Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006453.1 Hibiscus syriacus cultivar Beakdansim tig00015632_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: 172346
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:409 original size:21 final size:21
Alignment explanation
Indices: 358--410 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
348 ATTATTACTA
358 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
379 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
400 TCGCAATGCGA
1 TCGCAATGCGA
411 ATAGTAAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:462 original size:41 final size:41
Alignment explanation
Indices: 416--551 Score: 161
Period size: 41 Copynumber: 3.4 Consensus size: 41
406 TGCGAATAGT
* *
416 AAATCGCAATGCGATACTGACTATCGCAACGCGATAATACA
1 AAATCGCAACGCGATACTGACTTTCGCAACGCGATAATACA
* *
457 AAATCGCAACGCGATACTGACTTTCGCAACACGATACTTAC-
1 AAATCGCAACGCGATACTGACTTTCGCAACGCGATA-ATACA
** *
498 -TTTCGCAACGCG-TACTGACTTTCGCAACGAGATAATACA
1 AAATCGCAACGCGATACTGACTTTCGCAACGCGATAATACA
* *
537 TAATCGCAATGCGAT
1 AAATCGCAACGCGAT
552 TTTCAAAGTG
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
38 3 0.04
39 20 0.25
40 19 0.24
41 34 0.43
42 3 0.04
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.23
Consensus pattern (41 bp):
AAATCGCAACGCGATACTGACTTTCGCAACGCGATAATACA
Found at i:518 original size:19 final size:20
Alignment explanation
Indices: 419--531 Score: 122
Period size: 20 Copynumber: 5.7 Consensus size: 20
409 GAATAGTAAA
* *
419 TCGCAATGCGATACTGACTA
1 TCGCAACGCGATACTGACTT
* **
439 TCGCAACGCGATAAT-ACAAAA
1 TCGCAACGCGATACTGAC--TT
460 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
* *
480 TCGCAACACGATACTTACTT
1 TCGCAACGCGATACTGACTT
500 TCGCAACGCG-TACTGACTT
1 TCGCAACGCGATACTGACTT
*
519 TCGCAACGAGATA
1 TCGCAACGCGATA
532 ATACATAATC
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
19 19 0.24
20 42 0.54
21 15 0.19
22 2 0.03
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:742 original size:21 final size:21
Alignment explanation
Indices: 716--758 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
706 CACTCTCTCA
*
716 CCCATCTCCGACGAAATCCGT
1 CCCATCTCAGACGAAATCCGT
*
737 CCCATCTCAGGCGAAATCCGT
1 CCCATCTCAGACGAAATCCGT
758 C
1 C
759 TACCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.42, G:0.16, T:0.19
Consensus pattern (21 bp):
CCCATCTCAGACGAAATCCGT
Found at i:1057 original size:20 final size:20
Alignment explanation
Indices: 1020--1077 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
1010 TATTCTCTCA
* **
1020 TTGCGATAGTCAAATTCGCG
1 TTGCGATTGTCATTTTCGCG
*
1040 TTGCGATTGTCATTTTCGTG
1 TTGCGATTGTCATTTTCGCG
* *
1060 TTACGATTTTCATTTTCG
1 TTGCGATTGTCATTTTCG
1078 AAACAATTCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.45
Consensus pattern (20 bp):
TTGCGATTGTCATTTTCGCG
Found at i:1264 original size:25 final size:24
Alignment explanation
Indices: 1210--1264 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
1200 TGTTTATTAT
* *
1210 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
1234 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
1260 TGTTT
1 TGTTT
1265 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:2406 original size:18 final size:18
Alignment explanation
Indices: 2382--2427 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
2372 CTCACTTCGG
2382 GCCATCACCTCACCCAGA
1 GCCATCACCTCACCCAGA
*
2400 GCTATCACCTCACCCAGA
1 GCCATCACCTCACCCAGA
2418 GCCATCACCT
1 GCCATCACCT
2428 GATCGACCCG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.26, C:0.48, G:0.11, T:0.15
Consensus pattern (18 bp):
GCCATCACCTCACCCAGA
Found at i:3012 original size:19 final size:20
Alignment explanation
Indices: 2969--3013 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
2959 CGTAACACGA
2969 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
2989 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
3008 AAATGA
1 AAATGA
3014 AAATCACAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:3051 original size:19 final size:19
Alignment explanation
Indices: 2997--3079 Score: 95
Period size: 19 Copynumber: 4.6 Consensus size: 19
2987 GGAAATGGCT
2997 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
3016 ATCACAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
3030 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
3049 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
3068 ATTGCAATGCGA
1 ATCGCAATGCGA
3080 TTTGTGTTTC
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
14 9 0.17
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 37 0.71
ACGTcount: A:0.47, C:0.19, G:0.19, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:3128 original size:20 final size:20
Alignment explanation
Indices: 3117--3192 Score: 134
Period size: 20 Copynumber: 3.8 Consensus size: 20
3107 TTACGATTTT
3117 CATTTCCGCGTTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
3137 CATTTCCGCGTTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
*
3157 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCGTTGCGATAGC
*
3177 CATTTTCGCGTTGCGA
1 CATTTCCGCGTTGCGA
3193 AAGTAAGTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.14, C:0.28, G:0.25, T:0.33
Consensus pattern (20 bp):
CATTTCCGCGTTGCGATAGC
Found at i:3203 original size:20 final size:20
Alignment explanation
Indices: 3163--3218 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
3153 TAGCCATTTC
* * *
3163 CGCGTTGCGATAGTCATTTT
1 CGCGTTGCGAAAGTAAGTTT
3183 CGCGTTGCGAAAGTAAGTTT
1 CGCGTTGCGAAAGTAAGTTT
*
3203 CGTGTTGCGAAAGTAA
1 CGCGTTGCGAAAGTAA
3219 ACTATTCTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (20 bp):
CGCGTTGCGAAAGTAAGTTT
Found at i:3210 original size:40 final size:40
Alignment explanation
Indices: 3118--3212 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 40
3108 TACGATTTTC
* *
3118 ATTTCCGCGTTGCGATAGCCATTTCCGCGTTGCGATAGCC
1 ATTTCCGCGTTGCGATAGCCATTTCCGCGTTGCGAAAGCA
* * *
3158 ATTTCCGCGTTGCGATAGTCATTTTCGCGTTGCGAAAGTA
1 ATTTCCGCGTTGCGATAGCCATTTCCGCGTTGCGAAAGCA
*
3198 AGTTT-CGTGTTGCGA
1 A-TTTCCGCGTTGCGA
3213 AAGTAAACTA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
40 45 0.94
41 3 0.06
ACGTcount: A:0.17, C:0.23, G:0.26, T:0.34
Consensus pattern (40 bp):
ATTTCCGCGTTGCGATAGCCATTTCCGCGTTGCGAAAGCA
Found at i:3611 original size:21 final size:21
Alignment explanation
Indices: 3555--3619 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
3545 GCCCGACTCA
3555 CCTATCATCACTCAAGAGTCC
1 CCTATCATCACTCAAGAGTCC
* ** *
3576 CCT-CCAATCGTTCAAGAGGCC
1 CCTATC-ATCACTCAAGAGTCC
*
3597 CCTATCATCCCTCAAGAGTCC
1 CCTATCATCACTCAAGAGTCC
3618 CC
1 CC
3620 CCCACCTTTC
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
20 1 0.03
21 32 0.94
22 1 0.03
ACGTcount: A:0.25, C:0.42, G:0.12, T:0.22
Consensus pattern (21 bp):
CCTATCATCACTCAAGAGTCC
Found at i:3614 original size:42 final size:41
Alignment explanation
Indices: 3555--3637 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 41
3545 GCCCGACTCA
*
3555 CCTATCATCACTCAAGAGTCCCCTCCAATCGTTCAAGAGGCC
1 CCTATCATCACTCAAGAGTCCCC-CCAACCGTTCAAGAGGCC
* * *
3597 CCTATCATCCCTCAAGAGTCCCCCCCACCTTTCAAGAGGCC
1 CCTATCATCACTCAAGAGTCCCCCCAACCGTTCAAGAGGCC
3638 ACTGTCATTG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 15 0.41
42 22 0.59
ACGTcount: A:0.24, C:0.42, G:0.13, T:0.20
Consensus pattern (41 bp):
CCTATCATCACTCAAGAGTCCCCCCAACCGTTCAAGAGGCC
Found at i:5238 original size:19 final size:19
Alignment explanation
Indices: 5216--5261 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
5206 GCAATGAGAG
5216 AATCGCAATGCAAAATAAA
1 AATCGCAATGCAAAATAAA
* *
5235 AATCGCAATGCGAAATGAA
1 AATCGCAATGCAAAATAAA
5254 AATCGCAA
1 AATCGCAA
5262 CGAGAAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.52, C:0.17, G:0.15, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCAAAATAAA
Found at i:5268 original size:19 final size:19
Alignment explanation
Indices: 5228--5268 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
5218 TCGCAATGCA
* *
5228 AAATAAAAATCGCAATGCG
1 AAATAAAAATCGCAACGAG
*
5247 AAATGAAAATCGCAACGAG
1 AAATAAAAATCGCAACGAG
5266 AAA
1 AAA
5269 ATCGCAATGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (19 bp):
AAATAAAAATCGCAACGAG
Found at i:5324 original size:20 final size:20
Alignment explanation
Indices: 5299--5354 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
5289 TCGTATTGCG
*
5299 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
5319 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
5339 ATTTTCGCGTTGCGAT
1 ATTTTCGCGTTGCGAT
5355 TTTCCCGTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.14, C:0.23, G:0.23, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:5358 original size:14 final size:14
Alignment explanation
Indices: 5339--5368 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5329 TGCGATAGCC
*
5339 ATTTTCGCGTTGCG
1 ATTTTCCCGTTGCG
5353 ATTTTCCCGTTGCG
1 ATTTTCCCGTTGCG
5367 AT
1 AT
5369 AGTCAAATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.23, G:0.23, T:0.43
Consensus pattern (14 bp):
ATTTTCCCGTTGCG
Found at i:6046 original size:20 final size:20
Alignment explanation
Indices: 5900--6053 Score: 166
Period size: 20 Copynumber: 7.7 Consensus size: 20
5890 GATTCTGTAT
* * *
5900 TATCTCGTTGAGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* *
5920 AATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
5940 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
5960 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
5980 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* ** *
6000 TATCGCGATGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
*
6021 TATCGCGTTGCGACAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
6041 TATCGCATTGCGA
1 TATCGCGTTGCGA
6054 TTTTCCAAAT
Statistics
Matches: 117, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
19 2 0.02
20 100 0.85
21 13 0.11
22 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:6073 original size:41 final size:41
Alignment explanation
Indices: 5941--6074 Score: 130
Period size: 41 Copynumber: 3.3 Consensus size: 41
5931 GAAAGTCAGA
* * *** *
5941 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTC-AGT
1 ATCGCGTTGCGAAAGTCAGTATCGCGATGCGATTTTCAAAT
** *
5981 ATCGCGTTGCGAAAGTCAGTATCGCGATGCGATTTTGTATT
1 ATCGCGTTGCGAAAGTCAGTATCGCGATGCGATTTTCAAAT
*
6022 ATCGCGTTGCGACAGTCAGTATCGC-ATTGCGATTTTCCAAAT
1 ATCGCGTTGCGAAAGTCAGTATCGCGA-TGCGATTTT-CAAAT
*
6064 -TCGCATTGCGA
1 ATCGCGTTGCGA
6075 TTTACTTATT
Statistics
Matches: 79, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
40 32 0.41
41 45 0.57
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (41 bp):
ATCGCGTTGCGAAAGTCAGTATCGCGATGCGATTTTCAAAT
Found at i:6087 original size:20 final size:21
Alignment explanation
Indices: 6043--6094 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
6033 ACAGTCAGTA
*
6043 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
6064 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
6084 TCGCATTGCGA
1 TCGCATTGCGA
6095 ATTGGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:6136 original size:21 final size:22
Alignment explanation
Indices: 6084--6136 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
6074 ATTTACTTAT
6084 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
* **
6105 TCTCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
6126 TCGCATTGCGA
1 TCGCATTGCGA
6137 TAGTCATAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.23
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:9947 original size:2 final size:2
Alignment explanation
Indices: 9940--9983 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
9930 CTCGACTCTG
9940 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
9982 AT
1 AT
9984 TTCAGGGGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10827 original size:23 final size:23
Alignment explanation
Indices: 10801--10850 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
10791 ATCAAGTTCA
*
10801 ATAACATATTAGGTAACACTTAT
1 ATAACATAATAGGTAACACTTAT
** *
10824 ATAATGTAATAGGTAGCACTTAT
1 ATAACATAATAGGTAACACTTAT
10847 ATAA
1 ATAA
10851 TAAAATAAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (23 bp):
ATAACATAATAGGTAACACTTAT
Found at i:10857 original size:23 final size:23
Alignment explanation
Indices: 10810--10857 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
10800 AATAACATAT
**
10810 TAGGTAACACTTATATAATGTAA
1 TAGGTAACACTTATATAATAAAA
*
10833 TAGGTAGCACTTATATAATAAAA
1 TAGGTAACACTTATATAATAAAA
10856 TA
1 TA
10858 AGTATTTAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.33
Consensus pattern (23 bp):
TAGGTAACACTTATATAATAAAA
Found at i:11331 original size:198 final size:199
Alignment explanation
Indices: 10923--11422 Score: 656
Period size: 198 Copynumber: 2.5 Consensus size: 199
10913 AATAGGTACC
* * * *
10923 AAACCAGTTTATTTATACCGGTAACATTGCAAATTTACCTATTACATTATAATTATCGTTTTCGA
1 AAACCAGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * * *
10988 TGTTTTTGGGATCGATACAATTT--TAAATGTATCAACACTTTATGCGTGCACCTCGTTGGGCAT
66 TATTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCGTACACCTCGTTGGGCAT
* *
11051 TCATTCTGGAAAAAAGTATCGACACATATTTAAAAAGTGTCGATACATTATGTTGACATATTCTC
130 TCATTCTGGAAAAAAGTATCGACACAAATTCAAAAAGTGTCGATACATTATGTTGACATATTCTC
11116 TCATA
195 TCATA
** * *
11121 AAACTGGTATATTTATACCGGTTACATTGTAAATTTACATATTACATCATAATTATCGGTTTCGA
1 AAACCAGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
*
11186 TATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTACACCTCATTTGGGCAT
66 TATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTACACCTC-GTTGGGCAT
* * * * * *
11251 TCATTCTGGACAATAAGTATC-A-ACAAATTCCACAAGTGTCGATACATTATGTTTACATGTTTT
130 TCATTCTGGA-AAAAAGTATCGACACAAATTCAAAAAGTGTCGATACATTATGTTGACATATTCT
*
11314 GT-AGT-
194 CTCA-TA
* * * *
11319 TAACCAGTATATTTATACCGGTTACATTGTTAATTTACCTATTACATTATAATTATTGGTTTTGA
1 AAACCAGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
11384 TATTTTTAGGG-TCGATACTTTTAGA-AAATGTATCGACAC
66 TATTTTT-GGGATCGATACTTTTA-ATAAATGTATCGACAC
11423 ATCTTTTCAC
Statistics
Matches: 265, Mismatches: 30, Indels: 14
0.86 0.10 0.05
Matches are distributed among these distances:
197 3 0.01
198 165 0.62
199 69 0.26
200 19 0.07
201 9 0.03
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.39
Consensus pattern (199 bp):
AAACCAGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
TATTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTACACCTCGTTGGGCATT
CATTCTGGAAAAAAGTATCGACACAAATTCAAAAAGTGTCGATACATTATGTTGACATATTCTCT
CATA
Found at i:14174 original size:19 final size:19
Alignment explanation
Indices: 14150--14193 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
14140 ATTCACATAC
*
14150 AAAATTATAAATCGTATAA
1 AAAATTATAAATCATATAA
* *
14169 AAAATTATGAATCATATAC
1 AAAATTATAAATCATATAA
14188 AAAATT
1 AAAATT
14194 TTCCCTACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.32
Consensus pattern (19 bp):
AAAATTATAAATCATATAA
Found at i:16367 original size:198 final size:198
Alignment explanation
Indices: 15716--17500 Score: 2354
Period size: 198 Copynumber: 9.0 Consensus size: 198
15706 ATTGAAGGAA
*
15716 AAAAAGTATCGACACAACTTTAAACAA-TGTCGATACATTATGTAGACCTATTTTCTAATTAACC
1 AAAAAGTATCGACACAAATTTAAA-AAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACC
* * * *
15780 GGTATATTTCTACCGGTTACATTGGAAATTTACCTATTACATTATATTTATCAGTTTCGATATTT
65 GGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
* * * * *
15845 ATGGGATCGATACTTTTTATAAATGTATTGACATTTTATTCGTACACCCCGTTAGGCATTCTTTC
130 TTGGGATCGATAC-TTTTATAAATGTATCGACACTTTATTCGTGCACCCCGTTGGGCATTCTTTC
*
15910 TGGTA
194 TGGTC
* *
15915 AAAAAGTATCGACACAACTTTAAAAAGTGTCGACACATTATGTAGACCTATTTTCTAATTAACCG
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * * * *
15980 ATATATTTCTACCGGTTACATTGGAAATTTACCTATTACATTATATTTATCGCTTTCGATGTTTA
66 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* * * *
16045 TGGGATCGATACTTTTTATAAATGTATTGACACTTTATGCGTGCACTCCGTTAGGCATTCTTTCT
131 TGGGATCGATAC-TTTTATAAATGTATCGACACTTTATTCGTGCACCCCGTTGGGCATTCTTTCT
16110 GGTC
195 GGTC
* ** * * *
16114 AAAACGTATCGACACAAATTCCACAAGTGTCGATACATGATGTAGACCTATTTTCTAATTAAACG
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* *
16179 GTATATTTCTACCAGTTACATTGTAAAGTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
66 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* * *
16244 TGGGATCGATACAATCT-TAAATGTATCGACACTTTATTCGTACACCCCGTTGGGCATTCTTTCT
131 TGGGATCGATAC-TTTTATAAATGTATCGACACTTTATTCGTGCACCCCGTTGGGCATTCTTTCT
16308 GGTC
195 GGTC
* *
16312 AAAACGTATCGACACAAATTTAAAAAGTGTCGATACGTTATGTAGACCTATTTTCTAATTAACCG
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* *
16377 GTATATTTCTACCGGTTACATTGTAAAGTTACCTATTACATTATAATTTTCGGTTTCGATGTTTT
66 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* * * * * * ** ** *
16442 TGGGATCGATATCATTT-TCAGTGTATCGACACTTTATGCATGCACTCTTTTATGCATTCATTCT
131 TGGGATCGATA-CTTTTATAAATGTATCGACACTTTATTCGTGCACCCCGTTGGGCATTCTTTCT
*
16506 GGAC
195 GGTC
* * * * * *
16510 AAAAAGTATCGACACAAATTTCACAAGTGTCGATACATGATTTAGTCCTATTTTCTAATTAACTG
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * * *
16575 GTATATTTCTATCGGTTACATTGTAAAGTTACCTATTACATTATAATTATCGGTTTCAATATTTT
66 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
*
16640 TGGGATCGATACAATTTTA-AAA-GTATCGACACTTTATTCGTACACCCCGTTGGGCATTCTTTC
131 TGGGATCGATAC--TTTTATAAATGTATCGACACTTTATTCGTGCACCCCGTTGGGCATTCTTTC
16703 TGGTC
194 TGGTC
* **
16708 AAAATGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACTA
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * *
16773 GTATATTTATACCGGTTACATTGTAAAATTACCTATTACATTATAATTTTCGGTTTCGATGTTTT
66 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* * * ** * *
16838 TGGGATCGATATCATTTT-T-AGTGTATCGACACTTTATGCGTGCACTCTTTTAGGCATTCATTC
131 TGGGATCGATA-C-TTTTATAAATGTATCGACACTTTATTCGTGCACCCCGTTGGGCATTCTTTC
*
16901 TGGAC
194 TGGTC
* ** * * * *
16906 AAAAAGTTTCGACACAAATTCCACAAGTGTCGATACATGATGTAGACCTATTCTCTAATTAACCA
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * * *
16971 ATATATTTCTACCGGTTACATTATAAATTTACATATTACATTATATTTATCGGTTTCGATGTTTT
66 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* * *
17036 TGGGATAGATACGTTTTATAAATGTATCGACACTTTATTCGTGCACCTCGTTGGGCATTCATTCT
131 TGGGATCGATAC-TTTTATAAATGTATCGACACTTTATTCGTGCACCCCGTTGGGCATTCTTTCT
*
17101 AGTC
195 GGTC
* **
17105 AAAACA-TATCGACAAAAATTTAAAAAGCATCGATACATTATGTAGACCTATTTTCTAATTAACC
1 AAAA-AGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACC
* *
17169 GGTATATTTCTACCGGTTACATTGGAAA-TTACCTATTACATTATAATTATC-TTATTCGATGTT
65 GGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGT-TTCGATGTT
* *
17232 TTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACCTCAGTTGGTCATTCAT
129 TTTGGGATCGATAC-TTTTATAAATGTATCGACACTTTATTCGTGCACC-CCGTTGGGCATTC-T
*
17297 TT-TGGAC
191 TTCTGGTC
* * * * *
17304 AAAAAGTATTGATAC-AATTTAAAAAGTGTCGATATATTATATAGACATATTTTCTAATTAACCG
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * *
17368 GTATATATCTACCGGTTACATTGTAAATTTACATATTACATTATAATTATC-TTATTCGATGTTT
66 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGT-TTCGATGTTT
* *
17432 TTGGGATCGATACTTTTAATAAATGTATCGACACTTTATTCGTGCACCTCGGTTGGGCATTCATT
130 TTGGGATCGATACTTTT-ATAAATGTATCGACACTTTATTCGTGCACC-CCGTTGGGCATTCTTT
17497 CTGG
193 CTGG
17501 AGATTACTGA
Statistics
Matches: 1403, Mismatches: 165, Indels: 36
0.87 0.10 0.02
Matches are distributed among these distances:
197 8 0.01
198 838 0.60
199 554 0.39
200 3 0.00
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (198 bp):
AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
TGGGATCGATACTTTTATAAATGTATCGACACTTTATTCGTGCACCCCGTTGGGCATTCTTTCTG
GTC
Found at i:18779 original size:24 final size:24
Alignment explanation
Indices: 18752--18815 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
18742 AGTGGAGCCG
18752 AAATTTATATTGAAATTCAAACTC
1 AAATTTATATTGAAATTCAAACTC
* * *
18776 AAATTGAAATTTAAATTCAAACTC
1 AAATTTATATTGAAATTCAAACTC
*
18800 CAATTTCATA-TGAAAT
1 AAATTT-ATATTGAAAT
18816 AAACTTGAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
24 30 0.94
25 2 0.06
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.36
Consensus pattern (24 bp):
AAATTTATATTGAAATTCAAACTC
Found at i:18783 original size:18 final size:18
Alignment explanation
Indices: 18760--18796 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
18750 CGAAATTTAT
18760 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
18778 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
18796 A
1 A
18797 CTCCAATTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:21399 original size:15 final size:15
Alignment explanation
Indices: 21358--21407 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
21348 GAAGAATCAA
*
21358 TTGGTTGAGAAGGAGG
1 TTGGTTGAGAA-GAGC
21374 TTGTCGTTGAGAAGAGC
1 TTG--GTTGAGAAGAGC
*
21391 TTGGTTGAGAAAAGC
1 TTGGTTGAGAAGAGC
21406 TT
1 TT
21408 TGAGAAAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 13 0.43
16 3 0.10
17 6 0.20
18 8 0.27
ACGTcount: A:0.26, C:0.06, G:0.38, T:0.30
Consensus pattern (15 bp):
TTGGTTGAGAAGAGC
Found at i:22050 original size:20 final size:20
Alignment explanation
Indices: 22024--22075 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
22014 CTTCGATTTA
22024 ATCGACACTTGGGTAGTTGT
1 ATCGACACTTGGGTAGTTGT
*
22044 GTCGACACTTGGGTAGTTGT
1 ATCGACACTTGGGTAGTTGT
22064 ATCGACACTTGG
1 ATCGACACTTGG
22076 ATATTTCCTT
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:0.19, C:0.17, G:0.31, T:0.33
Consensus pattern (20 bp):
ATCGACACTTGGGTAGTTGT
Found at i:23084 original size:181 final size:182
Alignment explanation
Indices: 22693--23328 Score: 893
Period size: 181 Copynumber: 3.5 Consensus size: 182
22683 GTCATTCCGA
* * *
22693 ATATCCGGCAGCGTTTTACCGATTTTGTTATTTCGAGACCGGTTTTGTCATATTTTTATCTGTTA
1 ATATCCGGTAGCGTTTTACCGATTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTA
** * *
22758 TATCGTTATGGATCGATATTTTTTTATAAATTATCGACACTTTATAGGTGCTATTACTGCTTCTC
66 TATCGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTATTACTGCTTCTC
* *
22823 TTTTAAATTCCCAAAGTGTCGATACTTATATAAAAATAGCGACACTTTCAAT
131 TTTTAAATTCCCAAAGTGTCGATACTTATATTAAAATATCGACACTTTCAAT
* *
22875 ATATCCGGTAGCGATTTACCGGTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTA
1 ATATCCGGTAGCGTTTTACCGATTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTA
* *
22940 TATCGTTATGGATCAATACATTTTTATAAAGTATCGACAATTTATAGGCG-TATTACTGCTTCTC
66 TATCGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTATTACTGCTTCTC
* *
23004 TTTGAAATTCCCAAAGTGTCGATACTTATATTAAAGTATCGACACTTTCAAT
131 TTTTAAATTCCCAAAGTGTCGATACTTATATTAAAATATCGACACTTTCAAT
* * *
23056 ATATCCGGTAGCGTTTTACCGATTTTGTCATTTCTATACCGGTTTTGTAATATTTTTACCTGTTA
1 ATATCCGGTAGCGTTTTACCGATTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTA
* *
23121 TATCGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCCATTACTGATTCTC
66 TATCGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTATTACTGCTTCTC
** * *
23186 TTTTAAATTCCCAAAGTGTCGATACTTAT-TTCAATCTAATCGATACTTTCAAC
131 TTTTAAATTCCCAAAGTGTCGATACTTATATT-AAAAT-ATCGACACTTTCAAT
* ** * * * *
23239 ATATCCGATAGCCCTTTACCGGTTTTGTCATAATT--AAACCGGTTTTGCCATATTTTTACTTGT
1 ATATCCGGTAGCGTTTTACCGATTTTGTCAT--TTCGAGACCGGTTTTGTCATATTTTTACCTGT
* * * *
23302 TATATTGATATGGATCTATATATTTTT
64 TATATCGTTATGGATCGATACATTTTT
23329 TATTTGGATC
Statistics
Matches: 408, Mismatches: 41, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
181 172 0.42
182 147 0.36
183 87 0.21
185 2 0.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.42
Consensus pattern (182 bp):
ATATCCGGTAGCGTTTTACCGATTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTA
TATCGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTATTACTGCTTCTC
TTTTAAATTCCCAAAGTGTCGATACTTATATTAAAATATCGACACTTTCAAT
Found at i:24024 original size:59 final size:59
Alignment explanation
Indices: 23922--24108 Score: 186
Period size: 59 Copynumber: 3.2 Consensus size: 59
23912 ATTTTGATAT
* * *
23922 GTTTCAGTATTTAAATTTTTAATTTTT-TAAAATTATATCTAATATTTTA-TTTATATTTC
1 GTTTTAGTACTTAAATTTTTAATTTTTCT-AAATCATATCTAATATTTTACTTT-TATTTC
* * *
23981 GTTTTAGTACTTAAACTTTTAATTTTTCTAAATCATATTTAATA-TTTAGCTTTTTTTTC
1 GTTTTAGTACTTAAATTTTTAATTTTTCTAAATCATATCTAATATTTTA-CTTTTATTTC
* * * * * *
24040 ATTTTAATACCTAAATTTTTAATTTTTTCAAAATCATATCTAACA-TTTACTATTTGTTTC
1 GTTTTAGTACTTAAATTTTTAA-TTTTTCTAAATCATATCTAATATTTTACT-TTTATTTC
24100 G-TTTAGTAC
1 GTTTTAGTAC
24109 CTAATGTGTG
Statistics
Matches: 107, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
58 4 0.04
59 69 0.64
60 34 0.32
ACGTcount: A:0.30, C:0.10, G:0.04, T:0.56
Consensus pattern (59 bp):
GTTTTAGTACTTAAATTTTTAATTTTTCTAAATCATATCTAATATTTTACTTTTATTTC
Found at i:27768 original size:13 final size:13
Alignment explanation
Indices: 27750--27792 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
27740 ACATATAGGA
27750 AGGCCCCAGGCCT
1 AGGCCCCAGGCCT
27763 AGGCCCCAGGCCT
1 AGGCCCCAGGCCT
*
27776 AGG-CCTAGGCCT
1 AGGCCCCAGGCCT
27788 AGGCC
1 AGGCC
27793 TAGGAGGAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
12 11 0.39
13 17 0.61
ACGTcount: A:0.16, C:0.42, G:0.33, T:0.09
Consensus pattern (13 bp):
AGGCCCCAGGCCT
Found at i:27779 original size:6 final size:6
Alignment explanation
Indices: 27757--27796 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
27747 GGAAGGCCCC
*
27757 AGGCCT AGGCCCC AGGCCT AGGCCT AGGCCT AGGCCT AGG
1 AGGCCT AGG-CCT AGGCCT AGGCCT AGGCCT AGGCCT AGG
27797 AGGAGTGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.17, C:0.35, G:0.35, T:0.12
Consensus pattern (6 bp):
AGGCCT
Found at i:30104 original size:2 final size:2
Alignment explanation
Indices: 30097--30170 Score: 130
Period size: 2 Copynumber: 37.0 Consensus size: 2
30087 AAACTCACTA
* *
30097 AT AT AT AT AT AT AT AT AC AT AT AC 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
30139 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
30171 TCTGAATAGA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:35531 original size:143 final size:143
Alignment explanation
Indices: 35205--35781 Score: 661
Period size: 143 Copynumber: 4.0 Consensus size: 143
35195 TAGAAAAGTC
** * *
35205 AACTTTTCAGTGCTTAATTAATTATCTTAAGAAATTTTTCAGTGATATATAAACTCATTTCAGCA
1 AACTTTTCAGTGCCCAATTAATTATCTTAAGCAATTTTTCAGTGATATATCAACTCATTTCAGCA
* * *
35270 AACTTTTCAGTGGTGATATATCACTTAATATCAGAAAAAATGTGCATTTCTCATAGGCAAAATGA
66 AACTTTTCAGTGATGATATATCACTTAATATCA-AAAAAACGTGCATTTCTCATAGGCAAAATAA
35335 TGCACCATGGTAGA
130 TGCACCATGGTAGA
* * *
35349 AACTTTT-ATGTGCCCAATTAATTATCTTAAGCAACTTTTCAATGATATATCAACTCATTT-TGA
1 AACTTTTCA-GTGCCCAATTAATTATCTTAAGCAATTTTTCAGTGATATATCAACTCATTTCAG-
* * * * *
35412 TAAACTTTTTAGTGATGATATATCACTTCATATCATAAAAACGTACATTTCTCATAGGCAAAATA
64 CAAACTTTTCAGTGATGATATATCACTTAATATCAAAAAAACGTGCATTTCTCATAGGCAAAATA
*
35477 ATGCACCAT-GTCTGA
129 ATGCACCATGGT-AGA
* * * *
35492 AACTTTTCAGTGCCCAATTAATTACCTTCAA-TAATTTTTCAGTAATATATCAACTTATTTCAGC
1 AACTTTTCAGTGCCCAATTAATTATCTT-AAGCAATTTTTCAGTGATATATCAACTCATTTCAGC
* * * *
35556 AAACTTTTCAGCGGTGATATATCATTTAATATCAGAAAAACGTGCATTTCTCATAGGC--AA-AA
65 AAACTTTTCAGTGATGATATATCACTTAATATCAAAAAAACGTGCATTTCTCATAGGCAAAATAA
*
35618 TGCACCATGGTAAA
130 TGCACCATGGTAGA
*** * * * * *
35632 AAAAATTCAATGTCCAATTAATTATCTTCAGCAACTTTTT-GGTGATATATCAACTCATTTCAAC
1 AACTTTTCAGTGCCCAATTAATTATCTTAAGCAA-TTTTTCAGTGATATATCAACTCATTTCAGC
* * * * *
35696 AAACTTTTTAGT-AGTAATTTATCACTTCATAT-AAAAAAATGTGCATTTCTCATAGGCAAAATA
65 AAACTTTTCAGTGA-TGATATATCACTTAATATCAAAAAAACGTGCATTTCTCATAGGCAAAATA
*
35759 ATGCACCATGGAAGA
129 ATGCACCATGGTAGA
35774 AACCTTTT
1 AA-CTTTT
35782 AGATCATAAA
Statistics
Matches: 360, Mismatches: 59, Indels: 29
0.80 0.13 0.06
Matches are distributed among these distances:
139 24 0.07
140 79 0.22
141 11 0.03
142 18 0.05
143 141 0.39
144 87 0.24
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (143 bp):
AACTTTTCAGTGCCCAATTAATTATCTTAAGCAATTTTTCAGTGATATATCAACTCATTTCAGCA
AACTTTTCAGTGATGATATATCACTTAATATCAAAAAAACGTGCATTTCTCATAGGCAAAATAAT
GCACCATGGTAGA
Found at i:35725 original size:283 final size:284
Alignment explanation
Indices: 35205--35768 Score: 789
Period size: 287 Copynumber: 2.0 Consensus size: 284
35195 TAGAAAAGTC
** * *
35205 AACTTTTCAGTGCTTAATTAATTATCTTAAGAAATTTTTCAGTGATATATAAACTCATTTCAGCA
1 AACTTTTCAGTGCCCAATTAATTACCTTAAGAAATTTTTCAGTAATATATAAACTCATTTCAGCA
* *
35270 AACTTTTCAGTGGTGATATATCACTTAATATCAGAAAAAATGTGCATTTCTCATAGGCAAAATGA
66 AACTTTTCAGCGGTGATATATCACTTAATATCAGAAAAAACGTGCATTTCTCATAGGCAAAA-GA
* * **
35335 TGCACCATGGTAGAAACTTTTATGTGCCCAATTAATTATCTTAAGCAACTTTTCAATGATATATC
130 TGCACCATGGTAAAAAATTCAATGT-CCCAATTAATTATCTTAAGCAACTTTTCAATGATATATC
** * * *
35400 AACTCATTTTGATAAACTTTTTAGTGATGATATATCACTTCATATCATAAAAACGTACATTTCTC
194 AACTCATTTCAACAAACTTTTTAGTGATAATATATCACTTCATAT-AAAAAAACGTACATTTCTC
35465 ATAGGCAAAATAATGCACCATGTCTGA
258 ATAGGCAAAATAATGCACCATGTCTGA
* * *
35492 AACTTTTCAGTGCCCAATTAATTACCTTCAA-TAATTTTTCAGTAATATATCAACTTATTTCAGC
1 AACTTTTCAGTGCCCAATTAATTACCTT-AAGAAATTTTTCAGTAATATATAAACTCATTTCAGC
*
35556 AAACTTTTCAGCGGTGATATATCATTTAATATCAG-AAAAACGTGCATTTCTCATAGGC-AAA-A
65 AAACTTTTCAGCGGTGATATATCACTTAATATCAGAAAAAACGTGCATTTCTCATAGGCAAAAGA
* ***
35618 TGCACCATGGTAAAAAAAATTCAATGT-CCAATTAATTATCTTCAGCAACTTTTTGGTGATATAT
130 TGCACCATGGT--AAAAAATTCAATGTCCCAATTAATTATCTTAAGCAACTTTTCAATGATATAT
* * *
35682 CAACTCATTTCAACAAACTTTTTAGT-AGTAATTTATCACTTCATATAAAAAAATGTGCATTTCT
193 CAACTCATTTCAACAAACTTTTTAGTGA-TAATATATCACTTCATATAAAAAAACGTACATTTCT
35746 CATAGGCAAAATAATGCACCATG
257 CATAGGCAAAATAATGCACCATG
35769 GAAGAAACCT
Statistics
Matches: 247, Mismatches: 26, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
282 39 0.16
283 84 0.34
285 13 0.05
286 22 0.09
287 87 0.35
288 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (284 bp):
AACTTTTCAGTGCCCAATTAATTACCTTAAGAAATTTTTCAGTAATATATAAACTCATTTCAGCA
AACTTTTCAGCGGTGATATATCACTTAATATCAGAAAAAACGTGCATTTCTCATAGGCAAAAGAT
GCACCATGGTAAAAAATTCAATGTCCCAATTAATTATCTTAAGCAACTTTTCAATGATATATCAA
CTCATTTCAACAAACTTTTTAGTGATAATATATCACTTCATATAAAAAAACGTACATTTCTCATA
GGCAAAATAATGCACCATGTCTGA
Found at i:37418 original size:28 final size:28
Alignment explanation
Indices: 37326--37421 Score: 97
Period size: 28 Copynumber: 3.5 Consensus size: 28
37316 TTAACCAATT
* *
37326 AGATAACAGTCATACCCGAGACCTCTAG
1 AGATAACAATCATACTCGAGACCTCTAG
* * ** * *
37354 AGATAATAATTATCACTTTA-ACCACT-T
1 AGATAACAATCAT-ACTCGAGACCTCTAG
37381 AGATAACAATCATACTCGAGACCTCTAG
1 AGATAACAATCATACTCGAGACCTCTAG
37409 AGATAACAATCAT
1 AGATAACAATCAT
37422 CCCATTTTGG
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
26 4 0.08
27 16 0.31
28 28 0.55
29 3 0.06
ACGTcount: A:0.41, C:0.23, G:0.11, T:0.25
Consensus pattern (28 bp):
AGATAACAATCATACTCGAGACCTCTAG
Found at i:37786 original size:60 final size:61
Alignment explanation
Indices: 37681--37817 Score: 149
Period size: 60 Copynumber: 2.3 Consensus size: 61
37671 TAAATTGTGT
* * * **
37681 AAAG-TACATAAATGAT-CTTCTGACTATAGAGTGTTGTTTTATTGAGT-TCATCGGCTATTA
1 AAAGTTACA-AAATGATCCTTCTGACCATAGAATGTTGTTTTATTGAGTCCCATC-AATATTA
*
37741 AAAGTTACAAAATGATCCTTCT-ACCATAGAATGTT-TCTTTTTTGAGTCCCATCAATATTA
1 AAAGTTACAAAATGATCCTTCTGACCATAGAATGTTGT-TTTATTGAGTCCCATCAATATTA
*
37801 AAAGTTGCAAAATGATC
1 AAAGTTACAAAATGATC
37818 ACATGACTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
59 1 0.02
60 52 0.79
61 13 0.20
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (61 bp):
AAAGTTACAAAATGATCCTTCTGACCATAGAATGTTGTTTTATTGAGTCCCATCAATATTA
Found at i:37990 original size:59 final size:60
Alignment explanation
Indices: 37924--38049 Score: 168
Period size: 60 Copynumber: 2.1 Consensus size: 60
37914 ATAGTTGGGT
* * *
37924 GACTATTTTGTAACTTTTAATAGTCG-GACACTCAA-AGAAGCAATGTTCTACT-GTCGATG
1 GACTATTTTGTAACTTTTAATAGTCGAAACACTCAATA-AAGCAATGCTCTA-TAGTCAATG
* *
37983 GACTATTTTGTAACTTTTAATAGTTGAAAGACTCAATAAAGCAATGCTCTATAGTCAATG
1 GACTATTTTGTAACTTTTAATAGTCGAAACACTCAATAAAGCAATGCTCTATAGTCAATG
38043 GACTATT
1 GACTATT
38050 CTTATACTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
59 26 0.44
60 32 0.54
61 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (60 bp):
GACTATTTTGTAACTTTTAATAGTCGAAACACTCAATAAAGCAATGCTCTATAGTCAATG
Found at i:45196 original size:2 final size:2
Alignment explanation
Indices: 45191--45245 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
45181 TCTCTCTCTC
45191 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
45233 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
45246 GAGTTATGAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:46711 original size:15 final size:15
Alignment explanation
Indices: 46691--46720 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
46681 AAATTACTCC
46691 CCCTTACTCTAACAT
1 CCCTTACTCTAACAT
46706 CCCTTACTCTAACAT
1 CCCTTACTCTAACAT
46721 ACCTATTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.40, G:0.00, T:0.33
Consensus pattern (15 bp):
CCCTTACTCTAACAT
Found at i:48990 original size:21 final size:21
Alignment explanation
Indices: 48964--49003 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
48954 CAGAACCCCA
*
48964 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
48985 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
49004 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:55965 original size:14 final size:13
Alignment explanation
Indices: 55947--56001 Score: 74
Period size: 13 Copynumber: 4.2 Consensus size: 13
55937 CCGAGTTAAC
55947 CCGTTGACTTTGA
1 CCGTTGACTTTGA
55960 CACGTTGACTTTGA
1 C-CGTTGACTTTGA
* *
55974 TCGTTTACTTTGA
1 CCGTTGACTTTGA
*
55987 CTGTTGACTTTGA
1 CCGTTGACTTTGA
56000 CC
1 CC
56002 CAAAAATTCA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
13 23 0.66
14 12 0.34
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.42
Consensus pattern (13 bp):
CCGTTGACTTTGA
Found at i:57858 original size:19 final size:19
Alignment explanation
Indices: 57820--57858 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
57810 ATAGATGTTT
* *
57820 TCTCTGATTTCTGTTATGA
1 TCTCTGATCTCTGCTATGA
*
57839 TCTCTGATCTCTGCTCTGA
1 TCTCTGATCTCTGCTATGA
57858 T
1 T
57859 TTTTTATATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.13, C:0.23, G:0.15, T:0.49
Consensus pattern (19 bp):
TCTCTGATCTCTGCTATGA
Found at i:58051 original size:31 final size:30
Alignment explanation
Indices: 58013--58112 Score: 114
Period size: 31 Copynumber: 3.3 Consensus size: 30
58003 TAAGACAACC
58013 CTTGGGTAGGCTCTGTGGCCCTGAGATCTTT
1 CTTGGGTAGGC-CTGTGGCCCTGAGATCTTT
* *
58044 CTTGGGTAGGCCTTGTGACCCCGAGAT-TCTT
1 CTTGGGTAGGCC-TGTGGCCCTGAGATCT-TT
* *
58075 CTT-GGTAGGCCTCGTAGCCCTGAGAACTTT
1 CTTGGGTAGGCCT-GTGGCCCTGAGATCTTT
58105 CTTGGGTA
1 CTTGGGTA
58113 AGCTTTCAGG
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
29 1 0.02
30 24 0.41
31 33 0.57
ACGTcount: A:0.13, C:0.24, G:0.30, T:0.33
Consensus pattern (30 bp):
CTTGGGTAGGCCTGTGGCCCTGAGATCTTT
Found at i:59059 original size:105 final size:105
Alignment explanation
Indices: 58930--59140 Score: 404
Period size: 105 Copynumber: 2.0 Consensus size: 105
58920 TTTATACAAA
58930 TAATCACTTTTATTGTGTAGATAAGATCACACACTTGCAATTAAGAGAAAAATAAATAAGGGTAA
1 TAATCACTTTTATTGTGTAGATAAGATCACACACTTGCAATTAAGAGAAAAATAAATAAGGGTAA
*
58995 ACTATATCATTGATCACTTAACTATTTAACCATTTTACTT
66 AATATATCATTGATCACTTAACTATTTAACCATTTTACTT
59035 TAATCACTTTTATTGTGTAGATAAGATCACACACTTGCAATTAAGAGAAAAATAAATAAGGGTAA
1 TAATCACTTTTATTGTGTAGATAAGATCACACACTTGCAATTAAGAGAAAAATAAATAAGGGTAA
*
59100 AATATATCATTGATCACTTAACTATTTAACCCTTTTACTT
66 AATATATCATTGATCACTTAACTATTTAACCATTTTACTT
59140 T
1 T
59141 TACTATTGTT
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 104 1.00
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (105 bp):
TAATCACTTTTATTGTGTAGATAAGATCACACACTTGCAATTAAGAGAAAAATAAATAAGGGTAA
AATATATCATTGATCACTTAACTATTTAACCATTTTACTT
Found at i:60090 original size:29 final size:30
Alignment explanation
Indices: 60033--60091 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
60023 GCGAGCAGCT
*
60033 TGATTGAATAAATTAAATAGTTAAGTGGTA
1 TGATTGAATAAATTAAATAGTCAAGTGGTA
60063 TGATTG-ATAAAATTAAA-AGATCAA-TGGTA
1 TGATTGAAT-AAATTAAATAG-TCAAGTGGTA
60092 GAAGTAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.46, C:0.02, G:0.19, T:0.34
Consensus pattern (30 bp):
TGATTGAATAAATTAAATAGTCAAGTGGTA
Found at i:77425 original size:15 final size:15
Alignment explanation
Indices: 77405--77436 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
77395 ACTCAAAGTT
77405 TTCTATTTATAATAA
1 TTCTATTTATAATAA
77420 TTCTATTTATAATAA
1 TTCTATTTATAATAA
77435 TT
1 TT
77437 TAAGTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (15 bp):
TTCTATTTATAATAA
Found at i:78558 original size:24 final size:24
Alignment explanation
Indices: 78531--78601 Score: 72
Period size: 28 Copynumber: 2.8 Consensus size: 24
78521 GTTCGTGAAC
78531 GTTCGGTTATGTTCGTTT-GGTTAT
1 GTTCGGTTATGTTCGTTTAGGTT-T
*
78555 GTTCGTTTGGTTATGTTCGTTTATGTTT
1 GTTC----GGTTATGTTCGTTTAGGTTT
*
78583 GTTCGATTATGTTCGTTTA
1 GTTCGGTTATGTTCGTTTA
78602 TGTTCATTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
24 18 0.45
28 19 0.47
29 3 0.08
ACGTcount: A:0.10, C:0.08, G:0.25, T:0.56
Consensus pattern (24 bp):
GTTCGGTTATGTTCGTTTAGGTTT
Found at i:78585 original size:28 final size:28
Alignment explanation
Indices: 78530--78600 Score: 87
Period size: 24 Copynumber: 2.7 Consensus size: 28
78520 CGTTCGTGAA
78530 CGTTCGGTTATGTTCGTTTGGTTATGTT
1 CGTTCGGTTATGTTCGTTTGGTTATGTT
*
78558 CGTTTGGTTATGTTCG--T--TTATGTT
1 CGTTCGGTTATGTTCGTTTGGTTATGTT
* *
78582 TGTTCGATTATGTTCGTTT
1 CGTTCGGTTATGTTCGTTT
78601 ATGTTCATTC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
24 20 0.54
26 2 0.05
28 15 0.41
ACGTcount: A:0.08, C:0.10, G:0.25, T:0.56
Consensus pattern (28 bp):
CGTTCGGTTATGTTCGTTTGGTTATGTT
Found at i:78587 original size:14 final size:14
Alignment explanation
Indices: 78530--78576 Score: 85
Period size: 14 Copynumber: 3.4 Consensus size: 14
78520 CGTTCGTGAA
*
78530 CGTTCGGTTATGTT
1 CGTTTGGTTATGTT
78544 CGTTTGGTTATGTT
1 CGTTTGGTTATGTT
78558 CGTTTGGTTATGTT
1 CGTTTGGTTATGTT
78572 CGTTT
1 CGTTT
78577 ATGTTTGTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.06, C:0.11, G:0.28, T:0.55
Consensus pattern (14 bp):
CGTTTGGTTATGTT
Found at i:78602 original size:24 final size:24
Alignment explanation
Indices: 78551--78619 Score: 86
Period size: 24 Copynumber: 2.9 Consensus size: 24
78541 GTTCGTTTGG
* *
78551 TTATGTTCGTTTGGTTATGTTCGT
1 TTATGTTCGTTCGATTATGTTCGT
*
78575 TTATGTTTGTTCGATTATGTTCGT
1 TTATGTTCGTTCGATTATGTTCGT
*
78599 TTATGTTCATTC-ATTTATGTT
1 TTATGTTCGTTCGA-TTATGTT
78620 TAACCCAATC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
23 1 0.03
24 38 0.97
ACGTcount: A:0.13, C:0.09, G:0.19, T:0.59
Consensus pattern (24 bp):
TTATGTTCGTTCGATTATGTTCGT
Found at i:79357 original size:10 final size:10
Alignment explanation
Indices: 79342--79416 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
79332 GGGTCTCCAA
79342 CGTTTATGTT
1 CGTTTATGTT
79352 CGTTTATGTT
1 CGTTTATGTT
79362 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
79373 ATGTTCGTGTT
1 -CGTTTATGTT
79384 CGTTTATGTT
1 CGTTTATGTT
79394 CG----TGTT
1 CGTTTATGTT
79400 CGTTTATGTT
1 CGTTTATGTT
79410 CGTTTAT
1 CGTTTAT
79417 TTATTAAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
10 34 0.67
11 7 0.14
12 4 0.08
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:79373 original size:16 final size:16
Alignment explanation
Indices: 79348--79412 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
79338 CCAACGTTTA
79348 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
79364 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
79380 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
79396 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
79412 T
1 T
79413 TTATTTATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.08, C:0.12, G:0.23, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:80023 original size:23 final size:24
Alignment explanation
Indices: 79990--80047 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 24
79980 TCGGTGTTGA
* * *
79990 AAGTCAAAATTGGAGGTTTTGGGG
1 AAGTCAAAATTGGAGGCTTAGGAG
80014 AA-TCAAAATTGGAGGCTTAGGAG
1 AAGTCAAAATTGGAGGCTTAGGAG
80037 AAGTCAAAATT
1 AAGTCAAAATT
80048 AAGGGCTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 20 0.67
24 10 0.33
ACGTcount: A:0.38, C:0.07, G:0.29, T:0.26
Consensus pattern (24 bp):
AAGTCAAAATTGGAGGCTTAGGAG
Found at i:82983 original size:22 final size:22
Alignment explanation
Indices: 82958--83023 Score: 89
Period size: 22 Copynumber: 2.9 Consensus size: 22
82948 TGGGAGATTG
82958 TTGGAAGTCAAAATT-GGAGGCT
1 TTGGAAGTCAAAATTAGG-GGCT
82980 TTGGGGAAGTCAAAATTAGGGGCT
1 TT--GGAAGTCAAAATTAGGGGCT
*
83004 TTGGAAGTCATAATTAGGGG
1 TTGGAAGTCAAAATTAGGGG
83024 GCATCGAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
22 19 0.47
24 19 0.47
25 2 0.05
ACGTcount: A:0.30, C:0.08, G:0.35, T:0.27
Consensus pattern (22 bp):
TTGGAAGTCAAAATTAGGGGCT
Found at i:82990 original size:24 final size:24
Alignment explanation
Indices: 82960--83023 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 24
82950 GGAGATTGTT
82960 GGAAGTCAAAATT-GGAGGCTTTGG
1 GGAAGTCAAAATTAGG-GGCTTTGG
82984 GGAAGTCAAAATTAGGGGCTTT--
1 GGAAGTCAAAATTAGGGGCTTTGG
*
83006 GGAAGTCATAATTAGGGG
1 GGAAGTCAAAATTAGGGG
83024 GCATCGAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
22 17 0.45
24 19 0.50
25 2 0.05
ACGTcount: A:0.31, C:0.08, G:0.36, T:0.25
Consensus pattern (24 bp):
GGAAGTCAAAATTAGGGGCTTTGG
Found at i:92171 original size:16 final size:16
Alignment explanation
Indices: 92152--92201 Score: 91
Period size: 16 Copynumber: 3.1 Consensus size: 16
92142 TAAATTGAAC
*
92152 TGATATTTACCCGACT
1 TGATATTTACCTGACT
92168 TGATATTTACCTGACT
1 TGATATTTACCTGACT
92184 TGATATTTACCTGACT
1 TGATATTTACCTGACT
92200 TG
1 TG
92202 TAAGTTATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (16 bp):
TGATATTTACCTGACT
Found at i:92437 original size:43 final size:43
Alignment explanation
Indices: 92376--92467 Score: 166
Period size: 43 Copynumber: 2.1 Consensus size: 43
92366 GAACAGATAA
*
92376 CACAACAACTACGGTTTCACATATCATCTCAGCCGTCAGCATC
1 CACAACAACTACGGTTTCACATATCATCTCAGCCGTCAACATC
*
92419 CACAACAACTACGGTTTCACATATCATCTCAGTCGTCAACATC
1 CACAACAACTACGGTTTCACATATCATCTCAGCCGTCAACATC
92462 CACAAC
1 CACAAC
92468 CATTGGATCT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.33, C:0.35, G:0.10, T:0.23
Consensus pattern (43 bp):
CACAACAACTACGGTTTCACATATCATCTCAGCCGTCAACATC
Found at i:97182 original size:137 final size:137
Alignment explanation
Indices: 96931--97204 Score: 410
Period size: 137 Copynumber: 2.0 Consensus size: 137
96921 ATTACCTCCC
* * *
96931 CAGAGAAGAAAACCAAATGGCAGATGCCTTGGTAACTTTGGCAGTCGCATTTAAGATAGATGAGT
1 CAGAGAAGAAAACAAAATGGCAGATGCCTTGGTAACTTTGGCAGTCACATTTAAGATAGATGAGC
* * *
96996 ATTCGAGCATAATACCTATTGAAATGCAGACCTATGAATATCCAGCTCATTGTTTTAACATTGAA
66 ATTCGAGCATAATACCTATTGAAATGCAGACCTATGAATATCCAGCTCATTATTTCAACATTAAA
97061 GAAGAAG
131 GAAGAAG
* *
97068 CAGAGAAGAAAATAAAATGGCAGATGCCTTGGTAACTTTGGCAG-CTACATTTAAGATAGCTGAG
1 CAGAGAAGAAAACAAAATGGCAGATGCCTTGGTAACTTTGGCAGTC-ACATTTAAGATAGATGAG
* *
97132 CATTCGAGCATGATACCTATTGAAATGCA-AGTCTATGAATATCCTA-CTCATTATTTCAACATT
65 CATTCGAGCATAATACCTATTGAAATGCAGA-CCTATGAATATCC-AGCTCATTATTTCAACATT
97195 AAAGAAGAAG
128 AAAGAAGAAG
97205 AGGTGAAACC
Statistics
Matches: 124, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
136 2 0.02
137 121 0.98
138 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (137 bp):
CAGAGAAGAAAACAAAATGGCAGATGCCTTGGTAACTTTGGCAGTCACATTTAAGATAGATGAGC
ATTCGAGCATAATACCTATTGAAATGCAGACCTATGAATATCCAGCTCATTATTTCAACATTAAA
GAAGAAG
Found at i:98924 original size:79 final size:79
Alignment explanation
Indices: 98762--98931 Score: 195
Period size: 79 Copynumber: 2.2 Consensus size: 79
98752 AATCTTCAGG
* ** * *
98762 CATTTTGAAGGCTCACATCAACATGAAAATATTGGGGCATTTTGAAGGCCCATTTCAGATAAAAA
1 CATTTTGAAGGCTCACATCAACACGAAAATATTGGAACATTGTGAAGGCCCATTTCAGACAAAAA
* *
98827 TGATTCATGTGGGG
66 TGATACATGTGGGA
* *
98841 CATTTTGAAGGCTCACATTAGCACGAAAATGA-TGGAACATTGTGAAGGCCCATTTCA-ACCAAG
1 CATTTTGAAGGCTCACATCAACACGAAAAT-ATTGGAACATTGTGAAGGCCCATTTCAGA-CAA-
98904 AAAT-A-ACATGTTGGGA
63 AAATGATACATG-TGGGA
98920 CATTTTGAAGGC
1 CATTTTGAAGGC
98932 CTATTTCAGA
Statistics
Matches: 78, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
78 5 0.06
79 68 0.87
80 5 0.06
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.27
Consensus pattern (79 bp):
CATTTTGAAGGCTCACATCAACACGAAAATATTGGAACATTGTGAAGGCCCATTTCAGACAAAAA
TGATACATGTGGGA
Found at i:100238 original size:62 final size:62
Alignment explanation
Indices: 100150--100304 Score: 215
Period size: 62 Copynumber: 2.5 Consensus size: 62
100140 CAGTCAATCA
*
100150 TTGACTTCCTCGTGAAGAGAAGTCAACCTTTATTATTTCTGACTCCCCAGTA-GAGTCAAAT-T
1 TTGACTTCCTCGTGAAGAGAAGTCAACCTTTATTATTTCTGACTCCCCA-TAGGAGT-AAATAC
* *
100212 TTGACTTCCTCGTGAAGAGAAGTCAACATTTATTATTTCTGACTCCCCATAGGAGTTAATAC
1 TTGACTTCCTCGTGAAGAGAAGTCAACCTTTATTATTTCTGACTCCCCATAGGAGTAAATAC
* * * *
100274 TTGATTTTCTCGTAAAGAGAAGTCAATCTTT
1 TTGACTTCCTCGTGAAGAGAAGTCAACCTTT
100305 TTAATTTGAT
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
61 5 0.06
62 78 0.94
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.35
Consensus pattern (62 bp):
TTGACTTCCTCGTGAAGAGAAGTCAACCTTTATTATTTCTGACTCCCCATAGGAGTAAATAC
Found at i:100489 original size:90 final size:90
Alignment explanation
Indices: 100336--100636 Score: 435
Period size: 90 Copynumber: 3.4 Consensus size: 90
100326 AAATTAATTC
*
100336 AGATTTGGTCTCCACGGAAGAGTAGTGGAAGCGAATCAACCTCGAGTCTGATCTTCATGGAAGAG
1 AGATTTGGTCTCCACGGAAGAGTAGTGGAAGCGAATCAACCTTGAGTCTGATCTTCATGGAAGAG
100401 TAGTGGAACAGATTCTTCTTATTTT
66 TAGTGGAACAGATTCTTCTTATTTT
* * *
100426 AGATTTGGTCTCCACAGAAGAGTAGTGGAAGTGAATCAACCTTGAGTCTGATCTTCACGGAAGAG
1 AGATTTGGTCTCCACGGAAGAGTAGTGGAAGCGAATCAACCTTGAGTCTGATCTTCATGGAAGAG
* * *
100491 TAGTGGAACATATTCTTCTTAATTC
66 TAGTGGAACAGATTCTTCTTATTTT
* * * * * *
100516 AAATTTGGTCTCCACGGAATAGTAGTGGAAGCAAATTAA-TTTCAAGTCTGATCTTCATGGAAGA
1 AGATTTGGTCTCCACGGAAGAGTAGTGGAAGCGAATCAACCTT-GAGTCTGATCTTCATGGAAGA
100580 GTAGTGGAACAGATTCTTCTTATTTT
65 GTAGTGGAACAGATTCTTCTTATTTT
* * *
100606 AGATTTAGCCTTCACGGAAGAGTAGT-GAAGC
1 AGATTTGGTCTCCACGGAAGAGTAGTGGAAGC
100637 AAAACAATCT
Statistics
Matches: 186, Mismatches: 24, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
89 7 0.04
90 179 0.96
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.31
Consensus pattern (90 bp):
AGATTTGGTCTCCACGGAAGAGTAGTGGAAGCGAATCAACCTTGAGTCTGATCTTCATGGAAGAG
TAGTGGAACAGATTCTTCTTATTTT
Found at i:100498 original size:43 final size:43
Alignment explanation
Indices: 100348--100498 Score: 140
Period size: 43 Copynumber: 3.4 Consensus size: 43
100338 ATTTGGTCTC
* *
100348 CACGGAAGAGTAGTGGAAGCGAATCAACCTCGAGTCTGATCTT
1 CACGGAAGAGTAGTGGAAGAGAATCAACCTTGAGTCTGATCTT
* * * ** * * * * *
100391 CATGGAAGAGTAGTGGAACAGATTCTTCTTATTTTAGATTTGGTCTC
1 CACGGAAGAGTAGTGGAAGAGAATCAAC---CTTGAG-TCTGATCTT
* *
100438 CACAGAAGAGTAGTGGAAGTGAATCAACCTTGAGTCTGATCTT
1 CACGGAAGAGTAGTGGAAGAGAATCAACCTTGAGTCTGATCTT
100481 CACGGAAGAGTAGTGGAA
1 CACGGAAGAGTAGTGGAA
100499 CATATTCTTC
Statistics
Matches: 79, Mismatches: 25, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
43 45 0.57
44 4 0.05
46 3 0.04
47 27 0.34
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.26
Consensus pattern (43 bp):
CACGGAAGAGTAGTGGAAGAGAATCAACCTTGAGTCTGATCTT
Found at i:100661 original size:36 final size:36
Alignment explanation
Indices: 100614--100706 Score: 125
Period size: 36 Copynumber: 2.6 Consensus size: 36
100604 TTAGATTTAG
100614 CCTTCACGGAAGAGTAGTGAAGCAAAACAATCT-TAA
1 CCTTCACGGAAGAGTAGTGAAGCAAAACAAT-TATAA
* * *
100650 CCTTCATGGAAGAGTAGTAAAGCAAAGCAATTATAA
1 CCTTCACGGAAGAGTAGTGAAGCAAAACAATTATAA
* *
100686 ACTTCACAGAAGAGTAGTGAA
1 CCTTCACGGAAGAGTAGTGAA
100707 CCAAGATAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
35 1 0.02
36 48 0.98
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.20
Consensus pattern (36 bp):
CCTTCACGGAAGAGTAGTGAAGCAAAACAATTATAA
Found at i:101082 original size:137 final size:137
Alignment explanation
Indices: 100836--101285 Score: 589
Period size: 137 Copynumber: 3.3 Consensus size: 137
100826 AGTGAACCAG
*
100836 CATCATCCTTAGATAGACAAAACTCCTCATCACAAAGGAACCGTGTTATCTCAAATATCTTTAAA
1 CATCATCCTTAGATAGCCAAAACTCCTCATCACAAAGGAACCGTGTTATCTCAAATATCTTTAAA
** * *
100901 GATGATCAGACGTCTTCATCACAAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGAA
66 GATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGAA
100966 GGAACAA
131 GGAACAA
* * *
100973 CATCATCCTTAAATAGCCAAAACTCCTCATCACAAAGGAACCGTGTTATCTCAAATACCATTAAA
1 CATCATCCTTAGATAGCCAAAACTCCTCATCACAAAGGAACCGTGTTATCTCAAATATCTTTAAA
* *
101038 GATGGCCAGACGTCCTCATCACGAAGGAACAATATCATCCACCGATCAGAACTCCTCATCACGTA
66 GATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGAA
***
101103 GGAGTTGA
131 GGA-ACAA
* * * ** * * *
101111 -GTCATCCTTAGATAGTCAGATGTCCTCATCACGAAGGAAACATGTTATCTCAAATATCTTTAAA
1 CATCATCCTTAGATAGCCAAAACTCCTCATCACAAAGGAACCGTGTTATCTCAAATATCTTTAAA
* * * * *
101175 GATGGCCAGACATCCTCATCACGAAGGAACAATGT-ATCTACCTATCAGAAGTCCTCATCAAGAA
66 GATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGAA
* *
101239 GGAGCAG
131 GGAACAA
* ** *
101246 CATCATCCTTAGATAGCCAGATGTCCTCATCACGAAGGAA
1 CATCATCCTTAGATAGCCAAAACTCCTCATCACAAAGGAA
101286 TAATGTCATA
Statistics
Matches: 274, Mismatches: 37, Indels: 5
0.87 0.12 0.02
Matches are distributed among these distances:
136 64 0.23
137 209 0.76
138 1 0.00
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (137 bp):
CATCATCCTTAGATAGCCAAAACTCCTCATCACAAAGGAACCGTGTTATCTCAAATATCTTTAAA
GATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGAA
GGAACAA
Found at i:108463 original size:216 final size:209
Alignment explanation
Indices: 108085--108564 Score: 825
Period size: 216 Copynumber: 2.3 Consensus size: 209
108075 ATTTAAGAAT
* *
108085 TAAATTGAACAAATATGAAATTACAAATAAAAAATTAAATAAATTAAACAACACACTTTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
* *
108150 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAATGTACTAAATTATAC
66 AGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
108215 CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAATTAAGTAATAAGTATGGATCAATTTCAGA
131 CCATTTAAAAAGTTATGGGCCAATTAAAAAATAG-----A--AATAAGTATGGATCAATTTCAGA
108280 TGCAAATAAAATTTGGAGGAC
189 TGCAAATAAAATTTGGAGGAC
*
108301 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACGCATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
108366 AGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
66 AGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* * *
108431 CCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTATGGGTCAATTTCATATGCAAAT
131 CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTATGGATCAATTTCAGATGCAAAT
108496 AAAATTTGGAGGAC
196 AAAATTTGGAGGAC
108510 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACA
108565 AAAGGGATCA
Statistics
Matches: 255, Mismatches: 9, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
209 96 0.38
211 1 0.00
216 158 0.62
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.28
Consensus pattern (209 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
AGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
CCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTATGGATCAATTTCAGATGCAAAT
AAAATTTGGAGGAC
Found at i:108654 original size:2 final size:2
Alignment explanation
Indices: 108647--108953 Score: 58
Period size: 2 Copynumber: 152.5 Consensus size: 2
108637 AAAACAACTA
* * *
108647 AT AT AT AT AT AT AT A- AT AT AA ACT AT AT AGT TT AT AT AT AA AGT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT A-T
* * * *
108691 AT AT GT AT -T AT AT AT AA ACT AT AT AGT TT AT AT AT AT -T AT GT
1 AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT
* * * * *
108733 AT AA ACT AT AT AT ACC AT GT AT AA ACT AT A- AT ACT AT AT AGT TT
1 AT AT A-T AT AT AT A-T AT AT AT AT A-T AT AT AT A-T AT AT A-T AT
* * *
108777 AT AT AT GA- ACT AT -T GA- ACT AT AT AG AA ACT AT AT AGT TT AT
1 AT AT AT -AT A-T AT AT -AT A-T AT AT AT AT A-T AT AT A-T AT AT
* * * *
108818 AT AT AA AT -T AT AT AT GA- AT -T AT AT AT AA ACT AT AC A- AT TT
1 AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT A-T AT AT AT AT AT
* * *
108858 AT AT TT AT AT AT -T AT GT AT A- AT -T AT AA AT A- 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
* * *
108896 -T AT AT AA AT -T AT AT AGT TT AT -T A- AT AT AA ACT AT AT AGT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT A-T AT AT A-T
*
108935 TT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
108954 GTTTATAGGG
Statistics
Matches: 215, Mismatches: 50, Indels: 80
0.62 0.14 0.23
Matches are distributed among these distances:
1 19 0.09
2 175 0.81
3 21 0.10
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (2 bp):
AT
Found at i:108675 original size:20 final size:19
Alignment explanation
Indices: 108650--108953 Score: 117
Period size: 20 Copynumber: 15.4 Consensus size: 19
108640 ACAACTAATA
108650 TATATATATATAATATAAAC
1 TATATATATAT-ATATAAAC
* *
108670 TATATAGTTTATATATAAAG
1 TATATA-TATATATATAAAC
*
108690 TATATGTATTATATATAAAC
1 TATATATA-TATATATAAAC
* *
108710 TATATAGT-T-TATATATAT
1 TATATA-TATATATATAAAC
* * *
108728 TATGTATAAACTATATATAC
1 TATATATATA-TATATAAAC
* *
108748 CATGTATA-A-ACTATAATAC
1 TATATATATATA-TATAA-AC
* *
108767 TATATAGTTTATATATGAAC
1 TATATA-TATATATATAAAC
*
108787 TAT-TGA-ACTATATAGAAAC
1 TATAT-ATA-TATATATAAAC
* *
108806 TATATAGTTTATATATAAAT
1 TATATA-TATATATATAAAC
108826 TATATATGAATTATATATAAAC
1 TATATAT--A-TATATATAAAC
* * **
108848 TATACA-ATTTATATTTA-
1 TATATATATATATATAAAC
*
108865 TATATTATGTATAATTATAAA-
1 TATA-TATATAT-A-TATAAAC
*
108886 TA-ATATATATTATATAAAT
1 TATATATATA-TATATAAAC
*
108905 TATATAGTTTATTAATATAAAC
1 TATATA-TATA-T-ATATAAAC
* *
108927 TATATAGTTTATATATATA-
1 TATATA-TATATATATAAAC
108946 TATATATA
1 TATATATA
108954 GTTTATAGGG
Statistics
Matches: 217, Mismatches: 39, Indels: 58
0.69 0.12 0.18
Matches are distributed among these distances:
17 6 0.03
18 31 0.14
19 41 0.19
20 83 0.38
21 22 0.10
22 34 0.16
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (19 bp):
TATATATATATATATAAAC
Found at i:108706 original size:40 final size:42
Alignment explanation
Indices: 108648--108953 Score: 169
Period size: 40 Copynumber: 7.2 Consensus size: 42
108638 AAACAACTAA
108648 TATATATATATATAATATAAACTATATAGTTTATATATAAAG
1 TATATATATATATAATATAAACTATATAGTTTATATATAAAG
* *
108690 TATATGTAT-TAT-ATATAAACTATATAGTTTATATATATTATG
1 TATATATATATATAATATAAACTATATAGTTTATATATA--AAG
* *
108732 TATAAACTATATATACCATGTATAAACTATAATACTATATAGTTTATATATGAAC
1 --T--A-TATATAT---A--TAT-AA-TATAA-ACTATATAGTTTATATATAAAG
* * *
108787 TAT-TGA-A-CTAT-ATAGAAACTATATAGTTTATATATAAAT
1 TATAT-ATATATATAATATAAACTATATAGTTTATATATAAAG
* * *
108826 TATATATGA-AT-TATATATAAACTATACAATTTATAT-T-TA-
1 TATATAT-ATATATA-ATATAAACTATATAGTTTATATATAAAG
* * *
108865 TATAT-TATGTATAATTATAAA-TA-ATA-TATATTATATAAAT
1 TATATATATATATAA-TATAAACTATATAGTTTA-TATATAAAG
* *
108905 TATATAGTTTAT-TAATATAAACTATATAGTTTATATATATA-
1 TATATA-TATATATAATATAAACTATATAGTTTATATATAAAG
108946 TATATATA
1 TATATATA
108954 GTTTATAGGG
Statistics
Matches: 205, Mismatches: 24, Indels: 72
0.68 0.08 0.24
Matches are distributed among these distances:
36 3 0.01
37 6 0.03
38 6 0.03
39 38 0.19
40 44 0.21
41 18 0.09
42 42 0.20
43 6 0.03
44 1 0.00
46 1 0.00
47 6 0.03
49 2 0.01
50 2 0.01
51 1 0.00
53 4 0.02
55 2 0.01
56 5 0.02
57 18 0.09
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (42 bp):
TATATATATATATAATATAAACTATATAGTTTATATATAAAG
Found at i:108713 original size:29 final size:29
Alignment explanation
Indices: 108681--108744 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
108671 ATATAGTTTA
*
108681 TATATAAAGTATATGTATTATATATAAAC
1 TATATAAAGTATATATATTATATATAAAC
*** *
108710 TATATAGTTTATATATATTATGTATAAAC
1 TATATAAAGTATATATATTATATATAAAC
108739 TATATA
1 TATATA
108745 TACCATGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (29 bp):
TATATAAAGTATATATATTATATATAAAC
Found at i:108831 original size:13 final size:11
Alignment explanation
Indices: 108814--108932 Score: 66
Period size: 11 Copynumber: 10.6 Consensus size: 11
108804 ACTATATAGT
108814 TTATATATAAA
1 TTATATATAAA
*
108825 TTATATATGAA
1 TTATATATAAA
108836 TTATATATAAA
1 TTATATATAAA
* * *
108847 --CTATACAAT
1 TTATATATAAA
*
108856 TTATATTTATATA
1 TTATA--TATAAA
*
108869 TTATGTAT-AA
1 TTATATATAAA
*
108879 TTATAAATAATA
1 TTATATATAA-A
108891 TATATTATATAAA
1 T-TA-TATATAAA
**
108904 TTATATAGTTTA
1 TTATATA-TAAA
108916 TTA-ATATAAA
1 TTATATATAAA
*
108926 CTATATA
1 TTATATA
108933 GTTTATATAT
Statistics
Matches: 79, Mismatches: 19, Indels: 20
0.67 0.16 0.17
Matches are distributed among these distances:
9 6 0.08
10 11 0.14
11 36 0.46
12 9 0.11
13 11 0.14
14 6 0.08
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (11 bp):
TTATATATAAA
Found at i:108877 original size:17 final size:17
Alignment explanation
Indices: 108857--108910 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
108847 CTATACAATT
* *
108857 TATATTTATATATTATG
1 TATATTTATAAATTATA
* *
108874 TATAATTATAAATAATA
1 TATATTTATAAATTATA
108891 TATATTATATAAATTATA
1 TATATT-TATAAATTATA
108909 TA
1 TA
108911 GTTTATTAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 18 0.60
18 12 0.40
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
TATATTTATAAATTATA
Found at i:108992 original size:6 final size:6
Alignment explanation
Indices: 108978--109014 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
108968 GGGATTAGGG
* *
108978 TTTATA TTAATA TTAATA TTTATA TTTATA TTTATA T
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA T
109015 AAACTACATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
TTTATA
Found at i:109105 original size:33 final size:32
Alignment explanation
Indices: 109047--109226 Score: 89
Period size: 33 Copynumber: 5.5 Consensus size: 32
109037 TGTATATACC
*
109047 ATATTTTATACTATTTATATAAACTATAATTT
1 ATATTTTATACTATATATATAAACTATAATTT
* * *
109079 ATATTTGTATATTATATATATGAACTATAGTTT
1 ATATTT-TATACTATATATATAAACTATAATTT
* * * * * *
109112 ACA-TATAAACTATATAGTTTATAGT-TGATATTT
1 ATATTTTATACTATATA-TATAAACTAT-A-ATTT
* * *
109145 ACATATGA-ACTATATATATAAACTATATAGTTT
1 ATATTTTATACTATATATATAAACTATA-A-TTT
* * * * * * *
109178 ACATATGA-CCTATATATATATACTATAGTTG
1 ATATTTTATACTATATATATAAACTATAATTT
109209 ATATTTATATACTATATA
1 ATATTT-TATACTATATA
109227 GTTTATATAT
Statistics
Matches: 112, Mismatches: 27, Indels: 17
0.72 0.17 0.11
Matches are distributed among these distances:
31 16 0.14
32 21 0.19
33 74 0.66
34 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.46
Consensus pattern (32 bp):
ATATTTTATACTATATATATAAACTATAATTT
Found at i:109169 original size:46 final size:48
Alignment explanation
Indices: 109056--109178 Score: 146
Period size: 51 Copynumber: 2.5 Consensus size: 48
109046 CATATTTTAT
* * *
109056 ACTATTTATATAAACTATA-A-TTTATATTTGTATATTATATATATGA
1 ACTATATATATAAACTATATAGTTTATAGTTGTATATTATACATATGA
109102 ACTATAGTTTACATATAAACTATATAGTTTATAGTTG-ATATT-TACATATGA
1 ACTATA---T--ATATAAACTATATAGTTTATAGTTGTATATTATACATATGA
109153 ACTATATATATAAACTATATAGTTTA
1 ACTATATATATAAACTATATAGTTTA
109179 CATATGACCT
Statistics
Matches: 67, Mismatches: 3, Indels: 14
0.80 0.04 0.17
Matches are distributed among these distances:
46 24 0.36
48 1 0.01
49 1 0.01
51 26 0.39
52 6 0.09
53 9 0.13
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.46
Consensus pattern (48 bp):
ACTATATATATAAACTATATAGTTTATAGTTGTATATTATACATATGA
Found at i:109195 original size:2 final size:2
Alignment explanation
Indices: 109188--109473 Score: 61
Period size: 2 Copynumber: 135.0 Consensus size: 2
109178 ACATATGACC
* *
109188 TA TA TA TA TA TA CTA TA GT- TGA TA TT TA TA TA CTA TA TA GTT TA
1 TA TA TA TA TA TA -TA TA -TA T-A TA TA TA TA TA -TA TA TA -TA TA
** * * *
109232 TA TA TGA CC TA TA TA TA TA TA CTA TA GTT TG TA TT TA TA TA CTA
1 TA TA T-A TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA -TA
* *
109276 TA TA T- TA TA TA TA TA AA CTA TA TA TA CTA TA TA GTA TA -A TT
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA -TA TA TA TA
* * * * *
109317 TA CA TA TGA -A CTA TA TA TA AA AA CCA TA TA AA CTA TA TA CTA TA
1 TA TA TA T-A TA -TA TA TA TA TA TA -TA TA TA TA -TA TA TA -TA TA
* * *
109361 TA -A AA TA -A TT TA TA CTA TA GTA TA TA TA AA CTA TA TA -A TA
1 TA TA TA TA TA TA TA TA -TA TA -TA TA TA TA TA -TA TA TA TA TA
* * * * *
109401 TA TA AA CTA TA TGG TA TA TA TA AA CTA TA CA T- TA TA TA TA TT
1 TA TA TA -TA TA T-A TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
*
109443 TCA T- TA GTA TA TA TA AA CTA TA TA T- TA TA TA
1 T-A TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA
109474 GTTCATTAGT
Statistics
Matches: 207, Mismatches: 41, Indels: 72
0.65 0.13 0.22
Matches are distributed among these distances:
1 10 0.05
2 161 0.78
3 36 0.17
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.43
Consensus pattern (2 bp):
TA
Found at i:109223 original size:66 final size:64
Alignment explanation
Indices: 109056--109226 Score: 170
Period size: 66 Copynumber: 2.6 Consensus size: 64
109046 CATATTTTAT
* * * * * * *
109056 ACTATTTATATAAACTATAATTTATATTTGTATATTATATATATGAACTATAGTTTACATATAA
1 ACTATATATATATACTATAGTTGATATTTATATACTATATATATAAACTATAGTTTACATATAA
*
109120 ACTATATA-GT-T--TATAGTTGATATTTACATATGAACTATATATATAAACTATATAGTTTACA
1 ACTATATATATATACTATAGTTGATATTT--ATAT--ACTATATATATAAAC--TATAGTTTACA
*
109181 TATGA
60 TATAA
*
109186 CCTATATATATATACTATAGTTGATATTTATATACTATATA
1 ACTATATATATATACTATAGTTGATATTTATATACTATATA
109227 GTTTATATAT
Statistics
Matches: 86, Mismatches: 11, Indels: 18
0.75 0.10 0.16
Matches are distributed among these distances:
60 12 0.14
62 3 0.03
63 1 0.01
64 20 0.23
66 30 0.35
67 1 0.01
68 5 0.06
70 14 0.16
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (64 bp):
ACTATATATATATACTATAGTTGATATTTATATACTATATATATAAACTATAGTTTACATATAA
Found at i:109241 original size:53 final size:54
Alignment explanation
Indices: 109156--109306 Score: 218
Period size: 53 Copynumber: 2.8 Consensus size: 54
109146 CATATGAACT
* * *
109156 ATATATATAAACTATATAGTTTACATATGACCTATATATATATACTATAG-TTG
1 ATATTTATATACTATATAGTTTATATATGACCTATATATATATACTATAGTTTG
109209 ATATTTATATACTATATAGTTTATATATGACCTATATATATATACTATAGTTTG
1 ATATTTATATACTATATAGTTTATATATGACCTATATATATATACTATAGTTTG
* *
109263 -TATTTATATACTATATA-TTATATATATAAACTATATATACTATA
1 ATATTTATATACTATATAGTT-TATATATGACCTATATATA-TATA
109307 TAGTATAATT
Statistics
Matches: 90, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
52 2 0.02
53 81 0.90
54 7 0.08
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (54 bp):
ATATTTATATACTATATAGTTTATATATGACCTATATATATATACTATAGTTTG
Found at i:109330 original size:34 final size:36
Alignment explanation
Indices: 109267--109335 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 36
109257 AGTTTGTATT
*
109267 TATATACTATATATTATATATATAAACTATATATAC
1 TATATACTATATATTATACATATAAACTATATATAC
* *
109303 TATATAGTATA-ATT-TACATATGAACTATATATA
1 TATATACTATATATTATACATATAAACTATATATA
109336 AAAACCATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 17 0.57
35 3 0.10
36 10 0.33
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.43
Consensus pattern (36 bp):
TATATACTATATATTATACATATAAACTATATATAC
Found at i:109429 original size:9 final size:9
Alignment explanation
Indices: 109332--109412 Score: 50
Period size: 9 Copynumber: 9.6 Consensus size: 9
109322 ATGAACTATA
*
109332 TATAAAAAC
1 TATATAAAC
*
109341 CATATAAAC
1 TATATAAAC
109350 TATAT--AC
1 TATATAAAC
*
109357 TATATAAAA
1 TATATAAAC
* *
109366 TAATTTATAC
1 T-ATATAAAC
109376 TATAGT--A-
1 TATA-TAAAC
109383 TATATAAAC
1 TATATAAAC
109392 TATAT-AA-
1 TATATAAAC
109399 TATATAAAC
1 TATATAAAC
109408 TATAT
1 TATAT
109413 GGTATATATA
Statistics
Matches: 55, Mismatches: 8, Indels: 18
0.68 0.10 0.22
Matches are distributed among these distances:
6 1 0.02
7 16 0.29
8 6 0.11
9 25 0.45
10 7 0.13
ACGTcount: A:0.53, C:0.09, G:0.01, T:0.37
Consensus pattern (9 bp):
TATATAAAC
Found at i:109502 original size:51 final size:51
Alignment explanation
Indices: 109447--109609 Score: 202
Period size: 58 Copynumber: 3.0 Consensus size: 51
109437 TATATTTCAT
*
109447 TAGTATATATAAACTATATATTATATAGTTCATTAGTATGTATAACCTATA
1 TAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAACCTATA
* *
109498 TAGTATATGGTATATACAAACTATATATTATATAGTTCATTACTATATATAAACTATA
1 TAG--TA---TATAT--AAACTATATATTATATAGTTCATTAGTATATATAACCTATA
*
109556 TAGTATATATAAACTATATATTGA-AAAGTTCATTAGTATATTATAACCTATA
1 TAGTATATATAAACTATATATT-ATATAGTTCATTAGTATA-TATAACCTATA
109608 TA
1 TA
109610 TTAATTTATT
Statistics
Matches: 97, Mismatches: 6, Indels: 17
0.81 0.05 0.14
Matches are distributed among these distances:
51 29 0.30
52 13 0.13
53 7 0.07
56 7 0.07
58 41 0.42
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (51 bp):
TAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAACCTATA
Found at i:109529 original size:18 final size:18
Alignment explanation
Indices: 109508--109577 Score: 67
Period size: 18 Copynumber: 4.1 Consensus size: 18
109498 TAGTATATGG
*
109508 TATATACAAACTATATAT
1 TATATATAAACTATATAT
* *
109526 TATATAGT--TC-AT-TAC
1 TATATA-TAAACTATATAT
*
109541 TATATATAAACTATATAG
1 TATATATAAACTATATAT
109559 TATATATAAACTATATAT
1 TATATATAAACTATATAT
109577 T
1 T
109578 GAAAAGTTCA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
14 1 0.02
15 8 0.20
16 3 0.07
17 3 0.07
18 26 0.63
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.43
Consensus pattern (18 bp):
TATATATAAACTATATAT
Found at i:109737 original size:61 final size:61
Alignment explanation
Indices: 109668--109806 Score: 190
Period size: 62 Copynumber: 2.3 Consensus size: 61
109658 ATATAAGGAT
*
109668 TAAATTGAACAAATTTTAAATATGAAGCTTAAATTAATAAACTGTAAT-ATTAAATTTGGAC
1 TAAATTGAACAAATTTGAAATATGAAGCTTAAATTAATAAACTG-AATCATTAAATTTGGAC
* * * * *
109729 TAAATTGAAAAAAAGTTGAAATATGAAGCTTAAATTAATATATTGCATCATTAAATTTGGAC
1 TAAATTG-AACAAATTTGAAATATGAAGCTTAAATTAATAAACTGAATCATTAAATTTGGAC
*
109791 TAAATTAAACAAATTT
1 TAAATTGAACAAATTT
109807 AAAACTAGGA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
61 16 0.24
62 51 0.76
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.35
Consensus pattern (61 bp):
TAAATTGAACAAATTTGAAATATGAAGCTTAAATTAATAAACTGAATCATTAAATTTGGAC
Found at i:110274 original size:113 final size:112
Alignment explanation
Indices: 110010--110338 Score: 540
Period size: 113 Copynumber: 2.9 Consensus size: 112
110000 AGAAAATCAA
110010 CTGTGTTCTTCATTTGTTCATCCAGTTCTTCCCCAAAACCCTCATTTGATCTTCAAAAACACCTA
1 CTGTGTTCTTCATTTGTTCATCCAGTTCTT-CCCAAAACCCTCATTTGATCTTCAAAAACACCTA
*
110075 AACCAAAATATTTTCGTGTTTTTTTTCGATCAAACACCCAAATATTCTT
65 AACCAAAACATTTTCGTG-TTTTTTTCGATCAAACACCCAAATATTCTT
*
110124 CTGCGTTCTTCATTTGTTCATCCAGTTCTTCCCAAAACCCTCATTTGATCTTCAAAAACACCTAA
1 CTGTGTTCTTCATTTGTTCATCCAGTTCTTCCCAAAACCCTCATTTGATCTTCAAAAACACCTAA
*
110189 ACCAAAACATTTTCGTGTTTTTTTCGACCAAACACCCAAATATTCTT
66 ACCAAAACATTTTCGTGTTTTTTTCGATCAAACACCCAAATATTCTT
110236 -TCGTGTTCTTCATTTGTTCATCCAGTTCTTCCCTAAAACCCTCATTTGATCTTCAAAAACACCT
1 CT-GTGTTCTTCATTTGTTCATCCAGTTCTTCCC-AAAACCCTCATTTGATCTTCAAAAACACCT
*
110300 AAA-CATAAACCA-TTTCGTG-TTTTTTGGATCAAACACCCA
64 AAACCA-AAA-CATTTTCGTGTTTTTTTCGATCAAACACCCA
110339 TAAATTCATC
Statistics
Matches: 205, Mismatches: 6, Indels: 10
0.93 0.03 0.05
Matches are distributed among these distances:
111 1 0.00
112 79 0.39
113 94 0.46
114 31 0.15
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (112 bp):
CTGTGTTCTTCATTTGTTCATCCAGTTCTTCCCAAAACCCTCATTTGATCTTCAAAAACACCTAA
ACCAAAACATTTTCGTGTTTTTTTCGATCAAACACCCAAATATTCTT
Found at i:110528 original size:12 final size:12
Alignment explanation
Indices: 110484--110641 Score: 79
Period size: 12 Copynumber: 13.1 Consensus size: 12
110474 AATTCATCTT
110484 CCTTAACCCCTAA
1 CCTTAA-CCCTAA
*
110497 -CTTAAACCTTAA
1 CCTT-AACCCTAA
* *
110509 CCTAAACCTTAA
1 CCTTAACCCTAA
110521 CCTTAACCCTAA
1 CCTTAACCCTAA
* *
110533 CCCTAACCCAAA
1 CCTTAACCCTAA
* *
110545 CCCTAACCATAA
1 CCTTAACCCTAA
*
110557 CCTTAACCCAAA
1 CCTTAACCCTAA
**
110569 CCCAAACCC-AA
1 CCTTAACCCTAA
* *
110580 CCTAAACCTTAAA
1 CCTTAACCCT-AA
** *
110593 CCCAAACCCAAA
1 CCTTAACCCTAA
* *
110605 CCTAAACCCAAA
1 CCTTAACCCTAA
* *
110617 CCTGAA-CTTATA
1 CCTTAACCCTA-A
*
110629 CCTAAACCCTAA
1 CCTTAACCCTAA
110641 C
1 C
110642 TTGAACCCAA
Statistics
Matches: 115, Mismatches: 24, Indels: 13
0.76 0.16 0.09
Matches are distributed among these distances:
11 11 0.10
12 88 0.77
13 16 0.14
ACGTcount: A:0.41, C:0.41, G:0.01, T:0.18
Consensus pattern (12 bp):
CCTTAACCCTAA
Found at i:110594 original size:7 final size:6
Alignment explanation
Indices: 110499--110636 Score: 77
Period size: 6 Copynumber: 23.0 Consensus size: 6
110489 ACCCCTAACT
* * * * *
110499 TAAACC TTAACC TAAACC TTAACC TTAACCC TAACCC T-AACC CAAACCC
1 TAAACC TAAACC TAAACC TAAACC -TAAACC TAAACC TAAACC TAAA-CC
* * * *
110548 T-AACC -ATAACC TTAACC CAAACC CAAACC -CAACC TAAACC TTAAACC
1 TAAACC TA-AACC TAAACC TAAACC TAAACC TAAACC TAAACC -TAAACC
* * * * * *
110595 CAAACC CAAACC TAAACC CAAACC TGAACT TATACC TAAACC
1 TAAACC TAAACC TAAACC TAAACC TAAACC TAAACC TAAACC
110637 CTAACTTGAA
Statistics
Matches: 101, Mismatches: 23, Indels: 16
0.72 0.16 0.11
Matches are distributed among these distances:
5 9 0.09
6 80 0.79
7 12 0.12
ACGTcount: A:0.43, C:0.40, G:0.01, T:0.17
Consensus pattern (6 bp):
TAAACC
Found at i:110653 original size:18 final size:17
Alignment explanation
Indices: 110504--110653 Score: 67
Period size: 18 Copynumber: 8.7 Consensus size: 17
110494 TAACTTAAAC
* *
110504 CTTAACCTAAACCTTAA
1 CTTAACCCAAACCCTAA
*
110521 CCTTAACCCTAACCCTAA
1 -CTTAACCCAAACCCTAA
** * *
110539 CCCAAACCCTAACCATAA
1 -CTTAACCCAAACCCTAA
*
110557 CCTTAACCCAAACCCAAA
1 -CTTAACCCAAACCCTAA
** *
110575 CCCAACCTAAA-CCT--
1 CTTAACCCAAACCCTAA
* *
110589 -TAAACCCAAACCCAAA
1 CTTAACCCAAACCCTAA
*
110605 CCTAAACCCAAA-CCTGAA
1 -CTTAACCCAAACCCT-AA
*
110623 CTTATACCTAAACCCTAA
1 CTTA-ACCCAAACCCTAA
110641 CTTGAACCCAAAC
1 CTT-AACCCAAAC
110654 TCGAACCGAA
Statistics
Matches: 100, Mismatches: 23, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
13 7 0.07
14 2 0.02
16 2 0.02
17 13 0.13
18 72 0.72
19 4 0.04
ACGTcount: A:0.42, C:0.40, G:0.01, T:0.17
Consensus pattern (17 bp):
CTTAACCCAAACCCTAA
Found at i:110936 original size:31 final size:31
Alignment explanation
Indices: 110890--111380 Score: 508
Period size: 31 Copynumber: 15.5 Consensus size: 31
110880 TATATATGTT
* *
110890 TGATATACTCGTTTATTTATGTTGATGTAAA
1 TGATGTACTGGTTTATTTATGTTGATGTAAA
110921 TGATGTACTGGTTTATTGT-TGTTGATGTAAA
1 TGATGTACTGGTTTATT-TATGTTGATGTAAA
** *
110952 TGATGTGTTGATTTA-TTATTGTTGATGTAAA
1 TGATGTACTGGTTTATTTA-TGTTGATGTAAA
**
110983 TGATGTACTGGTTTATTGCTGTTGATGTAAA
1 TGATGTACTGGTTTATTTATGTTGATGTAAA
** **
111014 TGATGTGTTGGTTTATTGCTGTTGATGTAAA
1 TGATGTACTGGTTTATTTATGTTGATGTAAA
* * ** *
111045 TGATATACTAGTTTATTGCTGTTAATGTAAA
1 TGATGTACTGGTTTATTTATGTTGATGTAAA
111076 TGATGTACTGGTTTATTGT-TGTTGATGTAAA
1 TGATGTACTGGTTTATT-TATGTTGATGTAAA
*
111107 TGATATACTGGTTTATTGT-TGTTGATGTAAA
1 TGATGTACTGGTTTATT-TATGTTGATGTAAA
* *
111138 TGGTGTACTGGTTTATTGATGTTGATGTAAA
1 TGATGTACTGGTTTATTTATGTTGATGTAAA
**
111169 TGATGTGTTGGTTTATTGCTATTATTGCTATTGATGTAAA
1 TGATGTACTGGTTTA----T-TTA-TG---TTGATGTAAA
* * *
111209 TGATATATTGGTTTATTGATGTTGATGTAAA
1 TGATGTACTGGTTTATTTATGTTGATGTAAA
*
111240 TGATGTACTGATTTATTGT-TGTTGATGTAAA
1 TGATGTACTGGTTTATT-TATGTTGATGTAAA
* **
111271 TGATATACTGGTTTATTGCTGTTGATGTAAA
1 TGATGTACTGGTTTATTTATGTTGATGTAAA
* *
111302 TGATGTACTGTTTTATTGATGTTGATGTAAA
1 TGATGTACTGGTTTATTTATGTTGATGTAAA
*
111333 TGATATACTGGTTTA-TTATTGTTGATGTAAA
1 TGATGTACTGGTTTATTTA-TGTTGATGTAAA
* *
111364 TTATATACTGGTTTATT
1 TGATGTACTGGTTTATT
111381 GTTGTAATGT
Statistics
Matches: 395, Mismatches: 46, Indels: 37
0.83 0.10 0.08
Matches are distributed among these distances:
29 1 0.00
30 3 0.01
31 355 0.90
32 3 0.01
34 2 0.01
35 3 0.01
36 3 0.01
37 2 0.01
40 23 0.06
ACGTcount: A:0.25, C:0.04, G:0.23, T:0.48
Consensus pattern (31 bp):
TGATGTACTGGTTTATTTATGTTGATGTAAA
Found at i:110975 original size:62 final size:62
Alignment explanation
Indices: 110890--111393 Score: 593
Period size: 62 Copynumber: 8.0 Consensus size: 62
110880 TATATATGTT
* *
110890 TGATATACTCGTTTATT-TATGTTGATGTAAATGATGTACTGGTTTATTGTTGTTGATGTAAA
1 TGATGTACTGGTTTATTAT-TGTTGATGTAAATGATGTACTGGTTTATTGTTGTTGATGTAAA
** * *
110952 TGATGTGTTGATTTATTATTGTTGATGTAAATGATGTACTGGTTTATTGCTGTTGATGTAAA
1 TGATGTACTGGTTTATTATTGTTGATGTAAATGATGTACTGGTTTATTGTTGTTGATGTAAA
** ** * * * *
111014 TGATGTGTTGGTTTATTGCTGTTGATGTAAATGATATACTAGTTTATTGCTGTTAATGTAAA
1 TGATGTACTGGTTTATTATTGTTGATGTAAATGATGTACTGGTTTATTGTTGTTGATGTAAA
* *
111076 TGATGTACTGGTTTATTGTTGTTGATGTAAATGATATACTGGTTTATTGTTGTTGATGTAAA
1 TGATGTACTGGTTTATTATTGTTGATGTAAATGATGTACTGGTTTATTGTTGTTGATGTAAA
* **
111138 TGGTGTACTGGTTTATTGA-TGTTGATGTAAATGATGTGTTGGTTTATTGCTATTATTGCTATTG
1 TGATGTACTGGTTTATT-ATTGTTGATGTAAATGATGTACTGGTTTATTG------TTG---TTG
111202 ATGTAAA
56 ATGTAAA
* * *
111209 TGATATATTGGTTTATTGA-TGTTGATGTAAATGATGTACTGATTTATTGTTGTTGATGTAAA
1 TGATGTACTGGTTTATT-ATTGTTGATGTAAATGATGTACTGGTTTATTGTTGTTGATGTAAA
* ** * *
111271 TGATATACTGGTTTATTGCTGTTGATGTAAATGATGTACTGTTTTATTGATGTTGATGTAAA
1 TGATGTACTGGTTTATTATTGTTGATGTAAATGATGTACTGGTTTATTGTTGTTGATGTAAA
* * * *
111333 TGATATACTGGTTTATTATTGTTGATGTAAATTATATACTGGTTTATTGTTG-TAATGTAAA
1 TGATGTACTGGTTTATTATTGTTGATGTAAATGATGTACTGGTTTATTGTTGTTGATGTAAA
111394 CTAACTATGG
Statistics
Matches: 390, Mismatches: 40, Indels: 25
0.86 0.09 0.05
Matches are distributed among these distances:
61 8 0.02
62 322 0.83
63 1 0.00
65 3 0.01
68 3 0.01
71 53 0.14
ACGTcount: A:0.26, C:0.04, G:0.23, T:0.48
Consensus pattern (62 bp):
TGATGTACTGGTTTATTATTGTTGATGTAAATGATGTACTGGTTTATTGTTGTTGATGTAAA
Found at i:111019 original size:93 final size:93
Alignment explanation
Indices: 110890--111381 Score: 601
Period size: 93 Copynumber: 5.2 Consensus size: 93
110880 TATATATGTT
* ** *
110890 TGATATACTCGTTTATTTATGTTGATGTAAATGATGTACTGGTTTATTGTTGTTGATGTAAATGA
1 TGATATACTGGTTTATTGCTGTTGATGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATGA
**
110955 TGTGTTGATTTATTATTGTTGATGTAAA
66 TGTACTGATTTATTATTGTTGATGTAAA
* ** *
110983 TGATGTACTGGTTTATTGCTGTTGATGTAAATGATGTGTTGGTTTATTGCTGTTGATGTAAATGA
1 TGATATACTGGTTTATTGCTGTTGATGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATGA
* ** *
111048 TATACT-AGTTTATTGCTGTTAATGTAAA
66 TGTACTGA-TTTATTATTGTTGATGTAAA
* * * * *
111076 TGATGTACTGGTTTATTGTTGTTGATGTAAATGATATACTGGTTTATTGTTGTTGATGTAAATGG
1 TGATATACTGGTTTATTGCTGTTGATGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATGA
*
111141 TGTACTGGTTTATTGA-TGTTGATGTAAA
66 TGTACTGATTTATT-ATTGTTGATGTAAA
* ** * *
111169 TGATGTGTTGGTTTATTGCTATTATTGCTATTGATGTAAATGATATATTGGTTTATTGATGTTGA
1 TGATATACTGGTTTATTGC------TG---TTGATGTAAATGATGTACTGGTTTATTGATGTTGA
*
111234 TGTAAATGATGTACTGATTTATTGTTGTTGATGTAAA
57 TGTAAATGATGTACTGATTTATTATTGTTGATGTAAA
*
111271 TGATATACTGGTTTATTGCTGTTGATGTAAATGATGTACTGTTTTATTGATGTTGATGTAAATGA
1 TGATATACTGGTTTATTGCTGTTGATGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATGA
* *
111336 TATACTGGTTTATTATTGTTGATGTAAA
66 TGTACTGATTTATTATTGTTGATGTAAA
*
111364 TTATATACTGGTTTATTG
1 TGATATACTGGTTTATTG
111382 TTGTAATGTA
Statistics
Matches: 345, Mismatches: 41, Indels: 26
0.84 0.10 0.06
Matches are distributed among these distances:
92 1 0.00
93 258 0.75
96 2 0.01
99 2 0.01
102 82 0.24
ACGTcount: A:0.25, C:0.04, G:0.23, T:0.48
Consensus pattern (93 bp):
TGATATACTGGTTTATTGCTGTTGATGTAAATGATGTACTGGTTTATTGATGTTGATGTAAATGA
TGTACTGATTTATTATTGTTGATGTAAA
Found at i:111194 original size:40 final size:40
Alignment explanation
Indices: 111150--111226 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
111140 GTGTACTGGT
* * *
111150 TTATTGATGTTGATGTAAATGATGTGTTGGTTTATTGCTA
1 TTATTGATATTGATGTAAATGATATATTGGTTTATTGCTA
*
111190 TTATTGCTATTGATGTAAATGATATATTGGTTTATTG
1 TTATTGATATTGATGTAAATGATATATTGGTTTATTG
111227 ATGTTGATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.25, C:0.03, G:0.22, T:0.51
Consensus pattern (40 bp):
TTATTGATATTGATGTAAATGATATATTGGTTTATTGCTA
Found at i:111426 original size:33 final size:32
Alignment explanation
Indices: 111388--111489 Score: 90
Period size: 33 Copynumber: 3.2 Consensus size: 32
111378 ATTGTTGTAA
111388 TGTAAACTAACTATGGTTTTTTTTGCAAGGGGG
1 TGTAAACTAACTATGGTTTTTTTTGCAA-GGGG
* *
111421 TGTAAA-TGATA-TACTGGTTTATTGTTGTAA----
1 TGTAAACT-A-ACTA-TGGTTT-TTTTTGCAAGGGG
111451 TGTAAACTAACTATGGTTTTTTTTGCAAGGGG
1 TGTAAACTAACTATGGTTTTTTTTGCAAGGGG
111483 ATGTAAA
1 -TGTAAA
111490 TGATATACTG
Statistics
Matches: 54, Mismatches: 4, Indels: 22
0.68 0.05 0.28
Matches are distributed among these distances:
28 7 0.13
29 7 0.13
30 9 0.17
31 1 0.02
32 1 0.02
33 15 0.28
34 7 0.13
35 7 0.13
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (32 bp):
TGTAAACTAACTATGGTTTTTTTTGCAAGGGG
Found at i:111433 original size:63 final size:63
Alignment explanation
Indices: 111356--111499 Score: 270
Period size: 63 Copynumber: 2.3 Consensus size: 63
111346 TATTATTGTT
*
111356 GATGTAAATTATATACTGGTTTATTGTTGTAATGTAAACTAACTATGGTTTTTTTTGCAAGGG
1 GATGTAAATGATATACTGGTTTATTGTTGTAATGTAAACTAACTATGGTTTTTTTTGCAAGGG
*
111419 GGTGTAAATGATATACTGGTTTATTGTTGTAATGTAAACTAACTATGGTTTTTTTTGCAAGGG
1 GATGTAAATGATATACTGGTTTATTGTTGTAATGTAAACTAACTATGGTTTTTTTTGCAAGGG
111482 GATGTAAATGATATACTG
1 GATGTAAATGATATACTG
111500 TCTGAAGCAA
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
63 78 1.00
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.42
Consensus pattern (63 bp):
GATGTAAATGATATACTGGTTTATTGTTGTAATGTAAACTAACTATGGTTTTTTTTGCAAGGG
Found at i:111454 original size:93 final size:93
Alignment explanation
Indices: 111190--111456 Score: 265
Period size: 93 Copynumber: 2.9 Consensus size: 93
111180 TTTATTGCTA
* * * * * ** * *
111190 TTATTGCTATTGATGTAAATGATA-TATTGGTTTATTGATGTTGATGTAAATGATGTACTGATTT
1 TTATTGCTGTTAATGTAAATGA-ACTACTGTTTTATTGAAGGGGATGTAAATGATATACTGGTTT
111254 ATTGTTGTTGATGTAAATGATATACTGGT
65 ATTGTTGTTGATGTAAATGATATACTGGT
* ** * **
111283 TTATTGCTGTTGATGTAAATGATGTACTGTTTTATTGATGTTGATGTAAATGATATACTGGTTTA
1 TTATTGCTGTTAATGTAAATGAACTACTGTTTTATTGAAGGGGATGTAAATGATATACTGGTTTA
* *
111348 TTATTGTTGATGTAAATTATATACTGGT
66 TTGTTGTTGATGTAAATGATATACTGGT
* * *
111376 TTATTGTTG-TAATGTAAACT-AACTA-TGGTTTTTTTTGCAAGGGGGTGTAAATGATATACTGG
1 TTATTGCTGTTAATGTAAA-TGAACTACT-G-TTTTATTG-AAGGGGATGTAAATGATATACTGG
*
111438 TTTATTGTTG-TAATGTAAA
62 TTTATTGTTGTTGATGTAAA
111457 CTAACTATGG
Statistics
Matches: 150, Mismatches: 19, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
91 1 0.01
92 12 0.08
93 108 0.72
94 29 0.19
ACGTcount: A:0.28, C:0.04, G:0.21, T:0.47
Consensus pattern (93 bp):
TTATTGCTGTTAATGTAAATGAACTACTGTTTTATTGAAGGGGATGTAAATGATATACTGGTTTA
TTGTTGTTGATGTAAATGATATACTGGT
Found at i:113647 original size:13 final size:13
Alignment explanation
Indices: 113629--113653 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
113619 AAATCATTGA
113629 AATTGGAGATTCG
1 AATTGGAGATTCG
113642 AATTGGAGATTC
1 AATTGGAGATTC
113654 TGTCTTCTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (13 bp):
AATTGGAGATTCG
Found at i:113830 original size:20 final size:20
Alignment explanation
Indices: 113807--113870 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
113797 TTATGCTTTA
113807 TTCTGTTTTATATTGTTTGC
1 TTCTGTTTTATATTGTTTGC
*
113827 TTCTATTTTATATTGTTTGC
1 TTCTGTTTTATATTGTTTGC
* *
113847 TTCTGTTTGATATTGCTTGC
1 TTCTGTTTTATATTGTTTGC
113867 TTCT
1 TTCT
113871 ACTTGATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.11, C:0.12, G:0.14, T:0.62
Consensus pattern (20 bp):
TTCTGTTTTATATTGTTTGC
Found at i:113876 original size:20 final size:20
Alignment explanation
Indices: 113816--113880 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
113806 ATTCTGTTTT
*
113816 ATATTGTTTGCTTCTATTTT
1 ATATTGTTTGCTTCTATTTG
*
113836 ATATTGTTTGCTTCTGTTTG
1 ATATTGTTTGCTTCTATTTG
* *
113856 ATATTGCTTGCTTCTACTTG
1 ATATTGTTTGCTTCTATTTG
113876 ATATT
1 ATATT
113881 TGTAAGGGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.15, C:0.12, G:0.14, T:0.58
Consensus pattern (20 bp):
ATATTGTTTGCTTCTATTTG
Found at i:114003 original size:23 final size:23
Alignment explanation
Indices: 113967--114029 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
113957 TGCTTTCTTA
113967 ATGCAA-GATGCTTGCTGAATTG
1 ATGCAATGATGCTTGCTGAATTG
*
113989 ATGCAATGATGCTTGTTGAATTG
1 ATGCAATGATGCTTGCTGAATTG
* * *
114012 GTACATTGATGCTTGCTG
1 ATGCAATGATGCTTGCTG
114030 GTTGATGTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
22 6 0.17
23 29 0.83
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.37
Consensus pattern (23 bp):
ATGCAATGATGCTTGCTGAATTG
Found at i:114751 original size:51 final size:51
Alignment explanation
Indices: 114692--114788 Score: 158
Period size: 51 Copynumber: 1.9 Consensus size: 51
114682 ATATAAAACT
* *
114692 AAATTTCAAAAAATAATCATATTAATTTGATTATTATAATAATTTATGATA
1 AAATTTCAAAAAATAATCATATTAATTTAATTATCATAATAATTTATGATA
* *
114743 AAATTTCAAAAAGTAATTATATTAATTTAATTATCATAATAATTTA
1 AAATTTCAAAAAATAATCATATTAATTTAATTATCATAATAATTTA
114789 ATTATCATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.43
Consensus pattern (51 bp):
AAATTTCAAAAAATAATCATATTAATTTAATTATCATAATAATTTATGATA
Found at i:114787 original size:17 final size:17
Alignment explanation
Indices: 114765--114798 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
114755 GTAATTATAT
114765 TAATTTAATTATCATAA
1 TAATTTAATTATCATAA
114782 TAATTTAATTATCATAA
1 TAATTTAATTATCATAA
114799 GTTTATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATTTAATTATCATAA
Found at i:114947 original size:16 final size:16
Alignment explanation
Indices: 114913--114948 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
114903 TGAGTCAATT
*
114913 ACAGGTCAGGTTCATA
1 ACAGGTCAGGTTCAAA
*
114929 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTCAAA
114945 ACAG
1 ACAG
114949 ATCGGGTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (16 bp):
ACAGGTCAGGTTCAAA
Found at i:117343 original size:32 final size:31
Alignment explanation
Indices: 117306--117385 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 31
117296 ACTAATTTAT
*
117306 TTATCACTGAAAAGTTTATGAAATGAAGTGA
1 TTATCACTGAAAAGTTTATGAAATGAAGTAA
* * * *
117337 TATATCAATGAAAAGTGTATGAAGTGAGGTAA
1 T-TATCACTGAAAAGTTTATGAAATGAAGTAA
*
117369 TTAGCCACTGAAAAGTT
1 TTA-TCACTGAAAAGTT
117386 ATTATCCTTG
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
31 3 0.08
32 36 0.92
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.30
Consensus pattern (31 bp):
TTATCACTGAAAAGTTTATGAAATGAAGTAA
Found at i:117496 original size:32 final size:31
Alignment explanation
Indices: 117460--117524 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
117450 CATTTTTTAG
* *
117460 AAGTTTCTGAAATAAATTGATATATGAATGAA
1 AAGTTTCTG-AATAAAGTGATATATCAATGAA
* *
117492 AAGTTTTTGAATGAAGTGATATATCAATGAA
1 AAGTTTCTGAATAAAGTGATATATCAATGAA
117523 AA
1 AA
117525 TCCTTGCTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 21 0.72
32 8 0.28
ACGTcount: A:0.46, C:0.03, G:0.17, T:0.34
Consensus pattern (31 bp):
AAGTTTCTGAATAAAGTGATATATCAATGAA
Found at i:121311 original size:21 final size:21
Alignment explanation
Indices: 121287--121336 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
121277 TTTGGGATTG
**
121287 ATCCTTTTGGTCGAGGGATCA
1 ATCCTTTTGCCCGAGGGATCA
* *
121308 ATCCTTTTTCCCGAGGGATCG
1 ATCCTTTTGCCCGAGGGATCA
121329 ATCCTTTT
1 ATCCTTTT
121337 AAAAAGGTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (21 bp):
ATCCTTTTGCCCGAGGGATCA
Found at i:125246 original size:2 final size:2
Alignment explanation
Indices: 125239--125271 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
125229 GATTAAAAAT
125239 TA TA 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 TA TA T
125272 TAATATTCTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:125735 original size:16 final size:16
Alignment explanation
Indices: 125714--125744 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
125704 TAATAAATAA
125714 ATGAACATAAACGAAT
1 ATGAACATAAACGAAT
125730 ATGAACATAAACGAA
1 ATGAACATAAACGAA
125745 CAAATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.13, G:0.13, T:0.16
Consensus pattern (16 bp):
ATGAACATAAACGAAT
Found at i:125837 original size:16 final size:16
Alignment explanation
Indices: 125816--125860 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
125806 TAATAAATAA
* **
125816 ACGAACATAAATGCGC
1 ACGAACATAAACGAAC
125832 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
125848 ACGAACATAAACG
1 ACGAACATAAACG
125861 TTGGAGACCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.51, C:0.24, G:0.16, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:126942 original size:14 final size:14
Alignment explanation
Indices: 126925--126970 Score: 74
Period size: 14 Copynumber: 3.3 Consensus size: 14
126915 AATGAACATA
*
126925 AACGAACATAACCG
1 AACGAACATAAACG
126939 AACGAACATAAACG
1 AACGAACATAAACG
*
126953 AACGAACATAATCG
1 AACGAACATAAACG
126967 AACG
1 AACG
126971 TTCACGAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.52, C:0.24, G:0.15, T:0.09
Consensus pattern (14 bp):
AACGAACATAAACG
Found at i:126968 original size:24 final size:24
Alignment explanation
Indices: 126918--126969 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
126908 ATAAATGAAT
* *
126918 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACAGAACAGAAC
*
126942 GAACATAAACGAAC-GAACATAATC
1 GAACATAAACGAACAGAACAGAA-C
126966 GAAC
1 GAAC
126970 GTTCACGAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.54, C:0.23, G:0.13, T:0.10
Consensus pattern (24 bp):
GAACATAAACGAACAGAACAGAAC
Found at i:126979 original size:38 final size:39
Alignment explanation
Indices: 126905--126995 Score: 98
Period size: 38 Copynumber: 2.4 Consensus size: 39
126895 GATTGGGTTA
* *
126905 AACATAAATGAATGAACATAAACGAACATAACCGAACG-
1 AACATAAACGAACGAACATAAACGAACATAACCGAACGT
* * *
126943 AACATAAACGAACGAACATAATCGAACGT-TCACGAACGT
1 AACATAAACGAACGAACATAAACGAACATAAC-CGAACGT
*
126982 AA-ATGAACGAACGA
1 AACATAAACGAACGA
126996 GACCTATTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
37 1 0.02
38 42 0.93
39 2 0.04
ACGTcount: A:0.52, C:0.20, G:0.15, T:0.13
Consensus pattern (39 bp):
AACATAAACGAACGAACATAAACGAACATAACCGAACGT
Found at i:128994 original size:2 final size:2
Alignment explanation
Indices: 128987--129021 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
128977 TTTGATTTAC
128987 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
129022 ATCAAAAGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:138184 original size:2 final size:2
Alignment explanation
Indices: 138177--138201 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
138167 AAGGCATTAG
138177 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 T
138202 TGCCCAGTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:145568 original size:20 final size:19
Alignment explanation
Indices: 145534--145578 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
145524 AAAATGACCC
145534 AATTTCACATCCTAACATT
1 AATTTCACATCCTAACATT
*
145553 AATTTCAACATTCTAACATT
1 AATTTC-ACATCCTAACATT
145573 AATTTC
1 AATTTC
145579 CAGCATAGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.40
Consensus pattern (19 bp):
AATTTCACATCCTAACATT
Found at i:146793 original size:29 final size:29
Alignment explanation
Indices: 146711--146800 Score: 103
Period size: 29 Copynumber: 3.1 Consensus size: 29
146701 TTTTAGTCCT
* *
146711 TAAACTTTTAAAAATTA-ACTTTGGTCTA-
1 TAAACTTTCAAAATTTATACTTTGGTC-AC
*
146739 TAAACTTTTCCAAACTTTATACTTTGGTCAC
1 TAAAC-TTT-CAAAATTTATACTTTGGTCAC
*
146770 TAAACTTTCAAAATTTATATTTTGGTCAC
1 TAAACTTTCAAAATTTATACTTTGGTCAC
146799 TA
1 TA
146801 CCCAAAATTT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
28 5 0.09
29 24 0.45
30 10 0.19
31 14 0.26
ACGTcount: A:0.34, C:0.16, G:0.07, T:0.43
Consensus pattern (29 bp):
TAAACTTTCAAAATTTATACTTTGGTCAC
Found at i:151061 original size:18 final size:17
Alignment explanation
Indices: 151040--151101 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
151030 TAAAGTCTTT
*
151040 AACTCATAGAAGATGAAC
1 AACTCAAAGAAGAT-AAC
*
151058 AACTCAAAGAATATAAC
1 AACTCAAAGAAGATAAC
* * *
151075 AACT-AAAAAAGAAAAA
1 AACTCAAAGAAGATAAC
*
151091 AACACAAAGAA
1 AACTCAAAGAA
151102 ATTTTGTATA
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
16 11 0.31
17 12 0.34
18 12 0.34
ACGTcount: A:0.65, C:0.15, G:0.10, T:0.11
Consensus pattern (17 bp):
AACTCAAAGAAGATAAC
Found at i:151077 original size:17 final size:18
Alignment explanation
Indices: 151040--151078 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
151030 TAAAGTCTTT
*
151040 AACTCATAGAAGATGAAC
1 AACTCAAAGAAGATGAAC
*
151058 AACTCAAAGAATAT-AAC
1 AACTCAAAGAAGATGAAC
151075 AACT
1 AACT
151079 AAAAAAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.54, C:0.18, G:0.10, T:0.18
Consensus pattern (18 bp):
AACTCAAAGAAGATGAAC
Done.