Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003393.1 Hibiscus syriacus cultivar Beakdansim tig00007139_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 134960
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:1874 original size:12 final size:12
Alignment explanation
Indices: 1857--1886 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
1847 GAACATCAGT
1857 TTCATCTCAAGC
1 TTCATCTCAAGC
1869 TTCATCTCAAGC
1 TTCATCTCAAGC
1881 TTCATC
1 TTCATC
1887 ACTGCTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.33, G:0.07, T:0.37
Consensus pattern (12 bp):
TTCATCTCAAGC
Found at i:7832 original size:19 final size:21
Alignment explanation
Indices: 7788--7843 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
7778 TAATTATTAA
* *
7788 AATATTTAAAATATATTTATT
1 AATATTTATAATATATGTATT
7809 AATATTTATAATATA-GTATT
1 AATATTTATAATATATGTATT
*
7829 -ATATTTTTAATATAT
1 AATATTTATAATATAT
7844 AATAAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 13 0.42
20 4 0.13
21 14 0.45
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
AATATTTATAATATATGTATT
Found at i:7980 original size:34 final size:31
Alignment explanation
Indices: 7942--8021 Score: 83
Period size: 30 Copynumber: 2.5 Consensus size: 31
7932 AATTCATAGA
7942 AATAATACTATTAAATTATTAATTATTAATAAT-T
1 AATAATACTATT-AA-TATTAA-TA-TAATAATCT
* *
7976 AATAATATTATTTATATTAATATAATAATCT
1 AATAATACTATTAATATTAATATAATAATCT
*
8007 AATAATA-TTTTAATA
1 AATAATACTATTAATA
8022 AAGATATTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 13 0.32
31 10 0.24
32 6 0.15
33 1 0.02
34 11 0.27
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (31 bp):
AATAATACTATTAATATTAATATAATAATCT
Found at i:7985 original size:23 final size:23
Alignment explanation
Indices: 7958--8004 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
7948 ACTATTAAAT
7958 TATTAATTATTAATAAT-TAATAA
1 TATTAATTA-TAATAATATAATAA
* *
7981 TATTATTTATATTAATATAATAA
1 TATTAATTATAATAATATAATAA
8004 T
1 T
8005 CTAATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TATTAATTATAATAATATAATAA
Found at i:7985 original size:31 final size:31
Alignment explanation
Indices: 7944--8015 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 31
7934 TTCATAGAAA
*
7944 TAATACTATTAAAT-TATTAATTATTAATAAT-
1 TAATAATATTAAATATATTAA-TA-TAATAATC
**
7975 TAATAATATTATTTATATTAATATAATAATC
1 TAATAATATTAAATATATTAATATAATAATC
8006 TAATAATATT
1 TAATAATATT
8016 TTAATAAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 7 0.19
31 23 0.64
32 6 0.17
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (31 bp):
TAATAATATTAAATATATTAATATAATAATC
Found at i:8405 original size:14 final size:14
Alignment explanation
Indices: 8386--8444 Score: 64
Period size: 14 Copynumber: 4.1 Consensus size: 14
8376 CAAAAAATAT
*
8386 AATTCATTTTCCAG
1 AATTCAATTTCCAG
* *
8400 AATTCAAATTCCATT
1 AATTCAATTTCCA-G
* *
8415 AATTTATTTTCCAG
1 AATTCAATTTCCAG
8429 AATTCAATTTCCAG
1 AATTCAATTTCCAG
8443 AA
1 AA
8445 AATCAATTAC
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
14 25 0.71
15 10 0.29
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.41
Consensus pattern (14 bp):
AATTCAATTTCCAG
Found at i:8412 original size:35 final size:35
Alignment explanation
Indices: 8337--8447 Score: 99
Period size: 35 Copynumber: 3.3 Consensus size: 35
8327 TCCAGATGTT
* * * ** *
8337 TTTCAAAAAAATATAATTCATTTTACGGAAAACAT
1 TTTCCAAAAAATATAATTCATTTTCCAGAATTCAA
8372 TTTCCAAAAAATATAATTCATTTTCCAGAATTCAA
1 TTTCCAAAAAATATAATTCATTTTCCAGAATTCAA
* *
8407 ATTCC-----AT-TAATTTATTTTCCAGAATTCAA
1 TTTCCAAAAAATATAATTCATTTTCCAGAATTCAA
*
8436 TTTCCAGAAAAT
1 TTTCCAAAAAAT
8448 CAATTACAGC
Statistics
Matches: 62, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
29 25 0.40
30 2 0.03
34 2 0.03
35 33 0.53
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (35 bp):
TTTCCAAAAAATATAATTCATTTTCCAGAATTCAA
Found at i:8418 original size:29 final size:29
Alignment explanation
Indices: 8385--8441 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
8375 CCAAAAAATA
8385 TAATTCATTTTCCAGAATTCAAATTCCAT
1 TAATTCATTTTCCAGAATTCAAATTCCAT
* *
8414 TAATTTATTTTCCAGAATTCAATTTCCA
1 TAATTCATTTTCCAGAATTCAAATTCCA
8442 GAAAATCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.33, C:0.19, G:0.04, T:0.44
Consensus pattern (29 bp):
TAATTCATTTTCCAGAATTCAAATTCCAT
Found at i:8514 original size:32 final size:32
Alignment explanation
Indices: 8473--8533 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
8463 AAACAGACCC
** *
8473 TTAATATCATATTTAAAGTATGTTGTATAGTT
1 TTAATATCATAACTAAAGTATATTGTATAGTT
*
8505 TTAATATCATAACTAGAGTATATTGTATA
1 TTAATATCATAACTAAAGTATATTGTATA
8534 ATTAGAGTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.46
Consensus pattern (32 bp):
TTAATATCATAACTAAAGTATATTGTATAGTT
Found at i:9132 original size:24 final size:22
Alignment explanation
Indices: 9094--9144 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
9084 AGCTCATAAA
9094 TTTTAGATATATTCTTCGCTATTT
1 TTTTAGATATATTC-TC-CTATTT
* * *
9118 TTTTAGATTTTTTCTCTTATTT
1 TTTTAGATATATTCTCCTATTT
9140 TTTTA
1 TTTTA
9145 AAATAGGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 10 0.42
23 2 0.08
24 12 0.50
ACGTcount: A:0.18, C:0.10, G:0.06, T:0.67
Consensus pattern (22 bp):
TTTTAGATATATTCTCCTATTT
Found at i:10550 original size:28 final size:29
Alignment explanation
Indices: 10517--10575 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
10507 TAAAAAGTTA
* *
10517 ACTTA-TGTTATAATTGATAAATAAAGTG
1 ACTTATTGTTACAATCGATAAATAAAGTG
*
10545 ACTTATTTGTTACAATCGCTAAATAAAGTG
1 ACTTA-TTGTTACAATCGATAAATAAAGTG
10575 A
1 A
10576 ACCGTTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 5 0.19
30 21 0.81
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (29 bp):
ACTTATTGTTACAATCGATAAATAAAGTG
Found at i:13427 original size:86 final size:86
Alignment explanation
Indices: 13288--13454 Score: 298
Period size: 86 Copynumber: 1.9 Consensus size: 86
13278 TGAACTGTGT
*
13288 GAACCAGCATTTGTACTCATCAAATTTGAAACAATTGGGATGCTTATATACTATACAAGTGGACT
1 GAACCAGCATTTGTACTCATCAAATTTGAAACAATTGGGATGCTTATACACTATACAAGTGGACT
13353 TCATAACTGTATGAACTCTAC
66 TCATAACTGTATGAACTCTAC
* *
13374 GAACCAGCATTTGTACTCATCAAATTTGAAACAATTGGGATGTTTCTACACTATACAAGTGGACT
1 GAACCAGCATTTGTACTCATCAAATTTGAAACAATTGGGATGCTTATACACTATACAAGTGGACT
*
13439 TTATAACTGTATGAAC
66 TCATAACTGTATGAAC
13455 CAGCATTTGT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 77 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (86 bp):
GAACCAGCATTTGTACTCATCAAATTTGAAACAATTGGGATGCTTATACACTATACAAGTGGACT
TCATAACTGTATGAACTCTAC
Found at i:14707 original size:13 final size:12
Alignment explanation
Indices: 14685--14725 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
14675 ATATTTTAAA
14685 ATAATATATATT
1 ATAATATATATT
14697 ATAATAATATATT
1 ATAAT-ATATATT
*
14710 ATAATTATTTATT
1 ATAA-TATATATT
14723 ATA
1 ATA
14726 TTTTAAACAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 5 0.19
13 20 0.77
14 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
ATAATATATATT
Found at i:24220 original size:14 final size:14
Alignment explanation
Indices: 24201--24246 Score: 65
Period size: 14 Copynumber: 3.1 Consensus size: 14
24191 GCCATCTGTT
24201 CGAACATAAATGAA
1 CGAACATAAATGAA
*
24215 CGAACATAAACGAA
1 CGAACATAAATGAA
24229 CGAACATATAATCGAA
1 CGAACATA-AAT-GAA
24245 CG
1 CG
24247 TTCAAGAACG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 21 0.75
15 2 0.07
16 5 0.18
ACGTcount: A:0.52, C:0.20, G:0.15, T:0.13
Consensus pattern (14 bp):
CGAACATAAATGAA
Found at i:26689 original size:19 final size:20
Alignment explanation
Indices: 26665--26705 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
26655 AAAGAACAAC
26665 AAACCAT-AAACATTAAATT
1 AAACCATAAAACATTAAATT
*
26684 AAACCATAAAACATTACATT
1 AAACCATAAAACATTAAATT
26704 AA
1 AA
26706 GAAGATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.59, C:0.17, G:0.00, T:0.24
Consensus pattern (20 bp):
AAACCATAAAACATTAAATT
Found at i:26726 original size:37 final size:36
Alignment explanation
Indices: 26684--26778 Score: 113
Period size: 37 Copynumber: 2.6 Consensus size: 36
26674 ACATTAAATT
* *
26684 AAACCATAAAACATTACATTAAGAAGATAAAAACAAT
1 AAACCATAATACATTACATTAAGAAGAT-AAAACAAA
* *
26721 GAACCATGAATA-TTTACATTAAGAAGATAAAACAAA
1 AAACCAT-AATACATTACATTAAGAAGATAAAACAAA
*
26757 AAACC-TAATACATTACTTTAAG
1 AAACCATAATACATTACATTAAG
26779 GACATAAATA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
34 4 0.08
35 10 0.20
36 11 0.22
37 21 0.43
38 3 0.06
ACGTcount: A:0.56, C:0.14, G:0.07, T:0.23
Consensus pattern (36 bp):
AAACCATAATACATTACATTAAGAAGATAAAACAAA
Found at i:27866 original size:27 final size:27
Alignment explanation
Indices: 27825--27877 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
27815 AGGAAATGTG
27825 GAATTTCTTTCTGTCCAACTTGCATTA
1 GAATTTCTTTCTGTCCAACTTGCATTA
*
27852 GAATTTCTTTTTGTCCAACTTGCATT
1 GAATTTCTTTCTGTCCAACTTGCATT
27878 CCCATATTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (27 bp):
GAATTTCTTTCTGTCCAACTTGCATTA
Found at i:30747 original size:41 final size:41
Alignment explanation
Indices: 30702--30784 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
30692 TCGGGTTCAT
30702 TTGTTTCGAACCAGGGATGGCCACAGAAATAAATATTTTGG
1 TTGTTTCGAACCAGGGATGGCCACAGAAATAAATATTTTGG
30743 TTGTTTCGAACCAGGGATGGCCACAGAAATAAATATTTTGG
1 TTGTTTCGAACCAGGGATGGCCACAGAAATAAATATTTTGG
30784 T
1 T
30785 GCGAATTTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.30
Consensus pattern (41 bp):
TTGTTTCGAACCAGGGATGGCCACAGAAATAAATATTTTGG
Found at i:33145 original size:78 final size:78
Alignment explanation
Indices: 32039--33111 Score: 1626
Period size: 78 Copynumber: 13.8 Consensus size: 78
32029 CGAGTGGATT
* ** * * * * * * * *
32039 AGATCTTCTTCACAATAAACCTCTCAGTCCTCCTACATCTAATGAGTTCGCCGTGAAGAGACCAA
1 AGATCCTCTTCACAACGACCCTCGCAGCCCTCCTGCCTCTAATGAGTTCGTCGTGAAAAGACTAA
32104 CACCTGGAGGACC
66 CACCTGGAGGACC
* * * * * * *
32117 AGATCCTCTTCACAATGATCCTCGCAACCCTCTTCCCTCTAATGAGTTCGTGGTGAAGAGACTAA
1 AGATCCTCTTCACAACGACCCTCGCAGCCCTCCTGCCTCTAATGAGTTCGTCGTGAAAAGACTAA
* *
32182 CCCCTGGAGGTCC
66 CACCTGGAGGACC
** * * * *
32195 AGATCCTCTT-ACCAATAAACCTCTCAGTCCTCCTGCCTCTAATGAGTTCGTCGTGAAAAAACTA
1 AGATCCTCTTCA-CAACGACCCTCGCAGCCCTCCTGCCTCTAATGAGTTCGTCGTGAAAAGACTA
*
32259 ACACCTGGAGGTCC
65 ACACCTGGAGGACC
* * * * **
32273 ATATCCTCTTCACAATGATCCTCGCAGCCCTCCTGCCTCTAATGAGTTCGTCGTGAAGAGGTTAA
1 AGATCCTCTTCACAACGACCCTCGCAGCCCTCCTGCCTCTAATGAGTTCGTCGTGAAAAGACTAA
32338 CACCTGGAGGACC
66 CACCTGGAGGACC
* *
32351 ATATCCTCTTCACAACGACCCTCGCAACCCTCCTGCCTCTAATGAGTTCGTCGTGAAAAGACTAA
1 AGATCCTCTTCACAACGACCCTCGCAGCCCTCCTGCCTCTAATGAGTTCGTCGTGAAAAGACTAA
* *
32416 CACCTGGAAGTCC
66 CACCTGGAGGACC
32429 AGATCCTCTTCACAACGACCCTCGCAGCCCTCCTGCCTCTAATGAGTTCGTCGTGAAAAGACTAA
1 AGATCCTCTTCACAACGACCCTCGCAGCCCTCCTGCCTCTAATGAGTTCGTCGTGAAAAGACTAA
32494 CACCTGGAGGACC
66 CACCTGGAGGACC
32507 AGATCCTCTTCACAACGACCCTCGCAGCCCTCCTGCCTCTAATGAGTTCGTCGTGAAAAGACTAA
1 AGATCCTCTTCACAACGACCCTCGCAGCCCTCCTGCCTCTAATGAGTTCGTCGTGAAAAGACTAA
32572 CACCTGGAGGACC
66 CACCTGGAGGACC
** * * *
32585 AGATCCTCTTCACAACGACCCTCGCAATCCTCCTGCCTCTAATGAGTTCGACATGAAGAGACTAA
1 AGATCCTCTTCACAACGACCCTCGCAGCCCTCCTGCCTCTAATGAGTTCGTCGTGAAAAGACTAA
* *
32650 CACCTGGAGGTCT
66 CACCTGGAGGACC
32663 AGATCCTCTTCACAACGACCCTCGCAGCCCTCCTGCCTCTAATGAGTTCGTCGTGAAAAGACTAA
1 AGATCCTCTTCACAACGACCCTCGCAGCCCTCCTGCCTCTAATGAGTTCGTCGTGAAAAGACTAA
32728 CACCTGGAGGACC
66 CACCTGGAGGACC
32741 AGATCCTCTTCACAACGACCCTCGCAGCCCTCCTGCCTCTAATGAGTTCGTCGTGAAAAGACTAA
1 AGATCCTCTTCACAACGACCCTCGCAGCCCTCCTGCCTCTAATGAGTTCGTCGTGAAAAGACTAA
32806 CACCTGGAGGACC
66 CACCTGGAGGACC
* * * *
32819 AGATCCTCTTCACAACGACCCTCGCAGTCCTCCTGCCTCTAATGAGTTCGACATGAAGAGACTAA
1 AGATCCTCTTCACAACGACCCTCGCAGCCCTCCTGCCTCTAATGAGTTCGTCGTGAAAAGACTAA
*
32884 CACCTGGAGGTCC
66 CACCTGGAGGACC
*
32897 AGATCCTCTTCACAAAGACCCTCGCAGCCCTCCTGCCTCTAATGAGTTCGTCGTGAAAAGACTAA
1 AGATCCTCTTCACAACGACCCTCGCAGCCCTCCTGCCTCTAATGAGTTCGTCGTGAAAAGACTAA
32962 CACCTGGAGGACC
66 CACCTGGAGGACC
* *
32975 AGATCCTCTTCACAACGACCCTCGCAGCCCTCCTGCCTCTAATGATTTCGTCGTGAAAAGATTAA
1 AGATCCTCTTCACAACGACCCTCGCAGCCCTCCTGCCTCTAATGAGTTCGTCGTGAAAAGACTAA
33040 CACCTGGAGGACC
66 CACCTGGAGGACC
* * **
33053 AGATCCTCTTCACAACGACCCTCGCAGTCTTCCTATCTCTAATGAGTTCGTCGTGAAAA
1 AGATCCTCTTCACAACGACCCTCGCAGCCCTCCTGCCTCTAATGAGTTCGTCGTGAAAA
33112 TACTTCCTCT
Statistics
Matches: 913, Mismatches: 80, Indels: 4
0.92 0.08 0.00
Matches are distributed among these distances:
77 1 0.00
78 911 1.00
79 1 0.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (78 bp):
AGATCCTCTTCACAACGACCCTCGCAGCCCTCCTGCCTCTAATGAGTTCGTCGTGAAAAGACTAA
CACCTGGAGGACC
Found at i:39740 original size:16 final size:17
Alignment explanation
Indices: 39702--39743 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
39692 AAAACCGGGA
*
39702 AGAAAGCGTGGATGGTG
1 AGAAAGCGTGGATCGTG
* *
39719 ATAAAG-GTGGATCTTG
1 AGAAAGCGTGGATCGTG
39735 AGAAAGCGT
1 AGAAAGCGT
39744 ATAATCCCCT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.33, C:0.07, G:0.38, T:0.21
Consensus pattern (17 bp):
AGAAAGCGTGGATCGTG
Found at i:51211 original size:31 final size:31
Alignment explanation
Indices: 51174--51239 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
51164 TTTCATAGTT
* *
51174 CTATTAAAATCTGAATTTATTTATATAATGA
1 CTATTAAAATCTAAATTTAATTATATAATGA
51205 CTATTAAAATCTAAATTTAATTATATAATGA
1 CTATTAAAATCTAAATTTAATTATATAATGA
51236 CTAT
1 CTAT
51240 CGAAATGCGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.44
Consensus pattern (31 bp):
CTATTAAAATCTAAATTTAATTATATAATGA
Found at i:51525 original size:24 final size:24
Alignment explanation
Indices: 51497--51574 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
51487 AAATATATCA
51497 ATATTTTAAAATAATTAAAATAAT
1 ATATTTTAAAATAATTAAAATAAT
* **
51521 ATATTTTATAATAATATATTTATAAT
1 ATATTTTAAAATAAT-TA-AAATAAT
* * *
51547 ATA-TTT-ATATTATTAAATTAAT
1 ATATTTTAAAATAATTAAAATAAT
51569 ATATTT
1 ATATTT
51575 ATTATTATTT
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
22 7 0.17
23 4 0.10
24 18 0.43
25 5 0.12
26 8 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
ATATTTTAAAATAATTAAAATAAT
Found at i:51556 original size:32 final size:32
Alignment explanation
Indices: 51520--51611 Score: 100
Period size: 33 Copynumber: 2.9 Consensus size: 32
51510 ATTAAAATAA
51520 TATATTTTATAATAATATATTTATAATATA-TT
1 TATATTTTA-AATAATATATTTATAATATATTT
*
51552 TATATTATTAAATTAATATATTTATTAT-TATTT
1 TATATT-TTAAA-TAATATATTTATAATATATTT
* **
51585 TAAAAATTAAATAATATATTT-TAATAT
1 TATATTTTAAATAATATATTTATAATAT
51612 TATAAAAACA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
30 3 0.06
31 11 0.22
32 15 0.29
33 22 0.43
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (32 bp):
TATATTTTAAATAATATATTTATAATATATTT
Found at i:51560 original size:9 final size:11
Alignment explanation
Indices: 51531--51611 Score: 57
Period size: 11 Copynumber: 7.6 Consensus size: 11
51521 ATATTTTATA
51531 ATAATATATTT
1 ATAATATATTT
51542 ATAATATATTT
1 ATAATATATTT
*
51553 AT-AT-TATTAA
1 ATAATATATT-T
51563 ATTAATATATTT
1 A-TAATATATTT
*
51575 ATTAT-TATTT
1 ATAATATATTT
* *
51585 -TAA-AAATTAA
1 ATAATATATT-T
51595 ATAATATATTT
1 ATAATATATTT
51606 -TAATAT
1 ATAATAT
51612 TATAAAAACA
Statistics
Matches: 54, Mismatches: 8, Indels: 17
0.68 0.10 0.22
Matches are distributed among these distances:
9 9 0.17
10 14 0.26
11 20 0.37
12 7 0.13
13 4 0.07
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
ATAATATATTT
Found at i:51570 original size:33 final size:32
Alignment explanation
Indices: 51520--51611 Score: 102
Period size: 32 Copynumber: 2.9 Consensus size: 32
51510 ATTAAAATAA
51520 TATATT-TTATAATAATATATTTATAATATATT
1 TATATTATTA-AATAATATATTTATAATATATT
*
51552 TATATTATTAAATTAATATATTTATTAT-TATT
1 TATATTATTAAA-TAATATATTTATAATATATT
**
51584 T-TAAAAATTAAATAATATATTT-TAATAT
1 TAT-ATTATTAAATAATATATTTATAATAT
51612 TATAAAAACA
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
30 3 0.06
31 12 0.23
32 20 0.38
33 17 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (32 bp):
TATATTATTAAATAATATATTTATAATATATT
Found at i:51576 original size:17 final size:16
Alignment explanation
Indices: 51514--51578 Score: 57
Period size: 15 Copynumber: 4.1 Consensus size: 16
51504 AAAATAATTA
51514 AAATAATATA-TT-TT
1 AAATAATATATTTATT
51528 ATAATAATATATTTA-T
1 A-AATAATATATTTATT
*
51544 -AATATATTTATATTATT
1 AAATA-ATATAT-TTATT
51561 AAATTAATATATTTATT
1 AAA-TAATATATTTATT
51578 A
1 A
51579 TTATTTTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
14 5 0.12
15 14 0.34
16 6 0.15
17 7 0.17
18 7 0.17
19 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AAATAATATATTTATT
Found at i:51625 original size:31 final size:31
Alignment explanation
Indices: 51558--51626 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 31
51548 TATTTATATT
* *
51558 ATTAAATTAATATATTTATTATTATTTTAAAA
1 ATTAAATTAATATATTTAATATTA-TTAAAAA
51590 ATTAAA-TAATATATTTTAATATTA-TAAAAA
1 ATTAAATTAATATA-TTTAATATTATTAAAAA
51620 CATTAAA
1 -ATTAAA
51627 AATCTTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
30 5 0.15
31 13 0.39
32 15 0.45
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (31 bp):
ATTAAATTAATATATTTAATATTATTAAAAA
Found at i:53383 original size:21 final size:21
Alignment explanation
Indices: 53351--53398 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
53341 TTTGTTTGAG
* *
53351 TTTC-TTGGTTAGATTTAATC
1 TTTCATTGATTAGATTTAAAC
53371 TTTCATTGATTAGATTTAAAC
1 TTTCATTGATTAGATTTAAAC
53392 TTTCATT
1 TTTCATT
53399 CTTTGACCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.54
Consensus pattern (21 bp):
TTTCATTGATTAGATTTAAAC
Found at i:55095 original size:6 final size:6
Alignment explanation
Indices: 55084--55115 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
55074 GAAACGAGGA
55084 AGAAGC AGAAGC AGAAGC AGAAGC AGAAGC AG
1 AGAAGC AGAAGC AGAAGC AGAAGC AGAAGC AG
55116 CAGACATTCT
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:0.50, C:0.16, G:0.34, T:0.00
Consensus pattern (6 bp):
AGAAGC
Found at i:58597 original size:9 final size:9
Alignment explanation
Indices: 58585--58611 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
58575 CTTCATCCGA
58585 TTCAACTTC
1 TTCAACTTC
58594 TTCAACTTC
1 TTCAACTTC
58603 TTCAACTTC
1 TTCAACTTC
58612 GCTTCTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.44
Consensus pattern (9 bp):
TTCAACTTC
Found at i:60098 original size:15 final size:15
Alignment explanation
Indices: 60078--60108 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
60068 TTTTTATTAA
60078 AACATTTTAATCTTT
1 AACATTTTAATCTTT
*
60093 AACATTTTAATTTTT
1 AACATTTTAATCTTT
60108 A
1 A
60109 GATAAAAATA
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:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (15 bp):
AACATTTTAATCTTT
Found at i:64615 original size:16 final size:16
Alignment explanation
Indices: 64594--64626 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
64584 CCCTTTTCCC
64594 ATTACATATGGGAATA
1 ATTACATATGGGAATA
64610 ATTACATATGGGAATA
1 ATTACATATGGGAATA
64626 A
1 A
64627 GGGTCAGCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.30
Consensus pattern (16 bp):
ATTACATATGGGAATA
Found at i:68766 original size:29 final size:29
Alignment explanation
Indices: 68719--68830 Score: 179
Period size: 29 Copynumber: 3.8 Consensus size: 29
68709 CTCACCTAAC
* *
68719 TAAATTGATGTAAGTAATGACATCATTATT
1 TAAA-TGATGTAAGCAATGACATCATTACT
*
68749 TAAATGATGTAAGCAATGACATCTTTACT
1 TAAATGATGTAAGCAATGACATCATTACT
*
68778 TAAATGATGTAAGCAATGACATCTTTACT
1 TAAATGATGTAAGCAATGACATCATTACT
68807 TAAATGATGTAAGCAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
68831 ATTTAGTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
29 74 0.95
30 4 0.05
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTACT
Found at i:72216 original size:15 final size:15
Alignment explanation
Indices: 72196--72225 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
72186 CTTTCTCATA
72196 GTTATTGTTGGAATT
1 GTTATTGTTGGAATT
*
72211 GTTATTGTTGTAATT
1 GTTATTGTTGGAATT
72226 CCAGCCGACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (15 bp):
GTTATTGTTGGAATT
Found at i:73534 original size:29 final size:29
Alignment explanation
Indices: 73491--73573 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
73481 CTTACCTAAC
*
73491 TAAATTGATGTAAGCAATGACATCATTATT
1 TAAA-TGATGTAAGCAATGACATCATTACT
*
73521 TAAATGATGTAAGCAATGACATCTTTACT
1 TAAATGATGTAAGCAATGACATCATTACT
73550 TAAATGATGTAAGCAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
73574 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTACT
Found at i:76894 original size:29 final size:29
Alignment explanation
Indices: 76852--76952 Score: 105
Period size: 29 Copynumber: 3.4 Consensus size: 29
76842 GAAAAAATTG
*
76852 AATACTTTAGGTATTTATTTTGACTAAAA
1 AATATTTTAGGTATTTATTTTGACTAAAA
* *
76881 AATATTTTAAGTATTTATTTTGACCAAAA
1 AATATTTTAGGTATTTATTTTGACTAAAA
* * *
76910 AGATAATTTTAGGAATTTATCTTGA-TACAA
1 A-AT-ATTTTAGGTATTTATTTTGACTAAAA
* *
76940 AATACTGTAGGTA
1 AATATTTTAGGTA
76953 CTTAAATGAA
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
28 7 0.12
29 29 0.49
30 6 0.10
31 17 0.29
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.42
Consensus pattern (29 bp):
AATATTTTAGGTATTTATTTTGACTAAAA
Found at i:77888 original size:18 final size:16
Alignment explanation
Indices: 77854--77893 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
77844 TTGAAATTTA
*
77854 ATTTTTTTTATTAGTT
1 ATTTATTTTATTAGTT
77870 ATTTATTTTATTTATGTT
1 ATTTATTTTA-TTA-GTT
77888 ATTTAT
1 ATTTAT
77894 CTGAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.43
17 3 0.14
18 9 0.43
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (16 bp):
ATTTATTTTATTAGTT
Found at i:82492 original size:21 final size:21
Alignment explanation
Indices: 82468--82513 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
82458 GGTAAATGTG
*
82468 TCACAAAGGCAGAGAAACATA
1 TCACAAAGACAGAGAAACATA
* *
82489 TCACAAAGACAGATAAACATG
1 TCACAAAGACAGAGAAACATA
82510 TCAC
1 TCAC
82514 TAAACTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.50, C:0.22, G:0.15, T:0.13
Consensus pattern (21 bp):
TCACAAAGACAGAGAAACATA
Found at i:82625 original size:26 final size:26
Alignment explanation
Indices: 82596--82656 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
82586 AAATAAAGAT
82596 ACGAACAAATCTGACTATATCGGTAA
1 ACGAACAAATCTGACTATATCGGTAA
*
82622 ACGAATAAATCTGACTATATCGGTAA
1 ACGAACAAATCTGACTATATCGGTAA
82648 ACGAACAAA
1 ACGAACAAA
82657 GGGTCTAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.46, C:0.18, G:0.15, T:0.21
Consensus pattern (26 bp):
ACGAACAAATCTGACTATATCGGTAA
Found at i:82830 original size:23 final size:21
Alignment explanation
Indices: 82804--82874 Score: 74
Period size: 20 Copynumber: 3.3 Consensus size: 21
82794 AAAAAATACA
**
82804 ACAAAGACATAGATAAATGTGTC
1 ACAAAGACAT-GA-AAACATGTC
82827 ACAAAGAC-TGAAAACATGTC
1 ACAAAGACATGAAAACATGTC
*
82847 ACAAAGACA-GAGAAACATATC
1 ACAAAGACATGA-AAACATGTC
82868 ACAAAGA
1 ACAAAGA
82875 TATAATTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
20 17 0.40
21 17 0.40
22 1 0.02
23 8 0.19
ACGTcount: A:0.54, C:0.17, G:0.15, T:0.14
Consensus pattern (21 bp):
ACAAAGACATGAAAACATGTC
Found at i:82848 original size:20 final size:21
Alignment explanation
Indices: 82823--82874 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
82813 TAGATAAATG
*
82823 TGTCACAAAGACTGA-AAACA
1 TGTCACAAAGACAGAGAAACA
82843 TGTCACAAAGACAGAGAAACA
1 TGTCACAAAGACAGAGAAACA
*
82864 TATCACAAAGA
1 TGTCACAAAGA
82875 TATAATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.52, C:0.19, G:0.15, T:0.13
Consensus pattern (21 bp):
TGTCACAAAGACAGAGAAACA
Found at i:83175 original size:5 final size:5
Alignment explanation
Indices: 83165--83258 Score: 188
Period size: 5 Copynumber: 18.8 Consensus size: 5
83155 ATGGAATTAG
83165 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
83215 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
83259 TGGGGATCTG
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 89 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:84030 original size:2 final size:2
Alignment explanation
Indices: 84023--84065 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
84013 TACATATGAA
84023 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
84065 A
1 A
84066 GAACAAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:85237 original size:13 final size:13
Alignment explanation
Indices: 85219--85247 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
85209 CATGTTTACG
85219 AATCATAATAAGA
1 AATCATAATAAGA
85232 AATCATAATAAGA
1 AATCATAATAAGA
85245 AAT
1 AAT
85248 ATTTAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (13 bp):
AATCATAATAAGA
Found at i:86295 original size:24 final size:21
Alignment explanation
Indices: 86268--86332 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 21
86258 GGTTTTTTTT
86268 TAAAAATAATATAATAATAATGAA
1 TAAAAATAATATAA-AATAAT--A
*
86292 TAAAAA-AACA-AAAATAATA
1 TAAAAATAATATAAAATAATA
86311 -AAAAATAATAT-AAAT-ATA
1 TAAAAATAATATAAAATAATA
86329 TAAA
1 TAAA
86333 GTTATAAGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
18 8 0.22
19 11 0.31
21 6 0.17
22 2 0.06
23 3 0.08
24 6 0.17
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (21 bp):
TAAAAATAATATAAAATAATA
Found at i:86608 original size:18 final size:16
Alignment explanation
Indices: 86587--86629 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 16
86577 ATACATACAT
86587 ATAACAATAATAACATGA
1 ATAA-AATAATAA-ATGA
*
86605 ATAATAAAAATAAATGA
1 ATAA-AATAATAAATGA
86622 ATAAAATA
1 ATAAAATA
86630 TCCATATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 8 0.36
18 11 0.50
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (16 bp):
ATAAAATAATAAATGA
Found at i:87036 original size:37 final size:37
Alignment explanation
Indices: 86986--87090 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
86976 GTGCTTGTGG
* * * *
86986 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * * *
87023 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
87060 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
87091 GACGAAAATG
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:87936 original size:105 final size:105
Alignment explanation
Indices: 87633--88262 Score: 889
Period size: 105 Copynumber: 6.0 Consensus size: 105
87623 GCATTGTTCC
* ** *
87633 GAGTCCAATATCC-TCTGTCGTGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTGTTTGTTGAC
1 GAGTCCAATATCCTTC-GTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTTG-TTGTTGAC
* * * * *
87696 AACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
63 AAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
87739 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGA-A-T--GAAATT-TTGTTGACTAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
* * *
87799 CAGCGGTCCCTTCGTCTTGGAGTTGAACTTGCGTTGTTTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
87839 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
87904 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
87944 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
88009 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
88049 GAGTCCAATATCCTTCGTTGTG-ATTTAAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
88113 CAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
88153 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTATGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAA
* * * * * *
88218 CCAGCCGTCCCTTTGTTGTGAAGTTGAACTTGTGTTGTCTC
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
88259 GAGT
1 GAGT
88263 GTCACGATAT
Statistics
Matches: 479, Mismatches: 36, Indels: 18
0.90 0.07 0.03
Matches are distributed among these distances:
100 81 0.17
101 1 0.00
102 7 0.01
104 104 0.22
105 201 0.42
106 83 0.17
107 2 0.00
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:88214 original size:210 final size:211
Alignment explanation
Indices: 87633--88262 Score: 900
Period size: 209 Copynumber: 3.0 Consensus size: 211
87623 GCATTGTTCC
* * ** *
87633 GAGTCCAATATCC-TCTGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTC-GTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACA
* * * * * *
87697 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGA
64 AGCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGA
* * * *
87762 AGTTGAAATTGACTCTG-AA-TGA-AA--T-TTTGTTGACTAGCAGCGGTCCCTTCGTCTTGGAG
129 AGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAG
*
87821 TTGAACTTGCGTTGTTTG
194 TTGAACTTGCGTTGTCTG
*
87839 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
*
87904 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAG
66 CAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAG
* *
87969 TTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTT
131 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTT
88033 GAACTTGCGTTGTCTG
196 GAACTTGCGTTGTCTG
* * *
88049 GAGTCCAATATCCTTCGTTGTG-ATTTAAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
*
88113 CAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
66 CAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAG
* * * * *
88178 TTGAAATTGGCTATGAAATTGAGAAGTTGTTTGTTGACAACCAGCCGTCCCTTTGTTGTGAAGTT
131 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTT
* *
88243 GAACTTGTGTTGTCTC
196 GAACTTGCGTTGTCTG
88259 GAGT
1 GAGT
88263 GTCACGATAT
Statistics
Matches: 382, Mismatches: 34, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
205 84 0.22
206 46 0.12
207 4 0.01
208 2 0.01
209 127 0.33
210 119 0.31
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (211 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAG
CAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAG
TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTT
GAACTTGCGTTGTCTG
Found at i:88502 original size:36 final size:36
Alignment explanation
Indices: 88462--88537 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
88452 TGTTTGGAGA
* ** **
88462 GAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGG
1 GAAACTATCTCAACCGAGACAAAATTCATTTCAAGG
*
88498 GAAACTATCTCAACCGAGATAAAATTCATTTCAAGG
1 GAAACTATCTCAACCGAGACAAAATTCATTTCAAGG
88534 GAAA
1 GAAA
88538 TGTTTTCAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.24
Consensus pattern (36 bp):
GAAACTATCTCAACCGAGACAAAATTCATTTCAAGG
Found at i:88648 original size:104 final size:104
Alignment explanation
Indices: 88437--88754 Score: 450
Period size: 104 Copynumber: 3.1 Consensus size: 104
88427 TTCGTTAAAT
* ** *
88437 TGTTTTCAAAGTTTATGTTTGGAGAGAAACTGTCTCAAGGGAGACAAAA--TT-TGTTTCAAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
** * *
88499 AAACTATCTCAACCGAG--ATAAAATTCATTTCAAGGGAAA
66 AAACTATCTCAAGAGAGAAAAAAAAATCA--TCAAGGGAAA
*
88538 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
88603 AAACTATCTCAAGAGAGAAAAAAAAATCATCAAGGGAAA
66 AAACTATCTCAAGAGAGAAAAAAAAATCATCAAGGGAAA
88642 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* * * *
88707 AAACTATCTCAGGAGAGAAAAAATTAAT-TTTAAGGGAAA
66 AAACTATCTCAAGAGAGAAAAAA-AAATCATCAAGGGAAA
88746 TGTTTTCAA
1 TGTTTTCAA
88755 GAGAAACTGT
Statistics
Matches: 197, Mismatches: 14, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
101 45 0.23
103 2 0.01
104 139 0.71
105 3 0.02
106 8 0.04
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (104 bp):
TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
AAACTATCTCAAGAGAGAAAAAAAAATCATCAAGGGAAA
Found at i:88711 original size:39 final size:39
Alignment explanation
Indices: 88657--88731 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
88647 TCAATGTTTA
* *
88657 TGTTTCAAGAGAAACTGTCTCAAGG-GAGACAAAATTTTC
1 TGTTTCAAGAGAAACTATCTC-AGGAGAGAAAAAATTTTC
* *
88696 TGTTTCGAGGGAAACTATCTCAGGAGAGAAAAAATT
1 TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATT
88732 AATTTTAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 3 0.10
39 28 0.90
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (39 bp):
TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATTTTC
Found at i:93649 original size:21 final size:22
Alignment explanation
Indices: 93605--93655 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
93595 AAGGGAAAAA
*
93605 TAAAATAA-ATAAAATAAATAAG
1 TAAAATAAGA-AAAAAAAATAAG
*
93627 TAAGATAAGAAAAAAAAAT-AG
1 TAAAATAAGAAAAAAAAATAAG
93648 TAAAATAA
1 TAAAATAA
93656 TAATTATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 9 0.36
22 15 0.60
23 1 0.04
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.20
Consensus pattern (22 bp):
TAAAATAAGAAAAAAAAATAAG
Found at i:94247 original size:18 final size:17
Alignment explanation
Indices: 94224--94266 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
94214 ATATATACAT
94224 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
94242 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
94259 ATAA-AATA
1 ATAATAATA
94267 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:96319 original size:19 final size:20
Alignment explanation
Indices: 96282--96326 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
96272 TTTTTTTCCG
*
96282 ATTATTATAAGTTATAAAAT
1 ATTATTATAAGTAATAAAAT
96302 ATTATTATAA-TAATAAAAT
1 ATTATTATAAGTAATAAAAT
96321 ATTATT
1 ATTATT
96327 TTGTTGAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
ATTATTATAAGTAATAAAAT
Found at i:99516 original size:53 final size:53
Alignment explanation
Indices: 99458--99565 Score: 184
Period size: 53 Copynumber: 2.0 Consensus size: 53
99448 TAAAGGATGC
99458 TCAATTATTTAAAAAGATCGAGAAC-AAACC-CTTAATAAAAATTAGACGGATTG
1 TCAATTATTTAAAAAGATCGAG-ACTAAACCAC-TAATAAAAATTAGACGGATTG
99511 TCAATTATTTAAAAAGATCGAGACTAAACCACTAATAAAAATTAGACGGATTG
1 TCAATTATTTAAAAAGATCGAGACTAAACCACTAATAAAAATTAGACGGATTG
99564 TC
1 TC
99566 TTGACAAATT
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
52 2 0.04
53 50 0.94
54 1 0.02
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (53 bp):
TCAATTATTTAAAAAGATCGAGACTAAACCACTAATAAAAATTAGACGGATTG
Found at i:114495 original size:13 final size:14
Alignment explanation
Indices: 114469--114516 Score: 55
Period size: 13 Copynumber: 3.5 Consensus size: 14
114459 TTATTAATAT
114469 TTTTATATTAATTAA
1 TTTTATATT-ATTAA
114484 TTTTAT-TTATTAA
1 TTTTATATTATTAA
* *
114497 TATAATATTA-TAA
1 TTTTATATTATTAA
114510 TTTTATA
1 TTTTATA
114517 CCTCTGCACA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 17 0.61
14 5 0.18
15 6 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTATATTATTAA
Found at i:114507 original size:18 final size:18
Alignment explanation
Indices: 114461--114507 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
114451 AATTTATCTT
*
114461 ATTAATATTTTTATATTA
1 ATTAATATTATTATATTA
*
114479 ATTAATTTTATT-TATTA
1 ATTAATATTATTATATTA
114496 ATATAATATTAT
1 AT-TAATATTAT
114508 AATTTTATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 7 0.28
18 18 0.72
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTAATATTATTATATTA
Found at i:115812 original size:27 final size:28
Alignment explanation
Indices: 115773--115829 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
115763 GGGTTTTCGG
115773 TCCACCGACTCGA-CCCAAAAATTATACA
1 TCCACCGACTCGATCCCAAAAA-TATACA
* *
115801 TCCACC-ACTCGATTCGAAAAATATACA
1 TCCACCGACTCGATCCCAAAAATATACA
115828 TC
1 TC
115830 TTCTATCCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 14 0.54
28 12 0.46
ACGTcount: A:0.39, C:0.33, G:0.07, T:0.21
Consensus pattern (28 bp):
TCCACCGACTCGATCCCAAAAATATACA
Found at i:118794 original size:32 final size:32
Alignment explanation
Indices: 118734--118794 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
118724 ATGGGTTTTA
* *
118734 TGAATGGAGCGTCCTAGGGAATGTGCCTCCCT
1 TGAATGGAGCGTCCTAGGGAACGAGCCTCCCT
* *
118766 TGAATGGCGCGTCGTAGGGAACGAGCCTC
1 TGAATGGAGCGTCCTAGGGAACGAGCCTC
118795 TCATGCTTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.20, C:0.25, G:0.34, T:0.21
Consensus pattern (32 bp):
TGAATGGAGCGTCCTAGGGAACGAGCCTCCCT
Found at i:119237 original size:16 final size:15
Alignment explanation
Indices: 119218--119262 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
119208 TCGTTTTCTT
119218 AGTTTGAGAGTTTCAA
1 AGTTTGAGAGTTT-AA
*
119234 AGTTTGAAAGTTTAA
1 AGTTTGAGAGTTTAA
119249 ACGTTTGAGAGTTT
1 A-GTTTGAGAGTTT
119263 GAGATTTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 3 0.12
16 23 0.88
ACGTcount: A:0.31, C:0.04, G:0.24, T:0.40
Consensus pattern (15 bp):
AGTTTGAGAGTTTAA
Found at i:119266 original size:8 final size:8
Alignment explanation
Indices: 119218--119264 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
119208 TCGTTTTCTT
*
119218 AGTTTGAG
1 AGTTTGAA
*
119226 AGTTTCAA
1 AGTTTGAA
119234 AGTTTGAA
1 AGTTTGAA
119242 AGTTT-AA
1 AGTTTGAA
*
119249 ACGTTTGAG
1 A-GTTTGAA
119258 AGTTTGA
1 AGTTTGA
119265 GATTTCAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
7 3 0.09
8 28 0.85
9 2 0.06
ACGTcount: A:0.32, C:0.04, G:0.26, T:0.38
Consensus pattern (8 bp):
AGTTTGAA
Found at i:119659 original size:83 final size:83
Alignment explanation
Indices: 119345--119791 Score: 339
Period size: 83 Copynumber: 5.4 Consensus size: 83
119335 ATTATGTGAA
* *
119345 ATGACAGAGATTTTCTGAATAATAATGGAAAACGTTTCCCCTGGAACTCGT--CTTTCATTTCA-
1 ATGACAGAGATTATCTGAATAATAATGAAAAACGTTTCCCCTGGAA-T-GTGCCTTTCATTTCAG
* ** *
119407 ATTGGACAAAACATTATGAC
64 ATGGGACTGAACACTATGAC
* * * * * * * *
119427 ATGACAGAGATTCTCTGAATAATAATGAAAAATGCTTCCGCTAGAATGCGTCTTTCATTTCGGAT
1 ATGACAGAGATTATCTGAATAATAATGAAAAACGTTTCCCCTGGAATGTGCCTTTCATTTCAGAT
* * *
119492 GAGACTGTACACAATGAC
66 GGGACTGAACACTATGAC
** * * * * * * * **
119510 ATGGTAGATATTATCTGAATAATAATGGAAAACATTTCTCTTGGAAAGTGCCTTTTATTTTGGAT
1 ATGACAGAGATTATCTGAATAATAATGAAAAACGTTTCCCCTGGAATGTGCCTTTCATTTCAGAT
* * *
119575 GGGATTGAATACTACGAC
66 GGGACTGAACACTATGAC
* * *
119593 ATAACAGAGATTATCTGAATAATAATGAAAAACGTTTCCCCTGTAATGTACCTTTCATTTCAGAT
1 ATGACAGAGATTATCTGAATAATAATGAAAAACGTTTCCCCTGGAATGTGCCTTTCATTTCAGAT
* * *
119658 GGGA-TAAAACATTATTAC
66 GGGACT-GAACACTATGAC
* * * * * ** *
119676 ATGGA-AGAGTTTCTCTGAATAATAATGGAAAATGCTTCATCTGGAACGTGCCTTTCATTTCAGA
1 AT-GACAGAGATTATCTGAATAATAATGAAAAACGTTTCCCCTGGAATGTGCCTTTCATTTCAGA
* *
119740 TGAGA-TAGAACACTATAAC
65 TGGGACT-GAACACTATGAC
* * * * *
119759 ATGATATAGATTCTGTGAATAATAATGGAAAAC
1 ATGACAGAGATTATCTGAATAATAATGAAAAAC
119792 ACTATGAAAT
Statistics
Matches: 283, Mismatches: 76, Indels: 11
0.76 0.21 0.03
Matches are distributed among these distances:
80 1 0.00
81 1 0.00
82 53 0.19
83 227 0.80
84 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.32
Consensus pattern (83 bp):
ATGACAGAGATTATCTGAATAATAATGAAAAACGTTTCCCCTGGAATGTGCCTTTCATTTCAGAT
GGGACTGAACACTATGAC
Found at i:119780 original size:166 final size:163
Alignment explanation
Indices: 119350--119791 Score: 410
Period size: 166 Copynumber: 2.7 Consensus size: 163
119340 GTGAAATGAC
* *
119350 AGAGATTTTCTGAATAATAATGGAAAACGTTTCCCCTGGAAC-TCGTCTTTCATTTCA-ATTGGA
1 AGAG-TTTTCTGAATAATAATGGAAAACGTTT-CTCTGGAACGT-GCCTTTCATTTCAGA-TGGA
* * * * * **
119413 CAAAACATTATGACATGACAGAGATTCTCTGAATAATAATGAAAAATGCTTCCGCTAGAATGCGT
62 TAGAACACTATGACATGACAGAGATTCTCTGAATAATAATGAAAAACGCTTCCCCTAGAATGCAC
* * * *
119478 CTTTCATTTCGGATGAGACTGTACACAATGACATGGT
127 CTTTCATTTCAGATGAGACTGAAAACAATGACATGGA
* * * **
119515 AGA-TATTATCTGAATAATAATGGAAAACATTTCTCTTGGAAAGTGCCTTTTATTTTGGATGGGA
1 AGAGT-TT-TCTGAATAATAATGGAAAACGTTTCTC-TGGAACGTGCCTTTCATTTCAGAT-GGA
* * * * * * *
119579 TTGAATACTACGACATAACAGAGATTATCTGAATAATAATGAAAAACGTTTCCCCT-GTAATGTA
62 TAGAACACTATGACATGACAGAGATTCTCTGAATAATAATGAAAAACGCTTCCCCTAG-AATGCA
* *
119643 CCTTTCATTTCAGATGGGA-T-AAAACATTATTACATGGA
126 CCTTTCATTTCAGATGAGACTGAAAACA--ATGACATGGA
* *
119681 AGAGTTTCTCTGAATAATAATGGAAAATGCTTCATCTGGAACGTGCCTTTCATTTCAGATGAGAT
1 AGAGTTT-TCTGAATAATAATGGAAAACGTTTC-TCTGGAACGTGCCTTTCATTTCAGATG-GAT
* * * * *
119746 AGAACACTATAACATGATATAGATTCTGTGAATAATAATGGAAAAC
63 AGAACACTATGACATGACAGAGATTCTCTGAATAATAATGAAAAAC
119792 ACTATGAAAT
Statistics
Matches: 220, Mismatches: 45, Indels: 23
0.76 0.16 0.08
Matches are distributed among these distances:
163 1 0.00
164 8 0.04
165 44 0.20
166 164 0.75
167 3 0.01
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.32
Consensus pattern (163 bp):
AGAGTTTTCTGAATAATAATGGAAAACGTTTCTCTGGAACGTGCCTTTCATTTCAGATGGATAGA
ACACTATGACATGACAGAGATTCTCTGAATAATAATGAAAAACGCTTCCCCTAGAATGCACCTTT
CATTTCAGATGAGACTGAAAACAATGACATGGA
Found at i:119811 original size:41 final size:39
Alignment explanation
Indices: 119748--119833 Score: 102
Period size: 41 Copynumber: 2.2 Consensus size: 39
119738 GATGAGATAG
* * *
119748 AACACTATAACATGATATAGATTCTGTGAATAATAATGGAA
1 AACACTATAACATGACAGAGATTCTGTGAA-AAT-AGGGAA
*
119789 AACACTATGAA-ATGACAGAGATTCTTTGAAAATAGGGAA
1 AACACTAT-AACATGACAGAGATTCTGTGAAAATAGGGAA
119828 AACACT
1 AACACT
119834 TCCATTGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
39 11 0.28
40 3 0.08
41 24 0.60
42 2 0.05
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.26
Consensus pattern (39 bp):
AACACTATAACATGACAGAGATTCTGTGAAAATAGGGAA
Found at i:120714 original size:27 final size:26
Alignment explanation
Indices: 120664--120714 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
120654 GAACTATATA
*
120664 AACAACAAACCATAAACATTACATTT
1 AACAACAAACCATAAACATGACATTT
*
120690 AACAACAAACTATTAAACATGACAT
1 AACAACAAACCA-TAAACATGACAT
120715 AAAGTATACC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.55, C:0.22, G:0.02, T:0.22
Consensus pattern (26 bp):
AACAACAAACCATAAACATGACATTT
Found at i:123867 original size:19 final size:20
Alignment explanation
Indices: 123843--123903 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 20
123833 TAAACTCAAA
123843 TAAATAA-ATTATAA-TAATT
1 TAAATAATA-TATAATTAATT
123862 TAAATAATATATAATTAATT
1 TAAATAATATATAATTAATT
* * *
123882 T-CATAATAT-TCATAAATT
1 TAAATAATATATAATTAATT
123900 TAAA
1 TAAA
123904 AAGAATATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 8 0.23
19 20 0.57
20 7 0.20
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (20 bp):
TAAATAATATATAATTAATT
Found at i:124077 original size:17 final size:17
Alignment explanation
Indices: 124045--124088 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
124035 TAAATAATCA
124045 AATAAT-AAATAAAAAT
1 AATAATAAAATAAAAAT
*
124061 AAATACTAAAAT-AAAAT
1 -AATAATAAAATAAAAAT
124078 AATAATAAAAT
1 AATAATAAAAT
124089 GATTAATTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 10 0.42
17 10 0.42
18 4 0.17
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (17 bp):
AATAATAAAATAAAAAT
Found at i:124129 original size:16 final size:15
Alignment explanation
Indices: 124102--124148 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
124092 TAATTACTTA
124102 AATAAT-AAAAAATT
1 AATAATAAAAAAATT
*
124116 AATGAATAAAAAAATA
1 AAT-AATAAAAAAATT
*
124132 AATTATAAAAACAATT
1 AATAATAAAAA-AATT
124148 A
1 A
124149 TATTTTACTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 3 0.11
15 10 0.37
16 14 0.52
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (15 bp):
AATAATAAAAAAATT
Found at i:124685 original size:21 final size:21
Alignment explanation
Indices: 124659--124699 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
124649 TATGTGTTAA
*
124659 TATCTAAATTATAAATTTTAG
1 TATCTAAACTATAAATTTTAG
*
124680 TATCTAAACTATTAATTTTA
1 TATCTAAACTATAAATTTTA
124700 TCAAAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.49
Consensus pattern (21 bp):
TATCTAAACTATAAATTTTAG
Found at i:127067 original size:18 final size:18
Alignment explanation
Indices: 127035--127069 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
127025 TGTTTAATTA
**
127035 TAATAATTTTTAAAATAT
1 TAATAATTTCGAAAATAT
127053 TAATAATTTCGAAAATA
1 TAATAATTTCGAAAATA
127070 AAATTATGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
TAATAATTTCGAAAATAT
Found at i:127185 original size:19 final size:19
Alignment explanation
Indices: 127157--127195 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
127147 TTTTTATCTT
*
127157 ATAATTATT-AATATGTTAA
1 ATAATAATTAAATAT-TTAA
127176 ATAATAATTAAATATTTAA
1 ATAATAATTAAATATTTAA
127195 A
1 A
127196 AAAAAACTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
ATAATAATTAAATATTTAA
Done.