Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold442
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: 369669
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:181 original size:20 final size:19
Alignment explanation
Indices: 135--191 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
125 TTGTATCGAT
* *
135 ACATTGTATCAATACATGT
1 ACATTGTATCGATACATGG
*
154 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
173 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
192 AAATTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:2471 original size:21 final size:20
Alignment explanation
Indices: 2437--2479 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
2427 TATTAAAAAG
*
2437 TTAGCTAATGAAAATAACGAA
1 TTAGCTAATGAAAACAA-GAA
2458 TTAGCTAA-GAAAAACAAGAA
1 TTAGCTAATG-AAAACAAGAA
2478 TT
1 TT
2480 TGCATGATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.53, C:0.09, G:0.14, T:0.23
Consensus pattern (20 bp):
TTAGCTAATGAAAACAAGAA
Found at i:2478 original size:20 final size:21
Alignment explanation
Indices: 2437--2479 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
2427 TATTAAAAAG
*
2437 TTAGCTAATGAAAATAACGAA
1 TTAGCTAATGAAAATAAAGAA
2458 TTAGCTAA-GAAAA-ACAAGAA
1 TTAGCTAATGAAAATA-AAGAA
2478 TT
1 TT
2480 TGCATGATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 11 0.55
21 8 0.40
ACGTcount: A:0.53, C:0.09, G:0.14, T:0.23
Consensus pattern (21 bp):
TTAGCTAATGAAAATAAAGAA
Found at i:4677 original size:20 final size:20
Alignment explanation
Indices: 4652--4690 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4642 TTTTCATAAT
*
4652 TGTATCGATACATTGTTCAC
1 TGTATCGATACATTATTCAC
4672 TGTATCGATACATTATTCA
1 TGTATCGATACATTATTCA
4691 TTTATACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATTATTCAC
Found at i:4742 original size:20 final size:19
Alignment explanation
Indices: 4717--4821 Score: 80
Period size: 20 Copynumber: 5.6 Consensus size: 19
4707 TTGCCTAGAT
4717 TATCGATACATTTTGCATTG
1 TATCGATACATTTT-CATTG
*
4737 TATCGATACATTACTT-GTTG
1 TATCGATACATT--TTCATTG
*
4757 TGTCGAT--A----CATTG
1 TATCGATACATTTTCATTG
*
4770 TATCGATACATTGCTCATTG
1 TATCGATACATT-TTCATTG
*
4790 TATCGATACATTTTACAATG
1 TATCGATACATTTT-CATTG
4810 TATCGATACATT
1 TATCGATACATT
4822 CAGGCATTTT
Statistics
Matches: 68, Mismatches: 6, Indels: 22
0.71 0.06 0.23
Matches are distributed among these distances:
13 9 0.13
15 1 0.01
18 1 0.01
19 1 0.01
20 54 0.79
22 2 0.03
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (19 bp):
TATCGATACATTTTCATTG
Found at i:4774 original size:33 final size:33
Alignment explanation
Indices: 4732--4801 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
4722 ATACATTTTG
** *
4732 CATTGTATCGATACATTACTTGTTGTGTCGATA
1 CATTGTATCGATACATTACTCATTGTATCGATA
*
4765 CATTGTATCGATACATTGCTCATTGTATCGATA
1 CATTGTATCGATACATTACTCATTGTATCGATA
4798 CATT
1 CATT
4802 TTACAATGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (33 bp):
CATTGTATCGATACATTACTCATTGTATCGATA
Found at i:4816 original size:53 final size:52
Alignment explanation
Indices: 4717--4821 Score: 124
Period size: 53 Copynumber: 2.0 Consensus size: 52
4707 TTGCCTAGAT
* ** *
4717 TATCGATACATTTTGCATTGTATCGATACATTACTTGTTGTGTCGATACATTG
1 TATCGATACATTCTGCATTGTATCGATACATTAC-TAATGTATCGATACATTG
4770 TATCGATACATTGCT-CATTGTATCGATACATTTTAC-AATGTATCGATACATT
1 TATCGATACATT-CTGCATTGTATCGATACA--TTACTAATGTATCGATACATT
4822 CAGGCATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
53 40 0.89
54 1 0.02
55 4 0.09
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (52 bp):
TATCGATACATTCTGCATTGTATCGATACATTACTAATGTATCGATACATTG
Found at i:7241 original size:51 final size:51
Alignment explanation
Indices: 7131--7250 Score: 134
Period size: 51 Copynumber: 2.4 Consensus size: 51
7121 AATTTTTCTT
* * * * **
7131 AATCTGGGATACTCCAACTCCGATTTTATTTCTAAAGCATCGATTTACCGC
1 AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTACAAC
* **
7182 AATCGGGGATACTCCAACTCCGATTTTATTT-TCAAAATACCAATTTTTAAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTCT-AAAACACCAATTTACAAC
*
7233 AATTGGGGATACTCCAAC
1 AATCGGGGATACTCCAAC
7251 CCCGTTATTT
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 1 0.02
51 57 0.98
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (51 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTACAAC
Found at i:7354 original size:28 final size:26
Alignment explanation
Indices: 7314--7390 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 26
7304 TTTTTTCATA
*
7314 ATCGGGGGTACTCCAACCCCATTATGT
1 ATCGGGGATACTCCAACCCCATTAT-T
* *
7341 CATCGGGGATACTCCAATCCCGTTATT
1 -ATCGGGGATACTCCAACCCCATTATT
*
7368 TTCGAAGGGATACTCCAACCCCA
1 ATCG--GGGATACTCCAACCCCA
7391 ATTTTATTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 3 0.07
27 1 0.02
28 37 0.90
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (26 bp):
ATCGGGGATACTCCAACCCCATTATT
Found at i:7446 original size:51 final size:51
Alignment explanation
Indices: 7373--7490 Score: 159
Period size: 51 Copynumber: 2.3 Consensus size: 51
7363 TTATTTTCGA
*
7373 AGGGATACTCCAACCCCAATTTTATTTCTAAAATAC-T-AATTTTTCACAATC
1 AGGGATACTCCAACCCCAATTTTATTT-TAAAA-ACATCAATTTCTCACAATC
* * *
7424 AGGGATACTCCAACTCCGATTTTATTTTCAAAACATCAATTTCTCACAATC
1 AGGGATACTCCAACCCCAATTTTATTTTAAAAACATCAATTTCTCACAATC
*
7475 GGGGATACTCCAACCC
1 AGGGATACTCCAACCC
7491 TGTTATTTTC
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
49 2 0.03
50 5 0.08
51 52 0.88
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.31
Consensus pattern (51 bp):
AGGGATACTCCAACCCCAATTTTATTTTAAAAACATCAATTTCTCACAATC
Found at i:7592 original size:158 final size:157
Alignment explanation
Indices: 7424--7721 Score: 395
Period size: 158 Copynumber: 1.9 Consensus size: 157
7414 TTTCACAATC
*
7424 AGGGATACTCCAACTCCGATTTTATTTTCAAAACA-TCAA-TTTCTCACAATCGGGGATACTCCA
1 AGGGATACTCCAACCCCGATTTTATTTTCAAAACACT-AATTTTCT-ACAATCGGGGATACTCCA
* * * * * * *
7487 ACCCTGTTATTTTCACGGAGATACTCCAGCCCCGACCTTATTTCTAAAGCATCGATTTTCCACAA
64 ACCCCGTTATTTCCAAGGAGATACTCAAACCCCGACCTTATTTCTAAAACATCAATTTTCCACAA
7552 TC-GAGGATACTCCAAACCCGTTATTTTTA
129 TCAG-GGATACTCCAAACCCGTTATTTTTA
* *
7581 AGGGAATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACTCTAA
1 AGGG-ATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTCTACAATCGGGGATACTCCAA
* * ** * *
7646 CCCCGTTATTTCCAAGGGGATACTCAAACTCCGATTTTATTTCTAAAACATCAATTTTTCATAAT
65 CCCCGTTATTTCCAAGGAGATACTCAAACCCCGACCTTATTTCTAAAACATCAATTTTCCACAAT
7711 CAGGGATACTC
130 CAGGGATACTC
7722 TAACTTCGAT
Statistics
Matches: 121, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
157 4 0.03
158 110 0.91
159 7 0.06
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.32
Consensus pattern (157 bp):
AGGGATACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTCTACAATCGGGGATACTCCAAC
CCCGTTATTTCCAAGGAGATACTCAAACCCCGACCTTATTTCTAAAACATCAATTTTCCACAATC
AGGGATACTCCAAACCCGTTATTTTTA
Found at i:7725 original size:79 final size:79
Alignment explanation
Indices: 7425--7721 Score: 332
Period size: 79 Copynumber: 3.8 Consensus size: 79
7415 TTCACAATCA
* *
7425 GGGATACTCCAACTCCGATTTTATTTTCAAAACATCAATTTCTCACAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTCACAATCGGGGATACTCCAACC
* *
7490 CTGTTATTTTCACG
66 CCGTTATTTTCAAG
* * ** * * * * *
7504 GAGATACTCCAGCCCCGACCTTA-TTTCTAAAGCATCGATTTTCCACAATCGAGGATACTCCAAA
1 GGGATACTCCAACCCCGATTTTATTTTC-AAAACATCAATTTTTCACAATCGGGGATACTCCAAC
*
7568 CCCGTTATTTTTAAG
65 CCCGTTATTTTCAAG
* * *
7583 GGAATACTCCAACCCCGATTTTATTTTCAAAACA-CTAA-TTTTCTATAATCGGGGATACTCTAA
1 GGGATACTCCAACCCCGATTTTATTTTCAAAACATC-AATTTTTC-ACAATCGGGGATACTCCAA
*
7646 CCCCGTTATTTCCAAG
64 CCCCGTTATTTTCAAG
* * * *
7662 GGGATACTCAAACTCCGATTTTA-TTTCTAAAACATCAATTTTTCATAATCAGGGATACTC
1 GGGATACTCCAACCCCGATTTTATTTTC-AAAACATCAATTTTTCACAATCGGGGATACTC
7722 TAACTTCGAT
Statistics
Matches: 179, Mismatches: 32, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
78 13 0.07
79 156 0.87
80 10 0.06
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.32
Consensus pattern (79 bp):
GGGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTCACAATCGGGGATACTCCAACC
CCGTTATTTTCAAG
Found at i:7732 original size:51 final size:51
Alignment explanation
Indices: 7662--7772 Score: 168
Period size: 51 Copynumber: 2.2 Consensus size: 51
7652 TATTTCCAAG
* * *
7662 GGGATACTCAAACTCCGATTTTATTTCTAAAACATCAATTTTTCATAATCA
1 GGGATACTCAAACTCCGATTTTATTTCCAAAACATCAAATTTTCACAATCA
* * *
7713 GGGATACTCTAACTTCGATTTTATTTCCAAAACATCAAATTTTCACAATCG
1 GGGATACTCAAACTCCGATTTTATTTCCAAAACATCAAATTTTCACAATCA
7764 GGGATACTC
1 GGGATACTC
7773 CAACCCCGTT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (51 bp):
GGGATACTCAAACTCCGATTTTATTTCCAAAACATCAAATTTTCACAATCA
Found at i:7799 original size:28 final size:28
Alignment explanation
Indices: 7760--7814 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
7750 AATTTTCACA
7760 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
7788 ATCGGGGCTACTCCAACCCCGTTATTT
1 ATCGGGGATACTCCAACCCCGTTATTT
7815 TTGAGGGGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.20, C:0.33, G:0.18, T:0.29
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATTTC
Found at i:7822 original size:28 final size:28
Alignment explanation
Indices: 7763--7838 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
7753 TTTCACAATC
*
7763 GGGGATACTCCAACCCCGTTATTTCATC
1 GGGGATACTCCAACCCCGTTATTTCATA
* *
7791 GGGGCTACTCCAACCCCGTTATTT-TTGA
1 GGGGATACTCCAACCCCGTTATTTCAT-A
* *
7819 GGGGATACTCTAGCCCCGTT
1 GGGGATACTCCAACCCCGTT
7839 GCTATCTCCA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
27 1 0.02
28 40 0.98
ACGTcount: A:0.18, C:0.30, G:0.22, T:0.29
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCATA
Found at i:12125 original size:22 final size:22
Alignment explanation
Indices: 12100--12141 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
12090 TTTTTAAAGA
12100 TTTGACAAAGGGGGAAAAATGC
1 TTTGACAAAGGGGGAAAAATGC
* *
12122 TTTGATAAAGGGGGAGAAAT
1 TTTGACAAAGGGGGAAAAAT
12142 ATGTTTATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.05, G:0.33, T:0.21
Consensus pattern (22 bp):
TTTGACAAAGGGGGAAAAATGC
Found at i:12830 original size:13 final size:13
Alignment explanation
Indices: 12809--12861 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
12799 CGATACATGG
*
12809 TACAATGTATCGA
1 TACATTGTATCGA
12822 TACATTGTATCGA
1 TACATTGTATCGA
12835 TACA-TG-AT-G-
1 TACATTGTATCGA
12844 -A-ATTGTATCGA
1 TACATTGTATCGA
12855 TACATTG
1 TACATTG
12862 CTTGTAACGA
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 20 0.61
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:12830 original size:33 final size:33
Alignment explanation
Indices: 12793--12861 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
12783 CTAGCACTGT
*
12793 TTGTATCGATACATGGT-ACAATGTATCGATACA
1 TTGTATCGATACATGATGA-AATGTATCGATACA
*
12826 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAAATGTATCGATACA
12859 TTG
1 TTG
12862 CTTGTAACGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (33 bp):
TTGTATCGATACATGATGAAATGTATCGATACA
Found at i:19437 original size:2 final size:2
Alignment explanation
Indices: 19432--19458 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19422 TTTTGCAAAC
19432 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
19459 TAACAGAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19945 original size:105 final size:105
Alignment explanation
Indices: 19763--19975 Score: 354
Period size: 105 Copynumber: 2.0 Consensus size: 105
19753 GATAAAGTCA
* *
19763 GCATTTCAAGAAAATCAATCTTTAGACTTTTAGCAATATCAAGTCCTTTCACTTCTTGAAACTCT
1 GCATTTCAAGAAAATCAATCTTCAGACTTTTAGCAATATCAAGTCCTCTCACTTCTTGAAACTCT
*
19828 ACCAGACTGTTAGTAGATATACCAAAATTTACAGAAAAAG
66 ACCAGACTGTTAGTAGATATACCAAAATTTAAAGAAAAAG
* *
19868 GCATTTCTAGAAAATCAATCTTCAGACTTTTAGCAATATCTAGTCCTCTCACTTCTTGAAACTCT
1 GCATTTCAAGAAAATCAATCTTCAGACTTTTAGCAATATCAAGTCCTCTCACTTCTTGAAACTCT
* * *
19933 ACCAGACTGTTAGTAGGTATCCCAAAATTTAAAGAAACAG
66 ACCAGACTGTTAGTAGATATACCAAAATTTAAAGAAAAAG
19973 GCA
1 GCA
19976 GACATTATAT
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
105 100 1.00
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.31
Consensus pattern (105 bp):
GCATTTCAAGAAAATCAATCTTCAGACTTTTAGCAATATCAAGTCCTCTCACTTCTTGAAACTCT
ACCAGACTGTTAGTAGATATACCAAAATTTAAAGAAAAAG
Found at i:24181 original size:20 final size:19
Alignment explanation
Indices: 24153--24195 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
24143 GCACAAGACA
*
24153 AAAATAAAAAAACTAAAAT
1 AAAATAAAAAAACAAAAAT
24172 AAAATAAAAATAACAAAAAT
1 AAAATAAAAA-AACAAAAAT
24192 AAAA
1 AAAA
24196 ACATGATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.81, C:0.05, G:0.00, T:0.14
Consensus pattern (19 bp):
AAAATAAAAAAACAAAAAT
Found at i:25930 original size:3 final size:3
Alignment explanation
Indices: 25917--25955 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
25907 TTCATAAAAT
*
25917 ATA AAA ATA ATA ATA ATA ATA ATA ATA A-A ATA AT- ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
25956 TAATTAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 4 0.12
3 28 0.88
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:25959 original size:20 final size:20
Alignment explanation
Indices: 25925--25979 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
25915 ATATAAAAAT
25925 AATAATAATAA-TAATAATAA
1 AATAAT-ATAATTAATAATAA
*
25945 AATAATATAATTAATTAATTA
1 AATAATATAATTAA-TAATAA
25966 AA-AATATAATTAAT
1 AATAATATAATTAAT
25980 TTTACACCTG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 5 0.16
20 20 0.62
21 7 0.22
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AATAATATAATTAATAATAA
Found at i:26917 original size:27 final size:27
Alignment explanation
Indices: 26887--26942 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
26877 TGATCACTCC
* *
26887 ATATGAAATTAATTGTCGAACAAAACT
1 ATATGAAATTAATTATCAAACAAAACT
26914 ATATGAAATTAATTATCAAACAAAACT
1 ATATGAAATTAATTATCAAACAAAACT
26941 AT
1 AT
26943 GTCTTAGCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.52, C:0.11, G:0.07, T:0.30
Consensus pattern (27 bp):
ATATGAAATTAATTATCAAACAAAACT
Found at i:28784 original size:3 final size:3
Alignment explanation
Indices: 28771--28805 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
28761 TTCATAAAAT
*
28771 ATA AAA ATA ATA ATA ATA ATA ATA ATA A-A ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
28806 TAACTAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:28800 original size:23 final size:24
Alignment explanation
Indices: 28768--28829 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 24
28758 TTTTTCATAA
28768 AATATAAAAATAATAATAA-TAA-T
1 AATA-AAAAATAATAATAACTAATT
28791 AATAATAAAATAAT-ATAACTAATT
1 AATAA-AAAATAATAATAACTAATT
*
28815 AATTAAAAAT-ATAAT
1 AATAAAAAATAATAAT
28830 TAATTTTACA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 7 0.21
23 22 0.65
24 5 0.15
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
AATAAAAAATAATAATAACTAATT
Found at i:28813 original size:20 final size:19
Alignment explanation
Indices: 28779--28829 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
28769 ATATAAAAAT
28779 AATAATAATAATAATAATAA
1 AATAAT-ATAATAATAATAA
*
28799 AATAATATAACTAATTAATTA
1 AATAATATAA-TAA-TAATAA
28820 AA-AATATAAT
1 AATAATATAAT
28830 TAATTTTACA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 5 0.18
20 16 0.57
21 7 0.25
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
AATAATATAATAATAATAA
Found at i:29771 original size:27 final size:27
Alignment explanation
Indices: 29741--29796 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
29731 TGATCACTCC
* *
29741 ATATGAAATTAATTGTCGAACAAAACT
1 ATATGAAATTAATTATCAAACAAAACT
29768 ATATGAAATTAATTATCAAACAAAACT
1 ATATGAAATTAATTATCAAACAAAACT
29795 AT
1 AT
29797 GTCTTAGCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.52, C:0.11, G:0.07, T:0.30
Consensus pattern (27 bp):
ATATGAAATTAATTATCAAACAAAACT
Found at i:31664 original size:20 final size:20
Alignment explanation
Indices: 31628--31684 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
31618 ATAAAATATA
31628 AAAATAATAATAA-TAATAAT
1 AAAATAAT-ATAATTAATAAT
31648 AAAATAATATAATTAATTAAT
1 AAAATAATATAATTAA-TAAT
*
31669 TAAA-AATATAATTAAT
1 AAAATAATATAATTAAT
31685 TTTGCACCTG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
19 5 0.15
20 22 0.65
21 7 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAATAATATAATTAATAAT
Found at i:31710 original size:7 final size:7
Alignment explanation
Indices: 31698--31724 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
31688 GCACCTGTAC
31698 GTGCCAA
1 GTGCCAA
31705 GTGCCAA
1 GTGCCAA
31712 GTGCCAA
1 GTGCCAA
31719 GTGCCA
1 GTGCCA
31725 TATAATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.30, G:0.30, T:0.15
Consensus pattern (7 bp):
GTGCCAA
Found at i:32629 original size:27 final size:27
Alignment explanation
Indices: 32599--32654 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
32589 TGATCACTCC
* *
32599 ATATGAAATTAATTGTCGAACAAAACT
1 ATATGAAATTAATTATCAAACAAAACT
32626 ATATGAAATTAATTATCAAACAAAACT
1 ATATGAAATTAATTATCAAACAAAACT
32653 AT
1 AT
32655 GTCTTAGCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.52, C:0.11, G:0.07, T:0.30
Consensus pattern (27 bp):
ATATGAAATTAATTATCAAACAAAACT
Found at i:35454 original size:19 final size:19
Alignment explanation
Indices: 35430--35477 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
35420 TAGCCAAACT
35430 TGTATCGATACACAAAGTA
1 TGTATCGATACACAAAGTA
*
35449 TGTATCGATACACAAAGTG
1 TGTATCGATACACAAAGTA
35468 TGTATCGATA
1 TGTATCGATA
35478 TATTGTATCG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.29
Consensus pattern (19 bp):
TGTATCGATACACAAAGTA
Found at i:41201 original size:13 final size:13
Alignment explanation
Indices: 41183--41207 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41173 CATTTTATGG
41183 TGTATCGATACAA
1 TGTATCGATACAA
41196 TGTATCGATACA
1 TGTATCGATACA
41208 TACTGTATGT
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:41306 original size:20 final size:21
Alignment explanation
Indices: 41259--41311 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
41249 GCCAATGGCC
**
41259 TGTATCGATACATCTTTTTCA
1 TGTATCGATACATCTTGGTCA
*
41280 AGTATCGATACAT-TTGGTCA
1 TGTATCGATACATCTTGGTCA
41300 TGTATCGATACA
1 TGTATCGATACA
41312 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATCTTGGTCA
Found at i:41317 original size:13 final size:13
Alignment explanation
Indices: 41299--41323 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41289 ACATTTGGTC
41299 ATGTATCGATACA
1 ATGTATCGATACA
41312 ATGTATCGATAC
1 ATGTATCGATAC
41324 TATGCAACAT
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):
ATGTATCGATACA
Found at i:43291 original size:21 final size:21
Alignment explanation
Indices: 43260--43311 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
43250 GCGGTTAGTG
*
43260 TGGGGGCTGCCCGGTTGCGACC
1 TGGGGG-TGCCCGGTCGCGACC
*
43282 TGGGGGTG-CCGGTCGTGACC
1 TGGGGGTGCCCGGTCGCGACC
43302 TGGTGGGTGC
1 TGG-GGGTGC
43312 TGCCTAGGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 13 0.50
21 7 0.27
22 6 0.23
ACGTcount: A:0.04, C:0.25, G:0.50, T:0.21
Consensus pattern (21 bp):
TGGGGGTGCCCGGTCGCGACC
Found at i:43605 original size:20 final size:21
Alignment explanation
Indices: 43576--43616 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
43566 TGTTTTTGAT
43576 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
43595 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
43617 AAGAATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:49942 original size:13 final size:13
Alignment explanation
Indices: 49924--49948 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49914 CATTTTATGG
49924 TGTATCGATACAA
1 TGTATCGATACAA
49937 TGTATCGATACA
1 TGTATCGATACA
49949 TACTGTGTGT
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:49964 original size:32 final size:33
Alignment explanation
Indices: 49901--49968 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
49891 CGTTACAAGC
**
49901 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
*
49934 CAATGTATCGATACATACTGT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
49966 CAA
1 CAA
49969 GTTTGGCTAC
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:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:50047 original size:20 final size:21
Alignment explanation
Indices: 50000--50052 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
49990 GCCAATGACC
**
50000 TGTATCGATACATCTTTTTCA
1 TGTATCGATACATCTTGGTCA
*
50021 AGTATCGATACAT-TTGGTCA
1 TGTATCGATACATCTTGGTCA
50041 TGTATCGATACA
1 TGTATCGATACA
50053 ATGTATCGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATCTTGGTCA
Found at i:52098 original size:16 final size:16
Alignment explanation
Indices: 52057--52105 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 16
52047 TGGGGTACAA
*
52057 TATATGTTAATAATAAT
1 TATATTTTAAT-ATAAT
52074 TATAAATTTTAATATAAT
1 TAT--ATTTTAATATAAT
52092 TATATTTTAA-ATAA
1 TATATTTTAATATAA
52106 AAAGAAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 4 0.14
16 7 0.24
17 3 0.10
18 8 0.28
19 7 0.24
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
TATATTTTAATATAAT
Found at i:52519 original size:14 final size:14
Alignment explanation
Indices: 52500--52526 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
52490 TAATTTAATT
52500 ATAAATTTTTTTAC
1 ATAAATTTTTTTAC
52514 ATAAATTTTTTTA
1 ATAAATTTTTTTA
52527 TTGTTATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (14 bp):
ATAAATTTTTTTAC
Found at i:52831 original size:23 final size:22
Alignment explanation
Indices: 52797--52861 Score: 62
Period size: 23 Copynumber: 3.0 Consensus size: 22
52787 TAATATGATA
*
52797 CAAAA-ATGTTATAAAATAATT
1 CAAAATATTTTATAAAATAATT
* * *
52818 GATAAATATTTTATAAATTTTATT
1 CA-AAATATTTTATAAA-ATAATT
52842 CAAAATATTTTAT-AAATAAT
1 CAAAATATTTTATAAAATAAT
52862 ATTTTTATGA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
21 4 0.12
22 5 0.15
23 20 0.59
24 5 0.15
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (22 bp):
CAAAATATTTTATAAAATAATT
Found at i:52862 original size:14 final size:16
Alignment explanation
Indices: 52845--52878 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
52835 TTTTATTCAA
52845 AATA-TTTTAT-AAAT
1 AATATTTTTATGAAAT
52859 AATATTTTTATGAAAT
1 AATATTTTTATGAAAT
52875 AATA
1 AATA
52879 AAAATAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 6 0.33
16 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
AATATTTTTATGAAAT
Found at i:52864 original size:23 final size:23
Alignment explanation
Indices: 52821--52864 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
52811 AATAATTGAT
**
52821 AAATATTTTATAAATTTTATTCA
1 AAATATTTTATAAATAATATTCA
52844 AAATATTTTATAAATAATATT
1 AAATATTTTATAAATAATATT
52865 TTTATGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
AAATATTTTATAAATAATATTCA
Found at i:56810 original size:35 final size:35
Alignment explanation
Indices: 56719--56876 Score: 168
Period size: 35 Copynumber: 4.7 Consensus size: 35
56709 TGTCGTTGCT
*
56719 CTACCAGCTGCTA--TT-TTGTCTTCTTGTTCGTC
1 CTACCAGCTGCTATTTTCTTTTCTTCTTGTTCGTC
* * *
56751 CTACCAGCTACT-GTTTCTTTTCTTCTTGTTCATC
1 CTACCAGCTGCTATTTTCTTTTCTTCTTGTTCGTC
* * *
56785 CTACCAGTTGCTATTTTCTTTTCTTCTTATTCCTC
1 CTACCAGCTGCTATTTTCTTTTCTTCTTGTTCGTC
* *
56820 CTACCAGTTGCTA--TT-TTTTCTTCTTGTTTGTC
1 CTACCAGCTGCTATTTTCTTTTCTTCTTGTTCGTC
* *
56852 CTACCAGCTGTTGTTTTCTTTTCTT
1 CTACCAGCTGCTATTTTCTTTTCTT
56877 TCTTCGTTTT
Statistics
Matches: 105, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
32 35 0.33
33 4 0.04
34 27 0.26
35 39 0.37
ACGTcount: A:0.10, C:0.27, G:0.11, T:0.53
Consensus pattern (35 bp):
CTACCAGCTGCTATTTTCTTTTCTTCTTGTTCGTC
Found at i:56839 original size:32 final size:33
Alignment explanation
Indices: 56719--56861 Score: 164
Period size: 32 Copynumber: 4.3 Consensus size: 33
56709 TGTCGTTGCT
*
56719 CTACCAGCTGCTATT-TTGTCTTCTTGTTCGTC
1 CTACCAGCTGCTATTCTTTTCTTCTTGTTCGTC
* * *
56751 CTACCAGCTACTGTTTCTTTTCTTCTTGTTCATC
1 CTACCAGCTGCT-ATTCTTTTCTTCTTGTTCGTC
* * *
56785 CTACCAGTTGCTATTTTCTTTTCTTCTTATTCCTC
1 CTACCAGCTGCTA--TTCTTTTCTTCTTGTTCGTC
* *
56820 CTACCAGTTGCTATT-TTTTCTTCTTGTTTGTC
1 CTACCAGCTGCTATTCTTTTCTTCTTGTTCGTC
56852 CTACCAGCTG
1 CTACCAGCTG
56862 TTGTTTTCTT
Statistics
Matches: 94, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
32 34 0.36
33 4 0.04
34 25 0.27
35 31 0.33
ACGTcount: A:0.11, C:0.28, G:0.11, T:0.50
Consensus pattern (33 bp):
CTACCAGCTGCTATTCTTTTCTTCTTGTTCGTC
Found at i:57392 original size:23 final size:24
Alignment explanation
Indices: 57366--57412 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
57356 TTTTTAGATT
*
57366 TTAATTTTT-TTATTTGATTTTTA
1 TTAATTTTTATTATTTAATTTTTA
*
57389 TTAATTTTTATTTTTTAATTTTTA
1 TTAATTTTTATTATTTAATTTTTA
57413 ATTTAACTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (24 bp):
TTAATTTTTATTATTTAATTTTTA
Found at i:57403 original size:16 final size:15
Alignment explanation
Indices: 57384--57462 Score: 67
Period size: 14 Copynumber: 5.4 Consensus size: 15
57374 TTTATTTGAT
57384 TTTTATTAATTTTTA
1 TTTTATTAATTTTTA
57399 TTTT-TTAATTTTTAA
1 TTTTATTAATTTTT-A
* *
57414 TTTAACTAATTTTT-
1 TTTTATTAATTTTTA
* *
57428 TTTAATT--TTTTTG
1 TTTTATTAATTTTTA
*
57441 TTTTATTATTTTTTAA
1 TTTTATTAATTTTT-A
57457 TTTTAT
1 TTTTAT
57463 ATAAAAAAAC
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
12 5 0.09
13 6 0.11
14 15 0.28
15 13 0.25
16 14 0.26
ACGTcount: A:0.24, C:0.01, G:0.01, T:0.73
Consensus pattern (15 bp):
TTTTATTAATTTTTA
Found at i:57452 original size:14 final size:13
Alignment explanation
Indices: 57370--57454 Score: 57
Period size: 14 Copynumber: 6.4 Consensus size: 13
57360 TAGATTTTAA
*
57370 TTTTTTTATTTGAT
1 TTTTTTTAATT-AT
* *
57384 TTTTATTAATTTT
1 TTTTTTTAATTAT
57397 TATTTTTTAATT-T
1 T-TTTTTTAATTAT
** *
57410 TTAATTTAACTAAT
1 TTTTTTTAA-TTAT
57424 TTTTTTTAATT-T
1 TTTTTTTAATTAT
*
57436 TTTTGTTTTATTAT
1 TTTT-TTTAATTAT
57450 TTTTT
1 TTTTT
57455 AATTTTATAT
Statistics
Matches: 55, Mismatches: 11, Indels: 11
0.71 0.14 0.14
Matches are distributed among these distances:
12 11 0.20
13 13 0.24
14 31 0.56
ACGTcount: A:0.21, C:0.01, G:0.02, T:0.75
Consensus pattern (13 bp):
TTTTTTTAATTAT
Found at i:60147 original size:20 final size:20
Alignment explanation
Indices: 60095--60148 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
60085 TCACAATTTG
* *
60095 TATCGATACATTATTCATTC
1 TATCGATACATTGTTCATTA
60115 TATCGATACATTGTTCATTA
1 TATCGATACATTGTTCATTA
60135 TATCGATACATTGT
1 TATCGATACATTGT
60149 ATCTATACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.44
Consensus pattern (20 bp):
TATCGATACATTGTTCATTA
Found at i:60200 original size:20 final size:19
Alignment explanation
Indices: 60175--60301 Score: 131
Period size: 20 Copynumber: 6.7 Consensus size: 19
60165 TTTACCCAGA
60175 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
*
60195 TGTATCGATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
60215 TGTATCGAT--A----CAT
1 TGTATCGATACATTTTCAT
*
60228 TGTATCGATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
*
60248 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTT-CAT
*
60268 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTT-CAT
60288 TGTATCGATACATT
1 TGTATCGATACATT
60302 CAAGCATTTT
Statistics
Matches: 95, Mismatches: 3, Indels: 18
0.82 0.03 0.16
Matches are distributed among these distances:
13 12 0.13
15 1 0.01
18 1 0.01
19 1 0.01
20 79 0.83
21 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:60226 original size:40 final size:39
Alignment explanation
Indices: 60175--60301 Score: 151
Period size: 40 Copynumber: 3.4 Consensus size: 39
60165 TTTACCCAGA
60175 TGTATCGATACATTTTGCATTGTATCGATACATTGCTCAT
1 TGTATCGATACATTTT-CATTGTATCGATACATTGCTCAT
60215 TGTATCGAT--A----CATTGTATCGATACATTGCTCAT
1 TGTATCGATACATTTTCATTGTATCGATACATTGCTCAT
* * *
60248 TGTATCGATACATTTTACAATGTATCGATACATT-TTACAA
1 TGTATCGATACATTTT-CATTGTATCGATACATTGCT-CAT
60288 TGTATCGATACATT
1 TGTATCGATACATT
60302 CAAGCATTTT
Statistics
Matches: 76, Mismatches: 3, Indels: 16
0.80 0.03 0.17
Matches are distributed among these distances:
33 32 0.42
35 1 0.01
38 1 0.01
39 1 0.01
40 41 0.54
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (39 bp):
TGTATCGATACATTTTCATTGTATCGATACATTGCTCAT
Found at i:60234 original size:33 final size:33
Alignment explanation
Indices: 60192--60261 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
60182 ATACATTTTG
60192 CATTGTATCGATACATTGCTCATTGTATCGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
60225 CATTGTATCGATACATTGCTCATTGTATCGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
60258 CATT
1 CATT
60262 TTACAATGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (33 bp):
CATTGTATCGATACATTGCTCATTGTATCGATA
Found at i:60249 original size:53 final size:53
Alignment explanation
Indices: 60175--60281 Score: 155
Period size: 53 Copynumber: 2.0 Consensus size: 53
60165 TTTACCCAGA
* *
60175 TGTATCGATACATTTTGCATTGTATCGATACATTGCT-CATTGTATCGATACAT
1 TGTATCGATACATTCTGCATTGTATCGATACATT-CTACAATGTATCGATACAT
*
60228 TGTATCGATACATTGCT-CATTGTATCGATACATTTTACAATGTATCGATACAT
1 TGTATCGATACATT-CTGCATTGTATCGATACATTCTACAATGTATCGATACAT
60281 T
1 T
60282 TTACAATGTA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
52 1 0.02
53 47 0.96
54 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (53 bp):
TGTATCGATACATTCTGCATTGTATCGATACATTCTACAATGTATCGATACAT
Found at i:60261 original size:13 final size:13
Alignment explanation
Indices: 60212--60242 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
60202 ATACATTGCT
60212 CATTGTATCGATA
1 CATTGTATCGATA
60225 CATTGTATCGATA
1 CATTGTATCGATA
60238 CATTG
1 CATTG
60243 CTCATTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:61796 original size:13 final size:13
Alignment explanation
Indices: 61778--61808 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
61768 ACATTTCTTC
61778 ATGTATCGATACA
1 ATGTATCGATACA
61791 ATGTATCGATACA
1 ATGTATCGATACA
*
61804 TTGTA
1 ATGTA
61809 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:61796 original size:33 final size:33
Alignment explanation
Indices: 61758--61824 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 33
61748 GTTACAAGCT
61758 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTGTAC--CATGTATCGATACA
61791 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
61824 A
1 A
61825 ATAGTGATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:61897 original size:19 final size:19
Alignment explanation
Indices: 61853--61909 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
61843 CTGCCAGTTT
*
61853 CATGTATCGATACAATTTGTA
1 CATGTATCGATACAA--TGAA
61874 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
61893 CATGTATCGATACAATG
1 CATGTATCGATACAATG
61910 TATCGATACA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 20 0.57
21 15 0.43
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:61912 original size:13 final size:13
Alignment explanation
Indices: 61894--61920 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
61884 TACAATGAAC
61894 ATGTATCGATACA
1 ATGTATCGATACA
61907 ATGTATCGATACA
1 ATGTATCGATACA
61920 A
1 A
61921 AGCAGTATGT
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):
ATGTATCGATACA
Found at i:64362 original size:13 final size:13
Alignment explanation
Indices: 64344--64371 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
64334 AAATAGTACC
64344 CAATGTATCGATA
1 CAATGTATCGATA
64357 CAATGTATCGATA
1 CAATGTATCGATA
64370 CA
1 CA
64372 GGAATGTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:70545 original size:33 final size:32
Alignment explanation
Indices: 70489--70555 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 32
70479 GTTACAAGCT
*
70489 ATGTATCGATACATTTCTTCATGTATTGATACA
1 ATGTATCGATACATTTC-TCATGTATCGATACA
70522 ATGTATCGATACATTGTAC-CATGTATCGATACA
1 ATGTATCGATACATT-T-CTCATGTATCGATACA
70555 A
1 A
70556 ATAGTGATAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.37
Consensus pattern (32 bp):
ATGTATCGATACATTTCTCATGTATCGATACA
Found at i:70629 original size:19 final size:19
Alignment explanation
Indices: 70584--70640 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
70574 CTGCCAGTTT
**
70584 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA--TGAA
70605 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
70624 CATGTATTGATACAATG
1 CATGTATCGATACAATG
70641 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 18 0.55
21 15 0.45
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:70647 original size:32 final size:33
Alignment explanation
Indices: 70606--70670 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
70596 CAATTTGTCC
* *
70606 ATGTATCGATACAATG-AACATGTATTGATACA
1 ATGTATCGATACAAAGCAACATGTATCGATACA
*
70638 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAGCAACATGTATCGATACA
70671 TCTAGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (33 bp):
ATGTATCGATACAAAGCAACATGTATCGATACA
Found at i:72594 original size:51 final size:50
Alignment explanation
Indices: 72527--72654 Score: 186
Period size: 51 Copynumber: 2.5 Consensus size: 50
72517 ATTTCTAGAT
*
72527 TTTTCAT-ATCGGGGATACTCCAACTCTGATTTTATTTCTAAAACACCCA
1 TTTTCATAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAACACCCA
* * *
72576 TTTTCCATAATCGGGGATACTTCAACTCTGATTTTATTTCCAAAATACCGA
1 TTTT-CATAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAACACCCA
*
72627 CTTTTCACAATCGGGGATACTCCAACTC
1 -TTTTCATAATCGGGGATACTCCAACTC
72655 CGTTATTTTT
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
49 4 0.06
50 3 0.04
51 59 0.84
52 4 0.06
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (50 bp):
TTTTCATAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAACACCCA
Found at i:72711 original size:79 final size:79
Alignment explanation
Indices: 72588--72994 Score: 466
Period size: 79 Copynumber: 5.2 Consensus size: 79
72578 TTCCATAATC
* * * * * *
72588 GGGGATACTTCAA-CTCTGATTTTATTTCCAAAATACCGACTTTTCACAATCGGGGATACTCCAA
1 GGGGATACTCCAACCTC-GATTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAA
* *
72652 CTCCGTTATTTTTGA
65 CCCCGTTATTTTCGA
** * *
72667 GAAGACACTCCAACCTCGATTTTATTTTTAAAACATCAATTTTT--C-ATCGGGGATACTCCAAC
1 GGGGATACTCCAACCTCGATTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAAC
*
72729 CCCGTTATTTCCGA
66 CCCGTTATTTTCGA
* * * * * * *
72743 GGGGATACCCCAA-CTCTAGCTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAA
1 GGGGATACTCCAACCTCGA-TTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAA
*
72807 CCCCGTTATTTTTGA
65 CCCCGTTATTTTCGA
* * * * *
72822 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAAATTTTCATAGTCGGGGATACTCCAAC
1 GGGGATACTCCAACCTCGATTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAAC
*
72887 CCCCTTATTTTCGA
66 CCCGTTATTTTCGA
* * * *
72901 AGGCATACTCCAATCC-CGATTTTATTTCTAAATCATCGATTTTTCACAATCGGGGATACTCCAA
1 GGGGATACTCCAA-CCTCGATTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAA
72965 CCCCGTTATTTTCGA
65 CCCCGTTATTTTCGA
72980 GGGGATACTCCAACC
1 GGGGATACTCCAACC
72995 CCGTTATTAT
Statistics
Matches: 272, Mismatches: 49, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
75 4 0.01
76 57 0.21
77 1 0.00
78 2 0.01
79 201 0.74
80 7 0.03
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.33
Consensus pattern (79 bp):
GGGGATACTCCAACCTCGATTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAAC
CCCGTTATTTTCGA
Found at i:75066 original size:4 final size:4
Alignment explanation
Indices: 75057--75081 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
75047 TATTTTGAGG
75057 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
75082 GTTTTATCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:82771 original size:46 final size:51
Alignment explanation
Indices: 82704--82822 Score: 167
Period size: 52 Copynumber: 2.4 Consensus size: 51
82694 ATATGAAAAG
82704 TTGCCTGCATGTATCGATACATTTAAT-A-G-T-G-TACATCTAGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGATCGATACATCTAGGCAAAT
* * *
82750 TTGCCTGCATGTATCAATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATG-ATCGATACATCTAGGCAAAT
82802 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
82823 AAGATCAGTG
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
46 25 0.40
47 1 0.02
48 1 0.02
50 1 0.02
51 1 0.02
52 34 0.54
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGATCGATACATCTAGGCAAAT
Found at i:82835 original size:52 final size:52
Alignment explanation
Indices: 82735--82842 Score: 146
Period size: 52 Copynumber: 2.1 Consensus size: 52
82725 TTTAATAGTG
***
82735 TACATCTAGGCAAATTTGCCTGCATGTATCAATACATTTTATAATGTATCGA
1 TACATCTAGGCAAATTTGCCTGCATGTATCAATACATAAGATAATGTATCGA
* * *
82787 TACATCTGGGCAAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGA
1 TACATCTAGGCAAATTTGCCTGCATGTATCAATACATAAGAT-AATGTATCGA
82839 TACA
1 TACA
82843 ATGTATCGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
51 2 0.04
52 47 0.96
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (52 bp):
TACATCTAGGCAAATTTGCCTGCATGTATCAATACATAAGATAATGTATCGA
Found at i:82849 original size:13 final size:13
Alignment explanation
Indices: 82831--82855 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82821 CAAAGATCAG
82831 TGTATCGATACAA
1 TGTATCGATACAA
82844 TGTATCGATACA
1 TGTATCGATACA
82856 TTTGAGTAAT
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:82935 original size:13 final size:13
Alignment explanation
Indices: 82917--82941 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82907 ACAAAACTTA
82917 TGTATCGATACAT
1 TGTATCGATACAT
82930 TGTATCGATACA
1 TGTATCGATACA
82942 ACATTTTATG
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:82937 original size:32 final size:33
Alignment explanation
Indices: 82896--82961 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
82886 AGTAGCTTAA
82896 ATTGTATCGATACAA-AACTTATGTATCGATAC
1 ATTGTATCGATACAACAACTTATGTATCGATAC
** *
82928 ATTGTATCGATACAACATTTTATGTATTGATAC
1 ATTGTATCGATACAACAACTTATGTATCGATAC
82961 A
1 A
82962 AATCATTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (33 bp):
ATTGTATCGATACAACAACTTATGTATCGATAC
Found at i:90168 original size:94 final size:94
Alignment explanation
Indices: 90000--90182 Score: 289
Period size: 94 Copynumber: 1.9 Consensus size: 94
89990 ATCTAAACTT
* *
90000 TCTCCTTTCACTTTTCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TCTCCTTTCACTTTTCAATCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGCTGGTGGCA
90065 CTTCCCAGTCCTCAAAGAGCAGGACGCTC
66 CTTCCCAGTCCTCAAAGAGCAGGACGCTC
* *
90094 TCTCCTTTCACCTTTT-AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGCTGGTGGC
1 TCTCCTTTCA-CTTTTCAATCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGCTGGTGGC
*
90158 ACCTT-TCAGTCCTCAAAGAGCAGGA
65 A-CTTCCCAGTCCTCAAAGAGCAGGA
90183 TGCCTTTTGA
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
94 74 0.90
95 8 0.10
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (94 bp):
TCTCCTTTCACTTTTCAATCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGCTGGTGGCA
CTTCCCAGTCCTCAAAGAGCAGGACGCTC
Found at i:90169 original size:55 final size:55
Alignment explanation
Indices: 90110--90302 Score: 244
Period size: 55 Copynumber: 3.4 Consensus size: 55
90100 TTCACCTTTT
* *
90110 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGCTGGTGGCACCTT-TC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTCCC
* **
90165 AGTCCTCAAAGAGCAGGATGCCTTTTGAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCC
*
90220 AGTCCTCAAAGAGCAGGATGCCTTCTCTCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCC-T-T-TC----AAAGCCCACACAAGTTGGTGGCACTTCCC
*
90282 AGTCCTCAAAGAGCAAGACGC
1 AGTCCTCAAAGAGCAGGACGC
90303 TATCTCTTTT
Statistics
Matches: 121, Mismatches: 9, Indels: 9
0.87 0.06 0.06
Matches are distributed among these distances:
54 3 0.02
55 68 0.56
56 1 0.01
57 1 0.01
58 1 0.01
62 47 0.39
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.21
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCC
Found at i:90309 original size:62 final size:62
Alignment explanation
Indices: 90186--90302 Score: 207
Period size: 62 Copynumber: 1.9 Consensus size: 62
90176 AGCAGGATGC
* * *
90186 CTTTTGAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGATGCCTTCTCT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAAGACGCCTTCTCT
90248 CTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAAGACGC
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAAGACGC
90303 TATCTCTTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 52 1.00
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.23
Consensus pattern (62 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAAGACGCCTTCTCT
Found at i:90396 original size:61 final size:60
Alignment explanation
Indices: 90321--90514 Score: 188
Period size: 61 Copynumber: 3.2 Consensus size: 60
90311 TTCGCCCTTT
** *
90321 AGTCCTCAAAGAGCAGG-ATGTTTTCTCTTTGCAAAGCCCACACAAGTTTGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGAACCTTTTCT-TTT-CAAAGCCCACACAAGTTGGTGGCACCTTCC
** **
90382 AGTCCTCAAAGAGCAGGACACCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTTT
1 AGTCCTCAAAGAGCAGGA-ACCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA--CCTTCC
*
90445 AGTCCTCAAAGAGCAGG-ACGC---T-TTTT-AAAGCCCACACAAGTTGGTGACA-CTTCTC
1 AGTCCTCAAAGAGCAGGAAC-CTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTC-C
*
90500 AGTCCTCAAAAAGCA
1 AGTCCTCAAAGAGCA
90515 AGACGCTCTC
Statistics
Matches: 115, Mismatches: 12, Indels: 18
0.79 0.08 0.12
Matches are distributed among these distances:
54 2 0.02
55 14 0.12
57 22 0.19
58 4 0.03
59 1 0.01
61 42 0.37
62 4 0.03
63 26 0.23
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (60 bp):
AGTCCTCAAAGAGCAGGAACCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCC
Found at i:90411 original size:100 final size:100
Alignment explanation
Indices: 90220--90413 Score: 277
Period size: 100 Copynumber: 1.9 Consensus size: 100
90210 GGCACTTCCC
*
90220 AGTCCTCAAAGAGCAGGATGCCTTCTCTCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGT
1 AGTCCTCAAAGAGCAGGATG-CTTCTCTCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAGT
*
90285 CCTCAAAGAGCAAGACGCTATCTCTTTTCGCCCTTT
65 CCTCAAAGAGCAAGACCCTATCTCTTTTCGCCCTTT
* *
90321 AGTCCTCAAAGAGCAGGATG-TTTTCTCTTTGCAAAGCCCACACAAGTTTGTGGCACCTT-CCAG
1 AGTCCTCAAAGAGCAGGATGCTTCTCTCTTT-CAAAGCCCACACAAGTTGGTGGCA-CTTCCCAG
* *
90384 TCCTCAAAGAGCAGGACACCT-TTTCTTTTC
64 TCCTCAAAGAGCAAGAC-CCTATCTCTTTTC
90414 AAAGCCCACA
Statistics
Matches: 84, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
99 9 0.11
100 50 0.60
101 25 0.30
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (100 bp):
AGTCCTCAAAGAGCAGGATGCTTCTCTCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTC
CTCAAAGAGCAAGACCCTATCTCTTTTCGCCCTTT
Found at i:90655 original size:61 final size:60
Alignment explanation
Indices: 90577--90733 Score: 190
Period size: 61 Copynumber: 2.6 Consensus size: 60
90567 AGCCCACATA
* *
90577 AGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG-TTTTCTCCTTTTAAAAACCACTCG
1 AGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTTCT--TTTCAAAAACCACACG
** * **
90638 AGTTGGTGGCACCTTCCAGTCCTCAAAGAGCATGATGCCTTTTCTTTTCAAAGCCCACACG
1 AGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG-CTTTTCTTTTCAAAAACCACACG
** *
90699 AGTTGGTGGCATTTTTTAGTCTTCAAAGAGCAGGA
1 AGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA
90734 CACCTTTTCC
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
61 75 0.93
63 6 0.07
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (60 bp):
AGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTTCTTTTCAAAAACCACACG
Found at i:90740 original size:61 final size:60
Alignment explanation
Indices: 90561--90748 Score: 189
Period size: 61 Copynumber: 3.1 Consensus size: 60
90551 GCAGGACGCC
** **
90561 TTTCAAAGCCCACATAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGG-ATGTTTTCT
1 TTTCAAAGCCCACACGAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAACCTTTTCT
* ** * ** * *
90620 CCTTTTAAAAACCACTCGAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCATGATGCCTTTTCT
1 --TTTCAAAGCCCACACGAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA-ACCTTTTCT
** *
90683 TTTCAAAGCCCACACGAGTTGGTGGCATTTTTTAGTCTTCAAAGAGCAGGACACCTTTTCCT
1 TTTCAAAGCCCACACGAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA-ACCTTTT-CT
90745 TTTC
1 TTTC
90749 TTCTTTGTCC
Statistics
Matches: 100, Mismatches: 24, Indels: 5
0.78 0.19 0.04
Matches are distributed among these distances:
61 88 0.88
62 6 0.06
63 6 0.06
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (60 bp):
TTTCAAAGCCCACACGAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAACCTTTTCT
Found at i:90807 original size:45 final size:42
Alignment explanation
Indices: 90721--90898 Score: 124
Period size: 45 Copynumber: 4.2 Consensus size: 42
90711 TTTTTAGTCT
90721 TCAAAGAGCAGGACAC-C--T-TTT-CCT-TTTCTTCTTTGTCC
1 TCAAAGAGCAGGACACACTTTATTTCCCTCTTTC--CTTTGTCC
90759 TCAAAGAGCAGGACACACTTTA-TTCCCTTCTTTTCCCCTTTGTCC
1 TCAAAGAGCAGGACACACTTTATTTCCC-TC-TTT--CCTTTGTCC
* * * *
90804 TCAAAGAGCAAGG-CGCACTTTATTTTCCTCTTTCTTTTGTCT
1 TCAAAGAGC-AGGACACACTTTATTTCCCTCTTTCCTTTGTCC
* * * *
90846 TCAAAGAGCAGGACGCA-TTTCGTTTTCCTTTTTTCCTTTGTCC
1 TCAAAGAGCAGGACACACTTT--ATTTCCCTCTTTCCTTTGTCC
90889 TCGAAA-AGCA
1 TC-AAAGAGCA
90899 AGATGTACTC
Statistics
Matches: 114, Mismatches: 10, Indels: 27
0.75 0.07 0.18
Matches are distributed among these distances:
38 16 0.14
39 1 0.01
41 9 0.08
42 22 0.19
43 22 0.19
44 6 0.05
45 30 0.26
46 7 0.06
47 1 0.01
ACGTcount: A:0.20, C:0.28, G:0.14, T:0.38
Consensus pattern (42 bp):
TCAAAGAGCAGGACACACTTTATTTCCCTCTTTCCTTTGTCC
Found at i:90880 original size:87 final size:86
Alignment explanation
Indices: 90738--90900 Score: 201
Period size: 87 Copynumber: 1.9 Consensus size: 86
90728 GCAGGACACC
90738 TTTTCCTTTTCTTCTTTGTCCTCAAAGAGCAGGACACACTTTATTCCCTTCTTTTCCCCTTTGTC
1 TTTTCCTTTTCTTCTTTGTCCTCAAAGAGCAGGACACACTTTATTCCCTTCTTTT--CCTTTGTC
90803 CTC-AAAGAGCAAGGCGCACTTTA
64 CTCGAAA-AGCAAGGCGCACTTTA
* * * *
90826 TTTTCCTCTTTC-T-TTTGTCTTCAAAGAGCAGGACGCA-TTTCGTTTTCCTT-TTTTCCTTTGT
1 TTTTCCT-TTTCTTCTTTGTCCTCAAAGAGCAGGACACACTTT--ATTCCCTTCTTTTCCTTTGT
90887 CCTCGAAAAGCAAG
63 CCTCGAAAAGCAAG
90901 ATGTACTCTT
Statistics
Matches: 67, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
85 17 0.25
86 6 0.09
87 26 0.39
88 14 0.21
89 4 0.06
ACGTcount: A:0.18, C:0.27, G:0.13, T:0.41
Consensus pattern (86 bp):
TTTTCCTTTTCTTCTTTGTCCTCAAAGAGCAGGACACACTTTATTCCCTTCTTTTCCTTTGTCCT
CGAAAAGCAAGGCGCACTTTA
Found at i:91626 original size:13 final size:13
Alignment explanation
Indices: 91610--91639 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
91600 ATACATTGTT
*
91610 CATTGTATCGATA
1 CATTATATCGATA
91623 CATTATATCGATA
1 CATTATATCGATA
91636 CATT
1 CATT
91640 CTGGGTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (13 bp):
CATTATATCGATA
Found at i:91637 original size:33 final size:33
Alignment explanation
Indices: 91595--91782 Score: 106
Period size: 42 Copynumber: 5.0 Consensus size: 33
91585 TCACAATTTG
91595 TATCGATACATTGTTCATTGTATCGATACATTA
1 TATCGATACATTGTTCATTGTATCGATACATTA
* *
91628 TATCGATACATTCTGGGTTTACCCAGATGTATCAATACATTA
1 TATCGATACA-T-T--G-TT---CA-TTGTATCGATACATTA
*
91670 TATCGATACATTCTGGGTTTACCCAGATGTATCGATACATTTTGCA
1 TATCGATACA-T-T--G-TT---CA-TTGTATCGATACA--TT--A
* *
91716 TGTATCGATACATTGCTCATTGTATCGATACATTG
1 --TATCGATACATTGTTCATTGTATCGATACATTA
*
91751 TATCGATACATTGCTCATTGTATCGATACATT
1 TATCGATACATTGTTCATTGTATCGATACATT
91783 TTACAATCTA
Statistics
Matches: 134, Mismatches: 6, Indels: 30
0.79 0.04 0.18
Matches are distributed among these distances:
33 42 0.31
34 1 0.01
35 1 0.01
37 3 0.02
38 2 0.01
39 12 0.09
40 2 0.01
41 2 0.01
42 52 0.39
43 1 0.01
44 3 0.02
46 2 0.01
47 1 0.01
48 10 0.07
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (33 bp):
TATCGATACATTGTTCATTGTATCGATACATTA
Found at i:91672 original size:42 final size:42
Alignment explanation
Indices: 91613--91710 Score: 187
Period size: 42 Copynumber: 2.3 Consensus size: 42
91603 CATTGTTCAT
91613 TGTATCGATACATTATATCGATACATTCTGGGTTTACCCAGA
1 TGTATCGATACATTATATCGATACATTCTGGGTTTACCCAGA
*
91655 TGTATCAATACATTATATCGATACATTCTGGGTTTACCCAGA
1 TGTATCGATACATTATATCGATACATTCTGGGTTTACCCAGA
91697 TGTATCGATACATT
1 TGTATCGATACATT
91711 TTGCATGTAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (42 bp):
TGTATCGATACATTATATCGATACATTCTGGGTTTACCCAGA
Found at i:91720 original size:19 final size:19
Alignment explanation
Indices: 91696--91782 Score: 89
Period size: 20 Copynumber: 4.8 Consensus size: 19
91686 GTTTACCCAG
*
91696 ATGTATCGATACATT-TTGC
1 ATGTATCGATACATTGCT-C
91715 ATGTATCGATACATTGCTC
1 ATGTATCGATACATTGCTC
91734 ATTGTATCGATACA----T-
1 A-TGTATCGATACATTGCTC
91749 -TGTATCGATACATTGCTC
1 ATGTATCGATACATTGCTC
91767 ATTGTATCGATACATT
1 A-TGTATCGATACATT
91783 TTACAATCTA
Statistics
Matches: 58, Mismatches: 1, Indels: 17
0.76 0.01 0.22
Matches are distributed among these distances:
13 12 0.21
16 1 0.02
17 1 0.02
19 17 0.29
20 27 0.47
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (19 bp):
ATGTATCGATACATTGCTC
Found at i:91782 original size:13 final size:13
Alignment explanation
Indices: 91733--91763 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
91723 ATACATTGCT
91733 CATTGTATCGATA
1 CATTGTATCGATA
91746 CATTGTATCGATA
1 CATTGTATCGATA
91759 CATTG
1 CATTG
91764 CTCATTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:91795 original size:53 final size:52
Alignment explanation
Indices: 91697--91798 Score: 127
Period size: 53 Copynumber: 1.9 Consensus size: 52
91687 TTTACCCAGA
* * *
91697 TGTATCGATACATTTTGCATGTATCGATACATTGCTCATTGTATCGATACAT
1 TGTATCGATACATTCTGCATGTATCGATACATTGCTCAATCTATCGATACAT
*
91749 TGTATCGATACATTGCT-CATTGTATCGATACATT-TTACAATCTATCGATA
1 TGTATCGATACATT-CTGCA-TGTATCGATACATTGCT-CAATCTATCGATA
91799 TATTCAGGCA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
52 17 0.40
53 26 0.60
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (52 bp):
TGTATCGATACATTCTGCATGTATCGATACATTGCTCAATCTATCGATACAT
Found at i:94159 original size:50 final size:51
Alignment explanation
Indices: 94104--94216 Score: 165
Period size: 50 Copynumber: 2.2 Consensus size: 51
94094 TTCATCTCGA
* *
94104 GGATACTCCAACTCCGATTTTATTTCTAAAACACCCACTTTCCATAATC-G
1 GGATACTCCAACTCCGATTTTATTTCCAAAACACCCACTTTCCAAAATCGG
* * * *
94154 GGATACTTCAACTCCGATTTTATTTCCAAAACATCGACTTTTCAAAATCGG
1 GGATACTCCAACTCCGATTTTATTTCCAAAACACCCACTTTCCAAAATCGG
94205 GGATACTCCAAC
1 GGATACTCCAAC
94217 CCCGTTATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
50 43 0.78
51 12 0.22
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.31
Consensus pattern (51 bp):
GGATACTCCAACTCCGATTTTATTTCCAAAACACCCACTTTCCAAAATCGG
Found at i:94300 original size:76 final size:76
Alignment explanation
Indices: 94170--94526 Score: 423
Period size: 76 Copynumber: 4.6 Consensus size: 76
94160 TTCAACTCCG
* * * *
94170 ATTTTATTTCCAAAACATCGACTTTTCAAAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGA
1 ATTTTATTTCTAAAACATCAATTTTTC---ATCGGGGATACTCCAACCCCGTTATTTTTGAGGGA
94235 ACACTCCAACCCCA
63 ACACTCCAACCCCA
*
94249 ATTTTATTTCTAAAACATCAATTTTTCATCGGGGATATTCCAACCCCGTTATTTTTGAGGGAACA
1 ATTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCCGTTATTTTTGAGGGAACA
94314 CTCCAACCCCA
66 CTCCAACCCCA
* * *
94325 ATTTTATTTCAAAAACATCAATTTTTCATCGGGGATATTCCAACCCCGTTATTTTTTAAGGGATA
1 ATTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCCGTTA-TTTTTGAGGGA-A
* *
94390 C-C-CCAACCTCG
64 CACTCCAACCCCA
* * * * *
94401 GTTTTATTTCTAAAATATCAATTTTTCATCGTGGATACTCCAACCCCGTTATTTTTGAGGGGATA
1 ATTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCCGTTATTTTTGAGGGAACA
* *
94466 CCCCAA-CCCT
66 CTCCAACCCCA
** * * *
94476 GCTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAACCCCG
1 ATTTTATTTCTAAAACATCAATTT-T--TCATCGGGGATACTCCAACCCCG
94527 GTTTTATTTA
Statistics
Matches: 248, Mismatches: 23, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
74 1 0.00
75 34 0.14
76 155 0.62
77 11 0.04
78 23 0.09
79 24 0.10
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (76 bp):
ATTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCCGTTATTTTTGAGGGAACA
CTCCAACCCCA
Found at i:94550 original size:51 final size:51
Alignment explanation
Indices: 94459--94576 Score: 157
Period size: 51 Copynumber: 2.3 Consensus size: 51
94449 TTATTTTTGA
* * * * *
94459 GGGGATACCCCAA-CCCTGCTTTATTTCTAAAATATTAATTTCTCATAATC
1 GGGGATACTCCAACCCCGGCTTTATTTATAAAACATCAATTTCTCATAATC
* * *
94509 GGGGATACTCCAACCCCGGTTTTATTTATAAAACATCAATTTTTCATAGTC
1 GGGGATACTCCAACCCCGGCTTTATTTATAAAACATCAATTTCTCATAATC
94560 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
94577 TTTATTTCCG
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 12 0.20
51 47 0.80
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGCTTTATTTATAAAACATCAATTTCTCATAATC
Found at i:94617 original size:129 final size:126
Alignment explanation
Indices: 94384--94655 Score: 339
Period size: 129 Copynumber: 2.1 Consensus size: 126
94374 TATTTTTTAA
* * * * *
94384 GGGATACCCCAACCTCGGTTTTATTTCTAAAATATCAATTTTTCATCGTGGATACTCCAACCCCG
1 GGGATACTCCAACCCCGGTTTTATTTATAAAACATCAATTTTTCATCGGGGATACTCCAACCCCG
** ** * *
94449 TTATTTTTGAGGGGATACCCCAACCCTGCTTTATTTCTAAAAT-ATTAATTTCTCATAATCG
66 TTATTTCCGAGGGGATACCCCAACCCAACTTTATTTCT-AAATCATCAATTTCTCACAATCG
94510 GGGATACTCCAACCCCGGTTTTATTTATAAAACATCAATTTTTCATAGTCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGGTTTTATTTATAAAACATCAATTTTTC--A-TCGGGGATACTCCAACC
* * * * * * *
94575 CCTTTATTTCCGAGGGGATACTCTAATCCAATTTTATTTCTAAATCATCGATTTTTCACAATCG
63 CCGTTATTTCCGAGGGGATACCCCAACCCAACTTTATTTCTAAATCATCAATTTCTCACAATCG
94639 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
94656 TTATTTTCGA
Statistics
Matches: 124, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
126 40 0.32
128 5 0.04
129 79 0.64
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.35
Consensus pattern (126 bp):
GGGATACTCCAACCCCGGTTTTATTTATAAAACATCAATTTTTCATCGGGGATACTCCAACCCCG
TTATTTCCGAGGGGATACCCCAACCCAACTTTATTTCTAAATCATCAATTTCTCACAATCG
Found at i:94631 original size:78 final size:78
Alignment explanation
Indices: 94528--94675 Score: 224
Period size: 78 Copynumber: 1.9 Consensus size: 78
94518 CCAACCCCGG
* * * *
94528 TTTTATTTATAAAACATCAATTTTTCATAGTCGGGGATACTCCAACCCCTTTATTTCCGAGGGGA
1 TTTTATTTATAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGAGA
94593 TACTCTAATCCAA
66 TACTCTAATCCAA
* * * *
94606 TTTTATTTCTAAATCATCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGAGA
1 TTTTATTTATAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGAGA
94671 TACTC
66 TACTC
94676 CAACCCCGTT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
78 62 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (78 bp):
TTTTATTTATAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGAGA
TACTCTAATCCAA
Found at i:96819 original size:30 final size:30
Alignment explanation
Indices: 96778--96855 Score: 106
Period size: 30 Copynumber: 2.6 Consensus size: 30
96768 GTCAATTTAG
96778 AAAAA-TTGTCATTAATTGACA-ATTTCATA
1 AAAAATTTGTCATTAATTGACAGA-TTCATA
* *
96807 AAAAATTTGTCATTAATTGATAGATTCTTA
1 AAAAATTTGTCATTAATTGACAGATTCATA
*
96837 GAAAATTTGTCATTAATTG
1 AAAAATTTGTCATTAATTG
96856 GAAAATTTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
29 5 0.11
30 38 0.86
31 1 0.02
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (30 bp):
AAAAATTTGTCATTAATTGACAGATTCATA
Found at i:107444 original size:11 final size:11
Alignment explanation
Indices: 107428--107453 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
107418 TTGACATTAA
107428 AAAAATATAAT
1 AAAAATATAAT
107439 AAAAATATAAT
1 AAAAATATAAT
107450 AAAA
1 AAAA
107454 TTAAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAAATATAAT
Found at i:107459 original size:16 final size:16
Alignment explanation
Indices: 107423--107476 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
107413 TTTATTTGAC
*
107423 ATTAAAA-A-AATATA
1 ATTAAAATATAATAAA
*
107437 ATAAAAATATAATAAA
1 ATTAAAATATAATAAA
*
107453 ATTAAAAAATTAA-AAA
1 ATTAAAATA-TAATAAA
107469 ATTAAAAT
1 ATTAAAAT
107477 TTAGTTAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
14 6 0.19
15 1 0.03
16 22 0.69
17 3 0.09
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
ATTAAAATATAATAAA
Found at i:107467 original size:7 final size:8
Alignment explanation
Indices: 107439--107475 Score: 56
Period size: 8 Copynumber: 4.4 Consensus size: 8
107429 AAAATATAAT
107439 AAAAATATA
1 AAAAAT-TA
107448 ATAAAATTA
1 A-AAAATTA
107457 AAAAATTA
1 AAAAATTA
107465 AAAAATTA
1 AAAAATTA
107473 AAA
1 AAA
107476 TTTAGTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 18 0.67
9 4 0.15
10 5 0.19
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAAAATTA
Found at i:107748 original size:20 final size:20
Alignment explanation
Indices: 107723--107879 Score: 91
Period size: 20 Copynumber: 7.8 Consensus size: 20
107713 TTTTCATAAT
107723 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
107743 TTGTATCGATACATTCTGGGTTTACCTA
1 TTGTATCGATACA-T-T--G-TT--C-A
*
107771 GATGTATCGATACATT-TTGCA
1 -TTGTATCGATACATTGTT-CA
*
107792 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
107812 TTGTATCGATACA------A
1 TTGTATCGATACATTGTTCA
* *
107826 -TGTATCGATACATGGCTCA
1 TTGTATCGATACATTGTTCA
*
107845 TTATATCGATACATT-TT-A
1 TTGTATCGATACATTGTTCA
107863 TAATGTATCGATACATT
1 T--TGTATCGATACATT
107880 CAGGCATTTT
Statistics
Matches: 110, Mismatches: 8, Indels: 38
0.71 0.05 0.24
Matches are distributed among these distances:
13 12 0.11
14 1 0.01
18 2 0.02
19 2 0.02
20 67 0.61
21 3 0.03
22 2 0.02
23 2 0.02
24 1 0.01
25 2 0.02
27 2 0.02
28 2 0.02
29 12 0.11
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:107831 original size:13 final size:13
Alignment explanation
Indices: 107813--107837 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107803 CATTGCTCAT
107813 TGTATCGATACAA
1 TGTATCGATACAA
107826 TGTATCGATACA
1 TGTATCGATACA
107838 TGGCTCATTA
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:107835 original size:33 final size:33
Alignment explanation
Indices: 107793--107857 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
107783 CATTTTGCAT
* *
107793 TGTATCGATACATTGCTCATTGTATCGATACAA
1 TGTATCGATACATGGCTCATTATATCGATACAA
107826 TGTATCGATACATGGCTCATTATATCGATACA
1 TGTATCGATACATGGCTCATTATATCGATACA
107858 TTTTATAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATGGCTCATTATATCGATACAA
Found at i:110250 original size:51 final size:51
Alignment explanation
Indices: 110170--110300 Score: 138
Period size: 51 Copynumber: 2.6 Consensus size: 51
110160 ATTTTTCATC
* * * ** *
110170 TCGGGGATACTCCAA-TCCCAGTTTCATTTCCAAAATATCAATTTTTCTTAA
1 TCGGGGATACTCCAACTCCGA-TTTTATTTCCAAAACATCAATTTACCGTAA
* * * *
110221 TCGGGAATACTCCAACTCCGATTTTATTTCTAAAGCATCGATTTACCGTAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTACCGTAA
* *
110272 TCGGGGATATTCTAACTCCGATTTTATTT
1 TCGGGGATACTCCAACTCCGATTTTATTT
110301 TTAAAACACT
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
51 62 0.94
52 4 0.06
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.37
Consensus pattern (51 bp):
TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTACCGTAA
Found at i:110358 original size:28 final size:28
Alignment explanation
Indices: 110322--110398 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
110312 ATTTTTCACA
*
110322 ATCGGGGATACTTCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
110350 ATCGGGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
110378 --CGAAGGGATACTCCAACCCCG
1 ATCG--GGGATACTCCAACCCCG
110399 ACTTTATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 2 0.05
28 42 0.95
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATTTC
Found at i:110446 original size:51 final size:51
Alignment explanation
Indices: 110381--110499 Score: 159
Period size: 51 Copynumber: 2.3 Consensus size: 51
110371 TTATTTCCGA
*
110381 AGGGATACTCCAACCCCGACTTTATTT-TCAAAATATTGATTTCTCACAATC
1 AGGGATACTCCAACCCCGACCTTATTTCT-AAAATATTGATTTCTCACAATC
* * * * *
110432 AGGGATACTTCAACCTCGGCCTTATTTCTAAAATATTGATTTCTCATAATT
1 AGGGATACTCCAACCCCGACCTTATTTCTAAAATATTGATTTCTCACAATC
*
110483 GGGGATACTCCAACCCC
1 AGGGATACTCCAACCCC
110500 ATTATTTTCA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
51 57 0.98
52 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
AGGGATACTCCAACCCCGACCTTATTTCTAAAATATTGATTTCTCACAATC
Found at i:110685 original size:130 final size:130
Alignment explanation
Indices: 110350--110686 Score: 387
Period size: 130 Copynumber: 2.6 Consensus size: 130
110340 CCGTTATTTC
* * * *
110350 ATCGGGGATACTCCAACCTCGTTATTTCCGAAGGGATACTCCAACCCCGACTTTATTTTCAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTCGACGGGATACTCCAACCCCGATTTTATTTTCAAAAT
* * * *
110415 ATTGATTTCTCACAATCAGGGATACTTCAACCTCGGCCTTATTTCTAAAATATTGATTTCTCATA
66 ATTAATTTCTCACAATCAGGGACACTTCAACCTCGGCCTTATTTCTAAAATATCGATTTCTCACA
* * * * **
110480 ATTGGGGATACTCCAACCCCATTATTTTC-ACGGGGATACTCCAATCTCGATTTTATTTTTGAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTCGAC-GGGATACTCCAACCCCGATTTTATTTTCAAAA
* * * * * *
110544 CATCTATTTTCT-ATAATCGGGGACACTTCAACC-CTTGCCTTATTTCT-AAATCATCGATTTTT
65 TAT-TAATTTCTCACAATCAGGGACACTTCAACCTC-GGCCTTATTTCTAAAAT-ATCGATTTCT
110606 CACA
127 CACA
* *
110610 ATCGGGGATACTCCAACCCCGTTATTTTCGACGGGATACTCCAACCCCG-TTATTATCTCCAAAA
1 ATCGGGGATACTCCAACCCCGTTATTTTCGACGGGATACTCCAACCCCGATT-TTATTTTCAAAA
110674 TATTAAATTTCTC
65 TATT-AATTTCTC
110687 GTTGAGAGAT
Statistics
Matches: 169, Mismatches: 30, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
129 9 0.05
130 152 0.90
131 8 0.05
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (130 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCGACGGGATACTCCAACCCCGATTTTATTTTCAAAAT
ATTAATTTCTCACAATCAGGGACACTTCAACCTCGGCCTTATTTCTAAAATATCGATTTCTCACA
Found at i:122994 original size:13 final size:12
Alignment explanation
Indices: 122976--123006 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
122966 TCTTTTTTAA
122976 AAAAAAAACCAAC
1 AAAAAAAA-CAAC
122989 AAAAAAAACAAC
1 AAAAAAAACAAC
123001 AAAAAA
1 AAAAAA
123007 CAAAAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAACAAC
Found at i:124249 original size:13 final size:13
Alignment explanation
Indices: 124231--124256 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
124221 CAATTTTTTG
124231 TGTATCGATACAT
1 TGTATCGATACAT
124244 TGTATCGATACAT
1 TGTATCGATACAT
124257 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:126815 original size:13 final size:13
Alignment explanation
Indices: 126797--126835 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
126787 ATAATCACCC
*
126797 TGTATCGATACAG
1 TGTATCGATACAA
126810 TGTATCGATACAA
1 TGTATCGATACAA
126823 TGTATCGATACAA
1 TGTATCGATACAA
126836 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:126846 original size:20 final size:20
Alignment explanation
Indices: 126821--126899 Score: 68
Period size: 20 Copynumber: 3.7 Consensus size: 20
126811 GTATCGATAC
126821 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
* *
126841 AATGTATCAATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
126866 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
126886 CATGTATCGATACA
1 AATGTATCGATACA
126900 TTTTGGACAA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
25 17 0.35
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:128934 original size:15 final size:15
Alignment explanation
Indices: 128914--128944 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
128904 ATTTCGTTTG
*
128914 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
128929 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
128944 G
1 G
128945 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:130775 original size:21 final size:21
Alignment explanation
Indices: 130746--130790 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
130736 AAGTTTTCAT
*
130746 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
130766 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
130788 TTT
1 TTT
130791 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:133027 original size:13 final size:13
Alignment explanation
Indices: 133009--133034 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
132999 CAATTTTTTG
133009 TGTATCGATACAT
1 TGTATCGATACAT
133022 TGTATCGATACAT
1 TGTATCGATACAT
133035 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:134075 original size:100 final size:94
Alignment explanation
Indices: 133942--134125 Score: 246
Period size: 94 Copynumber: 1.9 Consensus size: 94
133932 ATCTAAACTT
* *
133942 TCTCCTTTCACTTTTCAGTCCTCAAAAAGCAGGATGCGTTTTCCTTTTAAAGCCCACACAAGTTG
1 TCTCCTTTCACATTTCAGTCCTCAAAAAGCAGGA--CG----CCTTTCAAAGCCCACACAAGTTG
*
134007 GTGGCACC-TTCTAGTCCTCAAAGAGCAGGGCGCTC
60 GTGGCACCTTTC-AATCCTCAAAGAGCAGGGCGCTC
*
134042 TCTCCTTTCACCATTT-AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
1 TCTCCTTTCA-CATTTCAGTCCTCAAAAAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGC
134106 ACCTTTCAATCCTCAAAGAG
65 ACCTTTCAATCCTCAAAGAG
134126 TAGGACGCCT
Statistics
Matches: 78, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
94 42 0.54
95 3 0.04
98 2 0.03
100 27 0.35
101 4 0.05
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (94 bp):
TCTCCTTTCACATTTCAGTCCTCAAAAAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
CCTTTCAATCCTCAAAGAGCAGGGCGCTC
Found at i:134125 original size:55 final size:55
Alignment explanation
Indices: 134058--134251 Score: 255
Period size: 55 Copynumber: 3.4 Consensus size: 55
134048 TTCACCATTT
*
134058 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-TC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTCCC
* * * *
134113 AATCCTCAAAGAGTAGGACGCCTTTTAAAGCCCACATAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCC
*
134168 AGTCCTCAAAGAGCAGGATGCCTTCTCTTTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTT-TC------AAAGCCCACACAAGTTGGTGGCACTTCCC
134230 AGTCCTCAAAGAGCAGGACGCC
1 AGTCCTCAAAGAGCAGGACGCC
134252 ATCTCTTTTC
Statistics
Matches: 120, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
54 3 0.03
55 67 0.56
56 1 0.01
62 49 0.41
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCC
Found at i:134232 original size:62 final size:62
Alignment explanation
Indices: 134135--134260 Score: 225
Period size: 62 Copynumber: 2.0 Consensus size: 62
134125 GTAGGACGCC
* * *
134135 TTTTAAAGCCCACATAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGATGCCTTCTCTT
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCATCTCTT
134197 TTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCATCTCTT
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCATCTCTT
134259 TT
1 TT
134261 CGCCCTCTAG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (62 bp):
TTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCATCTCTT
Found at i:134342 original size:100 final size:101
Alignment explanation
Indices: 134168--134361 Score: 302
Period size: 100 Copynumber: 1.9 Consensus size: 101
134158 GGCACTTCCC
**
134168 AGTCCTCAAAGAGCAGGATGCCTTCTCTTTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGT
1 AGTCCTCAAAGAGCAGGATGCCTTCTCTTTTGCAAAGCCCACACAAGTTGGTGGCACTTCCCAGT
134233 CCTCAAAGAGCAGGACGCCATCTCTTTTCGCCCTCT
66 CCTCAAAGAGCAGGACGCCATCTCTTTTCGCCCTCT
**
134269 AGTCCTCAAAGAGCAGGATGTTTTCTC-TTTGCAAAGCCCACACAAGTTGGTGGCACCTT-CCAG
1 AGTCCTCAAAGAGCAGGATGCCTTCTCTTTTGCAAAGCCCACACAAGTTGGTGGCA-CTTCCCAG
* * *
134332 TCCTCAAAGAGCAGGATGCCTTTTCTTTTC
65 TCCTCAAAGAGCAGGACGCCATCTCTTTTC
134362 AAAGCCCACA
Statistics
Matches: 85, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
100 57 0.67
101 28 0.33
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (101 bp):
AGTCCTCAAAGAGCAGGATGCCTTCTCTTTTGCAAAGCCCACACAAGTTGGTGGCACTTCCCAGT
CCTCAAAGAGCAGGACGCCATCTCTTTTCGCCCTCT
Found at i:134479 original size:57 final size:57
Alignment explanation
Indices: 134269--134520 Score: 280
Period size: 61 Copynumber: 4.3 Consensus size: 57
134259 TTCGCCCTCT
*
134269 AGTCCTCAAAGAGCAGGATGTTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGATG---TCTCTTT-CAAAGCCCACACAAGTTGGTGGCACCTTTC
*
134330 AGTCCTCAAAGAGCAGGATGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGATG---TCTC-TTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* * ** *
134391 AGTCCTCAAAAAGCAAGATG-C-CTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTTT
1 AGTCCTCAAAGAGCAGGATGTCTCTTTCAAAGCCCACACAAGTTGGTGGCA--CCTTTC
* *
134448 AGTCCTCAAAGAGCAGGATG-CT-TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCC
1 AGTCCTCAAAGAGCAGGATGTCTCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-TC
*
134503 AGTCCTCAAAGTGCAGGA
1 AGTCCTCAAAGAGCAGGA
134521 CGCTCTCTCC
Statistics
Matches: 169, Mismatches: 17, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
54 2 0.01
55 44 0.26
56 1 0.01
57 48 0.28
61 71 0.42
62 3 0.02
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (57 bp):
AGTCCTCAAAGAGCAGGATGTCTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:134670 original size:61 final size:60
Alignment explanation
Indices: 134541--134873 Score: 308
Period size: 61 Copynumber: 5.5 Consensus size: 60
134531 TTTCACCCTT
* * * *
134541 TAGTCTTCAAAGAGCCAGGACGCCTTTTTCTTTTCAAGCCCACACGAGTTGGTGGCACAATTT-
1 TAGTCCTCAAAGAG-CAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG--C-ATTTC
* ** * *
134604 T-GTCCTCAAAGAGTAGGACGTTTTTTCCTTCTGAAGCCCACACAAGTTGGTGGCATTTCC
1 TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTT-C
* * * * *
134664 TAGTCCTCAAAGAGCATGA---C---ACATTTTAAAGCCTACACAAGTTGGTGGCACTTCC
1 TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTC
* * * *
134719 CAGTCCTCAAAGAGCAGGACGCCTTCTCATTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTC
* * * *
134780 TAGTCCTCAAAAAGCAGGACGCCTTTT-CTTTTCAAAGCCCACTA-GAGTTGGTAGCACTTTT
1 TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCAC-ACAAGTTGGTGGCA-TTTC
134841 TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT
1 TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT
134874 CTCCTTTGTT
Statistics
Matches: 225, Mismatches: 32, Indels: 27
0.79 0.11 0.10
Matches are distributed among these distances:
55 43 0.19
56 2 0.01
58 5 0.02
59 1 0.00
60 5 0.02
61 151 0.67
62 17 0.08
63 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (60 bp):
TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTC
Found at i:135504 original size:13 final size:13
Alignment explanation
Indices: 135486--135515 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
135476 ATACATTATT
135486 CATTGTATCGATA
1 CATTGTATCGATA
135499 CATTGTATCGATA
1 CATTGTATCGATA
135512 CATT
1 CATT
135516 CTGGGTTTAC
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:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:135572 original size:13 final size:13
Alignment explanation
Indices: 135554--135578 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
135544 TTTGCATTGT
135554 ATCGATACAATGC
1 ATCGATACAATGC
135567 ATCGATACAATG
1 ATCGATACAATG
135579 AGCAATGTCA
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:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (13 bp):
ATCGATACAATGC
Found at i:138065 original size:51 final size:51
Alignment explanation
Indices: 137906--138068 Score: 150
Period size: 51 Copynumber: 3.2 Consensus size: 51
137896 ATTTTTTATC
* * * * **
137906 TCGGGGATACTTCAA-TCTCGGTTTCAATTCCAAAACATCAATTTTTCTTAA
1 TCGGGGATACTCCAACTC-CGATTTTATTTCCAAAACATCAATTTTTCACAA
* ** * * ** *
137957 TCGGGGATACTCTAACTCCGATTTTATTTTTAAAGCATCGATTTACCGCAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCACAA
* *
138008 TTGGGGATATTCCAACTCCGATTTTATTTCCAAAACA-CTAATTTTTCACAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATC-AATTTTTCACAA
138059 TCGGGGATAC
1 TCGGGGATAC
138069 CTCAACCCCG
Statistics
Matches: 85, Mismatches: 25, Indels: 4
0.75 0.22 0.04
Matches are distributed among these distances:
50 1 0.01
51 82 0.96
52 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (51 bp):
TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCACAA
Found at i:138166 original size:51 final size:51
Alignment explanation
Indices: 138090--138206 Score: 164
Period size: 51 Copynumber: 2.3 Consensus size: 51
138080 TATTTTCGAG
*
138090 GGGATACTCCAACCCTGGCTTTATTTCCAAAATATTGATTTCTCACAATCA
1 GGGATACTCCAACCCTGGCCTTATTTCCAAAATATTGATTTCTCACAATCA
* * * **
138141 GGGATACTTCAACCAC-GGCCTTATTTCTAAAATATTGATTTCTCATAATTG
1 GGGATACTCCAACC-CTGGCCTTATTTCCAAAATATTGATTTCTCACAATCA
138192 GGGATACTCCAACCC
1 GGGATACTCCAACCC
138207 CATTATTTTC
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
50 1 0.02
51 56 0.97
52 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (51 bp):
GGGATACTCCAACCCTGGCCTTATTTCCAAAATATTGATTTCTCACAATCA
Done.