus pattern (82 bp):
CAGAGCAATAGCGGCGCTTTTTGTAAAACGCCGCTAAAAGTCAGAGCAATAGCGGCGCTTTTGAT
AAAACGCCGCTAAAAGT
Found at i:114545211 original size:15 final size:15
Alignment explanation
Indices: 114545172--114545222 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
114545162 CGGTTTAATA
*
114545172 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* * *
114545186 TCTATGATTTAGGGT
1 TTTATGGTTTAAGGT
114545201 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
114545216 TTAATGG
1 TTTATGG
114545223 CCATGGGTAT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
14 10 0.36
15 18 0.64
ACGTcount: A:0.24, C:0.02, G:0.27, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:114551137 original size:43 final size:43
Alignment explanation
Indices: 114551085--114551197 Score: 147
Period size: 43 Copynumber: 2.6 Consensus size: 43
114551075 GTCTGTTATA
114551085 TAGCGGCGTTTTTAAAAAAAGCGCCGCTAAAAATCATGACCTT
1 TAGCGGCGTTTTTAAAAAAAGCGCCGCTAAAAATCATGACCTT
* * *** *
114551128 TAGTGGCGTTTGTGGTAAAAGCGCCGCTAAAAGTCATGACCTT
1 TAGCGGCGTTTTTAAAAAAAGCGCCGCTAAAAATCATGACCTT
*
114551171 TAGCGGCGTTTTTCAAATAAA-CGCCGC
1 TAGCGGCGTTTTT-AAAAAAAGCGCCGC
114551198 AAACTTTAGC
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 54 0.95
44 3 0.05
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (43 bp):
TAGCGGCGTTTTTAAAAAAAGCGCCGCTAAAAATCATGACCTT
Found at i:114551948 original size:14 final size:15
Alignment explanation
Indices: 114551920--114551953 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
114551910 GATTTTGATC
*
114551920 ATTAATTTAATATTA
1 ATTAATTTAAGATTA
114551935 ATTAA-TTAAGATTA
1 ATTAATTTAAGATTA
114551949 ATTAA
1 ATTAA
114551954 ATTGATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
ATTAATTTAAGATTA
Found at i:114553959 original size:57 final size:57
Alignment explanation
Indices: 114553794--114553959 Score: 133
Period size: 57 Copynumber: 2.9 Consensus size: 57
114553784 CAATAACCTT
* * * * *
114553794 GTTATATAAAGGATTTAGCCTGGACGGGTAATCCCGATATA-ATACCTCTCGAGCATAC
1 GTTATTTAAAGGATTTAGCCTGGACTGGTAATCCTGATATACA-ACATGT-GAGCATAC
* * * * ** * *
114553852 GTTATGATT--AGGGTTTAGCCTGGATTGGTAACCCTAATCGAGC-TCTTGTGAGCATAC
1 GTTAT--TTAAAGGATTTAGCCTGGACTGGTAATCCTGATATA-CAACATGTGAGCATAC
*
114553909 GTTATTTAAAGGATTTAGCCTGGACTGGTAATCCTGTTATACAACATGTGA
1 GTTATTTAAAGGATTTAGCCTGGACTGGTAATCCTGATATACAACATGTGA
114553960 CTCGTGAGTG
Statistics
Matches: 80, Mismatches: 21, Indels: 15
0.69 0.18 0.13
Matches are distributed among these distances:
55 2 0.03
56 1 0.01
57 44 0.55
58 32 0.40
60 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (57 bp):
GTTATTTAAAGGATTTAGCCTGGACTGGTAATCCTGATATACAACATGTGAGCATAC
Found at i:114556825 original size:21 final size:21
Alignment explanation
Indices: 114556800--114556839 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
114556790 AGACAATTTA
114556800 GCTTTAATCTCGAGACAGGTG
1 GCTTTAATCTCGAGACAGGTG
**
114556821 GCTTTTGTCTCGAGACAGG
1 GCTTTAATCTCGAGACAGG
114556840 GGCACATCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (21 bp):
GCTTTAATCTCGAGACAGGTG
Found at i:114565806 original size:43 final size:43
Alignment explanation
Indices: 114565743--114565972 Score: 343
Period size: 43 Copynumber: 5.3 Consensus size: 43
114565733 TTTGATGTAA
* *
114565743 TGGCACTAAGTGTGCGATATAATTATAGCTTAGGCTAATTAAT
1 TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAAT
* * *
114565786 TAGCACTAAGTGTGCGATATAATTATAGCTTTGGCTAATTAAT
1 TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAAT
*
114565829 TGGCACTAAGTGTGCAATACAATTATAGCTTCGGCTAATTAAT
1 TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAAT
* *
114565872 TGGCACTAAGTGTGCGATACAATTATAGCTTCGGTTAATTGAT
1 TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAAT
* * * *
114565915 TGGCACTAAGTGTGCGAAACCATTATAACTTCGGTTAATTAAT
1 TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAAT
*
114565958 TAGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
114565973 AAGTTTGTTG
Statistics
Matches: 173, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 173 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (43 bp):
TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAAT
Found at i:114566204 original size:45 final size:45
Alignment explanation
Indices: 114566140--114566253 Score: 148
Period size: 45 Copynumber: 2.6 Consensus size: 45
114566130 GAGGAAATAT
*
114566140 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATG-TCGGTGAGAT-A
1 TATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCT-GGTGAAATGA
114566184 CTATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCTGGTGAAATGA
1 -TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCTGGTGAAATGA
*
114566230 TA-TCGGGC-CTCGAGCCTAGCAGGC
1 TATTCGGGCTTTCGAGCCTAGCAGGC
114566254 GAAATACCAG
Statistics
Matches: 64, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
43 15 0.23
44 10 0.16
45 37 0.58
46 2 0.03
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (45 bp):
TATTCGGGCTTTCGAGCCTAGCAGGCTATAATGCTGGTGAAATGA
Found at i:114567325 original size:7 final size:7
Alignment explanation
Indices: 114567309--114567365 Score: 50
Period size: 7 Copynumber: 8.7 Consensus size: 7
114567299 ATTTTTATTT
114567309 TTAAAT-
1 TTAAATA
114567315 TTAAATA
1 TTAAATA
114567322 TT-AATA
1 TTAAATA
114567328 TT-AATA
1 TTAAATA
*
114567334 TAAAAT-
1 TTAAATA
*
114567340 TTAAATT
1 TTAAATA
*
114567347 TTAAATT
1 TTAAATA
*
114567354 TTAAATT
1 TTAAATA
114567361 TTAAA
1 TTAAA
114567366 CAAATATAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
6 22 0.48
7 24 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (7 bp):
TTAAATA
Found at i:114567356 original size:14 final size:14
Alignment explanation
Indices: 114567307--114567365 Score: 57
Period size: 14 Copynumber: 4.0 Consensus size: 14
114567297 ATATTTTTAT
114567307 TTTTAAA-TTTAAA
1 TTTTAAATTTTAAA
*
114567320 TATTAATATTAATATAAA
1 TTTTAA-ATT--T-TAAA
*
114567338 ATTTAAATTTTAAA
1 TTTTAAATTTTAAA
114567352 TTTTAAATTTTAAA
1 TTTTAAATTTTAAA
114567366 CAAATATAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
13 5 0.14
14 18 0.49
15 2 0.05
17 4 0.11
18 8 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TTTTAAATTTTAAA
Found at i:114567499 original size:15 final size:16
Alignment explanation
Indices: 114567481--114567529 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
114567471 TAGGGTTTTT
114567481 AAATAAATAA-TACAA
1 AAATAAATAATTACAA
*
114567496 AAAT-AATAATTACTA
1 AAATAAATAATTACAA
114567511 AAATAAGATACATTACAA
1 AAATAA-ATA-ATTACAA
114567529 A
1 A
114567530 TTATTTACGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 5 0.18
15 12 0.43
16 1 0.04
17 3 0.11
18 7 0.25
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.24
Consensus pattern (16 bp):
AAATAAATAATTACAA
Found at i:114576422 original size:14 final size:14
Alignment explanation
Indices: 114576394--114576427 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
114576384 AAAAAATAAC
114576394 ATATATTTATTAAA
1 ATATATTTATTAAA
114576408 ATAT-TTTATTAAAA
1 ATATATTTATT-AAA
114576422 ATATAT
1 ATATAT
114576428 GAAAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 6 0.33
14 11 0.61
15 1 0.06
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATATATTTATTAAA
Found at i:114577108 original size:17 final size:17
Alignment explanation
Indices: 114577088--114577134 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
114577078 TCGAACTTAA
*
114577088 TTAATATTTTAAATAAT
1 TTAATATTTTAAATAAC
*
114577105 TTAATTTTTTATAA-AAC
1 TTAATATTTTA-AATAAC
114577122 TT-ATATTTTAAAT
1 TTAATATTTTAAAT
114577135 GTACAACCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 2 0.08
16 7 0.28
17 14 0.56
18 2 0.08
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (17 bp):
TTAATATTTTAAATAAC
Found at i:114577486 original size:12 final size:12
Alignment explanation
Indices: 114577465--114577494 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
114577455 CCAAACTACA
114577465 AAAAAAAAAAAC
1 AAAAAAAAAAAC
*
114577477 AAAAACAAAAAC
1 AAAAAAAAAAAC
114577489 AAAAAA
1 AAAAAA
114577495 TCTGAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:114579861 original size:14 final size:14
Alignment explanation
Indices: 114579842--114579870 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
114579832 TGATGGCTCA
114579842 ATCATAATGTAAAT
1 ATCATAATGTAAAT
114579856 ATCATAATGTAAAT
1 ATCATAATGTAAAT
114579870 A
1 A
114579871 GTAGTTACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (14 bp):
ATCATAATGTAAAT
Found at i:114580504 original size:31 final size:32
Alignment explanation
Indices: 114580452--114580518 Score: 100
Period size: 31 Copynumber: 2.1 Consensus size: 32
114580442 TTTGAGGTGC
* * *
114580452 ATTTTTATTTTTATCATGTTTTAATTGTTTTT
1 ATTTTTATTGTTATCACGTTTTAATTATTTTT
114580484 ATTTTTA-TGTTATCACGTTTTAATTATTTTT
1 ATTTTTATTGTTATCACGTTTTAATTATTTTT
114580515 ATTT
1 ATTT
114580519 ATTCTATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 25 0.78
32 7 0.22
ACGTcount: A:0.21, C:0.04, G:0.06, T:0.69
Consensus pattern (32 bp):
ATTTTTATTGTTATCACGTTTTAATTATTTTT
Found at i:114604021 original size:2 final size:2
Alignment explanation
Indices: 114604010--114604040 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
114604000 CCATACAACT
114604010 GA GA -A GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
114604041 ACTCAAATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:114614153 original size:23 final size:23
Alignment explanation
Indices: 114614127--114614201 Score: 132
Period size: 23 Copynumber: 3.3 Consensus size: 23
114614117 ATAAGTGCAA
*
114614127 CACTGATATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
114614150 CACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
*
114614173 CACTGAAACGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
114614196 CACTGA
1 CACTGA
114614202 TCAATAACAC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.33, C:0.28, G:0.21, T:0.17
Consensus pattern (23 bp):
CACTGAAATGTAGCCGAAGCTAC
Done.