Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold136
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: 1039917
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.32
Warning! 114553 characters in sequence are not A, C, G, or T
File 1 of 6
Found at i:6702 original size:27 final size:27
Alignment explanation
Indices: 6662--7465 Score: 1015
Period size: 27 Copynumber: 30.0 Consensus size: 27
6652 GTGGTATTTT
*
6662 CTTTTAAAGTCCACAACTCCGTGGCATC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
6690 CTTTTAAGTCCACAACTCTGTGG-ACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
6716 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
6744 CTTTT-AGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
6770 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
6797 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
6824 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
6851 CTTTTAAGTCCACAAACTCCGTGACACC
1 CTTTTAAGTCCAC-AACTCCGTGGCACC
*
6879 CTTTTAAAGACCACCTAACTCCGTGGCACC
1 CTTTT-AAGTCCA-C-AACTCCGTGGCACC
6909 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
6936 C--TT---T----AACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
6954 C-TTTAAGTCCACAAACTCTGTGGCACC
1 CTTTTAAGTCCAC-AACTCCGTGGCACC
*
6981 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
7008 CTTTTAAATGACCTAACCACTCCGTGGCAAC
1 CTTTT-AA-GTCC--ACAACTCCGTGGCACC
7039 C-TTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
7065 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
7092 CTTTTAAGTCCATAACTCCGTGGCA-T
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
7118 CTCTTTAAGTCCACAACTCTGTGGCACC
1 CT-TTTAAGTCCACAACTCCGTGGCACC
*
7146 CTTTTAAATTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* **
7174 CTTTTTAGTCCACAACTTTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
7201 C-TTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
7227 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
7254 TTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
7281 CTTTTAAGTCCATAACTCCGTGGCA-T
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
7307 CTCTTTAAGTCCACAACCTCTGTGGCACC
1 CT-TTTAAGTCCACAA-CTCCGTGGCACC
* *
7336 CTTTAAAGTCCAAAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
7363 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
7390 C-TTTAAGTCCAACAACTCCGTGG--CC
1 CTTTTAAGTCC-ACAACTCCGTGGCACC
**
7415 CTTTTAAGTCCACAACT-C-TGGCGTC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
7440 C-TTTAAATCCACAACTCTGT-GCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
7465 C
1 C
7466 ATTTCAAAGC
Statistics
Matches: 685, Mismatches: 57, Indels: 71
0.84 0.07 0.09
Matches are distributed among these distances:
18 15 0.02
19 2 0.00
22 2 0.00
23 3 0.00
24 15 0.02
25 17 0.02
26 92 0.13
27 389 0.57
28 95 0.14
29 19 0.03
30 22 0.03
31 14 0.02
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.28
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:6945 original size:18 final size:18
Alignment explanation
Indices: 6922--6959 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
6912 TTAAGTCCAC
6922 AACTCCGTGGCACCCTTT
1 AACTCCGTGGCACCCTTT
6940 AACTCCGTGGCACCCTTT
1 AACTCCGTGGCACCCTTT
6958 AA
1 AA
6960 GTCCACAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.37, G:0.16, T:0.26
Consensus pattern (18 bp):
AACTCCGTGGCACCCTTT
Found at i:6971 original size:45 final size:45
Alignment explanation
Indices: 6894--7253 Score: 157
Period size: 53 Copynumber: 6.9 Consensus size: 45
6884 AAAGACCACC
6894 TAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTT
1 TAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTT
*
6939 TAACTCCGTGGCACCC-TTTAAGTCCACAAACTCTGTGGCACCCTTTT
1 TAACTCCGTGGCACCCTTTTAAGTCCAC-AACTCCGTGGCACCC--TT
* * * *
6986 AAGTCCACAACTCTGTGGCACCCTTTTAAATGACCTAACCACTCCGTGGCAACCTTT
1 ---T----AACTCCGTGGCACCCTTTT-AA-GTCC--ACAACTCCGTGGC-ACCCTT
7043 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGT
1 ---T----AACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC---T---T
* *
7101 CCATAACTCCGTGGCA-TCTCTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAT
1 ---TAACTCCGTGGCACCCT-TTTAAGTCCACAACTCCGTGGCACCC---T---T
* **
7155 TCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTTTGTGGCACCCTTT
1 T----AACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC-TT
*
7205 AAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCGTGGCACC
1 ---T----AACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
7254 TTTTTAAGTC
Statistics
Matches: 261, Mismatches: 23, Indels: 54
0.77 0.07 0.16
Matches are distributed among these distances:
44 11 0.04
45 30 0.11
47 2 0.01
50 2 0.01
51 1 0.00
52 3 0.01
53 58 0.22
54 58 0.22
55 43 0.16
56 6 0.02
57 31 0.12
58 11 0.04
59 5 0.02
ACGTcount: A:0.23, C:0.35, G:0.15, T:0.27
Consensus pattern (45 bp):
TAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTT
Found at i:7498 original size:32 final size:32
Alignment explanation
Indices: 7462--7987 Score: 894
Period size: 32 Copynumber: 16.4 Consensus size: 32
7452 AACTCTGTGC
*
7462 ACCCATTTCAAAGCCCACACAAGTTGGTGGCA
1 ACCCATTTCAAAGCCCACACAAGTCGGTGGCA
*
7494 ACCCATTCCAAAGCCCACACAAGTCGGTGGCA
1 ACCCATTTCAAAGCCCACACAAGTCGGTGGCA
7526 ACCCATTTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCATTTCAAAGCCCACACAAGTCGGTGGCA
7558 ACCCATTTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCATTTCAAAGCCCACACAAGTCGGTGGCA
7590 ACCCATTTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCATTTCAAAGCCCACACAAGTCGGTGGCA
7622 ACCCATTTTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCA-TTTCAAAGCCCACACAAGTCGGTGGCA
7655 ACCCATTTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCATTTCAAAGCCCACACAAGTCGGTGGCA
7687 ACCCATTTTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCA-TTTCAAAGCCCACACAAGTCGGTGGCA
7720 ACCCATTTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCATTTCAAAGCCCACACAAGTCGGTGGCA
7752 ACCCATTTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCATTTCAAAGCCCACACAAGTCGGTGGCA
*
7784 ACCCATTTCAAAGCCCACACAGGTCGGTGGCA
1 ACCCATTTCAAAGCCCACACAAGTCGGTGGCA
*
7816 ACCCA-TTCTAAAGCCCACACAAGTAGGTGGCA
1 ACCCATTTC-AAAGCCCACACAAGTCGGTGGCA
7848 ACCCATTTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCATTTCAAAGCCCACACAAGTCGGTGGCA
**
7880 ACCTTTTTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCATTTCAAAGCCCACACAAGTCGGTGGCA
* *
7912 ACCCATTTAAAAGCCCACGA-AAGTCGGTGGTA
1 ACCCATTTCAAAGCCCAC-ACAAGTCGGTGGCA
* * *
7944 ACCCATTTAAAAGCCCACGCAAGTCAGTGGCA
1 ACCCATTTCAAAGCCCACACAAGTCGGTGGCA
*
7976 ACCCTTTTCAAA
1 ACCCATTTCAAA
7988 TCACCATTTT
Statistics
Matches: 470, Mismatches: 18, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
31 3 0.01
32 399 0.85
33 68 0.14
ACGTcount: A:0.31, C:0.33, G:0.19, T:0.17
Consensus pattern (32 bp):
ACCCATTTCAAAGCCCACACAAGTCGGTGGCA
Found at i:8067 original size:45 final size:47
Alignment explanation
Indices: 8008--8138 Score: 133
Period size: 45 Copynumber: 2.8 Consensus size: 47
7998 TGTCATCTTA
* * *
8008 AAGTCCGATATCGCTGGCCTTGAATCAGCATATTGG-CACCTTT-CT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCCACCTTTCCT
* *
8053 AAGTCCAATGTCGCTGGCCTTGAGTCAGCACATTGGTCCACTTTTCCCT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG-CCACCTTT-CCT
* * * *
8102 TAGTCCAATGTCGTTGACCTTGAAAT-GGCACATTGGC
1 AAGTCCAATGTCGCTGGCCTTG-AATCAGCACATTGGC
8139 ACTCCTCTCA
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
45 32 0.45
47 6 0.08
48 1 0.01
49 30 0.42
50 2 0.03
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (47 bp):
AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCCACCTTTCCT
Found at i:9257 original size:16 final size:17
Alignment explanation
Indices: 9226--9260 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
9216 AAGGAAGATG
*
9226 AAGAAGAAAGAAAGAAA
1 AAGAAGAAAAAAAGAAA
9243 AAGAA-AAAAAAAGAAA
1 AAGAAGAAAAAAAGAAA
9259 AA
1 AA
9261 ATATGAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAGAAGAAAAAAAGAAA
Found at i:9268 original size:10 final size:10
Alignment explanation
Indices: 9232--9261 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
9222 GATGAAGAAG
*
9232 AAAGAAAGAA
1 AAAGAAAAAA
9242 AAAGAAAAAA
1 AAAGAAAAAA
9252 AAAGAAAAAA
1 AAAGAAAAAA
9262 TATGAAATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:12138 original size:3 final size:3
Alignment explanation
Indices: 12120--12154 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
12110 AGCAGCTGAG
* *
12120 AAT AAC AAT TAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
12155 AAGAAAAGTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:12470 original size:25 final size:26
Alignment explanation
Indices: 12437--12485 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
12427 AATATGTATG
* * *
12437 TTATGTTTAGAAT-TTTATGTTTTAA
1 TTATATTTAAAATATTTATATTTTAA
12462 TTATATTTAAAATATTTATATTTT
1 TTATATTTAAAATATTTATATTTT
12486 TTAAATTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (26 bp):
TTATATTTAAAATATTTATATTTTAA
Found at i:12499 original size:17 final size:17
Alignment explanation
Indices: 12456--12502 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
12446 GAATTTTATG
12456 TTTTAATTATATTTAAAA
1 TTTTAA-TATATTTAAAA
* *
12474 TATTT-ATATTTTTTAAA
1 T-TTTAATATATTTAAAA
12491 TTTTAATATATT
1 TTTTAATATATT
12503 ACATAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
16 3 0.12
17 16 0.67
18 2 0.08
19 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTAATATATTTAAAA
Found at i:12559 original size:46 final size:42
Alignment explanation
Indices: 12472--12566 Score: 111
Period size: 46 Copynumber: 2.2 Consensus size: 42
12462 TTATATTTAA
*
12472 AATATTTATATTTTTTAAATTTTAATATATTACATAAAATTT
1 AATATTTATATTTTTTAAATTTTAATATATTACAAAAAATTT
*
12514 AATATTATATTATTTTTATATAATTTTTATTATATTA-AAAAAATTT
1 AATATT-TA-TATTTTT-TA-AA-TTTTAATATATTACAAAAAATTT
*
12560 AAAATTT
1 AATATTT
12567 TACATTATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
42 6 0.13
43 2 0.04
44 7 0.16
45 3 0.07
46 15 0.33
47 12 0.27
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (42 bp):
AATATTTATATTTTTTAAATTTTAATATATTACAAAAAATTT
Found at i:12596 original size:16 final size:16
Alignment explanation
Indices: 12563--12593 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12553 AAAATTTAAA
12563 ATTTTACATTATATTT
1 ATTTTACATTATATTT
12579 ATTTTACATTA-ATTT
1 ATTTTACATTATATTT
12594 TATGGGGTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTTTACATTATATTT
Found at i:12963 original size:25 final size:24
Alignment explanation
Indices: 12925--12972 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
12915 ATTATTAAAA
12925 ATAATTAAAATAAAATATAATATAT
1 ATAATTAAAATAAAA-ATAATATAT
* * *
12950 ATAATTATATTAAAAATTATATA
1 ATAATTAAAATAAAAATAATATA
12973 ATTTTAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
ATAATTAAAATAAAAATAATATAT
Found at i:13019 original size:32 final size:32
Alignment explanation
Indices: 12946--13019 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
12936 AAAATATAAT
* *
12946 ATATATAATTATATTAAAAATTATATAATTTTA
1 ATATTTAA-TATATTAAAAATTATATAATATTA
*
12979 AT-TATTAATATATTAAAATTTATAT-ATCATTA
1 ATAT-TTAATATATTAAAAATTATATAAT-ATTA
13011 ATATTTAAT
1 ATATTTAAT
13020 TAACATAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
31 2 0.06
32 27 0.77
33 6 0.17
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (32 bp):
ATATTTAATATATTAAAAATTATATAATATTA
Found at i:13362 original size:3 final size:3
Alignment explanation
Indices: 13354--13383 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
13344 TTTAATTTAC
13354 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13384 TTCTTACATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:21464 original size:2 final size:2
Alignment explanation
Indices: 21457--21558 Score: 96
Period size: 2 Copynumber: 51.0 Consensus size: 2
21447 AGGAAAAAGC
* * *
21457 AT AT AT AT AT AT AT AT GT AT AG GT 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
* * * * * * * *
21499 AT AT GT AT AC GT GT GT AT AT AT AT AT AT AT AT AT AT GT GT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
21541 GT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
21559 GTGTATACGT
Statistics
Matches: 86, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 86 1.00
ACGTcount: A:0.40, C:0.01, G:0.11, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21571 original size:30 final size:30
Alignment explanation
Indices: 21457--21582 Score: 175
Period size: 30 Copynumber: 4.3 Consensus size: 30
21447 AGGAAAAAGC
* * *
21457 ATATATATATATATATGTATAGGTATATAT
1 ATATATATATATATATGTATACGTGTGTAT
21487 ATATATATATATATATGTATACGTGTGTAT
1 ATATATATATATATATGTATACGTGTGTAT
**
21517 ATATATATATATATA--TATGTGTGTGTAT
1 ATATATATATATATATGTATACGTGTGTAT
* *
21545 ATATATATATATATGTGTATACGTGTGTGT
1 ATATATATATATATATGTATACGTGTGTAT
21575 ATATATAT
1 ATATATAT
21583 GTATGTGTGT
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
28 25 0.29
30 60 0.71
ACGTcount: A:0.37, C:0.02, G:0.13, T:0.48
Consensus pattern (30 bp):
ATATATATATATATATGTATACGTGTGTAT
Found at i:21595 original size:30 final size:30
Alignment explanation
Indices: 21457--21582 Score: 161
Period size: 28 Copynumber: 4.3 Consensus size: 30
21447 AGGAAAAAGC
* * * *
21457 ATATATATATATATATGTATAGGTATATAT
1 ATATATATATATATATGTATACGTGTGTGT
21487 ATATATATATATATATGTATAC--GTGTGT
1 ATATATATATATATATGTATACGTGTGTGT
*
21515 ATATATATATATATA--TATATGTGTGTGT
1 ATATATATATATATATGTATACGTGTGTGT
21543 ATATATATATATATATGTGTATACGTGTGTGT
1 ATATATATATATATA--TGTATACGTGTGTGT
21575 ATATATAT
1 ATATATAT
21583 GTATGTGTGT
Statistics
Matches: 84, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
26 4 0.05
28 39 0.46
30 21 0.25
32 20 0.24
ACGTcount: A:0.37, C:0.02, G:0.13, T:0.48
Consensus pattern (30 bp):
ATATATATATATATATGTATACGTGTGTGT
Found at i:21816 original size:2 final size:2
Alignment explanation
Indices: 21809--21834 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21799 TTTAAACTTA
21809 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
21835 CGAGCTGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23697 original size:2 final size:2
Alignment explanation
Indices: 23631--23681 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
23621 GAGTTGGAAG
* * *
23631 TA TA TA AA TG TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23673 TA TA TA TA T
1 TA TA TA TA T
23682 GTTAGAATTC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:31013 original size:22 final size:22
Alignment explanation
Indices: 30988--31032 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
30978 TGAATTCAAG
30988 TATTAAATATTAATATATATAA
1 TATTAAATATTAATATATATAA
* * * *
31010 TATTTAATTTTTATATATTTAA
1 TATTAAATATTAATATATATAA
31032 T
1 T
31033 TAAAAATTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TATTAAATATTAATATATATAA
Found at i:31491 original size:13 final size:13
Alignment explanation
Indices: 31473--31541 Score: 50
Period size: 13 Copynumber: 4.7 Consensus size: 13
31463 CATCCAATTT
31473 TTTTAAAA-TAATA
1 TTTTAAAATTAA-A
31486 TTTTAAAAATTAAA
1 TTTT-AAAATTAAA
31500 TTTTAAATGTATTAAA
1 TTTTAAA---ATTAAA
31516 TTAATATGAAAATTAAA
1 TT--T-T-AAAATTAAA
31533 TTTTAAAAT
1 TTTTAAAAT
31542 CATTTTAGAA
Statistics
Matches: 47, Mismatches: 0, Indels: 18
0.72 0.00 0.28
Matches are distributed among these distances:
13 12 0.26
14 10 0.21
15 4 0.09
16 8 0.17
17 8 0.17
18 1 0.02
19 1 0.02
20 3 0.06
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (13 bp):
TTTTAAAATTAAA
Found at i:31494 original size:14 final size:14
Alignment explanation
Indices: 31472--31540 Score: 50
Period size: 14 Copynumber: 4.6 Consensus size: 14
31462 TCATCCAATT
*
31472 TTTTTAAAA-TAATA
1 TTTTAAAAATTAA-A
31486 TTTTAAAAATTAAA
1 TTTTAAAAATTAAA
*
31500 TTTTAAATGTATTAAA
1 TTTTAAA--AATTAAA
*
31516 TTAATATGAAAATTAAA
1 TT--T-TAAAAATTAAA
31533 TTTTAAAA
1 TTTTAAAA
31541 TCATTTTAGA
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
14 20 0.45
15 4 0.09
16 8 0.18
17 8 0.18
18 1 0.02
19 3 0.07
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
TTTTAAAAATTAAA
Found at i:31929 original size:19 final size:18
Alignment explanation
Indices: 31889--31932 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
31879 ACTTAATTTT
* *
31889 TATAATTTTTAATTTAAT
1 TATAAATTTTAATTTAAA
*
31907 TATAAATTTTATTTATAAA
1 TATAAATTTTAATT-TAAA
31926 TATAAAT
1 TATAAAT
31933 ATATTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATAAATTTTAATTTAAA
Found at i:32089 original size:7 final size:7
Alignment explanation
Indices: 32071--32099 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
32061 TAATATATTT
32071 AAATAT-
1 AAATATA
32077 AAATATA
1 AAATATA
32084 AAATATA
1 AAATATA
32091 AAATATA
1 AAATATA
32098 AA
1 AA
32100 TTTTTAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAATATA
Found at i:32585 original size:8 final size:8
Alignment explanation
Indices: 32545--32709 Score: 68
Period size: 8 Copynumber: 21.2 Consensus size: 8
32535 AAAATTTATG
*
32545 ATATAAAA
1 ATATATAA
32553 ATA-ATTAA
1 ATATA-TAA
32561 A-ATATAA
1 ATATATAA
32568 TATAATATAA
1 -AT-ATATAA
32578 ATATATAA
1 ATATATAA
32586 ATATATAA
1 ATATATAA
*
32594 ATATTTAA
1 ATATATAA
* *
32602 AT-TTTTA
1 ATATATAA
32609 ATAATATAA
1 AT-ATATAA
*
32618 AT-TATTA
1 ATATATAA
32625 ATAT-TAAA
1 ATATAT-AA
32633 ATTTATATAA
1 A--TATATAA
*
32643 ATATA-AT
1 ATATATAA
*
32650 ATATTTAA
1 ATATATAA
32658 A-ATAT-A
1 ATATATAA
*
32664 AT-TAT-T
1 ATATATAA
*
32670 GTATGATAA
1 ATAT-ATAA
*
32679 AAATAT-A
1 ATATATAA
*
32686 TTA-ATAA
1 ATATATAA
32693 A-ATATAA
1 ATATATAA
32700 ATATATAA
1 ATATATAA
32708 AT
1 AT
32710 TATTTAATAT
Statistics
Matches: 118, Mismatches: 19, Indels: 40
0.67 0.11 0.23
Matches are distributed among these distances:
6 9 0.08
7 35 0.30
8 52 0.44
9 9 0.08
10 12 0.10
11 1 0.01
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (8 bp):
ATATATAA
Found at i:32686 original size:46 final size:47
Alignment explanation
Indices: 32564--32719 Score: 118
Period size: 46 Copynumber: 3.4 Consensus size: 47
32554 TAATTAAAAT
* * *
32564 ATAATAT-AA-TATAAATA-TATAAATATATAAATATTTAA-ATTTTTA
1 ATAATATAAATTATTAATATTAAAAATATATAAATA--TAATATATTTA
*
32609 ATAATATAAATTATTAATATTAAAATTTATATAAATATAATATATTTA
1 ATAATATAAATTATTAATATTAAAA-ATATATAAATATAATATATTTA
* * *
32657 A-AATAT-AATTATT-GTATGATAAAAATATATTAATA-AA-ATA-TAA
1 ATAATATAAATTATTAATAT--TAAAAATATATAAATATAATATATTTA
32700 AT-ATATAAATTATTTAATAT
1 ATAATATAAATTA-TTAATAT
32720 AATGAAGATT
Statistics
Matches: 91, Mismatches: 9, Indels: 21
0.75 0.07 0.17
Matches are distributed among these distances:
43 7 0.08
44 8 0.09
45 14 0.15
46 21 0.23
47 20 0.22
48 11 0.12
49 10 0.11
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (47 bp):
ATAATATAAATTATTAATATTAAAAATATATAAATATAATATATTTA
Found at i:33801 original size:18 final size:18
Alignment explanation
Indices: 33758--33818 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 18
33748 TTATAAATTT
*
33758 TAATATATTATATAATATACA
1 TAATAT-TTATAT-AT-TATA
*
33779 TAATATTTTTATATTATA
1 TAATATTTATATATTATA
*
33797 TAATATTTATATTTTATA
1 TAATATTTATATATTATA
33815 TAAT
1 TAAT
33819 TATTAACATA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 23 0.64
19 2 0.06
20 5 0.14
21 6 0.17
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TAATATTTATATATTATA
Found at i:46367 original size:4 final size:4
Alignment explanation
Indices: 46358--46405 Score: 71
Period size: 4 Copynumber: 12.0 Consensus size: 4
46348 AAAGAGATGT
*
46358 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTCA TTT- TTATA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA
46406 CAAGTAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
3 2 0.05
4 36 0.90
5 2 0.05
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:46721 original size:2 final size:2
Alignment explanation
Indices: 46714--46747 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
46704 AGTGTATTCT
46714 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
46748 AAAGTATCGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:46801 original size:13 final size:13
Alignment explanation
Indices: 46763--46819 Score: 50
Period size: 12 Copynumber: 4.7 Consensus size: 13
46753 ATCGAGTTAA
46763 ATTTAAA-TAAAT
1 ATTTAAATTAAAT
*
46775 ATTT--TTTAAAT
1 ATTTAAATTAAAT
*
46786 ATTTAAATTTAAT
1 ATTTAAATTAAAT
* *
46799 A-TTATATAAAAT
1 ATTTAAATTAAAT
46811 ATTTAAATT
1 ATTTAAATT
46820 CAGTACATAT
Statistics
Matches: 33, Mismatches: 8, Indels: 7
0.69 0.17 0.15
Matches are distributed among these distances:
11 9 0.27
12 13 0.39
13 11 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
ATTTAAATTAAAT
Found at i:46808 original size:24 final size:25
Alignment explanation
Indices: 46763--46819 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
46753 ATCGAGTTAA
* *
46763 ATTTAAA-TAAATATT-TTTTAAAT
1 ATTTAAATTAAATATTATATAAAAT
*
46786 ATTTAAATTTAATATTATATAAAAT
1 ATTTAAATTAAATATTATATAAAAT
46811 ATTTAAATT
1 ATTTAAATT
46820 CAGTACATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 7 0.24
24 7 0.24
25 15 0.52
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTTAAATTAAATATTATATAAAAT
Found at i:46829 original size:24 final size:25
Alignment explanation
Indices: 46782--46829 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
46772 AATATTTTTT
* *
46782 AAATATTTAAATTTAATATTATATA
1 AAATATTTAAATTCAATATCATATA
*
46807 AAATATTTAAATTCAGTA-CATAT
1 AAATATTTAAATTCAATATCATAT
46830 TTATTATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (25 bp):
AAATATTTAAATTCAATATCATATA
Found at i:47410 original size:27 final size:27
Alignment explanation
Indices: 47380--47431 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
47370 ATTTGAATTT
*
47380 TTTTTAAATA-TATATTATATTATATTA
1 TTTTTAAATATTATATGAT-TTATATTA
*
47407 TTTTTATATATTATATGATTTATAT
1 TTTTTAAATATTATATGATTTATAT
47432 CATATAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (27 bp):
TTTTTAAATATTATATGATTTATATTA
Found at i:53931 original size:11 final size:11
Alignment explanation
Indices: 53892--53932 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
53882 GTGGATGATT
53892 AAAATAAATAAA
1 AAAAT-AATAAA
*
53904 AAAAT-ATCAA
1 AAAATAATAAA
53914 AAAATAATAAA
1 AAAATAATAAA
53925 AAAATAAT
1 AAAATAAT
53933 TTTAAAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 9 0.35
11 12 0.46
12 5 0.19
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (11 bp):
AAAATAATAAA
Found at i:53939 original size:22 final size:22
Alignment explanation
Indices: 53890--53939 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
53880 TTGTGGATGA
53890 TTAAAATAAATAAAAAAATATC
1 TTAAAATAAATAAAAAAATATC
** *
53912 AAAAAAT-AATAAAAAAATAATT
1 TTAAAATAAATAAAAAAAT-ATC
53934 TTAAAA
1 TTAAAA
53940 AAGTAGTAGT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (22 bp):
TTAAAATAAATAAAAAAATATC
Found at i:54681 original size:14 final size:14
Alignment explanation
Indices: 54634--54681 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
54624 TACAATTTGA
54634 ATTTTAAATAATAT
1 ATTTTAAATAATAT
* *
54648 TTTTTAAAAAATTGAT
1 ATTTTAAATAA-T-AT
*
54664 ATTTTAATTAATAT
1 ATTTTAAATAATAT
54678 ATTT
1 ATTT
54682 ATATAAAATC
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
14 15 0.56
15 2 0.07
16 10 0.37
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (14 bp):
ATTTTAAATAATAT
Found at i:55316 original size:21 final size:21
Alignment explanation
Indices: 55290--55353 Score: 55
Period size: 24 Copynumber: 3.0 Consensus size: 21
55280 AGATTCGTTA
55290 ATATTTTTATAATAATATTTT
1 ATATTTTTATAATAATATTTT
*
55311 ATATTTAAATTATAATAAT-TATT
1 ATATTT---TTATAATAATATTTT
55334 AT-TTATTT-TAAT-ATATTTT
1 ATATT-TTTATAATAATATTTT
55353 A
1 A
55354 ATAACGGATT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
18 2 0.06
19 8 0.22
20 2 0.06
21 6 0.17
22 2 0.06
23 6 0.17
24 10 0.28
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATATTTTTATAATAATATTTT
Found at i:60627 original size:25 final size:28
Alignment explanation
Indices: 60593--60675 Score: 89
Period size: 32 Copynumber: 2.9 Consensus size: 28
60583 AATAAATATT
*
60593 ATTTAAAATATTT-TATATTTATATAAA
1 ATTTTAAATATTTATATATTTATATAAA
*
60620 A-TTTAATATATTAATAATTTATATTATATAAA
1 ATTTTAA-ATATT--T-ATATAT-TTATATAAA
60652 ATTTTAAATATTTATATATTTATA
1 ATTTTAAATATTTATATATTTATA
60676 ATATATTTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
26 4 0.09
27 6 0.13
28 5 0.11
29 6 0.13
30 1 0.02
31 4 0.09
32 15 0.33
33 5 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
ATTTTAAATATTTATATATTTATATAAA
Found at i:60641 original size:33 final size:32
Alignment explanation
Indices: 60599--60681 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 32
60589 TATTATTTAA
*
60599 AATATTTTATATTTATATAAAA-TTTAATATATT
1 AATAATTTATA-TTATATAAAATTTTAA-ATATT
60632 AATAATTTATATTATATAAAATTTTAAATATT
1 AATAATTTATATTATATAAAATTTTAAATATT
* *
60664 TATATATTTATAATATAT
1 AATA-ATTTATATTATAT
60682 TTATATTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
32 18 0.40
33 27 0.60
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (32 bp):
AATAATTTATATTATATAAAATTTTAAATATT
Found at i:60654 original size:16 final size:16
Alignment explanation
Indices: 60604--60655 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
60594 TTTAAAATAT
60604 TTTATATTTATATAAAA
1 TTTATA-TTATATAAAA
60621 TTTA-A-TATATTAATAA
1 TTTATATTATA-TAA-AA
60637 TTTATATTATATAAAA
1 TTTATATTATATAAAA
60653 TTT
1 TTT
60656 TAAATATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
14 4 0.13
15 3 0.10
16 12 0.39
17 8 0.26
18 4 0.13
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTATATTATATAAAA
Found at i:60672 original size:17 final size:19
Alignment explanation
Indices: 60592--60687 Score: 69
Period size: 19 Copynumber: 5.1 Consensus size: 19
60582 AAATAAATAT
60592 TATTTA-AA-ATATTT-TA
1 TATTTATAATATATTTATA
*
60608 TATTTAT-ATAAAATTTAATA
1 TATTTATAAT-ATATTT-ATA
*
60628 TATTAATAATTTATATTATATAA
1 TATTTATAA--TATATT-TAT-A
*
60651 AATTT-TAA-ATATTTATA
1 TATTTATAATATATTTATA
60668 TATTTATAATATATTTATA
1 TATTTATAATATATTTATA
60687 T
1 T
60688 TAAATTTTAA
Statistics
Matches: 62, Mismatches: 6, Indels: 21
0.70 0.07 0.24
Matches are distributed among these distances:
16 7 0.11
17 5 0.08
18 11 0.18
19 15 0.24
20 8 0.13
21 1 0.02
22 9 0.15
23 6 0.10
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TATTTATAATATATTTATA
Found at i:60687 original size:25 final size:24
Alignment explanation
Indices: 60592--60706 Score: 73
Period size: 25 Copynumber: 4.8 Consensus size: 24
60582 AAATAAATAT
*
60592 TATTTAAAATATTTTATATTTATA
1 TATTTATAATATTTTATATTTATA
* *
60616 TAAAATT-TAATATATTAATAATTTATA
1 T--ATTTATAATAT-TTTAT-ATTTATA
* *
60643 T-TATATAAAATTTTAAATATTTATA
1 TATTTATAATATTTT--ATATTTATA
60668 TATTTATAATATATTTATA-TTA-A
1 TATTTATAATAT-TTTATATTTATA
60691 -ATTT-TAAT-TTTTATAT
1 TATTTATAATATTTTATAT
60707 GATAAATTTA
Statistics
Matches: 72, Mismatches: 9, Indels: 24
0.69 0.09 0.23
Matches are distributed among these distances:
19 6 0.08
20 1 0.01
21 4 0.06
22 4 0.06
23 1 0.01
24 7 0.10
25 21 0.29
26 17 0.24
27 11 0.15
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TATTTATAATATTTTATATTTATA
Found at i:60688 original size:17 final size:17
Alignment explanation
Indices: 60623--60688 Score: 57
Period size: 17 Copynumber: 3.9 Consensus size: 17
60613 ATATAAAATT
60623 TAATATATTAATAATTTA
1 TAATATATTAAT-ATTTA
* *
60641 TATTATA-TAAAATTT-
1 TAATATATTAATATTTA
60656 TAA-ATATTTATATATTTA
1 TAATATA-TTA-ATATTTA
*
60674 TAATATATTTATATT
1 TAATATATTAATATT
60689 AAATTTTAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
14 3 0.08
15 2 0.05
16 6 0.16
17 13 0.34
18 11 0.29
19 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TAATATATTAATATTTA
Found at i:60703 original size:19 final size:19
Alignment explanation
Indices: 60643--60706 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 19
60633 ATAATTTATA
* *
60643 TTATATAAAATTTTAAATAT
1 TTATATTAAATTTT-AATTT
60663 TTATA-T--ATTTATAATATAT
1 TTATATTAAATTT-TAAT-T-T
60682 TTATATTAAATTTTAATTT
1 TTATATTAAATTTTAATTT
60701 TTATAT
1 TTATAT
60707 GATAAATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
17 7 0.19
18 1 0.03
19 13 0.36
20 7 0.19
21 4 0.11
22 4 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTATATTAAATTTTAATTT
Found at i:60704 original size:38 final size:40
Alignment explanation
Indices: 60616--60706 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 40
60606 TATATTTATA
*
60616 TAAA-ATTTAATATATTAATAATTTATATTATATAAAATTT
1 TAAATATTT-ATATATTAATAATATATATTATATAAAATTT
* *
60656 TAAATATTTATATATTTATAATATAT-TTATATTAAATTT
1 TAAATATTTATATATTAATAATATATATTATATAAAATTT
*
60695 T-AATTTTTATAT
1 TAAATATTTATAT
60707 GATAAATTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
38 10 0.22
39 13 0.28
40 19 0.41
41 4 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (40 bp):
TAAATATTTATATATTAATAATATATATTATATAAAATTT
Found at i:60716 original size:32 final size:33
Alignment explanation
Indices: 60655--60722 Score: 79
Period size: 32 Copynumber: 2.1 Consensus size: 33
60645 ATATAAAATT
*
60655 TTAAATATTTATATATTTATAATATATTT-ATA
1 TTAAATATTTATATATTTATAATAAATTTAATA
*
60687 TTAAAT-TTTA-ATTTTTATATGATAAATTTAATA
1 TTAAATATTTATATATTTATA--ATAAATTTAATA
60720 TTA
1 TTA
60723 TCGAATCAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
30 8 0.26
31 4 0.13
32 13 0.42
33 6 0.19
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (33 bp):
TTAAATATTTATATATTTATAATAAATTTAATA
Found at i:61332 original size:3 final size:3
Alignment explanation
Indices: 61324--61354 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
61314 ATTACAATTG
61324 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
61355 ATAGTAGTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:64767 original size:23 final size:24
Alignment explanation
Indices: 64737--64786 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
64727 TCTTATTCAT
*
64737 TTTGAGCG-TTCCGCAGAGATCGG
1 TTTGAGCGTTTCCACAGAGATCGG
*
64760 TTTGAGCGTTTCCATAGAGATCGG
1 TTTGAGCGTTTCCACAGAGATCGG
64784 TTT
1 TTT
64787 AATCGTTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.18, C:0.18, G:0.30, T:0.34
Consensus pattern (24 bp):
TTTGAGCGTTTCCACAGAGATCGG
Found at i:65147 original size:61 final size:63
Alignment explanation
Indices: 65072--65218 Score: 210
Period size: 61 Copynumber: 2.4 Consensus size: 63
65062 AAATATAGAT
* *
65072 ATAACATTCAACATTCACTTTAAATAATATATACTT-ATATTTGATTTATTTA-TCAAATTTAA
1 ATAACATTCAACATTCACTTTAAATAATATATA-TTCATATTTAATATATTTATTCAAATTTAA
* * * *
65134 ATACCATT-AACATTCATTTTAAGTAATATATATTCGTATTTAATATATTTATTCAAATTTAA
1 ATAACATTCAACATTCACTTTAAATAATATATATTCATATTTAATATATTTATTCAAATTTAA
65196 ATAACATTCAACATTCACTTTAA
1 ATAACATTCAACATTCACTTTAA
65219 GCTCGGATAA
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
60 2 0.03
61 35 0.47
62 24 0.32
63 13 0.18
ACGTcount: A:0.41, C:0.12, G:0.02, T:0.44
Consensus pattern (63 bp):
ATAACATTCAACATTCACTTTAAATAATATATATTCATATTTAATATATTTATTCAAATTTAA
Found at i:65557 original size:27 final size:27
Alignment explanation
Indices: 65478--65558 Score: 78
Period size: 27 Copynumber: 3.1 Consensus size: 27
65468 AATTTTATAT
* * *
65478 ATTTTTATAATTTTTTATAAAATTTA-T
1 ATTTTTATAATATTTTATAAGA-TTAGC
* * *
65505 ATTTTAACAA-ATTTT-TAAGTTTAGC
1 ATTTTTATAATATTTTATAAGATTAGC
65530 ATTTTTATAATATTTTATAAGATTAGC
1 ATTTTTATAATATTTTATAAGATTAGC
65557 AT
1 AT
65559 GTTAATAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
24 3 0.07
25 11 0.26
26 9 0.21
27 19 0.45
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (27 bp):
ATTTTTATAATATTTTATAAGATTAGC
Found at i:65566 original size:27 final size:26
Alignment explanation
Indices: 65515--65566 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
65505 ATTTTAACAA
* * *
65515 ATTTTTAAGTTTAGCATTTTTATAAT
1 ATTTTTAAGATTAGCATGTTAATAAT
65541 ATTTTATAAGATTAGCATGTTAATAA
1 ATTTT-TAAGATTAGCATGTTAATAA
65567 ATTATTACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (26 bp):
ATTTTTAAGATTAGCATGTTAATAAT
Found at i:65646 original size:43 final size:43
Alignment explanation
Indices: 65587--65696 Score: 193
Period size: 43 Copynumber: 2.6 Consensus size: 43
65577 TAAACAATAT
*
65587 AAATGTATTCAGCGTAAAATTTTAAGCTGATTCAATATTATAA
1 AAATGTATTCAACGTAAAATTTTAAGCTGATTCAATATTATAA
65630 AAATGTATTCAACGTAAAATTTTAAGCTGATTCAATATTATAA
1 AAATGTATTCAACGTAAAATTTTAAGCTGATTCAATATTATAA
* *
65673 AAATATATTCAACATAAAATTTTA
1 AAATGTATTCAACGTAAAATTTTA
65697 TATTAAGTCA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.37
Consensus pattern (43 bp):
AAATGTATTCAACGTAAAATTTTAAGCTGATTCAATATTATAA
Found at i:65713 original size:43 final size:43
Alignment explanation
Indices: 65587--65714 Score: 141
Period size: 43 Copynumber: 3.0 Consensus size: 43
65577 TAAACAATAT
* * * * *
65587 AAATGTATTCAGCGTAAAATTTTAAGCTGATTCAATATTATAA
1 AAATATATTCAACATAAAATTTTAAGCTAAGTCAATATTATAA
* * * *
65630 AAATGTATTCAACGTAAAATTTTAAGCTGATTCAATATTATAA
1 AAATATATTCAACATAAAATTTTAAGCTAAGTCAATATTATAA
* *
65673 AAATATATTCAACATAAAATTTTATA-TTAAGTCAACATTATA
1 AAATATATTCAACATAAAATTTTA-AGCTAAGTCAATATTATA
65715 TTATATTTAC
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
43 76 0.99
44 1 0.01
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (43 bp):
AAATATATTCAACATAAAATTTTAAGCTAAGTCAATATTATAA
Found at i:70734 original size:20 final size:21
Alignment explanation
Indices: 70705--70744 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
70695 ATTTAATAAT
70705 TTAAACTATT-TTTATTTAAC
1 TTAAACTATTATTTATTTAAC
*
70725 TTAAATTATTATTTATTTAA
1 TTAAACTATTATTTATTTAA
70745 TAAAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (21 bp):
TTAAACTATTATTTATTTAAC
Found at i:70751 original size:21 final size:20
Alignment explanation
Indices: 70711--70756 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
70701 TAATTTAAAC
*
70711 TATTTTTATTTAACTTAAAT
1 TATTTTTATTTAACTAAAAT
*
70731 TATTATTTATTTAA-TAAAAA
1 TATT-TTTATTTAACTAAAAT
70751 TATTTT
1 TATTTT
70757 AATATTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 2 0.09
20 12 0.52
21 9 0.39
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTTTTATTTAACTAAAAT
Found at i:78555 original size:14 final size:14
Alignment explanation
Indices: 78531--78584 Score: 67
Period size: 14 Copynumber: 3.9 Consensus size: 14
78521 TTAAAAATAT
78531 AATAT-TTATATTA
1 AATATATTATATTA
78544 AATATATTATATTA
1 AATATATTATATTA
* *
78558 ATTATATTTTA-TA
1 AATATATTATATTA
78571 AATTATATTATATT
1 AA-TATATTATATT
78585 TATTTTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
13 8 0.24
14 25 0.74
15 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AATATATTATATTA
Found at i:78561 original size:9 final size:10
Alignment explanation
Indices: 78536--78616 Score: 57
Period size: 9 Copynumber: 8.7 Consensus size: 10
78526 AATATAATAT
78536 TTATATTA-A
1 TTATATTATA
*
78545 ATATATTATA
1 TTATATTATA
78555 TTA-ATTATA
1 TTATATTATA
* *
78564 TTTTA-TAAA
1 TTATATTATA
78573 TTATATTATA
1 TTATATTATA
* *
78583 TT-TATTTTT
1 TTATATTATA
78592 TTATATT-TA
1 TTATATTATA
**
78601 TTA-AACATA
1 TTATATTATA
78610 TTATATT
1 TTATATT
78617 TTTATACTAC
Statistics
Matches: 53, Mismatches: 13, Indels: 11
0.69 0.17 0.14
Matches are distributed among these distances:
8 1 0.02
9 38 0.72
10 14 0.26
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (10 bp):
TTATATTATA
Found at i:78562 original size:23 final size:24
Alignment explanation
Indices: 78527--78588 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
78517 AAATTTAAAA
* *
78527 ATATAATATTTATATTAAATATATT
1 ATATTATA-TTATATTAAATAAATT
**
78552 ATATTA-ATTATATTTTATAAATT
1 ATATTATATTATATTAAATAAATT
78575 ATATTATATT-TATT
1 ATATTATATTATATT
78589 TTTTTATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 23 0.72
24 4 0.12
25 5 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
ATATTATATTATATTAAATAAATT
Found at i:78603 original size:28 final size:30
Alignment explanation
Indices: 78535--78603 Score: 83
Period size: 28 Copynumber: 2.4 Consensus size: 30
78525 AAATATAATA
*
78535 TTTATATTAAATATATTATATTAATTATAT
1 TTTATATTAATTATATTATATTAATTATAT
*
78565 TTTATA--AATTATATTATATTTATT-T-T
1 TTTATATTAATTATATTATATTAATTATAT
*
78591 TTTATATTTATTA
1 TTTATATTAATTA
78604 AACATATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 7 0.21
27 1 0.03
28 20 0.59
30 6 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (30 bp):
TTTATATTAATTATATTATATTAATTATAT
Found at i:78902 original size:29 final size:30
Alignment explanation
Indices: 78847--78903 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
78837 TTAATTTTTA
*
78847 TAATTAAAATAATATATTTTAATTTAAATT
1 TAATTAAAATAATATATTATAATTTAAATT
78877 TAATTAAAA-AATATA-TATAATATTAAA
1 TAATTAAAATAATATATTATAAT-TTAAA
78904 AAAATAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 5 0.20
29 11 0.44
30 9 0.36
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (30 bp):
TAATTAAAATAATATATTATAATTTAAATT
Found at i:78928 original size:20 final size:20
Alignment explanation
Indices: 78905--78960 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 20
78895 AATATTAAAA
*
78905 AAATAAATTTTAAATTT-TAT
1 AAATAAA-TTTAAATTTATAC
78925 AAATAATAATTTAAATTTATAC
1 AAAT-A-AATTTAAATTTATAC
78947 AAATAAATTTAAAT
1 AAATAAATTTAAAT
78961 AAATAAACTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 13 0.41
21 11 0.34
22 8 0.25
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
AAATAAATTTAAATTTATAC
Found at i:80503 original size:16 final size:16
Alignment explanation
Indices: 80484--80528 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
80474 ATAATAATTT
80484 AATTTAATTTAAATAA
1 AATTTAATTTAAATAA
80500 AATTT-ATTTAAA-AA
1 AATTTAATTTAAATAA
*
80514 AATTATATTTTAAAT
1 AATT-TAATTTAAAT
80529 GATGACTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 6 0.24
15 8 0.32
16 11 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATTTAATTTAAATAA
Found at i:80631 original size:23 final size:23
Alignment explanation
Indices: 80605--80671 Score: 75
Period size: 23 Copynumber: 2.9 Consensus size: 23
80595 GTACATTAAA
*
80605 ATATAAAT-ATTTTTAAAAATTAT
1 ATATAAATAATATTTAAAAA-TAT
80628 ATATAAATAATATTTAAAAATAT
1 ATATAAATAATATTTAAAAATAT
* *
80651 ATTTATATACA-ATTTAAAAAT
1 ATATAAATA-ATATTTAAAAAT
80672 TAATAATTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
23 28 0.72
24 11 0.28
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (23 bp):
ATATAAATAATATTTAAAAATAT
Found at i:80648 original size:13 final size:12
Alignment explanation
Indices: 80609--80655 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
80599 ATTAAAATAT
*
80609 AAATATTTTTAA
1 AAATATATTTAA
* *
80621 AAAT-TATATAT
1 AAATATATTTAA
80632 AAATAATATTTAA
1 AAAT-ATATTTAA
80645 AAATATATTTA
1 AAATATATTTA
80656 TATACAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
11 8 0.29
12 11 0.39
13 9 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
AAATATATTTAA
Found at i:81252 original size:20 final size:20
Alignment explanation
Indices: 81224--81265 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
81214 TTATTTATTT
81224 TTTAAATTAAAAATATGATA
1 TTTAAATTAAAAATATGATA
* * *
81244 TTTATATTAAATATATTATA
1 TTTAAATTAAAAATATGATA
81264 TT
1 TT
81266 AATTATATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TTTAAATTAAAAATATGATA
Found at i:81264 original size:14 final size:14
Alignment explanation
Indices: 81241--81331 Score: 59
Period size: 14 Copynumber: 6.9 Consensus size: 14
81231 TAAAAATATG
81241 ATAT-TTATATTAA
1 ATATATTATATTAA
81254 ATATATTATATTAA
1 ATATATTATATTAA
* *
81268 TTATATTTTA-TAA
1 ATATATTATATTAA
* *
81281 ATAATATCATATTTA
1 AT-ATATTATATTAA
* *
81296 TTAT-TTA-ATT-T
1 ATATATTATATTAA
*
81307 TTATATT-TATTAA
1 ATATATTATATTAA
*
81320 ATGTATTATATT
1 ATATATTATATT
81332 TACATTATAT
Statistics
Matches: 59, Mismatches: 12, Indels: 13
0.70 0.14 0.15
Matches are distributed among these distances:
11 4 0.07
12 8 0.14
13 15 0.25
14 29 0.49
15 3 0.05
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (14 bp):
ATATATTATATTAA
Found at i:81298 original size:28 final size:29
Alignment explanation
Indices: 81241--81299 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
81231 TAAAAATATG
*
81241 ATATTTATATTAAATATATTATATTAATT
1 ATATTTATATTAAATATATCATATTAATT
*
81270 ATATTT-TA-TAAATAATATCATATTTATT
1 ATATTTATATTAAAT-ATATCATATTAATT
81298 AT
1 AT
81300 TTAATTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 5 0.19
28 16 0.59
29 6 0.22
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (29 bp):
ATATTTATATTAAATATATCATATTAATT
Found at i:81456 original size:23 final size:22
Alignment explanation
Indices: 81422--81468 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
81412 TTCTTAGGTT
*
81422 ATTGACTTTAATCTAATTAATTA
1 ATTGACTCTAATCTAATT-ATTA
*
81445 ATTGACTCTAATTTAATTATTA
1 ATTGACTCTAATCTAATTATTA
81467 AT
1 AT
81469 AGTTAGATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (22 bp):
ATTGACTCTAATCTAATTATTA
Found at i:82174 original size:14 final size:14
Alignment explanation
Indices: 82155--82201 Score: 60
Period size: 13 Copynumber: 3.4 Consensus size: 14
82145 TAATATATTA
82155 TTTATATTAATAAT
1 TTTATATTAATAAT
*
82169 TTTATA-TAAAAAT
1 TTTATATTAATAAT
*
82182 TTAATAATTAATAAT
1 TTTAT-ATTAATAAT
82197 TTTAT
1 TTTAT
82202 TTCTAATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 10 0.37
14 7 0.26
15 10 0.37
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTATATTAATAAT
Found at i:82382 original size:35 final size:34
Alignment explanation
Indices: 82338--82406 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 34
82328 AAAAGTATAT
*
82338 TTATATATATTTTAAAATTTAATAAAAATTATTAAA
1 TTATATATATATTAAAATTTAA-AAAAA-TATTAAA
*
82374 TTAT-TATATATTAAAATTTAAAAATATATTAAA
1 TTATATATATATTAAAATTTAAAAAAATATTAAA
82407 AAATAATACA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
33 7 0.23
34 4 0.13
35 16 0.52
36 4 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (34 bp):
TTATATATATATTAAAATTTAAAAAAATATTAAA
Found at i:82688 original size:19 final size:21
Alignment explanation
Indices: 82646--82688 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
82636 TGTAAAGAGT
*
82646 TAAAAATATATTATTTAATGA
1 TAAAAATATATTATTAAATGA
*
82667 TAAAAATATTTTA-TAAAT-A
1 TAAAAATATATTATTAAATGA
82686 TAA
1 TAA
82689 TAATTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 4 0.20
21 12 0.60
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
TAAAAATATATTATTAAATGA
Found at i:83156 original size:15 final size:17
Alignment explanation
Indices: 83123--83157 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
83113 TTACTAATAG
83123 TAATAATAATTTAATTT
1 TAATAATAATTTAATTT
83140 TAATAA-AATTT-ATTT
1 TAATAATAATTTAATTT
83155 TAA
1 TAA
83158 AAATTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 5 0.28
17 6 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TAATAATAATTTAATTT
Found at i:83423 original size:21 final size:20
Alignment explanation
Indices: 83399--83438 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
83389 ATTTATATAT
83399 ATATTAAAATATAAAAATAAA
1 ATATTAAAATA-AAAAATAAA
* *
83420 ATATTTAAATAAATAATAA
1 ATATTAAAATAAAAAATAA
83439 TTTTTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATATTAAAATAAAAAATAAA
Found at i:83435 original size:17 final size:18
Alignment explanation
Indices: 83413--83446 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
83403 TAAAATATAA
83413 AAATAA-AATATTTAAAT
1 AAATAATAATATTTAAAT
*
83430 AAATAATAATTTTTAAA
1 AAATAATAATATTTAAA
83447 AATAATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATAATAATATTTAAAT
Found at i:83449 original size:16 final size:17
Alignment explanation
Indices: 83410--83452 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
83400 TATTAAAATA
83410 TAAAAATAA-AATATTT
1 TAAAAATAATAATATTT
*
83426 AAATAAATAATAAT-TTT
1 TAA-AAATAATAATATTT
83443 TAAAAATAAT
1 TAAAAATAAT
83453 TATTAGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 9 0.39
17 11 0.48
18 3 0.13
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAAAATAATAATATTT
Found at i:86568 original size:2 final size:2
Alignment explanation
Indices: 86551--86587 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
86541 GAAGCCGAGT
*
86551 TA TA TT TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
86588 CTGCATATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:96877 original size:23 final size:25
Alignment explanation
Indices: 96828--96877 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
96818 TCAATATATA
*
96828 TTTAAATATATATAAAAAATAATTT
1 TTTAAATATATATAAAAAAGAATTT
96853 TTTAAATATATAT-AAAAAGAATTT
1 TTTAAATATATATAAAAAAGAATTT
96877 T
1 T
96878 AAAAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAAATATATATAAAAAAGAATTT
Found at i:98568 original size:25 final size:23
Alignment explanation
Indices: 98523--98570 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
98513 ACCCTGTTTG
98523 AATAAATATAAATTATTTTTAAA
1 AATAAATATAAATTATTTTTAAA
* *
98546 AATATATATATAATTTTTATTTAAA
1 AATAAATATA-AATTATT-TTTAAA
98571 TTTAATTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.43
24 6 0.29
25 6 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
AATAAATATAAATTATTTTTAAA
Found at i:98610 original size:35 final size:34
Alignment explanation
Indices: 98551--98620 Score: 90
Period size: 33 Copynumber: 2.0 Consensus size: 34
98541 TTAAAAATAT
98551 ATATATAATTTTTATTTAAATTTAA-TTATAAAA
1 ATATATAATTTTTATTTAAATTTAACTTATAAAA
*
98584 ATATATAATTATTT-TTTAATATTTTAACTTTTAAAA
1 ATATATAATT-TTTATTTAA-A-TTTAACTTATAAAA
98620 A
1 A
98621 ATAACAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
33 15 0.47
34 4 0.12
35 5 0.16
36 8 0.25
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (34 bp):
ATATATAATTTTTATTTAAATTTAACTTATAAAA
Found at i:102986 original size:16 final size:16
Alignment explanation
Indices: 102966--103041 Score: 66
Period size: 16 Copynumber: 4.8 Consensus size: 16
102956 CAAAAATAAA
102966 ATAAAATATTAATTAT
1 ATAAAATATTAATTAT
* * *
102982 TTAAAATTTTATATAAT
1 ATAAAATATTA-ATTAT
*
102999 ATAAATTATTAA-TAT
1 ATAAAATATTAATTAT
* *
103014 ATTAAAAT-TTAAATAA
1 A-TAAAATATTAATTAT
103030 ATAAAATATTAA
1 ATAAAATATTAA
103042 AATATATACT
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
15 13 0.28
16 22 0.47
17 12 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATAAAATATTAATTAT
Found at i:103003 original size:33 final size:31
Alignment explanation
Indices: 102959--103046 Score: 106
Period size: 33 Copynumber: 2.7 Consensus size: 31
102949 AAAAAAACAA
102959 AAATAAAATAAAATATTAAT-TATTTAAAATTTT
1 AAAT-AAATAAAATATTAATATA-TTAAAA-TTT
* *
102992 ATATAATATAAATTATTAATATATTAAAATTT
1 AAATAA-ATAAAATATTAATATATTAAAATTT
*
103024 AAATAAATAAAATATTAAAATAT
1 AAATAAATAAAATATTAATATAT
103047 ATACTTCAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
31 15 0.31
32 10 0.21
33 21 0.44
34 2 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (31 bp):
AAATAAATAAAATATTAATATATTAAAATTT
Found at i:103580 original size:18 final size:18
Alignment explanation
Indices: 103557--103593 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
103547 AATTTTTTAA
103557 TTTGTTATT-GTAAATATT
1 TTTGTTATTAGTAAA-ATT
103575 TTTGTTATTAGTAAAATT
1 TTTGTTATTAGTAAAATT
103593 T
1 T
103594 ATTTAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (18 bp):
TTTGTTATTAGTAAAATT
Found at i:104495 original size:32 final size:33
Alignment explanation
Indices: 104459--104523 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
104449 TATATGAATA
*
104459 AATATTTAAAAAATTTTATAAA-ATAAATTATT
1 AATATTTAAAAAATTTTATAAATATAAAATATT
** *
104491 AATATTTTTAAATTTTTATAAATATAAAATATT
1 AATATTTAAAAAATTTTATAAATATAAAATATT
104524 TTATATATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 19 0.68
33 9 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (33 bp):
AATATTTAAAAAATTTTATAAATATAAAATATT
Found at i:104535 original size:34 final size:32
Alignment explanation
Indices: 104472--104535 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 32
104462 ATTTAAAAAA
* *
104472 TTTTATAAAATAAATTATTAATATTTTTAAAT
1 TTTTATAAAATAAAATATTAATATATTTAAAT
*
104504 TTTTATAAATATAAAATATTTTATATATTTAA
1 TTTTATAAA-ATAAAATA-TTAATATATTTAA
104536 TTATAATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 9 0.33
33 7 0.26
34 11 0.41
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (32 bp):
TTTTATAAAATAAAATATTAATATATTTAAAT
Found at i:105557 original size:14 final size:14
Alignment explanation
Indices: 105538--105587 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
105528 ACTATGAATA
105538 AATATTAATAATTT
1 AATATTAATAATTT
105552 AATATTTAAT-ATTT
1 AATA-TTAATAATTT
* * *
105566 AATAATAGTAAATT
1 AATATTAATAATTT
105580 AATATTAA
1 AATATTAA
105588 ATATAATCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
13 3 0.10
14 21 0.72
15 5 0.17
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (14 bp):
AATATTAATAATTT
Found at i:106175 original size:12 final size:12
Alignment explanation
Indices: 106160--106184 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
106150 TTATACATAT
106160 AATATTCTTAAA
1 AATATTCTTAAA
106172 AATATTCTTAAA
1 AATATTCTTAAA
106184 A
1 A
106185 CATTCCTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
AATATTCTTAAA
Found at i:109754 original size:17 final size:19
Alignment explanation
Indices: 109719--109758 Score: 66
Period size: 17 Copynumber: 2.2 Consensus size: 19
109709 TAATATCAAC
109719 ATAATTAAAATTATTAAAT
1 ATAATTAAAATTATTAAAT
109738 ATAA-TAAAATT-TTAAAT
1 ATAATTAAAATTATTAAAT
109755 ATAA
1 ATAA
109759 ATATGATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 10 0.48
18 7 0.33
19 4 0.19
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAATTAAAATTATTAAAT
Found at i:109761 original size:18 final size:19
Alignment explanation
Indices: 109719--109761 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
109709 TAATATCAAC
*
109719 ATAATTAAAATTATTAAAT
1 ATAAATAAAATTATTAAAT
109738 AT-AATAAAATT-TTAAAT
1 ATAAATAAAATTATTAAAT
109755 ATAAATA
1 ATAAATA
109762 TGATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 8 0.36
18 12 0.55
19 2 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAAATAAAATTATTAAAT
Found at i:109792 original size:14 final size:14
Alignment explanation
Indices: 109773--109802 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
109763 GATATATATG
109773 TATTAAACATATTT
1 TATTAAACATATTT
*
109787 TATTAATCATATTT
1 TATTAAACATATTT
109801 TA
1 TA
109803 AGTATATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (14 bp):
TATTAAACATATTT
Found at i:109815 original size:5 final size:5
Alignment explanation
Indices: 109805--109845 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
109795 ATATTTTAAG
*
109805 TATAT TATAT TATAT T-TAT TATAT TATTTT TATAT T-TAT TA
1 TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT TATAT TA
109846 AATGGATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
4 8 0.26
5 19 0.61
6 4 0.13
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (5 bp):
TATAT
Found at i:109822 original size:20 final size:21
Alignment explanation
Indices: 109799--109842 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
109789 TTAATCATAT
109799 TTTAAGTATATTA-TATTATA
1 TTTAAGTATATTATTATTATA
* *
109819 TTT-ATTATATTATTTTTATA
1 TTTAAGTATATTATTATTATA
109839 TTTA
1 TTTA
109843 TTAAATGGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTAAGTATATTATTATTATA
Found at i:109826 original size:14 final size:14
Alignment explanation
Indices: 109807--109837 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
109797 ATTTTAAGTA
109807 TATTATATTATATT
1 TATTATATTATATT
*
109821 TATTATATTATTTT
1 TATTATATTATATT
109835 TAT
1 TAT
109838 ATTTATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATTATATT
Found at i:109843 original size:20 final size:19
Alignment explanation
Indices: 109805--109845 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
109795 ATATTTTAAG
109805 TATATTATATTATATTTAT
1 TATATTATATTATATTTAT
*
109824 TATATTATTTTTATATTTAT
1 TATATTA-TATTATATTTAT
109844 TA
1 TA
109846 AATGGATATT
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TATATTATATTATATTTAT
Found at i:110689 original size:32 final size:33
Alignment explanation
Indices: 110607--110696 Score: 86
Period size: 28 Copynumber: 2.9 Consensus size: 33
110597 TATTTTTATT
110607 TAAAT-TTAATTATTAAATTTTACATATTAATATA
1 TAAATATTAATT-TTAAATTTTA-ATATTAATATA
* * *
110641 AAAATATT--TTTT--ATTTT-TTATTAATTTA
1 TAAATATTAATTTTAAATTTTAATATTAATATA
110669 TAAATATTAATTTTAAATTTTAA-ATTAA
1 TAAATATTAATTTTAAATTTTAATATTAA
110697 ACTCGATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
28 16 0.36
30 9 0.20
32 12 0.27
33 2 0.04
34 4 0.09
35 2 0.04
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (33 bp):
TAAATATTAATTTTAAATTTTAATATTAATATA
Found at i:110691 original size:13 final size:14
Alignment explanation
Indices: 110659--110691 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
110649 TTTTATTTTT
110659 TATTAATTTATAAA
1 TATTAATTTATAAA
110673 TATTAATTT-TAAA
1 TATTAATTTATAAA
*
110686 TTTTAA
1 TATTAA
110692 ATTAAACTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATTAATTTATAAA
Found at i:112282 original size:19 final size:19
Alignment explanation
Indices: 112258--112296 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
112248 ACATTGACTT
112258 ATTTATTAATTAATCTATA
1 ATTTATTAATTAATCTATA
* *
112277 ATTTATTCATTAATTTATA
1 ATTTATTAATTAATCTATA
112296 A
1 A
112297 ACATTTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTATTAATTAATCTATA
Found at i:112625 original size:13 final size:15
Alignment explanation
Indices: 112609--112641 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
112599 AAATTTATTG
112609 ATATTAT-TTTAA-A
1 ATATTATATTTAATA
112622 ATATTATATTTAATA
1 ATATTATATTTAATA
112637 ATATT
1 ATATT
112642 TAAATAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 5 0.28
15 6 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATTATATTTAATA
Found at i:114298 original size:13 final size:13
Alignment explanation
Indices: 114280--114304 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
114270 AATATGTATA
114280 AAATATAAATATC
1 AAATATAAATATC
114293 AAATATAAATAT
1 AAATATAAATAT
114305 TTAAAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATATAAATATC
Found at i:122024 original size:15 final size:15
Alignment explanation
Indices: 121982--122054 Score: 80
Period size: 14 Copynumber: 4.9 Consensus size: 15
121972 AAAATAGGCT
*
121982 TTGAATGAAAACTTAA
1 TTGAATG-AAAGTTAA
121998 TT-AGAT-AAAGTTAA
1 TTGA-ATGAAAGTTAA
122012 TTGAATGAAAGTTTAA
1 TTGAATGAAAG-TTAA
*
122028 TTAAAT-AAAGTTAA
1 TTGAATGAAAGTTAA
122042 TTGAATGAAAGTT
1 TTGAATGAAAGTT
122055 TAATAAGTGA
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
14 20 0.41
15 16 0.33
16 13 0.27
ACGTcount: A:0.48, C:0.01, G:0.15, T:0.36
Consensus pattern (15 bp):
TTGAATGAAAGTTAA
Found at i:122052 original size:30 final size:30
Alignment explanation
Indices: 121982--122058 Score: 127
Period size: 30 Copynumber: 2.6 Consensus size: 30
121972 AAAATAGGCT
** *
121982 TTGAATGAAAACTTAATTAGATAAAGTTAA
1 TTGAATGAAAGTTTAATTAAATAAAGTTAA
122012 TTGAATGAAAGTTTAATTAAATAAAGTTAA
1 TTGAATGAAAGTTTAATTAAATAAAGTTAA
122042 TTGAATGAAAGTTTAAT
1 TTGAATGAAAGTTTAAT
122059 AAGTGAACAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.48, C:0.01, G:0.14, T:0.36
Consensus pattern (30 bp):
TTGAATGAAAGTTTAATTAAATAAAGTTAA
Found at i:127989 original size:3 final size:3
Alignment explanation
Indices: 127981--128012 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
127971 TATATATTTT
127981 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
128013 TTCTTTTTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:128222 original size:12 final size:12
Alignment explanation
Indices: 128205--128244 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
128195 ACATAATTAT
128205 AATATATAAATA
1 AATATATAAATA
128217 AATATATAAAT-
1 AATATATAAATA
*
128228 TATGATATAAATA
1 AAT-ATATAAATA
128241 AATA
1 AATA
128245 AATTATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 2 0.08
12 20 0.83
13 2 0.08
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (12 bp):
AATATATAAATA
Found at i:128650 original size:16 final size:16
Alignment explanation
Indices: 128631--128662 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
128621 TAAAATAAAA
128631 TTTTAATTTTTAATTTT
1 TTTTAA-TTTTAATTTT
128648 TTTTAATTTTAATTT
1 TTTTAATTTTAATTT
128663 ATTCAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTAATTTTAATTTT
Found at i:133180 original size:4 final size:4
Alignment explanation
Indices: 133171--133202 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
133161 AGGCTAAAAT
133171 ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATCC
1 ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATCC
133203 CACCTTCACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.50, G:0.00, T:0.25
Consensus pattern (4 bp):
ATCC
Found at i:135302 original size:14 final size:15
Alignment explanation
Indices: 135283--135311 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
135273 TTTAGGAATT
135283 GAAAACAG-AAAACA
1 GAAAACAGTAAAACA
135297 GAAAACAGTAAAACA
1 GAAAACAGTAAAACA
135312 ATGAAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.69, C:0.14, G:0.14, T:0.03
Consensus pattern (15 bp):
GAAAACAGTAAAACA
Found at i:135850 original size:34 final size:34
Alignment explanation
Indices: 135812--135892 Score: 85
Period size: 34 Copynumber: 2.4 Consensus size: 34
135802 AAAAATAGAT
*
135812 AATTGTTTAAAAATTTATAT-TATATAAATTATTA
1 AATTGTTTAAAAATATATATATATATAAA-TATTA
* * * *
135846 AATTGTTGATATATATATATATATATAAATATTT
1 AATTGTTTAAAAATATATATATATATAAATATTA
135880 AATAT-TTTAAAAA
1 AAT-TGTTTAAAAA
135893 ATAAATTATA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
34 28 0.76
35 9 0.24
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (34 bp):
AATTGTTTAAAAATATATATATATATAAATATTA
Found at i:136153 original size:5 final size:6
Alignment explanation
Indices: 136137--136161 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
136127 TGTTTCTAAT
136137 TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA T
136162 GATATAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:136915 original size:16 final size:15
Alignment explanation
Indices: 136894--136935 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
136884 AAAAATTTTT
136894 ATTTAATAATAAATTA
1 ATTTAAT-ATAAATTA
*
136910 ATTTAATTTAAATTA
1 ATTTAATATAAATTA
*
136925 AATTAAT-TAAA
1 ATTTAATATAAA
136936 ATTTAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 4 0.17
15 13 0.54
16 7 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTTAATATAAATTA
Found at i:136923 original size:15 final size:15
Alignment explanation
Indices: 136903--136948 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
136893 TATTTAATAA
*
136903 TAAATTAATTTAATT
1 TAAATTAAATTAATT
136918 TAAATTAAATTAATT
1 TAAATTAAATTAATT
* * *
136933 AAAATTTAATAAATT
1 TAAATTAAATTAATT
136948 T
1 T
136949 TTAAATAGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TAAATTAAATTAATT
Found at i:162013 original size:18 final size:18
Alignment explanation
Indices: 161986--162039 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
161976 TTTAATTCAT
*
161986 ATTAAATTAAATATAATA
1 ATTAATTTAAATATAATA
*
162004 ATTAATTTAAAT-TAAATT
1 ATTAATTTAAATAT-AATA
162022 ATT-ATTT--ATATAATA
1 ATTAATTTAAATATAATA
162037 ATT
1 ATT
162040 TTTTATTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 8 0.26
16 1 0.03
17 5 0.16
18 17 0.55
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
ATTAATTTAAATATAATA
Found at i:162082 original size:41 final size:41
Alignment explanation
Indices: 162005--162085 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
161995 AATATAATAA
* *
162005 TTAATTTAAATTAAATTATTATTTATATAATAATTTTTTAT
1 TTAATTTAAATTAAATTATTATATATAAAATAATTTTTTAT
*
162046 TTAATTTTAATTATAATTATTA-ATATAAAA-ATATTTTTTA
1 TTAATTTAAATTA-AATTATTATATATAAAATA-ATTTTTTA
162086 ATTTTTTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 1 0.03
41 26 0.74
42 8 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (41 bp):
TTAATTTAAATTAAATTATTATATATAAAATAATTTTTTAT
Found at i:162104 original size:11 final size:10
Alignment explanation
Indices: 162075--162107 Score: 50
Period size: 9 Copynumber: 3.3 Consensus size: 10
162065 TTAATATAAA
162075 AATATTTTTT
1 AATATTTTTT
162085 AAT-TTTTTT
1 AATATTTTTT
162094 AATATTCTTTT
1 AATATT-TTTT
162105 AAT
1 AAT
162108 TTTAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.43
10 5 0.24
11 7 0.33
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (10 bp):
AATATTTTTT
Found at i:162990 original size:18 final size:18
Alignment explanation
Indices: 162969--163007 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
162959 AAGAATAAAA
*
162969 TTTTAAA-AATAATTTATT
1 TTTTAAATAA-AAATTATT
162987 TTTTAAATAAAAATTATT
1 TTTTAAATAAAAATTATT
163005 TTT
1 TTT
163008 ATTATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTAAATAAAAATTATT
Found at i:163015 original size:23 final size:22
Alignment explanation
Indices: 162972--163019 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
162962 AATAAAATTT
162972 TAAAAATAATTTATTTTTTAAA
1 TAAAAATAATTTATTTTTTAAA
*
162994 TAAAAATTATTT-TTATTATTAAA
1 TAAAAATAATTTATT-TT-TTAAA
163017 TAA
1 TAA
163020 CATGACGCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 2 0.09
22 13 0.57
23 8 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TAAAAATAATTTATTTTTTAAA
Found at i:164391 original size:2 final size:2
Alignment explanation
Indices: 164384--164422 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
164374 ATCATGCCTA
*
164384 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A- 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
164423 TATTTTGCAG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:169363 original size:30 final size:28
Alignment explanation
Indices: 169327--169386 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
169317 TATATTCATA
169327 TTATAATTATATTTTAAATATTTTAAATAT
1 TTATAATTATATTTT--ATATTTTAAATAT
* *
169357 TTATAATTTTATTTTATATTTTAATTAT
1 TTATAATTATATTTTATATTTTAAATAT
169385 TT
1 TT
169387 TTTTATTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 14 0.50
30 14 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (28 bp):
TTATAATTATATTTTATATTTTAAATAT
Found at i:169377 original size:19 final size:19
Alignment explanation
Indices: 169306--169392 Score: 63
Period size: 19 Copynumber: 4.6 Consensus size: 19
169296 AAAATCAAAT
* * *
169306 TTATTAATTTATATATTCA
1 TTATTATTTTATATTTTAA
*
169325 -TATTATAATTATATTTTAA
1 TTATTAT-TTTATATTTTAA
* **
169344 ATATT-TTAAATATTTATAA
1 TTATTATTTTATATTT-TAA
169363 TT-TTATTTTATATTTTAA
1 TTATTATTTTATATTTTAA
*
169381 TTATTTTTTTAT
1 TTATTATTTTAT
169393 TATATTCATA
Statistics
Matches: 52, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
18 18 0.35
19 30 0.58
20 4 0.08
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (19 bp):
TTATTATTTTATATTTTAA
Found at i:169386 original size:21 final size:20
Alignment explanation
Indices: 169345--169398 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
169335 ATATTTTAAA
*
169345 TATTTTAAATATTTATAATTT
1 TATTTTATAT-TTTATAATTT
*
169366 TATTTTATATTTTAATTATTT
1 TATTTTATATTTT-ATAATTT
*
169387 TTTTATTATATT
1 TATT-TTATATT
169399 CATAAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.11
21 18 0.64
22 7 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TATTTTATATTTTATAATTT
Found at i:170709 original size:14 final size:14
Alignment explanation
Indices: 170690--170740 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
170680 CTTCGACTTT
170690 TATTTTT-TTTTAAA
1 TATTTTTATTTT-AA
170704 TATTTTTATTTTAA
1 TATTTTTATTTTAA
*
170718 TATTTATATTCGTT-A
1 TATTTTTATT--TTAA
170733 TATTTTTA
1 TATTTTTA
170741 AAAGTTAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 18 0.56
15 12 0.38
16 2 0.06
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (14 bp):
TATTTTTATTTTAA
Done.