Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1908
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: 74762
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:540 original size:58 final size:58
Alignment explanation
Indices: 445--562 Score: 211
Period size: 58 Copynumber: 2.0 Consensus size: 58
435 CTCCCCCTTA
445 TCAAAAATTTCCCCCCTTAGTAAAATAATTTAACACTTTCGCACATTAACCATTTCTT
1 TCAAAAATTTCCCCCCTTAGTAAAATAATTTAACACTTTCGCACATTAACCATTTCTT
*
503 TCAAAAATTCTTCCCCCTTAGTAAAATAA-TTAACACTTTCGCACATTAACCATTTCTT
1 TCAAAAATT-TCCCCCCTTAGTAAAATAATTTAACACTTTCGCACATTAACCATTTCTT
561 TC
1 TC
563 TCCCCTTAAT
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
58 40 0.69
59 18 0.31
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.36
Consensus pattern (58 bp):
TCAAAAATTTCCCCCCTTAGTAAAATAATTTAACACTTTCGCACATTAACCATTTCTT
Found at i:582 original size:18 final size:19
Alignment explanation
Indices: 559--595 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
549 TAACCATTTC
559 TTTCT-CCCCTTAATCATA
1 TTTCTCCCCCTTAATCATA
577 TTTCTCCCCCTTAATCATA
1 TTTCTCCCCCTTAATCATA
596 AAAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.22, C:0.35, G:0.00, T:0.43
Consensus pattern (19 bp):
TTTCTCCCCCTTAATCATA
Found at i:6849 original size:79 final size:79
Alignment explanation
Indices: 6682--6885 Score: 214
Period size: 79 Copynumber: 2.6 Consensus size: 79
6672 GAGATAATAA
* * ** *
6682 CGGGGTTGGAGTGTTCCCTT-GAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATG
1 CGGGGTTGGAGT-ATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTGTGAGAAATCAATG
*
6746 ATCAGAAAAAAAAAT
65 ATCAGAAAAAAAAAC
* * *
6761 CAGGATTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTTTGAGAAATCAAT-A
1 CGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTGTGAGAAATCAATGA
** ** * *
6825 TTTTGGGAATAAAGC
66 -TCAGAAAAAAAAAC
* * *
6840 CGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCC
6886 GATGAGATAA
Statistics
Matches: 103, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
78 7 0.07
79 96 0.93
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTGTGAGAAATCAATGA
TCAGAAAAAAAAAC
Found at i:6880 original size:28 final size:28
Alignment explanation
Indices: 6840--6911 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
6830 GGAATAAAGC
**
6840 CGGGGTTGGAGTATCCCCTCGGA-AGTAA
1 CGGGGTTGGAGTATCCCCGAGGAGA-TAA
*
6868 CGGGGTTGGAGTATCCCCGATGAGATAA
1 CGGGGTTGGAGTATCCCCGAGGAGATAA
*
6896 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
6912 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.36, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAGATAA
Found at i:7009 original size:53 final size:51
Alignment explanation
Indices: 6899--7121 Score: 225
Period size: 52 Copynumber: 4.3 Consensus size: 51
6889 GAGATAACGA
* * * **
6899 GGTTGGAGTATCCTCGATT-GTGAAAAATTGGTATTTTTGGAAATAAAATTGG
1 GGTTGGAGTATCCCCGATTAG-GAAAAATTAGTA-TTTTGAAAATAAAACCGG
* * *
6951 AGTTGGAGTATCCCCGATTAAAGGAAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--AGGAAAAATTAGTATTTTGAAAATAAAACCGG
* * *
7004 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTATTTT-AGCAATAAAACTGG
1 GGTTGGAGTATCCCCGATT-AGGAAAAATTAGTATTTTGA-AAATAAAACCGG
* * * * **
7056 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTAGGAAAAATTAGTATTTTGAAAATAAAACCGG
7107 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
7122 TCAGAAATAA
Statistics
Matches: 144, Mismatches: 22, Indels: 11
0.81 0.12 0.06
Matches are distributed among these distances:
51 38 0.26
52 61 0.42
53 33 0.23
54 11 0.08
55 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTAGGAAAAATTAGTATTTTGAAAATAAAACCGG
Found at i:7049 original size:105 final size:103
Alignment explanation
Indices: 6899--7121 Score: 286
Period size: 105 Copynumber: 2.1 Consensus size: 103
6889 GAGATAACGA
* * * *
6899 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATTGGAGTTGGAGTATCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTTAGAAATAAAACTGGAGTTGGAGTATCC
*** *
6964 CCGATTAAAGGAAAAATTGGTGTTTTGAAAATAAAACCGG
66 CCGATT--AGGAAAAATCAATATTTTGAAAATAAAACCGG
* *
7004 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTA-TTTTAGCAATAAAACTGGGGTTGGAGTATC
1 GGTTGGAGTATCCCCGATTGT-GAAAAATTAGTATTTTTAGAAATAAAACTGGAGTTGGAGTATC
* * **
7068 CCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
65 CCCGATTAGGAAAAATCAATATTTTGAAAATAAAACCGG
7107 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
7122 TCAGAAATAA
Statistics
Matches: 103, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
103 39 0.38
105 53 0.51
106 11 0.11
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (103 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTTAGAAATAAAACTGGAGTTGGAGTATCC
CCGATTAGGAAAAATCAATATTTTGAAAATAAAACCGG
Found at i:7051 original size:52 final size:51
Alignment explanation
Indices: 6899--7285 Score: 255
Period size: 51 Copynumber: 7.4 Consensus size: 51
6889 GAGATAACGA
* * * **
6899 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATTGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTA-TTTTGGAAATAAAACCGG
* * * * *
6951 AGTTGGAGTATCCCCGATTAAAGGAAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTAGTATTTTGGAAATAAAACCGG
* * * *
7004 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTATTTTAGCAATAAAACTGG
1 GGTTGGAGTATCCCCGATTAT-GAAAAATTAGTATTTTGGAAATAAAACCGG
* * **
7056 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTGGAAATAAAACCGG
* **** *
7107 GGTTGGAGTATCCCC--TCA-GAAATAACGGGGTTGGAGTATCCCCGATAAT-TAA-CGG
1 GGTTGGAGTATCCCCGATTATGAAA-AA-----TT--AGTATTTTGGA-AATAAAACCGG
** * * *
7162 GGTTGGAGTATCCCCGATTATGAAATTTTGGTGTTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATT--AG-TATTTTGGAAATAAAACCGG
* * * * *
7216 AGTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTCTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGA-AAAATTAGTATTTTGGAAATAAAACCGG
* *
7267 AGTTGGAATATCCCCGATT
1 GGTTGGAGTATCCCCGATT
7286 GTGGAGAATT
Statistics
Matches: 264, Mismatches: 52, Indels: 39
0.74 0.15 0.11
Matches are distributed among these distances:
48 4 0.02
49 4 0.02
51 73 0.28
52 70 0.27
53 40 0.15
54 39 0.15
55 18 0.07
56 7 0.03
57 5 0.02
58 4 0.02
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTGGAAATAAAACCGG
Found at i:7117 original size:264 final size:263
Alignment explanation
Indices: 6790--7290 Score: 765
Period size: 264 Copynumber: 1.9 Consensus size: 263
6780 CGAAAATAAC
* * *
6790 GGGGTTGGAGTATCCCCAATTTTGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATC
* * * *
6855 CCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAGA-TAACGAGGTTGGAGTATCCTCGATTG
66 CCCTCAGAAATAACGGGGTTGGAGTATCCCCGAT-A-ATTAACGAGGTTGGAGTATCCCCGATTA
*
6919 TGAAAAATT-G-GTATTTTTGGAAATAAAATTGGAGTTGGAGTATCCCCGATTAAAGGAAAAATT
129 TGAAAAATTGGTGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAA-G-AAAATT
* * * *
6982 GGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTATTTTAGCAA
192 AGTGTCTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAAATTAGTATTTTAGCAA
7047 TAAAACT
257 TAAAACT
* *
7054 GGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATC
*
7119 CCCTCAGAAATAACGGGGTTGGAGTATCCCCGATAATTAACGGGGTTGGAGTATCCCCGATTATG
66 CCCTCAGAAATAACGGGGTTGGAGTATCCCCGATAATTAACGAGGTTGGAGTATCCCCGATTATG
** * *
7184 AAATTTTGGTGTTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAAATTAGTG
131 AAAAATTGGTGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAATTAGTG
*
7249 TCTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
196 TCTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGA
7291 GAATTGAGAA
Statistics
Matches: 214, Mismatches: 20, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
262 1 0.00
263 78 0.36
264 94 0.44
265 41 0.19
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (263 bp):
GGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATC
CCCTCAGAAATAACGGGGTTGGAGTATCCCCGATAATTAACGAGGTTGGAGTATCCCCGATTATG
AAAAATTGGTGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGAAAATTAGTG
TCTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAAATTAGTATTTTAGCAATAAA
ACT
Found at i:7167 original size:27 final size:27
Alignment explanation
Indices: 7104--7179 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
7094 GAAATAAAGT
* *
7104 CGGGGTTGGAGTATCCCCTCAGAAATAA
1 CGGGGTTGGAGTATCCCC-GATAAATAA
*
7132 CGGGGTTGGAGTATCCCCGATAATTAA
1 CGGGGTTGGAGTATCCCCGATAAATAA
7159 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
7180 TATGAAATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
27 27 0.60
28 18 0.40
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGATAAATAA
Found at i:9674 original size:13 final size:13
Alignment explanation
Indices: 9656--9681 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9646 ACAAAGATCC
9656 ATGTATCGATACA
1 ATGTATCGATACA
9669 ATGTATCGATACA
1 ATGTATCGATACA
9682 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:12926 original size:32 final size:33
Alignment explanation
Indices: 12863--12930 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
12853 CATTACAAGC
*
12863 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATATTATGGTGTATCGATA
* *
12896 CAATGTATTGATACATATTGT-GTGTATCGATA
1 CAATGTATCGATACATATTATGGTGTATCGATA
12928 CAA
1 CAA
12931 GTTTAGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (33 bp):
CAATGTATCGATACATATTATGGTGTATCGATA
Found at i:13005 original size:20 final size:21
Alignment explanation
Indices: 12962--13014 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 21
12952 ACCAATGACT
**
12962 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
12983 TGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
13003 TGTATCGATACA
1 TGTATCGATACA
13015 ATGCAATCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:17911 original size:145 final size:142
Alignment explanation
Indices: 17644--17917 Score: 361
Period size: 143 Copynumber: 1.9 Consensus size: 142
17634 TGATCTTAAG
* * * * *
17644 AGACTTGAAAAGGGTTGTAAAGAGTGAATCTATCTATATGCACACCTTTGGGATAAGAGTGATAA
1 AGACTTGAAAAGGGTTGAAAAGAGTGAATCTATCTATATGCACACCTTCGGCATAAGAATGACAA
* * * *
17709 CCTAAGACTCGATTCTAAAAATTAAGAAAATGCCCCAAGAGGGTACCTTCTACGTAGAAGTACCC
66 CCTAAGACTCGATCCTAAAAATTAAAAAAATACCCCAAGAGGGTACCTTCGACGTAGAAGTACCC
17774 AGTACTTCTAAA
131 AGTACTTCTAAA
* * * * * *
17786 AGACTTGAAAAGGTTTGAAAATATTGAATCTATCCTATGTGTATACCTTCGGCATAAGAATGACA
1 AGACTTGAAAAGGGTTGAAAAGAGTGAATCTAT-CTATATGCACACCTTCGGCATAAGAATGACA
*
17851 ACCTAAGACTCGATCCTTAAAAAATTAAAAAAATACCCCTAAGA-GGTACTTTCGACGTAGAAGT
65 ACCTAAGACTCGATCC-T-AAAAATTAAAAAAATACCCC-AAGAGGGTACCTTCGACGTAGAAGT
17915 ACC
127 ACC
17918 TAATACTCTT
Statistics
Matches: 112, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
142 29 0.26
143 39 0.35
144 1 0.01
145 39 0.35
146 4 0.04
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (142 bp):
AGACTTGAAAAGGGTTGAAAAGAGTGAATCTATCTATATGCACACCTTCGGCATAAGAATGACAA
CCTAAGACTCGATCCTAAAAATTAAAAAAATACCCCAAGAGGGTACCTTCGACGTAGAAGTACCC
AGTACTTCTAAA
Found at i:19255 original size:16 final size:15
Alignment explanation
Indices: 19222--19251 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19212 GAGACAAGAA
19222 CTTTACTATCTTTTT
1 CTTTACTATCTTTTT
*
19237 CTTTTCTATCTTTTT
1 CTTTACTATCTTTTT
19252 TCTTCTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.20, G:0.00, T:0.70
Consensus pattern (15 bp):
CTTTACTATCTTTTT
Found at i:19258 original size:10 final size:10
Alignment explanation
Indices: 19238--19285 Score: 80
Period size: 10 Copynumber: 4.8 Consensus size: 10
19228 TATCTTTTTC
19238 TTTTCTATCTT
1 TTTTCT-TCTT
19249 TTTTCTTCTT
1 TTTTCTTCTT
19259 TTTTCTTCTT
1 TTTTCTTCTT
19269 TTTTCTT-TT
1 TTTTCTTCTT
19278 TTTTCTTC
1 TTTTCTTC
19286 CTAAGCTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.25
10 21 0.58
11 6 0.17
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTCTTCTT
Found at i:19264 original size:7 final size:7
Alignment explanation
Indices: 19232--19279 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
19222 CTTTACTATC
19232 TTTTTCT
1 TTTTTCT
19239 TTTCTATCT
1 TTT-T-TCT
19248 TTTTTCT
1 TTTTTCT
*
19255 TCTTT-T
1 TTTTTCT
*
19261 TTCTTCT
1 TTTTTCT
19268 TTTTTCT
1 TTTTTCT
19275 TTTTT
1 TTTTT
19280 TTCTTCCTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 4 0.12
7 22 0.65
8 2 0.06
9 6 0.18
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTTCT
Found at i:19795 original size:30 final size:29
Alignment explanation
Indices: 19759--19902 Score: 108
Period size: 30 Copynumber: 5.5 Consensus size: 29
19749 CATTGTTCAT
19759 TGTATCGATACATTCTAGGTTTTACCTAGA
1 TGTATCGATACATTCTAGGTTTTACC-AGA
*
19789 TGTATCGATACA-T-T--G--TT--CA-T
1 TGTATCGATACATTCTAGGTTTTACCAGA
*
19809 TGTATCGATATATTCTAGGTTTTACCTAGA
1 TGTATCGATACATTCTAGGTTTTACC-AGA
*
19839 TGTATCGATACA-T-T--G--TT--CA-T
1 TGTATCGATACATTCTAGGTTTTACCAGA
19859 TGTATCGATACATTCTAGGTTTTACCCAGA
1 TGTATCGATACATTCTAGGTTTTA-CCAGA
19889 TGTATCGATACATT
1 TGTATCGATACATT
19903 GTTCATTGTA
Statistics
Matches: 88, Mismatches: 6, Indels: 40
0.66 0.04 0.30
Matches are distributed among these distances:
20 23 0.26
21 4 0.05
22 4 0.05
24 6 0.07
26 6 0.07
28 3 0.03
29 5 0.06
30 37 0.42
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (29 bp):
TGTATCGATACATTCTAGGTTTTACCAGA
Found at i:19814 original size:50 final size:50
Alignment explanation
Indices: 19739--19974 Score: 341
Period size: 50 Copynumber: 4.7 Consensus size: 50
19729 TTTCACAGTT
*
19739 TGTATCAATACATTGTTCATTGTATCGATACATTCTAGGTTTTACCTAGA
1 TGTATCGATACATTGTTCATTGTATCGATACATTCTAGGTTTTACCTAGA
*
19789 TGTATCGATACATTGTTCATTGTATCGATATATTCTAGGTTTTACCTAGA
1 TGTATCGATACATTGTTCATTGTATCGATACATTCTAGGTTTTACCTAGA
*
19839 TGTATCGATACATTGTTCATTGTATCGATACATTCTAGGTTTTACCCAGA
1 TGTATCGATACATTGTTCATTGTATCGATACATTCTAGGTTTTACCTAGA
* * * * *
19889 TGTATCGATACATTGTTCATTGTATTGATACATTTTCA--TTGTATCGATACAA
1 TGTATCGATACATTGTTCATTGTATCGATACATTCT-AGGTTTTA-C-CTA-GA
*
19941 TGTATCGATACATTGTTTATTGTATCGATACATT
1 TGTATCGATACATTGTTCATTGTATCGATACATT
19975 TTTCAATGTA
Statistics
Matches: 170, Mismatches: 12, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
49 4 0.02
50 131 0.77
51 2 0.01
52 33 0.19
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (50 bp):
TGTATCGATACATTGTTCATTGTATCGATACATTCTAGGTTTTACCTAGA
Found at i:19864 original size:20 final size:20
Alignment explanation
Indices: 19839--19994 Score: 121
Period size: 20 Copynumber: 7.7 Consensus size: 20
19829 TTTACCTAGA
19839 TGTATCGATACATTGTTCAT
1 TGTATCGATACATTGTTCAT
*
19859 TGTATCGATACATTCTAGGTTTTACCCAGA
1 TGTATCGATACA-T-T--G--TT---CA-T
19889 TGTATCGATACATTGTTCAT
1 TGTATCGATACATTGTTCAT
*
19909 TGTATTGATACATT-TTCAT
1 TGTATCGATACATTGTTCAT
19928 TGTATCGATACA------A-
1 TGTATCGATACATTGTTCAT
*
19941 TGTATCGATACATTGTTTAT
1 TGTATCGATACATTGTTCAT
* *
19961 TGTATCGATACATTTTTCAA
1 TGTATCGATACATTGTTCAT
19981 TGTATCGATACATT
1 TGTATCGATACATT
19995 CAGCCATTTT
Statistics
Matches: 112, Mismatches: 7, Indels: 34
0.73 0.05 0.22
Matches are distributed among these distances:
13 12 0.11
14 1 0.01
19 17 0.15
20 56 0.50
21 3 0.03
22 1 0.01
24 3 0.03
26 3 0.03
28 1 0.01
29 3 0.03
30 12 0.11
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.44
Consensus pattern (20 bp):
TGTATCGATACATTGTTCAT
Found at i:19946 original size:13 final size:13
Alignment explanation
Indices: 19928--19952 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19918 ACATTTTCAT
19928 TGTATCGATACAA
1 TGTATCGATACAA
19941 TGTATCGATACA
1 TGTATCGATACA
19953 TTGTTTATTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:19951 original size:32 final size:33
Alignment explanation
Indices: 19909--19972 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
19899 CATTGTTCAT
*
19909 TGTATTGATACATT-TTCATTGTATCGATACAA
1 TGTATCGATACATTGTTCATTGTATCGATACAA
*
19941 TGTATCGATACATTGTTTATTGTATCGATACA
1 TGTATCGATACATTGTTCATTGTATCGATACA
19973 TTTTTCAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (33 bp):
TGTATCGATACATTGTTCATTGTATCGATACAA
Found at i:22427 original size:78 final size:78
Alignment explanation
Indices: 22298--22441 Score: 216
Period size: 78 Copynumber: 1.8 Consensus size: 78
22288 TTTTTATCTC
** * *
22298 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACATCAATTTTTCACAATCGAGGATACTCCAAC
22363 CCCTTATTTTCAA
66 CCCTTATTTTCAA
* * **
22376 GGGGATACTCCAACCCCGACTTTATTTCGAAAATATTGATTTTTCACAATCGAGGATACTCCAAC
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACATCAATTTTTCACAATCGAGGATACTCCAAC
22441 C
66 C
22442 TCAATTTTAT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
78 58 1.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (78 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAACATCAATTTTTCACAATCGAGGATACTCCAAC
CCCTTATTTTCAA
Found at i:22489 original size:52 final size:51
Alignment explanation
Indices: 22376--22491 Score: 142
Period size: 51 Copynumber: 2.3 Consensus size: 51
22366 TTATTTTCAA
* * ***
22376 GGGGATACTCCAACCCCGACTTTATTTCGAAAATATTGATTTTTCACAATC
1 GGGGATACTCCAACCCCAACTTTATTTCGAAAACACCAATTTTTCACAATC
* * * *
22427 GAGGATACTCCAACCTCAATTTTATTTCTAAAACACCAATCTTTTCACAATC
1 GGGGATACTCCAACCCCAACTTTATTTCGAAAACACCAAT-TTTTCACAATC
22479 GGGGATACTCCAA
1 GGGGATACTCCAA
22492 TCCCGTTATT
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
51 31 0.57
52 23 0.43
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAACTTTATTTCGAAAACACCAATTTTTCACAATC
Found at i:22520 original size:131 final size:129
Alignment explanation
Indices: 22300--22704 Score: 499
Period size: 130 Copynumber: 3.1 Consensus size: 129
22290 TTTATCTCGG
** * * *
22300 GGATACTCCAACCCCGGTTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAACCC
1 GGATACTCCAACCCCAATTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAACCC
* * *
22365 CTTATTTTCAAGGGGATACTCCAACCCCGACTTTATTTCGAAAATATTGATTTTTCACAATCGA
66 GTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCTAAAATATTGATTTTTCACAATCGA
*
22429 GGATACTCCAACCTCAATTTTATTTCTAAAACACCAATCTTTTCACAATCGGGGATACTCCAATC
1 GGATACTCCAACCCCAATTTTATTTCTAAAACACCAAT-TTTTCACAATCGGGGATACTCCAA-C
* * * *
22494 CCGTTATTTTCGAGGGGATACTCCAACTCC-AGCTTTATTTCTAAAATATTAATTTCTCATAATC
64 CCGTTATTTTCGAGGGGATACTCCAACCCCGA-CTTTATTTCTAAAATATTGATTTTTCACAATC
*
22558 GG
128 GA
* * * * *
22560 GGATACTCCAACCCCTATTTGATTTCTAAAACACCAAATTTTCACAATCGAGGATACTCTAACCC
1 GGATACTCCAACCCCAATTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAA-CC
* * * * * * ** *
22625 CGTTATTTTTGTGGGGATACTCCAACCCTGGCCTTAATTCTAAAGCATCGA-TTTTCTACAATCG
65 CGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCTAAAATATTGATTTTTC-ACAATCG
22689 A
129 A
22690 GGATACTCCAACCCC
1 GGATACTCCAACCCC
22705 GCTATTTTCG
Statistics
Matches: 236, Mismatches: 35, Indels: 9
0.84 0.12 0.03
Matches are distributed among these distances:
129 37 0.16
130 108 0.46
131 91 0.39
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (129 bp):
GGATACTCCAACCCCAATTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAACCC
GTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCTAAAATATTGATTTTTCACAATCGA
Found at i:22585 original size:51 final size:50
Alignment explanation
Indices: 22507--22625 Score: 125
Period size: 51 Copynumber: 2.3 Consensus size: 50
22497 TTATTTTCGA
* * ** *
22507 GGGGATACTCCAACTCCAGCTTTATTTCTAAAATA-TTAATTTCTCATAATC
1 GGGGATACTCCAACCCCA-CTTTATTTCTAAAACACCAAATTT-TCACAATC
22558 GGGGATACTCCAACCCCTA-TTTGATTTCTAAAACACCAAATTTTCACAATC
1 GGGGATACTCCAACCCC-ACTTT-ATTTCTAAAACACCAAATTTTCACAATC
* *
22609 GAGGATACTCTAACCCC
1 GGGGATACTCCAACCCC
22626 GTTATTTTTG
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
50 3 0.05
51 49 0.84
52 6 0.10
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.31
Consensus pattern (50 bp):
GGGGATACTCCAACCCCACTTTATTTCTAAAACACCAAATTTTCACAATC
Found at i:22642 original size:79 final size:78
Alignment explanation
Indices: 22558--22784 Score: 242
Period size: 79 Copynumber: 2.9 Consensus size: 78
22548 TCTCATAATC
*
22558 GGGGATACTCCAACCCCTATTTGATTTCTAAAACACCAAATTTTC-ACAATCGAGGATACTCTAA
1 GGGGATACTCCAACCCCTATTT-ATTTCTAAAACACC-AATTTTCTACAATCGAGGATACTCCAA
* * *
22622 CCCCGTTATTTTTGT
64 CCCCGCTATTTTCGA
** * * * *
22637 GGGGATACTCCAA-CCCTGGCCTTAATTCTAAAGCATCGATTTTCTACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCT--ATTTATTTCTAAAACACCAATTTTCTACAATCGAGGATACTCCAA
22701 CCCCGCTATTTTCGA
64 CCCCGCTATTTTCGA
* * * * * * *
22716 GGGGATACTCCAACCCCGATTTTATTTTTAAAACACCGATTTTCTATAATTGGGGATACTCCAGC
1 GGGGATACTCCAACCCCTA-TTTATTTCTAAAACACCAATTTTCTACAATCGAGGATACTCCAAC
22781 CCCG
65 CCCG
22785 TTGTTACCCC
Statistics
Matches: 122, Mismatches: 21, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
78 10 0.08
79 107 0.88
80 5 0.04
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.30
Consensus pattern (78 bp):
GGGGATACTCCAACCCCTATTTATTTCTAAAACACCAATTTTCTACAATCGAGGATACTCCAACC
CCGCTATTTTCGA
Found at i:25744 original size:51 final size:51
Alignment explanation
Indices: 25680--25796 Score: 153
Period size: 51 Copynumber: 2.3 Consensus size: 51
25670 GAAATAACAA
* *
25680 GGTTAGAGTATCCCTGATTATAGAAAATCGATATTTCAAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATAGAAAATCGATATTTCAAAAATAAAATCGG
* * * ** * *
25731 GGTTGGAGTATCCCCGATTATTGAAAATCGGTGTTTTGAAAGTAGAATCGG
1 GGTTGGAGTATCCCCGATTATAGAAAATCGATATTTCAAAAATAAAATCGG
25782 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
25797 TCGAAAATAA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATAGAAAATCGATATTTCAAAAATAAAATCGG
Found at i:25813 original size:79 final size:76
Alignment explanation
Indices: 25730--25985 Score: 278
Period size: 79 Copynumber: 3.2 Consensus size: 76
25720 AATAAAATCG
* *
25730 GGGTTGGAGTATCCCCGATTATTGAAAATCGGTGTTTTGAAAGTAGAATCGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTA-TGAAAATTGATGTTTTGAAA-TA-AATCGGGGTTGGAGTATCC
25795 CCTCGAAAATAATA
63 CCTCGAAAATAATA
* * * * *
25809 GGGTTGGAGTATCTCTGATTATGAAAAATTGATGCTTTAGAAATAAGGTTGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTATG-AAAATTGATG-TTTTGAAATAA-ATCGGGGTTGGAGTATCC
* * **
25874 CCGCAAAAATAACG
63 CCTCGAAAATAATA
* * * * * *
25888 GGGTTGGAGTATCCCTGATTGTGAGAAATTAATATTTTAGGAATAAAGTCGGGGTTAGAGTATCC
1 GGGTTGGAGTATCCCCGATTATGA-AAATTGATGTTTT-GAAATAAA-TCGGGGTTGGAGTATCC
25953 CCTCGAAAATAATA
63 CCTCGAAAATAATA
25967 GGGTTGGAGTATCCCCGAT
1 GGGTTGGAGTATCCCCGAT
25986 GAAATAACAG
Statistics
Matches: 146, Mismatches: 25, Indels: 12
0.80 0.14 0.07
Matches are distributed among these distances:
78 7 0.05
79 132 0.90
80 7 0.05
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.29
Consensus pattern (76 bp):
GGGTTGGAGTATCCCCGATTATGAAAATTGATGTTTTGAAATAAATCGGGGTTGGAGTATCCCCT
CGAAAATAATA
Found at i:25819 original size:130 final size:130
Alignment explanation
Indices: 25604--25876 Score: 338
Period size: 130 Copynumber: 2.1 Consensus size: 130
25594 ACAACAGGGC
* *
25604 TGGAGTATCCCCAATTATGAAAAATCGATGTTCTGGAAATAAAATCGGGGTTGTAGTATCCCCTC
1 TGGAGTATCCCCGATTATGAAAAATCGATGTTCTGGAAATAAAATCGGGGTTGGAGTATCCCCTC
*
25669 GGAAATAACAAGGTTAGAGTATCCCTGATTAT-AGAAAATCGAT-ATTTCAAAAATAAAATCGGG
66 GAAAATAACAAGGTTAGAGTATCCCTGATTATGA-AAAATCGATGATTT-AAAAATAAAATCGGG
25732 GT
129 GT
* * *
25734 TGGAGTATCCCCGATTATTG-AAAATCGGTGTT-TTGAAAGTAGAATCGGGGTTGGAGTATCCCC
1 TGGAGTATCCCCGATTA-TGAAAAATCGATGTTCTGGAAA-TAAAATCGGGGTTGGAGTATCCCC
* * * * * * * ** *
25797 TCGAAAATAATAGGGTTGGAGTATCTCTGATTATGAAAAATTGATGCTTTAGAAATAAGGTTGGG
64 TCGAAAATAACAAGGTTAGAGTATCCCTGATTATGAAAAATCGATGATTTAAAAATAAAATCGGG
25862 GT
129 GT
25864 TGGAGTATCCCCG
1 TGGAGTATCCCCG
25877 CAAAAATAAC
Statistics
Matches: 123, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
129 5 0.04
130 112 0.91
131 6 0.05
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.29
Consensus pattern (130 bp):
TGGAGTATCCCCGATTATGAAAAATCGATGTTCTGGAAATAAAATCGGGGTTGGAGTATCCCCTC
GAAAATAACAAGGTTAGAGTATCCCTGATTATGAAAAATCGATGATTTAAAAATAAAATCGGGGT
Found at i:26056 original size:107 final size:107
Alignment explanation
Indices: 25860--26061 Score: 246
Period size: 107 Copynumber: 1.9 Consensus size: 107
25850 AATAAGGTTG
* ** * * *
25860 GGGTTGGAGTATCCCCGCAAAAATAACGGGGTTGGAGTATCCCTGATTGTGAGAAATTAATATTT
1 GGGTTGGAGTATCCCCGCAAAAATAACAGGGTTAAAGTATCCCTGAATGTGAAAAAATAATATTT
* * *
25925 TAGGAATAAAGTCGGGGTTAGAGTATCCCCTCGAAAATAATA
66 TAGAAATAAAATCGGAGTTAGAGTATCCCCTCGAAAATAATA
* ** *
25967 GGGTTGGAGTATCCCCG-ATGAAATAACAGGGTTAAAGTATCCCTGAATGTGAAAAAATGGTGTT
1 GGGTTGGAGTATCCCCGCA-AAAATAACAGGGTTAAAGTATCCCTGAATGTGAAAAAATAATATT
*
26031 TT-GAAAATAAAATCGGAGTTGGAGTATCCCC
65 TTAG-AAATAAAATCGGAGTTAGAGTATCCCC
26062 AATTGTAGAG
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
106 2 0.03
107 77 0.97
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (107 bp):
GGGTTGGAGTATCCCCGCAAAAATAACAGGGTTAAAGTATCCCTGAATGTGAAAAAATAATATTT
TAGAAATAAAATCGGAGTTAGAGTATCCCCTCGAAAATAATA
Found at i:26060 original size:51 final size:52
Alignment explanation
Indices: 25997--26114 Score: 125
Period size: 51 Copynumber: 2.3 Consensus size: 52
25987 AAATAACAGG
* * * *
25997 GTTAAAGTATCCCTGAA-TGT-GAAAAAATGGTGTTTTGAAAATAAAATCGGA
1 GTTAGAGTATCCCTCAATTGTAG-AAAAATGGTATTTTAAAAATAAAATCGGA
* * * *
26048 GTTGGAGTATCCC-CAATTGTAGAGAATTGGTATTTTAAAAATAAAATCGGG
1 GTTAGAGTATCCCTCAATTGTAGAAAAATGGTATTTTAAAAATAAAATCGGA
26099 GTTAGAGTATTCCCTC
1 GTTAGAGTA-TCCCTC
26115 GGAAATAACG
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
50 2 0.04
51 46 0.85
52 5 0.09
53 1 0.02
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (52 bp):
GTTAGAGTATCCCTCAATTGTAGAAAAATGGTATTTTAAAAATAAAATCGGA
Found at i:28505 original size:13 final size:13
Alignment explanation
Indices: 28487--28516 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
28477 AAAATGCTTG
28487 AATGTATCGATAC
1 AATGTATCGATAC
28500 AATGTATCGATAC
1 AATGTATCGATAC
28513 AATG
1 AATG
28517 AACAATATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:29373 original size:46 final size:45
Alignment explanation
Indices: 29211--29631 Score: 370
Period size: 45 Copynumber: 9.5 Consensus size: 45
29201 AGTGAAAAAG
* * *
29211 AGTGCGTCCTACT-TTTCGAGGAC-AAA-GG-AAAAAAGGAAAACGA
1 AGTGTGTCCTGCTCTTT-GAGGACAAAAGGGAAAAAAAGG-AAATGA
* * *
29254 AATGTGTCCTGCTCTTTGAGGATAAAA--G--AAAAAGGAAAATAA
1 AGTGTGTCCTGCTCTTTGAGGACAAAAGGGAAAAAAAGG-AAATGA
** *
29296 AGTGCATCCTTCTCTTTGAGGACAAAAGGGAAAAAAAGGAAATGA
1 AGTGTGTCCTGCTCTTTGAGGACAAAAGGGAAAAAAAGGAAATGA
* *
29341 AGTGTATCCTGCTCTTTGAGGACAAAAGGGGAAAATAAGGAAATGGA
1 AGTGTGTCCTGCTCTTTGAGGACAAAA-GGGAAAAAAAGGAAAT-GA
* * *
29388 A-CGTGTCCTGCTCTTTGAGGAC-AAA-GG-AGAAAAGGAAAATAA
1 AGTGTGTCCTGCTCTTTGAGGACAAAAGGGAAAAAAAGG-AAATGA
*
29430 AGTGTGTCCTGCTCCTTGAGGACAAAAGGGAAAAAAAGGAAATGA
1 AGTGTGTCCTGCTCTTTGAGGACAAAAGGGAAAAAAAGGAAATGA
* *
29475 AGTGCGTCCTGCTCTTTGAGGATAAAAGGAGAAAAGAAAGG-AATGGA
1 AGTGTGTCCTGCTCTTTGAGGACAAAAGG-GAAAA-AAAGGAAAT-GA
** * * * * *
29522 A-CATGTCTTGCTCTTTAAGGAC-AAA-GGAGAAAAAGAAAATAA
1 AGTGTGTCCTGCTCTTTGAGGACAAAAGGGAAAAAAAGGAAATGA
** * * *
29564 AGTGCATCCTGTTCTTTGAAGACAAAAGGGAAAAGAAGGAAATGA
1 AGTGTGTCCTGCTCTTTGAGGACAAAAGGGAAAAAAAGGAAATGA
* *
29609 AGTGTGTCCTACCCTTTGAGGAC
1 AGTGTGTCCTGCTCTTTGAGGAC
29632 TAGGAAGTGC
Statistics
Matches: 304, Mismatches: 54, Indels: 38
0.77 0.14 0.10
Matches are distributed among these distances:
42 48 0.16
43 61 0.20
44 14 0.05
45 99 0.33
46 71 0.23
47 11 0.04
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.20
Consensus pattern (45 bp):
AGTGTGTCCTGCTCTTTGAGGACAAAAGGGAAAAAAAGGAAATGA
Found at i:29449 original size:134 final size:134
Alignment explanation
Indices: 29257--29631 Score: 547
Period size: 134 Copynumber: 2.8 Consensus size: 134
29247 AAAACGAAAT
* * *
29257 GTGTCCTGCTCTTTGAGGATAAAAGA-AAAAGGAAAATAAAGTGCATCCTTCTCTTTGAGGACAA
1 GTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAGTGCATCCTGCTCTTTGAGGACAA
* * *
29321 AAGGGAAAAAAAGGAAATGAAGTGTATCCTGCTCTTTGAGGACAAAAGGGGAAAA-TAAGGAAAT
66 AAGGGAAAAAAAGGAAATGAAGTGTGTCCTGCTCTTTGAGGACAAAAGGAGAAAAGAAAGG-AAT
29385 GGAAC
130 GGAAC
** *
29390 GTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAGTGTGTCCTGCTCCTTGAGGACAA
1 GTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAGTGCATCCTGCTCTTTGAGGACAA
* *
29455 AAGGGAAAAAAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGATAAAAGGAGAAAAGAAAGGAATG
66 AAGGGAAAAAAAGGAAATGAAGTGTGTCCTGCTCTTTGAGGACAAAAGGAGAAAAGAAAGGAATG
29520 GAAC
131 GAAC
* * * * * *
29524 ATGTCTTGCTCTTTAAGGACAAAGGAGAAAAAGAAAATAAAGTGCATCCTGTTCTTTGAAGACAA
1 GTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAGTGCATCCTGCTCTTTGAGGACAA
* * *
29589 AAGGGAAAAGAAGGAAATGAAGTGTGTCCTACCCTTTGAGGAC
66 AAGGGAAAAAAAGGAAATGAAGTGTGTCCTGCTCTTTGAGGAC
29632 TAGGAAGTGC
Statistics
Matches: 215, Mismatches: 25, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
133 24 0.11
134 187 0.87
135 4 0.02
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.21
Consensus pattern (134 bp):
GTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAGTGCATCCTGCTCTTTGAGGACAA
AAGGGAAAAAAAGGAAATGAAGTGTGTCCTGCTCTTTGAGGACAAAAGGAGAAAAGAAAGGAATG
GAAC
Found at i:30093 original size:61 final size:59
Alignment explanation
Indices: 29872--31433 Score: 1782
Period size: 61 Copynumber: 25.6 Consensus size: 59
29862 GCAAAAGAGA
* * * **
29872 AAAAGAAAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGTCACCAACTCATGT-GGCTTT
1 AAAAGAAAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * *
29931 GAAAAGAAAAGGCGCCCTGCTCTATAAGGACTAAAAGGTGCCACCAAGTTGTATGGGCTTT
1 -AAAAGAAAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT
* *
29992 GAAAAGAAAAAGGCGTCCTACTATTTGAGGACTAAGAGGTGCCACCAACTTGTGTGGGCTTT
1 -AAAAG-AAAAGGCGTCCTGCTCTTTGAGGACTAA-AGGTGCCACCAACTTGTGTGGGCTTT
*
30054 GAAAAGAAAAGGCGTCCTGCCCTTTGAGGACTAAGAGGTGCCACCAACTTGTGTGGGCTTT
1 -AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAA-AGGTGCCACCAACTTGTGTGGGCTTT
* *
30115 GAAAAGAAAAGGCATCCTGCTCTTTGAGGACTAAGAGGTGCCACCAGCTTGTGTGGGCTTT
1 -AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAA-AGGTGCCACCAACTTGTGTGGGCTTT
* *
30176 AAAAGAAAAAGGCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTATGTGGGCTTT
1 AAAAG-AAAAGGCGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTT
* *
30237 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTCAAGGGTGCCACCAACTCGTGTGGGCTTT
1 AAAA-GAAAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
30298 GAAAAGAAAATGGTGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCATTA
1 -AAAAGAAAA-GGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGC-TTT
** *
30361 AAAAGAAAAAGATGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTT
1 AAAAG-AAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
30421 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTAGGCTTT
1 AAAA-GAAAAGGCGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTT
* * * * *
30482 AAAAGGAAAAGGCGTCTTGCTCCTTGAGGACTAAAAAGTGCCACCATCTTTTGTGGGCTTT
1 AAAA-GAAAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT
* * * *
30543 AAAAGGAAAAGGCGTCCTACTCCTTGAGGACTAAAAAGTGCCACCAACTTATGTGGGCTTT
1 AAAA-GAAAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * *
30604 AAAAGGAAAAAACGTCCTGCTCTTTGAGGACTGAAA-GTGCCACCAGCTTGTCTAGGCTTT
1 AAAA-GAAAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * * * *
30664 GAAAGGAAAAGGTGTCCTGCTCTTTGAGAACTAAAAAGTGCTACCAATTTGTGTGGGCTTGA
1 -AAAAGAAAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTT-T
*
30726 AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAA-TTCTGTGGGCTTT
1 AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTT
* * *
30785 GAAAAGAAAAAGGTGTCCTGCTCTTTGAAGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
1 -AAAAG-AAAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT
** * * *
30847 AAAAAGAAAAAGATGTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTAGGCTTT
1 -AAAAG-AAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
30908 AAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTATGTGGGCTTT
1 AAAA-GAAAAGGCGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTT
* * *
30969 GAAAGGAAAAGGCGTCCTGCTCCTTGAGGACTGAAAAGTGCCA-CAATCTTGTGTGGGCTTT
1 -AAAAGAAAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAA-CTTGTGTGGGCTTT
* * * * *
31030 AAAAGGAAAAGGCGACCTACTCCTTGAGGACTAAAAAGTGCCACCAACTTGTGTGAGCTTT
1 AAAA-GAAAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
31091 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAGGTGGCACCAGCTTGTGTGGGCTTT
1 AAAA-GAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * * * *
31151 GAAAGAAAAAGGCATCCTGTTTTTTGAGGATTGAAAAGTGCCACCAATTTGTGTGGGCTTT
1 AAAAG-AAAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * * * *
31212 ACAAAGAAAAGACGTCCTACTTTTTTAGGACTAGAAGGTGCCACCAATTTGTGCGGGTTTT
1 A-AAAGAAAAGGCGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTT
*
31273 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGATTAGAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAA-GAAAAGGCGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTT
* * *
31334 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGATTAGAAAGGTGTCACCAACTTATGTGGGCTTT
1 AAAA-GAAAAGGCGTCCTGCTCTTTGAGGACT--AAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
31396 GAAAAGAAAAAGACGTCCTGTTCTTTAAGGACTAAAGG
1 -AAAAG-AAAAGGCGTCCTGCTCTTTGAGGACTAAAGG
31434 GCTAAAAGGG
Statistics
Matches: 1311, Mismatches: 153, Indels: 75
0.85 0.10 0.05
Matches are distributed among these distances:
59 1 0.00
60 234 0.18
61 830 0.63
62 213 0.16
63 33 0.03
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (59 bp):
AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:36010 original size:27 final size:27
Alignment explanation
Indices: 35970--36029 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
35960 ACCTTCTTTT
*
35970 CCTTCTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
* *
35997 CCTTTTAAGTCCACGACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
*
36024 TCTTTT
1 CCTTTT
36030 CCTTTAAAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.18, C:0.38, G:0.15, T:0.28
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCGTGGCAC
Found at i:36034 original size:33 final size:33
Alignment explanation
Indices: 35904--36197 Score: 386
Period size: 34 Copynumber: 8.8 Consensus size: 33
35894 TTTCTTTTTA
*
35904 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTT
1 AAGCCCACAACTCCGTGGCACTC-TTTT-CC-TTCT
35940 AAAGCCCACAACTCCGTGGCACCTTCTTTTCCTTCT
1 -AAGCCCACAACTCCGTGGCA-C-TCTTTTCCTTCT
*
35976 AAGCCCACAACTCCGTGGCA--C----CCTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTCCTTCT
* *
36003 AAGTCCACGACTCCGTGGCACTCTTTTCCTT-T
1 AAGCCCACAACTCCGTGGCACTCTTTTCCTTCT
*
36035 AAAGCCCACAACTACGTGGCACTCTTTTCCTTCT
1 -AAGCCCACAACTCCGTGGCACTCTTTTCCTTCT
*
36069 AAGCCCACAACTCTGTGGCACTCTTTTTCCTTCT
1 AAGCCCACAACTCCGTGGCACTC-TTTTCCTTCT
36103 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAGCCCACAACTCCGTGGCACTC-TTTTCCTTCT
36137 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAGCCCACAACTCCGTGGCACTC-TTTTCCTTCT
*
36171 AAGCCCACAACTCTGTGGCACTCTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTT
36198 TTTTTCCTTT
Statistics
Matches: 235, Mismatches: 11, Indels: 26
0.86 0.04 0.10
Matches are distributed among these distances:
27 23 0.10
29 1 0.00
31 1 0.00
32 1 0.00
33 57 0.24
34 100 0.43
35 20 0.09
36 3 0.01
37 22 0.09
38 5 0.02
39 2 0.01
ACGTcount: A:0.19, C:0.37, G:0.13, T:0.32
Consensus pattern (33 bp):
AAGCCCACAACTCCGTGGCACTCTTTTCCTTCT
Found at i:36102 original size:34 final size:34
Alignment explanation
Indices: 35997--36268 Score: 306
Period size: 34 Copynumber: 7.9 Consensus size: 34
35987 TCCGTGGCAC
* * * *
35997 CCTTTTAAGTCCACGACTCCGTGGCACTC-TTTT
1 CCTTCTAAGCCCACAACTCTGTGGCACTCTTTTT
36030 CCTT-TAAAGCCCACAACTAC-GTGGCACTC-TTTT
1 CCTTCT-AAGCCCACAACT-CTGTGGCACTCTTTTT
36063 CCTTCTAAGCCCACAACTCTGTGGCACTCTTTTT
1 CCTTCTAAGCCCACAACTCTGTGGCACTCTTTTT
*
36097 CCTTCTAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTCTAAGCCCACAACTCTGTGGCACTCTTTTT
*
36131 CCTTCTAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTCTAAGCCCACAACTCTGTGGCACTCTTTTT
36165 CCTTCTAAGCCCACAACTCTGTGGCACTCTTTTTTTTT
1 CCTTCTAAGCCCACAACTCTGTGGCACTC----TTTTT
* * *
36203 CCTTTTTAAAGCCCACAACTCTGTGTCAC-CTTGTT
1 CC-TTCT-AAGCCCACAACTCTGTGGCACTCTTTTT
* **
36238 CTTTCTAAGTTCACAACT-TCGTGGCA-TCTTT
1 CCTTCTAAGCCCACAACTCT-GTGGCACTCTTT
36269 CACCCTTTCT
Statistics
Matches: 213, Mismatches: 13, Indels: 26
0.85 0.05 0.10
Matches are distributed among these distances:
32 3 0.01
33 70 0.33
34 104 0.49
35 5 0.02
38 7 0.03
39 4 0.02
40 20 0.09
ACGTcount: A:0.18, C:0.33, G:0.12, T:0.36
Consensus pattern (34 bp):
CCTTCTAAGCCCACAACTCTGTGGCACTCTTTTT
Found at i:36350 original size:33 final size:32
Alignment explanation
Indices: 36272--36383 Score: 149
Period size: 33 Copynumber: 3.5 Consensus size: 32
36262 CATCTTTCAC
36272 CCTT-TCTAAAGCCCACACAAGTCGGTGGCAAAA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGC--AA
* *
36305 CCTTCTCCAAAGCCCACACAAGTTGGTGGCAA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
36337 CCATTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 CC-TTCTCTAAAGCCCACACAAGTCGGTGGCAA
*
36370 CCCT-TCT-AAGCCCA
1 CCTTCTCTAAAGCCCA
36384 ATATAGCTGG
Statistics
Matches: 72, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
30 7 0.10
31 3 0.04
32 5 0.07
33 34 0.47
34 23 0.32
ACGTcount: A:0.29, C:0.35, G:0.17, T:0.19
Consensus pattern (32 bp):
CCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
Found at i:36434 original size:49 final size:48
Alignment explanation
Indices: 36371--37121 Score: 957
Period size: 49 Copynumber: 15.8 Consensus size: 48
36361 CGGTGGCAAC
* * * *
36371 CCTTCTAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCA
1 CCTT-TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCA
* * **
36421 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTT
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCA
*
36469 CTCTTTACGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCA
1 C-CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCA
36518 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG-----CA
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCA
* * *
36561 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCATCA
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCA
* * * **
36610 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCA
*
36658 CTCTTTACGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCA
1 C-CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCA
36707 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT-G-A---CA
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCA
* * **
36750 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCA
*
36798 CTCTTTACGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCA
1 C-CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCA
36847 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT-G-A---CA
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCA
* * **
36890 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCA
* *
36938 CTCTTTACGTCCAATGTGGCTGGCCTTGAATCAGCACATTGGCACCTCA
1 C-CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCA
36987 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT-G-A---CA
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCA
* * *
37030 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCA
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC---CT-CA
* *
37082 TCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
37122 ACATCCTTCT
Statistics
Matches: 618, Mismatches: 54, Indels: 56
0.85 0.07 0.08
Matches are distributed among these distances:
43 157 0.25
44 3 0.00
45 3 0.00
46 3 0.00
47 3 0.00
48 153 0.25
49 255 0.41
50 3 0.00
52 38 0.06
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (48 bp):
CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCA
Found at i:36639 original size:140 final size:136
Alignment explanation
Indices: 36376--37121 Score: 1001
Period size: 140 Copynumber: 5.3 Consensus size: 136
36366 GCAACCCTTC
* * * * *
36376 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG---C--CACCTTTAAGTCCAATGTAGCT
* * * * *
36441 GGCCTTGAATCAGCATATTGGCACCTTTCTCTTTACGTCCAATGTAGCTGGCCTTGAATCAGCAC
61 GGCCTTGAATCAGCACATT-G-A-C--AC-CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
**
36506 ATTGGCACCTCAC-CTT
120 ATTGGCACCTTTCTCTT
* *
36522 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG-CACCTTTAAGTCCAATATCGCTGGCCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCCACCTTTAAGTCCAATGTAGCTGGCCT
*
36586 TGAATCAGCATATTGGCACCATCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
66 TGAATCAGCACATT-G-A-CA-C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG
36651 CACCTTTCTCTT
125 CACCTTTCTCTT
*
36663 TACGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG---C-CACCTTTAAGTCCAATGTAGCTG
36728 GCCTTGAATCAGCACATTGACACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
62 GCCTTGAATCAGCACATTGACACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
36793 CCTTTCTCTT
127 CCTTTCTCTT
*
36803 TACGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG---C-CACCTTTAAGTCCAATGTAGCTG
36868 GCCTTGAATCAGCACATTGACACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
62 GCCTTGAATCAGCACATTGACACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
36933 CCTTTCTCTT
127 CCTTTCTCTT
* *
36943 TACGTCCAATGTGGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG---C-CACCTTTAAGTCCAATGTAGCTG
37008 GCCTTGAATCAGCACATTGACACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
62 GCCTTGAATCAGCACATTGACACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
*
37073 CATTTTCCATCTT
127 C-CTTT-C-TCTT
*
37086 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
37122 ACATCCTTCT
Statistics
Matches: 567, Mismatches: 22, Indels: 25
0.92 0.04 0.04
Matches are distributed among these distances:
139 1 0.00
140 410 0.72
141 42 0.07
142 2 0.00
143 39 0.07
144 1 0.00
145 1 0.00
146 71 0.13
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (136 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCCACCTTTAAGTCCAATGTAGCTGGCCT
TGAATCAGCACATTGACACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT
TCTCTT
Found at i:36701 original size:189 final size:188
Alignment explanation
Indices: 36371--37121 Score: 1058
Period size: 189 Copynumber: 4.0 Consensus size: 188
36361 CGGTGGCAAC
* *
36371 CCTTCTAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
* * *
36436 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTCTCTTTACGTCCAATGTAGCTGGCCTTGAATC
65 TAGCTGGCCTTGAATCAGCACATTGGCACCTTAC-CTTTAAGTCCAATGTAGCTGGCCTTGAATC
36501 AGCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
129 AGCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
* * *
36561 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCATCATCTTTAAGTCCAATAT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
* * *
36626 AGCTGGCCTTGAATCAGCATATTGGCACCTTTCTCTTTACGTCCAATGTAGCTGGCCTTGAATCA
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTAC-CTTTAAGTCCAATGTAGCTGGCCTTGAATCA
*
36691 GCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACA
130 GCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
*
36750 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTC-TCTTTACGTCCAATG
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTCATCTTTAAGTCCAATG
*
36814 TAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCA
65 TAGCTGGCCTTGAATCAGCACATTGGCACCTTACCTTTAAGTCCAATGTAGCTGGCCTTGAATCA
* *
36879 GCACATT-G-A---CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
130 GCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
* * * * *
36933 CCTTTCTCTTTACGTCCAATGTGGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTC
1 -----C-CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTC
*
36997 CAATGTAGCTGGCCTTGAATCAGCACATT-G-A-C--ACCTTTAAGTCCAATATAGCTGGCCTTG
60 CAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTACCTTTAAGTCCAATGTAGCTGGCCTTG
* * * *
37057 AATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
125 AATCAGCACATTGGCAC---CT-CACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
37122 ACATCCTTCT
Statistics
Matches: 515, Mismatches: 29, Indels: 32
0.89 0.05 0.06
Matches are distributed among these distances:
183 80 0.16
184 1 0.00
185 2 0.00
186 2 0.00
187 4 0.01
188 75 0.15
189 307 0.60
190 6 0.01
192 38 0.07
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (188 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCACCTTACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
CACATTGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
Found at i:37242 original size:67 final size:68
Alignment explanation
Indices: 37134--37260 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 68
37124 ATCCTTCTTC
* * *
37134 TCATCATTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCATTAAGCCCAATATCGATGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
37198 TCT
66 TCT
* * * * *
37201 TCATCTTTAAGTCCAATATTGATGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCATTAAGCCCAATATCGATGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
37261 AAAACCCAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
67 47 0.92
68 4 0.08
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (68 bp):
TCATCATTAAGCCCAATATCGATGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:38090 original size:13 final size:13
Alignment explanation
Indices: 38072--38096 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38062 CATAAAATGT
38072 TGTATCGATACAA
1 TGTATCGATACAA
38085 TGTATCGATACA
1 TGTATCGATACA
38097 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:38094 original size:33 final size:33
Alignment explanation
Indices: 38052--38118 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
38042 TTCAATGATT
38052 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
38085 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
38118 T
1 T
38119 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:38180 original size:13 final size:13
Alignment explanation
Indices: 38162--38186 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38152 ATTACTCACA
38162 TGTATCGATACAT
1 TGTATCGATACAT
38175 TGTATCGATACA
1 TGTATCGATACA
38187 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:43742 original size:79 final size:79
Alignment explanation
Indices: 43595--43854 Score: 337
Period size: 79 Copynumber: 3.3 Consensus size: 79
43585 TCGGGATAAC
* * * * *
43595 AACGGGGCTGGAGTATCCCCGATTAT-GAAAAATCGGTGTTCTGGAAATAAAATCGGGGTTAGAG
1 AACGGGGTTGGAGTATCCCCGATTATAG-AAAATCGATGTTTTGAAAATAAAATCGGGGTTGGAG
*
43659 TATCCCCTCGGAAAT
65 TATCCCCTCGAAAAT
* * * * * *
43674 AGCAGGGTTGGAATATCCCTGATTATAGAAAATCGATGTTTTGAAAATAAAATCGAGGTTGGAAT
1 AACGGGGTTGGAGTATCCCCGATTATAGAAAATCGATGTTTTGAAAATAAAATCGGGGTTGGAGT
* *
43739 ATCCCTTCAAAAAT
66 ATCCCCTCGAAAAT
*
43753 AACGGGGTTGGAGTATCCCCGATTATAGAAAATC-AGTGTTTT-AAAAGTAAAATTGGGGTTGGA
1 AACGGGGTTGGAGTATCCCCGATTATAGAAAATCGA-TGTTTTGAAAA-TAAAATCGGGGTTGGA
43816 GTATCCCCTCGAAAAT
64 GTATCCCCTCGAAAAT
43832 AACGGGGTTGGAGTATCCCCGAT
1 AACGGGGTTGGAGTATCCCCGAT
43855 GAAATAACGG
Statistics
Matches: 155, Mismatches: 23, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
78 5 0.03
79 149 0.96
80 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (79 bp):
AACGGGGTTGGAGTATCCCCGATTATAGAAAATCGATGTTTTGAAAATAAAATCGGGGTTGGAGT
ATCCCCTCGAAAAT
Found at i:43880 original size:28 final size:29
Alignment explanation
Indices: 43807--43880 Score: 118
Period size: 28 Copynumber: 2.6 Consensus size: 29
43797 AAGTAAAATT
43807 GGGGTTGGAGTATCCCC-TCGAAAATAAC
1 GGGGTTGGAGTATCCCCGTCGAAAATAAC
43835 GGGGTTGGAGTATCCCCGAT-G-AAATAAC
1 GGGGTTGGAGTATCCCCG-TCGAAAATAAC
43863 GGGGTTGGAGTATCCCCG
1 GGGGTTGGAGTATCCCCG
43881 GTTGTGAAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
28 42 0.95
29 1 0.02
30 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.34, T:0.22
Consensus pattern (29 bp):
GGGGTTGGAGTATCCCCGTCGAAAATAAC
Found at i:43937 original size:51 final size:51
Alignment explanation
Indices: 43866--43981 Score: 153
Period size: 51 Copynumber: 2.3 Consensus size: 51
43856 AAATAACGGG
** *
43866 GTTGGAGTATCCCCGGTTGTGAAGAATTGGTGTTTTGGAAATAAAA-TCGGA
1 GTTGGAGTATCCCCAATTGTGAAGAATTGGTGTTTTAGAAATAAAACT-GGA
* * * *
43917 GTTGGAATATCCCCAATTGTGGAGAATTTGTGTTTTAGAAATAAAACTGGG
1 GTTGGAGTATCCCCAATTGTGAAGAATTGGTGTTTTAGAAATAAAACTGGA
43968 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
43982 TCGGAAATAA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 55 0.98
52 1 0.02
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCCAATTGTGAAGAATTGGTGTTTTAGAAATAAAACTGGA
Found at i:46127 original size:13 final size:13
Alignment explanation
Indices: 46109--46135 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46099 AAAATGCCTG
46109 AATGTATCGATAC
1 AATGTATCGATAC
46122 AATGTATCGATAC
1 AATGTATCGATAC
46135 A
1 A
46136 GTGAACAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:46145 original size:20 final size:20
Alignment explanation
Indices: 46120--46176 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
46110 ATGTATCGAT
*
46120 ACAATGTATCGATACAGTGA
1 ACAATGTATCGATACAATGA
*
46140 ACAATGTATCGGTACAATGA
1 ACAATGTATCGATACAATGA
46160 ACAATGTATCGATACAA
1 ACAATGTATCGATACAA
46177 ATTGTGAACA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.25
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:49264 original size:28 final size:27
Alignment explanation
Indices: 49212--49276 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
49202 AAATTAAAAA
49212 ATAAAAAAAATTAACTTTAAACATAATT
1 ATAAAAAAAATTAACTTTAAACAT-ATT
*
49240 ATAATAAAAAATT-ACTATT-AGCATATT
1 ATAA-AAAAAATTAACT-TTAAACATATT
*
49267 AAAAAAAAAA
1 ATAAAAAAAA
49277 AGAGGCGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 6 0.18
27 6 0.18
28 11 0.33
29 10 0.30
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (27 bp):
ATAAAAAAAATTAACTTTAAACATATT
Found at i:49630 original size:2 final size:2
Alignment explanation
Indices: 49623--49653 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
49613 GTTTTCACCC
49623 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
49654 ACTTAGCTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:51123 original size:26 final size:25
Alignment explanation
Indices: 51080--51132 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
51070 TTTAATATTA
*
51080 TTTGATCTTTCATCTTTTATTTTCT
1 TTTGATCTTTCATCTTTTATCTTCT
*
51105 TTTGATCCTTTCAAT-TTTTGTCTTCT
1 TTTGAT-CTTTC-ATCTTTTATCTTCT
51131 TT
1 TT
51133 CAATTTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.25
26 16 0.67
27 2 0.08
ACGTcount: A:0.11, C:0.17, G:0.06, T:0.66
Consensus pattern (25 bp):
TTTGATCTTTCATCTTTTATCTTCT
Found at i:51790 original size:83 final size:83
Alignment explanation
Indices: 51633--51799 Score: 255
Period size: 83 Copynumber: 2.0 Consensus size: 83
51623 AAACTCACAC
*
51633 TTAATCTACAAATATACAATGATTCTGAAGGCAACGAAAAAAGTGAACGAAATTTCTGAAGATGA
1 TTAATCTACAAATATACAATGATTCTGAAGGCAACAAAAAAAGTGAACGAAATTTCTGAAGATGA
51698 ACTACAAGGCTTAGAGAA
66 ACTACAAGGCTTAGAGAA
* ** **
51716 TTAATCTACAAATATACAATGATTCTGAAGGCAACAAAAGAAAGTGAATGATGTTTCTGAATTTG
1 TTAATCTACAAATATACAATGATTCTGAAGGCAACAAAA-AAAGTGAACGAAATTTCTGAAGATG
*
51781 ATCTA-AAGGCTTAGAGAA
65 AACTACAAGGCTTAGAGAA
51799 T
1 T
51800 GTTGTATGCT
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
83 52 0.68
84 24 0.32
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.26
Consensus pattern (83 bp):
TTAATCTACAAATATACAATGATTCTGAAGGCAACAAAAAAAGTGAACGAAATTTCTGAAGATGA
ACTACAAGGCTTAGAGAA
Found at i:52039 original size:17 final size:18
Alignment explanation
Indices: 52012--52045 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
52002 ATAGATATTT
52012 ATATATTATGAATTATGG
1 ATATATTATGAATTATGG
52030 ATAT-TTATGAATTATG
1 ATATATTATGAATTATG
52046 AACATTCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (18 bp):
ATATATTATGAATTATGG
Found at i:52095 original size:41 final size:41
Alignment explanation
Indices: 52017--52097 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
52007 TATTTATATA
* * * *
52017 TTATGAATTATGGATATTTATGAATTATGAACATTCATGTC
1 TTATGAATTATCGAGATTCATGAATTATCAACATTCATGTC
*
52058 TTATGAATTATCGAGATTCATGAATT-TCAGACTTTCATGT
1 TTATGAATTATCGAGATTCATGAATTATCA-ACATTCATGT
52098 ATTTTAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 2 0.06
41 32 0.94
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (41 bp):
TTATGAATTATCGAGATTCATGAATTATCAACATTCATGTC
Found at i:54237 original size:46 final size:46
Alignment explanation
Indices: 54157--54324 Score: 203
Period size: 46 Copynumber: 3.7 Consensus size: 46
54147 CATTTATCTC
* *
54157 TTAA-TTAATTTAATCAGAGATAAAAATTTCTTCATTTATCTCTTAA
1 TTAATTTAATTTAATTAGAGAT-AAAATTTATTCATTTATCTCTTAA
* * *
54203 TTAATATAATTTAATTAGATATAAAATTTATTCATTTATTTCTTAA
1 TTAATTTAATTTAATTAGAGATAAAATTTATTCATTTATCTCTTAA
* * * * * * *
54249 GTAATTTAAGTTCATTAAAGATCAAATTCATTCATTGATCTCTTAA
1 TTAATTTAATTTAATTAGAGATAAAATTTATTCATTTATCTCTTAA
*
54295 TTAATTTAATTTAGTTAGAGATAAAATTTA
1 TTAATTTAATTTAATTAGAGATAAAATTTA
54325 ATTAGTGACA
Statistics
Matches: 99, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
46 85 0.86
47 14 0.14
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (46 bp):
TTAATTTAATTTAATTAGAGATAAAATTTATTCATTTATCTCTTAA
Found at i:55327 original size:17 final size:18
Alignment explanation
Indices: 55305--55339 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
55295 TATTCCAAAA
*
55305 GTTAG-AAAGATTATCTT
1 GTTAGAAAAGAATATCTT
55322 GTTAGAAAAGAATATCTT
1 GTTAGAAAAGAATATCTT
55340 TTCATCGGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.37
Consensus pattern (18 bp):
GTTAGAAAAGAATATCTT
Found at i:57579 original size:141 final size:139
Alignment explanation
Indices: 57306--57626 Score: 457
Period size: 141 Copynumber: 2.3 Consensus size: 139
57296 TATTGTGATG
* *
57306 GAGAACCGAAAAGATATGAAAAGTTTTAAAAATTGCGATACCCCTACGAAAAACCATAAGAATAT
1 GAGAACCGAAAAGATATGAAAAGTTTTAAAAATTTCTATACCCCTACGAAAAACCATAAGAATAT
*
57371 AGAAATCTTAAAAATTAAGACAATAATTTTTACTTAATTTTTAATTTCTAAAAATTTCATTTCGT
66 AGAAATCTTAAAAATTAAGACAATAATTTTTACTTAATTTTTAATTTCTAAAAAATTCATTTCGT
57436 ACCTTAATA
131 ACCTTAATA
* * * * * *
57445 GAGAATCGAAAAGATATGAAAAGTTTTAAAAATTTTTATATCCTTACGAAAAACTATATGAATAT
1 GAGAACCGAAAAGATATGAAAAGTTTTAAAAATTTCTATACCCCTACGAAAAACCATAAGAATA-
* *
57510 TAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTTTTAATTT-TCAAAAAATTCATTT
65 TAGAAATCTT-AAAAATTAAGACAATAATTTTTACTTAATTTTTAATTTCT-AAAAAATTCATTT
* *
57574 TGTACCTTAATG
128 CGTACCTTAATA
* * *
57586 GAAAACCG-AAAGATACGAAAAGTTTTGAAAATTTCTATACC
1 GAGAACCGAAAAGATATGAAAAGTTTTAAAAATTTCTATACC
57627 TCCACAGATA
Statistics
Matches: 160, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
139 56 0.35
140 40 0.25
141 64 0.40
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.35
Consensus pattern (139 bp):
GAGAACCGAAAAGATATGAAAAGTTTTAAAAATTTCTATACCCCTACGAAAAACCATAAGAATAT
AGAAATCTTAAAAATTAAGACAATAATTTTTACTTAATTTTTAATTTCTAAAAAATTCATTTCGT
ACCTTAATA
Found at i:57682 original size:140 final size:141
Alignment explanation
Indices: 57309--57685 Score: 437
Period size: 140 Copynumber: 2.7 Consensus size: 141
57299 TGTGATGGAG
* * * * *
57309 AACCGAAAAGATATGAAAAGTTTTAAAAATTGCGATA-CCCCTACGAAAAACCATAAGAATA-TA
1 AACCGAAAAGATACGAAAAGTTTTAAAAATTTCTATATCCTC-ACGAAAAACCATATGAATATTA
* * *
57372 GAAATCTT-AAAAATTAAGACAATAATTTTTACTTAATTTTTAATTTCTAAAAATTTCATTTCGT
65 GAAATCTTAAAAAATTAAGATAATAATTTTTATTTAATTTTTAATTTCTAAAAAATTCATTTCGT
*
57436 ACCTTAATAGAG
130 ACCTTAATAGAA
* * * * *
57448 AATCGAAAAGATATGAAAAGTTTTAAAAATTTTTATATCCTTACGAAAAACTATATGAATATTAG
1 AACCGAAAAGATACGAAAAGTTTTAAAAATTTCTATATCCTCACGAAAAACCATATGAATATTAG
* *
57513 AAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTTTTAATTT-TCAAAAAATTCATTTTGT
66 AAATCTTAAAAAATTAAGATAATAATTTTTATTTAATTTTTAATTTCT-AAAAAATTCATTTCGT
*
57577 ACCTTAATGGAA
130 ACCTTAATAGAA
* * *
57589 AACCG-AAAGATACGAAAAGTTTTGAAAATTTCTATA-CCTCCAC-AGATACCA-ATGGAAATAT
1 AACCGAAAAGATACGAAAAGTTTTAAAAATTTCTATATCCT-CACGAAAAACCATAT-G-AATAT
* * * *
57650 TAGAAATTTTAAAAAATTGAGGTGATAATTTTTATT
63 TAGAAATCTTAAAAAATTAAGATAATAATTTTTATT
57686 GGATAAAATA
Statistics
Matches: 204, Mismatches: 27, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
138 2 0.01
139 59 0.29
140 79 0.39
141 64 0.31
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (141 bp):
AACCGAAAAGATACGAAAAGTTTTAAAAATTTCTATATCCTCACGAAAAACCATATGAATATTAG
AAATCTTAAAAAATTAAGATAATAATTTTTATTTAATTTTTAATTTCTAAAAAATTCATTTCGTA
CCTTAATAGAA
Found at i:58977 original size:5 final size:5
Alignment explanation
Indices: 58934--58958 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
58924 TGAAAAGAAT
58934 AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA
58959 TTTAAAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:59748 original size:167 final size:166
Alignment explanation
Indices: 59262--59724 Score: 435
Period size: 168 Copynumber: 2.8 Consensus size: 166
59252 AACATAGGCA
* * * * ** *
59262 TTTCAAGGAAAAAATGAA-AAATTCATAAAAATAAATGAAAATTTCAAAACTAATTTAATATGAA
1 TTTCAAGGAAAAAAGGAAGAAA-TAATGAAAATAAAGGAATTTTTTAAAACTAATTTAATATGAA
* * ** * * * * * *
59326 GTAAATGATGGTATTTGATGAATTTTAAAAATTTTGAA--TTGAGAAAAACCCCTGCAAAAAAAC
65 TTAAATAATAATATTTGATGAATTTTAAAAATTATAAACCATGA-AAAATCCTCTCCAAAAAAA-
* * *
59389 TTTTATGGAATAGAAAA-CTCGGTTTTTCAAAAACAAGAAAC
128 --TTACGGAATAGAAAATCTC-ATATTTCAAAAACAAGAAAC
* * * * * *
59430 TTTTAAGGAAACAATGAAGAACTAATGAAAATAAATGAATTTTTTAAAACTGATTTAATATGAAT
1 TTTCAAGGAAAAAAGGAAGAAATAATGAAAATAAAGGAATTTTTTAAAACTAATTTAATATGAAT
* * *
59495 TAAATAATGATATTTGATGAATTTTAAAAATTATAAACCATGAAAAATCCTCTCGAAAATAATTA
66 TAAATAATAATATTTGATGAATTTTAAAAATTATAAACCATGAAAAATCCTCTCCAAAAAAATTA
59560 CGGAATAGAAAATCTCATATTTCAAAAACAAGGAGAA-
131 CGGAATAGAAAATCTCATATTTCAAAAACAA-GA-AAC
*
59597 TTTCAAGGAAAAAAGGAA-AAATAATG-AAATAAAAGGAATTTTTTTGAAACTAATTT-AT-TGT
1 TTTCAAGGAAAAAAGGAAGAAATAATGAAAAT-AAAGGAA-TTTTTTAAAACTAATTTAATATG-
* * *
59658 AAGTTAAATAATAATCTTTGATGAATTTTAAAATTTATAAACCTATG-AAAATTCTC-CCAAAAA
63 AA-TTAAATAATAATATTTGATGAATTTTAAAAATTATAAACC-ATGAAAAATCCTCTCCAAAAA
59721 AATT
126 AATT
59725 TATGGAGAAG
Statistics
Matches: 248, Mismatches: 36, Indels: 24
0.81 0.12 0.08
Matches are distributed among these distances:
165 6 0.02
166 53 0.21
167 80 0.32
168 90 0.36
169 16 0.06
170 3 0.01
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.31
Consensus pattern (166 bp):
TTTCAAGGAAAAAAGGAAGAAATAATGAAAATAAAGGAATTTTTTAAAACTAATTTAATATGAAT
TAAATAATAATATTTGATGAATTTTAAAAATTATAAACCATGAAAAATCCTCTCCAAAAAAATTA
CGGAATAGAAAATCTCATATTTCAAAAACAAGAAAC
Found at i:61481 original size:41 final size:42
Alignment explanation
Indices: 61389--61487 Score: 109
Period size: 41 Copynumber: 2.4 Consensus size: 42
61379 TTAAAGAGGC
*
61389 AGTTTAAGCTC-TGCTTAGGAGCATCATTTCTTTTTAAGGAACT
1 AGTTTAAGCTCATGC-T-GGAGCATCATTTCTTTTGAAGGAACT
*
61432 -GTTCAAGCTCATGC-GGAGCATCATTTTCTTTTGGAA-G-ACT
1 AGTTTAAGCTCATGCTGGAGCATCA-TTTCTTTT-GAAGGAACT
61472 AGTTTAAGCTCATGCT
1 AGTTTAAGCTCATGCT
61488 TAGGAGTAAC
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
40 12 0.25
41 22 0.46
42 11 0.23
43 3 0.06
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.37
Consensus pattern (42 bp):
AGTTTAAGCTCATGCTGGAGCATCATTTCTTTTGAAGGAACT
Done.