Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1426
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: 170309
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
File 1 of 2
Found at i:900 original size:20 final size:20
Alignment explanation
Indices: 853--927 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
843 AAAAAGACAT
*
853 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
872 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
893 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
913 AATGTATCGATACAT
1 AATGTATCGATACAT
928 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:921 original size:40 final size:39
Alignment explanation
Indices: 850--927 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
840 GGTAAAAAGA
* *
850 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
889 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
928 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:2499 original size:335 final size:330
Alignment explanation
Indices: 2023--2708 Score: 965
Period size: 335 Copynumber: 2.1 Consensus size: 330
2013 AATTACGGGA
2023 TTTTCTACTCCGTAAATATTTTCGAGCAAATTTTTCTCGATTGTTAATTTTTAAAATTCATCAAA
1 TTTTCTACTCCGTAAATATTTTCGAGCAAATTTTTCTCGATTGTTAATTTTTAAAATTCATCAAA
*
2088 TATTATTATTTATTTCATGTTAATTCATTTTTCAAAAATTCATTCATTTCCATAAATTTTGAATT
66 TATTATTATTTATTTCATGTTAATTCATTTTTCAAAAATTCATTCATTTCCATAAAATTTGAATT
*
2153 TTTTCCTTGAAATTCCTTTTTTTTTTTGCAAAATACGAT-GTTTTCTACTACGTAAATTTTTTTG
131 TTTTCCTTGAAATT-C--TTTTTTTTTG--AAATAC-ATAGTTTTCTACTACGTAAATTTTTTCG
*
2217 G-AGAGATTTTTCTTGATTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAA
190 GAAG-GATTTTTCTTGATTTTTAATTTTTAAAATTCAT-AAAAATTATTATTTATTTCATATTAA
* * *
2281 TTCAG-TTTTCAAAATTTATTCATTTCCATGAATTTTGAATTTTTTCCTTGCAATTCTTTTTTTT
253 TTCAGTTTTTAAAAATTCATTCATTTCCATGAATTTTGAATTTTTT-CTTGAAATTCTTTTTTTT
2345 TTTGAAATATAGAG
317 TTTGAAATATAGAG
* * * * *
2359 TTTTCTACTCCGT-AATTTTTTC-AGGAGGATTTTTCTTGGCTT-TTAATTTTTAAAATTCATCA
1 TTTTCTACTCCGTAAATATTTTCGAGCA-AATTTTTC-TCGATTGTTAATTTTTAAAATTCATCA
* * * *
2421 AATATTATTATTTATTTCATTTTAGTTCATTTTTCAAAATTTCATTCATTTCTATAAAATTTGAA
64 AATATTATTATTTATTTCATGTTAATTCATTTTTCAAAAATTCATTCATTTCCATAAAATTTGAA
*
2486 TTTTTTCCTTGAAATTCTTTTTTTTTGAAATACATAGTTTTCTACTCCGTAAATTTTTTCGGAAG
129 TTTTTTCCTTGAAATTCTTTTTTTTTGAAATACATAGTTTTCTACTACGTAAATTTTTTCGGAAG
* *
2551 GATTTTTCTTGATTTTTGATTTTTAAAATTTATAAAAATTATTATTTATTTCATATTAATTCAGT
194 GATTTTTCTTGATTTTTAATTTTTAAAATTCATAAAAATTATTATTTATTTCATATTAATTCAGT
** *** *
2616 TTTTAAAAATTCATTCATTTTTATGAATTTTGAATTTTTTCTTGAAATTC-CCCTTTTTTCGAAA
259 TTTTAAAAATTCATTCATTTCCATGAATTTTGAATTTTTTCTTGAAATTCTTTTTTTTTTTGAAA
*
2680 AACTA-AG
324 TA-TAGAG
* *
2687 TTTTCTATTCCATAAATATTTT
1 TTTTCTACTCCGTAAATATTTT
2709 TGGGGAGATT
Statistics
Matches: 315, Mismatches: 28, Indels: 21
0.87 0.08 0.06
Matches are distributed among these distances:
328 24 0.08
329 50 0.16
330 97 0.31
331 2 0.01
332 10 0.03
334 4 0.01
335 111 0.35
336 17 0.05
ACGTcount: A:0.29, C:0.11, G:0.07, T:0.53
Consensus pattern (330 bp):
TTTTCTACTCCGTAAATATTTTCGAGCAAATTTTTCTCGATTGTTAATTTTTAAAATTCATCAAA
TATTATTATTTATTTCATGTTAATTCATTTTTCAAAAATTCATTCATTTCCATAAAATTTGAATT
TTTTCCTTGAAATTCTTTTTTTTTGAAATACATAGTTTTCTACTACGTAAATTTTTTCGGAAGGA
TTTTTCTTGATTTTTAATTTTTAAAATTCATAAAAATTATTATTTATTTCATATTAATTCAGTTT
TTAAAAATTCATTCATTTCCATGAATTTTGAATTTTTTCTTGAAATTCTTTTTTTTTTTGAAATA
TAGAG
Found at i:2631 original size:164 final size:166
Alignment explanation
Indices: 2023--2709 Score: 892
Period size: 165 Copynumber: 4.1 Consensus size: 166
2013 AATTACGGGA
* * * *
2023 TTTTCTACTCCGTAAATATTTTC-GAGCAAATTTTTCTCGATTGTTAATTTTTAAAATTCATCAA
1 TTTTCTACTCCGTAAATTTTTTCGGAG--GATTTTTCTTGATTTTTAATTTTTAAAATTCATCAA
*
2087 ATATTATTATTTATTTCATGTTAATTCATTTTTCAAAAATTCATTCATTTCCATAAATTTTGAAT
64 ATATTATTATTTATTTCATATTAATTCATTTTTCAAAAATTCATTCATTTCCATAAATTTTGAAT
2152 TTTTTCCTTGAAATTCCTTTTTTTTTTTGCAAAATACGAT-G
129 TTTTTCCTTGAAATTCC-TTTTTTTTTTG--AAATAC-ATAG
* *
2193 TTTTCTACTACGTAAATTTTTTTGGAGAGATTTTTCTTGATTTTTAATTTTTAAAATTCATCAAA
1 TTTTCTACTCCGTAAATTTTTTCGGAG-GATTTTTCTTGATTTTTAATTTTTAAAATTCATCAAA
* * *
2258 TATTATTATTTATTTCATATTAATTCAGTTTTC-AAAATTTATTCATTTCCATGAATTTTGAATT
65 TATTATTATTTATTTCATATTAATTCATTTTTCAAAAATTCATTCATTTCCATAAATTTTGAATT
* * * *
2322 TTTTCCTTGCAATTCTTTTTTTTTTTGAAATATAGAG
130 TTTTCCTTGAAATTCCTTTTTTTTTTGAAATACATAG
**
2359 TTTTCTACTCCGT-AATTTTTTCAGGAGGATTTTTCTTGGCTTTTAATTTTTAAAATTCATCAAA
1 TTTTCTACTCCGTAAATTTTTTC-GGAGGATTTTTCTTGATTTTTAATTTTTAAAATTCATCAAA
* * * * *
2423 TATTATTATTTATTTCATTTTAGTTCATTTTTCAAAATTTCATTCATTTCTATAAAATTTGAATT
65 TATTATTATTTATTTCATATTAATTCATTTTTCAAAAATTCATTCATTTCCATAAATTTTGAATT
2488 TTTTCCTTGAAATT-C-TTTTTTTTTGAAATACATAG
130 TTTTCCTTGAAATTCCTTTTTTTTTTGAAATACATAG
* *
2523 TTTTCTACTCCGTAAATTTTTTCGGAAGGATTTTTCTTGATTTTTGATTTTTAAAATTTAT-AAA
1 TTTTCTACTCCGTAAATTTTTTCGG-AGGATTTTTCTTGATTTTTAATTTTTAAAATTCATCAAA
* ** *
2587 AATTATTATTTATTTCATATTAATTCAGTTTTT-AAAAATTCATTCATTTTTATGAATTTTGAAT
65 TATTATTATTTATTTCATATTAATTCA-TTTTTCAAAAATTCATTCATTTCCATAAATTTTGAAT
** * *
2651 TTTTT-CTTGAAATTCC-CCTTTTTTCGAAAAAC-TAAG
129 TTTTTCCTTGAAATTCCTTTTTTTTTTGAAATACAT-AG
* *
2687 TTTTCTATTCCATAAATATTTTT
1 TTTTCTACTCCGTAAAT-TTTTT
2710 GGGGAGATTT
Statistics
Matches: 460, Mismatches: 47, Indels: 25
0.86 0.09 0.05
Matches are distributed among these distances:
163 10 0.02
164 122 0.27
165 124 0.27
166 61 0.13
168 11 0.02
169 43 0.09
170 86 0.19
171 3 0.01
ACGTcount: A:0.29, C:0.11, G:0.07, T:0.53
Consensus pattern (166 bp):
TTTTCTACTCCGTAAATTTTTTCGGAGGATTTTTCTTGATTTTTAATTTTTAAAATTCATCAAAT
ATTATTATTTATTTCATATTAATTCATTTTTCAAAAATTCATTCATTTCCATAAATTTTGAATTT
TTTCCTTGAAATTCCTTTTTTTTTTGAAATACATAG
Found at i:2739 original size:164 final size:167
Alignment explanation
Indices: 2023--2743 Score: 853
Period size: 164 Copynumber: 4.3 Consensus size: 167
2013 AATTACGGGA
* * * *
2023 TTTTCTACTCCGTAAATATTTTCGAGCA-AATTTTTCTCGAT-TGTTAATTTTTAAAATTCATCA
1 TTTTCTACTCCGTAAATTTTTTCG-GGAGGATTTTTCTTGATCT-TTAATTTTTAAAATTCATCA
*
2086 AATATTATTATTTATTTCATGTTAATTCATTTTTCAAAAATTCATTCATTTCCATAAATTTTGAA
64 AATATTATTATTTATTTCATATTAATTCATTTTTCAAAAATTCATTCATTTCCATAAATTTTGAA
*
2151 TTTTTTCCTTGAAATTCCTTTTTTTTTTTGCAAAA-TACGATG
129 TTTTTTCCTTGAAATTCC--TTTTTTTTTGAAAAACTA-GA-G
* * *
2193 TTTTCTACTACGTAAATTTTTT-TGGAGAGATTTTTCTTGATTTTTAATTTTTAAAATTCATCAA
1 TTTTCTACTCCGTAAATTTTTTCGGGAG-GATTTTTCTTGATCTTTAATTTTTAAAATTCATCAA
* * *
2257 ATATTATTATTTATTTCATATTAATTCAGTTTTC-AAAATTTATTCATTTCCATGAATTTTGAAT
65 ATATTATTATTTATTTCATATTAATTCATTTTTCAAAAATTCATTCATTTCCATAAATTTTGAAT
* * *
2321 TTTTTCCTTGCAATTCTTTTTTTTTTTGAAATA-TAGAG
130 TTTTTCCTTGAAATTC-CTTTTTTTTTGAAAAACTAGAG
* *
2359 TTTTCTACTCCGT-AATTTTTTCAGGAGGATTTTTCTTG-GCTTTTAATTTTTAAAATTCATCAA
1 TTTTCTACTCCGTAAATTTTTTCGGGAGGATTTTTCTTGATC-TTTAATTTTTAAAATTCATCAA
* * * * *
2422 ATATTATTATTTATTTCATTTTAGTTCATTTTTCAAAATTTCATTCATTTCTATAAAATTTGAAT
65 ATATTATTATTTATTTCATATTAATTCATTTTTCAAAAATTCATTCATTTCCATAAATTTTGAAT
* *
2487 TTTTTCCTTGAAATT-CTTTTTTTTTGAAATAC-ATAG
130 TTTTTCCTTGAAATTCCTTTTTTTTTGAAAAACTAGAG
* * * *
2523 TTTTCTACTCCGTAAATTTTTTCGGAAGGATTTTTCTTGATTTTTGATTTTTAAAATTTAT-AAA
1 TTTTCTACTCCGTAAATTTTTTCGGGAGGATTTTTCTTGATCTTTAATTTTTAAAATTCATCAAA
* ** *
2587 AATTATTATTTATTTCATATTAATTCAGTTTTT-AAAAATTCATTCATTTTTATGAATTTTGAAT
66 TATTATTATTTATTTCATATTAATTCA-TTTTTCAAAAATTCATTCATTTCCATAAATTTTGAAT
** *
2651 TTTTT-CTTGAAATTCCCCTTTTTTCGAAAAACTA-AG
130 TTTTTCCTTGAAATTCCTTTTTTTTTGAAAAACTAGAG
* * * * **
2687 TTTTCTATTCCATAAATATTTTTGGGGA-GA-TTTTCTTTGGTCTAAAATTTTTAAAAT
1 TTTTCTACTCCGTAAAT-TTTTTCGGGAGGATTTTTC-TTGATCTTTAATTTTTAAAAT
2744 GCTTCTAATA
Statistics
Matches: 481, Mismatches: 55, Indels: 36
0.84 0.10 0.06
Matches are distributed among these distances:
163 14 0.03
164 138 0.29
165 126 0.26
166 56 0.12
167 2 0.00
168 17 0.04
169 43 0.09
170 84 0.17
171 1 0.00
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.52
Consensus pattern (167 bp):
TTTTCTACTCCGTAAATTTTTTCGGGAGGATTTTTCTTGATCTTTAATTTTTAAAATTCATCAAA
TATTATTATTTATTTCATATTAATTCATTTTTCAAAAATTCATTCATTTCCATAAATTTTGAATT
TTTTCCTTGAAATTCCTTTTTTTTTGAAAAACTAGAG
Found at i:2816 original size:330 final size:332
Alignment explanation
Indices: 2068--2821 Score: 836
Period size: 330 Copynumber: 2.3 Consensus size: 332
2058 CTCGATTGTT
* ** * ** * *
2068 AATTTTTAAAATTCATCAAATATTATTATTTATTTCATGTTAATTCATTTTTCAAAAA-TTCATT
1 AATTTTTAAAATGCATCAAATATTACCATTGAACTCATATTAATTCA-TTTTAAAAAATTTCATT
2132 CATTTCCATAAATTTTGAATTTTTTCCTTGAAATTCCTTTTTTTTTTTGCAAAATACGATGTTTT
65 CATTT-CATAAATTTTGAATTTTTTCCTTGAAATTCC-TTTTTTTTTTG-AAAATACGATGTTTT
* *
2197 CTACTACGTAAATTTTTTTGGAGAGATTTTTCTTGATTTTTAATTTTTAAAATTCATCAAATATT
127 CTACTACGTAAATTTTTTCGGAGAGATTTTTCTTGATTTTTAATTTTTAAAATTCATCAAAAATT
* *
2262 ATTATTTATTTCATATTAATTCAGTTTTCAAAATTTATTCATTTCCATGAATTTTGAATTTTTTC
192 ATTATTTATTTCATATTAATTCAGTTTTAAAAATTCATTCATTTCCATGAATTTTGAATTTTTTC
* *** * * *
2327 CTTGCAATTCTTTTTTTTTTTGAAATATAGAGTTTTCTACTCCGTAATTTTTTCAGGAGGATTTT
257 CTTGAAATTCTCCCTTTTTTCGAAAAATAGAGTTTTCTACTCCATAATTTTTTCAGGAGGATTTT
**
2392 TCTTGGCTTTT
322 TCTTGGCTTAA
* ** * ** * * **
2403 AATTTTTAAAATTCATCAAATATTATTATTTATTTCATTTTAGTTCATTTTTCAAAATTTCATTC
1 AATTTTTAAAATGCATCAAATATTACCATTGAACTCATATTAATTCATTTTAAAAAATTTCATTC
*
2468 ATTTCTATAAAATTTGAATTTTTTCCTTGAAATT-C-TTTTTTTTTG-AAATAC-ATAGTTTTCT
66 ATTTC-ATAAATTTTGAATTTTTTCCTTGAAATTCCTTTTTTTTTTGAAAATACGAT-GTTTTCT
* * *
2529 ACTCCGTAAATTTTTTCGGA-AGGATTTTTCTTGATTTTTGATTTTTAAAATTTAT-AAAAATTA
129 ACTACGTAAATTTTTTCGGAGA-GATTTTTCTTGATTTTTAATTTTTAAAATTCATCAAAAATTA
**
2592 TTATTTATTTCATATTAATTCAGTTTTTAAAAATTCATTCATTTTTATGAATTTTGAATTTTTT-
193 TTATTTATTTCATATTAATTCAG-TTTTAAAAATTCATTCATTTCCATGAATTTTGAATTTTTTC
* **
2656 CTTGAAATTC-CCCTTTTTTCGAAAAACTA-AGTTTTCTATTCCATAAATATTTTTGGGGA-GA-
257 CTTGAAATTCTCCCTTTTTTCGAAAAA-TAGAGTTTTCTACTCCAT-AAT-TTTTTCAGGAGGAT
2717 TTTTCTTTGG-TCTAA
319 TTTTC-TTGGCT-TAA
* * * * *
2732 AATTTTTAAAATGCTTCTAATATTGCCATTGAACTCCTATTAATTTAGTTTTGAAAAAATTTAAC
1 AATTTTTAAAATGCATCAAATATTACCATTGAACTCATATTAATTCA-TTTT-AAAAAATTT--C
*
2797 A-T-ATTTCATTAATTTTGAATTTTTT
62 ATTCATTTCATAAATTTTGAATTTTTT
2822 TGCATATATT
Statistics
Matches: 362, Mismatches: 43, Indels: 33
0.83 0.10 0.08
Matches are distributed among these distances:
328 30 0.08
329 88 0.24
330 126 0.35
331 12 0.03
332 11 0.03
333 2 0.01
334 10 0.03
335 83 0.23
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.52
Consensus pattern (332 bp):
AATTTTTAAAATGCATCAAATATTACCATTGAACTCATATTAATTCATTTTAAAAAATTTCATTC
ATTTCATAAATTTTGAATTTTTTCCTTGAAATTCCTTTTTTTTTTGAAAATACGATGTTTTCTAC
TACGTAAATTTTTTCGGAGAGATTTTTCTTGATTTTTAATTTTTAAAATTCATCAAAAATTATTA
TTTATTTCATATTAATTCAGTTTTAAAAATTCATTCATTTCCATGAATTTTGAATTTTTTCCTTG
AAATTCTCCCTTTTTTCGAAAAATAGAGTTTTCTACTCCATAATTTTTTCAGGAGGATTTTTCTT
GGCTTAA
Found at i:3294 original size:15 final size:16
Alignment explanation
Indices: 3263--3299 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
3253 AGTTCAGCTG
3263 AAAGAAGAGACAGAAA
1 AAAGAAGAGACAGAAA
3279 AAAGAGAGAGA-A-AAA
1 AAAGA-AGAGACAGAAA
3294 AAAGAA
1 AAAGAA
3300 AAATAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 1 0.05
15 8 0.40
16 6 0.30
17 5 0.25
ACGTcount: A:0.73, C:0.03, G:0.24, T:0.00
Consensus pattern (16 bp):
AAAGAAGAGACAGAAA
Found at i:3982 original size:33 final size:32
Alignment explanation
Indices: 3924--3985 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
3914 GCCAAACTTG
* **
3924 TATCGATACACAAAGTATGTATCGATACAATA
1 TATCAATACACAAAAAATGTATCGATACAATA
3956 TATCAATACACAAAAAATTGTATCGATACA
1 TATCAATACACAAAAAA-TGTATCGATACA
3986 TTGGCTTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 14 0.54
33 12 0.46
ACGTcount: A:0.47, C:0.16, G:0.10, T:0.27
Consensus pattern (32 bp):
TATCAATACACAAAAAATGTATCGATACAATA
Found at i:10098 original size:20 final size:20
Alignment explanation
Indices: 10072--10151 Score: 61
Period size: 20 Copynumber: 3.8 Consensus size: 20
10062 AATGTCCAAA
10072 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATGTTTCT
* * * *
10092 GTGTATCAATACATATGGAAATTCA
1 ATGTATCGATAC--AT-G--TTTCT
*
10117 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATGTTTCT
*
10137 TTGTATCGATACATG
1 ATGTATCGATACATG
10152 GTATCGATAC
Statistics
Matches: 44, Mismatches: 11, Indels: 10
0.68 0.17 0.15
Matches are distributed among these distances:
20 26 0.59
22 2 0.05
23 3 0.07
25 13 0.30
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATGTTTCT
Found at i:10157 original size:13 final size:13
Alignment explanation
Indices: 10138--10175 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
10128 CATTTTTCTT
10138 TGTATCGATACA-
1 TGTATCGATACAC
10150 TGGTATCGATACAC
1 T-GTATCGATACAC
10164 TGTATCGATACA
1 TGTATCGATACA
10176 AGGGGATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 1 0.04
13 22 0.92
14 1 0.04
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:12779 original size:13 final size:13
Alignment explanation
Indices: 12761--12786 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12751 TACACAAAGT
12761 ATGTATCGATACA
1 ATGTATCGATACA
12774 ATGTATCGATACA
1 ATGTATCGATACA
12787 CAAAAAATTG
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:12784 original size:32 final size:33
Alignment explanation
Indices: 12743--12806 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
12733 TAGCCAAACT
**
12743 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
12775 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
12807 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:14509 original size:154 final size:157
Alignment explanation
Indices: 14262--14583 Score: 440
Period size: 154 Copynumber: 2.1 Consensus size: 157
14252 GAGGTAAAAT
* * * *
14262 TAAA-TTTAATTATTTTTTCTAATCTTTTATATTCCTATGGGCATCTGTGGAGTTATAAAAGATT
1 TAAATTTTAATTATTTTTTCTAATATTTTATATTCCTATGAGCATCTATGGAGGTATAAAAGATT
* *
14326 TTAAAAACATTTCGTATCCTTTCGAGCTTCTATTAAGGTACAAAATGGTATTTTCGAAAT-A-AA
66 TTAAAAACATTTCGTATCCTTTCGAGCTTCCATTAAGGTACAAAATGGTATTTTCAAAATAATAA
* *
14389 AATTAAATTGAATTAATGCTTTCGG-GA
131 AATTAAATGGAATTAATACTTT-GGAGA
*
14416 TAAATTTTAATTATTTTTTCTAATATTTTATATTCCTATGAGCATCTATGG-GGTATAAAAGGTT
1 TAAATTTTAATTATTTTTTCTAATATTTTATATTCCTATGAGCATCTATGGAGGTATAAAAGATT
* * * * *
14480 TTAAAAACATTTTGTATCC-TTCTGGGCTTCCATTAGGGTACGAAATGGTATTTTTAAAATAAAT
66 TTAAAAACATTTCGTATCCTTTC-GAGCTTCCATTAAGGTACAAAATGGTATTTTCAAAAT-AAT
14544 AAAATTAAATGGAATTAATACTTTGGAGA
129 AAAATTAAATGGAATTAATACTTTGGAGA
*
14573 AAAATTTTAAT
1 TAAATTTTAAT
14584 CTTTTATATT
Statistics
Matches: 147, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
153 3 0.02
154 64 0.44
155 43 0.29
156 3 0.02
157 34 0.23
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.42
Consensus pattern (157 bp):
TAAATTTTAATTATTTTTTCTAATATTTTATATTCCTATGAGCATCTATGGAGGTATAAAAGATT
TTAAAAACATTTCGTATCCTTTCGAGCTTCCATTAAGGTACAAAATGGTATTTTCAAAATAATAA
AATTAAATGGAATTAATACTTTGGAGA
Found at i:17903 original size:30 final size:30
Alignment explanation
Indices: 17869--17938 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
17859 ATTTTTATAT
* *
17869 AAATTAAAAGTCAAAAATTGATTTAATTAC
1 AAATTAAAAATCAAAAATTGATTTAAATAC
* *
17899 AAATTAAAAATTAAAAATTTATTTAAATAC
1 AAATTAAAAATCAAAAATTGATTTAAATAC
17929 AAATTAAAAA
1 AAATTAAAAA
17939 ATAAAATTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (30 bp):
AAATTAAAAATCAAAAATTGATTTAAATAC
Found at i:18206 original size:8 final size:8
Alignment explanation
Indices: 18193--18219 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
18183 ATAATTTACA
18193 TTTATATT
1 TTTATATT
18201 TTTATATT
1 TTTATATT
18209 TTTATATT
1 TTTATATT
18217 TTT
1 TTT
18220 TACATATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTATATT
Found at i:18229 original size:16 final size:15
Alignment explanation
Indices: 18187--18230 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
18177 GATCCAATAA
18187 TTTACATTTATATTT
1 TTTACATTTATATTT
**
18202 TTATATTTTTATATTT
1 TT-TACATTTATATTT
18218 TTTACATATTATA
1 TTTACAT-TTATA
18231 ATTATATCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTACATTTATATTT
Found at i:18717 original size:2 final size:2
Alignment explanation
Indices: 18712--18739 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18702 ATAAAAGCAA
18712 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18740 TGTTTCATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18717 original size:16 final size:17
Alignment explanation
Indices: 18688--18720 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
18678 AAAAAAAATC
18688 AAAGACAAACATATATA
1 AAAGACAAACATATATA
*
18705 AAAG-CAAATATATATA
1 AAAGACAAACATATATA
18721 TATATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.64, C:0.09, G:0.06, T:0.21
Consensus pattern (17 bp):
AAAGACAAACATATATA
Found at i:25009 original size:50 final size:50
Alignment explanation
Indices: 24950--25082 Score: 167
Period size: 50 Copynumber: 2.7 Consensus size: 50
24940 CCATAATTTG
* * ***
24950 TATCGATACATCCTTTATTGTATCGATACATTTTGGGTTTTACCCAGATA
1 TATCGATACATCCTTCATTGTATCGATACATTCTGGGTAAAACCCAGATA
*
25000 TATCGATACATCCTTCATTGTATCGATACATTCTGGGTAAAACCCAGATG
1 TATCGATACATCCTTCATTGTATCGATACATTCTGGGTAAAACCCAGATA
* ** * *
25050 TATTGATACATTTTTCAATGTACCGATACATTC
1 TATCGATACATCCTTCATTGTATCGATACATTC
25083 AGGCATTTTT
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 72 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.38
Consensus pattern (50 bp):
TATCGATACATCCTTCATTGTATCGATACATTCTGGGTAAAACCCAGATA
Found at i:27488 original size:51 final size:51
Alignment explanation
Indices: 27433--27580 Score: 208
Period size: 51 Copynumber: 2.9 Consensus size: 51
27423 TCATTCATGT
* * *
27433 TTTTATTTCTAAAATACTGATTTTTCACTATCGGGGATACTTCAACCCCGG
1 TTTTATTTCTAAAATACTGATTTTTCACAATCGGGGATACTCCAACCCCAG
* **
27484 TTTTATTT-TCAAATCACTGATTTTTCACAATCGAAGATACTCCAACCCCAG
1 TTTTATTTCTAAAAT-ACTGATTTTTCACAATCGGGGATACTCCAACCCCAG
* *
27535 TTTTATTTCCAAAATACTGATTTTTCACAATCGGGGATATTCCAAC
1 TTTTATTTCTAAAATACTGATTTTTCACAATCGGGGATACTCCAAC
27581 TCCGTTATTT
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
50 5 0.06
51 75 0.89
52 4 0.05
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (51 bp):
TTTTATTTCTAAAATACTGATTTTTCACAATCGGGGATACTCCAACCCCAG
Found at i:27651 original size:79 final size:78
Alignment explanation
Indices: 27519--27926 Score: 480
Period size: 79 Copynumber: 5.2 Consensus size: 78
27509 CACAATCGAA
* ** * * *
27519 GATACTCCAACCCCAGTTTTATTTCCAAAATACTGATTTTTCACAATCGGGGATATTCCAACTCC
1 GATACTCCAACCCCAGCTTTATTTTTAAAACATTGATTTTTCACAATCGGGGATACTCCAAC-CC
27584 GTTATTTCTGAGGG
65 GTTATTTCTGAGGG
*
27598 AATACTCCAACCCCAGCTTTATTTTTAAAACATTGATTTTTCACAATCGGGGATACTCCAACCCC
1 GATACTCCAACCCCAGCTTTATTTTTAAAACATTGATTTTTCACAATCGGGGATACTCCAA-CCC
27663 GTTATTTCTGAGGG
65 GTTATTTCTGAGGG
* * * ** *
27677 GATACTCCAACCTCGGCTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCT
1 GATACTCCAACCCCAGCTTTATTTTTAAAACATTGATTTTTCACAATCGGGGATACTCCAACCC-
* *
27742 GTTATTTTTGAGAG
65 GTTATTTCTGAGGG
* * * * *
27756 GATATTCCAACCCCCA-CTTTATTTTTAAAACATTAATTTTCCATAATCGGGGATACTCCAATGC
1 GATACTCCAA-CCCCAGCTTTATTTTTAAAACATTGATTTTTCACAATCGGGGATACTCCAA-CC
27820 CGTTATTT-TCGAGGG
64 CGTTATTTCT-GAGGG
* * * * * *
27835 GATACTCTAACCCC-GATTTTATTTTCAAAACATCGATTTTTCACCATCGGGGATACTCTAACCT
1 GATACTCCAACCCCAG-CTTTATTTTTAAAACATTGATTTTTCACAATCGGGGATACTCCAACC-
*
27899 CGTCATTTCTGAGGG
64 CGTTATTTCTGAGGG
27914 GATACTCCAACCC
1 GATACTCCAACCC
27927 TGTTTTTATC
Statistics
Matches: 283, Mismatches: 37, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
78 9 0.03
79 267 0.94
80 7 0.02
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (78 bp):
GATACTCCAACCCCAGCTTTATTTTTAAAACATTGATTTTTCACAATCGGGGATACTCCAACCCG
TTATTTCTGAGGG
Found at i:32576 original size:52 final size:51
Alignment explanation
Indices: 32491--32614 Score: 212
Period size: 52 Copynumber: 2.4 Consensus size: 51
32481 ATATGAAAAG
* *
32491 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
*
32542 TTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
32594 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
32615 AAGATCAATG
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 21 0.30
52 48 0.70
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:32625 original size:51 final size:52
Alignment explanation
Indices: 32491--32634 Score: 195
Period size: 52 Copynumber: 2.8 Consensus size: 52
32481 ATATGAAAAG
* * *
32491 TTGCTTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TAAGATAATGTATCGATACATCTGGGCAAAT
***
32543 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACATAAGATAATGTATCGATACATCTGGGCAAAT
32594 TTGCCTGCATGTATCGATACA-AAGATCAATGTATCGATACA
1 TTGCCTGCATGTATCGATACATAAGAT-AATGTATCGATACA
32635 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
50 2 0.02
51 37 0.44
52 45 0.54
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATAAGATAATGTATCGATACATCTGGGCAAAT
Found at i:32638 original size:13 final size:13
Alignment explanation
Indices: 32620--32647 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
32610 ATACAAAGAT
32620 CAATGTATCGATA
1 CAATGTATCGATA
32633 CAATGTATCGATA
1 CAATGTATCGATA
32646 CA
1 CA
32648 TTTGAGTAAT
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:32725 original size:33 final size:33
Alignment explanation
Indices: 32688--32754 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
32678 AGTAGCTTAA
32688 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
32721 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
32754 A
1 A
32755 AATCGTTGAA
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:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:32728 original size:13 final size:13
Alignment explanation
Indices: 32710--32734 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32700 CAAAAAAATA
32710 TGTATCGATACAT
1 TGTATCGATACAT
32723 TGTATCGATACA
1 TGTATCGATACA
32735 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:35414 original size:17 final size:18
Alignment explanation
Indices: 35392--35433 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
35382 CCATTATTTT
35392 AAAAATT-TTAAAA-ATAA
1 AAAAATTATTAAAACA-AA
35409 AAAAATTGATTAAAACAAA
1 AAAAATT-ATTAAAACAAA
35428 AAAAAT
1 AAAAAT
35434 AATATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.32
19 14 0.64
20 1 0.05
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (18 bp):
AAAAATTATTAAAACAAA
Found at i:35686 original size:20 final size:20
Alignment explanation
Indices: 35661--35698 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
35651 ATATAATTGA
35661 ATTTAAAATAAATTTAAAGT
1 ATTTAAAATAAATTTAAAGT
* *
35681 ATTTAACATGAATTTAAA
1 ATTTAAAATAAATTTAAA
35699 TTAAAATCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (20 bp):
ATTTAAAATAAATTTAAAGT
Found at i:36359 original size:22 final size:22
Alignment explanation
Indices: 36323--36377 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
36313 TTTTAGAAAT
* *
36323 GATCGATCCTCCATGAGTGAAG
1 GATCGATCCTCCATGAATAAAG
36345 GATCGATCC-CTCATGAATAAAG
1 GATCGATCCTC-CATGAATAAAG
36367 GAT-GAGTCCTC
1 GATCGA-TCCTC
36378 TTGAGCATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 3 0.11
22 24 0.86
23 1 0.04
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (22 bp):
GATCGATCCTCCATGAATAAAG
Found at i:36606 original size:21 final size:21
Alignment explanation
Indices: 36565--36606 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
36555 TTCCATATCA
* *
36565 TTTTCACTTATCCAAATCTTC
1 TTTTCACTCATCCAAACCTTC
36586 TTTTCA-TCATCCAATACCTTC
1 TTTTCACTCATCCAA-ACCTTC
36607 CAACACCACC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.24, C:0.31, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTTCACTCATCCAAACCTTC
Found at i:44276 original size:155 final size:154
Alignment explanation
Indices: 44152--45222 Score: 1066
Period size: 155 Copynumber: 6.9 Consensus size: 154
44142 AGGGATGAAT
*
44152 TATCCTAAAGACCTACATTTGGCATAAAAGCAGACCCGGTGATAACCTAGGACTCGATTCTGAAA
1 TATCCTAAAGATCTACATTTGGCATAAAAGCAGACCCGGTGATAACCTAGGACTCGATTCT-AAA
* * * * * * *
44217 AAAAATACTAAAATGTCCCTAGGGGTACCTTCGACGTAAAAGTACCTAGA-AATCCTAAAGAACT
65 AAAATTACGAAAAT-ACCCTAGGGATACCTTTGACGTAAAAGTACCTAGATAACCCTAAAGGACT
* * * * **
44281 TAAAAAGGATTAGAAAAGGGATGAACC
129 T-AAAAGGATAATAGATGAAATGAACC
* * *
44308 TATCCTAAAG-TCCCACCTTCGGCATAAAAGCAGACCCGGTGATAACCTAGGACTCGATTCTAAA
1 TATCCTAAAGAT-CTACATTTGGCATAAAAGCAGACCCGGTGATAACCTAGGACTCGATTCTAAA
* *
44372 AAAATTACGAAAATGTCTCTAGGGGATACCTTTGACGTAAAAGTACCT-GAT-ACACCTAAAGGA
65 AAAATTACGAAAAT-ACCCTA-GGGATACCTTTGACGTAAAAGTACCTAGATAAC-CCTAAAGGA
44435 CTTAAAAGGATAATAGATGAAATGAACC
127 CTTAAAAGGATAATAGATGAAATGAACC
* * * * *
44463 TATCCTAAATATCTAC-TTTCGGCATAAAAGCGGACTCGGTGACAACCTAGGACTCGGTTCTAAA
1 TATCCTAAAGATCTACATTT-GGCATAAAAGCAGACCCGGTGATAACCTAGGACTCGATTCTAAA
* * *
44527 AAAATTACAAAAATACCCTTAAGGGATACCTTTGACGTAAAAATACC-CGAT-ACCCTTAAAGGA
65 AAAATTACGAAAATACCC-T-AGGGATACCTTTGACGTAAAAGTACCTAGATAACCC-TAAAGGA
44590 CTTAAAAGGATAATAGATGAAATGAACC
127 CTTAAAAGGATAATAGATGAAATGAACC
* * * ** * * * *
44618 TATCCTAAATATCTACCTTCGGCATAAAAGTGGACCCGGTGACAACCTAAGACTCGATTTTAATA
1 TATCCTAAAGATCTACATTTGGCATAAAAGCAGACCCGGTGATAACCTAGGACTCGATTCTAAAA
* * * * *
44683 AAATTACGAAAATACCTTTAGAAGATAACTTTGACGTAAAAGTA-CTCGATACCCCTAAAGGACT
66 AAATTACGAAAATACC-CTAG-GGATACCTTTGACGTAAAAGTACCTAGATAACCCTAAAGGACT
* *
44747 TAAAAGGATAATAGATGAAATAAACT
129 TAAAAGGATAATAGATGAAATGAACC
* * * * *
44773 TATCCTAAACATCTA-ATTTCGGCATAAAAGCACACCCAGTGATAACCTAGGACTTGGTTCT-AA
1 TATCCTAAAGATCTACATTT-GGCATAAAAGCAGACCCGGTGATAACCTAGGACTCGATTCTAAA
* *
44836 AAAATTACGAAAATACCCTAAGGGATACCTTTGACGTAAAAGTACCTA-ATACCCCTAAAAGACT
65 AAAATTACGAAAATACCCT-AGGGATACCTTTGACGTAAAAGTACCTAGATAACCCTAAAGGACT
*
44900 TAAAAAAGATAATAGATGAAATGAACC
129 T-AAAAGGATAATAGATGAAATGAACC
* * ** * * * * * * **
44927 TATCCTAAACATCTACCTTCAGCATAAAAG-TGCACCCAGTGACAGCCTAGGACTTGGTT-TTGA
1 TATCCTAAAGATCTACATTTGGCATAAAAGCAG-ACCCGGTGATAACCTAGGACTCGATTCTAAA
* * * * * *
44990 AAAATTATGAAAATGTCCTTAGGGGATACCTTTGACGTAAAAGTACC-CGGT-ACCGTTAAAGGA
65 AAAATTACGAAAAT-ACCCTA-GGGATACCTTTGACGTAAAAGTACCTAGATAACC-CTAAAGGA
*
45053 CTTAAAAAAGATAATAGATGAAATGAACC
127 CTT-AAAAGGATAATAGATGAAATGAACC
* * * ***
45082 TATCCTAAATATCTACCTTTGGAATAAAAGC-GAACCCAACGATAACCTAGGACTC-AGTTCT-A
1 TATCCTAAAGATCTACATTTGGCATAAAAGCAG-ACCCGGTGATAACCTAGGACTCGA-TTCTAA
*
45144 AAAAATTACGAAAATTCCTCTAGGAGATACCTTTGACGTAAAAGTACC-AGAT-ACGCCTAAAGG
64 AAAAATTACGAAAATACC-CTAGG-GATACCTTTGACGTAAAAGTACCTAGATAAC-CCTAAAGG
45207 ACTTAAAAAGGATAAT
126 ACTT-AAAAGGATAAT
45223 GCTACAAAAC
Statistics
Matches: 785, Mismatches: 98, Indels: 65
0.83 0.10 0.07
Matches are distributed among these distances:
153 38 0.05
154 125 0.16
155 522 0.66
156 100 0.13
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (154 bp):
TATCCTAAAGATCTACATTTGGCATAAAAGCAGACCCGGTGATAACCTAGGACTCGATTCTAAAA
AAATTACGAAAATACCCTAGGGATACCTTTGACGTAAAAGTACCTAGATAACCCTAAAGGACTTA
AAAGGATAATAGATGAAATGAACC
Found at i:45070 original size:309 final size:306
Alignment explanation
Indices: 44061--45222 Score: 1299
Period size: 310 Copynumber: 3.8 Consensus size: 306
44051 TAAGTTCAAG
* * * * * *
44061 AAAATTACGAAAATGTCCATAGGGGATACCTTTCACATAAAAGTACCCAATGCCCATAAAGGACC
1 AAAATTACGAAAATGTCCTTAGGGGATACCTTTGACGTAAAAGTACCCGATACCC-TAAAGGACT
* ** * * ** * * * *
44126 AAAATAGGATTTTAAAAGGGATGAA-TTATCCTAAAGACCTACATTTGGCATAAAAGCAGACCCG
65 TAAA-AGGATAATAGATGAAATGAACCTATCCTAAATATCTACATTTGGCATAAAAGCAGACCCA
* * * * * *
44190 GTGATAACCTAGGACTCGATTCTGAAAAAAAATACTAAAATGTCCCTAGGGGTACCTTCGACGTA
129 GTGATAACCTAGGACTCGGTTCT-AAAAAAATTACGAAAAT-ACCCTAGGGATACCTTTGACGTA
** * * * * ** *
44255 AAAGTACCTAGA-AATCCT-AAAGAACTTAAAAAGGATTAGAAAAGGGATGAACCTATCCTAAAG
192 AAAGTACCTAGATACCCCTAAAAG-ACTTAAAAAGGATAATAGATGAAATGAACCTATCCTAAAA
* * * *
44318 TCCCACCTTCGGCATAAAAGCAGACCCGGTGATAACCTAGGACTCGATTCTAAA
256 T-CTACCTTCGGCATAAAAG-TGACCCGGTGACAACCTAGGACTCGATT-TTAA
*
44372 AAAATTACGAAAATGT-CTCTAGGGGATACCTTTGACGTAAAAGTACCTGATACACCTAAAGGAC
1 AAAATTACGAAAATGTCCT-TAGGGGATACCTTTGACGTAAAAGTACCCGATAC-CCTAAAGGAC
* *
44436 TTAAAAGGATAATAGATGAAATGAACCTATCCTAAATATCTAC-TTTCGGCATAAAAGCGGACTC
64 TTAAAAGGATAATAGATGAAATGAACCTATCCTAAATATCTACATTT-GGCATAAAAGCAGACCC
* * *
44500 GGTGACAACCTAGGACTCGGTTCTAAAAAAATTACAAAAATACCCTTAAGGGATACCTTTGACGT
128 AGTGATAACCTAGGACTCGGTTCTAAAAAAATTACGAAAATACCC-T-AGGGATACCTTTGACGT
* * * *
44565 AAAAATACC-CGATACCCTTAAAGGACTT-AAAAGGATAATAGATGAAATGAACCTATCCTAAAT
191 AAAAGTACCTAGATACCCCTAAAAGACTTAAAAAGGATAATAGATGAAATGAACCTATCCTAAA-
*
44628 ATCTACCTTCGGCATAAAAGTGGACCCGGTGACAACCTAAGACTCGATTTTAA
255 ATCTACCTTCGGCATAAAAGT-GACCCGGTGACAACCTAGGACTCGATTTTAA
* ** * *
44681 TAAAATTACGAAAAT-ACCTTTAGAAGATAACTTTGACGTAAAAGTACTCGATACCCCTAAAGGA
1 -AAAATTACGAAAATGTCC-TTAGGGGATACCTTTGACGTAAAAGTACCCGATA-CCCTAAAGGA
* * * *
44745 CTTAAAAGGATAATAGATGAAATAAACTTATCCTAAACATCTA-ATTTCGGCATAAAAGCACACC
63 CTTAAAAGGATAATAGATGAAATGAACCTATCCTAAATATCTACATTT-GGCATAAAAGCAGACC
*
44809 CAGTGATAACCTAGGACTTGGTTCT-AAAAAATTACGAAAATACCCTAAGGGATACCTTTGACGT
127 CAGTGATAACCTAGGACTCGGTTCTAAAAAAATTACGAAAATACCCT-AGGGATACCTTTGACGT
*
44873 AAAAGTACCTA-ATACCCCTAAAAGACTTAAAAAAGATAATAGATGAAATGAACCTATCCTAAAC
191 AAAAGTACCTAGATACCCCTAAAAGACTTAAAAAGGATAATAGATGAAATGAACCTATCCTAAA-
* * * * * *
44937 ATCTACCTTCAGCATAAAAGTGCACCCAGTGACAGCCTAGGACTTGGTTTTGA
255 ATCTACCTTCGGCATAAAAGTG-ACCCGGTGACAACCTAGGACTCGATTTTAA
* * *
44990 AAAATTATGAAAATGTCCTTAGGGGATACCTTTGACGTAAAAGTACCCGGTACCGTTAAAGGACT
1 AAAATTACGAAAATGTCCTTAGGGGATACCTTTGACGTAAAAGTACCCGATACC-CTAAAGGACT
* * *
45055 TAAAAAAGATAATAGATGAAATGAACCTATCCTAAATATCTACCTTTGGAATAAAAGC-GAACCC
65 T-AAAAGGATAATAGATGAAATGAACCTATCCTAAATATCTACATTTGGCATAAAAGCAG-ACCC
** * *
45119 AACGATAACCTAGGACTCAGTTCT-AAAAAATTACGAAAATTCCTCTAGGAGATACCTTTGACGT
128 AGTGATAACCTAGGACTCGGTTCTAAAAAAATTACGAAAATACC-CTAGG-GATACCTTTGACGT
* *
45183 AAAAGTACC-AGATACGCCTAAAGGACTTAAAAAGGATAAT
191 AAAAGTACCTAGATACCCCTAAAAGACTTAAAAAGGATAAT
45223 GCTACAAAAC
Statistics
Matches: 729, Mismatches: 96, Indels: 53
0.83 0.11 0.06
Matches are distributed among these distances:
307 2 0.00
308 95 0.13
309 196 0.27
310 291 0.40
311 140 0.19
312 5 0.01
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.24
Consensus pattern (306 bp):
AAAATTACGAAAATGTCCTTAGGGGATACCTTTGACGTAAAAGTACCCGATACCCTAAAGGACTT
AAAAGGATAATAGATGAAATGAACCTATCCTAAATATCTACATTTGGCATAAAAGCAGACCCAGT
GATAACCTAGGACTCGGTTCTAAAAAAATTACGAAAATACCCTAGGGATACCTTTGACGTAAAAG
TACCTAGATACCCCTAAAAGACTTAAAAAGGATAATAGATGAAATGAACCTATCCTAAAATCTAC
CTTCGGCATAAAAGTGACCCGGTGACAACCTAGGACTCGATTTTAA
Found at i:45671 original size:14 final size:15
Alignment explanation
Indices: 45645--45676 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
45635 TACGAAAGTA
45645 TTTATTTTAATTTAT
1 TTTATTTTAATTTAT
45660 TTTATTTT-ATTTAT
1 TTTATTTTAATTTAT
45674 TTT
1 TTT
45677 CAAAAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTATTTTAATTTAT
Found at i:46727 original size:13 final size:13
Alignment explanation
Indices: 46709--46734 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46699 GGATTATTCC
46709 TTTTTTCTCTCTT
1 TTTTTTCTCTCTT
46722 TTTTTTCTCTCTT
1 TTTTTTCTCTCTT
46735 CTTTGTTGGT
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:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTTCTCTCTT
Found at i:47024 original size:25 final size:25
Alignment explanation
Indices: 46966--47031 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
46956 CTTTTCTGTT
*
46966 TGCTGTTGTTTCTTCCTCCATTAAC
1 TGCTATTGTTTCTTCCTCCATTAAC
* * **
46991 TACTATTGTTTCTTCTTCCATTTGC
1 TGCTATTGTTTCTTCCTCCATTAAC
*
47016 TGCTCTTGTGTTCTTC
1 TGCTATTGT-TTCTTC
47032 ATTTTGCTGC
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
25 27 0.82
26 6 0.18
ACGTcount: A:0.09, C:0.26, G:0.12, T:0.53
Consensus pattern (25 bp):
TGCTATTGTTTCTTCCTCCATTAAC
Found at i:47037 original size:23 final size:23
Alignment explanation
Indices: 47003--47063 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
46993 CTATTGTTTC
**
47003 TTCTTCCA-TTTGCTGCTCTTGTG
1 TTCTT-CATTTTGCTGCTAGTGTG
47026 TTCTTCATTTTGCTGCTAGTGTG
1 TTCTTCATTTTGCTGCTAGTGTG
*
47049 GTCTTCATTTTGCTG
1 TTCTTCATTTTGCTG
47064 TTTTTTCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 2 0.06
23 32 0.94
ACGTcount: A:0.07, C:0.21, G:0.20, T:0.52
Consensus pattern (23 bp):
TTCTTCATTTTGCTGCTAGTGTG
Found at i:47079 original size:12 final size:11
Alignment explanation
Indices: 47062--47097 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 11
47052 TTCATTTTGC
47062 TGTTTTTTCTTT
1 TGTTTTTT-TTT
47074 TGTTTTTGTTTT
1 TGTTTTT-TTTT
47086 TGTTTTTTTTT
1 TGTTTTTTTTT
47097 T
1 T
47098 CACGTCTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.22
12 17 0.74
13 1 0.04
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.86
Consensus pattern (11 bp):
TGTTTTTTTTT
Found at i:48354 original size:79 final size:78
Alignment explanation
Indices: 48269--48520 Score: 308
Period size: 79 Copynumber: 3.2 Consensus size: 78
48259 ACAACGAGGC
* * * *
48269 TGGAGTATCCCCGATTATGAAAAATCGGTGTTATGGAAATAAAATCGGGGTTGGAGTATCCCCTC
1 TGGAGTATCCCCGATTATGAAAAATCGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTC
48334 GAAAATAACAGGGT
66 GAAAATAAC-GGGT
** *
48348 TGGAGTATCCTTGATTAT-AGAAAATCGATATTTTAAAAATAAAATCGGGGTTGGAGTATCCCCT
1 TGGAGTATCCCCGATTATGA-AAAATCGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCT
48412 CGAAAATAACGGGGT
65 CGAAAATAAC-GGGT
* * * * ** **
48427 TAGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCAAGGTTGGAGTATCCCCTC
1 TGGAGTATCCCCGATTATGAAAAATCGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTC
*
48492 GAAAATAGCGAGGT
66 GAAAATAACG-GGT
*
48506 TGGAATATCCCCGAT
1 TGGAGTATCCCCGAT
48521 GAAACAACGG
Statistics
Matches: 148, Mismatches: 22, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
78 2 0.01
79 145 0.98
80 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (78 bp):
TGGAGTATCCCCGATTATGAAAAATCGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTC
GAAAATAACGGGT
Found at i:48488 original size:51 final size:51
Alignment explanation
Indices: 48424--48651 Score: 135
Period size: 51 Copynumber: 4.4 Consensus size: 51
48414 AAAATAACGG
*
48424 GGTTAGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCAA
1 GGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCAA
* * ** * ****
48475 GGTTGGAGTATCCCCTCGAAAATAGCGAG-GTTGGAATATCCCCG--ATGAAA--CAA
1 GGTTGGAGTAT-CCC-CG---ATTGTGAGAAAT-CAATATTTTAGAAAT-AAAGCCAA
* **
48528 CGGGATTGGAGTATCCCCGATTGTGAGAAATCGATGA-TTTAGAAATAAAGCCGG
1 --GG-TTGGAGTATCCCCGATTGTGAGAAATCAAT-ATTTTAGAAATAAAGCCAA
* * * * **
48582 GGTTGAAGTATCCCTGATTGTGAGAAATTAATATTTTGGAAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCAA
*
48633 GGTTGGAGTATCCCTGATT
1 GGTTGGAGTATCCCCGATT
48652 ATGGAAAATT
Statistics
Matches: 132, Mismatches: 28, Indels: 34
0.68 0.14 0.18
Matches are distributed among these distances:
50 1 0.01
51 79 0.60
52 10 0.08
53 7 0.05
54 5 0.04
55 9 0.07
56 21 0.16
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCAA
Found at i:48507 original size:107 final size:106
Alignment explanation
Indices: 48396--48595 Score: 278
Period size: 107 Copynumber: 1.9 Consensus size: 106
48386 ATAAAATCGG
* * *
48396 GGTTGGAGTATCCCCTCGA-AAATAACGGGGTTAGAGTATCCCCGATTGTGAGAAATCAAT-ATT
1 GGTTGGAATAT-CCC-CGAGAAACAACGGGATTAGAGTATCCCCGATTGTGAGAAATCAATGA-T
*
48459 TTAGAAATAAAGCCAAGGTTGGAGTATCCCCTCGAAAATAGCGA
63 TTAGAAATAAAGCCAAGGTTGAAGTATCCCCTCGAAAATAGCGA
* *
48503 GGTTGGAATATCCCCGATGAAACAACGGGATTGGAGTATCCCCGATTGTGAGAAATCGATGATTT
1 GGTTGGAATATCCCCGA-GAAACAACGGGATTAGAGTATCCCCGATTGTGAGAAATCAATGATTT
**
48568 AGAAATAAAGCCGGGGTTGAAGTATCCC
65 AGAAATAAAGCCAAGGTTGAAGTATCCC
48596 TGATTGTGAG
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
105 3 0.04
106 3 0.04
107 75 0.91
108 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (106 bp):
GGTTGGAATATCCCCGAGAAACAACGGGATTAGAGTATCCCCGATTGTGAGAAATCAATGATTTA
GAAATAAAGCCAAGGTTGAAGTATCCCCTCGAAAATAGCGA
Found at i:48661 original size:51 final size:51
Alignment explanation
Indices: 48528--48697 Score: 182
Period size: 51 Copynumber: 3.3 Consensus size: 51
48518 GATGAAACAA
* * * **
48528 CGGGATTGGAGTATCCCCGATTGTGAGAAATCGATGA-TTTAGAAATAAAGC
1 CGGGGTTGGAGTATCCCTGATTATGAGAAATTAAT-ACTTTAGAAATAAAGC
* * * *
48579 CGGGGTTGAAGTATCCCTGATTGTGAGAAATTAATATTTTGGAAATAAAGC
1 CGGGGTTGGAGTATCCCTGATTATGAGAAATTAATACTTTAGAAATAAAGC
* * * *
48630 CGGGGTTGGAGTATCCCTGATTATG-GAAAATTGATGCTTTAGAAATAAGGT
1 CGGGGTTGGAGTATCCCTGATTATGAG-AAATTAATACTTTAGAAATAAAGC
*
48681 CGGGGTTGGCGTATCCC
1 CGGGGTTGGAGTATCCC
48698 CGTGAAAATA
Statistics
Matches: 102, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
50 2 0.02
51 100 0.98
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCTGATTATGAGAAATTAATACTTTAGAAATAAAGC
Found at i:48823 original size:28 final size:28
Alignment explanation
Indices: 48759--48832 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
48749 AGGAATAAAG
*
48759 CCGGGGTTGGAGTATCCCTTTCAAAAATA
1 CCGGGGTTGGAGTATCCCTAT-AAAAATA
*
48788 CCGGGGTTGGAGTATCCCTGAT-GAAATA
1 CCGGGGTTGGAGTATCCCT-ATAAAAATA
*
48816 TCGGGGTTGGAGTATCC
1 CCGGGGTTGGAGTATCC
48833 TCGATTGTGA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
28 21 0.51
29 19 0.46
30 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (28 bp):
CCGGGGTTGGAGTATCCCTATAAAAATA
Found at i:48883 original size:51 final size:51
Alignment explanation
Indices: 48815--48983 Score: 200
Period size: 50 Copynumber: 3.4 Consensus size: 51
48805 CTGATGAAAT
* ** *
48815 ATCGGGGTTGGAGTATCCTCGATTGTGAAATTTTGGTGTTTTGGAAATAAA
1 ATCGGAGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTAGAAATAAA
* * * *
48866 ATCGGAGTTAGAGTATCCCCGATTATGAAAAATTGGTGTTTTCGAAAT-AA
1 ATCGGAGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTAGAAATAAA
* * *
48916 ATCAGAGTTGGAGTATCTTCGATTGTGAAAAATTGATGTTTTAGAAA-AAA
1 ATCGGAGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTAGAAATAAA
*
48966 AT-TGAGGTTGGAGTATCC
1 ATCGGA-GTTGGAGTATCC
48984 CTGATGAAAT
Statistics
Matches: 100, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
49 2 0.02
50 57 0.57
51 41 0.41
ACGTcount: A:0.31, C:0.09, G:0.25, T:0.34
Consensus pattern (51 bp):
ATCGGAGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTAGAAATAAA
Found at i:48928 original size:288 final size:288
Alignment explanation
Indices: 48346--49026 Score: 752
Period size: 288 Copynumber: 2.4 Consensus size: 288
48336 AAATAACAGG
* * * *
48346 GTTGGAGTATCCTTGATTATAGAAAATCGATATTTTAAAAATAAAATCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCTTGATTATGGAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
*
48411 TCGAAAATAACGGGGTTAGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCAAG
66 TCGAAAATAACGGGATTAGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCAAG
* *
48476 GTTGGAGTATCCCCTCGAAAATAGCGAGGTTGGAATATCCCCGATGAAACAACGGGATTGGAGTA
131 GTTGGAGTATCCCCTCAAAAATACCGAGGTTGGAATATCCCCGATGAAACAACGGGATTGGAGTA
* * * * *
48541 TCCCCGATTGTGAGAAATCGATGATTTAGAAATAAAGCCGGGGTTGAAGTATCCCTGATTGTGAG
196 TCCCCGATTGTGAGAAATCGATGATTTAGAAATAAAACCGGAGTTGAAGTATCCCCGATTATGAA
* * *
48606 AAATTAATATTTTGGAAATAAAGCCGGG
261 AAATTAATATTTTCGAAATAAAGCCAGA
* * ** *
48634 GTTGGAGTATCCCTGATTATGGAAAATTGATGCTTTAGAAATAAGGTCGGGGTTGGCGTATCCCC
1 GTTGGAGTATCCTTGATTATGGAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
* * * * * **
48699 GT-GAAAATAATGGTATTGGGGTATCCCCGATTGTGAGAAATCAATATTTTAGGAATAAAGCCGG
66 -TCGAAAATAACGGGATTAGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCAA
* * * * * * *
48763 GGTTGGAGTATCCCTTTCAAAAATACCGGGGTTGGAGTATCCCTGATGAAATATCGGGGTTGGAG
130 GGTTGGAGTATCCC-CTCAAAAATACCGAGGTTGGAATATCCCCGATGAAACAACGGGATTGGAG
* * * * * * *
48828 TATCCTCGATTGTGA-AATTTTGGTGTTTTGGAAATAAAATCGGAGTT-AGAGTATCCCCGATTA
194 TATCCCCGATTGTGAGAA-ATCGATGATTTAGAAATAAAACCGGAGTTGA-AGTATCCCCGATTA
** * *
48891 TGAAAAATTGGTGTTTTCGAAATAAA-TCAGA
257 TGAAAAATTAATATTTTCGAAATAAAGCCAGA
* * * *
48922 GTTGGAGTAT-CTTCGATTGTGAAAAATTGATGTTTTAGAAA-AAAATTGAGGTTGGAGTAT-CC
1 GTTGGAGTATCCTT-GATTATGGAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCC
* *
48984 CT-GATGAAATACCGAGG-TT-GAAGTATCCCCGATTGTGAAAAAT
65 CTCGA--AAATAACG-GGATTAG-AGTATCCCCGATTGTGAGAAAT
49027 TGGTGTTTTT
Statistics
Matches: 325, Mismatches: 59, Indels: 19
0.81 0.15 0.05
Matches are distributed among these distances:
285 3 0.01
286 4 0.01
287 44 0.14
288 164 0.50
289 110 0.34
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (288 bp):
GTTGGAGTATCCTTGATTATGGAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
TCGAAAATAACGGGATTAGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCAAG
GTTGGAGTATCCCCTCAAAAATACCGAGGTTGGAATATCCCCGATGAAACAACGGGATTGGAGTA
TCCCCGATTGTGAGAAATCGATGATTTAGAAATAAAACCGGAGTTGAAGTATCCCCGATTATGAA
AAATTAATATTTTCGAAATAAAGCCAGA
Found at i:49095 original size:51 final size:51
Alignment explanation
Indices: 49000--49127 Score: 141
Period size: 51 Copynumber: 2.5 Consensus size: 51
48990 AAATACCGAG
* ** * * * *
49000 GTTGAAGTATCCCCGATTGTGAAAAATTGGTGTTTTTGACATAAAATCGGA
1 GTTGAAGTATCCCCGATTATGAAAAATTAATGTTGTGGAAATAAAACCGGA
* *
49051 GTTGAAGTATCCCCGATTATGGAAAATTAATGTTGTGGAAATAAAACCGGG
1 GTTGAAGTATCCCCGATTATGAAAAATTAATGTTGTGGAAATAAAACCGGA
* * *
49102 GTTGGATTATCCCCGA-GATGAAAAAT
1 GTTGAAGTATCCCCGATTATGAAAAAT
49128 CTATAAATTT
Statistics
Matches: 64, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
50 8 0.12
51 56 0.88
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (51 bp):
GTTGAAGTATCCCCGATTATGAAAAATTAATGTTGTGGAAATAAAACCGGA
Found at i:49126 original size:179 final size:178
Alignment explanation
Indices: 48792--49127 Score: 451
Period size: 179 Copynumber: 1.9 Consensus size: 178
48782 AAAATACCGG
* * * * **
48792 GGTTGGAGTATCCCTGATGAAATATCGGGGTTGGAGTATCCTCGATTGTGAAATTTTGGTGTTTT
1 GGTTGGAGTATCCCTGATGAAATACCGAGGTTGAAGTATCCCCGATTGTGAAAAATTGGTGTTTT
** * *
48857 GGAAATAAAATCGGAGTTAGAGTATCCCCGATTATGAAAAATTGGTGTTTTCGAAATAAATCAGA
66 GGAAATAAAATCGGAGTTAGAGTATCCCCGATTATGAAAAATTAATGTTGTCGAAATAAACCAGA
**
48922 GTTGGAGTATCTTCGATTGTGAAAAATTGATGTTTTAGAAAAAAATTGA
131 GTTGGAGTATCCCCGA-TGTGAAAAATTGATGTTTTAGAAAAAAATTGA
48971 GGTTGGAGTATCCCTGATGAAATACCGAGGTTGAAGTATCCCCGATTGTGAAAAATTGGTGTTTT
1 GGTTGGAGTATCCCTGATGAAATACCGAGGTTGAAGTATCCCCGATTGTGAAAAATTGGTGTTTT
* * * * *
49036 TGACATAAAATCGGAGTT-GAAGTATCCCCGATTATGGAAAATTAATGTTGTGGAAATAAAACCG
66 GGAAATAAAATCGGAGTTAG-AGTATCCCCGATTATGAAAAATTAATGTTGTCGAAAT-AAACCA
* *
49100 GGGTTGGATTATCCCCGA-GATGAAAAAT
129 GAGTTGGAGTATCCCCGATG-TGAAAAAT
49128 CTATAAATTT
Statistics
Matches: 135, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
178 2 0.01
179 115 0.85
180 18 0.13
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (178 bp):
GGTTGGAGTATCCCTGATGAAATACCGAGGTTGAAGTATCCCCGATTGTGAAAAATTGGTGTTTT
GGAAATAAAATCGGAGTTAGAGTATCCCCGATTATGAAAAATTAATGTTGTCGAAATAAACCAGA
GTTGGAGTATCCCCGATGTGAAAAATTGATGTTTTAGAAAAAAATTGA
Found at i:51481 original size:13 final size:13
Alignment explanation
Indices: 51463--51525 Score: 75
Period size: 13 Copynumber: 5.3 Consensus size: 13
51453 GTAAATCCAG
51463 AATGTATCGATAC
1 AATGTATCGATAC
*
51476 AATGTATTGATAC
1 AATGTATCGATAC
51489 AATG-A--G---C
1 AATGTATCGATAC
51496 AATGTATCGATAC
1 AATGTATCGATAC
51509 AATGTATCGATAC
1 AATGTATCGATAC
51522 AATG
1 AATG
51526 AACAATGTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
7 5 0.12
8 1 0.02
10 2 0.05
12 1 0.02
13 34 0.79
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:51500 original size:20 final size:20
Alignment explanation
Indices: 51475--51512 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
51465 TGTATCGATA
*
51475 CAATGTATTGATACAATGAG
1 CAATGTATCGATACAATGAG
51495 CAATGTATCGATACAATG
1 CAATGTATCGATACAATG
51513 TATCGATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.29
Consensus pattern (20 bp):
CAATGTATCGATACAATGAG
Found at i:51505 original size:33 final size:33
Alignment explanation
Indices: 51463--51540 Score: 138
Period size: 33 Copynumber: 2.4 Consensus size: 33
51453 GTAAATCCAG
* *
51463 AATGTATCGATACAATGTATTGATACAATGAGC
1 AATGTATCGATACAATGTATCGATACAATGAAC
51496 AATGTATCGATACAATGTATCGATACAATGAAC
1 AATGTATCGATACAATGTATCGATACAATGAAC
51529 AATGTATCGATA
1 AATGTATCGATA
51541 TAAATTGTGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (33 bp):
AATGTATCGATACAATGTATCGATACAATGAAC
Found at i:52201 original size:35 final size:34
Alignment explanation
Indices: 52162--52227 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 34
52152 AAAGGAAAGT
52162 GTCCTACTTCTT-GAGGACAAAGTGAAAAAAGGTAC
1 GTCCTACTT-TTCGAGGACAAAG-GAAAAAAGGTAC
*
52197 GTCCTGCTTTTCGAGGACAAAGGAAAAAAGG
1 GTCCTACTTTTCGAGGACAAAGGAAAAAAGG
52228 AAAACGAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 11 0.38
35 18 0.62
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (34 bp):
GTCCTACTTTTCGAGGACAAAGGAAAAAAGGTAC
Found at i:52332 original size:45 final size:44
Alignment explanation
Indices: 52209--52361 Score: 174
Period size: 42 Copynumber: 3.5 Consensus size: 44
52199 CCTGCTTTTC
* * *
52209 GAGGAC-AAAGGAAAAAAGGAAAACGAAATACGTCCTGCTCTTT
1 GAGGACAAAAGGAAAAAAGGAAAATGAAATATGTCCTACTCTTT
52252 GAGGACAAAA-G-AAAAAGGAAAAT-AAAGTATGTCCTACTCTTT
1 GAGGACAAAAGGAAAAAAGGAAAATGAAA-TATGTCCTACTCTTT
*
52294 GAGGACAAAAGGGAAAAAAAGG-AAATGAAATGTGTCCTACTCTTT
1 GAGGACAAAA-GG-AAAAAAGGAAAATGAAATATGTCCTACTCTTT
* * *
52339 AAGGA-TAAAGGAGAAAAGGAAAA
1 GAGGACAAAAGGAAAAAAGGAAAA
52362 GGCATCCTGC
Statistics
Matches: 95, Mismatches: 7, Indels: 16
0.81 0.06 0.14
Matches are distributed among these distances:
41 3 0.03
42 41 0.43
43 12 0.13
44 7 0.07
45 22 0.23
46 10 0.11
ACGTcount: A:0.48, C:0.11, G:0.24, T:0.17
Consensus pattern (44 bp):
GAGGACAAAAGGAAAAAAGGAAAATGAAATATGTCCTACTCTTT
Found at i:52683 original size:60 final size:60
Alignment explanation
Indices: 52353--53051 Score: 595
Period size: 60 Copynumber: 11.6 Consensus size: 60
52343 ATAAAGGAGA
* ** * * *
52353 AAAGGAAAAGGCATCCTGCTCTTCAAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTG
1 AAAGGAAAA-GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG
* * * * *
52414 AAAAGAAAAGGCGTCCTGCTCTTTAAGGACTAAAAGGTGCCACCAACTCGTGTGGACTTTG
1 AAAGGAAAA-GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG
* * * *
52475 AGAAGAAAAAGGCATCCTACTCTTTGAAGACT-AAGAGGTGCCACCAACTTGTGTGGGCTTTG
1 A-AAGGAAAA-GCGTCCTGCTCTTTGAGGACTGAA-AGGTGCCACCAACTTGTGTGGGCTTTG
* * ** * **
52537 AAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAAATGTCACCAACTTGTGTGGGCTCCG
1 -AAAGGAAAA-GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTG
** * * *
52600 AAAGGAGAGGGCATCCTGCTCTTTGAGGACT-AAAGGTGCAACCAGCTTGTGTGGGCTTTG
1 AAAGGA-AAAGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG
* * *
52660 AAAGGCAAAAGCGTCTTGGTCTTTGAGGATTG-AAGGTGCCACCAACTTGTGTGGGCTTTG
1 AAAGG-AAAAGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG
* * * * *
52720 AAAGGCGAAGGTGTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTTTAGGCTTTG
1 AAAGG-AAAAGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG
* * ** *
52780 AAAGGCGAATAA--GTCCTACTTTTTGAGGACTGAAAAATGCCACCAACTTGTGTGAGCTTT-
1 AAA-G-GAA-AAGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG
* * * *
52840 AAAGGAAAACGCATCCTGCTCTTTGAGAACTGGGAAA--TGCCACCAACTTGTATGGGCTTTA
1 AAAGGAAAA-GCGTCCTGCTCTTTGAGGACT--GAAAGGTGCCACCAACTTGTGTGGGCTTTG
* * * * * * *
52901 AAAGGCGAAGGCGTCCTACTCTTTGAGGACTGGGAA-GTGCCACCAACTCGTGTAGGCTTTA
1 AAAGG-AAAAGCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTG
* * * * *
52962 AAAGGAGAAGGCGTCCTGCTCTTTGAAGACTG-AAGGTGCCACCAGCTTGGGTAGGCTTT-
1 AAAGGA-AAAGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG
53021 ----GAAAAGCGTCCTGCTCTTTGAGGACT-AAAGG
1 AAAGGAAAAGCGTCCTGCTCTTTGAGGACTGAAAGG
53052 GTGAAATGAG
Statistics
Matches: 533, Mismatches: 82, Indels: 53
0.80 0.12 0.08
Matches are distributed among these distances:
54 26 0.05
55 2 0.00
57 2 0.00
58 3 0.01
59 3 0.01
60 209 0.39
61 155 0.29
62 107 0.20
63 24 0.05
64 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (60 bp):
AAAGGAAAAGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG
Found at i:52898 original size:121 final size:120
Alignment explanation
Indices: 52353--53024 Score: 552
Period size: 121 Copynumber: 5.5 Consensus size: 120
52343 ATAAAGGAGA
** * * *
52353 AAAGGAAAAGGCATCCTGCTCTTCAAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAA
1 AAAGGAAAAGGCATCCTGCTCTTTGAGGACT-GAAA-TGCCACCAACTTGTGTGGGCTTTGAAAG
** ** * *
52418 GAAAAGGCGTCCTGCTCTTTAAGGACT-AAAAGGTGCCACCAACTCGTGTG-GACTTTG
64 GCGAAGAAGTCCTGCTCTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTGAG-CTTTG
* * *
52475 AGAAGAAAAAGGCATCCTACTCTTTGAAGACT-AAGAGGTGCCACCAACTTGTGTGGGCTTTGAA
1 A-AAGGAAAAGGCATCCTGCTCTTTGAGGACTGAA-A--TGCCACCAACTTGTGTGGGCTTTG-A
*** ** * * * **
52539 AAGAAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAAATGTCACCAACTTGTGTGGGCTCCG
61 AAGGCGAAGAAGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGAGCTTTG
* * * *
52600 AAAGGAGAGGGCATCCTGCTCTTTGAGGACT-AAAGGTGCAACCAGCTTGTGTGGGCTTTGAAAG
1 AAAGGAAAAGGCATCCTGCTCTTTGAGGACTGAAA--TGCCACCAACTTGTGTGGGCTTTGAAAG
* * * * *
52664 GC-AA-AAGCGTCTTGGTCTTTGAGGATTG-AAGGTGCCACCAACTTGTGTGGGCTTTG
64 GCGAAGAA--GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGAGCTTTG
** ** * * *
52720 AAAGGCGAAGGTGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTTTAGGCTTTGAAAGG
1 AAAGGAAAAGGCATCCTGCTCTTTGAGGACTGAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGG
* * * *
52785 CGAATAAGTCCTACTTTTTGAGGACTGAAAAATGCCACCAACTTGTGTGAGCTTT-
65 CGAAGAAGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGAGCTTTG
* * * *
52840 AAAGGAAAACGCATCCTGCTCTTTGAGAACTGGGAAATGCCACCAACTTGTATGGGCTTTAAAAG
1 AAAGGAAAAGGCATCCTGCTCTTTGAGGACT--GAAATGCCACCAACTTGTGTGGGCTTTGAAAG
** * ** * *
52905 GCGAAGGCGTCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTCGTGT-AGGCTTTA
64 GCGAAGAAGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGA-GCTTTG
* * * * * * *
52962 AAAGGAGAAGGCGTCCTGCTCTTTGAAGACTGAAGGTGCCACCAGCTTGGGTAGGCTTTGAAA
1 AAAGGAAAAGGCATCCTGCTCTTTGAGGACTGAA-ATGCCACCAACTTGTGTGGGCTTTGAAA
53025 AGCGTCCTGC
Statistics
Matches: 451, Mismatches: 80, Indels: 39
0.79 0.14 0.07
Matches are distributed among these distances:
120 120 0.27
121 126 0.28
122 53 0.12
123 74 0.16
124 54 0.12
125 19 0.04
126 5 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (120 bp):
AAAGGAAAAGGCATCCTGCTCTTTGAGGACTGAAATGCCACCAACTTGTGTGGGCTTTGAAAGGC
GAAGAAGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGAGCTTTG
Found at i:53217 original size:55 final size:55
Alignment explanation
Indices: 53068--53311 Score: 301
Period size: 55 Copynumber: 4.3 Consensus size: 55
53058 TGAGGGAGCG
* *
53068 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAGAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT---A--A-AAGGCA
* * * *
53129 TCCTGCTCTTTAAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
* * *
53184 TCCTGCTCTTTGAGGACTGGAAAATGCCGCCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
* * * *
53239 TCCTACTCTTTGAGGAC-CGAAAGGTGACACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
53294 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
53312 AAAGTGAAAG
Statistics
Matches: 164, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
54 4 0.02
55 113 0.69
56 1 0.01
58 1 0.01
61 45 0.27
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
Found at i:54312 original size:1 final size:1
Alignment explanation
Indices: 54292--54344 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
54282 CTTTTCTCTC
* * * * * *
54292 TTTTTTCTTTGTTTTGTTTTTTTTTGTTTTTTGTTTTTTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
54345 AAAAATGTGC
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.89
Consensus pattern (1 bp):
T
Found at i:54314 original size:17 final size:15
Alignment explanation
Indices: 54292--54344 Score: 79
Period size: 15 Copynumber: 3.5 Consensus size: 15
54282 CTTTTCTCTC
*
54292 TTTTTTCTTTGTTTT
1 TTTTTTTTTTGTTTT
*
54307 GTTTTTTTTTGTTTT
1 TTTTTTTTTTGTTTT
54322 TTGTTTTTTTTGTTTT
1 TT-TTTTTTTTGTTTT
54338 TTTTTTT
1 TTTTTTT
54345 AAAAATGTGC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
15 19 0.56
16 15 0.44
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.89
Consensus pattern (15 bp):
TTTTTTTTTTGTTTT
Found at i:54321 original size:26 final size:26
Alignment explanation
Indices: 54292--54342 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
54282 CTTTTCTCTC
54292 TTTTTTCTTTGTTTTGTTTTTTTTTG
1 TTTTTTCTTTGTTTTGTTTTTTTTTG
* *
54318 TTTTTTGTTTTTTTTGTTTTTTTTT
1 TTTTTTCTTTGTTTTGTTTTTTTTT
54343 TTAAAAATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (26 bp):
TTTTTTCTTTGTTTTGTTTTTTTTTG
Found at i:54339 original size:10 final size:10
Alignment explanation
Indices: 54292--54342 Score: 59
Period size: 11 Copynumber: 4.9 Consensus size: 10
54282 CTTTTCTCTC
54292 TTTTTTCTTTG
1 TTTTTT-TTTG
*
54303 TTTTGTTTTTT
1 TTTT-TTTTTG
54314 TTTGTTTTTTG
1 TTT-TTTTTTG
54325 -TTTTTTTTG
1 TTTTTTTTTG
54334 TTTTTTTTT
1 TTTTTTTTT
54343 TTAAAAATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
9 7 0.20
10 10 0.29
11 15 0.43
12 3 0.09
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:59177 original size:165 final size:162
Alignment explanation
Indices: 58790--59326 Score: 650
Period size: 165 Copynumber: 3.3 Consensus size: 162
58780 AATTTCAACA
* * * *
58790 AAAAAATCCAAAACTCATGAAAATAAATTAATTTTTTAAAACTAAATTAATATGAAATAAATAAT
1 AAAAAATCAAAAACTCATGAAAATGAATTAATTTTTGAAAACTGAATTAATATGAAATAAATAAT
* * * * * *
58855 GATGTTTGATGAATTTTAAAAATTGAAAACCAAGAAAAGTCCTCTC-AAAAAATTTACAAAGTAG
66 AATATTTGATGAAATTTAAAAATTAAAAACCAAGAAAAAT-CTCTCGAAAAAATTTACGAAGTAG
* *
58919 AAAACACTGTATTTCAAAAAAAAAGAGTTT-A--
130 AAAACACTGTATTTTAAAAAAAAA-AATTTAAGG
* * * *
58950 AAAAAATCAAAAACTCATAAAAATGAATGAATTTTTTAAAACTGAATCAATATGAAATAAATAAT
1 AAAAAATCAAAAACTCATGAAAATGAATTAATTTTTGAAAACTGAATTAATATGAAATAAATAAT
* *
59015 AATACTTGATGAAATTTAAAAATTAAAAACCAAGAAAAATCATCTCGAAAAAATTTACGAATTAG
66 AATATTTGATGAAATTTAAAAATTAAAAACCAAGAAAAATC-TCTCGAAAAAATTTACGAAGTAG
* **
59080 AAAACAATGTATTTTGGAAAAAAAAATTTAAAGG
130 AAAACACTGTATTTTAAAAAAAAAAATTT-AAGG
** * *
59114 AAAAAATTTTAAAACTCATGAAGATGAATTGATTTTTGAAAACTGAATTAATATGAAATAAATAA
1 AAAAAA-TCAAAAACTCATGAAAATGAATTAATTTTTGAAAACTGAATTAATATGAAATAAATAA
* * * *
59179 TAATATTTGATGAAATTTAAAAATTAAAAACTAAGAAAAATCCCTTCGAAAAATTTTACGGAGTA
65 TAATATTTGATGAAATTTAAAAATTAAAAACCAAGAAAAATCTC-TCGAAAAAATTTACGAAGTA
** *
59244 GAAAACACCATATTTCAAAAAAAAGAGAAATTTCAAGG
129 GAAAACACTGTATTT-TAAAAAAA-A-AAATTT-AAGG
* *
59282 AAAAAATCAAAAACACATGAAGATGAATTAATTTTTGAAAACTGA
1 AAAAAATCAAAAACTCATGAAAATGAATTAATTTTTGAAAACTGA
59327 TTCAATGGGA
Statistics
Matches: 322, Mismatches: 44, Indels: 15
0.85 0.12 0.04
Matches are distributed among these distances:
159 1 0.00
160 101 0.31
161 36 0.11
162 1 0.00
164 7 0.02
165 119 0.37
166 5 0.02
167 36 0.11
168 16 0.05
ACGTcount: A:0.54, C:0.09, G:0.10, T:0.28
Consensus pattern (162 bp):
AAAAAATCAAAAACTCATGAAAATGAATTAATTTTTGAAAACTGAATTAATATGAAATAAATAAT
AATATTTGATGAAATTTAAAAATTAAAAACCAAGAAAAATCTCTCGAAAAAATTTACGAAGTAGA
AAACACTGTATTTTAAAAAAAAAAATTTAAGG
Found at i:59961 original size:42 final size:43
Alignment explanation
Indices: 59915--60037 Score: 146
Period size: 43 Copynumber: 2.9 Consensus size: 43
59905 GGTTTCCTGA
* *
59915 GTCTGAGTCGAC-AGGCAGATGAAAA-ATG-AAAAAGTCTTTCGG
1 GTCTGAGTCGACGA-GCAGA-CAAAAGATGAAAAAAGTCTCTCGG
*
59957 GTCTGAGCCGACGAGCAGACAAAAGATGAAAAAAGTCTCTCGG
1 GTCTGAGTCGACGAGCAGACAAAAGATGAAAAAAGTCTCTCGG
* * *
60000 GTCTGAGTCGACGAGCAGACGAATGAT-AAAAGAGTCTC
1 GTCTGAGTCGACGAGCAGACAAAAGATGAAAAAAGTCTC
60038 CCAAATTAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
41 4 0.06
42 29 0.41
43 38 0.54
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (43 bp):
GTCTGAGTCGACGAGCAGACAAAAGATGAAAAAAGTCTCTCGG
Found at i:60080 original size:43 final size:44
Alignment explanation
Indices: 60032--60167 Score: 134
Period size: 43 Copynumber: 3.2 Consensus size: 44
60022 ATGATAAAAG
* * * *
60032 AGTCTCCCA-AATTAAAGTTGATAGGCAGACTTAAGGGTGAGGA
1 AGTCTCCCAGAATCAAAGTCGACAAGCAGACTTAAGGGTGAGGA
**
60075 AGTCT-CCAGGGTCAAAGTCGACAAGCAGACTTAAGGGTGAGGA
1 AGTCTCCCAGAATCAAAGTCGACAAGCAGACTTAAGGGTGAGGA
* ** * * * *
60118 AGTCT-CTAGGGTCAAAGCCGACAGGCAGACTTAAAGGTGAAGA
1 AGTCTCCCAGAATCAAAGTCGACAAGCAGACTTAAGGGTGAGGA
60161 AGTCTCC
1 AGTCTCC
60168 AGGGTCAAAG
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
42 3 0.04
43 76 0.95
44 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.19
Consensus pattern (44 bp):
AGTCTCCCAGAATCAAAGTCGACAAGCAGACTTAAGGGTGAGGA
Found at i:60172 original size:43 final size:43
Alignment explanation
Indices: 60054--60195 Score: 212
Period size: 43 Copynumber: 3.3 Consensus size: 43
60044 TAAAGTTGAT
*
60054 AGGCAGACTTAAGGGTGAGGAAGTCTCCAGGGTCAAAGTCGAC
1 AGGCAGACTTAAGGGTGAGGAAGTCTCCAGGGTCAAAGCCGAC
* *
60097 AAGCAGACTTAAGGGTGAGGAAGTCTCTAGGGTCAAAGCCGAC
1 AGGCAGACTTAAGGGTGAGGAAGTCTCCAGGGTCAAAGCCGAC
* * * *
60140 AGGCAGACTTAAAGGTGAAGAAGTCTCCAGGGTCAAAGCCAAT
1 AGGCAGACTTAAGGGTGAGGAAGTCTCCAGGGTCAAAGCCGAC
*
60183 AGGTAGACTTAAG
1 AGGCAGACTTAAG
60196 ATTAAAGTAT
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 88 1.00
ACGTcount: A:0.34, C:0.18, G:0.32, T:0.17
Consensus pattern (43 bp):
AGGCAGACTTAAGGGTGAGGAAGTCTCCAGGGTCAAAGCCGAC
Found at i:60431 original size:48 final size:48
Alignment explanation
Indices: 60357--60636 Score: 233
Period size: 48 Copynumber: 5.8 Consensus size: 48
60347 AGGAAAGAGG
* * * * * *
60357 AGAGTTTAACTAGG-CCTAAAACCAATACAGTCAAACGAGGGATGAGA
1 AGAGTTTGACCAGGCCCTAACACCAATACAGTCAAATGAGGGAAGAAA
** * *
60404 AGAGTTTGACCAGGCCCTAACACCAATATGGTTAAATGAAGGAAGAAA
1 AGAGTTTGACCAGGCCCTAACACCAATACAGTCAAATGAGGGAAGAAA
* * * * ** * *
60452 AAAGTTTGGCCAAGCCCTAACACTAATATGGTTAAATAATGGGAAGAAA
1 AGAGTTTGACCAGGCCCTAACACCAATACAGTCAAATGA-GGGAAGAAA
* * * * * *
60501 AGAGTTT-AGCTAAGCCCTAACACCAATATAGTTAAATGAGGGACGAGA
1 AGAGTTTGA-CCAGGCCCTAACACCAATACAGTCAAATGAGGGAAGAAA
* * * *
60549 AGAGTTTGACTAGGCCCTAACACCAATGCGGTCAAACGA-GGAATGAAA
1 AGAGTTTGACCAGGCCCTAACACCAATACAGTCAAATGAGGGAA-GAAA
* * *
60597 AGAGTTTAAACAGGCCCCAACACCAATACAGTCAAATGAG
1 AGAGTTTGACCAGGCCCTAACACCAATACAGTCAAATGAG
60637 AAAAGTCTTG
Statistics
Matches: 188, Mismatches: 39, Indels: 10
0.79 0.16 0.04
Matches are distributed among these distances:
47 15 0.08
48 132 0.70
49 41 0.22
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.19
Consensus pattern (48 bp):
AGAGTTTGACCAGGCCCTAACACCAATACAGTCAAATGAGGGAAGAAA
Found at i:61096 original size:89 final size:90
Alignment explanation
Indices: 60941--61191 Score: 346
Period size: 90 Copynumber: 2.8 Consensus size: 90
60931 AAAAGAATAT
* * *
60941 CTTGCCCCAAGGATATCGAGCTTTGTGATGCATCAGTACCATCTAGTGGTT-AGGTGAAGG-GAA
1 CTTGCCCCAAGGAAATCAAGCTTTGTGATGCATCAATACCATCTAGTGGTTGA-GTGAAGGAG-A
61004 TATGATT-GGGAATGTGTGGGTTGCAC
64 TATGATTAGGGAATGTGTGGGTTGCAC
* ** *
61030 CTTGCCCCTAGGAAATCAAGCTTTACGATGCATCAATACCATCTAGGGGTTGAGTGAAGGAGATA
1 CTTGCCCCAAGGAAATCAAGCTTTGTGATGCATCAATACCATCTAGTGGTTGAGTGAAGGAGATA
61095 TGATTAGGGAATGTGTGGGTTGCAC
66 TGATTAGGGAATGTGTGGGTTGCAC
* * * ** *
61120 CTTACCCCAAGGAAATCAGGCTTTGTGATACATCAATACCATCTAGTGGTTGAGAAAAAGAGATA
1 CTTGCCCCAAGGAAATCAAGCTTTGTGATGCATCAATACCATCTAGTGGTTGAGTGAAGGAGATA
61185 TGATTAG
66 TGATTAG
61192 AAGTGTGTGG
Statistics
Matches: 142, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
89 59 0.42
90 83 0.58
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.27
Consensus pattern (90 bp):
CTTGCCCCAAGGAAATCAAGCTTTGTGATGCATCAATACCATCTAGTGGTTGAGTGAAGGAGATA
TGATTAGGGAATGTGTGGGTTGCAC
Found at i:62084 original size:10 final size:11
Alignment explanation
Indices: 62059--62086 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
62049 TATTAATGCT
62059 TTTTTTCATGA
1 TTTTTTCATGA
62070 TTTTTTCATGA
1 TTTTTTCATGA
62081 TTTTTT
1 TTTTTT
62087 TAATTTCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.71
Consensus pattern (11 bp):
TTTTTTCATGA
Found at i:62978 original size:17 final size:16
Alignment explanation
Indices: 62935--62983 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
62925 TTTCCTGATC
62935 TTTTTTCA-TTTCTCT
1 TTTTTTCATTTTCTCT
62950 TTTTTT-ATTTTTCTCT
1 TTTTTTCA-TTTTCTCT
*
62966 TTTTTTGCATTTTTTCT
1 TTTTTT-CATTTTCTCT
62983 T
1 T
62984 CATTGCACGT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 1 0.03
15 6 0.21
16 13 0.45
17 8 0.28
18 1 0.03
ACGTcount: A:0.06, C:0.14, G:0.02, T:0.78
Consensus pattern (16 bp):
TTTTTTCATTTTCTCT
Found at i:63855 original size:17 final size:17
Alignment explanation
Indices: 63829--63864 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
63819 CCTTTTCAAA
*
63829 GCCCATACGAGTTGGTG
1 GCCCACACGAGTTGGTG
63846 GCCCACACGAGTTGGTG
1 GCCCACACGAGTTGGTG
63863 GC
1 GC
63865 ACCTTTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.28, G:0.36, T:0.19
Consensus pattern (17 bp):
GCCCACACGAGTTGGTG
Found at i:63960 original size:62 final size:60
Alignment explanation
Indices: 63846--64741 Score: 683
Period size: 62 Copynumber: 14.7 Consensus size: 60
63836 CGAGTTGGTG
*
63846 GCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAAGATC-CATTTTTCTTTTCAAA
1 GCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAG-AAGA-CGCCTTTTTCTTTT-AAA
* * * *
63908 GCCTACACGAGTTGGTGGCACCCTTTAGTCCTCAAAAAGAAGGATGCCTTTTTCTTTTCAAA
1 GCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGAA-GACGCCTTTTTCTTTT-AAA
* * * * * * **
63970 GCCCACAGGAGTTGGTAGCACCCTTCTAATCCTCAAAGAGCATGACGTCTTTTAATTTTAAAA
1 GCCCACACGAGTTGGTGGCA-CCTTTTAGTCCTCAAAGAG-AAGACGCCTTTTTCTTTT-AAA
* * * * *
64033 GCTCACATGAGTTGATGGTACCTTTTAGTCCTCAAAGAGCAAGACGTCTTTTTCTTTTCAAA
1 GCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAG-AAGACGCCTTTTTCTTTT-AAA
* * * * * * * * **
64095 GCCTACACAAGCTAGTGGCACCTTTTTAGTCCTTAAAAAGCAG-GGTGTTTTTTCTTTTTAAA
1 GCCCACACGAGTTGGTGGCACC-TTTTAGTCCTCAAAGAGAAGACG-CCTTTTTC-TTTTAAA
* * * * * * * *
64157 GCCCAAACAATTTGGTGGCACCTTTTAGTCTTCAAAAAGCAGGAGGTCTTTTTCTTTTCAAA
1 GCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAG-AAGACGCCTTTTTCTTTT-AAA
** * * * * *
64219 GCCCACATAAGCTGGTGGCACATTTTTAGTCATCAAAGAGTAGA-GCGTTTTTCCTTTTTAAA
1 GCCCACACGAGTTGGTGGCAC-CTTTTAGTCCTCAAAGAGAAGACGCCTTTTT-C-TTTTAAA
* * * *
64281 GCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAGAACGCATTTTTCTTTTAAA
1 GCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGAAG-ACGCCTTTTTCTTTTAAA
* * * *
64342 GCCCACATGAGTTGGTGGCACCTTCTAGTCTTCAAAGAGCAAGACGTC-TTTTCTTTTCAAA
1 GCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAG-AAGACGCCTTTTTCTTTT-AAA
** * ** * * *
64403 GCCCACACGAGTTCTTGACATATTCTAGTCCTCAAAGA-ACA-AGGCGTTTTTCCTTTTTAAA
1 GCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGA-AGACGCCTTTTT-C-TTTTAAA
* * * *
64464 GCCCACACAAGCTGGTGGCACC--TT--T--T--AAGTAG--GATGTCTTTTTCTTTTAAA
1 GCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAG-AGAAGACGCCTTTTTCTTTTAAA
*
64515 GCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACGCCTTTTTCTTTTAAA
1 GCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAG-AAGACGCCTTTTTCTTTTAAA
** * * * * *
64576 GCCCACACTGAGTTCTTGACACATTCTAGTCCTCAAAGAGCATGACACCTTTTT-TTTTAAA
1 GCCCACAC-GAGTTGGTGGCACCTTTTAGTCCTCAAAGAG-AAGACGCCTTTTTCTTTTAAA
* * *
64637 GCTCACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCTTTCCTTTTTCCTTTTAA
1 GCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAG-AAGACG----CCTTTTT-CTTTTAA
64702 A
60 A
**
64703 GCCCACATAAGTTGGTGGCACCTTTTAGTCCTCAAAGAG
1 GCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAG
64742 TAGGACTCAT
Statistics
Matches: 667, Mismatches: 125, Indels: 80
0.76 0.14 0.09
Matches are distributed among these distances:
51 26 0.04
52 1 0.00
53 12 0.02
54 1 0.00
55 2 0.00
57 2 0.00
58 2 0.00
59 7 0.01
60 45 0.07
61 179 0.27
62 246 0.37
63 92 0.14
64 8 0.01
66 44 0.07
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.32
Consensus pattern (60 bp):
GCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGAAGACGCCTTTTTCTTTTAAA
Found at i:64635 original size:173 final size:172
Alignment explanation
Indices: 64329--64663 Score: 485
Period size: 173 Copynumber: 1.9 Consensus size: 172
64319 GCAGAACGCA
* * *
64329 TTTTTCTTTTAAAGCCCACATGAGTTGGTGGCACCTTCTAGTCTTCAAAGAGCAAGACGTCTTTT
1 TTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACGCCTTTT
* * **
64394 CTTTTCAAAGCCCACACGAGTTCTTGACATATTCTAGTCCTCAAAGAACAAGGCGTTTTTCCTTT
66 CTTTTCAAAGCCCACACGAGTTCTTGACACATTCTAGTCCTCAAAGAACAAGACCCTTTT-CTTT
64459 TTAAAGCCCACACAAGCTGGTGGCACCTTTTAAGTAGGATGTC
130 TTAAAGCCCACACAAGCTGGTGGCACCTTTTAAGTAGGATGTC
* *
64502 TTTTTCTTTTAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACGCCTTTT
1 TTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACGCC-TTT
* *
64567 TCTTTT-AAAGCCCACACTGAGTTCTTGACACATTCTAGTCCTCAAAGAGCATGACACCTTTT-T
65 TCTTTTCAAAGCCCACAC-GAGTTCTTGACACATTCTAGTCCTCAAAGAACAAGAC-CCTTTTCT
* ** *
64630 TTTTAAAGCTCACATGAGTTGGTGGCACCTTTTA
128 TTTTAAAGCCCACACAAGCTGGTGGCACCTTTTA
64664 GTCCTCAAAG
Statistics
Matches: 144, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
173 98 0.68
174 42 0.29
175 4 0.03
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (172 bp):
TTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACGCCTTTT
CTTTTCAAAGCCCACACGAGTTCTTGACACATTCTAGTCCTCAAAGAACAAGACCCTTTTCTTTT
TAAAGCCCACACAAGCTGGTGGCACCTTTTAAGTAGGATGTC
Found at i:64668 original size:234 final size:234
Alignment explanation
Indices: 64274--64729 Score: 587
Period size: 234 Copynumber: 1.9 Consensus size: 234
64264 CGTTTTTCCT
64274 TTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAGAACGCATTTTTCTTTT
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAGAACGCATTTTTCTTTT
* * * * **
64339 AAAGCCCACATGAGTTGGTGGCACCTTCTAGTCTTCAAAGAGCAAGACGTCTTTTCTTTTCAAAG
66 AAAGCCCACATGAGTTCGTGACACATTCTAGTCCTCAAAGAGCAAGACACCTTTTCTTTTCAAAG
* *
64404 CCCACACGAGTTCTTGACATATTCTAGTCCTCAAAGAACAAGG-CG-TTTTTCCTTTTTAAAGCC
131 CCCACACGAGTTCGTGACACATTCTAGTCCTCAAAGAAC-AGGACGCTTTTTCC-TTTTAAAGCC
64467 CACACAAGCTGGTGGCACCTTTTAAGTAGGATGTCTTTTTC
194 CACACAAGCTGGTGGCACCTTTTAAGTAGGATGTCTTTTTC
* * * *
64508 TTTTAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCA-AGACGCCTTTTTCTTT
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAGA-ACGCATTTTTCTTT
* * *
64572 TAAAGCCCACACTGAGTTCTTGACACATTCTAGTCCTCAAAGAGCATGACACCTTTT-TTTTTAA
65 TAAAGCCCACA-TGAGTTCGTGACACATTCTAGTCCTCAAAGAGCAAGACACCTTTTCTTTTCAA
* * * * * * *
64636 AGCTCACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCTTTCCTTTTTCCTTTTA
129 AGCCCACACGAGTTCGTGACACATTCTAGTCCTCAAAGAACAGGACG-----CTTTTTCCTTTTA
* *
64701 AAGCCCACATAAGTTGGTGGCACCTTTTA
189 AAGCCCACACAAGCTGGTGGCACCTTTTA
64730 GTCCTCAAAG
Statistics
Matches: 189, Mismatches: 24, Indels: 13
0.84 0.11 0.06
Matches are distributed among these distances:
233 4 0.02
234 109 0.58
235 37 0.20
239 32 0.17
240 7 0.04
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.33
Consensus pattern (234 bp):
TTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAGAACGCATTTTTCTTTT
AAAGCCCACATGAGTTCGTGACACATTCTAGTCCTCAAAGAGCAAGACACCTTTTCTTTTCAAAG
CCCACACGAGTTCGTGACACATTCTAGTCCTCAAAGAACAGGACGCTTTTTCCTTTTAAAGCCCA
CACAAGCTGGTGGCACCTTTTAAGTAGGATGTCTTTTTC
Found at i:64727 original size:66 final size:63
Alignment explanation
Indices: 64501--64747 Score: 306
Period size: 66 Copynumber: 3.9 Consensus size: 63
64491 AGTAGGATGT
* * *
64501 CTTTTTCTTTTAAAGCCTACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACG--C
1 CTTTTTCTTTTAAAGCCCACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCTC
** * * * * *
64562 CTTTTTCTTTTAAAGCCCACACTGAGTTCTTGACACATTCTAGTCCTCAAAGAGCATGA--CAC
1 CTTTTTCTTTTAAAGCCCACA-TGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCTC
*
64624 CTTTTT-TTTTAAAGCTCACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCTTTC
1 CTTTTTCTTTTAAAGCCCACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGC--TC
* *
64688 CTTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGAC
1 CTTTTT-CTTTTAAAGCCCACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGAC
64748 TCATTTCCTT
Statistics
Matches: 158, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
60 31 0.20
61 33 0.21
62 38 0.24
64 7 0.04
66 49 0.31
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (63 bp):
CTTTTTCTTTTAAAGCCCACATGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCTC
Found at i:64779 original size:40 final size:42
Alignment explanation
Indices: 64724--64868 Score: 147
Period size: 43 Copynumber: 3.5 Consensus size: 42
64714 TTGGTGGCAC
64724 CTTTTAGTCCTCAAAGAGTA-G-G-AC-TCATTTCCTTCTTTT
1 CTTTT-GTCCTCAAAGAGTAGGAGCACTTCATTTCCTTCTTTT
*
64763 CCCTTTTTTCCTCAAAGAGTAGGACGCACTTCATTTCCTTCTTTT
1 --CTTTTGTCCTCAAAGAGTAGGA-GCACTTCATTTCCTTCTTTT
* ** *
64808 CTTTTGTCCTCAAAAAACAGAACGCACTTCATTTCCTT-TTTT
1 CTTTTGTCCTCAAAGAGTAGGA-GCACTTCATTTCCTTCTTTT
* *
64850 CCTTTATCCTCAAAGAGTA
1 CTTTTGTCCTCAAAGAGTA
64869 AGATGTACTC
Statistics
Matches: 88, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
40 13 0.15
41 6 0.07
42 18 0.20
43 34 0.39
44 2 0.02
45 15 0.17
ACGTcount: A:0.23, C:0.26, G:0.10, T:0.41
Consensus pattern (42 bp):
CTTTTGTCCTCAAAGAGTAGGAGCACTTCATTTCCTTCTTTT
Found at i:64966 original size:34 final size:34
Alignment explanation
Indices: 64846--64975 Score: 125
Period size: 34 Copynumber: 3.7 Consensus size: 34
64836 TCATTTCCTT
* * *
64846 TTTTCCTTTATCCTCAAAGAGTAAGATGTACTCC
1 TTTTCCTTTGTCCTCAAAGAGCAAGACGTACTCC
* * * * *
64880 TTTTTCCTTTGTCCTTAAGGAGCAAGACCCATTTCATTC
1 -TTTTCCTTTGTCCTCAAAGAGCAAGA--C-GTAC-TCC
* *
64919 TTTTCCTTCGTCCTCAAAGAGCATGACGTACTCC
1 TTTTCCTTTGTCCTCAAAGAGCAAGACGTACTCC
64953 TTTTCCTTTGTCCTCAAAGAGCA
1 TTTTCCTTTGTCCTCAAAGAGCA
64976 GGATGCCCCT
Statistics
Matches: 75, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
34 24 0.32
35 24 0.32
36 1 0.01
38 24 0.32
39 2 0.03
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.38
Consensus pattern (34 bp):
TTTTCCTTTGTCCTCAAAGAGCAAGACGTACTCC
Found at i:64975 original size:72 final size:72
Alignment explanation
Indices: 64837--64975 Score: 190
Period size: 72 Copynumber: 1.9 Consensus size: 72
64827 GAACGCACTT
* * * * * *
64837 CATTTCCTTTTTTCCTTTATCCTCAAAGAGTAAGATGTACTCCTTTTTCCTTTGTCCTTAAGGAG
1 CATTTCATTTTTTCCTTCATCCTCAAAGAGCAAGACGTACTCCTTTTTCCTTTGTCCTCAAAGAG
64902 CAAGACC
66 CAAGACC
* *
64909 CATTTCATTCTTTTCCTTCGTCCTCAAAGAGCATGACGTACTCC-TTTTCCTTTGTCCTCAAAGA
1 CATTTCATT-TTTTCCTTCATCCTCAAAGAGCAAGACGTACTCCTTTTTCCTTTGTCCTCAAAGA
64973 GCA
65 GCA
64976 GGATGCCCCT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
72 29 0.50
73 29 0.50
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.39
Consensus pattern (72 bp):
CATTTCATTTTTTCCTTCATCCTCAAAGAGCAAGACGTACTCCTTTTTCCTTTGTCCTCAAAGAG
CAAGACC
Found at i:67897 original size:158 final size:157
Alignment explanation
Indices: 67735--68128 Score: 442
Period size: 159 Copynumber: 2.5 Consensus size: 157
67725 TAAAATATTA
* * *
67735 ATTTTTCATCATCGGGGATACTCCAACCCCATTATTTTTGAGAGGATACTCCAAACCCAGCTTTA
1 ATTTTTCA-CATCGAGGATACTCCAACCCCATTATTTTCGAG-GGATACTCCAAACCCAACTTTA
67800 TTTCTAAAATATCGATCTTCT-ACCATCA-AGGACA-TTCTAACCCCATTATTTTCGAAGAG-AT
64 TTTCTAAAATATCGAT-TTCTCACCATCAGAGGACACTT-TAACCCCATTA-TTTCGAAGAGAAT
67861 ACTCAAATCC-CAATTTTATTTCTAAAACACCG
126 ACTCAAA-CCTCAATTTTATTTCTAAAACACCG
* * * * *
67893 ATTTTTCACCATCGAGGATACGCCAACTCCGTTATTTTCGAGGGGATACTCC-AACCGTACCTTT
1 ATTTTTCA-CATCGAGGATACTCCAACCCCATTATTTTCGA-GGGATACTCCAAACC-CAACTTT
* * * * * *
67957 ATTTCTAAAATATCGATTTTTCACCATCAGGGGACACTTTAATCCCGTTATTTCTAAGGGAATAC
63 ATTTCTAAAATATCGATTTCTCACCATCAGAGGACACTTTAACCCCATTATTTCGAAGAGAATAC
* * *
68022 TCTAACCTCGATTTTATTTCTAAAACATCG
128 TCAAACCTCAATTTTATTTCTAAAACACCG
* * * *
68052 ATTTTTCACTATCGAGGATACTCCAACCCCATTGTTTTCGAGGGAAAACTCCAACCCCAATTTTA
1 ATTTTTCAC-ATCGAGGATACTCCAACCCCATTATTTTCGAGGG-ATACTCCAAACCCAACTTTA
68117 TTT-TCAAAATAT
64 TTTCT-AAAATAT
68129 TAACTTTTTA
Statistics
Matches: 199, Mismatches: 26, Indels: 21
0.81 0.11 0.09
Matches are distributed among these distances:
157 7 0.04
158 88 0.44
159 99 0.50
160 5 0.03
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.34
Consensus pattern (157 bp):
ATTTTTCACATCGAGGATACTCCAACCCCATTATTTTCGAGGGATACTCCAAACCCAACTTTATT
TCTAAAATATCGATTTCTCACCATCAGAGGACACTTTAACCCCATTATTTCGAAGAGAATACTCA
AACCTCAATTTTATTTCTAAAACACCG
Found at i:68045 original size:80 final size:77
Alignment explanation
Indices: 67638--68096 Score: 353
Period size: 79 Copynumber: 5.8 Consensus size: 77
67628 CATTGATGTT
67638 TTTATTT-TCAAAATAT-GATTTTCTTCACCATCA-GGGATACTCCAACCCCGTTATTTTCGAGG
1 TTTATTTCT-AAAATATCGA-TTT-TTCACCATCAGGGGATACTCCAACCCCGTTATTTT-GA-G
* *
67700 GGATACTCTACCCCGAC
61 GGATACTCAAACCCGAC
* ** * *
67717 TGTATTTCTAAAATATTAATTTTTCATCATC-GGGGATACTCCAACCCCATTATTTTTGAGAGGA
1 TTTATTTCTAAAATATCGATTTTTCACCATCAGGGGATACTCCAACCCCGTTA-TTTTGAG-GGA
67781 TACTCCAAACCC-AGC
64 TACT-CAAACCCGA-C
* * * * * * *
67796 TTTATTTCTAAAATATCGA-TCTTCTACCATCA-AGGACATTCTAACCCCATTATTTTCGAAGAG
1 TTTATTTCTAAAATATCGATTTTTC-ACCATCAGGGGATACTCCAACCCCGTTATTTT-G-AGGG
* *
67859 ATACTCAAATCCCAAT
63 ATACTCAAA-CCCGAC
* * * * *
67875 TTTATTTCTAAAACACCGATTTTTCACCATC-GAGGATACGCCAACTCCGTTATTTTCGAGGGGA
1 TTTATTTCTAAAATATCGATTTTTCACCATCAGGGGATACTCCAACCCCGTTATTTT-GA-GGGA
*
67939 TACTCCAA-CCGTACC
64 TACTCAAACCCG-A-C
* ** * *
67954 TTTATTTCTAAAATATCGATTTTTCACCATCAGGGGACACTTTAATCCCGTTATTTCTAAGGGAA
1 TTTATTTCTAAAATATCGATTTTTCACCATCAGGGGATACTCCAACCCCGTTATTT-TGAGGG-A
* *
68019 TACTCTAACCTCGAT
64 TACTCAAACC-CGAC
* * * * *
68034 TTTATTTCTAAAACATCGATTTTTCACTATC-GAGGATACTCCAACCCCATTGTTTTCGAGGGA
1 TTTATTTCTAAAATATCGATTTTTCACCATCAGGGGATACTCCAACCCCGTTATTTT-GAGGGA
68097 AAACTCCAAC
Statistics
Matches: 304, Mismatches: 52, Indels: 49
0.75 0.13 0.12
Matches are distributed among these distances:
77 3 0.01
78 53 0.17
79 179 0.59
80 64 0.21
81 3 0.01
82 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (77 bp):
TTTATTTCTAAAATATCGATTTTTCACCATCAGGGGATACTCCAACCCCGTTATTTTGAGGGATA
CTCAAACCCGAC
Found at i:68071 original size:159 final size:155
Alignment explanation
Indices: 67638--68108 Score: 493
Period size: 158 Copynumber: 3.0 Consensus size: 155
67628 CATTGATGTT
* ** * *
67638 TTTATTT-TCAAAATAT-GATTTTCTTCACCATCAGGGATACTCCAACCCCGTTATTTTCGAGGG
1 TTTATTTCT-AAAATATCGA-TTT-TTCACCATCAGGGACACTTTAACCCCGTTA-TTTCTAAGG
* * * * ** *
67701 GATACTCTACCCCGACTGTATTTCTAAAATATTAATTTTTCA-TCATCGGGGATACTCCAACCCC
62 GATACTCTAACCCGATTTTATTTCTAAAACATCGATTTTTCACT-ATCGAGGATACTCCAACCCC
* * *
67765 ATTATTTTTGAGAGGATACTCCAAACCCAGC
126 ATTATTTTCGAGGGGATACTCC-AACCCACC
* * * * *
67796 TTTATTTCTAAAATATCGA-TCTTCTACCATCAAGGACA-TTCTAACCCCATTATTTTCGAAGAG
1 TTTATTTCTAAAATATCGATTTTTC-ACCATCAGGGACACTT-TAACCCCGTTA-TTTCTAAGGG
* * * * * * *
67859 ATACTCAAATCCCAATTTTATTTCTAAAACACCGATTTTTCACCATCGAGGATACGCCAACTCCG
63 ATACTCTAA-CCCGATTTTATTTCTAAAACATCGATTTTTCACTATCGAGGATACTCCAACCCCA
*
67924 TTATTTTCGAGGGGATACTCCAACCGTACC
127 TTATTTTCGAGGGGATACTCCAACC-CACC
*
67954 TTTATTTCTAAAATATCGATTTTTCACCATCAGGGGACACTTTAATCCCGTTATTTCTAAGGGAA
1 TTTATTTCTAAAATATCGATTTTTCACCATCA-GGGACACTTTAACCCCGTTATTTCTAAGGG-A
68019 TACTCTAACCTCGATTTTATTTCTAAAACATCGATTTTTCACTATCGAGGATACTCCAACCCCAT
64 TACTCTAACC-CGATTTTATTTCTAAAACATCGATTTTTCACTATCGAGGATACTCCAACCCCAT
* * *
68084 TGTTTTCGAGGGAAAACTCCAACCC
128 TATTTTCGAGGGGATACTCCAACCC
68109 CAATTTTATT
Statistics
Matches: 258, Mismatches: 43, Indels: 24
0.79 0.13 0.07
Matches are distributed among these distances:
156 4 0.02
157 41 0.16
158 113 0.44
159 98 0.38
160 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (155 bp):
TTTATTTCTAAAATATCGATTTTTCACCATCAGGGACACTTTAACCCCGTTATTTCTAAGGGATA
CTCTAACCCGATTTTATTTCTAAAACATCGATTTTTCACTATCGAGGATACTCCAACCCCATTAT
TTTCGAGGGGATACTCCAACCCACC
Found at i:72533 original size:308 final size:306
Alignment explanation
Indices: 71767--72802 Score: 1274
Period size: 309 Copynumber: 3.3 Consensus size: 306
71757 TAGAAAAGTG
* * * * *
71767 GACCCGATAATAACCTAAAACTCGATTCTAAAAAAATTATAAAAATGCCCCTAAGGGATACTTTT
1 GACCCGATGATAACCTAAGACTCGATTCT-AAAAAATTACAAAAATG-CCCTAAGGAATACCTTT
* * *
71832 GACGTAAAATTACCCGATACCCCTAAAGGACTTAAAAGGATAATAGATGAAATGAACCTCTCCTA
64 GACGTAAAAGTACCCGATACCCCTAAAAGACTTAAAAGGATAATAGATGAAATGAACCTATCCTA
* * ** * * * *
71897 AATATCTACCTTCGGTATAAAAGCAAACTCGGTGACAACCTAGGACTTGATTTTTAAAAAATTAC
129 AACATCTACCTTCGGCATAAAAGCGCACCCAGTGACAACCTAGGACTTG-GTTTTAAAAAATTAG
* * * * *
71962 AAAAAAACCCTTAAGGGATACCTTTGACGTAAAAGTACCTGACACCCTTAAAGGACTT-CAAAGG
193 AAAATAACCCTTAGGGGATACCTTTGACGTAAAAGTACCAGATACCC-TAAAGGACTTAAAAAGG
* * *
72026 ATAATTGATGAAATGAACCTATCCTAAATATCTACCTTCGAAATAAAAAC
257 ATAATAGATGAAATGAACCTATCCTAAATATCTACCTTCGACATAAAAGC
* * * * ** * *
72076 GGACCTGATGATAACCTAGGATTTGATTCTAAAAAATTATGAAAATGCCCTTAGGAGATACCTTC
1 -GACCCGATGATAACCTAAGACTCGATTCTAAAAAATTACAAAAATGCCCTAAGGA-ATACCTTT
* * *
72141 GACGTAAAAGTACTCGATACCCCTAAAAGACTTAAAAGAATAATAGATGAAATGAACTTATCCTA
64 GACGTAAAAGTACCCGATACCCCTAAAAGACTTAAAAGGATAATAGATGAAATGAACCTATCCTA
* *
72206 AACATCTACCTTCGGCATAAAAGCGCACCCAGTAACAACCTAGGACTTGGTTCTAAAAAATTATG
129 AACATCTACCTTCGGCATAAAAGCGCACCCAGTGACAACCTAGGACTTGGTTTTAAAAAATTA-G
* *
72271 AAAATATCCC-TAGGGGATACCTTTGACGTAAAAGTACTC-GATACTCCTAAAAGACTTAAAAAG
193 AAAATAACCCTTAGGGGATACCTTTGACGTAAAAGTAC-CAGATAC-CCTAAAGGACTTAAAAAG
* * * *
72334 GATAATAGATAAAATGAACATATCCTAAACACCTACCTTCGACATAAAAGC
256 GATAATAGATGAAATGAACCTATCCTAAATATCTACCTTCGACATAAAAGC
* * * * *
72385 GCACCCAATGACAACCTAAGACTTGGTTCTAAAAAATTACGAAAATGCCCT-AGAGAATACCTTT
1 G-ACCCGATGATAACCTAAGACTCGATTCTAAAAAATTACAAAAATGCCCTAAG-GAATACCTTT
* * *
72449 GACGTAAAAATACTCGATACCCCTAAAAGACTTAAAAAGGATAATAGATAAAATGAACCTAT-CT
64 GACGTAAAAGTACCCGATACCCCTAAAAGACTT-AAAAGGATAATAGATGAAATGAACCTATCCT
72513 AAACATCTACCTTCGGCATAAAAGCGCACCCAGTGACAACCTAGGACTTGGTTTTAAAAAATTAC
128 AAACATCTACCTTCGGCATAAAAGCGCACCCAGTGACAACCTAGGACTTGGTTTTAAAAAATTA-
* *** *
72578 GAAAAT-GCCCTTAGACAATACCTTTGACGTAAAAATACCAGATACCCCTAAAGGACTTAAAAAG
192 GAAAATAACCCTTAGGGGATACCTTTGACGTAAAAGTACCAGATA-CCCTAAAGGACTTAAAAAG
* * * *
72642 GATAATAAATGAAATAAACCTATCCTAAATATCTATCTTCAACATAAAAGC
256 GATAATAGATGAAATGAACCTATCCTAAATATCTACCTTCGACATAAAAGC
* * * *
72693 AGACCCGGTGATAACCTAAGACTCGATTCTAAAAAATTGCAAAAATACCCCTAAGGGATACCTTT
1 -GACCCGATGATAACCTAAGACTCGATTCTAAAAAATTACAAAAAT-GCCCTAAGGAATACCTTT
* * *
72758 GACGTAAAAGTACCCGATACCTCTAAAGGATTTAAAAAGGATAAT
64 GACGTAAAAGTACCCGATACCCCTAAAAGACTT-AAAAGGATAAT
72803 GCTATGAAAC
Statistics
Matches: 629, Mismatches: 83, Indels: 29
0.85 0.11 0.04
Matches are distributed among these distances:
307 4 0.01
308 294 0.47
309 306 0.49
310 25 0.04
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (306 bp):
GACCCGATGATAACCTAAGACTCGATTCTAAAAAATTACAAAAATGCCCTAAGGAATACCTTTGA
CGTAAAAGTACCCGATACCCCTAAAAGACTTAAAAGGATAATAGATGAAATGAACCTATCCTAAA
CATCTACCTTCGGCATAAAAGCGCACCCAGTGACAACCTAGGACTTGGTTTTAAAAAATTAGAAA
ATAACCCTTAGGGGATACCTTTGACGTAAAAGTACCAGATACCCTAAAGGACTTAAAAAGGATAA
TAGATGAAATGAACCTATCCTAAATATCTACCTTCGACATAAAAGC
Found at i:72800 original size:155 final size:152
Alignment explanation
Indices: 71481--72802 Score: 1216
Period size: 155 Copynumber: 8.5 Consensus size: 152
71471 AAAAGGCTAA
* * * * * **
71481 ATTCAAAAAAATTACGAAAATGCCCTTAGGGGATACTTTTGACATAAAAGTACCTAATACCCCTA
1 ATTCTAAAAAATTACGAAAAT-CCCCTAAGGGATACCTTTGACGTAAAAGTACCCGATACCCCTA
* ** * * ** * * * *
71546 AAGGAC-CACAATAGGATTTTAAAAGGGATGAACCTATCCTAAAAACCCACCTTCGGCATAAAAA
65 AAGGACTTA-AA-AGGATAATAGATGAAATGAACCTATCCTAAACATCTACCTTCGGCATAAAAG
* * ** *
71610 CAGACCTGGTGATAACCCCAGACTCG
128 C-GACCCGGTGACAACCTAAGACTTG
* * * **
71636 ATTCTGAAGAAA-TACGAAAATGCCCCTAAAGGATACCTTTGACGTAAAAGTTCCCGGCACCCCT
1 ATTCT-AAAAAATTACGAAAAT-CCCCTAAGGGATACCTTTGACGTAAAAGTACCCGATACCCCT
* * ** * * * * * *
71700 AAAGAACTTTAAGAGGAT--TAGAAAAAGGATGAACCTATCCTAAAGACCCACCTTTGGTAGAAA
64 AAAGGAC-TTAAAAGGATAATAGATGAA--ATGAACCTATCCTAAACATCTACCTTCGGCATAAA
* * * * * *
71763 AGTGGACCCGATAATAACCTAAAACTCG
126 AG-CGACCCGGTGACAACCTAAGACTTG
** * *
71791 ATTCTAAAAAAATTATAAAAATGCCCCTAAGGGATACTTTTGACGTAAAATTACCCGATACCCCT
1 ATTCT-AAAAAATTACGAAAAT-CCCCTAAGGGATACCTTTGACGTAAAAGTACCCGATACCCCT
* * *
71856 AAAGGACTTAAAAGGATAATAGATGAAATGAACCTCTCCTAAATATCTACCTTCGGTATAAAAGC
64 AAAGGACTTAAAAGGATAATAGATGAAATGAACCTATCCTAAACATCTACCTTCGGCATAAAAGC
* * *
71921 AAACTCGGTGACAACCTAGGACTTG
129 -GACCCGGTGACAACCTAAGACTTG
* * * * * * *
71946 ATTTTTAAAAAATTACAAAAAAACCCTTAAGGGATACCTTTGACGTAAAAGTACCTGACACCCTT
1 A-TTCTAAAAAATTAC-GAAAATCCCCTAAGGGATACCTTTGACGTAAAAGTACCCGATACCCCT
* * * ** *
72011 AAAGGACTTCAAAGGATAATTGATGAAATGAACCTATCCTAAATATCTACCTTCGAAATAAAAAC
64 AAAGGACTTAAAAGGATAATAGATGAAATGAACCTATCCTAAACATCTACCTTCGGCATAAAAGC
* * * * *
72076 GGACCTGATGATAACCTAGGATTTG
129 -GACCCGGTGACAACCTAAGACTTG
* * * * *
72101 ATTCTAAAAAATTATGAAAATGCCCTTAGGAGATACCTTCGACGTAAAAGTACTCGATACCCCTA
1 ATTCTAAAAAATTACGAAAATCCCCTAAGG-GATACCTTTGACGTAAAAGTACCCGATACCCCTA
* * *
72166 AAAGACTTAAAAGAATAATAGATGAAATGAACTTATCCTAAACATCTACCTTCGGCATAAAAGCG
65 AAGGACTTAAAAGGATAATAGATGAAATGAACCTATCCTAAACATCTACCTTCGGCATAAAAGCG
* * *
72231 CACCCAGTAACAACCTAGGACTTG
130 -ACCCGGTGACAACCTAAGACTTG
* * * * * *
72255 GTTCTAAAAAATTATGAAAATATCCCTAGGGGATACCTTTGACGTAAAAGTACTCGATACTCCTA
1 ATTCTAAAAAATTACGAAAAT-CCCCTAAGGGATACCTTTGACGTAAAAGTACCCGATACCCCTA
* * * * *
72320 AAAGACTTAAAAAGGATAATAGATAAAATGAACATATCCTAAACACCTACCTTCGACATAAAAGC
65 AAGGACTT-AAAAGGATAATAGATGAAATGAACCTATCCTAAACATCTACCTTCGGCATAAAAGC
**
72385 GCACCCAATGACAACCTAAGACTTG
129 G-ACCCGGTGACAACCTAAGACTTG
* * * * *
72410 GTTCTAAAAAATTACGAAAATGCCCT-AGAGAATACCTTTGACGTAAAAATACTCGATACCCCTA
1 ATTCTAAAAAATTACGAAAATCCCCTAAG-GGATACCTTTGACGTAAAAGTACCCGATACCCCTA
* *
72474 AAAGACTTAAAAAGGATAATAGATAAAATGAACCTAT-CTAAACATCTACCTTCGGCATAAAAGC
65 AAGGACTT-AAAAGGATAATAGATGAAATGAACCTATCCTAAACATCTACCTTCGGCATAAAAGC
* *
72538 GCACCCAGTGACAACCTAGGACTTG
129 G-ACCCGGTGACAACCTAAGACTTG
* * * * ** * *
72563 GTTTTAAAAAATTACGAAAATGCCCTTAGACAATACCTTTGACGTAAAAATACCAGATACCCCTA
1 ATTCTAAAAAATTACGAAAATCCCCTAAG-GGATACCTTTGACGTAAAAGTACCCGATACCCCTA
* * * * **
72628 AAGGACTTAAAAAGGATAATAAATGAAATAAACCTATCCTAAATATCTATCTTCAACATAAAAGC
65 AAGGACTT-AAAAGGATAATAGATGAAATGAACCTATCCTAAACATCTACCTTCGGCATAAAAGC
* *
72693 AGACCCGGTGATAACCTAAGACTCG
129 -GACCCGGTGACAACCTAAGACTTG
* * *
72718 ATTCTAAAAAATTGCAAAAATACCCCTAAGGGATACCTTTGACGTAAAAGTACCCGATACCTCTA
1 ATTCTAAAAAATTACGAAAAT-CCCCTAAGGGATACCTTTGACGTAAAAGTACCCGATACCCCTA
*
72783 AAGGATTTAAAAAGGATAAT
65 AAGGACTT-AAAAGGATAAT
72803 GCTATGAAAC
Statistics
Matches: 984, Mismatches: 162, Indels: 42
0.83 0.14 0.04
Matches are distributed among these distances:
153 89 0.09
154 313 0.32
155 504 0.51
156 71 0.07
157 7 0.01
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (152 bp):
ATTCTAAAAAATTACGAAAATCCCCTAAGGGATACCTTTGACGTAAAAGTACCCGATACCCCTAA
AGGACTTAAAAGGATAATAGATGAAATGAACCTATCCTAAACATCTACCTTCGGCATAAAAGCGA
CCCGGTGACAACCTAAGACTTG
Found at i:74471 original size:24 final size:24
Alignment explanation
Indices: 74425--74471 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
74415 TAGTACTGGT
* ** *
74425 TTGTTGTTTTTGCTTGTTGTTCTG
1 TTGTTGTCTTTGCTTCCTATTCTG
74449 TTGTTGTCTTTGCTTCCTATTCT
1 TTGTTGTCTTTGCTTCCTATTCT
74472 TCTTACTGTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.02, C:0.15, G:0.19, T:0.64
Consensus pattern (24 bp):
TTGTTGTCTTTGCTTCCTATTCTG
Found at i:74596 original size:25 final size:25
Alignment explanation
Indices: 74565--74616 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
74555 TTGCTGTTTA
*
74565 CTGCTGTTTCTTCCTCCATTAACTG
1 CTGCTGTTTCTTCCTCCATCAACTG
*
74590 CTGCTGTTTCTTCTTCCATCAACTG
1 CTGCTGTTTCTTCCTCCATCAACTG
74615 CT
1 CT
74617 ATCGTGTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.12, C:0.33, G:0.12, T:0.44
Consensus pattern (25 bp):
CTGCTGTTTCTTCCTCCATCAACTG
Found at i:74722 original size:23 final size:21
Alignment explanation
Indices: 74684--74728 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
74674 CACTTTGCTG
* *
74684 TTTTTTCTTTTGTTTTTGTCT
1 TTTTTTCTGTTGTTTTTCTCT
74705 TTTTTTCATGTTGCTTTTTCTCT
1 TTTTTTC-TGTTG-TTTTTCTCT
74728 T
1 T
74729 CTCCCTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 4 0.20
23 9 0.45
ACGTcount: A:0.02, C:0.13, G:0.09, T:0.76
Consensus pattern (21 bp):
TTTTTTCTGTTGTTTTTCTCT
Found at i:75647 original size:166 final size:163
Alignment explanation
Indices: 75367--75919 Score: 540
Period size: 160 Copynumber: 3.4 Consensus size: 163
75357 TTCTCAAAAA
* *
75367 AAAAAAG-GTAATTTCAATAAAAAAATCAAAAACTCATGAAAATGAATTAATTTTTTAAAACTAA
1 AAAAAAGAG-AATTTCAA-GAAAAAATCAAAAACTCATGAAAATGAATTAATTTTTGAAAACTAA
* * * * *
75431 ATTAAT-CGAAATAAATAATGATGTTTAATGAATTTTAAAAATTGAAAACC-AGAAAAATCTCCT
64 ATTAATATGAAATAAATAATAATATTTAATGAAATTTAAAAATTAAAAACCAAGAAAAATCTCCT
75494 TGAAAAAAATTTACGGAGAAGAAAAAAACTATATTTC
129 TGAAAAAAATTTAC-GAGAAGAAAAAAAC-ATATTTC
* * * * * * *
75531 GAAAAAATGAGACTTTCAAGAAAAAATGAAAAACTTATAAAAATAAATGAATTTTTGAAAACTGA
1 -AAAAAA-GAGAATTTCAAGAAAAAATCAAAAACTCATGAAAATGAATTAATTTTTGAAAACTAA
* *
75596 ATTAATATAAAATAAATAATAATATTTGATGAAATTTAAAAATTAAAAACCAAGAAAAA--TCCT
64 ATTAATATGAAATAAATAATAATATTTAATGAAATTTAAAAATTAAAAACCAAGAAAAATCTCCT
* * *
75659 CTCAAAAAAATTTAC-A-AAGTAAAAAATACCGTATTTT
129 -TGAAAAAAATTTACGAGAAG-AAAAAA-A-CATATTTC
* * * * *** * *
75696 AAAAAA-A-AAATT-GAGGAAAATTTTTAAACTCACGAAGATGAATTAATTTTTGAAAACTAAAT
1 AAAAAAGAGAATTTCAAGAAAAAATCAAAAACTCATGAAAATGAATTAATTTTTGAAAACTAAAT
* * *
75758 TAACATGAAATAAATAATAATATTTCATGAAATTTAAAAATTAAAAACCAAGAAAAATC-CATTC
66 TAATATGAAATAAATAATAATATTTAATGAAATTTAAAAATTAAAAACCAAGAAAAATCTCCTT-
*
75822 G-AACAAATTTAC--GAAGTAAAAAACACAGTATTTC
130 GAAAAAAATTTACGAGAAG-AAAAAA-ACA-TATTTC
** *
75856 AAAAAAGAAGAAATTTCAAGGAAAAAATCAAAAACTTGTGAAGATGAATTAATTTTTGAAAACT
1 AAAAAAG-AG-AATTTCAA-GAAAAAATCAAAAACTCATGAAAATGAATTAATTTTTGAAAACT
75920 GATTTGATGA
Statistics
Matches: 316, Mismatches: 53, Indels: 37
0.78 0.13 0.09
Matches are distributed among these distances:
159 1 0.00
160 124 0.39
161 5 0.02
162 2 0.01
163 3 0.01
164 17 0.05
165 61 0.19
166 95 0.30
167 8 0.03
ACGTcount: A:0.55, C:0.08, G:0.09, T:0.28
Consensus pattern (163 bp):
AAAAAAGAGAATTTCAAGAAAAAATCAAAAACTCATGAAAATGAATTAATTTTTGAAAACTAAAT
TAATATGAAATAAATAATAATATTTAATGAAATTTAAAAATTAAAAACCAAGAAAAATCTCCTTG
AAAAAAATTTACGAGAAGAAAAAAACATATTTC
Found at i:88456 original size:20 final size:20
Alignment explanation
Indices: 88433--88487 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
88423 TCCAAAACCT
88433 ATAATGTATTGATA-AAATGA
1 ATAATGTATTGATATAAAT-A
*
88453 ATAATGTATCGATATAAATA
1 ATAATGTATTGATATAAATA
*
88473 GTAAATGTATTGATA
1 AT-AATGTATTGATA
88488 CATTTATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.47, C:0.02, G:0.15, T:0.36
Consensus pattern (20 bp):
ATAATGTATTGATATAAATA
Found at i:99349 original size:13 final size:13
Alignment explanation
Indices: 99331--99356 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
99321 CAATTTTTTG
99331 TGTATCGATACAT
1 TGTATCGATACAT
99344 TGTATCGATACAT
1 TGTATCGATACAT
99357 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:101814 original size:4 final size:4
Alignment explanation
Indices: 101807--101844 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
101797 ATTAAAAAAA
101807 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG -AAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
101845 ATAAGAATCA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.09
4 30 0.91
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:102549 original size:16 final size:16
Alignment explanation
Indices: 102515--102656 Score: 65
Period size: 15 Copynumber: 9.2 Consensus size: 16
102505 AGTTTTAAAT
*
102515 ATATTTATATAATTATA
1 ATATTTATA-AAATATA
102532 ATATTTATAAAATATA
1 ATATTTATAAAATATA
* *
102548 ATA-TAATATAATATGA
1 ATATTTATAAAATAT-A
* *
102564 ATA--TATATATTA-A
1 ATATTTATAAAATATA
* *
102577 ATTTTTATAATATA-A
1 ATATTTATAAAATATA
*
102592 ATTATTTATATAATA-A
1 A-TATTTATAAAATATA
*
102608 AT-TTATATAAATATAAA
1 ATATT-TATAAA-ATATA
102625 ATATTT-T-AAATAT-
1 ATATTTATAAAATATA
102638 A-A-TTATAAAATAATA
1 ATATTTATAAAAT-ATA
102653 ATAT
1 ATAT
102657 ATAAATATGA
Statistics
Matches: 97, Mismatches: 14, Indels: 28
0.70 0.10 0.20
Matches are distributed among these distances:
11 2 0.02
12 2 0.02
13 8 0.08
14 7 0.07
15 33 0.34
16 30 0.31
17 13 0.13
18 2 0.02
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.46
Consensus pattern (16 bp):
ATATTTATAAAATATA
Found at i:102585 original size:13 final size:14
Alignment explanation
Indices: 102567--102639 Score: 56
Period size: 16 Copynumber: 4.6 Consensus size: 14
102557 AATATGAATA
102567 TATATATTAAATTTT
1 TATATA-TAAATTTT
102582 TATAATATAAATTATT
1 TAT-ATATAAATT-TT
102598 TATATAATAAATTTAT
1 TATAT-ATAAATTT-T
*
102614 ATAAATATAAAATATTT
1 -TATATAT-AAAT-TTT
*
102631 TAAATATAA
1 TATATATAA
102640 TTATAAAATA
Statistics
Matches: 50, Mismatches: 1, Indels: 14
0.77 0.02 0.22
Matches are distributed among these distances:
15 14 0.28
16 25 0.50
17 9 0.18
18 2 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TATATATAAATTTT
Found at i:102609 original size:31 final size:31
Alignment explanation
Indices: 102512--102630 Score: 104
Period size: 32 Copynumber: 3.9 Consensus size: 31
102502 TATAGTTTTA
* *
102512 AATATATTTATATAAT-TATAA-TATTTATAA
1 AATAAATTTATATAATATA-AATTATTTATAT
* *
102542 AATATAATATAATATAATATGAA-TA--TATAT
1 AATA-AAT-TTATATAATATAAATTATTTATAT
* *
102572 ATTAAATTTTTATAATATAAATTATTTATAT
1 AATAAATTTATATAATATAAATTATTTATAT
*
102603 AATAAATTTATATAAATATAAAATATTT
1 AATAAATTTATAT-AATATAAATTATTT
102631 TAAATATAAT
Statistics
Matches: 71, Mismatches: 11, Indels: 12
0.76 0.12 0.13
Matches are distributed among these distances:
28 11 0.15
29 5 0.07
30 11 0.15
31 18 0.25
32 25 0.35
33 1 0.01
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (31 bp):
AATAAATTTATATAATATAAATTATTTATAT
Found at i:102657 original size:54 final size:54
Alignment explanation
Indices: 102536--102694 Score: 129
Period size: 54 Copynumber: 3.0 Consensus size: 54
102526 ATTATAATAT
* *
102536 TTATAAAAT-ATAATATAATATAATATGA-ATATATATATTAAATT-TT---TATAA
1 TTATAAAATAATAATAT-ATA-AATATGATAAAAATATA-TAAATTATTAAATATAA
* * * * * *
102587 -TATAAATTATTTATATAATAAAT-TTATATAAATATA-AAATATTTTAAATATAA
1 TTATAAAATAATAATAT-ATAAATATGATAAAAATATATAAAT-TATTAAATATAA
*
102640 TTATAAAATAATAATATATAAATATGATAAAAATATATAAATTATTAAATCTAA
1 TTATAAAATAATAATATATAAATATGATAAAAATATATAAATTATTAAATATAA
102694 T
1 T
102695 GTTAACTATA
Statistics
Matches: 86, Mismatches: 12, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
48 4 0.05
49 3 0.03
50 20 0.23
51 9 0.10
53 11 0.13
54 35 0.41
55 4 0.05
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (54 bp):
TTATAAAATAATAATATATAAATATGATAAAAATATATAAATTATTAAATATAA
Found at i:102663 original size:8 final size:8
Alignment explanation
Indices: 102611--102681 Score: 53
Period size: 8 Copynumber: 9.1 Consensus size: 8
102601 ATAATAAATT
102611 TATATAAA
1 TATATAAA
102619 TATA-AAA
1 TATATAAA
* *
102626 TATTTTAA
1 TATATAAA
*
102634 -ATATAAT
1 TATATAAA
102641 TATA-AAA
1 TATATAAA
102648 TA-AT-AA
1 TATATAAA
102654 TATATAAA
1 TATATAAA
102662 TATGATAAAAA
1 TAT-AT--AAA
102673 TATATAAA
1 TATATAAA
102681 T
1 T
102682 TATTAAATCT
Statistics
Matches: 49, Mismatches: 6, Indels: 16
0.69 0.08 0.23
Matches are distributed among these distances:
6 5 0.10
7 16 0.33
8 18 0.37
9 2 0.04
10 2 0.04
11 6 0.12
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (8 bp):
TATATAAA
Found at i:102688 original size:27 final size:29
Alignment explanation
Indices: 102586--102694 Score: 77
Period size: 27 Copynumber: 3.7 Consensus size: 29
102576 AATTTTTATA
*
102586 ATATAAATTATTTATATAATAAATTTATATAAAT
1 ATATAAATTA-TTAAAT-AT-AA-TTATA-AAAT
*
102620 ATA-AAATATTTTAAATATAATTATAAAAT
1 ATATAAAT-TATTAAATATAATTATAAAAT
*
102649 A-AT-AA-TATATAAATATGA-TA-AAAAT
1 ATATAAATTAT-TAAATATAATTATAAAAT
*
102674 ATATAAATTATTAAATCTAAT
1 ATATAAATTATTAAATATAAT
102695 GTTAACTATA
Statistics
Matches: 62, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
25 6 0.10
26 6 0.10
27 17 0.27
28 6 0.10
29 5 0.08
30 5 0.08
31 2 0.03
32 2 0.03
33 9 0.15
34 4 0.06
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (29 bp):
ATATAAATTATTAAATATAATTATAAAAT
Found at i:102814 original size:12 final size:11
Alignment explanation
Indices: 102776--102814 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
102766 AACTATTGTG
102776 ATTTTTTATTT
1 ATTTTTTATTT
* *
102787 ATTTTTAAGTT
1 ATTTTTTATTT
102798 ATTTTTTATTT
1 ATTTTTTATTT
*
102809 AGTTTT
1 ATTTTT
102815 ACGCAAAATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (11 bp):
ATTTTTTATTT
Found at i:104588 original size:23 final size:24
Alignment explanation
Indices: 104562--104609 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
104552 TAAAATACTT
104562 AAATA-TATCTAATTT-TTTTATTA
1 AAATATTAT-TAATTTATTTTATTA
*
104585 AAATATTATTTATTTATTTTATTA
1 AAATATTATTAATTTATTTTATTA
104609 A
1 A
104610 TTCTTAAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (24 bp):
AAATATTATTAATTTATTTTATTA
Found at i:104951 original size:22 final size:22
Alignment explanation
Indices: 104901--104952 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
104891 AAGTATTAAA
*
104901 AAATATTTTTATAATAATATTT
1 AAATATTTTAATAATAATATTT
**
104923 ATTTATTTTAATAATTAA-ATTT
1 AAATATTTTAATAA-TAATATTT
104945 AAATATTT
1 AAATATTT
104953 ATTCAAATCA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
AAATATTTTAATAATAATATTT
Found at i:105474 original size:32 final size:33
Alignment explanation
Indices: 105436--105497 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
105426 TTGATTCAAT
105436 AATTTATAAAACTCCGAACATCTA-AATTAAAA
1 AATTTATAAAACTCCGAACATCTATAATTAAAA
**
105468 AATTTATAAAACTCTTAACATCTATAATTA
1 AATTTATAAAACTCCGAACATCTATAATTA
105498 TCGATATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 22 0.81
33 5 0.19
ACGTcount: A:0.50, C:0.15, G:0.02, T:0.34
Consensus pattern (33 bp):
AATTTATAAAACTCCGAACATCTATAATTAAAA
Found at i:106240 original size:27 final size:27
Alignment explanation
Indices: 106168--106249 Score: 73
Period size: 27 Copynumber: 3.0 Consensus size: 27
106158 TATATTAAAA
*
106168 ATTATATTATT-ATGTTAAA-TATATATT
1 ATTAT-TTATTAATATTAAATTATAT-TT
* *
106195 -TT-TTTATTAATTTTCAATTATATTT
1 ATTATTTATTAATATTAAATTATATTT
106220 ATTATTTATTAATATTAAATTTAATATTT
1 ATTATTTATTAATATTAAA-TT-ATATTT
106249 A
1 A
106250 AATATTAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
24 5 0.11
25 9 0.20
26 9 0.20
27 13 0.29
28 2 0.04
29 7 0.16
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (27 bp):
ATTATTTATTAATATTAAATTATATTT
Found at i:106241 original size:22 final size:20
Alignment explanation
Indices: 106211--106258 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
106201 TTAATTTTCA
* *
106211 ATTATATTTATTATTTATTAAT
1 ATTAAATTTAATATTTA--AAT
106233 ATTAAATTTAATATTTAAAT
1 ATTAAATTTAATATTTAAAT
106253 ATTAAA
1 ATTAAA
106259 AAATTTAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
22 15 0.62
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTAAATTTAATATTTAAAT
Found at i:106245 original size:12 final size:14
Alignment explanation
Indices: 106226--106257 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
106216 ATTTATTATT
106226 TATTAATA-TTAAA
1 TATTAATATTTAAA
106239 T-TTAATATTTAAA
1 TATTAATATTTAAA
106252 TATTAA
1 TATTAA
106258 AAAATTTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 6 0.35
13 7 0.41
14 4 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TATTAATATTTAAA
Found at i:106542 original size:29 final size:27
Alignment explanation
Indices: 106510--106625 Score: 82
Period size: 29 Copynumber: 4.2 Consensus size: 27
106500 GATTTAAAAT
106510 TTTAAATTATTATTTATATATTAAATAAA
1 TTTAAA-TATT-TTTATATATTAAATAAA
* *
106539 TTTAAAAATATTTT-CATA-TAAAT-AA
1 TTTAAATAT-TTTTATATATTAAATAAA
*
106564 -TTATATATTTTTATA-ATTAAATTTAAA
1 TTTAAATATTTTTATATATTAAA--TAAA
*
106591 -TTAAAAATATTTTATATATTAAATAATAA
1 TTTAAATAT-TTTTATATATTAAAT-A-AA
106620 TTTAAA
1 TTTAAA
106626 CTGAACCAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 21
0.71 0.07 0.22
Matches are distributed among these distances:
23 5 0.07
24 11 0.16
25 2 0.03
26 6 0.09
27 12 0.17
28 13 0.19
29 15 0.22
30 5 0.07
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (27 bp):
TTTAAATATTTTTATATATTAAATAAA
Found at i:106595 original size:51 final size:47
Alignment explanation
Indices: 106514--106608 Score: 129
Period size: 51 Copynumber: 1.9 Consensus size: 47
106504 TAAAATTTTA
106514 AATTATTATTTATATATTAAATAAATTTAAAAATATTTTCATATAAAT
1 AATTATTATTTATATATTAAATAAATTTAAAAATATTTT-ATATAAAT
*
106562 AATTATATATTTTTATAATTAAATTTAAA-TTAAAAATATTTTATATA
1 AATTAT-TATTTATAT-ATTAAA--TAAATTTAAAAATATTTTATATA
106609 TTAAATAATA
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
48 6 0.14
49 8 0.19
50 11 0.26
51 13 0.31
52 4 0.10
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (47 bp):
AATTATTATTTATATATTAAATAAATTTAAAAATATTTTATATAAAT
Found at i:115878 original size:35 final size:36
Alignment explanation
Indices: 115830--115932 Score: 122
Period size: 35 Copynumber: 2.9 Consensus size: 36
115820 AATTCAGTAG
115830 AAAAGCAACACTTTCAAATTAAACCCAATTCAACA-
1 AAAAGCAACACTTTCAAATTAAACCCAATTCAACAC
* * *
115865 AAAAGAAAGACTTTTCAAATCAAA-CCAATTCAACAC
1 AAAAGCAACAC-TTTCAAATTAAACCCAATTCAACAC
* *
115901 AAAATCAACAGTTTC-AATTGAAACCCAATTCA
1 AAAAGCAACACTTTCAAATT-AAACCCAATTCA
115933 GTAAAAAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
34 3 0.05
35 27 0.48
36 26 0.46
ACGTcount: A:0.50, C:0.23, G:0.05, T:0.21
Consensus pattern (36 bp):
AAAAGCAACACTTTCAAATTAAACCCAATTCAACAC
Found at i:116737 original size:2 final size:2
Alignment explanation
Indices: 116730--116760 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
116720 TCTTAATTTA
116730 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
116761 AATTTATAGT
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:118239 original size:49 final size:50
Alignment explanation
Indices: 118162--118258 Score: 144
Period size: 49 Copynumber: 2.0 Consensus size: 50
118152 ATAAGAAGTA
*
118162 TAATTTCATTAAAATATTTTTATTAAATATATTTATTTACGTAA-AAAATT
1 TAATTTCATTAAAATATTTTTATTAAATAAATTTATTTAC-TAATAAAATT
* *
118212 TAATTTTATTAAAA-ATTTTTGTTAAATAAATTTATTTACTAATAAAA
1 TAATTTCATTAAAATATTTTTATTAAATAAATTTATTTACTAATAAAA
118259 AAAAGTGTAC
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
48 3 0.07
49 27 0.63
50 13 0.30
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.49
Consensus pattern (50 bp):
TAATTTCATTAAAATATTTTTATTAAATAAATTTATTTACTAATAAAATT
Found at i:118677 original size:11 final size:11
Alignment explanation
Indices: 118658--118711 Score: 58
Period size: 11 Copynumber: 5.0 Consensus size: 11
118648 TAGGTAAGAA
118658 TATTAATATAT
1 TATTAATATAT
*
118669 TATTTATAT-T
1 TATTAATATAT
118679 TATT-ATATAT
1 TATTAATATAT
*
118689 TATAAATATAT
1 TATTAATATAT
*
118700 TAATAAATATAT
1 T-ATTAATATAT
118712 AAATATAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
9 4 0.11
10 9 0.24
11 15 0.39
12 10 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TATTAATATAT
Found at i:118697 original size:20 final size:21
Alignment explanation
Indices: 118658--118718 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 21
118648 TAGGTAAGAA
**
118658 TATTAATATATTATTTATAT-T
1 TATT-ATATATTATAAATATAT
118679 TATTATATATTATAAATATAT
1 TATTATATATTATAAATATAT
* *
118700 TAATAAATA-TATAAATATA
1 TATTATATATTATAAATATA
118719 ATAATTTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 23 0.66
21 12 0.34
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TATTATATATTATAAATATAT
Found at i:118707 original size:12 final size:12
Alignment explanation
Indices: 118683--118721 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
118673 TATATTTATT
118683 ATATATT-ATAA
1 ATATATTAATAA
118694 ATATATTAATAA
1 ATATATTAATAA
*
118706 ATATATAAATATA
1 ATATATTAATA-A
118719 ATA
1 ATA
118722 ATTTATTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 7 0.28
12 14 0.56
13 4 0.16
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATTAATAA
Found at i:119338 original size:16 final size:17
Alignment explanation
Indices: 119309--119340 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
119299 CTAAAACAGT
119309 AAAATTACTTAAGGTAC
1 AAAATTACTTAAGGTAC
119326 AAAATTA-TTAAGGTA
1 AAAATTACTTAAGGTA
119341 AATAAGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.31
Consensus pattern (17 bp):
AAAATTACTTAAGGTAC
Found at i:120491 original size:2 final size:2
Alignment explanation
Indices: 120479--120512 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
120469 AGTAATTCAG
*
120479 CT CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
120513 TATTATATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:120769 original size:43 final size:43
Alignment explanation
Indices: 120703--120785 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
120693 TTGGTTTTCT
*
120703 TTTCATTCTCTCAGCTTCTTGTTAATTTCCTCTTGTTATTACC
1 TTTCATTCTCTCAGCTTCGTGTTAATTTCCTCTTGTTATTACC
*
120746 TTTCATTCTCTCAGCTTCGTGTTAATTTCTTCTTGTTATT
1 TTTCATTCTCTCAGCTTCGTGTTAATTTCCTCTTGTTATT
120786 GCTATTGTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.13, C:0.23, G:0.08, T:0.55
Consensus pattern (43 bp):
TTTCATTCTCTCAGCTTCGTGTTAATTTCCTCTTGTTATTACC
Found at i:120965 original size:3 final size:3
Alignment explanation
Indices: 120957--120989 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
120947 TGGCTCGACG
120957 GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT
1 GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT
120990 ACTACTCCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.33, T:0.33
Consensus pattern (3 bp):
GCT
Found at i:122817 original size:21 final size:22
Alignment explanation
Indices: 122774--122818 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
122764 TTGAAAAAGT
* *
122774 TATAAAAAACATATTTAATAAA
1 TATAAAAAACATATGTAAAAAA
*
122796 TATAAAAAATA-ATGTAAAAAA
1 TATAAAAAACATATGTAAAAAA
122817 TA
1 TA
122819 CGATATTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (22 bp):
TATAAAAAACATATGTAAAAAA
Found at i:124687 original size:2 final size:2
Alignment explanation
Indices: 124680--124714 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
124670 GAGCTCTCAA
124680 AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
124715 TTCAGAAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:125365 original size:13 final size:14
Alignment explanation
Indices: 125347--125384 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
125337 ACATTGATAC
*
125347 AAAATATAAAAT-A
1 AAAATAGAAAATGA
125360 AAAATAGAAAATGA
1 AAAATAGAAAATGA
*
125374 AAAAAAGAAAA
1 AAAATAGAAAA
125385 AGCTATGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (14 bp):
AAAATAGAAAATGA
Found at i:125733 original size:11 final size:12
Alignment explanation
Indices: 125717--125752 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
125707 AGCATCAGCC
125717 AAAGAAAAAA-A
1 AAAGAAAAAAGA
125728 AAAGAAAAAAGA
1 AAAGAAAAAAGA
125740 AAA-AAAAAAGA
1 AAAGAAAAAAGA
125751 AA
1 AA
125753 CCTTCTACGC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAAGA
Found at i:125740 original size:18 final size:18
Alignment explanation
Indices: 125717--125752 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
125707 AGCATCAGCC
125717 AAAGAAAAAAAAAAGAAA
1 AAAGAAAAAAAAAAGAAA
125735 AAAGAAAAAAAAAAGAAA
1 AAAGAAAAAAAAAAGAAA
125753 CCTTCTACGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (18 bp):
AAAGAAAAAAAAAAGAAA
Found at i:133456 original size:27 final size:27
Alignment explanation
Indices: 133420--133552 Score: 146
Period size: 27 Copynumber: 5.0 Consensus size: 27
133410 ACAGGAGGAT
* * *
133420 GAGGTAGTTGTGTTGGTGCATGTGGAG
1 GAGGTGGTTGTGTTGGTGGAGGTGGAG
133447 GAGGTGGTTGTGTTGGTGGAGGTGGAG
1 GAGGTGGTTGTGTTGGTGGAGGTGGAG
* *
133474 GTGGTGGTTGAGTTGGTGGAGGTGGAG
1 GAGGTGGTTGTGTTGGTGGAGGTGGAG
* * *
133501 GTGGTGGCTGTGTTGGGGGAGGTGGAG
1 GAGGTGGTTGTGTTGGTGGAGGTGGAG
* * *
133528 GTGGAGG-TG-G-AGGTGGAGGTGGAG
1 GAGGTGGTTGTGTTGGTGGAGGTGGAG
133552 G
1 G
133553 TGGAGGTGAA
Statistics
Matches: 95, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
24 13 0.14
25 1 0.01
26 2 0.02
27 79 0.83
ACGTcount: A:0.12, C:0.02, G:0.59, T:0.27
Consensus pattern (27 bp):
GAGGTGGTTGTGTTGGTGGAGGTGGAG
Found at i:133472 original size:6 final size:6
Alignment explanation
Indices: 133461--133560 Score: 101
Period size: 6 Copynumber: 15.7 Consensus size: 6
133451 TGGTTGTGTT
* * * *
133461 GGTGGA GGTGGA GGTGGT GGTTGAGTT GGTGGA GGTGGA GGTGGT GGCTGTGTT
1 GGTGGA GGTGGA GGTGGA GG-TG-G-A GGTGGA GGTGGA GGTGGA GG-TG-G-A
*
133515 GGGGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTG
1 GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTGGA GGTG
133561 AAGGCAGTGA
Statistics
Matches: 82, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
6 65 0.79
7 6 0.07
8 5 0.06
9 6 0.07
ACGTcount: A:0.12, C:0.01, G:0.64, T:0.23
Consensus pattern (6 bp):
GGTGGA
Found at i:133979 original size:6 final size:6
Alignment explanation
Indices: 133944--133978 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
133934 GCTTGAAAGA
*
133944 TCTTCC TCTTCC TCTTCC TCTTCC TCTTCA TCTTC
1 TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TCTTC
133979 AAATGCATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.03, C:0.46, G:0.00, T:0.51
Consensus pattern (6 bp):
TCTTCC
Found at i:136081 original size:3 final size:3
Alignment explanation
Indices: 136073--136115 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
136063 ATTAATGAAA
136073 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
136116 GTAAGAAGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Done.