Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004167.1 Hibiscus syriacus cultivar Beakdansim tig00009111_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: 173377
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:3035 original size:19 final size:19
Alignment explanation
Indices: 3013--3340 Score: 347
Period size: 19 Copynumber: 18.7 Consensus size: 19
3003 CGGAAAATAC
*
3013 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
3032 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
3046 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
3066 AATCGCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
3080 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
3100 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
3114 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
3133 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
3147 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
3167 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
3181 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
3200 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
3219 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
3233 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
3252 AATCGCAATGCGAAATGGA
1 AATCGCAATGCGAAATGAA
*
3271 AATCGCAATGCGAAATGGA
1 AATCGCAATGCGAAATGAA
3290 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
3309 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
3328 AATCGCAATGCGA
1 AATCGCAATGCGA
3341 TTTTGGTTTC
Statistics
Matches: 264, Mismatches: 12, Indels: 66
0.77 0.04 0.19
Matches are distributed among these distances:
14 67 0.25
15 3 0.01
16 9 0.03
17 6 0.02
18 6 0.02
19 134 0.51
20 39 0.15
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:3078 original size:14 final size:15
Alignment explanation
Indices: 3060--3259 Score: 68
Period size: 14 Copynumber: 11.9 Consensus size: 15
3050 GCAATGCGGA
3060 AATGAAAATCGCAAC
1 AATGAAAATCGCAAC
3075 -ATGAAAATCGCAATGC
1 AATGAAAATCGCAA--C
3091 GGAAATGAAAATCGCAAC
1 ---AATGAAAATCGCAAC
* *
3109 GA-GAGAATCGCAATGC
1 AATGAAAATCGCAA--C
*
3125 GAAATGAAAATCCCAAC
1 --AATGAAAATCGCAAC
3142 -ATGAAAATCGCAATGC
1 AATGAAAATCGCAA--C
3158 GGAAATGAAAATCGCAAC
1 ---AATGAAAATCGCAAC
* *
3176 GA-GAGAATCGCAATGC
1 AATGAAAATCGCAA--C
3192 GAAATGAAAATCGCAATGC
1 --AATGAAAATCGCAA--C
3211 GAAATGAAAATCGCAAC
1 --AATGAAAATCGCAAC
* *
3228 GA-GAGAATCGCAATGC
1 AATGAAAATCGCAA--C
3244 GAAATGAAAATCGCAA
1 --AATGAAAATCGCAA
3260 TGCGAAATGG
Statistics
Matches: 144, Mismatches: 14, Indels: 50
0.69 0.07 0.24
Matches are distributed among these distances:
14 55 0.38
15 3 0.02
16 5 0.03
17 2 0.01
18 5 0.03
19 48 0.33
20 26 0.18
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (15 bp):
AATGAAAATCGCAAC
Found at i:3134 original size:33 final size:34
Alignment explanation
Indices: 3013--3340 Score: 343
Period size: 34 Copynumber: 9.4 Consensus size: 34
3003 CGGAAAATAC
* *
3013 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
3046 AATCGCAATGCGGAAATGAAAATCGCAAC-ATGAA
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
*
3080 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
*
3114 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
3147 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
3181 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
3219 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
* *
3252 AATCGCAATGCGAAATGGAAATCGCAATGCGAAATGGA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
3290 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
3328 AATCGCAATGCGA
1 AATCGCAATGCGA
3341 TTTTGGTTTC
Statistics
Matches: 266, Mismatches: 14, Indels: 25
0.87 0.05 0.08
Matches are distributed among these distances:
32 1 0.00
33 84 0.32
34 93 0.35
35 6 0.02
36 2 0.01
37 2 0.01
38 78 0.29
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAA
Found at i:3142 original size:67 final size:67
Alignment explanation
Indices: 3013--3203 Score: 314
Period size: 67 Copynumber: 2.9 Consensus size: 67
3003 CGGAAAATAC
* * * *
3013 AATCGCAACGC-GAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAAAATCGCAACA
1 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAGAATCGCAATGC-GAAATGAAAATCCCAACA
3076 TGAA
64 TGAA
3080 AATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACATG
1 AATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACATG
3145 AA
66 AA
3147 AATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATC
1 AATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATC
3204 GCAATGCGAA
Statistics
Matches: 118, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
67 88 0.75
68 29 0.25
69 1 0.01
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (67 bp):
AATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACATG
AA
Found at i:3358 original size:19 final size:19
Alignment explanation
Indices: 3336--3464 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
3326 AAAATCGCAA
3336 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
3355 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
3369 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
3388 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
3402 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
3421 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
3440 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
3460 TGCGA
1 TGCGA
3465 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:3359 original size:57 final size:54
Alignment explanation
Indices: 3041--3341 Score: 323
Period size: 52 Copynumber: 5.7 Consensus size: 54
3031 AAATCCCAAC
*
3041 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA--C-ATGAAAATCGCAATGCGGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAATGCGATG-GAATCGCAATGC-GAA
* * * *
3095 ATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGA---AAT-GAAAATCCCAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGATGGAATCG-CAATGCGAA
3141 CATGAAAATCGCAATGCGGAAATGAAAATCGCAA--CGA-GAGAATCGCAATGCGAA
1 -ATGAAAATCGCAATGC-GAAATGAAAATCGCAATGCGATG-GAATCGCAATGCGAA
3195 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGA-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGATG-GAATCGCAATGCGAA
*
3247 ATGAAAATCGCAATGCGAAATGGAAATCGCAATGCGAAATGGAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCG--ATGG-AATCGCAATGCGAA
3304 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAT
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAT
3342 TTTGGTTTCG
Statistics
Matches: 216, Mismatches: 10, Indels: 41
0.81 0.04 0.15
Matches are distributed among these distances:
46 3 0.01
47 20 0.09
48 10 0.05
49 2 0.01
50 2 0.01
51 5 0.02
52 69 0.32
53 26 0.12
54 24 0.11
55 3 0.01
56 2 0.01
57 50 0.23
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.15
Consensus pattern (54 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGATGGAATCGCAATGCGAA
Found at i:3378 original size:33 final size:33
Alignment explanation
Indices: 3336--3427 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
3326 AAAATCGCAA
3336 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
3369 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
3402 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
3428 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:3655 original size:92 final size:92
Alignment explanation
Indices: 3508--3973 Score: 852
Period size: 92 Copynumber: 5.1 Consensus size: 92
3498 TTGAATGGAT
*
3508 AAATTTACTTTCAACC-AAAGACAAAACAAAG--AAA-CTATTTCACAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
3569 GTTTAGCAGAATTGGCAGCAACCGAAC
66 GTTTAGCAGAATTGGCAGCAACCGAAC
3596 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
3661 GTTTAGCAGAATTGGCAGCAACCGAAC
66 GTTTAGCAGAATTGGCAGCAACCGAAC
3688 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
3753 GTTTAGCAGAATTGGCAGCAACCGAAC
66 GTTTAGCAGAATTGGCAGCAACCGAAC
3780 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAG-ATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
*
3844 AGTTTAGCAGAATTGGCAGCAACCGAAT
65 AGTTTAGCAGAATTGGCAGCAACCGAAC
3872 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
*
3937 AGTTTAGCAGAATTGGCAGCAACCGAAT
65 AGTTTAGCAGAATTGGCAGCAACCGAAC
3965 AAATTTACT
1 AAATTTACT
3974 AAGCAATCTA
Statistics
Matches: 370, Mismatches: 2, Indels: 7
0.98 0.01 0.02
Matches are distributed among these distances:
88 16 0.04
89 15 0.04
91 3 0.01
92 275 0.74
93 61 0.16
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (92 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
GTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:5677 original size:14 final size:14
Alignment explanation
Indices: 5658--5780 Score: 93
Period size: 14 Copynumber: 7.7 Consensus size: 14
5648 TTGAAATGAA
5658 AATCGCAACGAGAG
1 AATCGCAACGAGAG
5672 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
5689 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
5705 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
5724 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
5738 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
5757 AATCGCAACGAGAG
1 AATCGCAACGAGAG
5771 AATCGCAACG
1 AATCGCAACG
5781 CGAAATGAAA
Statistics
Matches: 90, Mismatches: 4, Indels: 30
0.73 0.03 0.24
Matches are distributed among these distances:
14 38 0.42
15 2 0.02
16 10 0.11
17 10 0.11
18 2 0.02
19 28 0.31
ACGTcount: A:0.43, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:5695 original size:33 final size:33
Alignment explanation
Indices: 5650--5797 Score: 278
Period size: 33 Copynumber: 4.5 Consensus size: 33
5640 TCTTTTGGTT
5650 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
5683 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
5716 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
5749 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
5782 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
5798 TGCGATTTTG
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 111 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:5696 original size:19 final size:18
Alignment explanation
Indices: 5657--5802 Score: 108
Period size: 19 Copynumber: 8.8 Consensus size: 18
5647 GTTGAAATGA
5657 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
5672 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
5689 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
5705 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
5722 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
5738 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
5755 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
5771 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
5788 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
5803 TTTTGGTTTC
Statistics
Matches: 105, Mismatches: 6, Indels: 36
0.71 0.04 0.24
Matches are distributed among these distances:
14 32 0.30
16 20 0.19
17 17 0.16
19 36 0.34
ACGTcount: A:0.44, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:5833 original size:14 final size:14
Alignment explanation
Indices: 5814--5868 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
5804 TTTGGTTTCG
5814 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
5828 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
5847 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
5861 CGTTGCGA
1 CGTTGCGA
5869 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:5846 original size:33 final size:33
Alignment explanation
Indices: 5798--5868 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
5788 AAAATCGCAA
**
5798 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
5831 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
5864 TGCGA
1 TGCGA
5869 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:5876 original size:33 final size:33
Alignment explanation
Indices: 5809--5890 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
5799 GCGATTTTGG
***
5809 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
5842 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
5875 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
5891 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:5895 original size:20 final size:20
Alignment explanation
Indices: 5821--5909 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
5811 TCGCGTTGCG
5821 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
5841 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
5854 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
5874 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
5894 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
5910 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:6031 original size:33 final size:33
Alignment explanation
Indices: 5989--6058 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
5979 AATACTAACT
5989 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
***
6022 TGAAAATCGCAACGAGAGAATCTTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
6055 TGAA
1 TGAA
6059 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.47, C:0.17, G:0.23, T:0.13
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:6292 original size:22 final size:22
Alignment explanation
Indices: 6240--6294 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
6230 TGGTTGTGAG
**
6240 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
6262 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
6284 GGATTTCTTCG
1 GGATTTCTTCG
6295 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:6465 original size:20 final size:20
Alignment explanation
Indices: 6440--6633 Score: 212
Period size: 20 Copynumber: 9.6 Consensus size: 20
6430 CTTTAAATAT
6440 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
6460 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
6482 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
6501 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
6521 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
6541 CGCGTTGCGATTTTACGGATA
1 CGCGTTGCGA-TTTACGGATA
*
6562 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
6582 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
6602 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
6622 CGCGTTGCGATT
1 CGCGTTGCGATT
6634 ATTGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.01
20 110 0.75
21 32 0.22
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:6517 original size:61 final size:60
Alignment explanation
Indices: 6440--6633 Score: 237
Period size: 61 Copynumber: 3.2 Consensus size: 60
6430 CTTTAAATAT
*
6440 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTAGCGTTGCGATTTACGGATA
* * ***
6501 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCA-TACGCGTTGCGATTTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTA-GCGTTGCGA-TTTACGGATA
* * * * ** *
6562 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTAGCGTTGCGATTTACGGATA
6622 CGCGTTGCGATT
1 CGCGTTGCGATT
6634 ATTGAAAATC
Statistics
Matches: 111, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
59 2 0.02
60 30 0.27
61 78 0.70
62 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTAGCGTTGCGATTTACGGATA
Found at i:6610 original size:81 final size:81
Alignment explanation
Indices: 6439--6633 Score: 241
Period size: 81 Copynumber: 2.4 Consensus size: 81
6429 GCTTTAAATA
** * * *
6439 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATACGC
1 TCGCGTTGCGATTTACACATACGCGTTGCGATTTTACGGATTAACGTTGCGATTTACGGATACGC
6504 GTTGCGATATACGGAT
66 GTTGCGATATACGGAT
* * *
6520 ACGCATTGCGATTTACCCATACGCGTTGCGATTTTACGGA-TACACGTTGCGATTTACGGATACG
1 TCGCGTTGCGATTTACACATACGCGTTGCGATTTTACGGATTA-ACGTTGCGATTTACGGATACG
* *
6584 CGTTGCGATTTATGTG-T
65 CGTTGCGATATACG-GAT
* * *
6601 TCGCGTTGCGATTTTCATATTCGCGTTGCGATT
1 TCGCGTTGCGATTTACACATACGCGTTGCGATT
6634 ATTGAAAATC
Statistics
Matches: 97, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
80 2 0.02
81 94 0.97
82 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (81 bp):
TCGCGTTGCGATTTACACATACGCGTTGCGATTTTACGGATTAACGTTGCGATTTACGGATACGC
GTTGCGATATACGGAT
Found at i:10516 original size:33 final size:32
Alignment explanation
Indices: 10469--10585 Score: 135
Period size: 37 Copynumber: 3.5 Consensus size: 32
10459 AAACTCGAAT
* * * *
10469 CCGACCTGATCCGAATATCACGCTTAAAAAAAT
1 CCGACCCGACCCGAATATCACACTT-AAAAAAC
10502 CCGACCCGACCCGAATATCACACTTAAAAAAC
1 CCGACCCGACCCGAATATCACACTTAAAAAAC
*
10534 CCGACCCGACTCAACTCGAATATCATACTTAAAAAAC
1 CCGACCCGA--C--C-CGAATATCACACTTAAAAAAC
10571 CCGACCCGACCCGAA
1 CCGACCCGACCCGAA
10586 CAAAATAAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
32 19 0.26
33 23 0.31
34 1 0.01
35 1 0.01
36 1 0.01
37 29 0.39
ACGTcount: A:0.38, C:0.35, G:0.11, T:0.15
Consensus pattern (32 bp):
CCGACCCGACCCGAATATCACACTTAAAAAAC
Found at i:11462 original size:17 final size:17
Alignment explanation
Indices: 11428--11461 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
11418 GTACAAAAGA
*
11428 TGTGAAAGATTAGATTT
1 TGTGAAAGATCAGATTT
11445 TGTGAAAGATCAG-TTT
1 TGTGAAAGATCAGATTT
11461 T
1 T
11462 TTTAAGACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.32, C:0.03, G:0.24, T:0.41
Consensus pattern (17 bp):
TGTGAAAGATCAGATTT
Found at i:15853 original size:5 final size:5
Alignment explanation
Indices: 15843--16024 Score: 293
Period size: 5 Copynumber: 36.8 Consensus size: 5
15833 AACAATCTCA
*
15843 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TACAT TATA- T-TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
15891 TATAT TATA- TATATT ATATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATA-T -TATAT TATAT TATAT TATAT TATAT TATAT TATAT
15942 TATAT ATATAT T-TAT TATAT TATAT TAT-T TATAT TATAT TATAT TATAT
1 TATAT -TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
15991 TATAT TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATA
16025 CATGGACGGA
Statistics
Matches: 167, Mismatches: 2, Indels: 16
0.90 0.01 0.09
Matches are distributed among these distances:
3 2 0.01
4 14 0.08
5 141 0.84
6 6 0.04
7 4 0.02
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:15913 original size:59 final size:62
Alignment explanation
Indices: 15845--16024 Score: 294
Period size: 64 Copynumber: 2.9 Consensus size: 62
15835 CAATCTCATA
*
15845 TATTATATTATATTATATTATATTATATTATATTACATTATAT-TATTATATTATA-TATAT
1 TATTATATTATATTATATTATATTATATTATATTATATTATATATATTATATTATATTATAT
*
15905 TA-TATATTATATTATATTATATTATATTATATTATATTATATATATATTTATTATATTATAT
1 TATTATATTATATTATATTATATTATATTATATTATATTATATATAT-TATATTATATTATAT
15967 TATTTATATTATATTATATTATATTATATTATATTATATTATATTATATTATATTATA
1 TA-TTATATTATATTATATTATATTATATTATATTATATTATA-TATATTATATTATA
16025 CATGGACGGA
Statistics
Matches: 111, Mismatches: 3, Indels: 8
0.91 0.02 0.07
Matches are distributed among these distances:
59 39 0.35
60 5 0.05
61 8 0.07
62 7 0.06
64 47 0.42
65 5 0.05
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (62 bp):
TATTATATTATATTATATTATATTATATTATATTATATTATATATATTATATTATATTATAT
Found at i:21444 original size:29 final size:29
Alignment explanation
Indices: 21402--21460 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
21392 ATTTTCACCT
21402 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
21431 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
21460 A
1 A
21461 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:26102 original size:29 final size:29
Alignment explanation
Indices: 26060--26118 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
26050 ATTTTCACCT
26060 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
26089 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
26118 A
1 A
26119 TTAATTTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:32045 original size:23 final size:22
Alignment explanation
Indices: 32001--32045 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
31991 AATGCCAGAG
*
32001 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
32023 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
32046 AAAATGTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:33530 original size:103 final size:103
Alignment explanation
Indices: 33404--33621 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
33394 GTCGAGGGTC
33404 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
** *
33469 TTGATCTTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
* *
33507 TATGTGGTCTTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
33572 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
33610 TATGTGGTCCTT
1 TATGTGGTCCTT
33622 ATGGACATTA
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 108 1.00
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:33720 original size:23 final size:23
Alignment explanation
Indices: 33640--33703 Score: 119
Period size: 23 Copynumber: 2.8 Consensus size: 23
33630 TATTATATGG
*
33640 CACTATGGTGCAATTCTACGCGA
1 CACTACGGTGCAATTCTACGCGA
33663 CACTACGGTGCAATTCTACGCGA
1 CACTACGGTGCAATTCTACGCGA
33686 CACTACGGTGCAATTCTA
1 CACTACGGTGCAATTCTA
33704 TGTGGCACTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (23 bp):
CACTACGGTGCAATTCTACGCGA
Found at i:34629 original size:23 final size:23
Alignment explanation
Indices: 34603--34671 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
34593 CACCACAGCT
*
34603 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* * *
34626 CGTAGAATTGCACCGGAGTACCG
1 CGTAGAATTGCACCGAAGTGCCA
*
34649 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
34672 TATAATAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:34871 original size:103 final size:103
Alignment explanation
Indices: 34692--34894 Score: 370
Period size: 103 Copynumber: 2.0 Consensus size: 103
34682 TCCATAAGGA
* *
34692 CCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTT
1 CCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACTT
34757 CACACATGTTCCAAAGAATACATATATATCCCGAATGG
66 CACACATGTTCCAAAGAATACATATATATCCCGAATGG
*
34795 CCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGACTT
1 CCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACTT
*
34860 CACACATGTTCCAAAGAATACATATATGTCCCGAA
66 CACACATGTTCCAAAGAATACATATATATCCCGAA
34895 GGACCGCGTA
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 96 1.00
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (103 bp):
CCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACTT
CACACATGTTCCAAAGAATACATATATATCCCGAATGG
Found at i:36296 original size:22 final size:20
Alignment explanation
Indices: 36271--36330 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 20
36261 TTCGCTTGAG
36271 GGGTATCGATTCCCCATTGAAT
1 GGGTA-CGATTCCCC-TTGAAT
36293 GGGTACTGATT-CCCTTGAAT
1 GGGTAC-GATTCCCCTTGAAT
36313 GGGTACCGATTCCCCTTG
1 GGGTA-CGATTCCCCTTG
36331 CCCAGAAATC
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
20 15 0.43
21 11 0.31
22 9 0.26
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.32
Consensus pattern (20 bp):
GGGTACGATTCCCCTTGAAT
Found at i:51727 original size:29 final size:29
Alignment explanation
Indices: 51694--51764 Score: 124
Period size: 29 Copynumber: 2.4 Consensus size: 29
51684 TTATCTCCAC
*
51694 GTGACGAGTTTCAAACTTATCACTTTTAT
1 GTGACGAGTTTCAAACTTATCACTTTAAT
*
51723 GTGACGAGTTTCAAACTTGTCACTTTAAT
1 GTGACGAGTTTCAAACTTATCACTTTAAT
51752 GTGACGAGTTTCA
1 GTGACGAGTTTCA
51765 CGTGCATTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (29 bp):
GTGACGAGTTTCAAACTTATCACTTTAAT
Found at i:52629 original size:74 final size:73
Alignment explanation
Indices: 52450--52654 Score: 243
Period size: 73 Copynumber: 2.7 Consensus size: 73
52440 CAAAGCCAAA
* * **
52450 AATTCCAGATTGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTGAATGGT
1 AATTCCAGA-TGCTCGGAGGGAACCGATTCCCCCCATA-GAGGAACCGATT-CCCCCTAAACAGT
52515 TTGGCTCCGAG
63 TTGGCTCCGAG
* *
52526 ATTTCCAGAATGCTCGGAGGGAACCGATT-CCCCCATAGAGGAACCGATTCCCCCTAAACATTTT
1 AATTCCAG-ATGCTCGGAGGGAACCGATTCCCCCCATAGAGGAACCGATTCCCCCTAAACAGTTT
* *
52590 TGTTCCGAG
65 GGCTCCGAG
* *
52599 AATTCCAGTATGCTCGGAGGGAAACCGATTCCCCTCCA-AGGGGTACCGATTCCCCC
1 AATTCCAG-ATGCTCGGAGGG-AACCGATTCCCC-CCATAGAGGAACCGATTCCCCC
52655 CTTCAACGGT
Statistics
Matches: 113, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
73 37 0.33
74 20 0.18
75 27 0.24
76 28 0.25
77 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.23, T:0.22
Consensus pattern (73 bp):
AATTCCAGATGCTCGGAGGGAACCGATTCCCCCCATAGAGGAACCGATTCCCCCTAAACAGTTTG
GCTCCGAG
Found at i:61176 original size:75 final size:76
Alignment explanation
Indices: 61044--61253 Score: 264
Period size: 75 Copynumber: 2.8 Consensus size: 76
61034 CAAAGCCAAA
* * * * **
61044 AATTCCATATTGCTCAGAGGGAACTGATTCCCCCCCATAGGAGGAACCGATTCCCCCCTGAATGG
1 AATTCCAGAATGCTCGGAGGGAACCGATT-CCCCCCATAGGAGGAACCGATTCCCCCCTGAACAG
61109 TTTGGCTCCGAG
65 TTTGGCTCCGAG
* * *
61121 ATTTCCAGAATGCTCGGAGGGAACCGATT-CCCCCATAGGAGGAACCGATTCCCCCCTAAACATT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTGAACAGT
* *
61185 TTTGTTCCGAG
66 TTGGCTCCGAG
* *
61196 AATTCCAGTATGCTCGGAGGGAACCGATTCCCCCCCA-AGG-GGTACCGATTCCCCCCTG
1 AATTCCAGAATGCTCGGAGGGAACCGATT-CCCCCCATAGGAGGAACCGATTCCCCCCTG
61254 TTCAACGGTT
Statistics
Matches: 116, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
75 83 0.72
76 3 0.03
77 30 0.26
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.22
Consensus pattern (76 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTGAACAGT
TTGGCTCCGAG
Found at i:62569 original size:58 final size:61
Alignment explanation
Indices: 62501--62620 Score: 165
Period size: 59 Copynumber: 2.0 Consensus size: 61
62491 TTCGATTGAG
* * *
62501 GAGAAAAACAAGAA-ATGAGTGTTGATTTTTGAAA-TTAAAAAAAGA-GAAAAAAAAGAAA
1 GAGAAAAACAAGAACATGAGTATTGATTATTGAAACTAAAAAAAAGAGGAAAAAAAAGAAA
* *
62559 GAGAAGAACAAGAACATGTGTATTGATTATTGAAACTAAAAAAAAGAGGGAAAAAAAAGAAA
1 GAGAAAAACAAGAACATGAGTATTGATTATTGAAACTAAAAAAAAGA-GGAAAAAAAAGAAA
62621 TGAGGTGAAG
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
58 13 0.25
59 17 0.32
60 10 0.19
62 13 0.25
ACGTcount: A:0.59, C:0.03, G:0.20, T:0.17
Consensus pattern (61 bp):
GAGAAAAACAAGAACATGAGTATTGATTATTGAAACTAAAAAAAAGAGGAAAAAAAAGAAA
Found at i:64764 original size:25 final size:25
Alignment explanation
Indices: 64736--64783 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
64726 ATTAAAGCTT
64736 TTTCTT-TTTACTTTTCAAGTTTTTA
1 TTTCTTCTTTA-TTTTCAAGTTTTTA
64761 TTTCTTCTTTATTTTCAAGTTTT
1 TTTCTTCTTTATTTTCAAGTTTT
64784 GTTTTTATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.15, C:0.12, G:0.04, T:0.69
Consensus pattern (25 bp):
TTTCTTCTTTATTTTCAAGTTTTTA
Found at i:66074 original size:24 final size:24
Alignment explanation
Indices: 66024--66075 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
66014 TTCAAAGTTA
*
66024 GATTAGAATTTCTCATGCATCCCC
1 GATTAGAATTTCTCATGCATCACC
*
66048 GATTAGAATTTCTCATGCATCATC
1 GATTAGAATTTCTCATGCATCACC
66072 GATT
1 GATT
66076 GAAAAATTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (24 bp):
GATTAGAATTTCTCATGCATCACC
Found at i:66639 original size:41 final size:41
Alignment explanation
Indices: 66544--66842 Score: 449
Period size: 41 Copynumber: 7.2 Consensus size: 41
66534 GATTCGCAAC
* *
66544 GCGATAGTCGAAGTTCGCATTGCGATTTATTCCAAATTCGTT
1 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAA-TCGTT
*
66586 GCGATA-TGCGAAGTTCGCGTTACGATTCATTCCAAATCGTT
1 GCGATAGT-CGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
66627 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
1 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
* *
66668 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAATTCGTT
1 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
* *
66709 GCGACA-TGCGAAGTTCGCGTTGCGATTCATTCCAATTCGTT
1 GCGATAGT-CGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
*
66750 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
1 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAA-TCGTT
* *
66792 GCGATAGGCGAAGTTCGCATTGCGATTCATTCCAAATTCGTT
1 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAA-TCGTT
66834 GCGATAGTC
1 GCGATAGTC
66843 CAAATATTGC
Statistics
Matches: 239, Mismatches: 13, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
41 153 0.64
42 86 0.36
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (41 bp):
GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
Found at i:66728 original size:123 final size:125
Alignment explanation
Indices: 66544--66837 Score: 511
Period size: 123 Copynumber: 2.4 Consensus size: 125
66534 GATTCGCAAC
* * *
66544 GCGATAGTCGAAGTTCGCATTGCGATTTATTCCAAATTCGTTGCGATATGCGAAGTTCGCGTTAC
1 GCGATAGGCGAAGTTCGCATTGCGATTCATTCCAAATTCGTTGCGACATGCGAAGTTCGCGTTAC
*
66609 GATTCATTCCAAATCGTTGCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAA-TCGTT
66 GATTCATTCCAAATCGTTGCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
* *
66668 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCC-AATTCGTTGCGACATGCGAAGTTCGCGTTGC
1 GCGATAGGCGAAGTTCGCATTGCGATTCATTCCAAATTCGTTGCGACATGCGAAGTTCGCGTTAC
*
66732 GATTCATTCCAATTCGTTGCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
66 GATTCATTCCAAATCGTTGCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
66792 GCGATAGGCGAAGTTCGCATTGCGATTCATTCCAAATTCGTTGCGA
1 GCGATAGGCGAAGTTCGCATTGCGATTCATTCCAAATTCGTTGCGA
66838 TAGTCCAAAT
Statistics
Matches: 160, Mismatches: 8, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
123 81 0.51
124 67 0.42
125 12 0.08
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (125 bp):
GCGATAGGCGAAGTTCGCATTGCGATTCATTCCAAATTCGTTGCGACATGCGAAGTTCGCGTTAC
GATTCATTCCAAATCGTTGCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTT
Found at i:67612 original size:6 final size:6
Alignment explanation
Indices: 67603--67646 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
67593 GCCCCGTCCC
67603 GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GT
1 GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GT
67647 AATACGTGTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.00, C:0.16, G:0.50, T:0.34
Consensus pattern (6 bp):
GTCGTG
Found at i:67787 original size:41 final size:41
Alignment explanation
Indices: 67727--67887 Score: 286
Period size: 41 Copynumber: 3.9 Consensus size: 41
67717 ATTTGGACTA
67727 TCGCAACGAATTTGGAATGAATCGCAATGCGAACTTCGCCTG
1 TCGCAACGAA-TTGGAATGAATCGCAATGCGAACTTCGCCTG
*
67769 TCACAACGAATTGGAATGAATCGCAATGCGAACTTCGCCTG
1 TCGCAACGAATTGGAATGAATCGCAATGCGAACTTCGCCTG
*
67810 TCGCAACGAATTGGAATGAATCACAATGCGAACTTCGCCTG
1 TCGCAACGAATTGGAATGAATCGCAATGCGAACTTCGCCTG
*
67851 TCGCAACGAATTGGAATGAATCGCAACGCGAACTTCG
1 TCGCAACGAATTGGAATGAATCGCAATGCGAACTTCG
67888 ACTATCGCGT
Statistics
Matches: 114, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
41 105 0.92
42 9 0.08
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (41 bp):
TCGCAACGAATTGGAATGAATCGCAATGCGAACTTCGCCTG
Found at i:69611 original size:21 final size:21
Alignment explanation
Indices: 69587--69639 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
69577 GCAGCTCACT
* *
69587 GTACTAACGTGGTGGTCTACG
1 GTACTGACGTGGTGGTCCACG
69608 GTACTGACGTGGTGGTCCACG
1 GTACTGACGTGGTGGTCCACG
69629 GTACTGACGTG
1 GTACTGACGTG
69640 ACAATCTGCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.17, C:0.21, G:0.36, T:0.26
Consensus pattern (21 bp):
GTACTGACGTGGTGGTCCACG
Found at i:70183 original size:2 final size:2
Alignment explanation
Indices: 70176--70220 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
70166 CCAATTTATC
70176 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
70218 AT A
1 AT A
70221 AAGATCTTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:80124 original size:2 final size:2
Alignment explanation
Indices: 80119--80146 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
80109 TGTTTTTGTG
80119 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
80147 AATCTTGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:80265 original size:4 final size:4
Alignment explanation
Indices: 80256--80496 Score: 455
Period size: 4 Copynumber: 60.2 Consensus size: 4
80246 GTAATCTCTT
*
80256 TATG TATG TATG TATA TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
80304 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
80352 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
80400 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
80448 TATG TATG TATG TATG TATG TATG TATG TATG TATG TGTG TGTG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
80496 T
1 T
80497 GTTTTGCAAA
Statistics
Matches: 233, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
4 233 1.00
ACGTcount: A:0.24, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:87980 original size:21 final size:21
Alignment explanation
Indices: 87954--88028 Score: 123
Period size: 21 Copynumber: 3.6 Consensus size: 21
87944 GTTTCCAGAT
* *
87954 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
87975 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
*
87996 TTGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
88017 TCGCAATGCGAA
1 TCGCAATGCGAA
88029 TATATAAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:88163 original size:3 final size:3
Alignment explanation
Indices: 88157--88195 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
88147 GACGACGACG
88157 ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC
1 ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC
88196 CGAGACGAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.67, G:0.00, T:0.00
Consensus pattern (3 bp):
ACC
Found at i:88849 original size:23 final size:21
Alignment explanation
Indices: 88823--88886 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
88813 CGCAACAAAT
*
88823 TTGGAATAAATCGTAACGCGAAC
1 TTGGAAT--ATCGCAACGCGAAC
* *
88846 TTGGACTATCGCAATGCGAAC
1 TTGGAATATCGCAACGCGAAC
* *
88867 TTGGACTATCGCAATGCGAA
1 TTGGAATATCGCAACGCGAA
88887 TATGTAAATC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 32 0.84
23 6 0.16
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.23
Consensus pattern (21 bp):
TTGGAATATCGCAACGCGAAC
Found at i:88864 original size:21 final size:21
Alignment explanation
Indices: 88840--88947 Score: 123
Period size: 21 Copynumber: 5.2 Consensus size: 21
88830 AAATCGTAAC
88840 GCGAACTTGGACTATCGCAAT
1 GCGAACTTGGACTATCGCAAT
88861 GCGAACTTGGACTATCGCAAT
1 GCGAACTTGGACTATCGCAAT
* *
88882 GCGAA-TATGTA-AATCGCAAT
1 GCGAACT-TGGACTATCGCAAT
* * *
88902 GCGATA-GTCGACTATCACAAT
1 GCGA-ACTTGGACTATCGCAAT
*
88923 GCGAACTTGGACTATCGCATT
1 GCGAACTTGGACTATCGCAAT
88944 GCGA
1 GCGA
88948 TTTACATATT
Statistics
Matches: 72, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
20 16 0.22
21 56 0.78
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (21 bp):
GCGAACTTGGACTATCGCAAT
Found at i:88923 original size:62 final size:62
Alignment explanation
Indices: 88849--88988 Score: 196
Period size: 62 Copynumber: 2.3 Consensus size: 62
88839 CGCGAACTTG
88849 GACTATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTA-A-A-TCGCAATGCGATAGTC
1 GACTATCGCAATGCGAACTTGGACTATCGCAATGCG-AT-T-TACATATTCGCAATGCGATAGTC
* * *
88911 GACTATCACAATGCGAACTTGGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTC
1 GACTATCGCAATGCGAACTTGGACTATCGCAATGCGATTTACATATTCGCAATGCGATAGTC
*
88973 GACTATCGCATTGCGA
1 GACTATCGCAATGCGA
88989 TAGTCCAAGT
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
59 2 0.03
60 2 0.03
61 3 0.04
62 63 0.90
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.27
Consensus pattern (62 bp):
GACTATCGCAATGCGAACTTGGACTATCGCAATGCGATTTACATATTCGCAATGCGATAGTC
Found at i:88983 original size:21 final size:21
Alignment explanation
Indices: 88894--88993 Score: 91
Period size: 21 Copynumber: 4.8 Consensus size: 21
88884 GAATATGTAA
*
88894 ATCGCAATGCGATAGTCGACT
1 ATCGCATTGCGATAGTCGACT
* * * *
88915 ATCACAATGCGA-ACTTGGACT
1 ATCGCATTGCGATA-GTCGACT
*
88936 ATCGCATTGCGAT--T-TACAT
1 ATCGCATTGCGATAGTCGAC-T
88955 ATTCGCATTGCGATAGTCGACT
1 A-TCGCATTGCGATAGTCGACT
88977 ATCGCATTGCGATAGTC
1 ATCGCATTGCGATAGTC
88994 CAAGTTCGCA
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
18 2 0.03
19 3 0.05
20 13 0.20
21 42 0.65
22 3 0.05
23 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (21 bp):
ATCGCATTGCGATAGTCGACT
Found at i:89002 original size:21 final size:20
Alignment explanation
Indices: 88956--89147 Score: 109
Period size: 21 Copynumber: 8.8 Consensus size: 20
88946 GATTTACATA
*
88956 TTCGCATTGCGATAGTCGAC
1 TTCGCATTGCGATAGTCAAC
88976 TATCGCATTGCGATAGTCCAAGTTCGC
1 T-TCGCATTGCGATAGT-CAA-----C
*
89003 AAGTTCGCATTGCGATAGTCGAAG
1 ---TTCGCATTGCGATAGTC-AAC
* *
89027 TTCGCGTTGCGATAGTCCAAG
1 TTCGCATTGCGATAGT-CAAC
* *
89048 TTCGCGTTGCGATAGTCGAC
1 TTCGCATTGCGATAGTCAAC
*
89068 TATCGCATTGCGAT-TTACATA-
1 T-TCGCATTGCGATAGT-CA-AC
* *
89089 GTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGT-CAAC
*
89110 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGT-CAAC
* *
89131 TTAGTATTGCGATAGTC
1 TTCGCATTGCGATAGTC
89148 GAAGTTCACG
Statistics
Matches: 141, Mismatches: 14, Indels: 34
0.75 0.07 0.18
Matches are distributed among these distances:
20 19 0.13
21 98 0.70
22 4 0.03
27 1 0.01
28 1 0.01
29 17 0.12
30 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (20 bp):
TTCGCATTGCGATAGTCAAC
Found at i:89037 original size:50 final size:50
Alignment explanation
Indices: 88956--89081 Score: 162
Period size: 50 Copynumber: 2.7 Consensus size: 50
88946 GATTTACATA
88956 TTCGCATTGCGATAGTCGACTATCGCATTGCGATAGTCCAAGTTCGCAAG
1 TTCGCATTGCGATAGTCGACTATCGCATTGCGATAGTCCAAGTTCGCAAG
* *
89006 TTCGCATTGCGATAGTCGAAGT-TCGCGTTGCGATAGTCCAAGTT--C--G
1 TTCGCATTGCGATAGTCG-ACTATCGCATTGCGATAGTCCAAGTTCGCAAG
89052 --CG--TTGCGATAGTCGACTATCGCATTGCGAT
1 TTCGCATTGCGATAGTCGACTATCGCATTGCGAT
89082 TTACATAGTC
Statistics
Matches: 70, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
41 2 0.03
42 23 0.33
44 2 0.03
46 1 0.01
48 1 0.01
50 39 0.56
51 2 0.03
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.29
Consensus pattern (50 bp):
TTCGCATTGCGATAGTCGACTATCGCATTGCGATAGTCCAAGTTCGCAAG
Found at i:89061 original size:42 final size:42
Alignment explanation
Indices: 89002--89154 Score: 195
Period size: 42 Copynumber: 3.7 Consensus size: 42
88992 TCCAAGTTCG
*
89002 CAAGTTCGCATTGCGATAGTCGAAGTTCGCGTTGCGATAGTC
1 CAAGTTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTC
* * * *
89044 CAAGTTCGCGTTGCGATAGTCG-ACTATCGCATTGCGAT-TTA
1 CAAGTTCGCATTGCGATAGTCGAAGT-TCGCATTGCGATAGTC
*
89085 CATAG-TCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
1 CA-AGTTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTC
* *
89127 CAAGTTAGTATTGCGATAGTCGAAGTTC
1 CAAGTTCGCATTGCGATAGTCGAAGTTC
89155 ACGTTGCAAA
Statistics
Matches: 93, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
41 34 0.37
42 59 0.63
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (42 bp):
CAAGTTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTC
Found at i:89161 original size:21 final size:21
Alignment explanation
Indices: 89002--89154 Score: 177
Period size: 21 Copynumber: 7.3 Consensus size: 21
88992 TCCAAGTTCG
89002 CAAGTTCGCATTGCGATAGTC
1 CAAGTTCGCATTGCGATAGTC
* *
89023 GAAGTTCGCGTTGCGATAGTC
1 CAAGTTCGCATTGCGATAGTC
*
89044 CAAGTTCGCGTTGCGATAGT-
1 CAAGTTCGCATTGCGATAGTC
* * * *
89064 CGACTATCGCATTGCGAT-TTA
1 CAAGT-TCGCATTGCGATAGTC
89085 CATAG-TCGCATTGCGATAGTC
1 CA-AGTTCGCATTGCGATAGTC
89106 CAAGTTCGCATTGCGATAGTC
1 CAAGTTCGCATTGCGATAGTC
* *
89127 CAAGTTAGTATTGCGATAGTC
1 CAAGTTCGCATTGCGATAGTC
*
89148 GAAGTTC
1 CAAGTTC
89155 ACGTTGCAAA
Statistics
Matches: 112, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
20 18 0.16
21 93 0.83
22 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (21 bp):
CAAGTTCGCATTGCGATAGTC
Found at i:95154 original size:26 final size:26
Alignment explanation
Indices: 95124--95179 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
95114 AATAGTCATG
* *
95124 CTTTTCAGAATATGTTGTTTCTAATT
1 CTTTTCAGAATATATTGTTTCTAAAT
95150 CTTTTCAGAATATATTGTTTCTAAAT
1 CTTTTCAGAATATATTGTTTCTAAAT
95176 CTTT
1 CTTT
95180 AAATGTGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.25, C:0.12, G:0.09, T:0.54
Consensus pattern (26 bp):
CTTTTCAGAATATATTGTTTCTAAAT
Found at i:96243 original size:20 final size:20
Alignment explanation
Indices: 96220--96308 Score: 117
Period size: 20 Copynumber: 4.4 Consensus size: 20
96210 GAATATGTAA
96220 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
**
96240 ATCGCAACGCGATAAT-ACAT
1 ATCGCAACGCGATTCTGAC-T
*
96260 AATCGCAACTCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
96281 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
96301 GTCGCAAC
1 ATCGCAAC
96309 ACTGAATTTC
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
19 2 0.03
20 41 0.69
21 14 0.24
22 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:97161 original size:24 final size:24
Alignment explanation
Indices: 97129--97182 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
97119 GTATTCAAAA
97129 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
97153 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
97177 TTTGAT
1 TTTGAT
97183 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:99448 original size:18 final size:18
Alignment explanation
Indices: 99425--99459 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
99415 AGAAAAAGGC
99425 AATCAAAATCGCAATCAA
1 AATCAAAATCGCAATCAA
*
99443 AATCAAAATCTCAATCA
1 AATCAAAATCGCAATCA
99460 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.23, G:0.03, T:0.20
Consensus pattern (18 bp):
AATCAAAATCGCAATCAA
Found at i:99660 original size:20 final size:20
Alignment explanation
Indices: 99630--99780 Score: 116
Period size: 20 Copynumber: 7.8 Consensus size: 20
99620 TTACACATTC
* *
99630 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCAA
**
99650 ATTTGGTTATCGCAACGCAA
1 ATTTGACTATCGCAACGCAA
99670 ATTTGACTATCGCAACGCAA
1 ATTTGACTATCGCAACGCAA
* **
99690 A----A--ATTGCAACGTGA
1 ATTTGACTATCGCAACGCAA
* *
99704 ATATGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCAA
***
99724 ATTTGACTATCGCAACATGA
1 ATTTGACTATCGCAACGCAA
* * **
99744 ATTTGATTATTGCAACGGGA
1 ATTTGACTATCGCAACGCAA
99764 ATTTGACTATCGCAACG
1 ATTTGACTATCGCAACG
99781 AGAAAATCGC
Statistics
Matches: 106, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
14 10 0.09
16 1 0.01
18 1 0.01
20 94 0.89
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCAA
Found at i:99685 original size:40 final size:40
Alignment explanation
Indices: 99630--99780 Score: 152
Period size: 40 Copynumber: 3.9 Consensus size: 40
99620 TTACACATTC
* ** **
99630 ATTTGAATATCGCAACGCGAATTTGGTTATCGCAACGCAA
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGTGA
* *
99670 ATTTGACTATCGCAACGC-AA----A-AATTGCAACGTGA
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGTGA
* *
99704 ATATGACTATCGCAACGCGAATTTGACTATCGCAACATGA
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGTGA
* * *
99744 ATTTGATTATTGCAACGGGAATTTGACTATCGCAACG
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACG
99781 AGAAAATCGC
Statistics
Matches: 90, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
34 26 0.29
35 2 0.02
39 3 0.03
40 59 0.66
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (40 bp):
ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGTGA
Found at i:99806 original size:94 final size:94
Alignment explanation
Indices: 99630--99830 Score: 257
Period size: 94 Copynumber: 2.1 Consensus size: 94
99620 TTACACATTC
* * * *
99630 ATTTGAATATCGCAACGCGAATTTGGTTATCGCAACGCAAATTTGACTATCGCAACGCAAAAATT
1 ATTTGACTATCGCAACACGAATTTGATTATCGCAACGCAAATTTGACTATCGCAACGCAAAAATC
99695 GCAACGTGAATATGACTATCGCAACGCGA
66 GCAACGTGAATATGACTATCGCAACGCGA
* * **
99724 ATTTGACTATCGCAACATGAATTTGATTATTGCAACGGGAATTTGACTATCGCAACG-AGAAAAT
1 ATTTGACTATCGCAACACGAATTTGATTATCGCAACGCAAATTTGACTATCGCAACGCA-AAAAT
*
99788 CGCAAAGCGT-ATTA-GACTATCGCAACGCGA
65 CGC-AA-CGTGAATATGACTATCGCAACGCGA
*
99818 A-TTGACTTTCGCA
1 ATTTGACTATCGCA
99831 TTGCGATTTT
Statistics
Matches: 94, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
93 12 0.13
94 74 0.79
95 5 0.05
96 3 0.03
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.26
Consensus pattern (94 bp):
ATTTGACTATCGCAACACGAATTTGATTATCGCAACGCAAATTTGACTATCGCAACGCAAAAATC
GCAACGTGAATATGACTATCGCAACGCGA
Found at i:99811 original size:20 final size:19
Alignment explanation
Indices: 99786--99830 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
99776 CAACGAGAAA
*
99786 ATCGCAAAGCGTATTAGACT
1 ATCGCAAAGCGAATT-GACT
*
99806 ATCGCAACGCGAATTGACT
1 ATCGCAAAGCGAATTGACT
*
99825 TTCGCA
1 ATCGCA
99831 TTGCGATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (19 bp):
ATCGCAAAGCGAATTGACT
Found at i:99995 original size:14 final size:14
Alignment explanation
Indices: 99976--100009 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
99966 CATCAATTAA
99976 ACAAATAAACTTTT
1 ACAAATAAACTTTT
99990 ACAAATAAACTTTT
1 ACAAATAAACTTTT
*
100004 ATAAAT
1 ACAAAT
100010 CAATTAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (14 bp):
ACAAATAAACTTTT
Found at i:101450 original size:21 final size:21
Alignment explanation
Indices: 101381--101450 Score: 52
Period size: 21 Copynumber: 3.3 Consensus size: 21
101371 GTGAATCAGG
**
101381 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACAGTGGGAGGGGA
* * ** *
101401 CCTCTTCAACAATGACAGGGGC
1 -CTCTTGAACAGTGGGAGGGGA
*
101423 CTATTGAACAGTGGGAGGGGA
1 CTCTTGAACAGTGGGAGGGGA
101444 CTCTTGA
1 CTCTTGA
101451 GGGATAATAG
Statistics
Matches: 34, Mismatches: 14, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 31 0.91
22 3 0.09
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.23
Consensus pattern (21 bp):
CTCTTGAACAGTGGGAGGGGA
Found at i:101477 original size:21 final size:21
Alignment explanation
Indices: 101437--101497 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
101427 TGAACAGTGG
* **
101437 GAGGGGACTCTTGAGGGATAA
1 GAGGGGCCTCTTGAACGATAA
* *
101458 TAGGGGCCTCTTGAACGATAG
1 GAGGGGCCTCTTGAACGATAA
*
101479 GAGAGGCCTCTTGAACGAT
1 GAGGGGCCTCTTGAACGAT
101498 GACAGGTGAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.26, C:0.16, G:0.36, T:0.21
Consensus pattern (21 bp):
GAGGGGCCTCTTGAACGATAA
Found at i:101957 original size:20 final size:20
Alignment explanation
Indices: 101932--101975 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
101922 AATAGTTTCT
*
101932 GAAACTTAAAATCGTAACAC
1 GAAACTTAAAATCGCAACAC
*
101952 GAAACTTAAAATCGCAACGC
1 GAAACTTAAAATCGCAACAC
101972 GAAA
1 GAAA
101976 ATGACTATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.50, C:0.20, G:0.14, T:0.16
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:101989 original size:20 final size:20
Alignment explanation
Indices: 101966--102009 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
101956 CTTAAAATCG
101966 CAACGCGAAAATGACTATCA
1 CAACGCGAAAATGACTATCA
* *
101986 CAACGCGGAAATGACTATCG
1 CAACGCGAAAATGACTATCA
102006 CAAC
1 CAAC
102010 AAGATAATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.41, C:0.27, G:0.18, T:0.14
Consensus pattern (20 bp):
CAACGCGAAAATGACTATCA
Found at i:102083 original size:20 final size:19
Alignment explanation
Indices: 102054--102182 Score: 79
Period size: 20 Copynumber: 6.8 Consensus size: 19
102044 CGAAACTAAA
*
102054 TTCGCGTTGCGATTTTCATT
1 TTCGCATTGCGATTTTCA-T
102074 TTCGCATTGCGATTTTCA-
1 TTCGCATTGCGATTTTCAT
*
102092 --CG--TTGCGATTTTTAT
1 TTCGCATTGCGATTTTCAT
** *
102107 TTCGCATTGCGATAGTCAAA
1 TTCGCATTGCGATTTTC-AT
* **
102127 TTCGCGTTGCGATAGTCAT
1 TTCGCATTGCGATTTTCAT
* **
102146 TTCTGCGTTGCGATAGTCATT
1 TTC-GCATTGCGATTTTCA-T
*
102167 TTCGCATTGCAATTTT
1 TTCGCATTGCGATTTT
102183 AAGTTTCGTG
Statistics
Matches: 89, Mismatches: 12, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
14 11 0.12
16 2 0.02
17 2 0.02
19 12 0.13
20 58 0.65
21 4 0.04
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.43
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:102171 original size:40 final size:39
Alignment explanation
Indices: 102085--102176 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 39
102075 TCGCATTGCG
* ** *
102085 ATTTTCACGTTGCGATTTTTATTTCGCATTGCGATAGTC
1 ATTTTCGCGTTGCGATAGTCATTTCGCATTGCGATAGTC
** *
102124 AAATTCGCGTTGCGATAGTCATTTCTGCGTTGCGATAGTC
1 ATTTTCGCGTTGCGATAGTCATTTC-GCATTGCGATAGTC
*
102164 ATTTTCGCATTGC
1 ATTTTCGCGTTGC
102177 AATTTTAAGT
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
39 19 0.45
40 23 0.55
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.41
Consensus pattern (39 bp):
ATTTTCGCGTTGCGATAGTCATTTCGCATTGCGATAGTC
Found at i:104133 original size:20 final size:20
Alignment explanation
Indices: 104079--104133 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
104069 GAAACTTAAA
* **
104079 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAATTTGACT
*
104099 ATCGCAACGCAAATTTGACT
1 ATCGCAACGCGAATTTGACT
104119 ATCGCAACGCGAATT
1 ATCGCAACGCGAATT
104134 CGCGTTGCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAATTTGACT
Found at i:104764 original size:41 final size:41
Alignment explanation
Indices: 104707--104813 Score: 178
Period size: 41 Copynumber: 2.6 Consensus size: 41
104697 GCGCTTTGAA
*
104707 AATCGCATTGCGATTTTGTATTATCGCAACGCGATAGTCAG
1 AATCGCGTTGCGATTTTGTATTATCGCAACGCGATAGTCAG
* *
104748 AATCGCGTTACGATTTTGTATTATCGCAGCGCGATAGTCAG
1 AATCGCGTTGCGATTTTGTATTATCGCAACGCGATAGTCAG
*
104789 AATCGCGTTGCGATTATGTATTATC
1 AATCGCGTTGCGATTTTGTATTATC
104814 ACGTTATGAT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (41 bp):
AATCGCGTTGCGATTTTGTATTATCGCAACGCGATAGTCAG
Found at i:104801 original size:20 final size:20
Alignment explanation
Indices: 104778--104882 Score: 63
Period size: 20 Copynumber: 5.2 Consensus size: 20
104768 TTATCGCAGC
104778 GCGATAGTCAGAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
** *
104798 GCGATTATGT-ATTATCACGTT
1 GCGA-TA-GTCAGAATCGCGTT
** *
104819 ATGATAGTCAGAATCGCATT
1 GCGATAGTCAGAATCGCGTT
* *
104839 GCGAT--TCACATATTCGCATT
1 GCGATAGTCAGA-A-TCGCGTT
* *
104859 GCGATAGCCAAAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
104879 GCGA
1 GCGA
104883 ATCTGGAAAC
Statistics
Matches: 63, Mismatches: 15, Indels: 14
0.68 0.16 0.15
Matches are distributed among these distances:
18 4 0.06
19 3 0.05
20 38 0.60
21 13 0.21
22 5 0.08
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (20 bp):
GCGATAGTCAGAATCGCGTT
Found at i:104825 original size:41 final size:41
Alignment explanation
Indices: 104707--104844 Score: 152
Period size: 41 Copynumber: 3.4 Consensus size: 41
104697 GCGCTTTGAA
* * * * *
104707 AATCGCATTGCGATTTTGTATTATCGCAACGCGATAGTCAG
1 AATCGCGTTGCGATTATGTATTATCACAGCACGATAGTCAG
* * * *
104748 AATCGCGTTACGATTTTGTATTATCGCAGCGCGATAGTCAG
1 AATCGCGTTGCGATTATGTATTATCACAGCACGATAGTCAG
* *
104789 AATCGCGTTGCGATTATGTATTATCAC-GTTATGATAGTCAG
1 AATCGCGTTGCGATTATGTATTATCACAG-CACGATAGTCAG
*
104830 AATCGCATTGCGATT
1 AATCGCGTTGCGATT
104845 CACATATTCG
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 1 0.01
41 85 0.99
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (41 bp):
AATCGCGTTGCGATTATGTATTATCACAGCACGATAGTCAG
Found at i:111465 original size:42 final size:42
Alignment explanation
Indices: 111417--111513 Score: 158
Period size: 42 Copynumber: 2.3 Consensus size: 42
111407 AATTTTTTTG
*
111417 ACTCGACTCGATTTGAATTGACTTCAAGGTGTAATTTCATAA
1 ACTCGACTCGACTTGAATTGACTTCAAGGTGTAATTTCATAA
* * *
111459 ACTCGACTCGACTTGAATTGAGTTCGAGTTGTAATTTCATAA
1 ACTCGACTCGACTTGAATTGACTTCAAGGTGTAATTTCATAA
111501 ACTCGACTCGACT
1 ACTCGACTCGACT
111514 CAAAAAAAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (42 bp):
ACTCGACTCGACTTGAATTGACTTCAAGGTGTAATTTCATAA
Found at i:115415 original size:42 final size:42
Alignment explanation
Indices: 115358--115463 Score: 105
Period size: 42 Copynumber: 2.5 Consensus size: 42
115348 GTCCCTACTA
*
115358 TTATTATATACTATAT-TTTCATTATTAT-TATATTTTATTCCT
1 TTATTATATACTATATATAT-ATT-TTATGTATATTTTATTCCT
115400 TTATTCATATA-TATATATATATTTTATGTATATTTTATT--T
1 TTATT-ATATACTATATATATATTTTATGTATATTTTATTCCT
*
115440 TATTTTATTATACATATATATATA
1 T-TATTA-TATAC-TATATATATA
115464 CATATAACCA
Statistics
Matches: 55, Mismatches: 2, Indels: 13
0.79 0.03 0.19
Matches are distributed among these distances:
40 3 0.05
41 11 0.20
42 24 0.44
43 17 0.31
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (42 bp):
TTATTATATACTATATATATATTTTATGTATATTTTATTCCT
Found at i:115416 original size:49 final size:48
Alignment explanation
Indices: 115362--115469 Score: 132
Period size: 47 Copynumber: 2.2 Consensus size: 48
115352 CTACTATTAT
*
115362 TATATACTATATTTTCAT-TATTATTATATTTTATTCCT-TTATTCATATA
1 TATATACTATATTTT-ATGTA-TATTATATTTTATT-CTATTATACATATA
* *
115411 TATATA-TATATTTTATGTATATTTTATTTTATTTTATTATACATATA
1 TATATACTATATTTTATGTATATTATATTTTATTCTATTATACATATA
115458 TATATACATATA
1 TATATAC-TATA
115470 ACCATCGTTA
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
46 1 0.02
47 31 0.60
48 10 0.19
49 10 0.19
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.58
Consensus pattern (48 bp):
TATATACTATATTTTATGTATATTATATTTTATTCTATTATACATATA
Found at i:115445 original size:10 final size:10
Alignment explanation
Indices: 115382--115451 Score: 54
Period size: 10 Copynumber: 6.8 Consensus size: 10
115372 ATTTTCATTA
115382 TTATTATATT
1 TTATTATATT
**
115392 TTA-T-TCCT
1 TTATTATATT
115400 TTATTCATATAT
1 TTATT-ATAT-T
*
115412 ATATATATATT
1 TTAT-TATATT
115423 TTATGTATATT
1 TTAT-TATATT
*
115434 TTATTTTATT
1 TTATTATATT
115444 TTATTATA
1 TTATTATA
115452 CATATATATA
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
8 5 0.11
9 2 0.04
10 15 0.33
11 15 0.33
12 8 0.17
13 1 0.02
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (10 bp):
TTATTATATT
Found at i:119862 original size:21 final size:21
Alignment explanation
Indices: 119816--119872 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
119806 ACTTTGACGA
*
119816 AGAAGATAAAGCTAAAAAAAT
1 AGAAGATAAAGATAAAAAAAT
* *
119837 GGAAGA-AAAGATAAAAATATT
1 AGAAGATAAAGATAAAAA-AAT
*
119858 AGAAGATCAA-ATAAA
1 AGAAGATAAAGATAAA
119873 GATGGTCCAG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 10 0.34
21 17 0.59
22 2 0.07
ACGTcount: A:0.65, C:0.04, G:0.16, T:0.16
Consensus pattern (21 bp):
AGAAGATAAAGATAAAAAAAT
Found at i:126493 original size:55 final size:55
Alignment explanation
Indices: 126409--126513 Score: 149
Period size: 55 Copynumber: 1.9 Consensus size: 55
126399 AATACTTCGC
* * *
126409 TTAGGATGAAAACCCGAGAAGGCGTCCTAAGTTGAAAAAAAAAAAAAAAAAACGT
1 TTAGGATGAAAACCCGAAAAGGCGCCCTAAATTGAAAAAAAAAAAAAAAAAACGT
* *
126464 TTAGGGTGAAAACCC-AAAAGGGCGCCCTAAATTGAAAAAAAAAAGAAAAA
1 TTAGGATGAAAACCCGAAAA-GGCGCCCTAAATTGAAAAAAAAAAAAAAAA
126514 GAAAAAAGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
54 3 0.07
55 41 0.93
ACGTcount: A:0.53, C:0.13, G:0.20, T:0.13
Consensus pattern (55 bp):
TTAGGATGAAAACCCGAAAAGGCGCCCTAAATTGAAAAAAAAAAAAAAAAAACGT
Found at i:126528 original size:18 final size:17
Alignment explanation
Indices: 126497--126530 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
126487 GCCCTAAATT
126497 GAAAAAAAAAAGAAAAA
1 GAAAAAAAAAAGAAAAA
*
126514 GAAAAAAGAAGAGAAAA
1 GAAAAAA-AAAAGAAAA
126531 TAAGGTGGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
GAAAAAAAAAAGAAAAA
Found at i:127056 original size:1 final size:1
Alignment explanation
Indices: 127050--127077 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
127040 GGAGCATCTC
127050 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
127078 CCAGCATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:128182 original size:105 final size:105
Alignment explanation
Indices: 127295--128174 Score: 1643
Period size: 105 Copynumber: 8.4 Consensus size: 105
127285 AGGTTTTACC
*
127295 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
127360 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
*
127400 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
*
127465 ACGGAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
127505 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
127570 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
*
127610 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGATTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
*
127675 ATGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
* *
127715 CATAACCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
127780 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
*
127820 CAGAGCCAATTTTAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
127885 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
*
127925 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGGCAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
*
127990 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
* *
128030 CAGAGCCAATTTCAACTTCACAACGAAGAATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
128095 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
*
128135 CAGAGCCAATTTCAACTTCACAACGAAGGGTATTGGACTC
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
128175 GAAACAACAC
Statistics
Matches: 754, Mismatches: 21, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 754 1.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.24
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
Found at i:129619 original size:49 final size:49
Alignment explanation
Indices: 129565--129672 Score: 123
Period size: 49 Copynumber: 2.2 Consensus size: 49
129555 CTACTATTAT
*
129565 TATATACTATAT-TTTCAT-TATTATTATATTTTATTCCT-TTATTCATATA
1 TATATA-TATATATTTCATGTA-TATTATATTTTATT-CTATTATACATATA
* * *
129614 TATATATATATATTTTATGTATATTTTATTTTATTTTATTATACATATA
1 TATATATATATATTTCATGTATATTATATTTTATTCTATTATACATATA
*
129663 TATACATATA
1 TATATATATA
129673 ACCATCGTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
48 6 0.12
49 43 0.84
50 2 0.04
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.58
Consensus pattern (49 bp):
TATATATATATATTTCATGTATATTATATTTTATTCTATTATACATATA
Found at i:129650 original size:10 final size:10
Alignment explanation
Indices: 129622--129656 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
129612 TATATATATA
129622 TATATTTTAT
1 TATATTTTAT
129632 GTATATTTTAT
1 -TATATTTTAT
*
129643 TTTATTTTAT
1 TATATTTTAT
129653 TATA
1 TATA
129657 CATATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (10 bp):
TATATTTTAT
Found at i:129934 original size:14 final size:13
Alignment explanation
Indices: 129915--129955 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
129905 TTGATCATAG
129915 TTATTTATTTATT
1 TTATTTATTTATT
*
129928 TTAATTTTTTTAGTT
1 TT-ATTTATTTA-TT
129943 TTATTTATTTATT
1 TTATTTATTTATT
129956 AATATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 4 0.17
14 16 0.67
15 4 0.17
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (13 bp):
TTATTTATTTATT
Found at i:132107 original size:49 final size:52
Alignment explanation
Indices: 132004--132125 Score: 171
Period size: 49 Copynumber: 2.4 Consensus size: 52
131994 CTTCTTCTTC
*
132004 ATGCGTGATTCAAACTTCTGGTTCTTCTTCTTCGGTCTTCAAGTCCATGACT
1 ATGCGTGATTCAAACTTTTGGTTCTTCTTCTTCGGTCTTCAAGTCCATGACT
* *
132056 ATGCATGATTCAAACTTTTGG-TCTTCTTCTTC-G-C-TCAAAGTCCATGGCT
1 ATGCGTGATTCAAACTTTTGGTTCTTCTTCTTCGGTCTTC-AAGTCCATGACT
*
132105 ATGCGGGATTCAAACTTTTGG
1 ATGCGTGATTCAAACTTTTGG
132126 ATTTGATCTT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
48 2 0.03
49 31 0.48
50 1 0.02
51 11 0.17
52 19 0.30
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.39
Consensus pattern (52 bp):
ATGCGTGATTCAAACTTTTGGTTCTTCTTCTTCGGTCTTCAAGTCCATGACT
Found at i:133574 original size:31 final size:32
Alignment explanation
Indices: 133508--133578 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 32
133498 ATGTCACATA
*
133508 ATTATTTTGGATGATATGATACATATTATATC
1 ATTATTTTGGATGATATGATACATATTATACC
*
133540 ATTATTTT-GATGATAT-A-ACGTATGTCATACC
1 ATTATTTTGGATGATATGATACATAT-T-ATACC
133571 ATTATTTT
1 ATTATTTT
133579 AAATGACGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 5 0.14
30 2 0.06
31 20 0.57
32 8 0.23
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.48
Consensus pattern (32 bp):
ATTATTTTGGATGATATGATACATATTATACC
Found at i:155259 original size:15 final size:15
Alignment explanation
Indices: 155234--155276 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
155224 AAATTAAAAT
*
155234 ATAAAATATAAAAAAC
1 ATAAAATA-AAACAAC
155250 AGTAAAATAAAAACAAC
1 A-TAAAAT-AAAACAAC
155267 ATAAAATAAA
1 ATAAAATAAA
155277 TTCAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 3 0.12
16 7 0.29
17 13 0.54
18 1 0.04
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.16
Consensus pattern (15 bp):
ATAAAATAAAACAAC
Found at i:155262 original size:16 final size:16
Alignment explanation
Indices: 155234--155276 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 16
155224 AAATTAAAAT
155234 ATAAAATATAAAA-AAC
1 ATAAAATA-AAAACAAC
155250 AGTAAAATAAAAACAAC
1 A-TAAAATAAAAACAAC
155267 ATAAAATAAA
1 ATAAAATAAA
155277 TTCAAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.16
Consensus pattern (16 bp):
ATAAAATAAAAACAAC
Found at i:156712 original size:44 final size:44
Alignment explanation
Indices: 156611--157003 Score: 204
Period size: 44 Copynumber: 8.9 Consensus size: 44
156601 AATATAGCAA
* * * *
156611 AAATGACAATATTGATCAACCTCCTTCTGTGATGGAATCGAAC-
1 AAATGACAATGTTGATCTACCTCCTTCTGTGATAGAATCGAGCG
* * *
156654 ATAATGTCAGTGTTGATCTACCTCCTTCTGTGATAGAGTCGAGCG
1 A-AATGACAATGTTGATCTACCTCCTTCTGTGATAGAATCGAGCG
* *
156699 AAATGAAAATGTTGATC--CCTCTCATTCTGTGAT-GAAATCTAGCG
1 AAATGACAATGTTGATCTACCTC-C-TTCTGTGATAG-AATCGAGCG
* **** * * * * * *
156743 AGATGTTGTTGCTGATATACCTCATTCTGTGATAGATTTGAGTG
1 AAATGACAATGTTGATCTACCTCCTTCTGTGATAGAATCGAGCG
* * ** * *
156787 AAATGACAATGTCGGTCCCCCTCCTTCTGTGATATAATCGAACG
1 AAATGACAATGTTGATCTACCTCCTTCTGTGATAGAATCGAGCG
* *** ** * * * * *
156831 AGATGATGGTACTGATCTATCTCTTTCTGTAATAGATTCGAGTG
1 AAATGACAATGTTGATCTACCTCCTTCTGTGATAGAATCGAGCG
* * * *
156875 AAATGAAAATGTCGATC--CCTCTCATTCTGTGATGGAATCGAACG
1 AAATGACAATGTTGATCTACCTC-C-TTCTGTGATAGAATCGAGCG
* ** ** * * * *
156919 AGATTTCGGTGATGATCTACCTCCTTCTGTGATAGATTTGAGTG
1 AAATGACAATGTTGATCTACCTCCTTCTGTGATAGAATCGAGCG
* * * *
156963 AAATGAAAATGTTGATCCACCTCATTCTGTGATGGAATCGA
1 AAATGACAATGTTGATCTACCTCCTTCTGTGATAGAATCGA
157004 ACGAGATATT
Statistics
Matches: 241, Mismatches: 97, Indels: 23
0.67 0.27 0.06
Matches are distributed among these distances:
42 7 0.03
43 3 0.01
44 220 0.91
45 3 0.01
46 8 0.03
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (44 bp):
AAATGACAATGTTGATCTACCTCCTTCTGTGATAGAATCGAGCG
Found at i:156715 original size:88 final size:85
Alignment explanation
Indices: 156611--157213 Score: 427
Period size: 88 Copynumber: 7.0 Consensus size: 85
156601 AATATAGCAA
* * * * *
156611 AAATGACAATATTGATCAACCTCCTTCTGTGATGGAATCGAAC-ATAATGTCAGTGTTGATCTAC
1 AAATGAAAATGTTGATC--CCTCCTTCTGTGATGGAATCGAACGA-GATGT-GGTGCTGATCTAC
* *
156675 CTCCTTCTGTGATAGAGTCGAGCG
62 CTCCTTCTGTGATAGATTCGAGTG
* * * * *
156699 AAATGAAAATGTTGATCCCTCTCATTCTGTGATGAAATCTAGCGAGATGTTGTTGCTGATATACC
1 AAATGAAAATGTTGATCCCTC-C-TTCTGTGATGGAATCGAACGAGATG-TGGTGCTGATCTACC
* *
156764 TCATTCTGTGATAGATTTGAGTG
63 TCCTTCTGTGATAGATTCGAGTG
* * * ** * *
156787 AAATGACAATGTCGGTCCCCCTCCTTCTGTGATATAATCGAACGAGATGATGGTACTGATCTATC
1 AAATGAAAATGTTGAT--CCCTCCTTCTGTGATGGAATCGAACGAGATG-TGGTGCTGATCTACC
* *
156852 TCTTTCTGTAATAGATTCGAGTG
63 TCCTTCTGTGATAGATTCGAGTG
* * *
156875 AAATGAAAATGTCGATCCCTCTCATTCTGTGATGGAATCGAACGAGATTTCGGTGATGATCTACC
1 AAATGAAAATGTTGATCCCTC-C-TTCTGTGATGGAATCGAACGAGATGT-GGTGCTGATCTACC
*
156940 TCCTTCTGTGATAGATTTGAGTG
63 TCCTTCTGTGATAGATTCGAGTG
* * * * *
156963 AAATGAAAATGTTGATCCACCTCATTCTGTGATGGAATCGAACGAGATATTGGTACTGATATATC
1 AAATGAAAATGTTGAT-C-CCTCCTTCTGTGATGGAATCGAACGAGAT-GTGGTGCTGATCTACC
* * **
157028 TCCTTCTATGATAGAATCGAGCA
63 TCCTTCTGTGATAGATTCGAGTG
* *** ** * * * *
157051 AAAAGTTGATACTGATCCAACTCCTTATGCGCTGG-AT-GAA--A-A--T-GT-C-AATCTACCT
1 AAATGAAAATGTTGATCC--CTCCTTCTGTGATGGAATCGAACGAGATGTGGTGCTGATCTACCT
* * *
157106 CATTCTGTGATATATTTGAGTG
64 CCTTCTGTGATAGATTCGAGTG
* * * * * *
157128 AAATGAAAATATTGATTCCCCTCATTTTATGATGGAATCGAACGAGATATCGATGCTGATCTACC
1 AAATGAAAATGTTGA-T-CCCTCCTTCTGTGATGGAATCGAACGAGATGT-GGTGCTGATCTACC
* *
157193 TCTTTCTGCGATAGATTCGAG
63 TCCTTCTGTGATAGATTCGAG
157214 CAAATAATTG
Statistics
Matches: 401, Mismatches: 87, Indels: 54
0.74 0.16 0.10
Matches are distributed among these distances:
77 41 0.10
78 4 0.01
79 7 0.02
80 1 0.00
81 1 0.00
82 1 0.00
83 1 0.00
84 2 0.00
86 14 0.03
87 7 0.02
88 307 0.77
89 6 0.01
90 9 0.02
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (85 bp):
AAATGAAAATGTTGATCCCTCCTTCTGTGATGGAATCGAACGAGATGTGGTGCTGATCTACCTCC
TTCTGTGATAGATTCGAGTG
Found at i:156905 original size:176 final size:176
Alignment explanation
Indices: 156667--157049 Score: 527
Period size: 176 Copynumber: 2.2 Consensus size: 176
156657 ATGTCAGTGT
* * *
156667 TGATCTACCTCCTTCTGTGATAGAGTCGAGCGAAATGAAAATGTTGATCCCTCTCATTCTGTGAT
1 TGATCTATCTCCTTCTGTGATAGAATCGAGCGAAATGAAAATGTCGATCCCTCTCATTCTGTGAT
* * * * *
156732 GAAATCTAGCGAGATGTT-GTTGCTGATATACCTCATTCTGTGATAGATTTGAGTGAAATGACAA
66 GAAATCGAACGAGAT-TTCGGTGATGATATACCTCATTCTGTGATAGATTTGAGTGAAATGAAAA
* * * *
156796 TGTCGGTCCCCCTCCTTCTGTGATATAATCGAACGAGATGA-TGGTAC
130 TGTCGATCCACCTCATTCTGTGATAGAATCGAACGAGAT-ATTGGTAC
* * * *
156843 TGATCTATCTCTTTCTGTAATAGATTCGAGTGAAATGAAAATGTCGATCCCTCTCATTCTGTGAT
1 TGATCTATCTCCTTCTGTGATAGAATCGAGCGAAATGAAAATGTCGATCCCTCTCATTCTGTGAT
* * *
156908 GGAATCGAACGAGATTTCGGTGATGATCTACCTCCTTCTGTGATAGATTTGAGTGAAATGAAAAT
66 GAAATCGAACGAGATTTCGGTGATGATATACCTCATTCTGTGATAGATTTGAGTGAAATGAAAAT
* *
156973 GTTGATCCACCTCATTCTGTGATGGAATCGAACGAGATATTGGTAC
131 GTCGATCCACCTCATTCTGTGATAGAATCGAACGAGATATTGGTAC
* *
157019 TGATATATCTCCTTCTATGATAGAATCGAGC
1 TGATCTATCTCCTTCTGTGATAGAATCGAGC
157050 AAAAAGTTGA
Statistics
Matches: 179, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
175 3 0.02
176 176 0.98
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.33
Consensus pattern (176 bp):
TGATCTATCTCCTTCTGTGATAGAATCGAGCGAAATGAAAATGTCGATCCCTCTCATTCTGTGAT
GAAATCGAACGAGATTTCGGTGATGATATACCTCATTCTGTGATAGATTTGAGTGAAATGAAAAT
GTCGATCCACCTCATTCTGTGATAGAATCGAACGAGATATTGGTAC
Found at i:157616 original size:34 final size:34
Alignment explanation
Indices: 157570--157655 Score: 109
Period size: 36 Copynumber: 2.5 Consensus size: 34
157560 TTTCGAGGCA
* * *
157570 AAACTGTTTCAAGTGACAAAACTCGTTTCAAGGG
1 AAACTGTCTCAAGAGACAAAACTCGTTTCAAGAG
* *
157604 AAACTGTCTCAAGAGAGACAAAATTCGTTTCAATAG
1 AAACTGTCTC-A-AGAGACAAAACTCGTTTCAAGAG
157640 AAACTGTCTCAAGAGA
1 AAACTGTCTCAAGAGA
157656 GACAAGCTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
34 14 0.31
35 2 0.04
36 29 0.64
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (34 bp):
AAACTGTCTCAAGAGACAAAACTCGTTTCAAGAG
Found at i:157670 original size:36 final size:36
Alignment explanation
Indices: 157584--157679 Score: 129
Period size: 36 Copynumber: 2.7 Consensus size: 36
157574 TGTTTCAAGT
* **
157584 GACAAAACTCGTTTCAAGGGAAACTGTCTCAAGAGA
1 GACAAAATTCGTTTCAAAAGAAACTGTCTCAAGAGA
*
157620 GACAAAATTCGTTTCAATAGAAACTGTCTCAAGAGA
1 GACAAAATTCGTTTCAAAAGAAACTGTCTCAAGAGA
** *
157656 GACAAGCTTTGTTTCAAAAGAAAC
1 GACAAAATTCGTTTCAAAAGAAAC
157680 ATACTCATGC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.23
Consensus pattern (36 bp):
GACAAAATTCGTTTCAAAAGAAACTGTCTCAAGAGA
Found at i:157761 original size:37 final size:35
Alignment explanation
Indices: 157692--157771 Score: 88
Period size: 37 Copynumber: 2.2 Consensus size: 35
157682 ACTCATGCTT
* *
157692 TTGTTTTGAGAGAAACTGTCTCAAAAGTGACAAAA
1 TTGTTTTGAGAAAAACTGTCTCAAAAGAGACAAAA
* **
157727 CTTGTTTTGAGTAAAAATTGTCTCAAGTGAGACAAAA
1 -TTGTTTTGAG-AAAAACTGTCTCAAAAGAGACAAAA
157764 TTCGTTTT
1 TT-GTTTT
157772 TTTAGATAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
36 12 0.32
37 25 0.68
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (35 bp):
TTGTTTTGAGAAAAACTGTCTCAAAAGAGACAAAA
Found at i:158198 original size:42 final size:41
Alignment explanation
Indices: 158134--158226 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 41
158124 CCCAAATGAC
*
158134 TTATCATCTTGCTCAAAAGACTTACAGATGACCCGAAGGAT
1 TTATCATCATGCTCAAAAGACTTACAGATGACCCGAAGGAT
* * * *
158175 TTATGCATCATGCTCGAAAGACTTACTGATGTCCCGAAGGAC
1 TTAT-CATCATGCTCAAAAGACTTACAGATGACCCGAAGGAT
158217 TTACTCATCA
1 TTA-TCATCA
158227 AGGAACCCCT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
41 4 0.09
42 40 0.89
43 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (41 bp):
TTATCATCATGCTCAAAAGACTTACAGATGACCCGAAGGAT
Found at i:158454 original size:43 final size:43
Alignment explanation
Indices: 158221--158602 Score: 583
Period size: 43 Copynumber: 9.0 Consensus size: 43
158211 AAGGACTTAC
* *
158221 TCATCAAGGAACCCCTACATATCACATTGGTCCCTCTAG-TTG
1 TCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTG
* *
158263 TCATCAAGGAACCCCTACATATCACATTGGTCCCTCTAG-TTG
1 TCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTG
* *
158305 TCATCAAGGAACCCCTACATATCACATTGGTCCCTCTAG-TTG
1 TCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTG
*
158347 TCATCAAGGAACCCCTACATATCACGTTGGTCCCTCGAG-TTG
1 TCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTG
* *
158389 TCATAAAGGAACCTCTACATATCACGTTGGTCCCTCAAGCTTG
1 TCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTG
* *
158432 TCATCAAGGAACCCCTATATATCACGTTGGTCCCTCAAGCTTC
1 TCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTG
*
158475 TCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTC
1 TCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTG
* * *
158518 TCATCAAGGAACCTCTACATATCATGTTGGTCCCTCAAGCTTC
1 TCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTG
* *
158561 TCATCAAGGAACCCTTACATATCACGTTGATCCCTCAAGCTT
1 TCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTT
158603 AGTTTCTTAT
Statistics
Matches: 323, Mismatches: 16, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
42 160 0.50
43 163 0.50
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (43 bp):
TCATCAAGGAACCCCTACATATCACGTTGGTCCCTCAAGCTTG
Found at i:158532 original size:22 final size:22
Alignment explanation
Indices: 158507--158573 Score: 55
Period size: 22 Copynumber: 3.1 Consensus size: 22
158497 CACGTTGGTC
158507 CCTCAAGCTTCTCATCAAGGAA
1 CCTCAAGCTTCTCATCAAGGAA
* * * *** **
158529 CCTCTA-CATATCATGTTGGTC
1 CCTCAAGCTTCTCATCAAGGAA
158550 CCTCAAGCTTCTCATCAAGGAA
1 CCTCAAGCTTCTCATCAAGGAA
158572 CC
1 CC
158574 CTTACATATC
Statistics
Matches: 28, Mismatches: 16, Indels: 2
0.61 0.35 0.04
Matches are distributed among these distances:
21 13 0.46
22 15 0.54
ACGTcount: A:0.27, C:0.33, G:0.13, T:0.27
Consensus pattern (22 bp):
CCTCAAGCTTCTCATCAAGGAA
Found at i:160735 original size:23 final size:22
Alignment explanation
Indices: 160708--160782 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 22
160698 TGATATATGA
160708 ATATGCAATACGTGATACATGTG
1 ATATG-AATACGTGATACATGTG
* ** *
160731 ATATG-ATATGAAATGACATATG
1 ATATGAATACGTGAT-ACATGTG
*
160753 AATATGTAGTACGTGATACATGTG
1 -ATATG-AATACGTGATACATGTG
160777 ATATGA
1 ATATGA
160783 TATGAAATAC
Statistics
Matches: 39, Mismatches: 9, Indels: 9
0.68 0.16 0.16
Matches are distributed among these distances:
21 6 0.15
22 7 0.18
23 15 0.38
24 6 0.15
25 5 0.13
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (22 bp):
ATATGAATACGTGATACATGTG
Found at i:160742 original size:46 final size:46
Alignment explanation
Indices: 160682--160794 Score: 178
Period size: 46 Copynumber: 2.5 Consensus size: 46
160672 GAGATAAGCT
*
160682 ATGTGAT-T-ATATGAAATGATATATGAATATGCAATACGTGATAC
1 ATGTGATATGATATGAAATGACATATGAATATGCAATACGTGATAC
* *
160726 ATGTGATATGATATGAAATGACATATGAATATGTAGTACGTGATAC
1 ATGTGATATGATATGAAATGACATATGAATATGCAATACGTGATAC
160772 ATGTGATATGATATGAAAT-ACAT
1 ATGTGATATGATATGAAATGACAT
160795 GGTTACACAT
Statistics
Matches: 64, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
44 7 0.11
45 5 0.08
46 52 0.81
ACGTcount: A:0.41, C:0.06, G:0.19, T:0.34
Consensus pattern (46 bp):
ATGTGATATGATATGAAATGACATATGAATATGCAATACGTGATAC
Found at i:160989 original size:35 final size:37
Alignment explanation
Indices: 160943--161035 Score: 145
Period size: 38 Copynumber: 2.5 Consensus size: 37
160933 TATAAGACAT
* *
160943 ATGATAGGTCCTTCGGGACAC-A-GACATCCTTTGGG
1 ATGATAGGTCCTTCGGGACACAATGACATCCTTCGAG
160978 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGAG
1 ATGATAGGTCCTTCGGGACACA-ATGACATCCTTCGAG
161016 ATGATAGGTCCTTCGGGACA
1 ATGATAGGTCCTTCGGGACA
161036 TTTATATGAG
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
35 21 0.40
37 1 0.02
38 31 0.58
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (37 bp):
ATGATAGGTCCTTCGGGACACAATGACATCCTTCGAG
Found at i:162842 original size:12 final size:11
Alignment explanation
Indices: 162824--162916 Score: 69
Period size: 12 Copynumber: 8.0 Consensus size: 11
162814 ATTGGATTTC
162824 TTTTCTTTTTT
1 TTTTCTTTTTT
*
162835 TATTTCTTTCTT
1 T-TTTCTTTTTT
* * *
162847 CTCTCTTTTCTC
1 TTTTCTTTT-TT
162859 TTTTCTTTTTT
1 TTTTCTTTTTT
*
162870 CTTTTTTTTTATT
1 -TTTTCTTTT-TT
*
162883 TTTTCTTCTCTT
1 TTTTCTT-TTTT
*
162895 TTTCCTTTTTT
1 TTTTCTTTTTT
*
162906 ATTTCTTTTTT
1 TTTTCTTTTTT
162917 CCTATTTTAT
Statistics
Matches: 62, Mismatches: 15, Indels: 10
0.71 0.17 0.11
Matches are distributed among these distances:
11 20 0.32
12 39 0.63
13 3 0.05
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:162864 original size:40 final size:37
Alignment explanation
Indices: 162820--162916 Score: 113
Period size: 44 Copynumber: 2.4 Consensus size: 37
162810 AAGTATTGGA
162820 TTTCTTTTCTTTTTTTATTTCTTTCTTCTCTCTTTTCTCT
1 TTTCTTTTCTTTTTTTATTT-TTTCTTCTCT-TTTTC-CT
162860 TTTCTTTTTTCTTTTTTTTTATTTTTTCTTCTCTTTTTCCT
1 TTTC--TTTTC--TTTTTTTATTTTTTCTTCTCTTTTTCCT
*
162901 TTTTTATTTCTTTTTT
1 TTTCT-TTTCTTTTTT
162917 CCTATTTTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 12
0.80 0.02 0.19
Matches are distributed among these distances:
38 6 0.12
39 1 0.02
40 8 0.16
41 5 0.10
42 10 0.20
43 10 0.20
44 11 0.22
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (37 bp):
TTTCTTTTCTTTTTTTATTTTTTCTTCTCTTTTTCCT
Found at i:162875 original size:7 final size:7
Alignment explanation
Indices: 162824--162917 Score: 56
Period size: 7 Copynumber: 13.7 Consensus size: 7
162814 ATTGGATTTC
162824 TTTTC-T
1 TTTTCTT
162830 TTTT-TT
1 TTTTCTT
*
162836 ATTTCTT
1 TTTTCTT
*
162843 TCTTCTCTC
1 T-TT-TCTT
*
162852 TTTTCTC
1 TTTTCTT
162859 TTTTCTT
1 TTTTCTT
162866 TTTTCTT
1 TTTTCTT
162873 TTTT-TT
1 TTTTCTT
162879 TATTT-TT
1 T-TTTCTT
*
162886 TCTTCTCT
1 TTTTCT-T
*
162894 TTTTC-C
1 TTTTCTT
162900 TTTT-TT
1 TTTTCTT
*
162906 ATTTCTT
1 TTTTCTT
162913 TTTTC
1 TTTTC
162918 CTATTTTATG
Statistics
Matches: 69, Mismatches: 10, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
6 20 0.29
7 36 0.52
8 9 0.13
9 4 0.06
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTCTT
Found at i:162889 original size:43 final size:41
Alignment explanation
Indices: 162829--162916 Score: 133
Period size: 40 Copynumber: 2.1 Consensus size: 41
162819 ATTTCTTTTC
*
162829 TTTTTTTATTTCTTTCTTCTCTCTTTTCTCTTTTCTTTTTTCTT
1 TTTTTTTATTTCTTTCTTCTCT-TTTTC-CTTTT-TTATTTCTT
162873 TTTTTTTATTT-TTTCTTCTCTTTTTCCTTTTTTATTTCTT
1 TTTTTTTATTTCTTTCTTCTCTTTTTCCTTTTTTATTTCTT
162913 TTTT
1 TTTT
162917 CCTATTTTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
40 12 0.28
41 5 0.12
42 5 0.12
43 10 0.23
44 11 0.26
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (41 bp):
TTTTTTTATTTCTTTCTTCTCTTTTTCCTTTTTTATTTCTT
Found at i:162919 original size:19 final size:18
Alignment explanation
Indices: 162819--162917 Score: 80
Period size: 17 Copynumber: 5.7 Consensus size: 18
162809 GAAGTATTGG
*
162819 ATTTCTTTTCT-TTTTTT
1 ATTTCTTTTTTCTTTTTT
* * *
162836 ATTTCTTTCTTC-TCTCT
1 ATTTCTTTTTTCTTTTTT
*
162853 -TTTCTCTTTTCTTTTTT
1 ATTTCTTTTTTCTTTTTT
* *
162870 CTTT-TTTTTTATTTTTT
1 ATTTCTTTTTTCTTTTTT
* *
162887 CTTCTCTTTTTCCTTTTTT
1 ATT-TCTTTTTTCTTTTTT
162906 ATTTCTTTTTTC
1 ATTTCTTTTTTC
162918 CTATTTTATG
Statistics
Matches: 63, Mismatches: 14, Indels: 9
0.73 0.16 0.10
Matches are distributed among these distances:
16 9 0.14
17 29 0.46
18 12 0.19
19 13 0.21
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (18 bp):
ATTTCTTTTTTCTTTTTT
Found at i:162924 original size:19 final size:19
Alignment explanation
Indices: 162867--162926 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
162857 TCTTTTCTTT
** *
162867 TTTCTTTTTTTTTATTTTT
1 TTTCTTTTTTCCTATTTTA
*
162886 TCTTCTCTTTTTCCTTTTTTA
1 T-TTCT-TTTTTCCTATTTTA
162907 TTTCTTTTTTCCTATTTTA
1 TTTCTTTTTTCCTATTTTA
162926 T
1 T
162927 GTATTTTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
19 15 0.44
20 8 0.24
21 11 0.32
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTCTTTTTTCCTATTTTA
Found at i:162933 original size:19 final size:19
Alignment explanation
Indices: 162893--162934 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
162883 TTTTCTTCTC
* * *
162893 TTTTTCCTTTTTTATTTCT
1 TTTTTCCTATTTTATGTAT
162912 TTTTTCCTATTTTATGTAT
1 TTTTTCCTATTTTATGTAT
162931 TTTT
1 TTTT
162935 ATATCTTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.10, C:0.12, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTTCCTATTTTATGTAT
Found at i:166687 original size:17 final size:16
Alignment explanation
Indices: 166659--166703 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
166649 ATTAAACAAT
166659 TAAAAAA-ATAAAATA
1 TAAAAAACATAAAATA
166674 TAAAAAACAGTAAAATA
1 TAAAAAACA-TAAAATA
166691 -AAAACAACATAAA
1 TAAAA-AACATAAA
166704 TTAAATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 7 0.26
16 9 0.33
17 11 0.41
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.16
Consensus pattern (16 bp):
TAAAAAACATAAAATA
Found at i:166703 original size:16 final size:15
Alignment explanation
Indices: 166660--166708 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 15
166650 TTAAACAATT
166660 AAAAAA-ATAAAATA
1 AAAAAACATAAAATA
166674 TAAAAAACAGTAAAATA
1 -AAAAAACA-TAAAATA
*
166691 AAAACAACATAAATTA
1 AAAA-AACATAAAATA
166707 AA
1 AA
166709 TTAAAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 6 0.20
16 13 0.43
17 11 0.37
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.16
Consensus pattern (15 bp):
AAAAAACATAAAATA
Found at i:166713 original size:21 final size:21
Alignment explanation
Indices: 166684--166724 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
166674 TAAAAAACAG
166684 TAAAATAAAA-ACAACATAAAT
1 TAAAATAAAATA-AACATAAAT
*
166705 TAAATTAAAATAAACATAAA
1 TAAAATAAAATAAACATAAA
166725 ATATAAGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (21 bp):
TAAAATAAAATAAACATAAAT
Found at i:167220 original size:8 final size:8
Alignment explanation
Indices: 167200--167229 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
167190 AAACGTATTA
167200 TTTTTTAT
1 TTTTTTAT
167208 ATTTTTTAT
1 -TTTTTTAT
167217 TTTTTTAT
1 TTTTTTAT
167225 TTTTT
1 TTTTT
167230 AGAGAGAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTAT
Found at i:168666 original size:35 final size:35
Alignment explanation
Indices: 168623--168693 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
168613 CTACCTCCAT
*
168623 TATAAATATAAAGAATATATTTAAAAGATATCTTA
1 TATAAATATAAAGAATAAATTTAAAAGATATCTTA
*
168658 TATAAATATAAAGAATAAATTTAAAAGATGTCTTA
1 TATAAATATAAAGAATAAATTTAAAAGATATCTTA
168693 T
1 T
168694 GTATCCCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.37
Consensus pattern (35 bp):
TATAAATATAAAGAATAAATTTAAAAGATATCTTA
Found at i:172182 original size:14 final size:14
Alignment explanation
Indices: 172163--172191 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
172153 CGGTAAACAG
172163 TCTTTTCACGGCCC
1 TCTTTTCACGGCCC
172177 TCTTTTCACGGCCC
1 TCTTTTCACGGCCC
172191 T
1 T
172192 TAGTAAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.41, G:0.14, T:0.38
Consensus pattern (14 bp):
TCTTTTCACGGCCC
Found at i:172662 original size:12 final size:13
Alignment explanation
Indices: 172647--172680 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
172637 TGAAGAGTAA
172647 TGAACAGTAAC-G
1 TGAACAGTAACTG
*
172659 TGAACAGTACCTG
1 TGAACAGTAACTG
172672 TGAACAGTA
1 TGAACAGTA
172681 CCGAATGCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.21
Consensus pattern (13 bp):
TGAACAGTAACTG
Found at i:172676 original size:13 final size:12
Alignment explanation
Indices: 172647--172683 Score: 56
Period size: 13 Copynumber: 3.0 Consensus size: 12
172637 TGAAGAGTAA
*
172647 TGAACAGTAACG
1 TGAACAGTACCG
172659 TGAACAGTACCTG
1 TGAACAGTACC-G
172672 TGAACAGTACCG
1 TGAACAGTACCG
172684 AATGCTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (12 bp):
TGAACAGTACCG
Done.