Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007844.1 Hibiscus syriacus cultivar Beakdansim tig00110198_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: 2094103
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 7
Found at i:3054 original size:20 final size:20
Alignment explanation
Indices: 3017--3056 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
3007 ATGGAATCTG
*
3017 CTTTTCTTAATAAAAATAAT
1 CTTTTATTAATAAAAATAAT
* *
3037 CTTTTATTATTAATAATAAT
1 CTTTTATTAATAAAAATAAT
3057 AATAATTTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.50
Consensus pattern (20 bp):
CTTTTATTAATAAAAATAAT
Found at i:4314 original size:12 final size:12
Alignment explanation
Indices: 4301--4343 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
4291 GTAATGAATT
*
4301 ATTAATTTAATT
1 ATTAATTTAATA
*
4313 ATTAATTTACTA
1 ATTAATTTAATA
4325 ATT-A-TTAATA
1 ATTAATTTAATA
4335 ATTAATTTA
1 ATTAATTTA
4344 CTATATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 8 0.31
11 2 0.08
12 16 0.62
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (12 bp):
ATTAATTTAATA
Found at i:4333 original size:22 final size:22
Alignment explanation
Indices: 4306--4363 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 22
4296 GAATTATTAA
4306 TTTAATTATTAATTTACTA-AT
1 TTTAATTATTAATTTACTATAT
*
4327 TATTAATAATTAATTTACTATAT
1 T-TTAATTATTAATTTACTATAT
4350 TTTATATCTATTAA
1 TTTA-AT-TATTAA
4364 AAGACAAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 1 0.03
22 20 0.65
23 5 0.16
24 5 0.16
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTAATTATTAATTTACTATAT
Found at i:18631 original size:21 final size:20
Alignment explanation
Indices: 18591--18632 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
18581 TTAAAATATT
*
18591 AAAAAATAATATTTTAAATA
1 AAAAAATAATATTATAAATA
*
18611 AAAATAATAATATTATCAATA
1 AAAA-AATAATATTATAAATA
18632 A
1 A
18633 TTTTTATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAAATAATATTATAAATA
Found at i:19287 original size:33 final size:33
Alignment explanation
Indices: 19240--19313 Score: 130
Period size: 33 Copynumber: 2.2 Consensus size: 33
19230 ATTTTAGTGA
*
19240 ATAACAGTTAATTCAAAAAGGTAATTTATAGCT
1 ATAATAGTTAATTCAAAAAGGTAATTTATAGCT
*
19273 GTAATAGTTAATTCAAAAAGGTAATTTATAGCT
1 ATAATAGTTAATTCAAAAAGGTAATTTATAGCT
19306 ATAATAGT
1 ATAATAGT
19314 GTTCGATAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.35
Consensus pattern (33 bp):
ATAATAGTTAATTCAAAAAGGTAATTTATAGCT
Found at i:35694 original size:101 final size:101
Alignment explanation
Indices: 35504--35715 Score: 363
Period size: 101 Copynumber: 2.1 Consensus size: 101
35494 TGCAGCATTG
* * *
35504 CAAACTAAACTCCTTGAATTCACCAAACATCCTACGAAGCCTAACAACCTGTTCTCTAAGATTTT
1 CAAAGTAAACTCATTGAATTCACCAAACACCCTACGAAGCCTAACAACCTGTTCTCTAAGATTTT
*
35569 GCTAGGTAGCAAGGCTGGAGAAAACTTGTAAAGCTA
66 GCTAGGTAGCAAGGATGGAGAAAACTTGTAAAGCTA
35605 CAAAGTAAACTCATTGAATTCACCAAACACCCTACGAAGCCTAACAACCTGTTCTCTAAGATTTT
1 CAAAGTAAACTCATTGAATTCACCAAACACCCTACGAAGCCTAACAACCTGTTCTCTAAGATTTT
35670 GCTAGGTAGCAAGGATGG-GAAAAACTTGTAAAGCTA
66 GCTAGGTAGCAAGGATGGAG-AAAACTTGTAAAGCTA
*
35706 CGAAGTAAAC
1 CAAAGTAAAC
35716 ATATAATACG
Statistics
Matches: 105, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
100 1 0.01
101 104 0.99
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.24
Consensus pattern (101 bp):
CAAAGTAAACTCATTGAATTCACCAAACACCCTACGAAGCCTAACAACCTGTTCTCTAAGATTTT
GCTAGGTAGCAAGGATGGAGAAAACTTGTAAAGCTA
Found at i:37020 original size:20 final size:20
Alignment explanation
Indices: 36981--37020 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
36971 GTAATCCTAT
**
36981 TCACTGGTAATCTTTTATTC
1 TCACTGGTAATCTTACATTC
37001 TCACTGGTAATCTTACATTC
1 TCACTGGTAATCTTACATTC
37021 CGTGAACCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.45
Consensus pattern (20 bp):
TCACTGGTAATCTTACATTC
Found at i:37555 original size:14 final size:14
Alignment explanation
Indices: 37536--37563 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
37526 TCATTCACCA
37536 TTGTTTATCTTTTT
1 TTGTTTATCTTTTT
37550 TTGTTTATCTTTTT
1 TTGTTTATCTTTTT
37564 CGTTATTGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.79
Consensus pattern (14 bp):
TTGTTTATCTTTTT
Found at i:39301 original size:35 final size:36
Alignment explanation
Indices: 39210--39306 Score: 83
Period size: 35 Copynumber: 2.8 Consensus size: 36
39200 TCAATCATTG
* **
39210 AATTTATTAATATATTTGTATTTATT-ATGTATATA
1 AATTTATTAATATATTTATATTTATTAAAATATATA
* * ***
39245 AATCT-TTAATTAAAGCGATATTTATTAAAATAT-TA
1 AATTTATTAA-TATATTTATATTTATTAAAATATATA
*
39280 AATTTATTAATATATTTATATTAATTA
1 AATTTATTAATATATTTATATTTATTA
39307 TGCATGTAGT
Statistics
Matches: 45, Mismatches: 14, Indels: 6
0.69 0.22 0.09
Matches are distributed among these distances:
34 4 0.09
35 33 0.73
36 8 0.18
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (36 bp):
AATTTATTAATATATTTATATTTATTAAAATATATA
Found at i:42276 original size:2 final size:2
Alignment explanation
Indices: 42271--42297 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
42261 ACGCGCGCGC
42271 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 A
42298 CACACGGGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45550 original size:22 final size:21
Alignment explanation
Indices: 45522--45582 Score: 104
Period size: 22 Copynumber: 2.8 Consensus size: 21
45512 TATTACACTA
45522 TTAGTATATAATATATAATTTT
1 TTAGTATATAATATATAA-TTT
45544 TTAGTATATAATATATAATTT
1 TTAGTATATAATATATAATTT
45565 TTAGTATATATATATATA
1 TTAGTATATA-ATATATA
45583 CACACATTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.34
22 25 0.66
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (21 bp):
TTAGTATATAATATATAATTT
Found at i:46610 original size:12 final size:13
Alignment explanation
Indices: 46590--46627 Score: 62
Period size: 12 Copynumber: 3.1 Consensus size: 13
46580 GTTCATGAAC
46590 AAGCTCGTTTATG
1 AAGCTCGTTTATG
46603 AA-CTCGTTTAT-
1 AAGCTCGTTTATG
46614 AAGCTCGTTTATG
1 AAGCTCGTTTATG
46627 A
1 A
46628 GATCATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 2 0.09
12 18 0.78
13 3 0.13
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.39
Consensus pattern (13 bp):
AAGCTCGTTTATG
Found at i:46636 original size:24 final size:24
Alignment explanation
Indices: 46590--46637 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
46580 GTTCATGAAC
*
46590 AAGCTCGTTTATGAACTCGTTTAT
1 AAGCTCGTTTATGAACTCATTTAT
46614 AAGCTCGTTTATGAGA-TCATTTAT
1 AAGCTCGTTTATGA-ACTCATTTAT
46638 CAATTCATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.42
Consensus pattern (24 bp):
AAGCTCGTTTATGAACTCATTTAT
Found at i:47083 original size:17 final size:18
Alignment explanation
Indices: 47061--47100 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
47051 TTACACTCCT
47061 ACCTTAAAC-CCGATCCA
1 ACCTTAAACTCCGATCCA
*
47078 ACCTT-ACCTCCGATCCA
1 ACCTTAAACTCCGATCCA
47095 ACCTTA
1 ACCTTA
47101 CCTCATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.30, C:0.42, G:0.05, T:0.23
Consensus pattern (18 bp):
ACCTTAAACTCCGATCCA
Found at i:47101 original size:17 final size:17
Alignment explanation
Indices: 47070--47104 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
47060 TACCTTAAAC
47070 CCGATCCAACCTTACCT
1 CCGATCCAACCTTACCT
47087 CCGATCCAACCTTACCT
1 CCGATCCAACCTTACCT
47104 C
1 C
47105 ATTTAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.49, G:0.06, T:0.23
Consensus pattern (17 bp):
CCGATCCAACCTTACCT
Found at i:47758 original size:10 final size:10
Alignment explanation
Indices: 47743--47770 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
47733 GAAAACACGA
47743 TGCTTCTCGC
1 TGCTTCTCGC
47753 TGCTTCTCGC
1 TGCTTCTCGC
47763 TGCTTCTC
1 TGCTTCTC
47771 TGGCCTCTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.39, G:0.18, T:0.43
Consensus pattern (10 bp):
TGCTTCTCGC
Found at i:49448 original size:21 final size:21
Alignment explanation
Indices: 49422--49466 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
49412 GATTTCTGGG
* *
49422 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
49443 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
49464 CAA
1 CAA
49467 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:50074 original size:18 final size:18
Alignment explanation
Indices: 50051--50085 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
50041 CTAGGAGATT
50051 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
50069 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
50086 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:50417 original size:2 final size:2
Alignment explanation
Indices: 50410--50435 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
50400 GAACATGTGA
50410 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
50436 CTAAGAGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51020 original size:32 final size:32
Alignment explanation
Indices: 50979--51075 Score: 128
Period size: 32 Copynumber: 3.1 Consensus size: 32
50969 GAGTCGAGGG
50979 TTTACCTATGTTCTACGGAACATATGGACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
*
51011 TTTACCTATG-TCTTTC-GAGACATATGGACAG-
1 TTTACCTATGTTC-TACGGA-ACATATGGACAGT
* *
51042 TATACCTATGTTCTAAGGAACATATGGACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
51074 TT
1 TT
51076 ACCGAGGATC
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
31 26 0.47
32 29 0.53
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (32 bp):
TTTACCTATGTTCTACGGAACATATGGACAGT
Found at i:51051 original size:31 final size:31
Alignment explanation
Indices: 50978--51078 Score: 125
Period size: 31 Copynumber: 3.2 Consensus size: 31
50968 AGAGTCGAGG
50978 GTTTACCTATGTTCT-ACGGAACATATGGACA
1 GTTTACCTATGTTCTAAC-GAACATATGGACA
**
51009 GTTTTACCTATG-TCTTTCGAGACATATGGACA
1 G-TTTACCTATGTTCTAACGA-ACATATGGACA
* *
51041 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTAACGAACATATGGACA
51072 GTTTACC
1 GTTTACC
51079 GAGGATCTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
31 32 0.53
32 28 0.47
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (31 bp):
GTTTACCTATGTTCTAACGAACATATGGACA
Found at i:51110 original size:30 final size:30
Alignment explanation
Indices: 51066--51159 Score: 136
Period size: 30 Copynumber: 3.1 Consensus size: 30
51056 AAGGAACATA
51066 TGGACAGTTTACCGAGGATCTTTATGACCTC
1 TGGACAG-TTACCGAGGATCTTTATGACCTC
*
51097 TGGACAGTTACCGATGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* * *
51127 TGGATAGTTACCG-GGGTCTTTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
51156 TGGA
1 TGGA
51160 TAGGTCCTTC
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
29 17 0.29
30 34 0.59
31 7 0.12
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.33
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:65840 original size:2 final size:2
Alignment explanation
Indices: 65833--65873 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
65823 ACTGAATTTA
65833 AT AT AT 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 AT AT AT A
65874 CAAATATGTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:73439 original size:47 final size:47
Alignment explanation
Indices: 73379--73473 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
73369 GTTCTGGACT
73379 GATTTGCATTGTATCCCAAGGTGCTAATGAGGCTTCCCCTGGATATC
1 GATTTGCATTGTATCCCAAGGTGCTAATGAGGCTTCCCCTGGATATC
73426 GATTTGCATTGTATCCCAAGGTGCTAATGAGGCTTCCCCTGGATATC
1 GATTTGCATTGTATCCCAAGGTGCTAATGAGGCTTCCCCTGGATATC
73473 G
1 G
73474 CTAGGCGATA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.32
Consensus pattern (47 bp):
GATTTGCATTGTATCCCAAGGTGCTAATGAGGCTTCCCCTGGATATC
Found at i:74527 original size:18 final size:18
Alignment explanation
Indices: 74504--74544 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
74494 GCCCTGTCCA
74504 TGACCATTTCGCTGCTCC
1 TGACCATTTCGCTGCTCC
*
74522 TGACCATTTCGCTGTTCC
1 TGACCATTTCGCTGCTCC
74540 TGACC
1 TGACC
74545 CCGAAAGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.12, C:0.37, G:0.17, T:0.34
Consensus pattern (18 bp):
TGACCATTTCGCTGCTCC
Found at i:79095 original size:51 final size:52
Alignment explanation
Indices: 79019--79120 Score: 161
Period size: 51 Copynumber: 2.0 Consensus size: 52
79009 TTTGAATAAG
* * *
79019 TTTTTTAAACTGAAATTATAATTATATCAAGTCATATTAAATGTTTGATTTTT
1 TTTTTTAAACTG-AATTATAATTATATCAAGTCACATTAAATATTTAATTTTT
79072 TTTTTTAAACTG-ATTATAATTATATCAAGTCACATTAAATATTTAATTT
1 TTTTTTAAACTGAATTATAATTATATCAAGTCACATTAAATATTTAATTT
79121 AATTTTATCG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 34 0.74
53 12 0.26
ACGTcount: A:0.37, C:0.07, G:0.06, T:0.50
Consensus pattern (52 bp):
TTTTTTAAACTGAATTATAATTATATCAAGTCACATTAAATATTTAATTTTT
Found at i:83887 original size:13 final size:13
Alignment explanation
Indices: 83869--83893 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
83859 CCGCGTTACT
83869 TCTCTCTTTCTCC
1 TCTCTCTTTCTCC
83882 TCTCTCTTTCTC
1 TCTCTCTTTCTC
83894 TCTATATTTA
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:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (13 bp):
TCTCTCTTTCTCC
Found at i:85757 original size:20 final size:20
Alignment explanation
Indices: 85734--85773 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
85724 TTGGTAATTC
* * *
85734 AAGTACTAATTAGGTATAAA
1 AAGTACCAAATAGATATAAA
85754 AAGTACCAAATAGATATAAA
1 AAGTACCAAATAGATATAAA
85774 TTGAAAATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.25
Consensus pattern (20 bp):
AAGTACCAAATAGATATAAA
Found at i:88517 original size:14 final size:14
Alignment explanation
Indices: 88498--88526 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
88488 AAATAATAAG
88498 AATAACTTGAGAGT
1 AATAACTTGAGAGT
88512 AATAACTTGAGAGT
1 AATAACTTGAGAGT
88526 A
1 A
88527 TTATATAAGT
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:0.45, C:0.07, G:0.21, T:0.28
Consensus pattern (14 bp):
AATAACTTGAGAGT
Found at i:88903 original size:29 final size:28
Alignment explanation
Indices: 88808--88904 Score: 67
Period size: 29 Copynumber: 3.4 Consensus size: 28
88798 TACAAATTGT
*
88808 TCCCTAAAATTTTAAATATTTTAATTT-A
1 TCCCTAAACTTTT-AATATTTTAATTTCA
* *
88836 GTCCCTAAAC-TATAACTATCATTCTAAATTC-
1 -TCCCTAAACTTTTAA-TAT--TT-TAATTTCA
*
88867 TCTC-AAACTTTTGAATATTTTAATTTCA
1 TCCCTAAACTTTT-AATATTTTAATTTCA
88895 TCCCTAAACT
1 TCCCTAAACT
88905 ATGACATTCA
Statistics
Matches: 52, Mismatches: 7, Indels: 18
0.68 0.09 0.23
Matches are distributed among these distances:
27 8 0.15
28 10 0.19
29 17 0.33
30 10 0.19
31 7 0.13
ACGTcount: A:0.35, C:0.20, G:0.02, T:0.43
Consensus pattern (28 bp):
TCCCTAAACTTTTAATATTTTAATTTCA
Found at i:94449 original size:60 final size:58
Alignment explanation
Indices: 94383--94515 Score: 160
Period size: 60 Copynumber: 2.2 Consensus size: 58
94373 ATTTAAAGAC
* * * *
94383 TAATTTAAAATGAAGGTCATAATTT-AGAGATAAAATTAAAATGTTCAAAAGTTTGAGGAT
1 TAATTTAAAATGAA-GTAATAATTTAAGA-ATAAAATTAAAATATT-AAAAGTTTAAGAAT
* * *
94443 TAATTTAAAACGATAGTAATTATTTAAGAATAAAATTAAAATATTAAAAGTTTAATAAT
1 TAATTTAAAATGA-AGTAATAATTTAAGAATAAAATTAAAATATTAAAAGTTTAAGAAT
94502 TAATTTAAAATGAA
1 TAATTTAAAATGAA
94516 TATCATACTT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
58 1 0.02
59 23 0.37
60 35 0.56
61 4 0.06
ACGTcount: A:0.51, C:0.02, G:0.11, T:0.35
Consensus pattern (58 bp):
TAATTTAAAATGAAGTAATAATTTAAGAATAAAATTAAAATATTAAAAGTTTAAGAAT
Found at i:94848 original size:22 final size:22
Alignment explanation
Indices: 94821--94863 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
94811 AGAACTTTAA
*
94821 TTTTTAAAATTAAATTTAATAG
1 TTTTTAAAATTAAATATAATAG
* *
94843 TTTTTATAATTATATATAATA
1 TTTTTAAAATTAAATATAATA
94864 CTTGAATTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TTTTTAAAATTAAATATAATAG
Found at i:101281 original size:25 final size:23
Alignment explanation
Indices: 101245--101316 Score: 101
Period size: 25 Copynumber: 3.1 Consensus size: 23
101235 GATTCGATAC
101245 GAAAGAAGAAAAGTGAAGAGAAA
1 GAAAGAAGAAAAGTGAAGAGAAA
*
101268 GAAAGTGAGGAAAAGTGAAGAGAAA
1 GAAA--GAAGAAAAGTGAAGAGAAA
*
101293 G-AAGAAGAAAAGTGAAGAAAAA
1 GAAAGAAGAAAAGTGAAGAGAAA
101315 GA
1 GA
101317 TGGGGAATGG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
22 18 0.42
23 4 0.09
24 2 0.05
25 19 0.44
ACGTcount: A:0.62, C:0.00, G:0.32, T:0.06
Consensus pattern (23 bp):
GAAAGAAGAAAAGTGAAGAGAAA
Found at i:101282 original size:10 final size:10
Alignment explanation
Indices: 101269--101313 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 10
101259 GAAGAGAAAG
*
101269 AAAGTGAGGA
1 AAAGTGAAGA
101279 AAAGTGAAGA
1 AAAGTGAAGA
*
101289 GAAAGAAGAAGA
1 -AAAG-TGAAGA
101301 AAAGTGAAGA
1 AAAGTGAAGA
101311 AAA
1 AAA
101314 AGATGGGGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 17 0.57
11 8 0.27
12 5 0.17
ACGTcount: A:0.62, C:0.00, G:0.31, T:0.07
Consensus pattern (10 bp):
AAAGTGAAGA
Found at i:101819 original size:33 final size:32
Alignment explanation
Indices: 101748--101821 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 32
101738 AAACTTCATG
*
101748 TTTTAAAATTATAAAATTATAAAATGTATATA
1 TTTTAAAATTAAAAAATTATAAAATGTATATA
101780 TGTTTAAAATTAAAAAA-TATATAAAT-TAATATTA
1 T-TTTAAAATTAAAAAATTATA-AAATGT-ATA-TA
101814 TTTTAAAA
1 TTTTAAAA
101822 AATATCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
32 6 0.16
33 28 0.76
34 3 0.08
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (32 bp):
TTTTAAAATTAAAAAATTATAAAATGTATATA
Found at i:107457 original size:45 final size:45
Alignment explanation
Indices: 107401--107486 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
107391 TAGTATTCCG
* *
107401 AAGGCTGTGGAATAGCAGCTTCTGCTGTTCCGGAGGCTGCGCCCA
1 AAGGATGTGGAATAGCAGCTCCTGCTGTTCCGGAGGCTGCGCCCA
107446 AAGGATGTGGAATAGCAGCTCCTGCTGTTCCGGAGGCTGCG
1 AAGGATGTGGAATAGCAGCTCCTGCTGTTCCGGAGGCTGCG
107487 AAGCCTCAGC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.19, C:0.24, G:0.35, T:0.22
Consensus pattern (45 bp):
AAGGATGTGGAATAGCAGCTCCTGCTGTTCCGGAGGCTGCGCCCA
Found at i:113673 original size:21 final size:21
Alignment explanation
Indices: 113649--113689 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
113639 AATTTAGTCA
113649 TTTAACTTTACATTTTATTCC
1 TTTAACTTTACATTTTATTCC
*
113670 TTTAACTTTGCATTTTATTC
1 TTTAACTTTACATTTTATTC
113690 AACTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.22, C:0.17, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTAACTTTACATTTTATTCC
Found at i:115923 original size:182 final size:181
Alignment explanation
Indices: 115603--116051 Score: 670
Period size: 182 Copynumber: 2.5 Consensus size: 181
115593 TTACTACCGA
*
115603 TTTTGTCATTTCGAGACTGATTTTGTCATATTTTTACATGTTATATTGTTATGGATCA-ATACA-
1 TTTTGTCATTTCGAGACTGGTTTTGTCATATTTTTAC-TGTTATATTGTTATGGAT-AGATACAT
* * * *
115666 TTTTATAAAGTATCGACATTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTCTAAAAGTGTCG
64 TTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAATTCTAAAAGTGTCG
* **
115731 ATACTTATAATAAAGTATCGACACTTTCAACATATCCGATAGCTTTTTATCGG
129 ATACTTATAATAAAGTATCGACACTATCAACATATCCGATAGCGCTTTATCGG
115784 TTTTGTCATTTCGAGACTGGTTTTGTCATATTTTTATCTGTTATATTGTTATGGATAGATACATT
1 TTTTGTCATTTCGAGACTGGTTTTGTCATATTTTTA-CTGTTATATTGTTATGGATAGATACATT
*
115849 TTTATAAAGTATCGATACTTTATTAGCGCTATAACTTATTCTCTTTTAAATTCTAAAAGTGTCGA
65 TTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAATTCTAAAAGTGTCGA
* * * *
115914 TACTTATAATAAAGTATCGATACTATCAGCATATCCGGTAGCGCTTTATCTG
130 TACTTATAATAAAGTATCGACACTATCAACATATCCGATAGCGCTTTATCGG
** * * *
115966 TTTTGTCATTTATAGA-TCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATAGATCGATACAT
1 TTTTGTCATTTCGAGACT-GGTTTTGTCATATTTTTA-CTGTTATATTGTTATGGATAGATACAT
116030 TTTTATAAAGTATCGACACTTT
64 TTTTATAAAGTATCGACACTTT
116052 CAATATATCT
Statistics
Matches: 244, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
180 1 0.00
181 59 0.24
182 184 0.75
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.45
Consensus pattern (181 bp):
TTTTGTCATTTCGAGACTGGTTTTGTCATATTTTTACTGTTATATTGTTATGGATAGATACATTT
TTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCTCTTTTAAATTCTAAAAGTGTCGAT
ACTTATAATAAAGTATCGACACTATCAACATATCCGATAGCGCTTTATCGG
Found at i:116159 original size:111 final size:112
Alignment explanation
Indices: 115922--116605 Score: 1050
Period size: 112 Copynumber: 6.1 Consensus size: 112
115912 GATACTTATA
* * ** * * *
115922 ATAAAGTATCGATACTATCAGCATATCCGGTAGCGCTTTATCTGTTTTGTCATTTATAGATCGGT
1 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
115987 TTTGTCATTTTTTTACCTGTTATATTGTTATAGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* * *
116034 ATAAAGTATCGACACTTTCAATATATCTTGTAGCGTTTTACTTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
116099 TTTGTCA-TTGTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* * * * *
116145 ATAAAGTATAGACACTTTCAATATATCCGGTAGTGCTTTACCTATTTTGTCATTTATAGACCGAT
1 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
116210 TTTATCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
** *
116257 ATAAAGTATCGACACTTTCAATATATCCAGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
1 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
116322 TTTGTCATTTTTTTACCTGTTATATTGTTATGAATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
* * * *
116369 ATAAAATATGGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAAATCGGT
1 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * * * * *
116434 TTTGCCA-TTTTTTACATGTTATATTATTATGTATCAATATATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
116480 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
116545 TTTGTCA-TTTTTTACCTGTTATATTGTTATGGATCGATATATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
116591 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
116606 AAACCGACAA
Statistics
Matches: 521, Mismatches: 50, Indels: 3
0.91 0.09 0.01
Matches are distributed among these distances:
111 251 0.48
112 270 0.52
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
Found at i:116310 original size:223 final size:223
Alignment explanation
Indices: 115944--116605 Score: 1065
Period size: 223 Copynumber: 3.0 Consensus size: 223
115934 TACTATCAGC
*
115944 ATATCCGGTAGCGCTTTATCTGTTTTGTCATTTATAGATCGGTTTTGTCATTTTTTTACCTGTTA
1 ATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGATCGGTTTTGTCATTTTTTTACCTGTTA
* * *
116009 TATTGTTATAGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCTTGTAGCGTTTTA
66 TATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCTAGTAGCGCTTTA
* *
116074 CTTGTTTTGTCATTTATAGACCGGTTTTGTCATTGTTTACCTGTTATATTGTTATGGATCGATAC
131 CCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTACCTGTTATATTGTTATGGATCGATAC
116139 ATTTTTATAAAGTATAGACACTTTCAAT
196 ATTTTTATAAAGTATAGACACTTTCAAT
* * * * *
116167 ATATCCGGTAGTGCTTTACCTATTTTGTCATTTATAGACCGATTTTATCATTTTTTTACCTGTTA
1 ATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGATCGGTTTTGTCATTTTTTTACCTGTTA
*
116232 TATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCAGTAGCGCTTTA
66 TATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCTAGTAGCGCTTTA
* *
116297 CCTGTTTTGTCATTTATAGACCGATTTTGTCATTTTTTTACCTGTTATATTGTTATGAATCGATA
131 CCTGTTTTGTCATTTATAGACCGGTTTTGTCA-TTTTTTACCTGTTATATTGTTATGGATCGATA
* *
116362 CATTTTTATAAAATATGGACACTTTCAAT
195 CATTTTTATAAAGTATAGACACTTTCAAT
* * * *
116391 ATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAAATCGGTTTTGCCA-TTTTTTACATGTTA
1 ATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGATCGGTTTTGTCATTTTTTTACCTGTTA
* * * * *
116455 TATTATTATGTATCAATATATTTTTATAAAGTATCGACACTTTCAATATATCTGGTAGCGCTTTA
66 TATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCTAGTAGCGCTTTA
*
116520 CCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTACCTGTTATATTGTTATGGATCGATAT
131 CCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTACCTGTTATATTGTTATGGATCGATAC
*
116585 ATTTTTATAAAGTATCGACAC
196 ATTTTTATAAAGTATAGACAC
116606 AAACCGACAA
Statistics
Matches: 402, Mismatches: 36, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
222 50 0.12
223 253 0.63
224 99 0.25
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.47
Consensus pattern (223 bp):
ATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGATCGGTTTTGTCATTTTTTTACCTGTTA
TATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCTAGTAGCGCTTTA
CCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTACCTGTTATATTGTTATGGATCGATAC
ATTTTTATAAAGTATAGACACTTTCAAT
Found at i:116532 original size:335 final size:334
Alignment explanation
Indices: 115922--116605 Score: 1082
Period size: 335 Copynumber: 2.0 Consensus size: 334
115912 GATACTTATA
* * * * * *
115922 ATAAAGTATCGATACTATCAGCATATCCGGTAGCGCTTTATCTGTTTTGTCATTTATAGATCGGT
1 ATAAAGTATCGACACTATCAACATATCCAGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
*
115987 TTTGTCATTTTTTTACCTGTTATATTGTTATAGATCGATACATTTTTATAAAGTATCGACACTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATAGATCGATACATTTTTATAAAATATCGACACTTT
* * * * * *
116052 CAATATATCTTGTAGCGTTTTACTTGTTTTGTCATTTATAGACCGGTTTTGTCATTGTTTACCTG
131 CAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAAACCGGTTTTGCCATTGTTTACATG
* * *
116117 TTATATTGTTATGGATCGATACATTTTTATAAAGTATAGACACTTTCAATATATCCGGTAGTGCT
196 TTATATTATTATGGATCAATACATTTTTATAAAGTATAGACACTTTCAATATATCCGGTAGCGCT
116182 TTACCTATTTTGTCATTTATAGACCGATTTTATCATTTTTTTACCTGTTATATTGTTATGGATCG
261 TTACCTATTTTGTCATTTATAGACCGATTTTATCA-TTTTTTACCTGTTATATTGTTATGGATCG
116247 ATACATTTTT
325 ATACATTTTT
* *
116257 ATAAAGTATCGACACTTTCAATATATCCAGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
1 ATAAAGTATCGACACTATCAACATATCCAGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
*
116322 TTTGTCATTTTTTTACCTGTTATATTGTTAT-GAATCGATACATTTTTATAAAATATGGACACTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATAG-ATCGATACATTTTTATAAAATATCGACACTT
* *
116386 TCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAAATCGGTTTTGCCATTTTTTACAT
130 TCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAAACCGGTTTTGCCATTGTTTACAT
* * * *
116451 GTTATATTATTATGTATCAATATATTTTTATAAAGTATCGACACTTTCAATATATCTGGTAGCGC
195 GTTATATTATTATGGATCAATACATTTTTATAAAGTATAGACACTTTCAATATATCCGGTAGCGC
* * *
116516 TTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTACCTGTTATATTGTTATGGATCG
260 TTTACCTATTTTGTCATTTATAGACCGATTTTATCATTTTTTACCTGTTATATTGTTATGGATCG
*
116581 ATATATTTTT
325 ATACATTTTT
116591 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
116606 AAACCGACAA
Statistics
Matches: 319, Mismatches: 29, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
334 54 0.17
335 265 0.83
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (334 bp):
ATAAAGTATCGACACTATCAACATATCCAGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
TTTGTCATTTTTTTACCTGTTATATTGTTATAGATCGATACATTTTTATAAAATATCGACACTTT
CAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATAAACCGGTTTTGCCATTGTTTACATG
TTATATTATTATGGATCAATACATTTTTATAAAGTATAGACACTTTCAATATATCCGGTAGCGCT
TTACCTATTTTGTCATTTATAGACCGATTTTATCATTTTTTACCTGTTATATTGTTATGGATCGA
TACATTTTT
Found at i:120242 original size:34 final size:34
Alignment explanation
Indices: 120201--120271 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
120191 TATTAAATTT
* * *
120201 CATCAATTTAATCATCTGTGTAAAAATATGTTTG
1 CATCAATTTAATCATCTGAGTAAAAACATGCTTG
120235 CATCAATTTAATCATCTGAGTAAAAACATGCTTG
1 CATCAATTTAATCATCTGAGTAAAAACATGCTTG
120269 CAT
1 CAT
120272 GGGCAACGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (34 bp):
CATCAATTTAATCATCTGAGTAAAAACATGCTTG
Found at i:121214 original size:11 final size:10
Alignment explanation
Indices: 121189--121250 Score: 54
Period size: 10 Copynumber: 5.9 Consensus size: 10
121179 AATTATAAAA
*
121189 AATATAAAATA
1 AATA-AAAATG
121200 AATAAAAATG
1 AATAAAAATG
121210 CAATAAAAAAT-
1 -AAT-AAAAATG
121221 AATTAAAAATG
1 AA-TAAAAATG
* *
121232 AATAAAATTC
1 AATAAAAATG
121242 AATAAAAAT
1 AATAAAAAT
121251 ATAATGTAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
10 27 0.63
11 10 0.23
12 6 0.14
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.24
Consensus pattern (10 bp):
AATAAAAATG
Found at i:121219 original size:22 final size:21
Alignment explanation
Indices: 121189--121238 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
121179 AATTATAAAA
*
121189 AATATAAAATAAATAAAAATG
1 AATAAAAAATAAATAAAAATG
*
121210 CAATAAAAAATAATTAAAAATG
1 -AATAAAAAATAAATAAAAATG
121232 AATAAAA
1 AATAAAA
121239 TTCAATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (21 bp):
AATAAAAAATAAATAAAAATG
Found at i:121236 original size:32 final size:31
Alignment explanation
Indices: 121183--121260 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 31
121173 AATATTAATT
121183 ATAAAAAAT-A-T-AAAATAAATAAAAATGCA
1 ATAAAAAATAATTAAAAATAAAT-AAAATGCA
* *
121212 ATAAAAAATAATTAAAAATGAATAAAATTCA
1 ATAAAAAATAATTAAAAATAAATAAAATGCA
121243 ATAAAAATATAATGTAAA
1 ATAAAAA-ATAAT-TAAA
121261 GCTAAAAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
29 9 0.21
30 1 0.02
31 15 0.36
32 13 0.31
33 4 0.10
ACGTcount: A:0.69, C:0.03, G:0.04, T:0.24
Consensus pattern (31 bp):
ATAAAAAATAATTAAAAATAAATAAAATGCA
Found at i:121796 original size:29 final size:28
Alignment explanation
Indices: 121752--121835 Score: 78
Period size: 33 Copynumber: 2.7 Consensus size: 28
121742 TAATTATTAT
*
121752 TTTTTAACAATAATTAATAATGTTTATTTA
1 TTTTTAA-AA-AATTAATAATATTTATTTA
121782 TTTTTAATAAAATTAAAATTTAATATTTATTTA
1 TTTTTAA-AAAATT--AA--TAATATTTATTTA
*
121815 TTTTTAAAAAAGTGAATAATA
1 TTTTTAAAAAA-TTAATAATA
121836 ATTTTTAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
29 9 0.20
30 9 0.20
31 4 0.09
32 4 0.09
33 20 0.43
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (28 bp):
TTTTTAAAAAATTAATAATATTTATTTA
Found at i:121904 original size:43 final size:43
Alignment explanation
Indices: 121843--121954 Score: 183
Period size: 43 Copynumber: 2.6 Consensus size: 43
121833 ATAATTTTTA
121843 AAATATTTTAAAAAAATAATTTTAAAAGTTAATAAATATTATT
1 AAATATTTTAAAAAAATAATTTTAAAAGTTAATAAATATTATT
*
121886 AAATATTTTTAAAAAATAATTTTAAAAGTTAATAAATATTATT
1 AAATATTTTAAAAAAATAATTTTAAAAGTTAATAAATATTATT
*
121929 AAATA--TTAAAAAAATTATTATTAAAA
1 AAATATTTTAAAAAAATAATT-TTAAAA
121955 AAAAGACAGT
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
41 12 0.18
42 6 0.09
43 47 0.72
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (43 bp):
AAATATTTTAAAAAAATAATTTTAAAAGTTAATAAATATTATT
Found at i:121918 original size:13 final size:13
Alignment explanation
Indices: 121832--121912 Score: 58
Period size: 13 Copynumber: 6.0 Consensus size: 13
121822 AAAAGTGAAT
*
121832 AATAATTTT-TAA
1 AATAATTTTAAAA
121844 AAT-ATTTTAAAAA
1 AATAATTTT-AAAA
121857 AATAATTTTAAAA
1 AATAATTTTAAAA
* **
121870 GTTAATAAATATTATTA
1 ---AAT-AATTTTAAAA
*
121887 AATATTTTTAAAA
1 AATAATTTTAAAA
121900 AATAATTTTAAAA
1 AATAATTTTAAAA
121913 GTTAATAAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
11 5 0.09
12 3 0.06
13 27 0.51
14 8 0.15
16 3 0.06
17 7 0.13
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (13 bp):
AATAATTTTAAAA
Found at i:121947 original size:19 final size:19
Alignment explanation
Indices: 121854--121948 Score: 61
Period size: 20 Copynumber: 4.7 Consensus size: 19
121844 AATATTTTAA
121854 AAAAATAATT-TTAAAAGTT
1 AAAAA-AATTATTAAAAGTT
* *
121873 AATAAATATTATTAAATATTTTT
1 AA-AAAAATTATTAAA-A--GTT
121896 AAAAAATAATT-TTAAAAGTT
1 -AAAAA-AATTATTAAAAGTT
*
121916 AATAAATATTATTAAATA-TT
1 AA-AAAAATTATTAAA-AGTT
121936 AAAAAAATTATTA
1 AAAAAAATTATTA
121949 TTAAAAAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
19 20 0.33
20 22 0.37
21 2 0.03
22 1 0.02
23 10 0.17
24 5 0.08
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
AAAAAAATTATTAAAAGTT
Found at i:127385 original size:120 final size:120
Alignment explanation
Indices: 127190--127521 Score: 398
Period size: 120 Copynumber: 2.8 Consensus size: 120
127180 CTAATGCTCG
** * * ** * * * * *
127190 AAATTATGTTCCGACAACAATAATCAGTCTAAAAAGCAGCCATGATAAGTTGAAACGAGATCAAA
1 AAATTATAATCCGACAACAACAATCAGACTAATTAGGAGCCATAAGAACTTGAAACAAGATCAAA
* * * *
127255 GGGTTTCCATATCTATTCAACCATGGTCAAGAAAACTAAACTAAACTAATGC-TC
66 GAGTTTCCATATCAATTCAACCATGGTCAAGAAAACTAAACTAAACAAATACTTC
* * *
127309 AAAGTTATAATCCGATAACAACAATCCA-ACTAATTAGGAGCTATAAGAACTTGAAACAAGGTCA
1 AAA-TTATAATCCGACAACAACAAT-CAGACTAATTAGGAGCCATAAGAACTTGAAACAAGATCA
* *
127373 AAGAGTTTCCATATCAATTCAACCATGGTCAAGAAAACTAAAGTAAACAAATACTTG
64 AAGAGTTTCCATATCAATTCAACCATGGTCAAGAAAACTAAACTAAACAAATACTTC
* * *
127430 AAATTATGATCCGACAACAACAATCAGTCTAATTAGGAGCCATAAGAACTTGAAACAAGATAAAA
1 AAATTATAATCCGACAACAACAATCAGACTAATTAGGAGCCATAAGAACTTGAAACAAGATCAAA
** *
127495 GAGTTTCCACCTCCATTCAACCATGGT
66 GAGTTTCCATATCAATTCAACCATGGT
127522 TATTAAAATG
Statistics
Matches: 180, Mismatches: 29, Indels: 7
0.83 0.13 0.03
Matches are distributed among these distances:
119 5 0.03
120 169 0.94
121 6 0.03
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.23
Consensus pattern (120 bp):
AAATTATAATCCGACAACAACAATCAGACTAATTAGGAGCCATAAGAACTTGAAACAAGATCAAA
GAGTTTCCATATCAATTCAACCATGGTCAAGAAAACTAAACTAAACAAATACTTC
Found at i:130975 original size:29 final size:29
Alignment explanation
Indices: 130928--130984 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 29
130918 TATATTTGGA
130928 AAAAGGTCTAAAATAAAAAAAAT-TATTT
1 AAAAGGTCTAAAATAAAAAAAATATATTT
130956 AAAAGGTCTAAAATAAAAAAAAATATATT
1 AAAAGGTCTAAAAT-AAAAAAAATATATT
130985 GTCTGAGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 14 0.52
29 9 0.33
30 4 0.15
ACGTcount: A:0.63, C:0.04, G:0.07, T:0.26
Consensus pattern (29 bp):
AAAAGGTCTAAAATAAAAAAAATATATTT
Found at i:132930 original size:30 final size:31
Alignment explanation
Indices: 132896--132953 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 31
132886 TGTTGGTAGT
*
132896 TAAAAATAATTTTTTAATATTA-TATTAAAA
1 TAAAAATAATTTATTAATATTATTATTAAAA
* * *
132926 TAAAACTCATTTATTATTATTATTATTA
1 TAAAAATAATTTATTAATATTATTATTA
132954 TTATTATTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 18 0.78
31 5 0.22
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (31 bp):
TAAAAATAATTTATTAATATTATTATTAAAA
Found at i:132944 original size:3 final size:3
Alignment explanation
Indices: 132936--132966 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
132926 TAAAACTCAT
132936 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
132967 CCCATATGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:138439 original size:22 final size:21
Alignment explanation
Indices: 138414--138456 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
138404 AAATCATTTT
138414 ATAAATATCTTAATATT-TAAAA
1 ATAAATA--TTAATATTATAAAA
138436 ATAAATATTAATATTATAAAA
1 ATAAATATTAATATTATAAAA
138457 TTATAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.40
21 5 0.25
22 7 0.35
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAAATATTAATATTATAAAA
Found at i:138672 original size:25 final size:26
Alignment explanation
Indices: 138629--138680 Score: 88
Period size: 25 Copynumber: 2.0 Consensus size: 26
138619 ATCGATCTTT
138629 TTATAATATTATAACTATAAGCAAAA
1 TTATAATATTATAACTATAAGCAAAA
*
138655 TTATAAT-TTATAATTATAAGCAAAA
1 TTATAATATTATAACTATAAGCAAAA
138680 T
1 T
138681 CGATCTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (26 bp):
TTATAATATTATAACTATAAGCAAAA
Found at i:139048 original size:23 final size:23
Alignment explanation
Indices: 138997--139065 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
138987 TTTAAATGAT
* *
138997 AAACGAACACAAATGAACGAACAT
1 AAACGAACAC-AATAAACGAACAC
*
139021 AAACGAACACAATAAACGAACGC
1 AAACGAACACAATAAACGAACAC
* *
139044 GAACGAATACAATAAACGAACA
1 AAACGAACACAATAAACGAACA
139066 TAAATGAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 29 0.74
24 10 0.26
ACGTcount: A:0.58, C:0.22, G:0.13, T:0.07
Consensus pattern (23 bp):
AAACGAACACAATAAACGAACAC
Found at i:144008 original size:229 final size:228
Alignment explanation
Indices: 143608--144098 Score: 833
Period size: 229 Copynumber: 2.1 Consensus size: 228
143598 GTTATATTGT
* * *
143608 AAAGTATCTATCCTTTTTATAAAAGTG-TCTATACTTATTTCACTGTGAAAATATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTTC-ATACTTATTTCACTGTGAAAACATATTTATTATT
* *
143672 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
65 ATCTTTGGTTAATATTGTTAAATTTAAATTATAAATAATATTTTATAAAATATCAAAAAAATCAA
* *
143737 ATAATTTTGTGTGTACATGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTA
130 ATAATTTTGTGTGTAAATGAAAATATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTA
143802 AAAAAAATTGAAACATAAATTACATAACTTTAAA
195 AAAAAAATTGAAACATAAATTACATAACTTTAAA
*
143836 AAAGTATATATCATTTTTATAAAAATGTTCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTTCATACTTATTTCACTGT-GAAAACATATTTATTATT
143901 ATCTTTGGTTAATATTGTTAAATTTAAATTATAAATAATATTTTATAAAATATCAAAAAAATCAA
65 ATCTTTGGTTAATATTGTTAAATTTAAATTATAAATAATATTTTATAAAATATCAAAAAAATCAA
* *
143966 ATAATTTTTTGTGTAAATGAAAATATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
130 ATAATTTTGTGTGTAAATGAAAATATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTA
144031 AAAAAAATTGAAACATAAATTACATAACTTTAAA
195 AAAAAAATTGAAACATAAATTACATAACTTTAAA
* *
144065 AAATATATATATCA-TTTTATAAAAGTGTCCATAC
1 AAA-GTATATATCATTTTTATAAAAGTGTTCATAC
144099 GTATAAAAGT
Statistics
Matches: 247, Mismatches: 13, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
228 40 0.16
229 198 0.80
230 9 0.04
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (228 bp):
AAAGTATATATCATTTTTATAAAAGTGTTCATACTTATTTCACTGTGAAAACATATTTATTATTA
TCTTTGGTTAATATTGTTAAATTTAAATTATAAATAATATTTTATAAAATATCAAAAAAATCAAA
TAATTTTGTGTGTAAATGAAAATATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTAA
AAAAAATTGAAACATAAATTACATAACTTTAAA
Found at i:144404 original size:20 final size:19
Alignment explanation
Indices: 144381--144427 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
144371 CGATATAACA
144381 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
144401 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
144421 GGTAAAA
1 GGTAAAA
144428 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:144429 original size:17 final size:19
Alignment explanation
Indices: 144390--144432 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
144380 AGGTAAAAAT
144390 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
144410 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
144427 ATGATA
1 ATGATA
144433 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:146680 original size:20 final size:21
Alignment explanation
Indices: 146641--146683 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
146631 AAGACAATCA
146641 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
146662 AGAGTCG-AGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
146682 AG
1 AG
146684 GCATAAGGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.40, C:0.12, G:0.33, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:146757 original size:32 final size:33
Alignment explanation
Indices: 146716--146780 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
146706 AAATAGATGG
*
146716 AGTGGTGAAAGAAGTAGAGGTG-TGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
146748 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
146781 TATTAAGATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 20 0.69
33 9 0.31
ACGTcount: A:0.29, C:0.00, G:0.49, T:0.22
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:148608 original size:17 final size:19
Alignment explanation
Indices: 148565--148611 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
148555 AATGTAGGGT
148565 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
148584 TAATTTTGTATACGA-TTA
1 TAATTTTGTATAAGATTTA
148602 T-ATTTTGTAT
1 TAATTTTGTAT
148612 GTGAATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 9 0.33
18 4 0.15
19 14 0.52
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:149414 original size:198 final size:197
Alignment explanation
Indices: 149144--149853 Score: 1072
Period size: 198 Copynumber: 3.7 Consensus size: 197
149134 GTGCAACCAT
149144 AAAGTGTCGATCCCAAAAACATCGAACCTAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
1 AAAGTGTCGATCCCAAAAACATCGAACC-AAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
* * * *
149209 AGGTACAAGTATATCGGTTTTATGAGAGATTATGTCTAAATAATGTGTCGATACTTTTTAGTTGG
65 CGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTGG
**
149274 TGTCGATATTTTTGGTCCAGAATGAATGGCCAACAGGGTGCAACCATAAAGTGTCGATCCATATA
130 TGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATA
149339 TAA
195 TAA
149342 AAAGTGTCGATCCCAAAAACATCGAATCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
1 AAAGTGTCGATCCCAAAAACATCGAA-CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
* *
149407 CGGTACAAGTATACCGGTTTT-TTAGAGAATATGTCTAAATAATGTGTCGACACTATTTTAGTTT
65 CGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACT-TTTTAGTTG
* *
149471 GTATCGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATAT
129 GTGTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATAT
149536 ATAA
194 ATAA
* *
149540 AAAGTGTCGATCCGAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTTAATCTAAC
1 AAAGTGTCGATCCCAAAAACATCGAA-CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
149605 CGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTGG
65 CGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTGG
149670 TGTCGATATTTTTGGTCCAGAATGAA-GTGAAAACAGGGTGC-ACCTATAAAGTGTCGATCC---
130 TGTCGATATTTTTGGTCCAGAATGAATG-GAAAACAGGGTGCAACC-ATAAAGTGTCGATCCATA
*
149730 --CAA
193 TATAA
*
149733 AAA----C-AT--C---GA-A-C---CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACC
1 AAAGTGTCGATCCCAAAAACATCGAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACC
149783 GGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTT-GT
66 GGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTGGT
149847 GTCGATA
131 GTCGATA
149854 CTAATTTAAA
Statistics
Matches: 486, Mismatches: 21, Indels: 32
0.90 0.04 0.06
Matches are distributed among these distances:
176 9 0.02
177 100 0.21
181 1 0.00
182 1 0.00
183 1 0.00
188 2 0.00
189 1 0.00
193 5 0.01
197 34 0.07
198 298 0.61
199 34 0.07
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (197 bp):
AAAGTGTCGATCCCAAAAACATCGAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACC
GGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTGGT
GTCGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATAT
AA
Found at i:151309 original size:6 final size:6
Alignment explanation
Indices: 151285--151376 Score: 67
Period size: 6 Copynumber: 15.3 Consensus size: 6
151275 AGCGGTCGTA
* * * * * *
151285 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* * * * * * *
151333 GACGAT GAAGAT GATGAC GACGAC GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
151377 TGATCCAACA
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.38, C:0.10, G:0.34, T:0.18
Consensus pattern (6 bp):
GAAGAT
Found at i:151320 original size:3 final size:3
Alignment explanation
Indices: 151300--151380 Score: 63
Period size: 3 Copynumber: 27.0 Consensus size: 3
151290 TGAAGCTGAC
* * * * * * *
151300 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GAC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* * * *
151348 GAC GAC GAC GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
151381 CCAACAAGTA
Statistics
Matches: 60, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.37, C:0.09, G:0.33, T:0.21
Consensus pattern (3 bp):
GAT
Found at i:151380 original size:12 final size:12
Alignment explanation
Indices: 151288--151346 Score: 91
Period size: 12 Copynumber: 4.9 Consensus size: 12
151278 GGTCGTAGAA
*
151288 GATGAAGCTGAC
1 GATGAAGATGAC
151300 GATGAAGATGAC
1 GATGAAGATGAC
*
151312 GATGATGATGAC
1 GATGAAGATGAC
*
151324 GATGAAGCTGAC
1 GATGAAGATGAC
151336 GATGAAGATGA
1 GATGAAGATGA
151347 TGACGACGAC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 42 1.00
ACGTcount: A:0.37, C:0.10, G:0.34, T:0.19
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:151380 original size:18 final size:18
Alignment explanation
Indices: 151285--151376 Score: 85
Period size: 18 Copynumber: 5.1 Consensus size: 18
151275 AGCGGTCGTA
*
151285 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGACGAT
* *
151303 GAAGATGACGATGATGAT
1 GAAGATGAAGATGACGAT
* *
151321 GACGATGAAGCTGACGAT
1 GAAGATGAAGATGACGAT
* * *
151339 GAAGATGATGACGACGAC
1 GAAGATGAAGATGACGAT
* * *
151357 GATGATGATGATGAAGAT
1 GAAGATGAAGATGACGAT
151375 GA
1 GA
151377 TGATCCAACA
Statistics
Matches: 58, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 58 1.00
ACGTcount: A:0.38, C:0.10, G:0.34, T:0.18
Consensus pattern (18 bp):
GAAGATGAAGATGACGAT
Found at i:152593 original size:16 final size:16
Alignment explanation
Indices: 152561--152594 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
152551 TATCCACAAT
* *
152561 AAAGTGTCGATTTAAA
1 AAAGTGTCGACTGAAA
152577 AAAGTGTCGACTGAAA
1 AAAGTGTCGACTGAAA
152593 AA
1 AA
152595 TGTAATAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.24
Consensus pattern (16 bp):
AAAGTGTCGACTGAAA
Found at i:153018 original size:23 final size:23
Alignment explanation
Indices: 152954--153020 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
152944 GTAAAAAATG
*
152954 ATGT-ATAGGTAGCGCTTATATA
1 ATGTAATAGGTAGTGCTTATATA
*
152976 ATGTAATAGATA-T-CATTTATATA
1 ATGTAATAGGTAGTGC--TTATATA
*
152999 ATGTAATAGGTAGTGGTTATAT
1 ATGTAATAGGTAGTGCTTATAT
153021 TGTAAAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 30 0.83
24 1 0.03
ACGTcount: A:0.36, C:0.04, G:0.19, T:0.40
Consensus pattern (23 bp):
ATGTAATAGGTAGTGCTTATATA
Found at i:153400 original size:23 final size:23
Alignment explanation
Indices: 153369--153441 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
153359 ATAGGTAAAA
*
153369 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
153392 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
153415 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
153438 ATAT
1 ATAT
153442 GTAAAATATA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:154002 original size:423 final size:425
Alignment explanation
Indices: 152758--155057 Score: 3621
Period size: 421 Copynumber: 5.4 Consensus size: 425
152748 TTGTTAATTT
* *
152758 AAATTCTAAATATTATTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATAAAATTAT
1 AAATTCTAAATATTATTTATAAAATATCAAAACAATCAAATAA-TTTTTGTGCAAATGAAATTAT
*
152823 TAAATTAATATTGTAGGTGGAAAACATGAAATACTATT-AAAAAAATTGAAACATAAATTACATA
65 TAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATA
*
152887 ACTTTTAAAAAAAGTATCGATCC-TTTT-TAAAAAGTATGGACACTTTCAATATAATAGGTAAAA
130 AC-TTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAA
* *
152950 A-ATGATGTAT-AGGTAGCGCTTATATAATGTAATAGATATCATTTATATAATGTAATAGGTAGT
194 ATATGATGTATAAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGT
* * *
153013 GGTTATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCTATAATTTTTTTCACTGTGGAAAAC
259 GGTTATATTGTAAAGTATCTATCC-TTTTATAAAAGTGTCCAT-ACTTTTTTCACTGTGGAAAAC
153078 ATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAAT
322 ATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAAT
*
153143 G-ATATTTTTTACATTACGATATATATTATATTAAATTAA
387 GTATATTTTTTACGTTACGATATATATT-TATTAAATTAA
*
153182 AAAATCT-AATA-TATTTATAAAATATCAAAAACAATCAAATAATTTTTGTGCAAAATGAAATTA
1 AAATTCTAAATATTATTTATAAAATATC-AAAACAATCAAATAATTTTTGTGC-AAATGAAATTA
153245 TTAAATT-A-ATTGTAGGTGGAAAACATGAAACA-TACTTAAAAAAAATTGAAACATAAATTACA
64 TTAAATTAATATTGTAGGTGGAAAACATGAAACACTA-TTAAAAAAAATTGAAACATAAATTACA
* *
153307 TAACTTTAAAAGAA-TAT-G-TGTCATTTTATAAAAAGTATGGACAC-TTCAATAT-ATAGGTAA
128 TAACTTTAAAAGAAGTATCGAT-CCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAA
153367 AAATATGATGTA-ATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGT
192 AAATATGATGTATA-AGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGT
*
153431 AGTGGTTATA-TGTAAA--ATATATCCTTTTATAAAAGTGTCCATACTTTTTTCACTGT-GAAAA
256 AGTGGTTATATTGTAAAGTATCTATCCTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAA
*
153492 CATTAATTTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTTAATTTAGTAATTATAGGCGTCTA
321 CATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATA-TTAATTTAGTAATTATAGGCGTCTA
*
153557 ATG-ATTTATTTTTACGTTACGATATATATATTATTAAATTAA
385 ATGTATAT-TTTTTACGTTACGATATATAT-TTATTAAATTAA
153599 AAATTCTAAATATTATTTATAAAATATCAAAACAATC-AATAA-TTTTGTGCAAATGAAATTATT
1 AAATTCTAAATATTATTTATAAAATATCAAAACAATCAAATAATTTTTGTGCAAATGAAATTATT
153662 AAATTAATATTGTAGGTGGAAAACATGAAACA-TACTTAAAAAAAAATTGAAACATAAATTACAT
66 AAATTAATATTGTAGGTGGAAAACATGAAACACTA-TT-AAAAAAAATTGAAACATAAATTACAT
153726 AACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAAGTATGGAACACTTTC-ATATAATAGGTAA
129 AACTTTAAAAGAAGTATCGATCCTTTTTAT-AAAAAGTATGG-ACACTTTCAATATAATAGGTAA
*
153790 AAATATGATGTATAAGGTAGTAGGCTTATATAATGTAA-AGGTATCGTTTATATAATGTAATAGG
192 AAATATGATGTATAAGGTAG--CGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGG
153854 TAGTGGTTATATTGT-AAGTATCTATCCTTTTATAAAAGTGTCCATACTTTTTTCACTGTGG-AA
255 TAGTGGTTATATTGTAAAGTATCTATCCTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAA
*
153917 A-ATTAATTTAAGGTTATC-CTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTA
320 ACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTA
*
153980 ATGTATGTTTTTTACGTTACGATATATATTTATTAAATTAA
385 ATGTATATTTTTTACGTTACGATATATATTTATTAAATTAA
*
154021 AAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTTGTGC-AATGAAATT
1 AAATTCTAAATATTA-TTTATAAAATATCAAAACAATCAAATAA--TTTTTGTGCAAATGAAATT
154085 ATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACA
63 ATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACA
*
154149 TAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAA
128 TAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAA
154214 AATATGATGTA-ATAGGTAGCGC-T-TATAATGTAATAGGTATCGTTTATATAATGTAATAGGTA
193 AATATGATGTATA-AGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTA
* *
154276 GTAGTTATATTGTAAAGTATCTATCCTTTTAT-AAAGTGTCC--ACTTTTTTCACTGTGGAAAAT
257 GTGGTTATATTGTAAAGTATCTATCCTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAAC
*
154338 ATTAATTTAAGGTTATCATTTGAGTGAGTTTTAAGATATTAATTTAGTAATT-TAGGCGTCT-AT
322 ATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAAT
* *
154401 GATTTATTTTTTATGTTAC-ATATATATTATATTAAATTAA
387 G-TATATTTTTTACGTTACGATATATATT-TATTAAATTAA
* *
154441 AAATTTTAAATA-TATTTTTAAAATATCAAAAC-ATCAAATAATTTTTTGTGCAAATGAAAATTA
1 AAATTCTAAATATTATTTATAAAATATCAAAACAATCAAATAA-TTTTTGTGCAAATG-AAATTA
*
154504 TTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAACAATTGAAACATAAATTACAT
64 TTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACAT
154569 AACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAA
129 AACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAA
* * *
154634 ATATGATGTA-ATAGATAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTATTAGGTAG
194 ATATGATGTATA-AGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAG
* * * *
154698 TGCTTATATTGTAAATTATTTATCCTTTTTATAAAAGTGTCCATACTTTTTTCGCTGTGGAAAAC
258 TGGTTATATTGTAAAGTATCTATCC-TTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAAC
154763 ATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAAT
322 ATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAAT
*
154828 GATTTATTTTTTACGTTACGATATATATTATTATTAAATTAA
387 G-TATATTTTTTACGTTACGATATATA-T-TTATTAAATTAA
154870 AAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTA
1 AAATTCTAAATATTA-TTTATAAAATATCAAAACAATCAAATAA-TTTTTGTGCAAATGAAATTA
*
154935 TTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACGTAAATTACAT
64 TTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACAT
154999 AACTTTAAAAGAAGTATCGATCCTTTTTTATAAAAAGTATGGACACTTTCAATATAATA
129 AACTTTAAAAGAAGTATCGATCC-TTTTTATAAAAAGTATGGACACTTTCAATATAATA
155058 TAATGTAATA
Statistics
Matches: 1762, Mismatches: 48, Indels: 125
0.91 0.02 0.06
Matches are distributed among these distances:
415 61 0.03
416 63 0.04
417 101 0.06
418 139 0.08
419 166 0.09
420 152 0.09
421 232 0.13
422 101 0.06
423 187 0.11
424 127 0.07
425 105 0.06
426 97 0.06
427 31 0.02
428 7 0.00
429 23 0.01
430 49 0.03
431 97 0.06
432 24 0.01
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (425 bp):
AAATTCTAAATATTATTTATAAAATATCAAAACAATCAAATAATTTTTGTGCAAATGAAATTATT
AAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAA
CTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAAT
ATGATGTATAAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGG
TTATATTGTAAAGTATCTATCCTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTA
ATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGTAT
ATTTTTTACGTTACGATATATATTTATTAAATTAA
Found at i:154246 original size:21 final size:23
Alignment explanation
Indices: 154215--154276 Score: 83
Period size: 21 Copynumber: 2.8 Consensus size: 23
154205 ATAGGTAAAA
*
154215 ATATGATGTAATAGGTAGCG-CT
1 ATATAATGTAATAGGTAGCGTCT
* *
154237 -TATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGTCT
154259 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
154277 TAGTTATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 17 0.50
22 1 0.03
23 16 0.47
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTCT
Found at i:154283 original size:23 final size:23
Alignment explanation
Indices: 154215--154285 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
154205 ATAGGTAAAA
* *
154215 ATATGATGTAATAGGTAG-CGCT
1 ATATAATGTAATAGGTAGTCGTT
154237 -TATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGTCG-TT
*
154259 ATATAATGTAATAGGTAGTAGTT
1 ATATAATGTAATAGGTAGTCGTT
154282 ATAT
1 ATAT
154286 TGTAAAGTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
21 17 0.40
22 1 0.02
23 22 0.52
24 2 0.05
ACGTcount: A:0.35, C:0.04, G:0.21, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTCGTT
Found at i:154289 original size:21 final size:22
Alignment explanation
Indices: 154221--154290 Score: 74
Period size: 21 Copynumber: 3.2 Consensus size: 22
154211 AAAAATATGA
*
154221 TGTAATAGGTAG-CGCTTATAA
1 TGTAATAGGTAGTCGCTTATAT
*
154242 TGTAATAGGTA-TCGTTTATAT
1 TGTAATAGGTAGTCGCTTATAT
*
154263 AATGTAATAGGTAGTAG-TTATAT
1 --TGTAATAGGTAGTCGCTTATAT
154286 TGTAA
1 TGTAA
154291 AGTATCTATC
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
21 23 0.55
23 17 0.40
24 2 0.05
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.40
Consensus pattern (22 bp):
TGTAATAGGTAGTCGCTTATAT
Found at i:154597 original size:843 final size:852
Alignment explanation
Indices: 152758--155057 Score: 3733
Period size: 843 Copynumber: 2.7 Consensus size: 852
152748 TTGTTAATTT
*
152758 AAATTCTAAATATTATTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAAT-AAAATTA
1 AAATTCTAAATATTATTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAAATTA
*
152822 TTAAATTAATATTGTAGGTGGAAAACATGAAATACTATTAAAAAAATTGAAACATAAATTACATA
66 TTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATA
*
152887 ACTTTTAAAAAAAGTATCGATCC-TTTT-TAAAAAGTATGGACACTTTCAATATAATAGGTAAAA
131 AC-TTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAA
* * *
152950 A-ATGATGTAT-AGGTAG--CGCTTATATAATGTAATAGATATCATTTATATAATGTAATAGGTA
195 ATATGATGTATAAGGTAGTAGGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTA
* *
153011 GTGGTTATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCTATAATTTTTTTCACTGTGGAAA
260 GTGGTTATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCAT-ACTTTTTTCACTGTGGAAA
153076 ACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTA
324 ACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTA
* *
153141 ATG-ATATTTTTTACATTACGATATATATTATATTAAATTAAAAAATCT-AAT-ATA-TTTATAA
389 ATGTATATTTTTTACGTTACGATATATATT-TATTAAATTAAAAATTCTAAATAATATTTTATAA
153202 AATATCAAAAACAATCAAATAA-TTTTTGTGCAAAATGAAATTATTAAATT-A-ATTGTAGGTGG
453 AATATC-AAAACAATCAAATAATTTTTTGTGC-AAATGAAATTATTAAATTAATATTGTAGGTGG
153264 AAAACATGAAACA-TACTTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAA-TAT-GT
516 AAAACATGAAACACTA-TT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCG-
*
153326 GTCA-TTTTATAAAAAGTATGGACAC-TTCAATAT-ATAGGTAAAAATATGATGTAATAGGTAGC
578 ATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGC
*
153388 GCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATGTAAAATATAT
643 GCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTAGTTATATGTAAAATATAT
*
153453 CCTTTTATAAAAGTGTCCATACTTTTTTCACTGTGAAAACATTAATTTAAGGTTATCCTTTGAGT
708 CCTTTTATAAAAGTGTCCA-ACTTTTTTCACTGTGAAAACATTAATTTAAGGTTATCATTTGAGT
153518 GAGTTTTAAGATATTTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTACGATATA
772 GAGTTTTAAGATATTTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTACGATATA
153583 TATATTATTAAATTAA
837 TATATTATTAAATTAA
153599 AAATTCTAAATATTATTTATAAAATATCAAAACAATC-AATAA--TTTTGTGCAAATG-AAATTA
1 AAATTCTAAATATTATTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAAATTA
153660 TTAAATTAATATTGTAGGTGGAAAACATGAAACA-TACTTAAAAAAAAATTGAAACATAAATTAC
66 TTAAATTAATATTGTAGGTGGAAAACATGAAACACTA-TT--AAAAAAATTGAAACATAAATTAC
153724 ATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAAGTATGGAACACTTTC-ATATAATAGGT
128 ATAACTTTAAAAGAAGTATCGATCCTTTTTAT-AAAAAGTATGG-ACACTTTCAATATAATAGGT
153788 AAAAATATGATGTATAAGGTAGTAGGCTTATATAATGTAA-AGGTATCGTTTATATAATGTAATA
191 AAAAATATGATGTATAAGGTAGTAGGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATA
*
153852 GGTAGTGGTTATATTGT-AAGTATCTATCC-TTTTATAAAAGTGTCCATACTTTTTTCACTGTGG
256 GGTAGTGGTTATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGG
*
153915 -AAA-ATTAATTTAAGGTTATC-CTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGT
321 AAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGT
*
153977 CTAATGTATGTTTTTTACGTTACGATATATATTTATTAAATTAAAAATTCTAAATAATATTTTAT
386 CTAATGTATATTTTTTACGTTACGATATATATTTATTAAATTAAAAATTCTAAATAATATTTTAT
154042 AAAATATCAAAACAATCAAATAATTTTTTTGTGC-AATGAAATTATTAAATTAATATTGTAGGTG
451 AAAATATCAAAACAATCAAATAA-TTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTG
154106 GAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGAT
515 GAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGAT
154171 CATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGC
580 CATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGC
*
154236 -T-TATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTAGTTATATTGTAAAGTATCTA
645 TTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTAGTTATA-TGTAAA--ATATA
*
154299 TCCTTTTAT-AAAGTGTCC-ACTTTTTTCACTGTGGAAAATATTAATTTAAGGTTATCATTTGAG
707 TCCTTTTATAAAAGTGTCCAACTTTTTTCACTGT-GAAAACATTAATTTAAGGTTATCATTTGAG
*
154362 TGAGTTTTAAGATA-TTAATTTAGTAATT-TAGGCGTCT-ATGATTTATTTTTTATGTTAC-ATA
771 TGAGTTTTAAGATATTTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTTACGATA
154423 TATAT-TATATTAAATTAA
835 TATATAT-TATTAAATTAA
* *
154441 AAATTTTAAATA-TATTTTTAAAATATCAAAAC-ATCAAATAATTTTTTGTGCAAATGAAAATTA
1 AAATTCTAAATATTATTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAAATTA
154504 TTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAACAATTGAAACATAAATTACAT
66 TTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA-AATTGAAACATAAATTACAT
154569 AACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAA
130 AACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAA
* *
154634 ATATGATG--TAA--TAGATAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTATTAGG
195 ATATGATGTATAAGGTAG-TAG-GCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGG
* * * *
154695 TAGTGCTTATATTGTAAATTATTTATCCTTTTTATAAAAGTGTCCATACTTTTTTCGCTGTGGAA
258 TAGTGGTTATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAA
154760 AACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCT
323 AACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCT
* *
154825 AATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTA
388 AATG-TATATTTTTTACGTTACGATATATA-T-TTATTAAATTAAAAATTCTAAATAATATTTTA
154890 TAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTG
450 TAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTG
*
154955 GAAAACATGAAACACTATTAAAAAAATTGAAACGTAAATTACATAACTTTAAAAGAAGTATCGAT
515 GAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGAT
*
155020 CCTTTTTTATAAAAAGTATGGACACTTTCAATATAATA
580 -CATTTTTATAAAAAGTATGGACACTTTCAATATAATA
155058 TAATGTAATA
Statistics
Matches: 1374, Mismatches: 33, Indels: 95
0.91 0.02 0.06
Matches are distributed among these distances:
837 2 0.00
838 55 0.04
839 86 0.06
840 102 0.07
841 147 0.11
842 181 0.13
843 191 0.14
844 161 0.12
845 115 0.08
846 102 0.07
847 36 0.03
848 11 0.01
849 149 0.11
850 36 0.03
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (852 bp):
AAATTCTAAATATTATTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAAATTA
TTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATA
ACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAA
TATGATGTATAAGGTAGTAGGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAG
TGGTTATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAAC
ATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAAT
GTATATTTTTTACGTTACGATATATATTTATTAAATTAAAAATTCTAAATAATATTTTATAAAAT
ATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAAC
ATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCATTTT
TATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATAT
AATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTAGTTATATGTAAAATATATCCTTTTAT
AAAAGTGTCCAACTTTTTTCACTGTGAAAACATTAATTTAAGGTTATCATTTGAGTGAGTTTTAA
GATATTTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTACGATATATATATTATT
AAATTAA
Found at i:154665 original size:23 final size:23
Alignment explanation
Indices: 154634--154706 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
154624 ATAGGTAAAA
* *
154634 ATATGATGTAATAGATAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
154657 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
154680 ATATAATGTATTAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
154703 ATAT
1 ATAT
154707 TGTAAATTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:156113 original size:30 final size:30
Alignment explanation
Indices: 156074--156149 Score: 75
Period size: 30 Copynumber: 2.5 Consensus size: 30
156064 TTATCAATTG
*
156074 ATTTAAATATATTTAAAT-ATTTATTTTAATA
1 ATTT-AATATATTTAAATCATGTATTTTAA-A
*
156105 ATTTAATATA-ATAAATCATGTATTTTAAA
1 ATTTAATATATTTAAATCATGTATTTTAAA
*
156134 TTTTATATCATATTTA
1 ATTTA-AT-ATATTTA
156150 TTTCAAACAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
29 10 0.27
30 18 0.49
31 7 0.19
32 2 0.05
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (30 bp):
ATTTAATATATTTAAATCATGTATTTTAAA
Found at i:157233 original size:31 final size:31
Alignment explanation
Indices: 157198--157282 Score: 116
Period size: 31 Copynumber: 2.7 Consensus size: 31
157188 TCTTTTAAAA
* *
157198 GTTATAATATGATCATTCAATTTATCGAATG
1 GTTATAAAATGATCATTAAATTTATCGAATG
*
157229 GTTATAAAATGATCATTAAATTTATTGAATG
1 GTTATAAAATGATCATTAAATTTATCGAATG
** *
157260 GTTATAAAACAATAATTAAATTT
1 GTTATAAAATGATCATTAAATTT
157283 TATTAAACTA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.41
Consensus pattern (31 bp):
GTTATAAAATGATCATTAAATTTATCGAATG
Found at i:164812 original size:15 final size:15
Alignment explanation
Indices: 164792--164827 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
164782 TTCTGAAAAA
* *
164792 TGAATTCCTGGAATT
1 TGAATTCATAGAATT
164807 TGAATTCATAGAATT
1 TGAATTCATAGAATT
164822 TGAATT
1 TGAATT
164828 ACTGAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (15 bp):
TGAATTCATAGAATT
Found at i:164840 original size:15 final size:15
Alignment explanation
Indices: 164822--164873 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
164812 TCATAGAATT
164822 TGAATTACTGAAAAA
1 TGAATTACTGAAAAA
* **
164837 TGAATTACTGTAATT
1 TGAATTACTGAAAAA
*
164852 TAAATT-CTGAAAAA
1 TGAATTACTGAAAAA
164866 TGAATTAC
1 TGAATTAC
164874 ATTTATGGAA
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
14 10 0.36
15 18 0.64
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.35
Consensus pattern (15 bp):
TGAATTACTGAAAAA
Found at i:165226 original size:19 final size:19
Alignment explanation
Indices: 165202--165272 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 19
165192 TTAAATATCT
*
165202 TTATTAAAATATTATTAGA
1 TTATTAAAATATTATTAAA
* * *
165221 TTATTATATTAATATTAAA
1 TTATTAAAATATTATTAAA
* *
165240 TATATAAATAATATTATT-CA
1 T-TATTAA-AATATTATTAAA
165260 TTATTAAATATAT
1 TTATTAAA-ATAT
165273 AAGCAATTTA
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
18 1 0.03
19 25 0.64
20 6 0.15
21 7 0.18
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (19 bp):
TTATTAAAATATTATTAAA
Found at i:165356 original size:31 final size:28
Alignment explanation
Indices: 165315--165392 Score: 75
Period size: 31 Copynumber: 2.6 Consensus size: 28
165305 ATAAACTATC
* *
165315 TTATATTATTATAATATAATTGACTATTTTA
1 TTATAATATTA-AATATAA-T-ACTATATTA
*
165346 TTATAATATTAAAAATATAATATTATATTA
1 TTATAATATT--AAATATAATACTATATTA
165376 TTATAAATATTAAATAT
1 TTAT-AATATTAAATAT
165393 TTCAATAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
29 6 0.15
30 11 0.27
31 16 0.39
32 7 0.17
33 1 0.02
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (28 bp):
TTATAATATTAAATATAATACTATATTA
Found at i:165372 original size:8 final size:8
Alignment explanation
Indices: 165344--165393 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
165334 TTGACTATTT
165344 TATTATAA
1 TATTATAA
165352 TATTA-AA
1 TATTATAA
*
165359 -AATATAA
1 TATTATAA
*
165366 TATTATAT
1 TATTATAA
165374 TATTATAAA
1 TATTAT-AA
165383 TATTA-AA
1 TATTATAA
165390 TATT
1 TATT
165394 TCAATAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
6 3 0.09
7 10 0.29
8 16 0.46
9 6 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
TATTATAA
Found at i:165393 original size:24 final size:22
Alignment explanation
Indices: 165344--165385 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
165334 TTGACTATTT
165344 TATTATAATATTAAAAATATAA
1 TATTATAATATTAAAAATATAA
* *
165366 TATTATATTATTATAAATAT
1 TATTATAATATTAAAAATAT
165386 TAAATATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TATTATAATATTAAAAATATAA
Found at i:165669 original size:42 final size:42
Alignment explanation
Indices: 165608--165702 Score: 145
Period size: 42 Copynumber: 2.3 Consensus size: 42
165598 TTCCTACAAC
** * * *
165608 CAAACACTTGAAAATATTTTTCGGAAAACGAATTACGTGAAA
1 CAAACACAGGAAAACATTTTCCGGAAAACGAATTACATGAAA
165650 CAAACACAGGAAAACATTTTCCGGAAAACGAATTACATGAAA
1 CAAACACAGGAAAACATTTTCCGGAAAACGAATTACATGAAA
165692 CAAACACAGGA
1 CAAACACAGGA
165703 TTTCGGGGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.48, C:0.18, G:0.15, T:0.19
Consensus pattern (42 bp):
CAAACACAGGAAAACATTTTCCGGAAAACGAATTACATGAAA
Found at i:166439 original size:295 final size:292
Alignment explanation
Indices: 165913--166667 Score: 1321
Period size: 295 Copynumber: 2.6 Consensus size: 292
165903 TTTCGTTTTA
*
165913 TTTTCTATTGATCCCCTTTCACAGGGGAAATTCTTATTTCTCTCCCGCCTAGTATTCCAATAGCC
1 TTTTCTATTGATCCTCTTTCACAGGGGAAATTCTTATTTCTCTCCCGCCTAGTATTCCAATAGCC
* *
165978 CGCTCTTCTCTCTCTTCTCATTTCCCTAAAGCCCTAATTCTTGAGTCTCCCCTAAG--TCTCAAT
66 CGCTCTTCTC-CTCTTCTCATTTCCCAAAAGCCCTAATTCCTGAGTCTCCCCTAAGTCTCTCAAT
166041 TTTAACTTCCGAGTCCTCAATCTTTACGGTTCCCCGTGGCTATTTTCTTGGTCATCGAAGGTCGG
130 TTTAACTTCCGAGTCCTCAATCTTTACGGTTCCCCGTGGCTATTTTCTTGGTCATCGAAGGTCGG
166106 GGGAAGGAAAGAAGTTATTCTCAGCGTAGAAAATACAGAAAAGGAGAGAGTGGAAAAACAAAAGA
195 GGGAAGGAAAGAAGTTATTCTCAGCGTAGAAAATACAGAAAAGGAGAGAGTGGAAAAACAAAAGA
166171 AGTTTCTTCAGCTTTCGTTAATGGCGGTTAGGG
260 AGTTTCTTCAGCTTTCGTTAATGGCGGTTAGGG
*
166204 TTTTCTATTGATCCTCTTTCACAGGGGAAATTCTTATTTCTCTCCCGCCTAGTATGCCAATAGCC
1 TTTTCTATTGATCCTCTTTCACAGGGGAAATTCTTATTTCTCTCCCGCCTAGTATTCCAATAGCC
*
166269 CGCTCTTCTTTCCCTCTTCTCATTTCCCAAAAGCCCTAATTCCTGAATCTCCCCTAAGTCTCTCA
66 CGCTCTTC--T-CCTCTTCTCATTTCCCAAAAGCCCTAATTCCTGAGTCTCCCCTAAGTCTCTCA
166334 ATTTTAACTTCCGAGTCCTCAATCTTTACGGTTCCCCGTGGCTATTTTCTTGGTCATCGAAGGTC
128 ATTTTAACTTCCGAGTCCTCAATCTTTACGGTTCCCCGTGGCTATTTTCTTGGTCATCGAAGGTC
* *
166399 GGGGGAAGGAAAGAAGTTATTCTTAGCGTAGAAAATACAGAAAAGGAGAGAGTGGAAAAAGAAAA
193 GGGGGAAGGAAAGAAGTTATTCTCAGCGTAGAAAATACAGAAAAGGAGAGAGTGGAAAAACAAAA
*
166464 GAAGTTTCTTCAGCTTTCGTTAATGGCGGTTAGTG
258 GAAGTTTCTTCAGCTTTCGTTAATGGCGGTTAGGG
166499 TTTTCTATTGAT-CTCCTTTCACAGGGGAAATTCTTATTTCTCTCCCGCCTAGTATTCCAATAGC
1 TTTTCTATTGATCCT-CTTTCACAGGGGAAATTCTTATTTCTCTCCCGCCTAGTATTCCAATAGC
166563 CCG--C-TCT--TC-TCTCATTTCCCAAAAGCCCTAATTCCTGAGTCTCCCCTAAGTCTCTCAAT
65 CCGCTCTTCTCCTCTTCTCATTTCCCAAAAGCCCTAATTCCTGAGTCTCCCCTAAGTCTCTCAAT
*
166622 TTTAACTTCCGAGTCCTCAATCTTTACGGTTCCCCGTGGCTTTTTT
130 TTTAACTTCCGAGTCCTCAATCTTTACGGTTCCCCGTGGCTATTTT
166668 GGGATTCCAG
Statistics
Matches: 447, Mismatches: 11, Indels: 17
0.94 0.02 0.04
Matches are distributed among these distances:
286 94 0.21
287 2 0.00
290 1 0.00
291 71 0.16
292 2 0.00
293 44 0.10
294 3 0.01
295 230 0.51
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (292 bp):
TTTTCTATTGATCCTCTTTCACAGGGGAAATTCTTATTTCTCTCCCGCCTAGTATTCCAATAGCC
CGCTCTTCTCCTCTTCTCATTTCCCAAAAGCCCTAATTCCTGAGTCTCCCCTAAGTCTCTCAATT
TTAACTTCCGAGTCCTCAATCTTTACGGTTCCCCGTGGCTATTTTCTTGGTCATCGAAGGTCGGG
GGAAGGAAAGAAGTTATTCTCAGCGTAGAAAATACAGAAAAGGAGAGAGTGGAAAAACAAAAGAA
GTTTCTTCAGCTTTCGTTAATGGCGGTTAGGG
Found at i:175485 original size:3 final size:3
Alignment explanation
Indices: 175477--175501 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
175467 CTCGTTGACT
175477 ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG A
175502 AGACTACAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:177589 original size:2 final size:2
Alignment explanation
Indices: 177582--177611 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
177572 TCGTAGTCAT
177582 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
177612 AACGAAACGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:187172 original size:7 final size:7
Alignment explanation
Indices: 187160--187198 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
187150 CTTAAGTTGC
187160 TTCCACA
1 TTCCACA
187167 TTCCACA
1 TTCCACA
187174 TTCCACA
1 TTCCACA
187181 TTCCACA
1 TTCCACA
187188 TTCCACA
1 TTCCACA
187195 TTCC
1 TTCC
187199 TTCGTTTGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.26, C:0.44, G:0.00, T:0.31
Consensus pattern (7 bp):
TTCCACA
Found at i:187652 original size:17 final size:17
Alignment explanation
Indices: 187632--187667 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
187622 CAATAAATTC
187632 TAGTATTATGTCAGTGA
1 TAGTATTATGTCAGTGA
187649 TAGTATTATGTCAGTGA
1 TAGTATTATGTCAGTGA
187666 TA
1 TA
187668 ACATCACCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.42
Consensus pattern (17 bp):
TAGTATTATGTCAGTGA
Found at i:194169 original size:130 final size:130
Alignment explanation
Indices: 194033--194280 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
194023 TATTTATATA
*
194033 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * *
194098 TTAGCACATGATCATGACACGTGTCATTGGTGACACGTGTTACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
194163 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * * *
194228 TTAACACATGATCATGATATGTGTTATTGGTGACACATGTCACCTCCTAATTA
66 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTA
194281 GAAGAAAATT
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:194311 original size:130 final size:129
Alignment explanation
Indices: 194047--194311 Score: 309
Period size: 130 Copynumber: 2.0 Consensus size: 129
194037 ATTTGGTCCT
* *
194047 AAATTAAATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
* * *** * * **** *
194112 TGACACGTGTCATTGGTGACACGTGTTACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
194177 AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
* * * * *
194242 TGATATGTGTTATTGGTGACACATGTCACCTCCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACGTGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
194306 -A
128 CA
194307 AAATT
1 AAATT
194312 TGGGTCTTGG
Statistics
Matches: 113, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
130 100 0.88
132 8 0.07
133 5 0.04
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.35
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
TGACACGTGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:194762 original size:15 final size:16
Alignment explanation
Indices: 194738--194774 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
194728 TTTAATTTCT
194738 TATT-AAAAATA-AAA
1 TATTCAAAAATATAAA
194752 TATTCAAAAATATAAA
1 TATTCAAAAATATAAA
194768 TGATTCA
1 T-ATTCA
194775 TACATTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 7 0.35
16 4 0.20
17 5 0.25
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (16 bp):
TATTCAAAAATATAAA
Found at i:194831 original size:30 final size:30
Alignment explanation
Indices: 194774--194831 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
194764 TAAATGATTC
* **
194774 ATACATTAATATATGAATATATTTTTATTT
1 ATACATTAATATATAAATATACATTTATTT
194804 ATACATCTAA-ATATAAATATACATTTAT
1 ATACAT-TAATATATAAATATACATTTAT
194832 AAATATTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.47
Consensus pattern (30 bp):
ATACATTAATATATAAATATACATTTATTT
Found at i:194918 original size:21 final size:21
Alignment explanation
Indices: 194894--194936 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
194884 TATTACCTTA
194894 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
194915 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
194936 A
1 A
194937 GGGTTTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (21 bp):
AATTGAAGTATTTTAGAATTT
Found at i:194954 original size:35 final size:35
Alignment explanation
Indices: 194905--194990 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
194895 ATTGAAGTAT
** * *
194905 TTTAGAATTTAATTGAAGTATTTTAGAATTTAGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
* * *
194940 TTTAGAATAAAATTGAATTACTTTGGAAATTGGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
*
194975 TTTAGAATGAAATTGA
1 TTTAGAATAAAATTGA
194991 TGACTGTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (35 bp):
TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
Found at i:202797 original size:33 final size:33
Alignment explanation
Indices: 202755--202820 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
202745 CTGTTCACCA
202755 TCAGTGTCGAGCACAGGATCATTTGTAGCGTTT
1 TCAGTGTCGAGCACAGGATCATTTGTAGCGTTT
202788 TCAGTGTCGAGCACAGGATCATTTGTAGCGTTT
1 TCAGTGTCGAGCACAGGATCATTTGTAGCGTTT
202821 GCCACCCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.33
Consensus pattern (33 bp):
TCAGTGTCGAGCACAGGATCATTTGTAGCGTTT
Found at i:203014 original size:2 final size:2
Alignment explanation
Indices: 203007--203078 Score: 128
Period size: 2 Copynumber: 36.5 Consensus size: 2
202997 CAACAGCTTT
203007 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
*
203049 TA TC T- 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 T
203079 TATTTTTTGT
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
1 1 0.01
2 67 0.99
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:203378 original size:5 final size:5
Alignment explanation
Indices: 203368--203411 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
203358 ATTCATTGTT
* *
203368 TTTTA TTTTA TTTTA TTATA TTGTA TTTTA CTTTT- TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTT
203412 TTAATAACTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
4 4 0.12
5 26 0.76
6 4 0.12
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:203390 original size:25 final size:25
Alignment explanation
Indices: 203362--203409 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
203352 GTCGATATTC
*
203362 ATTGTTTTTTA-TTTTATTTTATTAT
1 ATTGTATTTTACTTTT-TTTTATTAT
203387 ATTGTATTTTACTTTTTTTTATT
1 ATTGTATTTTACTTTTTTTTATT
203410 TTTTAATAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (25 bp):
ATTGTATTTTACTTTTTTTTATTAT
Found at i:206715 original size:23 final size:23
Alignment explanation
Indices: 206688--206739 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
206678 GAATTAAGGA
206688 TTAAACTGAA-GTTATTAACAAAT
1 TTAAACT-AATGTTATTAACAAAT
* *
206711 TTAAACTAATTTTATTAACCAAT
1 TTAAACTAATGTTATTAACAAAT
206734 TCTAAA
1 T-TAAA
206740 TTATGGACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 2 0.08
23 19 0.76
24 4 0.16
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (23 bp):
TTAAACTAATGTTATTAACAAAT
Found at i:206784 original size:59 final size:59
Alignment explanation
Indices: 206721--206887 Score: 253
Period size: 59 Copynumber: 2.8 Consensus size: 59
206711 TTAAACTAAT
* * *
206721 TTTATTAACCAATTCTAAATTATGGACTAAACTAAATTAAGTAAGAAAGTTAAGTCAAA
1 TTTATTAACTAATTTTAAATTGTGGACTAAACTAAATTAAGTAAGAAAGTTAAGTCAAA
* *
206780 TTTATTAACTAATTTTAGATTGTGGACTAAACTAAATTAAGTAAGAAAGTTAGGTCAAA
1 TTTATTAACTAATTTTAAATTGTGGACTAAACTAAATTAAGTAAGAAAGTTAAGTCAAA
* * *
206839 TTTATTAACTAATTTTAACTTGTGGACTAAACAAAATCTAATTAAGAAA
1 TTTATTAACTAATTTTAAATTGTGGACTAAACTAAAT-TAAGTAAGAAA
206888 CAAGATTAAA
Statistics
Matches: 98, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
59 88 0.90
60 10 0.10
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.35
Consensus pattern (59 bp):
TTTATTAACTAATTTTAAATTGTGGACTAAACTAAATTAAGTAAGAAAGTTAAGTCAAA
Found at i:206899 original size:59 final size:57
Alignment explanation
Indices: 206721--206917 Score: 236
Period size: 59 Copynumber: 3.4 Consensus size: 57
206711 TTAAACTAAT
* * *
206721 TTTATTAACCAATTCTAAATTATGGACTAAACTAAATTAAGTAAGAAAGTTAAGTCAAA
1 TTTATTAACTAATT-TTAATTGTGGACTAAACTAAATTAAGTAAGAAAG-TAAGTCAAA
*
206780 TTTATTAACTAATTTTAGATTGTGGACTAAACTAAATTAAGTAAGAAAGTTAGGTCAAA
1 TTTATTAACTAATTTTA-ATTGTGGACTAAACTAAATTAAGTAAGAAAG-TAAGTCAAA
* * * *
206839 TTTATTAACTAATTTTAACTTGTGGACTAAACAAAATCTAATTAAGAAA-CAAGATTAAA
1 TTTATTAACTAATTTTAA-TTGTGGACTAAACTAAAT-TAAGTAAGAAAGTAAG-TCAAA
206898 TTTATTAA-TCAATTTTAATT
1 TTTATTAACT-AATTTTAATT
206918 TTGGGAACCT
Statistics
Matches: 124, Mismatches: 9, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
58 8 0.06
59 106 0.85
60 10 0.08
ACGTcount: A:0.45, C:0.09, G:0.10, T:0.37
Consensus pattern (57 bp):
TTTATTAACTAATTTTAATTGTGGACTAAACTAAATTAAGTAAGAAAGTAAGTCAAA
Found at i:207817 original size:13 final size:13
Alignment explanation
Indices: 207799--207823 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
207789 ATGCATGTTA
207799 ACAAAATTAAAAT
1 ACAAAATTAAAAT
207812 ACAAAATTAAAA
1 ACAAAATTAAAA
207824 CGAATTGTAA
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:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (13 bp):
ACAAAATTAAAAT
Found at i:208015 original size:14 final size:15
Alignment explanation
Indices: 207959--208015 Score: 57
Period size: 14 Copynumber: 3.9 Consensus size: 15
207949 AATCCAAATA
*
207959 TTTTTA-ATTGTAAT
1 TTTTTATATTATAAT
*
207973 ATTATTATATTAT-AT
1 -TTTTTATATTATAAT
*
207988 TTTTTATGTTATAAT
1 TTTTTATATTATAAT
208003 TTTTTAT-TTATAA
1 TTTTTATATTATAA
208016 AAAATATTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
14 16 0.44
15 16 0.44
16 4 0.11
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.65
Consensus pattern (15 bp):
TTTTTATATTATAAT
Found at i:208481 original size:31 final size:31
Alignment explanation
Indices: 208374--208484 Score: 105
Period size: 31 Copynumber: 3.6 Consensus size: 31
208364 TTTGATCGAA
*
208374 TTTATGAATTAAATTGATATTTTATTTAAAG
1 TTTATGAATTAAATTAATATTTTATTTAAAG
* * * * * * * *
208405 CTTAGGTATTAAATGAATATATGATCTAAAA
1 TTTATGAATTAAATTAATATTTTATTTAAAG
* *
208436 TTCATTAATTAAATTAATATTTTATTTAAAG
1 TTTATGAATTAAATTAATATTTTATTTAAAG
* *
208467 TTTAAGAATCAAATTAAT
1 TTTATGAATTAAATTAAT
208485 CGTTAATCTA
Statistics
Matches: 57, Mismatches: 23, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
31 57 1.00
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (31 bp):
TTTATGAATTAAATTAATATTTTATTTAAAG
Found at i:210812 original size:27 final size:28
Alignment explanation
Indices: 210782--210837 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
210772 ATATATCAAA
*
210782 TACAATCTAAAATTATAAAAAA-ATATT
1 TACAATATAAAATTATAAAAAAGATATT
* * *
210809 TACAATATTATATTTTAAAAAAGATATT
1 TACAATATAAAATTATAAAAAAGATATT
210837 T
1 T
210838 TGAGGGTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (28 bp):
TACAATATAAAATTATAAAAAAGATATT
Found at i:212096 original size:15 final size:15
Alignment explanation
Indices: 212050--212113 Score: 71
Period size: 15 Copynumber: 4.4 Consensus size: 15
212040 AATCAAATCC
212050 ATAATTTTTTA-ATT
1 ATAATTTTTTATATT
* *
212064 GTAATATTATTATATT
1 ATAAT-TTTTTATATT
*
212080 ATAATTTTTTATGTT
1 ATAATTTTTTATATT
212095 ATAA-TTTTTAT-TT
1 ATAATTTTTTATATT
212108 ATAATT
1 ATAATT
212114 AATATTACAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
13 6 0.14
14 12 0.29
15 17 0.40
16 7 0.17
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
ATAATTTTTTATATT
Found at i:212403 original size:20 final size:21
Alignment explanation
Indices: 212366--212404 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
212356 ACAATCGTCG
**
212366 GTGGGTGATCGATGGCGATCA
1 GTGGGTGATCGACAGCGATCA
212387 GTGGGTG-TCGACAGCGAT
1 GTGGGTGATCGACAGCGAT
212405 AACAATTGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.18, C:0.15, G:0.44, T:0.23
Consensus pattern (21 bp):
GTGGGTGATCGACAGCGATCA
Found at i:214760 original size:2 final size:2
Alignment explanation
Indices: 214753--214778 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
214743 ACCGTATAAG
214753 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
214779 TCATATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:216140 original size:15 final size:15
Alignment explanation
Indices: 216094--216157 Score: 71
Period size: 15 Copynumber: 4.4 Consensus size: 15
216084 AATCAAATCC
216094 ATAATTTTTTA-ATT
1 ATAATTTTTTATATT
* *
216108 GTAATATTATTATATT
1 ATAAT-TTTTTATATT
*
216124 ATAATTTTTTATGTT
1 ATAATTTTTTATATT
216139 ATAA-TTTTTAT-TT
1 ATAATTTTTTATATT
216152 ATAATT
1 ATAATT
216158 AATATTACAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
13 6 0.14
14 12 0.29
15 17 0.40
16 7 0.17
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
ATAATTTTTTATATT
Found at i:216537 original size:30 final size:29
Alignment explanation
Indices: 216503--216584 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 29
216493 AATTTATGGG
*
216503 TTAAATTGATATTTTATTTAAATT-TTGATA
1 TTAAATTAATATTTTATTTAAATTATT-A-A
* *
216533 TTAAA-TAATATCTTATCTAAAATTCATTAA
1 TTAAATTAATATTTTAT-TTAAATT-ATTAA
216563 TTAAATTAATATTTTATTTAAA
1 TTAAATTAATATTTTATTTAAA
216585 GTTTAAGAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
29 9 0.21
30 21 0.49
31 11 0.26
32 2 0.05
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (29 bp):
TTAAATTAATATTTTATTTAAATTATTAA
Found at i:216598 original size:31 final size:31
Alignment explanation
Indices: 216502--216602 Score: 98
Period size: 31 Copynumber: 3.3 Consensus size: 31
216492 GAATTTATGG
* * *
216502 GTTAAATTGATATTTTATTTAAATTTTGATA
1 GTTAAATTAATATTTTATTTAAAATTTAATA
* * * *
216533 -TTAAA-TAATATCTTATCTAAAATTCATTA
1 GTTAAATTAATATTTTATTTAAAATTTAATA
* * *
216562 ATTAAATTAATATTTTATTTAAAGTTTAAGA
1 GTTAAATTAATATTTTATTTAAAATTTAATA
216593 GTTAAATTAA
1 GTTAAATTAA
216603 ACATTAATCT
Statistics
Matches: 54, Mismatches: 14, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
29 17 0.31
30 10 0.19
31 27 0.50
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (31 bp):
GTTAAATTAATATTTTATTTAAAATTTAATA
Found at i:220467 original size:17 final size:18
Alignment explanation
Indices: 220438--220474 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
220428 ATATTTAATA
220438 GTTTATTCTATCAA-TTT
1 GTTTATTCTATCAAGTTT
220455 GTTTAATTC-ATCAAGTTT
1 GTTT-ATTCTATCAAGTTT
220473 GT
1 GT
220475 CTAAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.54
Consensus pattern (18 bp):
GTTTATTCTATCAAGTTT
Found at i:222836 original size:60 final size:59
Alignment explanation
Indices: 222721--222843 Score: 149
Period size: 60 Copynumber: 2.1 Consensus size: 59
222711 TAGTTGGATG
* * * *
222721 ATTATTTTATAACTTTTAATAGTCAGAGACTCAACAAAACAACACCTTATAATCGAGAT
1 ATTACTTTATAACTTTTAATAGTCAAAGACTCAACAAAACAACACCCTATAATCGAAAT
* ** *
222780 ATTACTTTATAGA-TTTTAATAGTCGAAAGATTCAACAAAGTAATACCCTATAATCGAAAT
1 ATTACTTTATA-ACTTTTAATAGTC-AAAGACTCAACAAAACAACACCCTATAATCGAAAT
222840 ATTA
1 ATTA
222844 TTTGTGTATT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 21 0.39
60 33 0.61
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (59 bp):
ATTACTTTATAACTTTTAATAGTCAAAGACTCAACAAAACAACACCCTATAATCGAAAT
Found at i:223202 original size:22 final size:25
Alignment explanation
Indices: 223177--223232 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 25
223167 AATATTCCTG
223177 ATAAATTACATT-TTAAAAA-A-TA
1 ATAAATTACATTCTTAAAAATATTA
223199 AT-AATTAACATTCTTAAAAATATTTA
1 ATAAATT-ACATTCTTAAAAATA-TTA
223225 ATAAATTA
1 ATAAATTA
223233 TGATAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
21 4 0.14
22 7 0.25
23 7 0.25
24 1 0.04
26 5 0.18
27 4 0.14
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (25 bp):
ATAAATTACATTCTTAAAAATATTA
Found at i:224555 original size:24 final size:26
Alignment explanation
Indices: 224527--224578 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
224517 TGTTATGAGA
224527 AATT-ACATT-TTAAAAA-ATTATAAT
1 AATTAACATTCTTAAAAATATT-TAAT
224551 AATTAACATTCTTAAAAATATTTAAT
1 AATTAACATTCTTAAAAATATTTAAT
224577 AA
1 AA
224579 ATTATGATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 4 0.16
25 5 0.20
26 13 0.52
27 3 0.12
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (26 bp):
AATTAACATTCTTAAAAATATTTAAT
Found at i:225264 original size:129 final size:129
Alignment explanation
Indices: 225034--225286 Score: 506
Period size: 129 Copynumber: 2.0 Consensus size: 129
225024 GAGTAAACAT
225034 TAGAATCTTATGACTCACGTCAACACTAAGGGTAGTTATATACATTCCTCATGCAAGACTGAAAG
1 TAGAATCTTATGACTCACGTCAACACTAAGGGTAGTTATATACATTCCTCATGCAAGACTGAAAG
225099 GGATATGGACTCTCTCTCTCTCTCAACCTCAAATCACCTATGGCCTTAAGCTCATTATTACTCA
66 GGATATGGACTCTCTCTCTCTCTCAACCTCAAATCACCTATGGCCTTAAGCTCATTATTACTCA
225163 TAGAATCTTATGACTCACGTCAACACTAAGGGTAGTTATATACATTCCTCATGCAAGACTGAAAG
1 TAGAATCTTATGACTCACGTCAACACTAAGGGTAGTTATATACATTCCTCATGCAAGACTGAAAG
225228 GGATATGGACTCTCTCTCTCTCTCAACCTCAAATCACCTATGGCCTTAAGCTCATTATT
66 GGATATGGACTCTCTCTCTCTCTCAACCTCAAATCACCTATGGCCTTAAGCTCATTATT
225287 TTCTTAAATA
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
129 124 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (129 bp):
TAGAATCTTATGACTCACGTCAACACTAAGGGTAGTTATATACATTCCTCATGCAAGACTGAAAG
GGATATGGACTCTCTCTCTCTCTCAACCTCAAATCACCTATGGCCTTAAGCTCATTATTACTCA
Found at i:237937 original size:40 final size:40
Alignment explanation
Indices: 237893--237973 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
237883 AAACACAAAA
237893 TAGGGCTATTGGATATATATAGCCGTGAGATGAAGATGTT
1 TAGGGCTATTGGATATATATAGCCGTGAGATGAAGATGTT
*
237933 TAGGGCTATTGGATATATATAGCCGTGAGATGCAGATGTT
1 TAGGGCTATTGGATATATATAGCCGTGAGATGAAGATGTT
237973 T
1 T
237974 GTTTCTCTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.28, C:0.09, G:0.30, T:0.33
Consensus pattern (40 bp):
TAGGGCTATTGGATATATATAGCCGTGAGATGAAGATGTT
Found at i:238588 original size:13 final size:14
Alignment explanation
Indices: 238567--238595 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
238557 GATTTTTAAA
238567 ATATATTTTTTTTC
1 ATATATTTTTTTTC
238581 ATAT-TTTTTTTTC
1 ATATATTTTTTTTC
238594 AT
1 AT
238596 TTGTATTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (14 bp):
ATATATTTTTTTTC
Done.