Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008281.1 Hibiscus syriacus cultivar Beakdansim tig00110943_pilon, whole genome shotgun sequence
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: 2054746
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 10
Found at i:287 original size:19 final size:19
Alignment explanation
Indices: 224--287 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
214 GGAAATGGCT
*
224 ATCGCAATGCAAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
243 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
257 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
276 ATCGCAATGCGA
1 ATCGCAATGCGA
288 TTTGTGTTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
14 10 0.28
15 1 0.03
16 2 0.06
17 1 0.03
18 1 0.03
19 21 0.58
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:318 original size:14 final size:14
Alignment explanation
Indices: 299--356 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
289 TTGTGTTTCG
299 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
313 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
329 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
345 CGTTGCGATTTT
1 CGTTGCGATTTT
357 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:333 original size:32 final size:33
Alignment explanation
Indices: 294--372 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
284 GCGATTTGTG
294 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
326 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
359 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
373 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 27 0.60
33 18 0.40
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:371 original size:19 final size:17
Alignment explanation
Indices: 294--372 Score: 62
Period size: 14 Copynumber: 4.8 Consensus size: 17
284 GCGATTTGTG
294 TTTCGCGTTGCGATTT--
1 TTTCGC-TTGCGATTTCA
*
310 TGTCG-TTGCGATTTCA
1 TTTCGCTTGCGATTTCA
326 TTTCGCGTTGCGATTT--
1 TTTCGC-TTGCGATTTCA
*
342 TGTCG-TTGCGATTTTCA
1 TTTCGCTTGCGA-TTTCA
359 TTTCGCATTGCGAT
1 TTTCGC-TTGCGAT
373 AGCCATTTCC
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
14 15 0.30
15 3 0.06
16 12 0.24
17 4 0.08
18 10 0.20
19 6 0.12
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (17 bp):
TTTCGCTTGCGATTTCA
Found at i:2413 original size:19 final size:19
Alignment explanation
Indices: 2389--2490 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
2379 AAAACAGACT
* *
2389 ATCGCAACGCGAAATGGAA
1 ATCGCAATGCGAAATGAAA
2408 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2427 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2446 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2465 ATCGCAA--CG--A-GAAA
1 ATCGCAATGCGAAATGAAA
2479 ATCGCAATGCGA
1 ATCGCAATGCGA
2491 TTTTCATTTC
Statistics
Matches: 78, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
14 11 0.14
15 1 0.01
16 2 0.03
17 2 0.03
19 62 0.79
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:2566 original size:20 final size:20
Alignment explanation
Indices: 2509--2566 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
2499 TCGCATTGCG
* *
2509 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
2529 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
2549 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
2567 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:3653 original size:24 final size:24
Alignment explanation
Indices: 3626--3679 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
3616 GTATTCGAAA
* *
3626 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
3650 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
3674 TTTGAT
1 TTTGAT
3680 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:6188 original size:19 final size:19
Alignment explanation
Indices: 6166--6296 Score: 85
Period size: 19 Copynumber: 7.7 Consensus size: 19
6156 GGAAATTACT
6166 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
6185 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
6199 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
6218 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
* *
6232 TTCGCAATGCGAAATAAAA
1 ATCGCAATGCGAAATGAAA
**
6251 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
6265 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
6284 ATCGCAACGCGAA
1 ATCGCAATGCGAA
6297 TTTAATTTCG
Statistics
Matches: 83, Mismatches: 14, Indels: 30
0.65 0.11 0.24
Matches are distributed among these distances:
14 26 0.31
15 3 0.04
16 6 0.07
17 6 0.07
18 3 0.04
19 39 0.47
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:6208 original size:33 final size:33
Alignment explanation
Indices: 6166--6292 Score: 193
Period size: 33 Copynumber: 3.8 Consensus size: 33
6156 GGAAATTACT
6166 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
6199 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
6231 TTTCGCAATGCGAAATAAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
6265 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
6293 CGAATTTAAT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
32 1 0.01
33 81 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:6273 original size:66 final size:66
Alignment explanation
Indices: 6167--6299 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
6157 GAAATTACTA
* *
6167 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATAAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
6232 T
66 T
*
6233 TCGCAATGCGAAATAAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATAAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
6298 T
66 T
6299 T
1 T
6300 AATTTCGCGT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATAAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:6475 original size:14 final size:14
Alignment explanation
Indices: 6456--6492 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
6446 CATCAATTAA
6456 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
6470 ACAAATCACCTTTT
1 ACAAATCAACTTTT
6484 ACAAATCAA
1 ACAAATCAA
6493 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:7914 original size:21 final size:21
Alignment explanation
Indices: 7848--7914 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
7838 GTGAATCGGG
*
7848 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
7868 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
7890 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
7911 CTCT
1 CTCT
7915 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:7933 original size:42 final size:41
Alignment explanation
Indices: 7848--7970 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
7838 GTGAATCGGG
* * * * *
7848 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
7890 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
7932 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
7971 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:10053 original size:33 final size:33
Alignment explanation
Indices: 9996--10094 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
9986 ACGAGATAAT
*
9996 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
10030 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
10063 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
10095 GCGAAATAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:10088 original size:19 final size:19
Alignment explanation
Indices: 9971--10174 Score: 203
Period size: 19 Copynumber: 11.1 Consensus size: 19
9961 TCTTTTGGTT
*
9971 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
9990 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
10010 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
10028 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
10044 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
10062 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
10077 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
10097 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
10116 GAAATGAAAATCACAACGC
1 GAAATGAAAATCGCAACGC
10135 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
10154 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
10173 GA
1 GA
10175 TTTTGGTTTC
Statistics
Matches: 155, Mismatches: 17, Indels: 26
0.78 0.09 0.13
Matches are distributed among these distances:
14 19 0.12
15 3 0.02
16 2 0.01
17 1 0.01
18 4 0.03
19 79 0.51
20 45 0.29
21 2 0.01
ACGTcount: A:0.45, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:10203 original size:19 final size:19
Alignment explanation
Indices: 10170--10236 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
10160 AAAATCGCAA
**
10170 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
10189 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
**
10208 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
10228 TGCGATTTT
1 TGCGATTTT
10237 CATTCTCGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 29 0.71
20 12 0.29
ACGTcount: A:0.10, C:0.16, G:0.25, T:0.48
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:10778 original size:20 final size:20
Alignment explanation
Indices: 10753--10804 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
10743 CGCTATGTAA
*
10753 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGAAAGTAAGT
10773 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGAAAGTAAGT
*
10793 ATCTCGTTGCGA
1 ATCGCGTTGCGA
10805 TTTTTTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTAAGT
Found at i:10841 original size:20 final size:20
Alignment explanation
Indices: 10753--10846 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
10743 CGCTATGTAA
* *
10753 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTAAGT
*
10773 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTAAGT
* ** * *
10793 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTAAGT
* *
10814 ACCGCATTGCGATAGTAAGT
1 ATCGCGTTGCGATAGTAAGT
*
10834 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
10847 TTTCCCAATT
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 46 0.79
21 12 0.21
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTAAGT
Found at i:10864 original size:21 final size:21
Alignment explanation
Indices: 10835--10927 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
10825 ATAGTAAGTA
10835 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
10856 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
10876 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
10897 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
10917 TCGCATTGCGA
1 TCGCATTGCGA
10928 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:10865 original size:41 final size:41
Alignment explanation
Indices: 10774--10908 Score: 141
Period size: 41 Copynumber: 3.3 Consensus size: 41
10764 AAAGTCAGTA
* * * **
10774 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT--TTAT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
*
10813 TACCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 T--CGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
10856 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
10897 TCGCGTTGCGAT
1 TCGCGTTGCGAT
10909 TTACTTATTC
Statistics
Matches: 81, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
39 1 0.01
40 4 0.05
41 73 0.90
43 3 0.04
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:10909 original size:41 final size:41
Alignment explanation
Indices: 10835--10927 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
10825 ATAGTAAGTA
10835 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
10876 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
10917 TCGCATTGCGA
1 TCGCATTGCGA
10928 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:18662 original size:17 final size:17
Alignment explanation
Indices: 18640--18673 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18630 ACCATTTATA
*
18640 TTTAATCCTTCAATTAG
1 TTTAATCATTCAATTAG
*
18657 TTTAATCATTTAATTAG
1 TTTAATCATTCAATTAG
18674 ATAGTAACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.12, G:0.06, T:0.50
Consensus pattern (17 bp):
TTTAATCATTCAATTAG
Found at i:18753 original size:2 final size:2
Alignment explanation
Indices: 18746--18771 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18736 GTCAAATCTC
18746 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
18772 TAGTTAATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19678 original size:28 final size:27
Alignment explanation
Indices: 19626--19686 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
19616 TTAAAAAAAA
*
19626 AATTAGTCCTCAAACTTTCTAAAAATT
1 AATTAGTCCTCAAACTTGCTAAAAATT
* *
19653 AATTAGGTCCTCAAACTTAGCCAAAAATC
1 AATTA-GTCCTCAAACTT-GCTAAAAATT
19682 AATTA
1 AATTA
19687 AGCACATCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 5 0.17
28 12 0.41
29 12 0.41
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTAGTCCTCAAACTTGCTAAAAATT
Found at i:20364 original size:22 final size:23
Alignment explanation
Indices: 20328--20376 Score: 82
Period size: 22 Copynumber: 2.2 Consensus size: 23
20318 ACTAGGGGCA
*
20328 TATGAAATTTTTCCCGAATGACC
1 TATGAAATTTCTCCCGAATGACC
20351 TATG-AATTTCTCCCGAATGACC
1 TATGAAATTTCTCCCGAATGACC
20373 TATG
1 TATG
20377 TAACCCTCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (23 bp):
TATGAAATTTCTCCCGAATGACC
Found at i:26766 original size:19 final size:19
Alignment explanation
Indices: 26742--26784 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
26732 ATTTAAAGTA
*
26742 GGTATTGGTACCCCCATAT
1 GGTATTGGTACCCCCATAG
*
26761 GGTATTGGTACCCTCATAG
1 GGTATTGGTACCCCCATAG
26780 GGTAT
1 GGTAT
26785 CAGTACATCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.33
Consensus pattern (19 bp):
GGTATTGGTACCCCCATAG
Found at i:32988 original size:22 final size:22
Alignment explanation
Indices: 32962--33005 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
32952 GCGCATGTGA
*
32962 AATTTGTCCCGAATGACCTATG
1 AATTTCTCCCGAATGACCTATG
*
32984 AATTTCTCTCGAATGACCTATG
1 AATTTCTCCCGAATGACCTATG
33006 TAACCCTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (22 bp):
AATTTCTCCCGAATGACCTATG
Found at i:33698 original size:20 final size:20
Alignment explanation
Indices: 33660--33698 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
33650 GATACCCCTT
*
33660 GCCCAAAAATCACTTTTTAA
1 GCCCAAAAATCACTCTTTAA
33680 GCCCAAAAATTCA-TCTTTA
1 GCCCAAAAA-TCACTCTTTA
33699 TCAGCTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (20 bp):
GCCCAAAAATCACTCTTTAA
Found at i:35508 original size:13 final size:13
Alignment explanation
Indices: 35492--35516 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35482 ATATAATTTA
35492 AAATTTTTTAAAT
1 AAATTTTTTAAAT
35505 AAATTTTTTAAA
1 AAATTTTTTAAA
35517 AAGTTATAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AAATTTTTTAAAT
Found at i:35667 original size:2 final size:2
Alignment explanation
Indices: 35660--35712 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
35650 ATCTAAAGTA
35660 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
35702 AT AT AT AT AT A
1 AT AT AT AT AT A
35713 ATTTAAGCAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:37398 original size:41 final size:41
Alignment explanation
Indices: 37291--37405 Score: 110
Period size: 41 Copynumber: 2.8 Consensus size: 41
37281 CAAAATGATA
* * *
37291 ACTTTAGCAGCGTTTTTATACAAACGCCGCAATAAGATTAGT
1 ACTTTAGCGGTGTTTTTA-ACAAACGCCGCAATAAGAGTAGT
* * * * *
37333 -CTATAGTGGTGTTTTTCAATAAACGTCGCAA-CAGAGTAGT
1 ACTTTAGCGGTGTTTTT-AACAAACGCCGCAATAAGAGTAGT
37373 ACTTTAGCGGTGTTTTTAGACAAACGCC-CAATA
1 ACTTTAGCGGTGTTTTTA-ACAAACGCCGCAATA
37406 GGTTTCATAT
Statistics
Matches: 56, Mismatches: 13, Indels: 9
0.72 0.17 0.12
Matches are distributed among these distances:
40 11 0.20
41 44 0.79
42 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
Consensus pattern (41 bp):
ACTTTAGCGGTGTTTTTAACAAACGCCGCAATAAGAGTAGT
Found at i:37455 original size:81 final size:82
Alignment explanation
Indices: 37291--37471 Score: 206
Period size: 81 Copynumber: 2.2 Consensus size: 82
37281 CAAAATGATA
* * * ***
37291 ACTTTAGCAGCGTTTTTATACAAACGCCGCAATAAGATTAGTCTATAGTGGTGTTTTTCAATAAA
1 ACTTTAGCAGTGTTTTTAGACAAACGCCGCAATAAGATTAGTATATAGTGACATTTTTCAATAAA
* * *
37356 CGTCGCAACAGAGTAGT
66 CGCCGCAACAAAGAAGT
* * *
37373 ACTTTAGCGGTGTTTTTAGACAAACGCC-CAATAGGTTTCA-TATATAGTGACATTTTTCAACT-
1 ACTTTAGCAGTGTTTTTAGACAAACGCCGCAATAAGATT-AGTATATAGTGACATTTTTCAA-TA
*
37435 AACGCCGCACCAAAGAAGT
64 AACGCCGCAACAAAGAAGT
37454 ACTTTAGCAGTGTTTTTA
1 ACTTTAGCAGTGTTTTTA
37472 TAAAAACACC
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
81 56 0.67
82 27 0.33
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (82 bp):
ACTTTAGCAGTGTTTTTAGACAAACGCCGCAATAAGATTAGTATATAGTGACATTTTTCAATAAA
CGCCGCAACAAAGAAGT
Found at i:37827 original size:41 final size:40
Alignment explanation
Indices: 37780--37871 Score: 107
Period size: 41 Copynumber: 2.3 Consensus size: 40
37770 GTAACGCTTG
37780 TTTACAAACGCCGCTATTGACACATACTTTAGTGGCATTT
1 TTTACAAACGCCGCTATTGACACATACTTTAGTGGCATTT
* * * * *
37820 TTATACAAATGTCACTATAGA-ATTATACTTTAGTGGCATTT
1 TT-TACAAACGCCGCTATTGACA-CATACTTTAGTGGCATTT
37861 TTT-CAAACGCC
1 TTTACAAACGCC
37872 ACAACAGTCC
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
39 6 0.14
40 4 0.09
41 33 0.77
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (40 bp):
TTTACAAACGCCGCTATTGACACATACTTTAGTGGCATTT
Found at i:37934 original size:42 final size:42
Alignment explanation
Indices: 37882--37993 Score: 143
Period size: 42 Copynumber: 2.7 Consensus size: 42
37872 ACAACAGTCC
* *
37882 TGTACCTTAGTGGCGTTTGTATAATAAAAGCCACAATAATCA
1 TGTAACTTAGTGGCGTTTTTATAATAAAAGCCACAATAATCA
* * * *
37924 TGTAATTTAGTGGCATTTTTATAATAAACGCCACAATAGTCA
1 TGTAACTTAGTGGCGTTTTTATAATAAAAGCCACAATAATCA
* * *
37966 TGTACCTTAATGGCGTTTTTATTATAAA
1 TGTAACTTAGTGGCGTTTTTATAATAAA
37994 TGGCGCGATT
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (42 bp):
TGTAACTTAGTGGCGTTTTTATAATAAAAGCCACAATAATCA
Found at i:41351 original size:133 final size:133
Alignment explanation
Indices: 40975--41470 Score: 550
Period size: 134 Copynumber: 3.7 Consensus size: 133
40965 TATTCCACGG
* * *
40975 AGATTGAATCGAAATCGATTTGCTTCACTGTTCTTCAAGAAGACCAAATCTGAAAGAAGAAGAAT
1 AGATTGAATC-AAATCGATTTGCTTCACTGCTCTTCAGGAAGACAAAATCTGAAAGAAGAAGAAT
* * * * * ** *
41040 TTGCTCCACTACT-TTTTAGGGCAGATCAGAATCGAGAAAACTTTGATCCACTTCACTATTCTTC
65 CTGCTCCACTACTCTTTAAGGG-AGACCAGACTCGAGAAAATTTTGATCCACTTCACTGCTCTTT
*
41104 AGGAA
129 AGGGA
* * * * **
41109 ATATTAAATCAGAATCGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCCGAAAGAAGAAGCGT
1 AGATTGAATCA-AATCGATTTGCTTCACTGCTCTTCAGGAAGACAAAATCTGAAAGAAGAAGAAT
* *
41174 CTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCACTGCTCTTTA
65 CTGCTCCACTACTCTTTAAGGGAGACCAGACTCGAGAAAATTTTGATCCACTTCACTGCTCTTTA
41239 GGGA
130 GGGA
* * *
41243 AGATTGAATCAAATGTGATTTGCTTCGCTGCTCTTCATGAAGA-AAAATCTGAAAGAAGAAGAAT
1 AGATTGAATCAAAT-CGATTTGCTTCACTGCTCTTCAGGAAGACAAAATCTGAAAGAAGAAGAAT
* * *
41307 CTGCTCCACTACTCTTTAAGGGAGACCAGACTCGACAAAGTTTTGATCCACTTCGCTGCT-TTTC
65 CTGCTCCACTACTCTTTAAGGGAGACCAGACTCGAGAAAATTTTGATCCACTTCACTGCTCTTT-
*
41371 AGAGA
129 AGGGA
** ** ** *
41376 AGATTGAATCGAATAT-GATTTTATTCGTTGCTCTTCAGGAAGACACCATCTAAAAGAAGAAGAA
1 AGATTGAATC-AA-ATCGATTTGCTTCACTGCTCTTCAGGAAGACAAAATCTGAAAGAAGAAGAA
* * * * *
41440 TTTACTCTACTACTTTTTAGGGGAGACCAGA
64 TCTGCTCCACTACTCTTTAAGGGAGACCAGA
41471 TCTTTCGAAG
Statistics
Matches: 312, Mismatches: 43, Indels: 14
0.85 0.12 0.04
Matches are distributed among these distances:
132 3 0.01
133 113 0.36
134 188 0.60
135 8 0.03
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.29
Consensus pattern (133 bp):
AGATTGAATCAAATCGATTTGCTTCACTGCTCTTCAGGAAGACAAAATCTGAAAGAAGAAGAATC
TGCTCCACTACTCTTTAAGGGAGACCAGACTCGAGAAAATTTTGATCCACTTCACTGCTCTTTAG
GGA
Found at i:42313 original size:45 final size:45
Alignment explanation
Indices: 42136--42374 Score: 205
Period size: 45 Copynumber: 5.3 Consensus size: 45
42126 TCTTATTCGT
* * ** * **
42136 GAGAAAGT-AAAATAGGACAACACTAAAAGATCAACTTCTCTTCGT
1 GAGAAAGTCAAGA-AGGACAACACTAAAATATTGACTCCTCTTCAC
** * **
42181 GAGAAAGTTTAGAAGGATAACACTAAAATATTGACTCCTCTTCGT
1 GAGAAAGTCAAGAAGGACAACACTAAAATATTGACTCCTCTTCAC
*
42226 GAGAAAGTCAAGAAGGACAACACTAAAATATCGACTCCTCTTCAC
1 GAGAAAGTCAAGAAGGACAACACTAAAATATTGACTCCTCTTCAC
* *
42271 GAGAAAGTCAAGTAAGG-CAACACT-AAATGATTTACTCATCTTCAC
1 GAGAAAGTCAAG-AAGGACAACACTAAAAT-ATTGACTCCTCTTCAC
* * * ** * * ** *
42316 AAGAAAGCCAAAAATTACAATACTGAACGATTGACTTCTCTTCAC
1 GAGAAAGTCAAGAAGGACAACACTAAAATATTGACTCCTCTTCAC
42361 GAGAAAGTCAAGAA
1 GAGAAAGTCAAGAA
42375 TAAAAAGATC
Statistics
Matches: 159, Mismatches: 30, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
44 6 0.04
45 145 0.91
46 8 0.05
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (45 bp):
GAGAAAGTCAAGAAGGACAACACTAAAATATTGACTCCTCTTCAC
Found at i:42313 original size:90 final size:90
Alignment explanation
Indices: 42121--42374 Score: 253
Period size: 90 Copynumber: 2.8 Consensus size: 90
42111 TACTGAAAGG
* * * **
42121 TTGACTCTTATTCGTGAGAAAGT-AAAATAGGACAACACTAAAAGATCAACTTCTCTTCGTGAGA
1 TTGACTCATCTTCGTGAGAAAGTCAAAA-AGGACAACACTAAAAGATCGACTTCTCTTCACGAGA
** *
42185 AAGTTTAGAAGGATAACACTAAAATA
65 AAGTCAAGAAGGACAACACTAAAATA
* * * *
42211 TTGACTCCTCTTCGTGAGAAAGTCAAGAAGGACAACACTAAAATATCGACTCCTCTTCACGAGAA
1 TTGACTCATCTTCGTGAGAAAGTCAAAAAGGACAACACTAAAAGATCGACTTCTCTTCACGAGAA
42276 AGTCAAGTAAGG-CAACACT-AAATGA
66 AGTCAAG-AAGGACAACACTAAAAT-A
* *** * ** * * * *
42301 TTTACTCATCTTCACAAGAAAGCCAAAAATTACAATACTGAACGATTGACTTCTCTTCACGAGAA
1 TTGACTCATCTTCGTGAGAAAGTCAAAAAGGACAACACTAAAAGATCGACTTCTCTTCACGAGAA
42366 AGTCAAGAA
66 AGTCAAGAA
42375 TAAAAAGATC
Statistics
Matches: 135, Mismatches: 26, Indels: 7
0.80 0.15 0.04
Matches are distributed among these distances:
89 6 0.04
90 122 0.90
91 7 0.05
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (90 bp):
TTGACTCATCTTCGTGAGAAAGTCAAAAAGGACAACACTAAAAGATCGACTTCTCTTCACGAGAA
AGTCAAGAAGGACAACACTAAAATA
Found at i:42724 original size:123 final size:121
Alignment explanation
Indices: 42460--42802 Score: 424
Period size: 123 Copynumber: 2.8 Consensus size: 121
42450 AGAAAGACAA
* * * * * *
42460 TAAAATATTGATTCCTTTTCATGAGGGAGCCAAGAATAACAAAGATTGACTTGACTTCTCTTCAT
1 TAAAAGATTGAATCCTCTTCACGAGGGAGTCAAGAATAACAAA-ATCGACTTGACTTCTCTTCAT
* * * *
42525 AAGGAAGTCAAGAATAATAGAAAGAATGACTTCTCTTCACAAGGAAGTTAAGAATAACTT
65 GAGGAAGTCAAGAAT-A-ACAAAG-ATGACTTCTCTTCACAAGGAAGTCAAGAATAACAT
* * *
42585 TGAAAGATTGAATCCTCTTCGCGAGGGAGTCAAGAATAACAAATATCGACTTGACTTCTCCTCAT
1 TAAAAGATTGAATCCTCTTCACGAGGGAGTCAAGAATAACAAA-ATCGACTTGACTTCTCTTCAT
* *
42650 GAGAAAGTCAAGAATAACAAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAACAT
65 GAGGAAGTCAAGAATAACAAAGAT-GACTTCTCTTCACAAGGAAGTCAAGAATAACAT
* * *
42708 TAAAAGATTGACTCCTCTTCACGAGGGAGTCAAGAATAAC-AAA-C-A-TTGACTTCTTTTTATG
1 TAAAAGATTGAATCCTCTTCACGAGGGAGTCAAGAATAACAAAATCGACTTGACTTCTCTTCATG
*
42769 AGGAAGTTAAGAATAACAAAGATTGACTTCTCTT
66 AGGAAGTCAAGAATAACAAAGA-TGACTTCTCTT
42803 AATGAGGGAG
Statistics
Matches: 192, Mismatches: 24, Indels: 11
0.85 0.11 0.05
Matches are distributed among these distances:
118 43 0.22
119 2 0.01
120 1 0.01
121 1 0.01
122 4 0.02
123 72 0.38
124 1 0.01
125 68 0.35
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.27
Consensus pattern (121 bp):
TAAAAGATTGAATCCTCTTCACGAGGGAGTCAAGAATAACAAAATCGACTTGACTTCTCTTCATG
AGGAAGTCAAGAATAACAAAGATGACTTCTCTTCACAAGGAAGTCAAGAATAACAT
Found at i:42759 original size:80 final size:80
Alignment explanation
Indices: 42344--42802 Score: 309
Period size: 80 Copynumber: 5.7 Consensus size: 80
42334 AATACTGAAC
* * * * *
42344 GATTGACTTCTCTTCACGAGAAAGTCAAGAAT---A-AAAAGATCGAATTCTCTTTACGAAGAAG
1 GATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATAAAAGATTGACTTCTCTTCACGAGGAAG
*
42405 TTAAGAATAACATTGAAA
66 TCAAGAATAAC--T-AAA
* * * * * * *
42423 GATTGAC-TCATCATCATGAGGGAGTAAAGAA-AGACAATAAAATATTGA-TTCCTTTTCATGAG
1 GATTGACTTC-TCTTCACGAGGAAGTCAAGAATA-AC-ATAAAAGATTGACTT-CTCTTCACGAG
* * *
42485 GGAGCCAAGAATAACAAAGA
62 GAAGTCAAGAATAACTAA-A
** * *
42505 TTGACTTGACTTCTCTTCATAAGGAAGTCAAGAAT-A-ATAGAAAGAATGACTTCTCTTCACAAG
1 --GA-TTGACTTCTCTTCACGAGGAAGTCAAGAATAACATA-AAAGATTGACTTCTCTTCACGAG
*
42568 GAAGTTAAGAATAACTTTGAAA
62 GAAGTCAAGAATAAC--T-AAA
* * * * * * * *
42590 GATTGAATCCTCTTCGCGAGGGAGTCAAGAATAACA-AATATCGACTTGACTTCTCCTCATGAGA
1 GATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATAA-A-AGA-TTGACTTCTCTTCACGAGG
42654 AAGTCAAGAATAAC-AAA
63 AAGTCAAGAATAACTAAA
* * *
42671 GATCGACTTCTCTTCACGAGGAAGTCAAGAATAACATTAAAAGATTGACTCCTCTTCACGAGGGA
1 GATTGACTTCTCTTCACGAGGAAGTCAAGAATAACA-TAAAAGATTGACTTCTCTTCACGAGGAA
42736 GTCAAGAATAAC-AAA
65 GTCAAGAATAACTAAA
* * * * *
42751 CATTGACTTCTTTTTATGAGGAAGTTAAGAATAAC---AAAGATTGACTTCTCTT
1 GATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATAAAAGATTGACTTCTCTT
42803 AATGAGGGAG
Statistics
Matches: 295, Mismatches: 59, Indels: 55
0.72 0.14 0.13
Matches are distributed among these distances:
76 16 0.05
78 2 0.01
79 23 0.08
80 60 0.20
81 38 0.13
82 30 0.10
83 37 0.13
84 35 0.12
85 50 0.17
86 4 0.01
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.27
Consensus pattern (80 bp):
GATTGACTTCTCTTCACGAGGAAGTCAAGAATAACATAAAAGATTGACTTCTCTTCACGAGGAAG
TCAAGAATAACTAAA
Found at i:42817 original size:38 final size:38
Alignment explanation
Indices: 42344--42802 Score: 287
Period size: 42 Copynumber: 11.4 Consensus size: 38
42334 AATACTGAAC
*
42344 GATTGACTTCTCTTCACGAGAAAGTCAAGAATAA-AAA
1 GATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAA
* * * * *
42381 GATCGAATTCTCTTTACGAAGAAGTTAAGAATAACATTGAAA
1 GATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC----AAA
* * * *
42423 GATTGAC-TCATCATCATGAGGGAGTAAAGAA-AGACAATAAAA
1 GATTGACTTC-TCTTCACGAGGAAGTCAAGAATA-AC----AAA
* * * * *
42465 TATTGA-TTCCTTTTCATGAGGGAGCCAAGAATAACAAAGA
1 GATTGACTT-CTCTTCACGAGGAAGTCAAGAATAAC-AA-A
** *
42505 TTGACTTGACTTCTCTTCATAAGGAAGTCAAGAATAATAGAAA
1 --GA-TTGACTTCTCTTCACGAGGAAGTCAAGAAT-A-ACAAA
* * *
42548 GAATGACTTCTCTTCACAAGGAAGTTAAGAATAACTTTGAAA
1 GATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC----AAA
* * * *
42590 GATTGAATCCTCTTCGCGAGGGAGTCAAGAATAACAAATA
1 GATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC-AA-A
* * *
42630 TCGACTTGACTTCTCCTCATGAGAAAGTCAAGAATAACAAA
1 --GA-TTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAA
*
42671 GATCGACTTCTCTTCACGAGGAAGTCAAGAATAACATTAAAA
1 GATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC----AAA
* *
42713 GATTGACTCCTCTTCACGAGGGAGTCAAGAATAACAAA
1 GATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAA
* * * * *
42751 CATTGACTTCTTTTTATGAGGAAGTTAAGAATAACAAA
1 GATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAA
42789 GATTGACTTCTCTT
1 GATTGACTTCTCTT
42803 AATGAGGGAG
Statistics
Matches: 331, Mismatches: 62, Indels: 57
0.74 0.14 0.13
Matches are distributed among these distances:
37 28 0.08
38 76 0.23
39 8 0.02
40 29 0.09
41 6 0.02
42 126 0.38
43 52 0.16
44 5 0.02
45 1 0.00
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.27
Consensus pattern (38 bp):
GATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAAA
Found at i:48467 original size:21 final size:21
Alignment explanation
Indices: 48443--48497 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
48433 GATGTACAGT
48443 ATCGATACTGATGCAATTAGA
1 ATCGATACTGATGCAATTAGA
48464 ATCGATACTGATGCAATTAGA
1 ATCGATACTGATGCAATTAGA
* *
48485 ATTGATATTGATG
1 ATCGATACTGATG
48498 TGGGTATTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (21 bp):
ATCGATACTGATGCAATTAGA
Found at i:49085 original size:44 final size:44
Alignment explanation
Indices: 49030--49428 Score: 414
Period size: 44 Copynumber: 9.0 Consensus size: 44
49020 AAATGAATAA
* * * *
49030 ATAAATAAAAATGCATAAAGTTGAATTATTGGCAGAAATGTTCC
1 ATAAATGAAAATGCATAAAGTTGCATTATTGGCAGAAAGGTGCC
*
49074 ATAAATGAAAATGCATAACA-TTGCATTATTGGCATAAAGGTGCC
1 ATAAATGAAAATGCATAA-AGTTGCATTATTGGCAGAAAGGTGCC
* *
49118 ATAAATGAAAATGCATAACAG-TGCATTATTGGCAGGAAGATGCC
1 ATAAATGAAAATGCATAA-AGTTGCATTATTGGCAGAAAGGTGCC
* * * * *
49162 ATAAATGAAAATACATAACA-TTTCATTATTTGCAGAGAGGTTCC
1 ATAAATGAAAATGCATAA-AGTTGCATTATTGGCAGAAAGGTGCC
* * *
49206 ATAAATGAAAATACATAACGTTGCATTATTGGCAGAAATGTGCC
1 ATAAATGAAAATGCATAAAGTTGCATTATTGGCAGAAAGGTGCC
* * * *
49250 ACAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGAC
1 ATAAATGAAAATGCATAAAGTTGCATTATTGGCAGAAAGGTGCC
* * * * * *
49294 ATGAATGAAAATGCATAATGGTGAATTATTGGTAGAAA-GTGTC
1 ATAAATGAAAATGCATAAAGTTGCATTATTGGCAGAAAGGTGCC
* *
49337 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
1 ATAAATGAAAATGCATAAAGTTGCATTATTGGCAGAAAGGTGCC
* *
49381 ACT-AATGAAAATTAAATGCATAACGGTGCATT-TTGGCAGAAAGGTGCC
1 A-TAAATG---A--AAATGCATAAAGTTGCATTATTGGCAGAAAGGTGCC
49429 CCTCCAGGTT
Statistics
Matches: 307, Mismatches: 37, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
43 38 0.12
44 231 0.75
45 2 0.01
47 1 0.00
48 16 0.05
49 19 0.06
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (44 bp):
ATAAATGAAAATGCATAAAGTTGCATTATTGGCAGAAAGGTGCC
Found at i:49205 original size:132 final size:131
Alignment explanation
Indices: 49030--49423 Score: 463
Period size: 132 Copynumber: 3.0 Consensus size: 131
49020 AAATGAATAA
* * *
49030 ATAAATAAAAATGCATAA-AGTTGAATTATTGGCAGAAATGTTCCATAAATGAAAATGCATAACA
1 ATAAATGAAAATACATAACAG-TGAATTATTGGCAGAAA-GTTCCATAAATGAAAATGCATAACG
* *
49094 TTGCATTATTGGCATAAAGGTGCCATAAATGAAAATGCATAACAGTGCATTATTGGCAGGAAGAT
64 TTGCATTATTGGCAGAAAGGTGCCATAAATGAAAATGCATAACAGTGCATTATTGGCAGAAAGAT
*
49159 GCC
129 GAC
* ** * * *
49162 ATAAATGAAAATACATAACATTTCATTATTTGCAGAGAGGTTCCATAAATGAAAATACATAACGT
1 ATAAATGAAAATACATAACAGTGAATTATTGGCAGA-AAGTTCCATAAATGAAAATGCATAACGT
* * * *
49227 TGCATTATTGGCAGAAATGTGCCACAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTG
65 TGCATTATTGGCAGAAAGGTGCCATAAATGAAAATGCATAACAGTGCATTATTGGCAGAAAGATG
49292 AC
130 AC
* * ** * *
49294 ATGAATGAAAATGCATAATGGTGAATTATTGGTAGAAAGTGT-CATAAATGAAAATGCATAACGG
1 ATAAATGAAAATACATAACAGTGAATTATTGGCAGAAAGT-TCCATAAATGAAAATGCATAACGT
*
49358 TGCATTATTGGCAGAAAGGTGCCACT-AATGAAAATTAAATGCATAACGGTGCATT-TTGGCAGA
65 TGCATTATTGGCAGAAAGGTGCCA-TAAATG---A--AAATGCATAACAGTGCATTATTGGCAGA
49421 AAG
124 AAG
49424 GTGCCCCTCC
Statistics
Matches: 223, Mismatches: 30, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
131 50 0.22
132 140 0.63
133 2 0.01
134 1 0.00
135 11 0.05
136 19 0.09
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (131 bp):
ATAAATGAAAATACATAACAGTGAATTATTGGCAGAAAGTTCCATAAATGAAAATGCATAACGTT
GCATTATTGGCAGAAAGGTGCCATAAATGAAAATGCATAACAGTGCATTATTGGCAGAAAGATGA
C
Found at i:55058 original size:2 final size:2
Alignment explanation
Indices: 55053--55080 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
55043 ATATCTTACT
55053 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
55081 ATCAAATACA
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):
TA
Found at i:58719 original size:18 final size:17
Alignment explanation
Indices: 58696--58746 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
58686 CCACTATGAA
58696 ATGTCCCGAAGGACCACT
1 ATGTCCCGAA-GACCACT
*
58714 ATGTCCCGGCAGACCACT
1 ATGTCCC-GAAGACCACT
*
58732 ATATCCCGAAAGACC
1 ATGTCCCG-AAGACC
58747 GCATAGACCC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 1 0.04
18 25 0.89
19 2 0.07
ACGTcount: A:0.29, C:0.35, G:0.20, T:0.16
Consensus pattern (17 bp):
ATGTCCCGAAGACCACT
Found at i:62562 original size:44 final size:44
Alignment explanation
Indices: 62512--62775 Score: 413
Period size: 44 Copynumber: 6.0 Consensus size: 44
62502 AAATAAATGA
* * *
62512 ATAAATGAAAATGCATAAAGTTGTATTATTGGCAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * * *
62556 ATAAATGAAAATGCATAGCGTTGCATTATTGGCATAAATGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
*
62600 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCA
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* *
62644 ATGAATGAAAATGCATAACGGTGCATTATTGACAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
*
62688 ATAAATGAAAATGCATAACGGTGCATTATTGGAAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
*
62732 ATAAATGAAAATGCATAACGGTGCATT-TTGGCATAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
62775 A
1 A
62776 CTATGAGTTT
Statistics
Matches: 202, Mismatches: 18, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
43 15 0.07
44 187 0.93
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.25
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
Found at i:64234 original size:46 final size:47
Alignment explanation
Indices: 64195--64292 Score: 119
Period size: 46 Copynumber: 2.1 Consensus size: 47
64185 TGTTAAACAT
* * *
64195 ATAAATCCTAACCTCATGCT-TTCTAGTTCGCATGCTTGTTTAAAAAA
1 ATAAA-CCTAACCGCATACTCTTCTAATTCGCATGCTTGTTTAAAAAA
* * *
64242 ATGAACCTAACCGCATACTCTTCTAATTCTCATGCTT-TTTAGAAAA
1 ATAAACCTAACCGCATACTCTTCTAATTCGCATGCTTGTTTAAAAAA
64288 ATAAA
1 ATAAA
64293 TAAATTCAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
46 24 0.56
47 19 0.44
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (47 bp):
ATAAACCTAACCGCATACTCTTCTAATTCGCATGCTTGTTTAAAAAA
Found at i:67417 original size:17 final size:18
Alignment explanation
Indices: 67385--67418 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
67375 CGGGGCAGCA
67385 GTCGCCACCAGTCACGCG
1 GTCGCCACCAGTCACGCG
67403 GTCGCCACC-GTCACGC
1 GTCGCCACCAGTCACGC
67419 CATCAATCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.15, C:0.47, G:0.26, T:0.12
Consensus pattern (18 bp):
GTCGCCACCAGTCACGCG
Found at i:69801 original size:45 final size:45
Alignment explanation
Indices: 69731--69817 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
69721 GAATGTTTCT
* * * *
69731 AAATAAATTATAGATCATATTTATACCAATATACAATTATAATGA
1 AAATAAAATATAGATCACATATATACCAATATACAACTATAATGA
69776 AAATAAAATATAGATCACATATATACCAATATACAACTATAA
1 AAATAAAATATAGATCACATATATACCAATATACAACTATAA
69818 ATTAATTAGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.31
Consensus pattern (45 bp):
AAATAAAATATAGATCACATATATACCAATATACAACTATAATGA
Found at i:87050 original size:21 final size:21
Alignment explanation
Indices: 87026--87073 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
87016 ATTTATTATA
87026 ATGGATTTAAAGTTGGTTGTT
1 ATGGATTTAAAGTTGGTTGTT
*
87047 ATGGATTTAAAGTTTGTTGTT
1 ATGGATTTAAAGTTGGTTGTT
87068 ATGGAT
1 ATGGAT
87074 GTCATGTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (21 bp):
ATGGATTTAAAGTTGGTTGTT
Found at i:89085 original size:18 final size:18
Alignment explanation
Indices: 89059--89125 Score: 125
Period size: 18 Copynumber: 3.7 Consensus size: 18
89049 GATGCAATTA
*
89059 GTATTGATACTAATGTGG
1 GTATCGATACTAATGTGG
89077 GTATCGATACTAATGTGG
1 GTATCGATACTAATGTGG
89095 GTATCGATACTAATGTGG
1 GTATCGATACTAATGTGG
89113 GTATCGATACTAA
1 GTATCGATACTAA
89126 GAGAAATGTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 48 1.00
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.34
Consensus pattern (18 bp):
GTATCGATACTAATGTGG
Found at i:89799 original size:54 final size:54
Alignment explanation
Indices: 89423--89768 Score: 557
Period size: 54 Copynumber: 6.4 Consensus size: 54
89413 TTGCATTTAC
89423 CGTATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTT
1 CGTATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTT
* * *
89477 CGTATTGGCACCATGTGTGCAACCTAGGAAATTCATAATAAGTTTATTAAATTTT
1 CGTATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTA-TGAATTTT
* * * * *
89532 TGTATTTGCACTATGTTTGCAACCTAAGAAATTCAGAATAAGTTTATGAATTTC
1 CGTATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTT
* *
89586 CGTATTGTCACTATGTGTGCAACCTAAGTAATTCATAATAAGTTTATGAATTTT
1 CGTATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTT
* * *
89640 CGTATTGACACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTC
1 CGTATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTT
*
89694 CGTATTGGCACTATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTT
1 CGTATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTT
89748 CGTATTGGCACTATGTGTGCA
1 CGTATTGGCACTATGTGTGCA
89769 CCCCCCATAA
Statistics
Matches: 265, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
54 218 0.82
55 47 0.18
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.38
Consensus pattern (54 bp):
CGTATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTT
Found at i:89817 original size:108 final size:108
Alignment explanation
Indices: 89423--89821 Score: 557
Period size: 108 Copynumber: 3.7 Consensus size: 108
89413 TTGCATTTAC
* *
89423 CGTATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTGGCAC
1 CGTATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGTCAC
* * *
89488 CATGTGTGCAACCTAGGAAATTCATAATAAGTTTATTAAATTTT
66 TATGTGTGCAACCTAAGAAATTCATAATAAGTTTA-TGAATTTT
* * * *
89532 TGTATTTGCACTATGTTTGCAACCTAAGAAATTCAGAATAAGTTTATGAATTTCCGTATTGTCAC
1 CGTATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGTCAC
*
89597 TATGTGTGCAACCTAAGTAATTCATAATAAGTTTATGAATTTT
66 TATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTT
* * *
89640 CGTATTGACACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCAC
1 CGTATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGTCAC
*
89705 TATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTT
66 TATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTT
* ** * * * * * *
89748 CGTATTGGCACTATGTGTGCACCCCCCA-TAATCCATAATGAGTTTGTGAATTACCGTATCGTCA
1 CGTATTGGCACTATGTGTGCA-ACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGTCA
*
89812 ATATGTGTGC
65 CTATGTGTGC
89822 GAAAACCACT
Statistics
Matches: 257, Mismatches: 32, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
108 163 0.63
109 94 0.37
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (108 bp):
CGTATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGTCAC
TATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTT
Found at i:89821 original size:162 final size:163
Alignment explanation
Indices: 89417--89821 Score: 499
Period size: 162 Copynumber: 2.5 Consensus size: 163
89407 TATGTATTGC
* * * **
89417 ATTTACCGTATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTAT
1 ATTT-CCGTATTGGCACTATGTGTGCAACCCAAGTAATCCATAATAAGTTTATGAATTACCGTAT
* * ** * ** *
89482 TGGCACCATGTGTGCAACCTAGGAAATTCATAATAAGTTTATTAAATTTTTGTATTTGCACTATG
65 CGACAATATGTGTGCAACCTAAGAAATTCATAATAAGTTTATTAAATTTCCGTATTGGCACTATG
*
89547 TTTGCAACCTAAGAAATTCAGAATAAGTTTATGA
130 TGTGCAACCTAAGAAATTCAGAATAAGTTTATGA
* * * ** *
89581 ATTTCCGTATTGTCACTATGTGTGCAACCTAAGTAATTCATAATAAGTTTATGAATTTTCGTATT
1 ATTTCCGTATTGGCACTATGTGTGCAACCCAAGTAATCCATAATAAGTTTATGAATTACCGTATC
* * *
89646 GACACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTA-TGAATTTCCGTATTGGCACTATGT
66 GACAATATGTGTGCAACCTAAGAAATTCATAATAAGTTTATTAAATTTCCGTATTGGCACTATGT
* *
89710 GTGCAACCTAAGAAATTCATAATTAGTTTATGA
131 GTGCAACCTAAGAAATTCAGAATAAGTTTATGA
* * * * *
89743 ATTTTCGTATTGGCACTATGTGTGCACCCCCCA-TAATCCATAATGAGTTTGTGAATTACCGTAT
1 ATTTCCGTATTGGCACTATGTGTGCA-ACCCAAGTAATCCATAATAAGTTTATGAATTACCGTAT
*
89807 CGTCAATATGTGTGC
65 CGACAATATGTGTGC
89822 GAAAACCACT
Statistics
Matches: 213, Mismatches: 27, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
162 111 0.52
163 98 0.46
164 4 0.02
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (163 bp):
ATTTCCGTATTGGCACTATGTGTGCAACCCAAGTAATCCATAATAAGTTTATGAATTACCGTATC
GACAATATGTGTGCAACCTAAGAAATTCATAATAAGTTTATTAAATTTCCGTATTGGCACTATGT
GTGCAACCTAAGAAATTCAGAATAAGTTTATGA
Found at i:90422 original size:2 final size:2
Alignment explanation
Indices: 90415--90457 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
90405 TAAATAGTTC
90415 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
90457 T
1 T
90458 GAAATAATAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:91105 original size:41 final size:41
Alignment explanation
Indices: 91060--91527 Score: 297
Period size: 41 Copynumber: 11.4 Consensus size: 41
91050 AAGCAAAAAT
* * * *
91060 GCCGCTAAATACTCATACTTTAGTGGTGTTTTTATATAAAC
1 GCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAAC
* *
91101 GCCGCTAAAGACT-GTACTTTAGTTGCATTTTTATACAAAC
1 GCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAAC
* * * *
91141 GTCGCTATAGACTCGTACTTTAGTAGCGTTTATATACAAAC
1 GCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAAC
* * *
91182 GCCACTAAAAACTCGTACTTTAGTGGTGTTTTTATACAAAC
1 GCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAAC
* * ****** *
91223 GCCG-TAATAGGACACGTA-TATAACAATATTTTT-TA-AACAA
1 GCCGCTAA-A-GACTCGTACTTTAGTGGCGTTTTTATACAA-AC
* ** * * * * * * *
91263 TCCTTTAAGAGATTCATACTGTAATGGCAATTTTGTA-ATAAAT
1 GCCGCTAA-AGACTCGTACTTTAGTGGC-GTTTT-TATACAAAC
* ** * * * *
91306 GTCGC-AATTTA-TCAATACATTAGTGACGTTTGTATACAAAC
1 GCCGCTAA-AGACTC-GTACTTTAGTGGCGTTTTTATACAAAC
* * * *
91347 GCTGCTTAAGACTCGTA-TTTAAGTGGCATTTTTATATAAAC
1 GCCGCTAAAGACTCGTACTTT-AGTGGCGTTTTTATACAAAC
* * *
91388 GCCGCTATAGACTCGTACTTTAATGGCATTTTTATACAAAC
1 GCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAAC
* * * * *
91429 ACCGCTAAAAACTCATACTTTAGTGGCATTTTTATGCAAAC
1 GCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAAC
* * **
91470 GCCGCTATACACTCGTACTTTAGTGGTATTTTTATACAAAC
1 GCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAAC
91511 GCCGCTAAAGACTCGTA
1 GCCGCTAAAGACTCGTA
91528 GCAAGTTTAC
Statistics
Matches: 326, Mismatches: 85, Indels: 32
0.74 0.19 0.07
Matches are distributed among these distances:
39 2 0.01
40 50 0.15
41 239 0.73
42 29 0.09
43 4 0.01
44 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.35
Consensus pattern (41 bp):
GCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATACAAAC
Found at i:94235 original size:43 final size:43
Alignment explanation
Indices: 94168--94517 Score: 196
Period size: 43 Copynumber: 8.1 Consensus size: 43
94158 CTGAAAATAG
*
94168 CGCCGCAATAGGTGTTGTTATTTAGCGGCGTTTGTCAC-AAAAA
1 CGCCGCAATAGGTGTTGATATTTAGCGGCGTTT-TCACTAAAAA
* * * * * *
94211 CGCCGCAATACGTTTTGATGTTTAGCGGTGTTTTCCCTACAAA
1 CGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTCACTAAAAA
* * * *
94254 CGCCGCAGTAGGTGTTGATATTTAGCAGCG-TTTAACTTACAAA
1 CGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTCAC-TAAAAA
* * ** **
94297 CGCCGCAGTAGGTGTTGATATTTTGCATCGTTTTTTC-AACAAA
1 CGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTCACTAA-AAA
* * * * *
94340 TGCCGCAATAGGT-TATGATGTTTAGCGGCATTTCTC-CCACAAA
1 CGCCGCAATAGGTGT-TGATATTTAGCGGCGTTT-TCACTAAAAA
* * * * * * * *
94383 CGTCGCAGTAGGTTTTCAGATTAAGCGGCATTTGT-A-TCGAAAA
1 CGCCGCAATAGGTGTTGATATTTAGCGGCGTTT-TCACT-AAAAA
* * * * * * *
94426 CGACGCAATA-ATGGTTGAGAATTAGCGGCGTTTTTATTGAAAA
1 CGCCGCAATAGGT-GTTGATATTTAGCGGCGTTTTCACTAAAAA
** *
94469 CGCCGCAATAGGTGTTGAGCTTTAGCGGCGTTTTTCA-TACAAA
1 CGCCGCAATAGGTGTTGATATTTAGCGGCG-TTTTCACTAAAAA
94512 CGCCGC
1 CGCCGC
94518 TAAAGTTCGG
Statistics
Matches: 237, Mismatches: 55, Indels: 30
0.74 0.17 0.09
Matches are distributed among these distances:
42 11 0.05
43 212 0.89
44 14 0.06
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (43 bp):
CGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTCACTAAAAA
Found at i:94949 original size:21 final size:21
Alignment explanation
Indices: 94925--95043 Score: 114
Period size: 21 Copynumber: 5.6 Consensus size: 21
94915 GCTGATATGT
94925 TGCTTCTCTCTGTGCTGCCGC
1 TGCTTCTCTCTGTGCTGCCGC
*
94946 TGCTTCTCTCTGTGCTGCCAC
1 TGCTTCTCTCTGTGCTGCCGC
* *
94967 TGCTTCTCTCTGTACTGCCGT
1 TGCTTCTCTCTGTGCTGCCGC
* * * *
94988 TGCTTCTTTCTCTGCTTCTGC
1 TGCTTCTCTCTGTGCTGCCGC
* * *
95009 TGCTGCTCTGGCTGCTTCTGCTGC
1 TGCTTCTCT--CTG-TGCTGCCGC
95033 TGC-TCTCTCTG
1 TGCTTCTCTCTG
95044 CTTCCCTTTC
Statistics
Matches: 79, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
21 63 0.80
23 6 0.08
24 10 0.13
ACGTcount: A:0.02, C:0.35, G:0.21, T:0.42
Consensus pattern (21 bp):
TGCTTCTCTCTGTGCTGCCGC
Found at i:95014 original size:12 final size:12
Alignment explanation
Indices: 94999--95045 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
94989 GCTTCTTTCT
94999 CTGCTTCTGCTG
1 CTGCTTCTGCTG
95011 CTGC-TCTG--G
1 CTGCTTCTGCTG
95020 CTGCTTCTGCTG
1 CTGCTTCTGCTG
95032 CTGCTCTCT-CTG
1 CTGCT-TCTGCTG
95044 CT
1 CT
95046 TCCCTTTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
9 5 0.16
10 4 0.13
11 4 0.13
12 15 0.48
13 3 0.10
ACGTcount: A:0.00, C:0.36, G:0.23, T:0.40
Consensus pattern (12 bp):
CTGCTTCTGCTG
Found at i:101192 original size:18 final size:18
Alignment explanation
Indices: 101165--101201 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
101155 TTCAAGAATT
101165 ATCGAGACTAAATTAATC
1 ATCGAGACTAAATTAATC
*
101183 ATCGATACTAAATTAATC
1 ATCGAGACTAAATTAATC
101201 A
1 A
101202 AATCAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.16, G:0.08, T:0.30
Consensus pattern (18 bp):
ATCGAGACTAAATTAATC
Found at i:106852 original size:2 final size:2
Alignment explanation
Indices: 106845--106915 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
106835 TGTAGTACAT
106845 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
106887 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
106916 CAGCATCCTT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:107112 original size:81 final size:81
Alignment explanation
Indices: 106972--107551 Score: 840
Period size: 81 Copynumber: 7.2 Consensus size: 81
106962 TTTAATTCCT
* * ** * * * *
106972 TTAGTCTTTTACCCAAAGGCATTTAGTCTTTCATCTAACTTGCATGATTGACACCTTTCTGCCAA
1 TTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAA
* *
107037 ATGCACAGCTAGGCTA
66 ATGCACAACTAGGCCA
* *
107053 TTAATCTTTTACTCAAAGGTATTAAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAA
1 TTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAA
*
107118 ATGCACAACTGGGCCA
66 ATGCACAACTAGGCCA
* * *
107134 TTAGTGTTTTACCCAAAGGTATTTAACCTTTCATCTAACTGTCATAATTGACACATTTCTGTCAA
1 TTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAA
* *
107199 ATGCACAGCTAGACCA
66 ATGCACAACTAGGCCA
* *
107215 TTAGTCTTTTACTCAAAGGTATTTAACCTCTCATCTAACTGACATAATTGACACATTTCTGTCAA
1 TTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAA
107280 ATGCACAACTAGGCCA
66 ATGCACAACTAGGCCA
* * * ** * *
107296 TTAGTATTTTTCTCAAAGGTATTTAACCTTCCATCTAACTGATATAATTTACATCA-TTCGGTCA
1 TTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA-CATTTCTGTCA
107360 AATGCACAACTAGGCCA
65 AATGCACAACTAGGCCA
*
107377 TTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAA
1 TTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAA
*
107442 ATGCACAACTAGGTCA
66 ATGCACAACTAGGCCA
*
107458 TTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAA
1 TTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAA
**
107523 AAACACATA-TAGGCCA
66 ATGCACA-ACTAGGCCA
107539 TTAGTCTTTTACT
1 TTAGTCTTTTACT
107552 TTTGGAATAA
Statistics
Matches: 450, Mismatches: 46, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
80 1 0.00
81 446 0.99
82 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.35
Consensus pattern (81 bp):
TTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAA
ATGCACAACTAGGCCA
Found at i:108329 original size:20 final size:21
Alignment explanation
Indices: 108301--108351 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
108291 TGGCTCAATA
* *
108301 GTATTGATAC-CTCTACCATG
1 GTATCGATACACTATACCATG
108321 GTATCGATACTACTATACCATG
1 GTATCGATAC-ACTATACCATG
108343 GTATCGATA
1 GTATCGATA
108352 TACCCTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 9 0.33
22 18 0.67
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (21 bp):
GTATCGATACACTATACCATG
Found at i:110041 original size:2 final size:2
Alignment explanation
Indices: 110034--110070 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
110024 ATTTATTTGA
110034 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
110071 CAATTCCCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:112714 original size:123 final size:123
Alignment explanation
Indices: 112495--112740 Score: 492
Period size: 123 Copynumber: 2.0 Consensus size: 123
112485 GGTGAGACGG
112495 TCAAAGTTTCCGATTTGTTGAAATCAAGCTCTCCGCCGTTCAAAAATGTTAACCAAGCTTTGTAA
1 TCAAAGTTTCCGATTTGTTGAAATCAAGCTCTCCGCCGTTCAAAAATGTTAACCAAGCTTTGTAA
112560 GTGTCTTAAAATGCCATAAAATAATTTTTAGAAATTTTTGTGTGATTTTTAGGACTCC
66 GTGTCTTAAAATGCCATAAAATAATTTTTAGAAATTTTTGTGTGATTTTTAGGACTCC
112618 TCAAAGTTTCCGATTTGTTGAAATCAAGCTCTCCGCCGTTCAAAAATGTTAACCAAGCTTTGTAA
1 TCAAAGTTTCCGATTTGTTGAAATCAAGCTCTCCGCCGTTCAAAAATGTTAACCAAGCTTTGTAA
112683 GTGTCTTAAAATGCCATAAAATAATTTTTAGAAATTTTTGTGTGATTTTTAGGACTCC
66 GTGTCTTAAAATGCCATAAAATAATTTTTAGAAATTTTTGTGTGATTTTTAGGACTCC
112741 AGAAGCCACT
Statistics
Matches: 123, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
123 123 1.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.37
Consensus pattern (123 bp):
TCAAAGTTTCCGATTTGTTGAAATCAAGCTCTCCGCCGTTCAAAAATGTTAACCAAGCTTTGTAA
GTGTCTTAAAATGCCATAAAATAATTTTTAGAAATTTTTGTGTGATTTTTAGGACTCC
Found at i:112827 original size:9 final size:9
Alignment explanation
Indices: 112813--112902 Score: 60
Period size: 9 Copynumber: 9.7 Consensus size: 9
112803 TGAACCAGTT
*
112813 GAGCCGATC
1 GAGCCGACC
112822 GAGCCGACC
1 GAGCCGACC
112831 GACTGAACCGACC
1 GA--G--CCGACC
*
112844 GAGTCGACC
1 GAGCCGACC
*
112853 GAGCCGATC
1 GAGCCGACC
112862 GA-CCGAGCC
1 GAGCCGA-CC
112871 GA-CCGAGCC
1 GAGCCGA-CC
* *
112880 GA-TCGATC
1 GAGCCGACC
112888 GAGCCGACC
1 GAGCCGACC
112897 GAGCCG
1 GAGCCG
112903 CTTGGACTGG
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
8 7 0.11
9 49 0.74
11 2 0.03
13 8 0.12
ACGTcount: A:0.23, C:0.38, G:0.32, T:0.07
Consensus pattern (9 bp):
GAGCCGACC
Found at i:112846 original size:22 final size:22
Alignment explanation
Indices: 112816--112902 Score: 104
Period size: 22 Copynumber: 4.0 Consensus size: 22
112806 ACCAGTTGAG
* *
112816 CCGATCGAGCCGACCGA-CTGAA
1 CCGACCGAGCCGACCGAGCCG-A
*
112838 CCGACCGAGTCGACCGAGCCGA
1 CCGACCGAGCCGACCGAGCCGA
*
112860 TCGACCGAGCCGACCGAGCCGA
1 CCGACCGAGCCGACCGAGCCGA
* *
112882 TCGATCGAGCCGACCGAGCCG
1 CCGACCGAGCCGACCGAGCCG
112903 CTTGGACTGG
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
22 56 0.97
23 2 0.03
ACGTcount: A:0.23, C:0.39, G:0.31, T:0.07
Consensus pattern (22 bp):
CCGACCGAGCCGACCGAGCCGA
Found at i:112853 original size:13 final size:13
Alignment explanation
Indices: 112816--112898 Score: 82
Period size: 13 Copynumber: 6.3 Consensus size: 13
112806 ACCAGTTGAG
112816 CCGATCGAGCCGA
1 CCGATCGAGCCGA
*
112829 CCGA-CTGAACCGA
1 CCGATC-GAGCCGA
112842 CCGAGTCGA-CCGA
1 CCGA-TCGAGCCGA
112855 GCCGATCGA-CCGA
1 -CCGATCGAGCCGA
*
112868 GCCGACCGAGCCGA
1 -CCGATCGAGCCGA
*
112882 TCGATCGAGCCGA
1 CCGATCGAGCCGA
112895 CCGA
1 CCGA
112899 GCCGCTTGGA
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
12 1 0.02
13 48 0.80
14 10 0.17
15 1 0.02
ACGTcount: A:0.24, C:0.39, G:0.30, T:0.07
Consensus pattern (13 bp):
CCGATCGAGCCGA
Found at i:112962 original size:19 final size:19
Alignment explanation
Indices: 112916--112963 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
112906 GGACTGGACT
** *
112916 GCCTGGACAAGACCGAACA
1 GCCTGGACCGGACCAAACA
*
112935 GCCTGGACCGGACCAAACC
1 GCCTGGACCGGACCAAACA
112954 GCCTGGACCG
1 GCCTGGACCG
112964 AACCGTTGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.27, C:0.38, G:0.29, T:0.06
Consensus pattern (19 bp):
GCCTGGACCGGACCAAACA
Found at i:117495 original size:81 final size:81
Alignment explanation
Indices: 117353--118042 Score: 968
Period size: 81 Copynumber: 8.5 Consensus size: 81
117343 TTAGTATTTA
** * * * * *
117353 ACCTTTCTCCCAAATGCACAACTAGGCTATTATTATTTTACTCAAAGGTATATAACCTTTCATCT
1 ACCTTTCTGTCAAATGCACAGCTAGGCCATTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCT
* *
117418 AACTGGCAAAAGTGAC
66 AACTGGCATAATTGAC
* * * * *
117434 ACCTTTATGCCAAATGCACAGATAGGCCATTAGTCTTTTACTCAAAGATATTTAACATTTCATCT
1 ACCTTTCTGTCAAATGCACAGCTAGGCCATTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCT
117499 AACTGGCATAATTGAC
66 AACTGGCATAATTGAC
* * *
117515 ACCATTCTGTCAAATGCATAGCTAGGCCATTAGTCTTTTACTCAAAGTTATTTAACCTTTCATCT
1 ACCTTTCTGTCAAATGCACAGCTAGGCCATTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCT
*
117580 AACTGACATAATTGAC
66 AACTGGCATAATTGAC
* * * * *
117596 ACCTTTATGTCAAATGCACAGCTAGGCCATTAATATTTTACTCAATGGTTTTTAACCTTTCATCT
1 ACCTTTCTGTCAAATGCACAGCTAGGCCATTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCT
*
117661 AACTGGCATAATCGAC
66 AACTGGCATAATTGAC
* * *
117677 ACCTTTCTGTCAAATGCACAACTAGGCCATTAGTATTTTACTCAAAGGTATTTAACCTTTCATAT
1 ACCTTTCTGTCAAATGCACAGCTAGGCCATTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCT
117742 AACTGGCATAATTGAC
66 AACTGGCATAATTGAC
* * *
117758 ACCTTTCTATCAAATGTACAGCTAGGCCATTAG-CTTTTTACTCAAAGGTATTTAACATTTCATC
1 ACCTTTCTGTCAAATGCACAGCTAGGCCATTAGTC-TTTTACTCAAAGGTATTTAACCTTTCATC
*
117822 TAACTAGCATAATTGAC
65 TAACTGGCATAATTGAC
*
117839 ACCTTTCTGTCAAATGCACATCTAGGCCATTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCT
1 ACCTTTCTGTCAAATGCACAGCTAGGCCATTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCT
*
117904 AACTGGCATAACTGAC
66 AACTGGCATAATTGAC
* * * * * *
117920 ACATTTATGTTAAATGCACAGCTAGGTCATTAGTCTTTTAGTTAAAGGTATTTAACCTTTCATCT
1 ACCTTTCTGTCAAATGCACAGCTAGGCCATTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCT
117985 AACTGGCATAATTGAC
66 AACTGGCATAATTGAC
* * * **
118001 ATCTTTTTTTCAAATGCACAGCTAGGATATTAGTCTTTTACT
1 ACCTTTCTGTCAAATGCACAGCTAGGCCATTAGTCTTTTACT
118043 TTTGGAATAG
Statistics
Matches: 541, Mismatches: 66, Indels: 4
0.89 0.11 0.01
Matches are distributed among these distances:
81 540 1.00
82 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (81 bp):
ACCTTTCTGTCAAATGCACAGCTAGGCCATTAGTCTTTTACTCAAAGGTATTTAACCTTTCATCT
AACTGGCATAATTGAC
Found at i:118856 original size:19 final size:19
Alignment explanation
Indices: 118799--118865 Score: 71
Period size: 19 Copynumber: 3.3 Consensus size: 19
118789 CAATAGTATT
* *
118799 GATACCCCTATCATGGTATC
1 GATA-CCCTATTATGGTACC
*
118819 GATACTACTATACTATGGTACC
1 GATAC-CCTAT--TATGGTACC
118841 GATACCCTATTATGGTACC
1 GATACCCTATTATGGTACC
118860 GATACC
1 GATACC
118866 ATTTATGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
19 16 0.40
20 8 0.20
21 4 0.10
22 12 0.30
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (19 bp):
GATACCCTATTATGGTACC
Found at i:121242 original size:21 final size:21
Alignment explanation
Indices: 121218--121289 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
121208 GTAAACTTTG
*
121218 ATTTATTATTATGGATTTCAA
1 ATTTATTGTTATGGATTTCAA
* *
121239 ATTTCTTTGTTGTGGATTTCAA
1 ATTT-ATTGTTATGGATTTCAA
* * * *
121261 GTTTGTTGTTATAGATGTCAA
1 ATTTATTGTTATGGATTTCAA
*
121282 GTTTATTG
1 ATTTATTG
121290 GATAATGGTA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
21 24 0.59
22 17 0.41
ACGTcount: A:0.24, C:0.06, G:0.18, T:0.53
Consensus pattern (21 bp):
ATTTATTGTTATGGATTTCAA
Found at i:121686 original size:27 final size:28
Alignment explanation
Indices: 121648--121718 Score: 78
Period size: 27 Copynumber: 2.6 Consensus size: 28
121638 ATTAAAAATA
* *
121648 ACCTTTAGCGGCGTTTGT-AACGCTGCT
1 ACCTTTTGCGGCGTTTGTCAACGATGCT
*
121675 ACCTTTTGCGGCATTTGTTCAACGATGCT
1 ACCTTTTGCGGCGTTTG-TCAACGATGCT
121704 ---TTTTGCGGCGTTTGT
1 ACCTTTTGCGGCGTTTGT
121719 TTTTACGCCA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
25 1 0.03
26 13 0.34
27 15 0.39
28 1 0.03
29 8 0.21
ACGTcount: A:0.13, C:0.23, G:0.25, T:0.39
Consensus pattern (28 bp):
ACCTTTTGCGGCGTTTGTCAACGATGCT
Found at i:126307 original size:122 final size:126
Alignment explanation
Indices: 126085--127248 Score: 1132
Period size: 122 Copynumber: 9.8 Consensus size: 126
126075 TCTATAACGG
126085 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATA-TA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
* * *
126149 TCATTGCCCTATTATGTCATTCATGT-CCTCGGGGACACT-TATATATTAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
126208 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCG-CTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
126272 CCATTGCCCTA-TATGTCACTCATGT-CCTCGGGGACACTAGATATATCAGTA-CTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
126330 TTCACTATTCACATGAAGG-GCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
* * ** * * * * * * * *
126394 TCCTCGGGGAC-ACTA-G--A-T-ATAT---T--AGTAC-CTA-TTATTTCACTATTCAC-ATGA
66 TCAT--TGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA--C-CTATTA
*
126445 A
126 T
** * * * ** *
126446 GGCGC-GTTC-C-CGGGGGCGCGCCTT-CC-----A----------TTATTTCGTCAGAGAATAT
1 TTCACTATTCACATGAAGGCGCG--TTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATAT
*
126492 TACCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
64 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
126555 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
126620 TCATTGCCC--TTATGTCA--CATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
126677 TTCACTATTCACATGAAGGCGCGTTCCC-GGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
126741 TCATTGCCCTATTATG----TCATGTCCCTCGGGGATACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
126798 TTCAC---TCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
126860 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATAT-T-AGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
* * *
126919 TTCACTATTCACATGAAGGTGCGTTCCCAGGGGCGCGCCTTCCATTATTTCGTCATAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
**** * * * * * * *
126984 TCACTCATGTCCCT-CGGGGACACT-A-GAT--ATC-AGTAC-CTA-TTATTTCACTATTCAC-A
66 TCA-T--TG-CCCTATTATGTCACTCATG-TCCCTCGGGGACACTAGATATATCAGTA--C-CTA
* *
127040 TGAA
123 TTAT
** * * * *
127044 GGCGC-GTTC-C-CG--GG-GCG----C--GC------CTTCCATTATTTCGTCAGAGA--A-TA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
127088 TCATTGCCCTATTATGTCACTCATGTCCCTCAGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
127149 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATA-TA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
127213 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGA
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGA
127249 ATAACTTAAA
Statistics
Matches: 852, Mismatches: 93, Indels: 190
0.75 0.08 0.17
Matches are distributed among these distances:
98 2 0.00
99 3 0.00
100 28 0.03
101 7 0.01
102 3 0.00
103 3 0.00
104 11 0.01
105 10 0.01
106 6 0.01
107 30 0.04
108 2 0.00
109 9 0.01
110 10 0.01
111 14 0.02
112 7 0.01
113 12 0.01
114 7 0.01
115 10 0.01
116 7 0.01
117 3 0.00
118 20 0.02
119 58 0.07
120 3 0.00
121 127 0.15
122 179 0.21
123 119 0.14
124 74 0.09
125 46 0.05
126 32 0.04
127 6 0.01
128 4 0.00
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.32
Consensus pattern (126 bp):
TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
Found at i:126475 original size:100 final size:98
Alignment explanation
Indices: 126296--126493 Score: 369
Period size: 100 Copynumber: 2.0 Consensus size: 98
126286 GTCACTCATG
126296 TCCTCGGGGACACTAGATATATCAGTACTATTATTTCACTATTCACATGAAGGGCGTTCCCGGGG
1 TCCTCGGGGACACTAGATATATCAGTACTATTATTTCACTATTCACATGAAGGGCGTTCCCGGGG
126361 GCGCGCCTTCCATTATTTCGTCAGAGAATATTA
66 GCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
126394 TCCTCGGGGACACTAGATATATTAGTACCTATTATTTCACTATTCACATGAAGGCGCGTTCCCGG
1 TCCTCGGGGACACTAGATATATCAGTA-CTATTATTTCACTATTCACATGAAGG-GCGTTCCCGG
126459 GGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
64 GGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
126494 CCATTGCCCT
Statistics
Matches: 97, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
98 26 0.27
99 26 0.27
100 45 0.46
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (98 bp):
TCCTCGGGGACACTAGATATATCAGTACTATTATTTCACTATTCACATGAAGGGCGTTCCCGGGG
GCGCGCCTTCCATTATTTCGTCAGAGAATATTA
Found at i:126717 original size:347 final size:349
Alignment explanation
Indices: 126085--127248 Score: 1637
Period size: 347 Copynumber: 3.3 Consensus size: 349
126075 TCTATAACGG
126085 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATAT
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATAT
* *
126150 CATTGCCCTATTATGTCATTCATGT-CCTCGGGGACACT-TATATATTAGTACCTATTATTTCAC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATA-TAGTACCTATTATTTCAC
*
126213 TATTCACATGAAGGCGCGTTCCCGGGGGCGCG-CTTCCATTATTTCGTCAGAGAATATTACCATT
130 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATT
126277 GCCCTATATGTCACTCATGT-CCTCGGGGACACTAGATATATCAGTA-CTATTATTTCACTATTC
195 GCCCT-TATGTCA--CATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTC
126340 ACATGAAGG-GCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAG-A-A-TATTA-TCCTCG
257 ACATGAAGGCGCGTTCCC-GGGGCGCGCCTTCCATTATTTCGTCAGAGAACACTATTAGTCCTCG
*
126400 GGGACACTAGATATATTAGTACCTATTAT
321 GGGACACTAGATATATCAGTACCTATTAT
126429 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATA-TA
*
126494 CCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
65 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATAT-AGTACCTATTATTTCA
126559 CTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
129 CTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
126624 TGCCCTTATGTCACATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCAC
194 TGCCCTTATGTCACATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCAC
126689 ATGAAGGCGCGTTCCCGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTATT
259 ATGAAGGCGCGTTCCCGGGGCGCGCCTTCCATTATTTCGTCAGAG---A--A-CA-----C---T
*
126754 ATGTCATGTCCCTCGGGGATACTAGATATATCAGTACCTATTAT
310 AT-T-A-GT-CCTCGGGGACACTAGATATATCAGTACCTATTAT
126798 TTCAC---TCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATA-TA
*
126860 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATAT-TAGTACCTATTATTTCAC
65 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATAGTACCTATTATTTCAC
* * *
126924 TATTCACATGAAGGTGCGTTCCCAGGGGCGCGCCTTCCATTATTTCGTCATAGAATATTATCA--
130 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATT
126987 ---C-----T--CATGTCCCTCGGGGACACTAG--ATATCAGTACCTATTATTTCACTATTCACA
195 GCCCTTATGTCACATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACA
127040 TGAAGGCGCGTTCCCGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATCATTGCCCTATTATGT
260 TGAAGGCGCGTTCCCGGGGCGCGCCTTCCATTATTTCGTCAGAG-A-A-CA-----CTATTA-GT
127105 CACTCATGTCCCTCAGGGACACTAGATATATCAGTACCTATTAT
316 C-CTC--G-------GGGACACTAGATATATCAGTACCTATTAT
127149 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATAT
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATAT
127214 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGA
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGA
127249 ATAACTTAAA
Statistics
Matches: 763, Mismatches: 14, Indels: 77
0.89 0.02 0.09
Matches are distributed among these distances:
341 1 0.00
342 7 0.01
343 1 0.00
344 66 0.09
345 31 0.04
346 40 0.05
347 127 0.17
348 45 0.06
350 74 0.10
351 33 0.04
352 21 0.03
353 38 0.05
354 55 0.07
355 1 0.00
359 1 0.00
364 80 0.10
365 2 0.00
366 102 0.13
368 1 0.00
369 37 0.05
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.32
Consensus pattern (349 bp):
TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATAT
CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATAGTACCTATTATTTCACT
ATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTG
CCCTTATGTCACATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACAT
GAAGGCGCGTTCCCGGGGCGCGCCTTCCATTATTTCGTCAGAGAACACTATTAGTCCTCGGGGAC
ACTAGATATATCAGTACCTATTAT
Found at i:127142 original size:472 final size:453
Alignment explanation
Indices: 126085--127231 Score: 1612
Period size: 472 Copynumber: 2.5 Consensus size: 453
126075 TCTATAACGG
126085 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATAT
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATAT
* *
126150 CATTGCCCTATTATGTCATTCATGT-CCTCGGGGACACT-TATATATTAGTACCTATTATTTCAC
66 CATTGCCCTATTATGTCA-TCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
*
126213 TATTCACATGAAGGCGCGTTCCCGGGG-GCGCGCTTCCATTATTTCGTCAGAGAATATTACCATT
130 TATTCACATGAAGGCGCGTTCCCGGGGCGCGC-CTTCCATTATTTCGTCAGAGAATATTATCATT
126277 GCCCTA-TATGTCACTCATGTCCTCGGGGACACTAGATATATCAGTACTATTATTTCACTATTCA
194 GCCCTATTATG----TCATGTCCTCGGGGACACTAGATATATCAGTACTATTATTTCAC--TTCA
126341 CATGAAGGGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCCTCGGGGACA
253 CATGAAGGGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCCTCGGGGACA
*
126406 CTAGATATATTAGTACCTATTATTTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTC
318 CTAGA-ATATTAGTACCTATTATTTCACTATTCACATGAAGGCGCGTTCCCAGGGGCGCGCCTTC
*
126471 CATTATTTCGTCAGAGAATATTACCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAG
382 CATTATTTCGTC----AATATGA-CA-----CTATTA-GTCACTCATGTCCCTCGGGGACACTAG
126536 ATATATCAGTACCTATTAT
436 A-ATATCAGTACCTATTAT
126555 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATA-TA
126620 TCATTGCCC--TTATGTCA-CATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
65 TCATTGCCCTATTATGTCATCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
126682 TATTCACATGAAGGCGCGTTCCCGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTG
130 TATTCACATGAAGGCGCGTTCCCGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTG
*
126747 CCCTATTATGTCATGTCCCTCGGGGATACTAGATATATCAGTACCTATTATTTCAC-TCACATGA
195 CCCTATTATGTCATGT-CCTCGGGGACACTAGATATATCAGTA-CTATTATTTCACTTCACATGA
126811 AGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTATTATG
258 AGG-GCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTC--AG---------A--G----A--A--
*
126876 TCATTCATGTCCCTCGGGGACACTAG-ATATTAGTACCTATTATTTCACTATTCACATGAAGGTG
301 T-ATT-A--T-CCTCGGGGACACTAGAATATTAGTACCTATTATTTCACTATTCACATGAAGGCG
126940 CGTTCCCAGGGGCGCGCCTTCCATTATTTCGTC-ATA-GA-A-TATTA-TCACTCATGTCCCTCG
361 CGTTCCCAGGGGCGCGCCTTCCATTATTTCGTCAATATGACACTATTAGTCACTCATGTCCCTCG
127000 GGGACACTAG-ATATCAGTACCTATTAT
426 GGGACACTAGAATATCAGTACCTATTAT
127027 TTCACTATTCACATGAAGGCGCGTTCCC-GGGGCGCGCCTTCCATTATTTCGTCAGAG-A-ATAT
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATAT
*
127089 CATTGCCCTATTATGTCACTCATGTCCCTCAGGGACACTAGATATATCAGTACCTATTATTTCAC
66 CATTGCCCTATTATGTCA-TCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCAC
127154 TATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATA-TATCATT
130 TATTCACATGAAGGCGCGTTCCC-GGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATT
127218 GCCCTATTATGTCA
194 GCCCTATTATGTCA
127232 CTCATGTCCC
Statistics
Matches: 630, Mismatches: 8, Indels: 76
0.88 0.01 0.11
Matches are distributed among these distances:
465 11 0.02
466 40 0.06
467 30 0.05
468 38 0.06
469 96 0.15
470 79 0.13
471 40 0.06
472 133 0.21
473 33 0.05
474 26 0.04
476 5 0.01
477 1 0.00
479 1 0.00
482 1 0.00
483 1 0.00
484 1 0.00
485 4 0.01
487 1 0.00
488 3 0.00
489 1 0.00
490 69 0.11
491 1 0.00
492 15 0.02
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (453 bp):
TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATAT
CATTGCCCTATTATGTCATCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACT
ATTCACATGAAGGCGCGTTCCCGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGC
CCTATTATGTCATGTCCTCGGGGACACTAGATATATCAGTACTATTATTTCACTTCACATGAAGG
GCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCCTCGGGGACACTAGAATA
TTAGTACCTATTATTTCACTATTCACATGAAGGCGCGTTCCCAGGGGCGCGCCTTCCATTATTTC
GTCAATATGACACTATTAGTCACTCATGTCCCTCGGGGACACTAGAATATCAGTACCTATTAT
Found at i:127197 original size:230 final size:229
Alignment explanation
Indices: 126757--127215 Score: 766
Period size: 230 Copynumber: 2.0 Consensus size: 229
126747 CCCTATTATG
*
126757 TCATGTCCCTCGGGGATACTAGATATATCAGTACCTATTATTTCACTCACATGAAGGCGCGTTCC
1 TCATGTCCCTCGGGGACACTAGA-ATATCAGTACCTATTATTTCACTCACATGAAGGCGCGTTCC
*
126822 CGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTATTATGTCATTCATGTC
65 CGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTATTATGTCACTCATGTC
* *
126887 CCTCGGGGACACTAGATATTAGTACCTATTATTTCACTATTCACATGAAGGTGCGTTCCCAGGGG
130 CCTCAGGGACACTAGATATTAGTACCTATTATTTCACTATTCACATGAAGGCGCGTTCCCAGGGG
*
126952 CGCGCCTTCCATTATTTCGTCATAGAATATTATCAC
195 CGCGCCTTCCATTATTTCGTCAGAGAATA-TATCAC
126988 TCATGTCCCTCGGGGACACTAG-ATATCAGTACCTATTATTTCACTATTCACATGAAGGCGCGTT
1 TCATGTCCCTCGGGGACACTAGAATATCAGTACCTATTATTTCAC---TCACATGAAGGCGCGTT
127052 CCC-GGGGCGCGCCTTCCATTATTTCGTCAGAG-A-A-TATCATTGCCCTATTATGTCACTCATG
63 CCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTATTATGTCACTCATG
*
127113 TCCCTCAGGGACACTAGATATATCAGTACCTATTATTTCACTATTCACATGAAGGCGCGTTCCCG
128 TCCCTCAGGGACACTAGATAT-T-AGTACCTATTATTTCACTATTCACATGAAGGCGCGTTCCCA
127178 GGGGCGCGCCTTCCATTATTTCGTCAGAGAATATATCA
191 GGGGCGCGCCTTCCATTATTTCGTCAGAGAATATATCA
127216 TTGCCCTATT
Statistics
Matches: 217, Mismatches: 6, Indels: 12
0.92 0.03 0.05
Matches are distributed among these distances:
228 46 0.21
229 29 0.13
230 72 0.33
231 50 0.23
232 20 0.09
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (229 bp):
TCATGTCCCTCGGGGACACTAGAATATCAGTACCTATTATTTCACTCACATGAAGGCGCGTTCCC
GGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCATTGCCCTATTATGTCACTCATGTCC
CTCAGGGACACTAGATATTAGTACCTATTATTTCACTATTCACATGAAGGCGCGTTCCCAGGGGC
GCGCCTTCCATTATTTCGTCAGAGAATATATCAC
Found at i:127326 original size:32 final size:31
Alignment explanation
Indices: 127290--127360 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
127280 AACAAGTTAA
* *
127290 GAATAACTTAAATTAAAACGTTATGTGA-AGTT
1 GAATAAATTAAA-TAAAACGTTATG-GATAATT
* *
127322 GAATAAATTAGATAAAATGTTATGGATAATT
1 GAATAAATTAAATAAAACGTTATGGATAATT
127353 GAATAAAT
1 GAATAAAT
127361 GTGAAGTGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.06
31 22 0.65
32 10 0.29
ACGTcount: A:0.48, C:0.03, G:0.15, T:0.34
Consensus pattern (31 bp):
GAATAAATTAAATAAAACGTTATGGATAATT
Found at i:128274 original size:21 final size:21
Alignment explanation
Indices: 128248--128386 Score: 115
Period size: 21 Copynumber: 6.6 Consensus size: 21
128238 AAAACCCTGC
128248 GGCTAGGCATGTAACCTGGCG
1 GGCTAGGCATGTAACCTGGCG
128269 GGCTAGGCATGTAACCTGGCG
1 GGCTAGGCATGTAACCTGGCG
*
128290 GGCTAGGAATGTAACCCT-GCG
1 GGCTAGGCATGTAA-CCTGGCG
* *
128311 GGCTCGGAATGTAACCCT-GCG
1 GGCTAGGCATGTAA-CCTGGCG
* * * *
128332 GAGAT-GGCATATAAACTGGTG
1 G-GCTAGGCATGTAACCTGGCG
* * * *
128353 GGCTTGGCATATGAA-GTGGAG
1 GGCTAGGCATGT-AACCTGGCG
128374 GGCTAGGCATGTA
1 GGCTAGGCATGTA
128387 CCCCTGCGGC
Statistics
Matches: 101, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
20 5 0.05
21 89 0.88
22 7 0.07
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.21
Consensus pattern (21 bp):
GGCTAGGCATGTAACCTGGCG
Found at i:130123 original size:30 final size:31
Alignment explanation
Indices: 130089--130172 Score: 80
Period size: 33 Copynumber: 2.7 Consensus size: 31
130079 AATAATTCTA
* *
130089 AATAAATAATAATTATATAAATA-TTATTTT
1 AATAAATAATAATTATATAAATATTTAATAT
* *
130119 AATAAAAAATAATATTACATAAATATTTAATAT
1 AATAAATAAT-A-ATTATATAAATATTTAATAT
* * *
130152 AAAAAATAATAACTATTTAAA
1 AATAAATAATAATTATATAAA
130173 AAAATACTAA
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
30 9 0.21
31 8 0.19
32 12 0.29
33 13 0.31
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (31 bp):
AATAAATAATAATTATATAAATATTTAATAT
Found at i:131527 original size:3 final size:3
Alignment explanation
Indices: 131519--131567 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
131509 TTTATCATTT
* *
131519 TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTT TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
131567 T
1 T
131568 AAATAAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:131887 original size:22 final size:22
Alignment explanation
Indices: 131845--131887 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
131835 GTTGAAGCTC
* *
131845 TATGGTGAGTCACGACCATATA
1 TATGGTGACTCACGACAATATA
131867 TATGGTGACTCACCGA-AATAT
1 TATGGTGACTCA-CGACAATAT
131888 CACCTTTGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (22 bp):
TATGGTGACTCACGACAATATA
Found at i:133350 original size:24 final size:23
Alignment explanation
Indices: 133313--133359 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
133303 TTTTAAGTAA
*
133313 ATAAAAATCTTATTTATAAAAAT
1 ATAAAAATATTATTTATAAAAAT
133336 ATAAAAATATATATTTATAAAAAT
1 ATAAAAATAT-TATTTATAAAAAT
133360 TAATATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
ATAAAAATATTATTTATAAAAAT
Found at i:133354 original size:16 final size:18
Alignment explanation
Indices: 133335--133369 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
133325 TTTATAAAAA
133335 TATAAAAA-T-ATATATT
1 TATAAAAATTAATATATT
133351 TATAAAAATTAATATATT
1 TATAAAAATTAATATATT
133369 T
1 T
133370 TCTTGTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 1 0.06
18 8 0.47
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TATAAAAATTAATATATT
Found at i:134865 original size:36 final size:36
Alignment explanation
Indices: 134805--134879 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 36
134795 AACTATGCAC
* *
134805 ACAAAGATCATGTTATATTAATACCAAAAGTATTCT
1 ACAAAGATCATGTTAGATTAATACCAAAAGCATTCT
* * * *
134841 ACAATGATCCTGTTAGATTGATACCGAAAGCATTCT
1 ACAAAGATCATGTTAGATTAATACCAAAAGCATTCT
134877 ACA
1 ACA
134880 GTAAGAGTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (36 bp):
ACAAAGATCATGTTAGATTAATACCAAAAGCATTCT
Found at i:135542 original size:6 final size:7
Alignment explanation
Indices: 135501--135541 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
135491 TTTTCATATA
135501 TGCA-TT
1 TGCATTT
135507 TGCATTT
1 TGCATTT
135514 TGCATCTT
1 TGCAT-TT
*
135522 TGAATTT
1 TGCATTT
135529 T-CATTT
1 TGCATTT
135535 TGCATTT
1 TGCATTT
135542 GTACTTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
6 9 0.30
7 15 0.50
8 6 0.20
ACGTcount: A:0.17, C:0.15, G:0.12, T:0.56
Consensus pattern (7 bp):
TGCATTT
Found at i:135602 original size:22 final size:21
Alignment explanation
Indices: 135577--135637 Score: 81
Period size: 20 Copynumber: 2.9 Consensus size: 21
135567 GCAGAATTTG
135577 CATTCTTATTTTTGCATTTCTA
1 CATTCTT-TTTTTGCATTTCTA
135599 CATT-TTTTTTTGCATTTCTA
1 CATTCTTTTTTTGCATTTCTA
135619 CA-TCTTTGTATTTGCATTT
1 CATTCTTT-T-TTTGCATTT
135638 GCATTTGCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.03
20 19 0.53
21 3 0.08
22 13 0.36
ACGTcount: A:0.16, C:0.16, G:0.07, T:0.61
Consensus pattern (21 bp):
CATTCTTTTTTTGCATTTCTA
Found at i:135608 original size:20 final size:22
Alignment explanation
Indices: 135585--135637 Score: 83
Period size: 20 Copynumber: 2.5 Consensus size: 22
135575 TGCATTCTTA
135585 TTTTTGCATTTCTACAT-TTT-
1 TTTTTGCATTTCTACATCTTTG
135605 TTTTTGCATTTCTACATCTTTG
1 TTTTTGCATTTCTACATCTTTG
*
135627 TATTTGCATTT
1 TTTTTGCATTT
135638 GCATTTGCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 17 0.57
21 3 0.10
22 10 0.33
ACGTcount: A:0.15, C:0.15, G:0.08, T:0.62
Consensus pattern (22 bp):
TTTTTGCATTTCTACATCTTTG
Found at i:137648 original size:8 final size:8
Alignment explanation
Indices: 137635--137672 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
137625 CATTCATCAT
137635 AAAAAAGA
1 AAAAAAGA
137643 AAAAAAGA
1 AAAAAAGA
137651 AGAAAAA-A
1 A-AAAAAGA
*
137659 AAGAAAGA
1 AAAAAAGA
137667 AAAAAA
1 AAAAAA
137673 TTGAATCAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
7 4 0.15
8 17 0.65
9 5 0.19
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:137660 original size:13 final size:13
Alignment explanation
Indices: 137638--137672 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
137628 TCATCATAAA
137638 AAAG-AAAAAAAG
1 AAAGAAAAAAAAG
137650 -AAGAAAAAAAAG
1 AAAGAAAAAAAAG
137662 AAAGAAAAAAA
1 AAAGAAAAAAA
137673 TTGAATCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 3 0.14
12 8 0.38
13 10 0.48
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAG
Found at i:141145 original size:54 final size:54
Alignment explanation
Indices: 141056--141258 Score: 282
Period size: 54 Copynumber: 3.8 Consensus size: 54
141046 GTGCAGAAAA
* * * * * *
141056 CACAAGAAATGATGAATGT-TTGTCAAAATACTTTACGAACATCTGGGCAGAAGC
1 CACAGGAAAGGATGAACGTGTTGTC-AAATATTTTACGAACCTCTGGACAGAAGC
* * * * *
141110 CACAGGGAAGGATGAATGTATTGTCAAATGTTTTACGAACCTCTGGACAGAATC
1 CACAGGAAAGGATGAACGTGTTGTCAAATATTTTACGAACCTCTGGACAGAAGC
*
141164 CACAGGAAAGGATGAACGTGTTGTCAAATGTTTTACGAACCTCTGGACAGAAGC
1 CACAGGAAAGGATGAACGTGTTGTCAAATATTTTACGAACCTCTGGACAGAAGC
141218 CACAGGAAAGGATGAACGTGTTGTCAAATATTTTACGAACC
1 CACAGGAAAGGATGAACGTGTTGTCAAATATTTTACGAACC
141259 AGTTATTCTG
Statistics
Matches: 135, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
54 130 0.96
55 5 0.04
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.24
Consensus pattern (54 bp):
CACAGGAAAGGATGAACGTGTTGTCAAATATTTTACGAACCTCTGGACAGAAGC
Found at i:141642 original size:22 final size:22
Alignment explanation
Indices: 141612--141668 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
141602 AGATCTATAT
*
141612 TCTTTAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
141634 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
141656 TTTTCAAAGATGA
1 TCTTCAAAGATGA
141669 AAACTTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:142417 original size:36 final size:36
Alignment explanation
Indices: 142371--142495 Score: 128
Period size: 36 Copynumber: 3.5 Consensus size: 36
142361 TAGTAATTTA
*
142371 TCTCACTTGAGATTGTTTTTCTTAAAACAAACTGTG
1 TCTCACTTGAGATAGTTTTTCTTAAAACAAACTGTG
* * ** ** *
142407 TCTCGCTTGAGATAATTTCACTCGAAACAACAAT-T-
1 TCTCACTTGAGATAGTTTTTCTTAAAACAA-ACTGTG
* *
142442 TATCACTTGAGATTGTTTTTCTTAAAACAAACTGTG
1 TCTCACTTGAGATAGTTTTTCTTAAAACAAACTGTG
*
142478 TCTCGCTTGAGATAGTTT
1 TCTCACTTGAGATAGTTT
142496 CACTCGATGG
Statistics
Matches: 66, Mismatches: 20, Indels: 6
0.72 0.22 0.07
Matches are distributed among these distances:
34 2 0.03
35 23 0.35
36 39 0.59
37 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (36 bp):
TCTCACTTGAGATAGTTTTTCTTAAAACAAACTGTG
Found at i:142667 original size:122 final size:123
Alignment explanation
Indices: 142508--142838 Score: 529
Period size: 122 Copynumber: 2.7 Consensus size: 123
142498 CTCGATGGAC
*
142508 CAACATTTCCAGAGGAAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT
1 CAACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT
* * *
142573 GAGAATAATTTGTTCAACCTTTTGCTCGACTCTATCACAGAATGAGATAGATCAGCAT
66 GAGAAGAATTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAGATCAGCAG
* *
142631 CAACATTTCCAGA-GAAGTTCATAATGAGAAGAACTCATCTGAATAGGAAGAATAAGTTCATAAT
1 CAACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT
* * *
142695 GAGAAGAATTTGTTCAACCTTTTTCTTGACTTTATCACAGAAGGAGATAGATCAGCAG
66 GAGAAGAATTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAGATCAGCAG
** *
142753 CAACATTTCCAGATAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAAT
1 CAACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT
* *
142818 GAGAAGAACTTGTTCGACCTT
66 GAGAAGAATTTGTTCAACCTT
142839 AGCTCGTTTC
Statistics
Matches: 192, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
122 113 0.59
123 79 0.41
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (123 bp):
CAACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAAT
GAGAAGAATTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAGATCAGCAG
Found at i:142832 original size:20 final size:20
Alignment explanation
Indices: 142770--142832 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
142760 TCCAGATAAA
142770 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* ***
142790 -ATC-TGAA-GAGGAAGAAGAA
1 GTTCAT-AATGA-GAAGAACTT
142809 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
142829 GTTC
1 GTTC
142833 GACCTTAGCT
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
18 3 0.10
19 10 0.33
20 14 0.47
21 3 0.10
ACGTcount: A:0.41, C:0.10, G:0.24, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:142941 original size:139 final size:137
Alignment explanation
Indices: 142753--143104 Score: 480
Period size: 139 Copynumber: 2.6 Consensus size: 137
142743 AGATCAGCAG
*
142753 CAACATTTCCAGATA--AAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATA
1 CAACATTTCCAGA-AGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * * *
142816 ATGAGAAGAACTTGTTCGACCTTAGCTCGT-TTCATCACCTATGGAGTTGAATGAAAGAAGAACC
65 ATGAGAAGAACTTGTTCAACCTT-GC-CGTATTCATCACATATGAAGTTGAATCAAAGAAG--CC
*
142880 TCTCTTGAGGAT
126 TCTCTTAAGGAT
* * *
142892 CAATATTTTCAG-AGGAAGTTCATAATGAGAAGAACTCATCTGAATAGGAAGAAGAAGTTCATAA
1 CAACATTTCCAGAAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
* * * *
142956 TGAGAAGAACTTGTTCAACCTTGCCTTAATTCATCACATATGAAGTTGAATCAACGACGCCTTTC
66 TGAGAAGAACTTGTTCAACCTTGCCGT-ATTCATCACATATGAAGTTGAATCAAAGAAGCCTCTC
143021 TTAAGGAT
130 TTAAGGAT
* *
143029 CAACATTTCCAGAAGG-AGTTCATAATAAGAAGAACTCATCTGAAGAGGAAAAAGAAGTTCATAA
1 CAACATTTCCAGAAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
143093 TGAGAAGAACTT
66 TGAGAAGAACTT
143105 ATTTAATCTT
Statistics
Matches: 190, Mismatches: 18, Indels: 12
0.86 0.08 0.05
Matches are distributed among these distances:
137 82 0.43
138 5 0.03
139 103 0.54
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (137 bp):
CAACATTTCCAGAAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTGCCGTATTCATCACATATGAAGTTGAATCAAAGAAGCCTCTCT
TAAGGAT
Found at i:143381 original size:3 final size:3
Alignment explanation
Indices: 143375--143408 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
143365 GTTGTTGTTG
*
143375 TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
143409 AAATAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:143475 original size:30 final size:32
Alignment explanation
Indices: 143425--143484 Score: 81
Period size: 30 Copynumber: 1.9 Consensus size: 32
143415 ATAATTTTAT
*
143425 TTACATTTCAAGCCCAAACCC-GA-GGCCCGA
1 TTACAATTCAAGCCCAAACCCAGATGGCCCGA
143455 TTACAATTCTAAGCCC-AACCCAGATGGCCC
1 TTACAATTC-AAGCCCAAACCCAGATGGCCC
143485 AGTAGGACCC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 13 0.50
31 8 0.31
32 5 0.19
ACGTcount: A:0.30, C:0.37, G:0.15, T:0.18
Consensus pattern (32 bp):
TTACAATTCAAGCCCAAACCCAGATGGCCCGA
Found at i:147191 original size:18 final size:18
Alignment explanation
Indices: 147165--147200 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
147155 TCGAAAGGAC
*
147165 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
147183 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
147201 CGGATGGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:148371 original size:23 final size:23
Alignment explanation
Indices: 148345--148427 Score: 96
Period size: 23 Copynumber: 3.6 Consensus size: 23
148335 TTCGACTTGA
* *
148345 ATTCTGTTATGATCCTGACCTGG
1 ATTCTGATATGATCATGACCTGG
* *
148368 ATTCTGATCTGAT-ATTGACATGG
1 ATTCTGATATGATCA-TGACCTGG
*
148391 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATATGAT-CATGACCTGG
148415 ATTCTGATATGAT
1 ATTCTGATATGAT
148428 ACTTGACTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 31 0.61
24 19 0.37
25 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (23 bp):
ATTCTGATATGATCATGACCTGG
Found at i:148415 original size:24 final size:24
Alignment explanation
Indices: 148360--148434 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
148350 GTTATGATCC
148360 TGACCTGGATTCTGATCTGATA-T
1 TGACCTGGATTCTGATCTGATACT
* *
148383 TGACATGGATTCTGATCTGATACA
1 TGACCTGGATTCTGATCTGATACT
*
148407 TGACCTGGATTCTGATATGATACT
1 TGACCTGGATTCTGATCTGATACT
148431 TGAC
1 TGAC
148435 TTGAATTATG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.36
Consensus pattern (24 bp):
TGACCTGGATTCTGATCTGATACT
Found at i:150033 original size:16 final size:17
Alignment explanation
Indices: 150012--150046 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
150002 TTTATAAAAA
150012 TATAAAAA-AATATATT
1 TATAAAAATAATATATT
150028 TATAAAAATTAATATATT
1 TATAAAAA-TAATATATT
150046 T
1 T
150047 TCTTGGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TATAAAAATAATATATT
Found at i:154509 original size:26 final size:25
Alignment explanation
Indices: 154462--154511 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
154452 CAGGTTTCAG
* * *
154462 TCGGATCTTGTCAGGTCGGGTAAAA
1 TCGGATCATGTCAAGTCAGGTAAAA
154487 TCGGATACATGTCAAGTCAGGTAAA
1 TCGGAT-CATGTCAAGTCAGGTAAA
154512 TTTGATGCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (25 bp):
TCGGATCATGTCAAGTCAGGTAAAA
Found at i:154952 original size:13 final size:16
Alignment explanation
Indices: 154917--154953 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
154907 AAATTCAAGA
154917 ATTAAATTGATCAAAT
1 ATTAAATTGATCAAAT
154933 ATTAAATT-A-CAAAT
1 ATTAAATTGATCAAAT
154947 -TTAAATT
1 ATTAAATT
154954 TAAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.33
14 5 0.24
15 1 0.05
16 8 0.38
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTAAATTGATCAAAT
Found at i:155280 original size:209 final size:209
Alignment explanation
Indices: 154919--155623 Score: 1072
Period size: 216 Copynumber: 3.3 Consensus size: 209
154909 ATTCAAGAAT
* * * ** * **
154919 TAAATTGATCAAATATTAAATTACAAATTTAAATTTAAATAAATTAAACAGCA-TGAGGGATCAA
1 TAAATTGAACAAATATGAAATTAAAAATAAAAATTTAAATAAATTAAACAACACAAAGGGATCAA
*
154983 ATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATAC-AAAAAGTACTAAATTATACCCATTTA
66 ATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAAAAAAGTACTAAATTATACCCATTTA
* *
155047 AAAAGTTATGGGCCAATTAAAAAATATAAGTAAGTAATAAGTATGAGTCAATTTCAAATGCAAAT
131 AAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAAATGCAAAT
*
155112 ATAATTTGGAGGAC
196 ATAATTTGAAGGAC
* * *
155126 TAAATTGAACAAATATGAAATTACAAATAAAAAATTAAATAAATTAAACAACACAAAGGAATCAA
1 TAAATTGAACAAATATGAAATTAAAAATAAAAATTTAAATAAATTAAACAACACAAAGGGATCAA
*
155191 ATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAAAAAAGTACTAAATGATACCCATTTA
66 ATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAAAAAAGTACTAAATTATACCCATTTA
* * * *
155256 AAAAGTTAAGGGCCAATTAAAAAATATAACTAAGTAATAAGTATGGGTCAATTTCATATACAAAT
131 AAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAAATGCAAAT
155321 ATAATTTGAAGGAC
196 ATAATTTGAAGGAC
* *
155335 TAAAATGAACAAATATGAAATTAAAAACAAAAATTTAAATAAATTAAACAATACACATTGATGAG
1 TAAATTGAACAAATATGAAATTAAAAATAAAAATTTAAATAAATTAAAC-A-ACACA---A--AG
*
155400 GGATCAAATCGAAATAATTTTAAATTATGAGGTTTAAATTAATACAAAAAAGTACTAAATTATAC
59 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAAAAAAGTACTAAATTATAC
* * * *
155465 TCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAATATGGGTCAATTTCAGA
124 CCATTTAAAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAAA
*
155530 TGCAAATATAATTTTAAGGAC
189 TGCAAATATAATTTGAAGGAC
*
155551 TAAATTGAACAAATATGAAATTAAAAATTAAAATTTAAATAAATTAAACAACACAAAGGGATCAA
1 TAAATTGAACAAATATGAAATTAAAAATAAAAATTTAAATAAATTAAACAACACAAAGGGATCAA
155616 ATCGAAAT
66 ATCGAAAT
155624 GATTGCAAAA
Statistics
Matches: 454, Mismatches: 35, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
207 47 0.10
208 45 0.10
209 160 0.35
210 1 0.00
211 6 0.01
214 6 0.01
215 1 0.00
216 188 0.41
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.29
Consensus pattern (209 bp):
TAAATTGAACAAATATGAAATTAAAAATAAAAATTTAAATAAATTAAACAACACAAAGGGATCAA
ATCGAAATAATTTTAAATTGTGAGGTTTAAATTAATACAAAAAAGTACTAAATTATACCCATTTA
AAAAGTTATGGGCCAATTAAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAAATGCAAAT
ATAATTTGAAGGAC
Found at i:155669 original size:2 final size:2
Alignment explanation
Indices: 155658--156000 Score: 80
Period size: 2 Copynumber: 171.5 Consensus size: 2
155648 TTGAAACAAC
* *
155658 TA TA -A TA TA TA TA TA TA TA TA -A TA TA AA CTA TA TA GTT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA
* * * *
155700 TA TA AA GTA TA TG TA T- TA TA TA TA TA AA CTA TA TA GTT TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA
* * *
155742 TT TA TA T- TA T- TA TA TA CTA TA TA TA AA CTA TA TA T- TA TG TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA
* * * *
155783 TA AA CTA TA -A TA CTA TA TA GTT TA TA TA TGA -A CTA TA TA GA AA
1 TA TA -TA TA TA TA -TA TA TA -TA TA TA TA T-A TA -TA TA TA TA TA
* * * *
155826 CTA CA TA GTT TA T- TA -A TA TA AA TA -A TA TA GTT TA TA TA TA
1 -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * * * * *
155866 AA T- TA TA TA TGA TA TA TA TA TA AA CTA TA CA -A TT TA TG TT TA
1 TA TA TA TA TA T-A TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * *
155908 TA TA T- TA TG TA TA -A T- TA TA AA TA -A TA TA TA T- TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
155945 AA T- TA TA TA GTT TA T- TA -A TA TA AA CTA TA TA GTT TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA
155985 TA TA TA TA GTA TA TA T
1 TA TA TA TA -TA TA TA T
156001 GGTTTAAGGT
Statistics
Matches: 243, Mismatches: 56, Indels: 84
0.63 0.15 0.22
Matches are distributed among these distances:
1 21 0.09
2 197 0.81
3 25 0.10
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (2 bp):
TA
Found at i:155672 original size:11 final size:11
Alignment explanation
Indices: 155658--155776 Score: 56
Period size: 11 Copynumber: 11.1 Consensus size: 11
155648 TTGAAACAAC
155658 TATAATATATA
1 TATAATATATA
155669 TAT-ATATATAA
1 TATAATATAT-A
*
155680 TATAA-A-CTA
1 TATAATATATA
* *
155689 TATAGTTTATA
1 TATAATATATA
155700 TATAA-AGTATA
1 TATAATA-TATA
* *
155711 TGTATTATATA
1 TATAATATATA
155722 TATAA-ACTATA
1 TATAATA-TATA
* *
155733 TAGT-TTATATT
1 TA-TAATATATA
*
155744 TATATTAT-TA
1 TATAATATATA
*
155754 TATACTATATA
1 TATAATATATA
155765 TA-AACTATATA
1 TATAA-TATATA
155776 T
1 T
155777 TATGTATAAA
Statistics
Matches: 81, Mismatches: 15, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
9 5 0.06
10 18 0.22
11 54 0.67
12 4 0.05
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (11 bp):
TATAATATATA
Found at i:155966 original size:79 final size:81
Alignment explanation
Indices: 155842--155991 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 81
155832 AGTTTATTAA
* * *
155842 TATAAATAATATAGTTTATATATAAATTATATATGATATATATATAAACTATACAATTTATGTTT
1 TATAAATAATATAGTATATATATAAATTATATATGATATATATATAAACTATACAATTTATATAT
155907 ATATATTATGTATAAT
66 ATATATTATGTATAAT
* * * *
155923 TATAAATAATATA-TAT-TGTATAAATTATATA-G-TTTATTAATATAAACTATATAGTTTATAT
1 TATAAATAATATAGTATATATATAAATTATATATGATATA-T-ATATAAACTATACAATTTATAT
155984 ATATATAT
64 ATATATAT
155992 AGTATATATG
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
77 3 0.05
78 2 0.03
79 40 0.67
80 2 0.03
81 13 0.22
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (81 bp):
TATAAATAATATAGTATATATATAAATTATATATGATATATATATAAACTATACAATTTATATAT
ATATATTATGTATAAT
Found at i:156130 original size:11 final size:11
Alignment explanation
Indices: 156081--156143 Score: 57
Period size: 9 Copynumber: 6.2 Consensus size: 11
156071 TAGTAGTATT
156081 TAAACTATATA
1 TAAACTATATA
156092 TAAAC-A-ATA
1 TAAACTATATA
156101 TAAACTA-ACT-
1 TAAACTATA-TA
* *
156111 TATACTATATG
1 TAAACTATATA
156122 TAAACTATATA
1 TAAACTATATA
156133 T--ACTATATA
1 TAAACTATATA
156142 TA
1 TA
156144 TGAACTATAG
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
9 17 0.39
10 10 0.23
11 17 0.39
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.37
Consensus pattern (11 bp):
TAAACTATATA
Found at i:156197 original size:20 final size:20
Alignment explanation
Indices: 156172--156241 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
156162 TGAACTATAT
156172 ATATAAACTATATAGTTTAC
1 ATATAAACTATATAGTTTAC
* *
156192 ATATAAAGTATATAGTTTAT
1 ATATAAACTATATAGTTTAC
156212 ATACT-AAC--TATAGTTTAC
1 ATA-TAAACTATATAGTTTAC
156230 ATATAAACTATA
1 ATATAAACTATA
156242 GTTGATATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.02
18 15 0.36
20 25 0.60
21 1 0.02
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.40
Consensus pattern (20 bp):
ATATAAACTATATAGTTTAC
Found at i:156223 original size:18 final size:18
Alignment explanation
Indices: 156169--156249 Score: 74
Period size: 18 Copynumber: 4.3 Consensus size: 18
156159 ATGTGAACTA
156169 TATATATAAACTATATAGTT
1 TATATATAAAC--TATAGTT
* *
156189 TACATATAAAGTATATAGTT
1 TATATATAAA--CTATAGTT
156209 TATATACT-AACTATAGTT
1 TATATA-TAAACTATAGTT
*
156227 TACATATAAACTATAGTT
1 TATATATAAACTATAGTT
*
156245 GATAT
1 TATAT
156250 TTACATATGA
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
17 1 0.02
18 25 0.50
20 23 0.46
21 1 0.02
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.42
Consensus pattern (18 bp):
TATATATAAACTATAGTT
Found at i:156276 original size:24 final size:24
Alignment explanation
Indices: 156220--156289 Score: 72
Period size: 24 Copynumber: 2.9 Consensus size: 24
156210 ATATACTAAC
* **
156220 TATAGTTTACATATAAACTATAGT
1 TATAGTTTACATATGAACTATACA
156244 TGATA-TTTACATATGAACTATACA
1 T-ATAGTTTACATATGAACTATACA
*
156268 TATAGTTTA-TTAGTGAACTATA
1 TATAGTTTACATA-TGAACTATA
156290 TACATTATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
23 5 0.13
24 31 0.79
25 3 0.08
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (24 bp):
TATAGTTTACATATGAACTATACA
Found at i:156388 original size:18 final size:18
Alignment explanation
Indices: 156359--156412 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
156349 ATAATATAAG
156359 TTTATA-TATAAACTATA
1 TTTATATTATAAACTATA
156376 TTTATATTATAAACTATA
1 TTTATATTATAAACTATA
* *
156394 -TAATTATTATAAGCTATA
1 TTTA-TATTATAAACTATA
156412 T
1 T
156413 ATGTCACACC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 8 0.25
18 24 0.75
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (18 bp):
TTTATATTATAAACTATA
Found at i:159207 original size:18 final size:18
Alignment explanation
Indices: 159181--159216 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
159171 TCGAAAGGAC
*
159181 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
159199 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
159217 CGGATGGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:160386 original size:23 final size:23
Alignment explanation
Indices: 160360--160442 Score: 96
Period size: 23 Copynumber: 3.6 Consensus size: 23
160350 TCCGACTTGA
* *
160360 ATTCTGTTATGATCCTGACCTGG
1 ATTCTGATATGATCATGACCTGG
* *
160383 ATTCTGATCTGAT-ATTGACATGG
1 ATTCTGATATGATCA-TGACCTGG
*
160406 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATATGAT-CATGACCTGG
160430 ATTCTGATATGAT
1 ATTCTGATATGAT
160443 ACTTGACTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 31 0.61
24 19 0.37
25 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (23 bp):
ATTCTGATATGATCATGACCTGG
Found at i:160430 original size:24 final size:24
Alignment explanation
Indices: 160375--160449 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
160365 GTTATGATCC
160375 TGACCTGGATTCTGATCTGATA-T
1 TGACCTGGATTCTGATCTGATACT
* *
160398 TGACATGGATTCTGATCTGATACA
1 TGACCTGGATTCTGATCTGATACT
*
160422 TGACCTGGATTCTGATATGATACT
1 TGACCTGGATTCTGATCTGATACT
160446 TGAC
1 TGAC
160450 TTGAATTATG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.36
Consensus pattern (24 bp):
TGACCTGGATTCTGATCTGATACT
Found at i:164591 original size:18 final size:18
Alignment explanation
Indices: 164565--164600 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
164555 TCGAAAGGAC
*
164565 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
164583 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
164601 CTGATGGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:165754 original size:24 final size:24
Alignment explanation
Indices: 165684--165773 Score: 121
Period size: 23 Copynumber: 3.8 Consensus size: 24
165674 AACGACTTGA
* *
165684 ATTCTGTTATGAT-CCTGACCTGG
1 ATTCTGATATGATACTTGACCTGG
* *
165707 ATTCTGATCTGATA-TTGACATGG
1 ATTCTGATATGATACTTGACCTGG
*
165730 ATTCTGATATGATACATGACCTGG
1 ATTCTGATATGATACTTGACCTGG
165754 ATTCTGATATGATACTTGAC
1 ATTCTGATATGATACTTGAC
165774 TTGAATTATG
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
23 31 0.54
24 26 0.46
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.38
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACCTGG
Found at i:165757 original size:47 final size:47
Alignment explanation
Indices: 165684--165773 Score: 137
Period size: 47 Copynumber: 1.9 Consensus size: 47
165674 AACGACTTGA
* * *
165684 ATTCTGTTATGATCCTGACCTGGATTCTGATCTGATA-TTGACATGG
1 ATTCTGATATGATCATGACCTGGATTCTGATATGATACTTGACATGG
165730 ATTCTGATATGATACATGACCTGGATTCTGATATGATACTTGAC
1 ATTCTGATATGAT-CATGACCTGGATTCTGATATGATACTTGAC
165774 TTGAATTATG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
46 12 0.31
47 22 0.56
48 5 0.13
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.38
Consensus pattern (47 bp):
ATTCTGATATGATCATGACCTGGATTCTGATATGATACTTGACATGG
Done.