Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold1840.1
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: 350483
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.31
Warning! 8372 characters in sequence are not A, C, G, or T
Found at i:2776 original size:43 final size:43
Alignment explanation
Indices: 2728--2870 Score: 157
Period size: 43 Copynumber: 3.3 Consensus size: 43
2718 TGCTTACATT
* *
2728 TAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTACGTG
1 TAAGACCATATCTGGGACATTGGCATCGTATTGTGATTACGTG
* * *
2771 TAAGACCATGTCTGGGACGTTGGCATCGTTAAT-TGATTACGTG
1 TAAGACCATATCTGGGACATTGGCATCG-TATTGTGATTACGTG
* * * *
2814 TAAGACCCTATCTAGGACAGTGGCATCG-ATGTGTGA-TAGCATG
1 TAAGACCATATCTGGGACATTGGCATCGTAT-TGTGATTA-CGTG
2857 TAAGACCATATCTG
1 TAAGACCATATCTG
2871 AGATATGTCA
Statistics
Matches: 84, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
41 1 0.01
42 3 0.04
43 77 0.92
44 3 0.04
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
TAAGACCATATCTGGGACATTGGCATCGTATTGTGATTACGTG
Found at i:5033 original size:13 final size:14
Alignment explanation
Indices: 5002--5035 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
4992 CTTATTTTTG
*
5002 AAACATAACTTTAA
1 AAACATGACTTTAA
5016 AAACATGACTTT-A
1 AAACATGACTTTAA
5029 AAACATG
1 AAACATG
5036 TATTAAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.26
Consensus pattern (14 bp):
AAACATGACTTTAA
Found at i:22405 original size:42 final size:42
Alignment explanation
Indices: 22346--22429 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
22336 TCTGGGTACA
*
22346 AGGTTGGACTTCAGTACTGCGTTCCATCCTCAAACGGATGGT
1 AGGTTGGACTTCAGTACTGCGTTCCATCCTCAAACAGATGGT
*
22388 AGGTTGGACTTCAGTACTGCGTTCCATCCTCAGACAGATGGT
1 AGGTTGGACTTCAGTACTGCGTTCCATCCTCAAACAGATGGT
22430 CAGTCCGAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (42 bp):
AGGTTGGACTTCAGTACTGCGTTCCATCCTCAAACAGATGGT
Found at i:25453 original size:28 final size:28
Alignment explanation
Indices: 25422--25505 Score: 87
Period size: 33 Copynumber: 2.8 Consensus size: 28
25412 TACTGAATTA
*
25422 GGCTTAGGCCCACACTGTTACTGTATAG
1 GGCTAAGGCCCACACTGTTACTGTATAG
*
25450 GGCTAAGGCCCAGACTTTACTGATACTGTATAG
1 GGCTAAGGCCC--AC---ACTGTTACTGTATAG
* *
25483 GGCTAAGGCCTAGACTGTTACTG
1 GGCTAAGGCCCACACTGTTACTG
25506 CATGCTGTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
28 19 0.41
30 2 0.04
31 1 0.02
33 24 0.52
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (28 bp):
GGCTAAGGCCCACACTGTTACTGTATAG
Found at i:25477 original size:33 final size:34
Alignment explanation
Indices: 25435--25505 Score: 117
Period size: 33 Copynumber: 2.1 Consensus size: 34
25425 TTAGGCCCAC
*
25435 ACTGTTACTGTATAGGGCTAAGGCCCAGACT-TT
1 ACTGATACTGTATAGGGCTAAGGCCCAGACTGTT
*
25468 ACTGATACTGTATAGGGCTAAGGCCTAGACTGTT
1 ACTGATACTGTATAGGGCTAAGGCCCAGACTGTT
25502 ACTG
1 ACTG
25506 CATGCTGTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 29 0.83
34 6 0.17
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (34 bp):
ACTGATACTGTATAGGGCTAAGGCCCAGACTGTT
Found at i:33043 original size:46 final size:46
Alignment explanation
Indices: 32991--33163 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
32981 TGGTTGAGCA
*
32991 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATG
* * * *
33037 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTA-ACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-AGA--ATG
* *
33082 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATG
* * *
33130 CCCGAGCTCGTTGAGTTGAGTCCTAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
33164 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 4 0.04
46 57 0.55
47 27 0.26
48 4 0.04
50 5 0.05
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATG
Found at i:33147 original size:93 final size:93
Alignment explanation
Indices: 32988--33158 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
32978 GGATGGTTGA
** **
32988 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATGCCCGAACTCGTTGAGT
33053 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
33081 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATGCCCGAACTCGTTGAGT
*
33146 TGAGTCCTAGTTC
66 TGAGTCCGAGTTC
33159 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:38417 original size:28 final size:28
Alignment explanation
Indices: 38351--38501 Score: 198
Period size: 28 Copynumber: 5.4 Consensus size: 28
38341 GAGATTGGCG
* * *
38351 CTAAGTGTGCGGGTTTAAAT-TGTACGGCA
1 CTAAGTGTGCGAGTTTGATTATGTA--GCA
38380 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
38408 CTAAGTGTGCGAGTTTGATTACGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
* *
38436 CTAAGTGTACGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
38464 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
38491 CTGAGTGTGCG
1 CTAAGTGTGCG
38502 GACTTAATAT
Statistics
Matches: 112, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.21
28 67 0.60
29 17 0.15
30 4 0.04
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:44013 original size:12 final size:12
Alignment explanation
Indices: 43998--44022 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43988 CCTAAAAAAA
43998 TATAATTTGAAC
1 TATAATTTGAAC
44010 TATAATTTGAAC
1 TATAATTTGAAC
44022 T
1 T
44023 CACAAAAGCA
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:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TATAATTTGAAC
Found at i:45698 original size:120 final size:121
Alignment explanation
Indices: 45475--45714 Score: 464
Period size: 120 Copynumber: 2.0 Consensus size: 121
45465 TAGAAAATGT
*
45475 TCTCTCTTTCTCAAACTTTCTATCTTCTTTCTCTATTAATCCTTTGAATCTTGAAGAGAATTTCA
1 TCTCTCTTTCTCAAACTTTCTATCTTCTTTCTCTATTAATCCTCTGAATCTTGAAGAGAATTTCA
45540 ACTTTCTAACAGGTAGGGAAGTGTTGGCAACCTTGACAAAGAAACAATAGAACTCA
66 ACTTTCTAACAGGTAGGGAAGTGTTGGCAACCTTGACAAAGAAACAATAGAACTCA
45596 TCTCTCTTTCTCAAACTTTCTATCTTCTTTCTCTATTAATCCTCTGAATCTT-AAGAGAATTTCA
1 TCTCTCTTTCTCAAACTTTCTATCTTCTTTCTCTATTAATCCTCTGAATCTTGAAGAGAATTTCA
45660 ACTTTCTAACAGGTAGGGAAGTGTTGGCAACCTTGACAAAGAAACAATAGAACTC
66 ACTTTCTAACAGGTAGGGAAGTGTTGGCAACCTTGACAAAGAAACAATAGAACTC
45715 TAGAAGCACA
Statistics
Matches: 118, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
120 67 0.57
121 51 0.43
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.35
Consensus pattern (121 bp):
TCTCTCTTTCTCAAACTTTCTATCTTCTTTCTCTATTAATCCTCTGAATCTTGAAGAGAATTTCA
ACTTTCTAACAGGTAGGGAAGTGTTGGCAACCTTGACAAAGAAACAATAGAACTCA
Found at i:50490 original size:49 final size:50
Alignment explanation
Indices: 50412--50609 Score: 245
Period size: 50 Copynumber: 4.0 Consensus size: 50
50402 ATCTATTGTG
* * *
50412 AGGTCCCATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* *
50462 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TT
* * * * ** **
50512 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* *
50562 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA
50610 CTTTGGCTAC
Statistics
Matches: 124, Mismatches: 22, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
49 42 0.34
50 44 0.35
51 38 0.31
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
Found at i:50596 original size:101 final size:100
Alignment explanation
Indices: 50420--50612 Score: 332
Period size: 101 Copynumber: 1.9 Consensus size: 100
50410 TGAGGTCCCA
50420 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACATGTGTAGTACTAAGTG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACATGTGTAGTACTAAGTG
*
50485 CAGGCTACTATGCGTACCCGATAACTTCGATCACG
66 CAGGCTACTATGCGTACCAGATAACTTCGATCACG
* ** *
50520 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTTAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATT-GGTCACATGTGTAGTACTAAGT
50585 GCAGGCTACTATGCGTACCAGATAACTT
65 GCAGGCTACTATGCGTACCAGATAACTT
50613 TGGCTACAAG
Statistics
Matches: 87, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
100 39 0.45
101 48 0.55
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (100 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACATGTGTAGTACTAAGTG
CAGGCTACTATGCGTACCAGATAACTTCGATCACG
Found at i:51908 original size:27 final size:26
Alignment explanation
Indices: 51871--51921 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
51861 GGGGTGTTAC
*
51871 ATATAAACTATCAATTTATTATATATT
1 ATATAAACTATCAATATA-TATATATT
* *
51898 ATATGAACTATTAATATATATATA
1 ATATAAACTATCAATATATATATA
51922 GTAAAATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (26 bp):
ATATAAACTATCAATATATATATATT
Found at i:53051 original size:21 final size:20
Alignment explanation
Indices: 53005--53051 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
52995 TTTATCTATG
*
53005 TTTTGAATTTTTTTTGTTAT
1 TTTTTAATTTTTTTTGTTAT
53025 TCTTTTAATTTTCTTTTAGTT-T
1 T-TTTTAATTTT-TTTT-GTTAT
53047 TTTTT
1 TTTTT
53052 TTGGTTTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 13 0.57
22 6 0.26
23 3 0.13
ACGTcount: A:0.13, C:0.04, G:0.06, T:0.77
Consensus pattern (20 bp):
TTTTTAATTTTTTTTGTTAT
Found at i:53053 original size:23 final size:22
Alignment explanation
Indices: 53005--53063 Score: 57
Period size: 23 Copynumber: 2.7 Consensus size: 22
52995 TTTATCTATG
*
53005 TTTTGAATTTT-TTTTGTTATT
1 TTTTTAATTTTCTTTTGTTATT
* *
53026 CTTTTAATTTTCTTTTAGTTTTT
1 TTTTTAATTTTCTTTT-GTTATT
**
53049 TTTTTGGTTTTCTTT
1 TTTTTAATTTTCTTT
53064 GTTTCTAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 9 0.30
22 4 0.13
23 17 0.57
ACGTcount: A:0.10, C:0.05, G:0.08, T:0.76
Consensus pattern (22 bp):
TTTTTAATTTTCTTTTGTTATT
Found at i:53392 original size:19 final size:18
Alignment explanation
Indices: 53370--53429 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 18
53360 TCCCCCCCCC
53370 AAAAAAAAGAAAAAATTGA
1 AAAAAAAAGAAAAAA-TGA
** *
53389 AAAACCAAGAAAATATGA
1 AAAAAAAAGAAAAAATGA
53407 AAAAGAGAAA-AAAAAATGA
1 AAAA-A-AAAGAAAAAATGA
53426 AAAA
1 AAAA
53430 GAATTCAAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 7 0.21
19 24 0.73
20 2 0.06
ACGTcount: A:0.77, C:0.03, G:0.12, T:0.08
Consensus pattern (18 bp):
AAAAAAAAGAAAAAATGA
Found at i:55293 original size:18 final size:18
Alignment explanation
Indices: 55255--55294 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
55245 ATTGGAAATG
*
55255 TAAATAATTAATGGATGA
1 TAAATAATTAATGGATAA
55273 TAAATAATTAATAGGA-AA
1 TAAATAATTAAT-GGATAA
55291 TAAA
1 TAAA
55295 ATCATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (18 bp):
TAAATAATTAATGGATAA
Found at i:59969 original size:16 final size:16
Alignment explanation
Indices: 59948--60056 Score: 76
Period size: 16 Copynumber: 6.7 Consensus size: 16
59938 TGCATATTTT
59948 CATAGCTCACACATTA
1 CATAGCTCACACATTA
**
59964 CATAGCTTGCACATTA
1 CATAGCTCACACATTA
* * * *
59980 CACAACTCGCACATCA
1 CATAGCTCACACATTA
**
59996 TTGTAGCTCACACATTA
1 -CATAGCTCACACATTA
* * *
60013 TAGAGCTCACACATCA
1 CATAGCTCACACATTA
*
60029 C-TATGACTCACAAATTA
1 CATA-G-CTCACACATTA
60046 CATAGCTCACA
1 CATAGCTCACA
60057 TATCATTACA
Statistics
Matches: 70, Mismatches: 19, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
15 1 0.01
16 46 0.66
17 21 0.30
18 2 0.03
ACGTcount: A:0.36, C:0.30, G:0.09, T:0.25
Consensus pattern (16 bp):
CATAGCTCACACATTA
Found at i:60026 original size:33 final size:31
Alignment explanation
Indices: 59989--60063 Score: 78
Period size: 33 Copynumber: 2.3 Consensus size: 31
59979 ACACAACTCG
* *
59989 CACATCATTGTAGCTCACACATTATAGAGCTCA
1 CACATCATTG-A-CTCACAAATTACAGAGCTCA
*
60022 CACATCACTATGACTCACAAATTACATAGCTCA
1 CACATCA-T-TGACTCACAAATTACAGAGCTCA
*
60055 CATATCATT
1 CACATCATT
60064 ACAACTTGCA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
31 1 0.03
32 1 0.03
33 30 0.83
34 2 0.06
35 2 0.06
ACGTcount: A:0.36, C:0.28, G:0.08, T:0.28
Consensus pattern (31 bp):
CACATCATTGACTCACAAATTACAGAGCTCA
Found at i:60855 original size:27 final size:27
Alignment explanation
Indices: 60817--60872 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
60807 AGAGAAAGGT
60817 TAGTATGAAGGATTTTTCTTTTTTCAA
1 TAGTATGAAGGATTTTTCTTTTTTCAA
60844 TAGTATGAAGGATTTTTCTTTTTTCAA
1 TAGTATGAAGGATTTTTCTTTTTTCAA
60871 TA
1 TA
60873 CTACTCTCTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.27, C:0.07, G:0.14, T:0.52
Consensus pattern (27 bp):
TAGTATGAAGGATTTTTCTTTTTTCAA
Found at i:63890 original size:29 final size:26
Alignment explanation
Indices: 63831--63884 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
63821 ATGAAAATGG
*
63831 TAAGGTTTTTTTATGAATTACGAACT
1 TAAGCTTTTTTTATGAATTACGAACT
63857 TAAGCTTTTTTTATGAATTACGAACT
1 TAAGCTTTTTTTATGAATTACGAACT
63883 TA
1 TA
63885 CTAAGCATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (26 bp):
TAAGCTTTTTTTATGAATTACGAACT
Found at i:69678 original size:33 final size:33
Alignment explanation
Indices: 69636--69702 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
69626 CATGGACTAA
69636 ATAGCATTTTAAACATACATAACATCAAATATG
1 ATAGCATTTTAAACATACATAACATCAAATATG
69669 ATAGCATTTTAAACATACATAACATCAAATATG
1 ATAGCATTTTAAACATACATAACATCAAATATG
69702 A
1 A
69703 CTTAGATTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.49, C:0.15, G:0.06, T:0.30
Consensus pattern (33 bp):
ATAGCATTTTAAACATACATAACATCAAATATG
Found at i:73187 original size:26 final size:26
Alignment explanation
Indices: 73156--73207 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
73146 GAAATGAATG
* *
73156 ATTGAATGGTTGAATTTTTATTGTAT
1 ATTGAACGGTTGAATTTGTATTGTAT
73182 ATTGAACGGTTGAATTTGTATTGTAT
1 ATTGAACGGTTGAATTTGTATTGTAT
73208 TAGATCAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.27, C:0.02, G:0.21, T:0.50
Consensus pattern (26 bp):
ATTGAACGGTTGAATTTGTATTGTAT
Found at i:93339 original size:40 final size:39
Alignment explanation
Indices: 93255--93597 Score: 422
Period size: 40 Copynumber: 8.6 Consensus size: 39
93245 TCGAATGATG
* *
93255 TCCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCC-GAAGGCATTTGTGC-GAGTTACTAAT
*
93294 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
93335 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAT
*
93374 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT
* * *
93414 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAT
*
93453 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT
* * *
93493 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAT
*
93532 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT
* * *
93571 AACTGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGT-CCGAAGGCATTTG
93598 AACGAGTAGC
Statistics
Matches: 265, Mismatches: 31, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
39 106 0.40
40 147 0.55
41 12 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:93619 original size:158 final size:156
Alignment explanation
Indices: 93289--93630 Score: 517
Period size: 158 Copynumber: 2.2 Consensus size: 156
93279 GTGCTAAGTG
*
93289 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGG
1 ACTATATCCGG-TTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGG
*
93354 CATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGG
64 CATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATACCGG
**
93419 GCTAAGCCCGAAGGCATTGGTGCGAGTT
129 GCTAAGCCCGAAGGCATTGGAACGAGTT
*
93447 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGG
1 ACTATATCC-GGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGG
*
93512 CATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACTG
64 CATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-ACCG
* *
93576 GGCTATGTCCCGAAGGCATTTGAACGAG-T
128 GGCTAAG-CCCGAAGGCATTGGAACGAGTT
*
93605 AGCTATATCCGGTTAAATTCCGAAGG
1 A-CTATATCCGGTT-AAGTCCGAAGG
93631 TACGTGATTC
Statistics
Matches: 168, Mismatches: 10, Indels: 12
0.88 0.05 0.06
Matches are distributed among these distances:
157 3 0.02
158 136 0.81
159 29 0.17
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (156 bp):
ACTATATCCGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCA
TTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATACCGGGC
TAAGCCCGAAGGCATTGGAACGAGTT
Found at i:93630 original size:79 final size:79
Alignment explanation
Indices: 93255--93595 Score: 526
Period size: 79 Copynumber: 4.3 Consensus size: 79
93245 TCGAATGATG
* * * * * **
93255 TCCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
93318 TTGTGCGAGTTACTAAT
63 TTGTGCGAGTTACTAAT
93335 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
93400 TGCGAGTTACTAAT
66 TGCGAGTTACTAAT
93414 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
93479 TGCGAGTTACTAAT
66 TGCGAGTTACTAAT
93493 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
93558 TGCGAGTTACT-AT
66 TGCGAGTTACTAAT
* * *
93571 AACTGGGCTATGTCCCGAAGGCATT
1 -TCCGGGCTAAG-CCCGAAGGCATT
93596 TGAACGAGTA
Statistics
Matches: 247, Mismatches: 10, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
78 3 0.01
79 215 0.87
80 29 0.12
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
TGCGAGTTACTAAT
Found at i:100335 original size:13 final size:13
Alignment explanation
Indices: 100313--100345 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
100303 CCAAATAAGA
100313 TCACACGGCCAAG
1 TCACACGGCCAAG
*
100326 TCACATGGCCAAG
1 TCACACGGCCAAG
100339 TCACACG
1 TCACACG
100346 TCCATGTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.30, C:0.36, G:0.21, T:0.12
Consensus pattern (13 bp):
TCACACGGCCAAG
Found at i:102317 original size:48 final size:48
Alignment explanation
Indices: 102246--102386 Score: 147
Period size: 57 Copynumber: 2.8 Consensus size: 48
102236 GTTATGAGTA
*
102246 ATCCCATGTAAGACAATGTCTGGGACATGGCATTGGCATCGATATGTG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTG
* *
102294 ATCCCATGTAAGACCATGTCTGGGACATTCCAGACATGGCATTGGCATCGATTTTTG
1 ATCCCATGTAAGACCATGTCT-GG--------GACATGGCATTGGCATCGATATGTG
* * *
102351 ATCCCATGGAAGACCATGTCTGGGATATTGCATTGG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGG
102387 GATATATATG
Statistics
Matches: 78, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
48 31 0.40
49 2 0.03
56 2 0.03
57 43 0.55
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (48 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTG
Found at i:106015 original size:14 final size:14
Alignment explanation
Indices: 105996--106059 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
105986 TAAAGATAAC
*
105996 AAGAAAACCGAATA
1 AAGAAATCCGAATA
*
106010 AAGAAATCCAAGATA
1 AAGAAATCCGA-ATA
* *
106025 GAGAAACCCAGAATA
1 AAGAAATCC-GAATA
* *
106040 AATAAATCAGAATA
1 AAGAAATCCGAATA
106054 AAGAAA
1 AAGAAA
106060 CCCAAGATAC
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
14 19 0.50
15 18 0.47
16 1 0.03
ACGTcount: A:0.62, C:0.12, G:0.14, T:0.11
Consensus pattern (14 bp):
AAGAAATCCGAATA
Found at i:106058 original size:29 final size:30
Alignment explanation
Indices: 105996--106063 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
105986 TAAAGATAAC
*
105996 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCAGAATAAAGAAATCCAAGATA
* *
106025 GAGAAACCCAGAATAAATAAAT-C-AGAATA
1 AAGAAACCCAGAATAAAGAAATCCAAG-ATA
106054 AAGAAACCCA
1 AAGAAACCCA
106064 AGATACGATA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 2 0.06
29 20 0.61
30 11 0.33
ACGTcount: A:0.60, C:0.16, G:0.13, T:0.10
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATA
Found at i:112566 original size:5 final size:5
Alignment explanation
Indices: 112556--112602 Score: 94
Period size: 5 Copynumber: 9.4 Consensus size: 5
112546 TCATGATACC
112556 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA AT
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA AT
112603 TTTAATTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:118598 original size:46 final size:46
Alignment explanation
Indices: 118545--118809 Score: 394
Period size: 46 Copynumber: 5.7 Consensus size: 46
118535 AACCCGCCCC
* * *
118545 TAAGTGAACTCGGACTCATCTCAACGAGCTCGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
118591 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
118637 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
118685 TTA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
118730 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
118776 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
118810 TGCTCAACCA
Statistics
Matches: 199, Mismatches: 11, Indels: 18
0.87 0.05 0.08
Matches are distributed among these distances:
42 2 0.01
43 4 0.02
44 1 0.01
45 2 0.01
46 152 0.76
47 29 0.15
48 2 0.01
49 1 0.01
50 4 0.02
51 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:118747 original size:139 final size:139
Alignment explanation
Indices: 118550--118812 Score: 499
Period size: 139 Copynumber: 1.9 Consensus size: 139
118540 GCCCCTAAGT
* *
118550 GAACTCGGACTCATCTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
118615 CGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT
66 CGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT
118680 ACATTTTAC
131 ACATTTTAC
*
118689 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
118754 CGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
66 CGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
118813 TCAACCATCC
Statistics
Matches: 121, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
139 121 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (139 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT
ACATTTTAC
Found at i:119266 original size:30 final size:30
Alignment explanation
Indices: 119232--119291 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
119222 ATTTAATACG
119232 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * **
119262 AACTTTTGCATGATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
119292 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:124590 original size:37 final size:37
Alignment explanation
Indices: 124529--124607 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
124519 TTATTTCGAA
* *
124529 GTCTTACCCAGACATAACCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAACCTCCACACGAAGTCATCGG
* *
124566 GTCTTACCCGGACAAAATCC-CCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAA-CCTCCACACGAAGTCATCGG
124603 GTCTT
1 GTCTT
124608 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.23
Consensus pattern (37 bp):
GTCTTACCCAGACAAAACCTCCACACGAAGTCATCGG
Found at i:124804 original size:47 final size:47
Alignment explanation
Indices: 124728--125257 Score: 952
Period size: 47 Copynumber: 11.3 Consensus size: 47
124718 CTTCGAGACT
* * * * * * *
124728 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* * *
124775 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
124822 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
124869 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
124916 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
124963 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
125010 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
125057 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
125104 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
125151 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
125198 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
125245 TATCACATATATA
1 TATCACGTATATA
125258 TATACACTTT
Statistics
Matches: 470, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 470 1.00
ACGTcount: A:0.28, C:0.32, G:0.10, T:0.30
Consensus pattern (47 bp):
TATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:127540 original size:18 final size:18
Alignment explanation
Indices: 127519--127557 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
127509 TTTCTTCAAC
* *
127519 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
127537 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
127555 TTC
1 TTC
127558 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:130883 original size:27 final size:27
Alignment explanation
Indices: 130853--131030 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
130843 ATATTGAGTC
* * * *
130853 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
130880 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
130907 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
130935 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
130962 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
130989 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
131016 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
131031 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:130992 original size:82 final size:81
Alignment explanation
Indices: 130874--131029 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
130864 TGCTATATAA
* *
130874 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
130939 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
130956 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
131020 CACTTAGTGC
65 CACTTAGTGC
131030 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:133486 original size:57 final size:57
Alignment explanation
Indices: 133398--134195 Score: 1587
Period size: 57 Copynumber: 14.0 Consensus size: 57
133388 CGACCGTACA
133398 AAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGTGAATT
1 AAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGTGAATT
133455 AAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGTGAATT
1 AAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGTGAATT
133512 AAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGTGAATT
1 AAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGTGAATT
133569 AAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGTGAATT
1 AAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGTGAATT
133626 AAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGTGAATT
1 AAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGTGAATT
133683 AAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGTGAATT
1 AAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGTGAATT
133740 AAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGTGAATT
1 AAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGTGAATT
133797 AAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGTGAATT
1 AAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGTGAATT
133854 AAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGTGAATT
1 AAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGTGAATT
133911 AAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGTGAATT
1 AAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGTGAATT
133968 AAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGTGAATT
1 AAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGTGAATT
134025 AAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGTGAATT
1 AAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGTGAATT
134082 AAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGTGAATT
1 AAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGTGAATT
*
134139 AAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGCGAATT
1 AAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGTGAATT
134196 CAATCAAAGG
Statistics
Matches: 740, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 740 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (57 bp):
AAGCCTCATAAGGTGCCATCTTAATACTTGATTGAAAACTATTGTTGTAAGTGAATT
Found at i:151889 original size:46 final size:46
Alignment explanation
Indices: 151822--151996 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
151812 AACCCGCCCC
* *
151822 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCA
* * * * *
151868 TAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGGCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT-GTTCGCATCCA
* * * ** *
151914 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCTCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCA
151961 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
151997 CTCAACCATC
Statistics
Matches: 101, Mismatches: 23, Indels: 10
0.75 0.17 0.07
Matches are distributed among these distances:
45 2 0.02
46 64 0.63
47 33 0.33
48 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCATCCA
Found at i:151934 original size:93 final size:93
Alignment explanation
Indices: 151827--151996 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
151817 GCCCCTAAGT
* ***
151827 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
151892 CGAGTTTGGATGGCTAGTTACATTTCAC
66 CGAGTTCGGATGGCTAGTTACATTTCAC
* *
151920 GAACTCGGACTCAACTCAACGAGTTCAGACATTCTCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
151985 CGAGTTCGGATG
66 CGAGTTCGGATG
151997 CTCAACCATC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGGCTAGTTACATTTCAC
Found at i:152435 original size:30 final size:30
Alignment explanation
Indices: 152401--152460 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
152391 ATTTAATACG
152401 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
152431 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
152461 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:162538 original size:27 final size:27
Alignment explanation
Indices: 162478--162532 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
162468 CATACATCTC
**
162478 ATAAGGGCATAATAGTCATTTTACCTT
1 ATAAGGGCATAATAGTCATTTTAAATT
162505 ATAAGGGCATAATAGTCATTTATAAATT
1 ATAAGGGCATAATAGTCATTT-TAAATT
162533 TTAGGGTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (27 bp):
ATAAGGGCATAATAGTCATTTTAAATT
Found at i:162924 original size:22 final size:22
Alignment explanation
Indices: 162896--162939 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
162886 GTACACGCTC
162896 GTGTAGGGTCAATGGTCACCTA
1 GTGTAGGGTCAATGGTCACCTA
162918 GTGTAGGGTCAATGGTCACCTA
1 GTGTAGGGTCAATGGTCACCTA
162940 CTCCGGCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.27
Consensus pattern (22 bp):
GTGTAGGGTCAATGGTCACCTA
Found at i:165925 original size:28 final size:28
Alignment explanation
Indices: 165860--165941 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
165850 GTCACCACAT
*
165860 ACAGATA-TTGTGGCAGAGCCACCAG-A
1 ACAGATATTTGTGGCATAGCCACCAGAA
165886 ACAGATATTTGTGGCATAGCCACCAGAA
1 ACAGATATTTGTGGCATAGCCACCAGAA
*
165914 ACAGATATTTGTGGCATAGCCACTAGAA
1 ACAGATATTTGTGGCATAGCCACCAGAA
165942 CGCTTCCTCC
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
26 7 0.13
27 17 0.33
28 28 0.54
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (28 bp):
ACAGATATTTGTGGCATAGCCACCAGAA
Found at i:167526 original size:24 final size:25
Alignment explanation
Indices: 167482--167530 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
167472 TCACATACCA
167482 TTCCTGCTCATAAAAAAAATAATAC
1 TTCCTGCTCATAAAAAAAATAATAC
*
167507 TTCCTGCTTAT-AAAAAAATAATAC
1 TTCCTGCTCATAAAAAAAATAATAC
167531 CTTTATTTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (25 bp):
TTCCTGCTCATAAAAAAAATAATAC
Found at i:173695 original size:27 final size:26
Alignment explanation
Indices: 173626--173740 Score: 113
Period size: 27 Copynumber: 4.3 Consensus size: 26
173616 AGTATGGCTG
* * *
173626 CCAGAACAGATATTGTGACACAGTCA
1 CCAGAACAGATATTGTGGCATAGCCA
* *
173652 CCAGATACAAATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCATAGCCA
*
173679 CAAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCATAGCCA
* * *
173706 TCAGAAATAGATATTTGTAGCATAGCCA
1 CCAG-AACAGATA-TTGTGGCATAGCCA
173734 CCAGAAC
1 CCAGAAC
173741 TCTTCCTCCA
Statistics
Matches: 73, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
26 11 0.15
27 38 0.52
28 24 0.33
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCATAGCCA
Found at i:173728 original size:28 final size:28
Alignment explanation
Indices: 173686--173739 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
173676 CCACAAGAAC
* *
173686 AGATATTTGTGGCATAGCCATCAGAAAT
1 AGATATTTGTAGCATAGCCACCAGAAAT
173714 AGATATTTGTAGCATAGCCACCAGAA
1 AGATATTTGTAGCATAGCCACCAGAA
173740 CTCTTCCTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (28 bp):
AGATATTTGTAGCATAGCCACCAGAAAT
Found at i:178119 original size:40 final size:40
Alignment explanation
Indices: 178075--178152 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
178065 CGACTATGCT
* *
178075 TGGCACTAAATGTGTG-GTTTATAATAGCTTCGGCTATAAA
1 TGGCACTAAATGTGCGAG-TTAGAATAGCTTCGGCTATAAA
* *
178115 TGGCACTAAGTGTGCGAGTTGGAATAGCTTCGGCTATA
1 TGGCACTAAATGTGCGAGTTAGAATAGCTTCGGCTATA
178153 TAAGAACTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 32 0.97
41 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (40 bp):
TGGCACTAAATGTGCGAGTTAGAATAGCTTCGGCTATAAA
Found at i:184225 original size:40 final size:40
Alignment explanation
Indices: 184166--184377 Score: 250
Period size: 40 Copynumber: 5.3 Consensus size: 40
184156 CATTTGAATG
* *
184166 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
184206 TTATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
184246 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGA-C
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
184286 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * * *
184326 ATACCCGGGTTAAGACCTGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
184366 ATATCC-GGCTAA
1 ATATCCGGGCTAA
184378 ATTCCGAAGA
Statistics
Matches: 150, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 7 0.05
40 140 0.93
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:190091 original size:440 final size:440
Alignment explanation
Indices: 189270--190150 Score: 1482
Period size: 440 Copynumber: 2.0 Consensus size: 440
189260 TAGAATCATT
* * *
189270 TTAGCTTCGGCCAACCCTTACAACACTAAGTGTGGGGATGTTAAAGTATGAATAATTTACAGAAA
1 TTAGCTTCGGCCAACCCTTACAACAATAAGTGTGCGGATGTTAAAGCATGAATAATTTACAGAAA
* *
189335 GTCTTGAATTACTCAAGCAAGAGGTAAGAATGAAAGTGAATAAGTATGGGAAGATCTAGGTATGT
66 GTCTTGAATTACTCAAGCAAAAGGTAAGAATGAAAGTGAATAAGTATGGGAAGATCCAGGTATGT
189400 ATGATACCTTTGTGGTAGATGACATTATCTAAGTGAAGTTCATTGAATTATTATGAACTTATGGA
131 ATGATACCTTTGTGGTAGATGACATTATCTAAGTGAAGTTCATTGAATTATTATGAACTTATGGA
* * * * *
189465 TCGGATTGGTATAGATTTGACAGATGATTTTAGAATTTATATATATTTATGTATTGATGTTTTAT
196 TCGGATTGGTATAGATTTCACAGACGATTTGAGAATTTATATATACTTATATATTGATGTTTTAT
*
189530 GTTTATATGCTGTTGATAATTTTAGTACGAGCTTACTAAGCTTTTGAAAGCTTACTTTGTGTGTG
261 GTTTATATACTGTTGATAATTTTAGTACGAGCTTACTAAGCTTTTGAAAGCTTACTTTGTGTGTG
* * *
189595 CGTTTGAATTGTTTTATAGATATCGAAGATACTACAAGCTCGATGGCCGTCAAGGATTATCACCA
326 CGTTTGAATTGTTTTATAGATATCGAAGATACCACAAGCTCGAGGGCCGTCAAGGATCATCACCA
* *
189660 TACTATCGAACTCATTTTGGTACTTTTGAAAATGTAAATATTTTTAAGTA
391 TACTATCGAACTCATTTTGGTACTTTTAAAAATGTAAATATTTTGAAGTA
* *
189710 TTAGCTTCGGCCAACCCTTATAGCAATAAGTGTGCGGATGTTAAAGCATGAATAATTTAC-GAAA
1 TTAGCTTCGGCCAACCCTTACAACAATAAGTGTGCGGATGTTAAAGCATGAATAATTTACAG-AA
189774 AGTCTTGAATTACTCAAGCAAAAGGTAAGAATGAAAGTGAATAAGTATGGGAAGATCCAGGTATG
65 AGTCTTGAATTACTCAAGCAAAAGGTAAGAATGAAAGTGAATAAGTATGGGAAGATCCAGGTATG
*
189839 TATGATACCTTTGTGGTAGATGACATTATCTATGTGAAGTTCATTGAATTATTATGAACTTATGG
130 TATGATACCTTTGTGGTAGATGACATTATCTAAGTGAAGTTCATTGAATTATTATGAACTTATGG
*
189904 AT-GAGATTGGTATAGATTTCATAGACGATTTGAGAATTTATATATACTTATATATTGATGTTTT
195 ATCG-GATTGGTATAGATTTCACAGACGATTTGAGAATTTATATATACTTATATATTGATGTTTT
*
189968 ATGTTTATATATTGTTGATAATTTTAGTACGAGCTTACT-AGACTTTTGAAAGCTTACTTTGTGT
259 ATGTTTATATACTGTTGATAATTTTAGTACGAGCTTACTAAG-CTTTTGAAAGCTTACTTTGTGT
* * *
190032 GTGTGTTTGAATTGTTTTATAGATATCGAAGCTACCACAAGCTCG-GGGACTGTCAAGGATCATC
323 GTGCGTTTGAATTGTTTTATAGATATCGAAGATACCACAAGCTCGAGGG-CCGTCAAGGATCATC
190096 ACCATACTATCGAACTCATTTTGGTACTTTTAAAAATGTAAATATTTTGAAGTA
387 ACCATACTATCGAACTCATTTTGGTACTTTTAAAAATGTAAATATTTTGAAGTA
190150 T
1 T
190151 GGCATGTATA
Statistics
Matches: 413, Mismatches: 24, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
439 6 0.01
440 407 0.99
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (440 bp):
TTAGCTTCGGCCAACCCTTACAACAATAAGTGTGCGGATGTTAAAGCATGAATAATTTACAGAAA
GTCTTGAATTACTCAAGCAAAAGGTAAGAATGAAAGTGAATAAGTATGGGAAGATCCAGGTATGT
ATGATACCTTTGTGGTAGATGACATTATCTAAGTGAAGTTCATTGAATTATTATGAACTTATGGA
TCGGATTGGTATAGATTTCACAGACGATTTGAGAATTTATATATACTTATATATTGATGTTTTAT
GTTTATATACTGTTGATAATTTTAGTACGAGCTTACTAAGCTTTTGAAAGCTTACTTTGTGTGTG
CGTTTGAATTGTTTTATAGATATCGAAGATACCACAAGCTCGAGGGCCGTCAAGGATCATCACCA
TACTATCGAACTCATTTTGGTACTTTTAAAAATGTAAATATTTTGAAGTA
Found at i:193689 original size:17 final size:17
Alignment explanation
Indices: 193669--193702 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
193659 GACAAGATTT
193669 GAAACCTATCAAGCTTC
1 GAAACCTATCAAGCTTC
193686 GAAACCTATCAAGCTTC
1 GAAACCTATCAAGCTTC
193703 CAATAATCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.24
Consensus pattern (17 bp):
GAAACCTATCAAGCTTC
Found at i:201357 original size:40 final size:40
Alignment explanation
Indices: 201259--201561 Score: 405
Period size: 40 Copynumber: 7.6 Consensus size: 40
201249 TCCTCGTTCA
* * * * *
201259 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
201298 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
201338 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
201378 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
201418 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
201458 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
201498 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
201538 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
201562 CAGCATTCAA
Statistics
Matches: 240, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 195 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:207331 original size:646 final size:646
Alignment explanation
Indices: 206101--207393 Score: 2433
Period size: 646 Copynumber: 2.0 Consensus size: 646
206091 ACTACTTCGT
206101 TATTTGCGCACCTCAAATCAATAGTCTTGCTCTTGCAATTCACAATCGCATCATGCGCGGTCAAC
1 TATTTGCGCACCTCAAATCAATAGTCTTGCTCTTGCAATTCACAATCGCATCATGCGCGGTCAAC
206166 CAATCCAAACCAAGGATAACATCAAATTCATCAAACGGCAAAAGCATCAAGTCCGCCGGAAAACA
66 CAATCCAAACCAAGGATAACATCAAATTCATCAAACGGCAAAAGCATCAAGTCCGCCGGAAAACA
206231 GGAACCTCGAATTTCCAGGGGACATTTCTTACACACTTTGTCGACAAGCACGTAACGACCCAAGG
131 GGAACCTCGAATTTCCAGGGGACATTTCTTACACACTTTGTCGACAAGCACGTAACGACCCAAGG
206296 GATTTGACACCCGAATTACGAACTCAGTAGACTCAATAGGTAAAGTCTTACTGGATGCTAAGGTT
196 GATTTGACACCCGAATTACGAACTCAGTAGACTCAATAGGTAAAGTCTTACTGGATGCTAAGGTT
206361 TCACATATGTAAGAATGAGTAGAACCGGGGTCAATCAAAGCAATTACATTAGTATCAAAGAGAGT
261 TCACATATGTAAGAATGAGTAGAACCGGGGTCAATCAAAGCAATTACATTAGTATCAAAGAGAGT
206426 GAATGTACCGGTAATAACATCAGGCGAAGAAGCATCCTCGCGGGCACGTATAGCATAAGCTCTAG
326 GAATGTACCGGTAATAACATCAGGCGAAGAAGCATCCTCGCGGGCACGTATAGCATAAGCTCTAG
206491 CAGGCGCACGGGCTTCGGATCTGGTTATATCATCTCTAGATCCTCTCTGACCACCACCAGCATTG
391 CAGGCGCACGGGCTTCGGATCTGGTTATATCATCTCTAGATCCTCTCTGACCACCACCAGCATTG
* *
206556 CCCATATTTCCAGATGGTCTACCTCGAGCAGTGGTAGCACCCGGTTTCCCACTCTGATTTTCATT
456 CCCATATTTCCAGATGGTCTACCTCGAGCAGTGGTAGCACCCGGTCTCCCACTCTGATTTGCATT
* * *
206621 CTGTTCAAACAACCTCGGGCAATCTTTAATGAAGTGGTCCACTGATCCGCATTTGTAACAGGAGC
521 CTGTCCAAACAACCTCGGGCAATCTTTAATGAAGTGGTCAACTGATCCGCACTTGTAACAGGAGC
*
206686 GGTCAGGAAATCTACAACTCCCCGAATGCCATTTACCGCAATATCGACATTCCGTTCTGTC
586 GGTCAGGAAATCTACAACTCCCCGAATGCCATTTACCGCAATATCGACATTCCGTCCTGTC
206747 TATTTGCGCACCTCAAATCAATAGTCTTGCTCTTGCAATTCACAATCGCATCATGCGCGGTCAAC
1 TATTTGCGCACCTCAAATCAATAGTCTTGCTCTTGCAATTCACAATCGCATCATGCGCGGTCAAC
* *
206812 CAATCCAACCCAAGGATAACATCAAATTCATCAAACGGCAAAAGCATCAAGTCCGCTGGAAAACA
66 CAATCCAAACCAAGGATAACATCAAATTCATCAAACGGCAAAAGCATCAAGTCCGCCGGAAAACA
206877 GGAACCTCGAATTTCCAGGGGACATTTCTTACACACTTTGTCGACAAGCACGTAACGACCCAAGG
131 GGAACCTCGAATTTCCAGGGGACATTTCTTACACACTTTGTCGACAAGCACGTAACGACCCAAGG
206942 GATTTGACACCCGAATTACGAACTCAGTAGACTCAATAGGTAAAGTCTTACTGGATGCTAAGGTT
196 GATTTGACACCCGAATTACGAACTCAGTAGACTCAATAGGTAAAGTCTTACTGGATGCTAAGGTT
* *
207007 TCACATATGTAGGAATGAGTAGAACCGGGGTCAATCAAAGCAATTACATTAGTATCAAAGAGGGT
261 TCACATATGTAAGAATGAGTAGAACCGGGGTCAATCAAAGCAATTACATTAGTATCAAAGAGAGT
207072 GAATGTACCGGTAATAACATCAGGCGAAGAAGCATCCTCGCGGGCACGTATAGCATAAGCTCTAG
326 GAATGTACCGGTAATAACATCAGGCGAAGAAGCATCCTCGCGGGCACGTATAGCATAAGCTCTAG
*
207137 CAGGCGCACGGGCTTCGGATCTGGTTATATCATCTCTAGATCCTCTCTGACCACCACTAGCATTG
391 CAGGCGCACGGGCTTCGGATCTGGTTATATCATCTCTAGATCCTCTCTGACCACCACCAGCATTG
*
207202 CCCGTATTTCCAGATGGTCTACCTCGAGCAGTGGTAGCACCCGGTCTCCCACTCTGATTTGCATT
456 CCCATATTTCCAGATGGTCTACCTCGAGCAGTGGTAGCACCCGGTCTCCCACTCTGATTTGCATT
**
207267 CTGTCCCGACAACCTCGGGCAATCTTTAATGAAGTGGTCAACTGATCCGCACTTGTAACAGGAGC
521 CTGTCCAAACAACCTCGGGCAATCTTTAATGAAGTGGTCAACTGATCCGCACTTGTAACAGGAGC
* * *
207332 GGTCAGGGAATCTACAACTCCCCGAATGCCATTTACCGCAATATCGGCATTTCGTCCTGTC
586 GGTCAGGAAATCTACAACTCCCCGAATGCCATTTACCGCAATATCGACATTCCGTCCTGTC
207393 T
1 T
207394 CGACGTTCAT
Statistics
Matches: 630, Mismatches: 17, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
646 630 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.24
Consensus pattern (646 bp):
TATTTGCGCACCTCAAATCAATAGTCTTGCTCTTGCAATTCACAATCGCATCATGCGCGGTCAAC
CAATCCAAACCAAGGATAACATCAAATTCATCAAACGGCAAAAGCATCAAGTCCGCCGGAAAACA
GGAACCTCGAATTTCCAGGGGACATTTCTTACACACTTTGTCGACAAGCACGTAACGACCCAAGG
GATTTGACACCCGAATTACGAACTCAGTAGACTCAATAGGTAAAGTCTTACTGGATGCTAAGGTT
TCACATATGTAAGAATGAGTAGAACCGGGGTCAATCAAAGCAATTACATTAGTATCAAAGAGAGT
GAATGTACCGGTAATAACATCAGGCGAAGAAGCATCCTCGCGGGCACGTATAGCATAAGCTCTAG
CAGGCGCACGGGCTTCGGATCTGGTTATATCATCTCTAGATCCTCTCTGACCACCACCAGCATTG
CCCATATTTCCAGATGGTCTACCTCGAGCAGTGGTAGCACCCGGTCTCCCACTCTGATTTGCATT
CTGTCCAAACAACCTCGGGCAATCTTTAATGAAGTGGTCAACTGATCCGCACTTGTAACAGGAGC
GGTCAGGAAATCTACAACTCCCCGAATGCCATTTACCGCAATATCGACATTCCGTCCTGTC
Found at i:209993 original size:40 final size:39
Alignment explanation
Indices: 209895--210157 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
209885 TCCTCGTTCA
* * * *
209895 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
209934 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
209973 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
210013 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
210053 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
210093 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
210134 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
210158 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:210117 original size:120 final size:119
Alignment explanation
Indices: 209895--210157 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
209885 TCCTCGTTCA
* * *
209895 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
209960 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
210013 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
210078 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
210134 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
210158 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:210166 original size:41 final size:41
Alignment explanation
Indices: 210089--210166 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
210079 TTTGTATCTC
* * *
210089 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
210130 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
210167 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:223903 original size:53 final size:53
Alignment explanation
Indices: 223823--223927 Score: 192
Period size: 53 Copynumber: 2.0 Consensus size: 53
223813 AACCTGACCC
* *
223823 AATTCATTGAGTCTGGACCTCGGGTGTTACTAAACGATAAAAACATTTTAAAA
1 AATTCATTGAGTCTGGACCTCAGGTGTTACTAAACAATAAAAACATTTTAAAA
223876 AATTCATTGAGTCTGGACCTCAGGTGTTACTAAACAATAAAAACATTTTAAA
1 AATTCATTGAGTCTGGACCTCAGGTGTTACTAAACAATAAAAACATTTTAAA
223928 TTTTTTTTAC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (53 bp):
AATTCATTGAGTCTGGACCTCAGGTGTTACTAAACAATAAAAACATTTTAAAA
Found at i:228818 original size:45 final size:44
Alignment explanation
Indices: 228707--228837 Score: 146
Period size: 45 Copynumber: 3.0 Consensus size: 44
228697 AAACCTGAAT
* * *
228707 TCAT-TCACTAGCATT-TCGCCTGCTAGGCTCG-AAGCCCGATA
1 TCATCTCACTGGCATTATAGCCTGCTAGGCTCGAAAGCCCAATA
* *
228748 TCATTTCACCGGCATTATAGCCTGCTAGGCTCGAAAGCCCAAATA
1 TCATCTCACTGGCATTATAGCCTGCTAGGCTCGAAAGCCC-AATA
228793 GT-ATCTCACTGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATA
1 -TCATCTCACTGGCATTATAGCCTGCTAGGCTCGAAA-GCCC-AATA
228838 ATACTGTGCG
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
41 4 0.05
42 9 0.12
43 15 0.19
44 9 0.12
45 39 0.51
46 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (44 bp):
TCATCTCACTGGCATTATAGCCTGCTAGGCTCGAAAGCCCAATA
Found at i:229701 original size:47 final size:47
Alignment explanation
Indices: 229645--229740 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
229635 AAATTTTTTT
*
229645 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAATAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
*
229692 TTAACTAAGTAACTTATTCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
229739 TT
1 TT
229741 TAAATTCAAC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.31
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
Found at i:231975 original size:40 final size:41
Alignment explanation
Indices: 231906--232127 Score: 321
Period size: 40 Copynumber: 5.6 Consensus size: 41
231896 AACCCAAGTA
* *
231906 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* * *
231945 CCTTCGGGTCTTAGCCTGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
*
231985 CCTTCGGGTCTTAGCCCGGATATAGTCAA-TAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
*
232025 CCTTCGGGACTTGGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
**
232065 CCTTCGGGACTTAGCCTAGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
232105 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
232128 CATTCGAATA
Statistics
Matches: 168, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 13 0.08
40 152 0.90
41 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
Found at i:250627 original size:43 final size:43
Alignment explanation
Indices: 250566--250677 Score: 127
Period size: 43 Copynumber: 2.6 Consensus size: 43
250556 AAATTCCATA
* * * *
250566 TCCCAAATATGGTCTTACATGTTATCA-CATATCGATGCCACTG
1 TCCCAAACATGGTCTTACATGTAATCATAATAT-GATGCCAATG
* * *
250609 TCCCAAACAAGGTCTTACACGCAATCATAATATGATGCCAATG
1 TCCCAAACATGGTCTTACATGTAATCATAATATGATGCCAATG
* *
250652 TCCCAGACATTGTCTTACATGTAATC
1 TCCCAAACATGGTCTTACATGTAATC
250678 GTAACTCGAT
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 52 0.93
44 4 0.07
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.29
Consensus pattern (43 bp):
TCCCAAACATGGTCTTACATGTAATCATAATATGATGCCAATG
Found at i:252909 original size:27 final size:27
Alignment explanation
Indices: 252861--252924 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
252851 AGAGAGAGCA
252861 TGCCACAAAGACGATCCATTCAGAATT
1 TGCCACAAAGACGATCCATTCAGAATT
* * *
252888 TGGCACAAAGAC-ATTCCTTTCAGAGTT
1 TGCCACAAAGACGA-TCCATTCAGAATT
252915 TGCCACAAAG
1 TGCCACAAAG
252925 GTTATTCTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 1 0.03
27 31 0.97
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.23
Consensus pattern (27 bp):
TGCCACAAAGACGATCCATTCAGAATT
Found at i:252940 original size:28 final size:28
Alignment explanation
Indices: 252891--252961 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
252881 CAGAATTTGG
* * **
252891 CACAAAGAC-ATTCCTTTCAGAGTTTGC
1 CACAAAGGCTATTCTTTTCAGAGTTCAC
*
252918 CACAAAGGTTATTCTTTTCAGAGTTCAC
1 CACAAAGGCTATTCTTTTCAGAGTTCAC
252946 CACAAAGGCTATTCTT
1 CACAAAGGCTATTCTT
252962 AGTTGTGATT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 7 0.19
28 30 0.81
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (28 bp):
CACAAAGGCTATTCTTTTCAGAGTTCAC
Found at i:256936 original size:43 final size:42
Alignment explanation
Indices: 256779--256937 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 42
256769 TATTTGTTAT
* ** * * *
256779 CGTGTAAAACCACATCTGGGACGTTAGCATCGATTTGTGATTTA
1 CGTGTAAGACCATGTCTGGGACGTTGGCATC-ATATATGA-TTA
* *
256823 CGTGTAAGACCATGTCTGGGACATTGGCATCATATATGATTT
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCATATATGATTA
* *
256865 CGTGTAAGACCCTGTCTGGGAAAG-TGGCATGGC-TATATGATTA
1 CGTGTAAGACCATGTCTGGG-ACGTTGGCAT--CATATATGATTA
* *
256908 CATGTAAGACCATGCCTGGGACGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACGTTGGCAT
256938 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
42 29 0.31
43 39 0.41
44 27 0.28
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACGTTGGCATCATATATGATTA
Found at i:258706 original size:46 final size:42
Alignment explanation
Indices: 258539--258709 Score: 189
Period size: 46 Copynumber: 3.7 Consensus size: 42
258529 TGCGTGAGCT
*
258539 AGTGTAAGACATGTCTGGGACATGCATCGGCGACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-ACA--A-GAGAGTC
*
258585 AGTGTAAGACCATGTCTGGGACATGGCATCGACATCAAGACGAGTGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA-CAAGA-GAGT-C
*
258632 TAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGATGTGTC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGC-ACAAGA-GAGTC
258677 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
258710 GCAGGTATGC
Statistics
Matches: 111, Mismatches: 5, Indels: 18
0.83 0.04 0.13
Matches are distributed among these distances:
44 9 0.08
45 17 0.15
46 36 0.32
47 31 0.28
48 18 0.16
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.22
Consensus pattern (42 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCACAAGAGAGTC
Found at i:258736 original size:94 final size:93
Alignment explanation
Indices: 258534--258707 Score: 271
Period size: 94 Copynumber: 1.9 Consensus size: 93
258524 TCACTTGCGT
258534 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCGACATTATGAGAGCCAGTGTAAGACCATG
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCGACA-TATGAGAGCCAGTGTAAGACCATG
*
258599 TCTGGGACATGGCATCGACATCAAGACGA
65 TCTGGGACATGGCATCGACAGCAAGACGA
* * * *
258628 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACA-A-GATGTGTCAGTGTAAGACCATG
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCGACATATGA-GAGCCAGTGTAAGACCATG
258691 TCTGGGACATGGCATCG
65 TCTGGGACATGGCATCG
258708 GCGCAGGTAT
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
91 2 0.03
92 35 0.47
94 38 0.51
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (93 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCGACATATGAGAGCCAGTGTAAGACCATGT
CTGGGACATGGCATCGACAGCAAGACGA
Found at i:279438 original size:29 final size:29
Alignment explanation
Indices: 279396--279502 Score: 137
Period size: 29 Copynumber: 3.7 Consensus size: 29
279386 GTGAAAGTGA
*
279396 TTGGGCCTAGTGGGCCATATAAATGTAAT
1 TTGGGCCTAGTGGGCCATATGAATGTAAT
* * *
279425 TTGGGCCTAATGGGCCAAATGAATGTTAT
1 TTGGGCCTAGTGGGCCATATGAATGTAAT
* *
279454 TTGGGCCTATTAGGCCATATGAATG-AGA-
1 TTGGGCCTAGTGGGCCATATGAATGTA-AT
279482 TTGGGCCTAGTGGGCCATATG
1 TTGGGCCTAGTGGGCCATATG
279503 CATTATGTAA
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
28 19 0.28
29 48 0.72
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (29 bp):
TTGGGCCTAGTGGGCCATATGAATGTAAT
Found at i:288684 original size:40 final size:40
Alignment explanation
Indices: 288610--288751 Score: 225
Period size: 40 Copynumber: 3.6 Consensus size: 40
288600 AACCCAAGTA
* *
288610 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
*
288649 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
288689 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
288729 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
288752 CATTCGAATA
Statistics
Matches: 96, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
39 12 0.12
40 81 0.84
41 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:292898 original size:28 final size:28
Alignment explanation
Indices: 292856--292959 Score: 136
Period size: 28 Copynumber: 3.7 Consensus size: 28
292846 TGGCCCTTTT
* *
292856 AGGCCCAATCTCATTCATATGGCCCACC
1 AGGCCCAATCACATTCATATGGCCCATC
* *
292884 GGGCCCAATCACATTCTTATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* *
292912 AGGCCCAATCACTTTCATATGGCCCGTC
1 AGGCCCAATCACATTCATATGGCCCATC
* *
292940 AGGCCCGATCACACTCATAT
1 AGGCCCAATCACATTCATAT
292960 TCATGCAATC
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 65 1.00
ACGTcount: A:0.24, C:0.37, G:0.16, T:0.23
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:312484 original size:39 final size:39
Alignment explanation
Indices: 312430--312650 Score: 293
Period size: 40 Copynumber: 5.6 Consensus size: 39
312420 AACCCAAGTA
* *
312430 CCTTCGGGATTTAGCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCGGATATAGCAACTAGCACAAATG
* * *
312469 CCTTCGGGTCTTAGCCCGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCGGATATAGCAACTAGCACAAATG
* *
312508 CCTTCGGGTCTTCACCCGGATATAGTCAA-TAGCACAAATG
1 CCTTCGGGACTT-AGCCGGATATAG-CAACTAGCACAAATG
*
312548 CCTTCGGGACTTGGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAG-CCGGATATAG-CAACTAGCACAAATG
*
312588 CCTTCGGGACTTAGCCTGGATATAGCCACTAGCACAAATG
1 CCTTCGGGACTTAGCC-GGATATAGCAACTAGCACAAATG
312628 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAG-CCGGATAT
312651 CATTCGAATA
Statistics
Matches: 165, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
39 52 0.32
40 108 0.65
41 5 0.03
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCGGATATAGCAACTAGCACAAATG
Found at i:318265 original size:45 final size:45
Alignment explanation
Indices: 318201--318291 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
318191 TGAGATTGAT
*
318201 AGCAGGAATGAGGAGTATAAACTCCTCAAACCACCCTGACCATTC
1 AGCAGGAATGAGGAGTATAAACTCCTCAAACAACCCTGACCATTC
* **
318246 AGCAGGAATGAGGAGTATAAACTCTTTGAACAACCCTGACCATTC
1 AGCAGGAATGAGGAGTATAAACTCCTCAAACAACCCTGACCATTC
318291 A
1 A
318292 CCGGAGAGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (45 bp):
AGCAGGAATGAGGAGTATAAACTCCTCAAACAACCCTGACCATTC
Found at i:319273 original size:7 final size:6
Alignment explanation
Indices: 319242--319271 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
319232 TTCAAACTAC
319242 TTTTTA TTTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTT
319272 TAGCAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTTTA
Found at i:321730 original size:46 final size:46
Alignment explanation
Indices: 321663--321835 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
321653 AACCCGCCCC
* *
321663 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCACATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACGTTCACATCCA
* *
321709 TAAGTGAACTCAGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCAGACTCAACTCAACGAGTTC-G--GAC--GTTCACATCCA
* * * * *
321757 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCCCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACGTTCACATCCA
*
321802 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
321836 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 60 0.57
47 26 0.25
48 2 0.02
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACGTTCACATCCA
Found at i:321776 original size:93 final size:93
Alignment explanation
Indices: 321668--321838 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
321658 GCCCCTAAGT
* *
321668 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
321733 CGAGTTCAGATGCCTAGTTACATTTCAC
66 CGAGTTCAGATGCCTAGTTACATTTCAC
* * * *
321761 GAACTCGGACTCAACTCAACGAGTTCGGACATTCCCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
*
321826 CGAGTTCGGATGC
66 CGAGTTCAGATGC
321839 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATTTCAC
Found at i:322290 original size:30 final size:29
Alignment explanation
Indices: 322256--322314 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
322246 ATTTAATACG
322256 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTGCCCCTA
* * *
322286 AACTTTTGCACAATTACACTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTGCCCCTA
322315 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 10 0.38
30 16 0.62
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (29 bp):
AACTTTGGAAAAATTACACTTTGCCCCTA
Found at i:322558 original size:57 final size:57
Alignment explanation
Indices: 322470--322584 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
322460 TCACTCAAAA
322470 CCGAGTAGCACAAGTTGTCTAACATAATTTAAAACCCCATATTCTATCATAAAACAT
1 CCGAGTAGCACAAGTTGTCTAACATAATTTAAAACCCCATATTCTATCATAAAACAT
322527 CCGAGTAGCACAAGTTGTCTAACATAATTTAAAACCCCATATTCTATCATAAAACAT
1 CCGAGTAGCACAAGTTGTCTAACATAATTTAAAACCCCATATTCTATCATAAAACAT
322584 C
1 C
322585 AAAATACACA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (57 bp):
CCGAGTAGCACAAGTTGTCTAACATAATTTAAAACCCCATATTCTATCATAAAACAT
Found at i:329521 original size:46 final size:46
Alignment explanation
Indices: 329454--329626 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
329444 AACCCGCCCC
* *
329454 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCACATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACGTTCACATCCA
* *
329500 TAAGTGAACTCAGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCAGACTCAACTCAACGAGTTC-G--GAC--GTTCACATCCA
* * * * *
329548 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCCCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACGTTCACATCCA
*
329593 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
329627 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 60 0.57
47 26 0.25
48 2 0.02
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACGTTCACATCCA
Found at i:329567 original size:93 final size:93
Alignment explanation
Indices: 329459--329629 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
329449 GCCCCTAAGT
* *
329459 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
329524 CGAGTTCAGATGCCTAGTTACATTTCAC
66 CGAGTTCAGATGCCTAGTTACATTTCAC
* * * *
329552 GAACTCGGACTCAACTCAACGAGTTCGGACATTCCCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
*
329617 CGAGTTCGGATGC
66 CGAGTTCAGATGC
329630 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATTTCAC
Found at i:337111 original size:47 final size:47
Alignment explanation
Indices: 337042--337207 Score: 198
Period size: 47 Copynumber: 3.6 Consensus size: 47
337032 GCCCCTAAGT
337042 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
* * * * *
337089 GAACTCGGACTCAACTAAACGAGTTCGGA---C-A-TTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--TTCA-C
*
337135 GAACTCGGACTCAACTCCACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
*
337182 GAACTCAGACTCAACTCAACGAGTTC
1 GAACTCGGACTCAACTCAACGAGTTC
337208 AGACATTCGC
Statistics
Matches: 97, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 27 0.28
47 52 0.54
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:337157 original size:46 final size:46
Alignment explanation
Indices: 337089--337256 Score: 191
Period size: 46 Copynumber: 3.6 Consensus size: 46
337079 TACATTTCAC
*
337089 GAACTCGGACTCAACTAAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
* * * * *
337135 GAACTCGGACTCAACTCCACGAGTTCGGATGCCTAGTT-ACAT--TTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATAAGT
* *
337182 GAACTCAGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
337228 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
337257 TGCTCAACCA
Statistics
Matches: 98, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 54 0.55
47 26 0.27
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
Found at i:337196 original size:93 final size:93
Alignment explanation
Indices: 337037--337259 Score: 410
Period size: 93 Copynumber: 2.4 Consensus size: 93
337027 AACCCGCCCC
*
337037 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCACGAACTCGGACTCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCACGAACTCAGACTCA
*
337102 ACTAAACGAGTTCGGACATTCGCATCCA
66 ACTAAACGAGTTCAGACATTCGCATCCA
*
337130 TAAGTGAACTCGGACTCAACTCCACGAGTTCGGATGCCTAGTTACATTTCACGAACTCAGACTCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCACGAACTCAGACTCA
*
337195 ACTCAACGAGTTCAGACATTCGCATCCA
66 ACTAAACGAGTTCAGACATTCGCATCCA
337223 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
337260 TCAACCATCC
Statistics
Matches: 125, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 125 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (93 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCACGAACTCAGACTCA
ACTAAACGAGTTCAGACATTCGCATCCA
Found at i:337275 original size:46 final size:43
Alignment explanation
Indices: 337039--337267 Score: 151
Period size: 47 Copynumber: 5.0 Consensus size: 43
337029 CCCGCCCCTA
337039 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATTT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCA-TT
* * * * *
337086 CA-CGAACTCGGACTCAACTAAACGAGTTCGGACATTCGCATCCATA
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATT
*
337132 AGTGAACTCGGACTCAACTCCACGAGTTCGGATGCCTAGTTA-CATTT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCA-TT
* * * * * *
337179 CA-CGAACTCAGACTCAACTCAACGAGTTCAGACATTCGCATCCATA
1 -AGTGAACTCGGACTCAACTCAACGAGTTC-G-GATGC-CAACCATT
337225 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT
337268 CCTAGTGACA
Statistics
Matches: 141, Mismatches: 24, Indels: 36
0.70 0.12 0.18
Matches are distributed among these distances:
43 1 0.01
44 13 0.09
45 3 0.02
46 55 0.39
47 56 0.40
48 3 0.02
49 8 0.06
50 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (43 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATT
Found at i:337711 original size:30 final size:29
Alignment explanation
Indices: 337677--337735 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
337667 ATTTAATACG
337677 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTGCCCCTA
* * *
337707 AACTTTTGCACAATTACACTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTGCCCCTA
337736 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 10 0.38
30 16 0.62
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (29 bp):
AACTTTGGAAAAATTACACTTTGCCCCTA
Found at i:339612 original size:25 final size:25
Alignment explanation
Indices: 339573--339622 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
339563 CTATAAAATA
339573 GGGAAAGAAAACACAAAGTAAGCTT
1 GGGAAAGAAAACACAAAGTAAGCTT
**
339598 GGGAAAGAACGCACAAAGTAAGCTT
1 GGGAAAGAAAACACAAAGTAAGCTT
339623 TAAAAGCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.48, C:0.14, G:0.26, T:0.12
Consensus pattern (25 bp):
GGGAAAGAAAACACAAAGTAAGCTT
Found at i:339973 original size:43 final size:43
Alignment explanation
Indices: 339910--340065 Score: 181
Period size: 43 Copynumber: 3.7 Consensus size: 43
339900 AGCTCGTACA
* * *
339910 ATGCC-ATATCCCAAATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAAACATGGTCTTACATGTAATCACATATCG
* * *
339952 ATGCCAATGTCCCAAACATGGTCTTACATGAAATCATATAACG
1 ATGCCAATGTCCCAAACATGGTCTTACATGTAATCACATATCG
* ** *
339995 ATGCCAATGTCTCAAACATGGTCTTACACATAATCGCAATAT-G
1 ATGCCAATGTCCCAAACATGGTCTTACATGTAATCAC-ATATCG
* *
340038 ATGCCAATGTCTCAGACATGGTCTTACA
1 ATGCCAATGTCCCAAACATGGTCTTACA
340066 CATAACCACG
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
42 5 0.05
43 90 0.92
44 3 0.03
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAAACATGGTCTTACATGTAATCACATATCG
Found at i:342853 original size:39 final size:39
Alignment explanation
Indices: 342810--342884 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
342800 ATATGGTACG
*
342810 ACCCCTAATTATCTCTGGTTAATTTATATTGAATTTCCA
1 ACCCCTAATTATCTCTGGTTAATTTATAATGAATTTCCA
342849 ACCCCTAATTATCTCTGGTTAATTTATAATGAATTT
1 ACCCCTAATTATCTCTGGTTAATTTATAATGAATTT
342885 ATGAAGTCGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.29, C:0.19, G:0.08, T:0.44
Consensus pattern (39 bp):
ACCCCTAATTATCTCTGGTTAATTTATAATGAATTTCCA
Found at i:343843 original size:27 final size:27
Alignment explanation
Indices: 343813--343990 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
343803 ATATTGAGCC
* * * *
343813 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
343840 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
343867 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAGTCA-AAT
** * *
343895 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
343922 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
343949 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
343976 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
343991 GTACAATTCA
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:343952 original size:82 final size:81
Alignment explanation
Indices: 343834--343989 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
343824 TGCTATATAA
* * *
343834 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
343899 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
343916 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
343980 CACTTAGTGC
65 CACTTAGTGC
343990 TGTACAATTC
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 17 0.26
82 49 0.74
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:344002 original size:82 final size:83
Alignment explanation
Indices: 343813--344002 Score: 212
Period size: 82 Copynumber: 2.3 Consensus size: 83
343803 ATATTGAGCC
* * * * *
343813 CGCACACTCAGTGCTATATAA-TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
* *
343877 GTGCTACATAGTCAGACT
66 GTGCAACATAGTCAGAAT
* * **
343895 CGCACACTTAGTGCCG--C-ATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACAC
1 CGCACACTTAGTGCTGTACAAT--TCAATTCGCACACTTAGTGCTA-CATAATCAAATCGCACAC
343956 TTAGTGCAACATAGTCA-AAT
63 TTAGTGCAACATAGTCAGAAT
343976 CGCACACTTAGTGCTGTACAATTCAAT
1 CGCACACTTAGTGCTGTACAATTCAAT
344003 CCCGCGCACT
Statistics
Matches: 89, Mismatches: 12, Indels: 14
0.77 0.10 0.12
Matches are distributed among these distances:
79 1 0.01
81 18 0.20
82 67 0.75
83 1 0.01
84 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (83 bp):
CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
GTGCAACATAGTCAGAAT
Found at i:346537 original size:46 final size:46
Alignment explanation
Indices: 346470--346561 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
346460 TAAATACCGC
346470 TCCCATGAACCACTAAACTCGAGGATGCAACATCTCAACATATCCT
1 TCCCATGAACCACTAAACTCGAGGATGCAACATCTCAACATATCCT
* *
346516 TCCCATGAACTACTGAACTCGAGGATGCAACATCTCAACATATCCT
1 TCCCATGAACCACTAAACTCGAGGATGCAACATCTCAACATATCCT
346562 CAAGTATCTG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.34, C:0.32, G:0.12, T:0.23
Consensus pattern (46 bp):
TCCCATGAACCACTAAACTCGAGGATGCAACATCTCAACATATCCT
Done.