Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 69 of 378
Found at i:18039699 original size:70 final size:71
Alignment explanation
Indices: 18039612--18039774 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
18039602 CGATTTGTCT
18039612 CGTAGCTCTCTTGTCTACATGGTGTCC-TCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
18039676 CTTTCA
66 CTTTCA
18039682 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
18039747 CTTTCA
66 CTTTCA
18039753 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
18039775 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 27 0.29
71 65 0.71
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:18039812 original size:71 final size:70
Alignment explanation
Indices: 18039612--18039808 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
18039602 CGATTTGTCT
* * *
18039612 CGTAGCTCTCTTGTCTACATGGTGT-CCTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
18039676 CTTTCA
65 CTTTCA
* * * *
18039682 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
18039747 CTTTCA
65 CTTTCA
* *
18039753 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
18039809 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 26 0.22
71 69 0.58
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:18047469 original size:28 final size:28
Alignment explanation
Indices: 18047423--18047490 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
18047413 GCGTAGATCA
18047423 CGAAATTA-CCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
18047450 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
18047478 CGATA-TACCCCTA
1 CGAAATTACCCCTA
18047491 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 16 0.41
28 23 0.59
ACGTcount: A:0.44, C:0.26, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:18053762 original size:20 final size:20
Alignment explanation
Indices: 18053737--18053774 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18053727 GTTTATTCGC
*
18053737 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
18053757 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
18053775 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:18055433 original size:28 final size:28
Alignment explanation
Indices: 18055401--18055469 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
18055391 GCGTAGATCA
18055401 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
18055429 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
18055457 CGATA-TACCCCTA
1 CGAAATTACCCCTA
18055470 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:18068501 original size:22 final size:23
Alignment explanation
Indices: 18068456--18068510 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
18068446 ATTCACTAAT
* *
18068456 TCATCACAATATCATCTATTTCA
1 TCATCACAAAATCATCTATATCA
18068479 T-ATCACAAAACTCATC-ATATCA
1 TCATCACAAAA-TCATCTATATCA
*
18068501 TCATCTCAAA
1 TCATCACAAA
18068511 CCAAACCAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 14 0.52
23 13 0.48
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (23 bp):
TCATCACAAAATCATCTATATCA
Found at i:18069219 original size:40 final size:40
Alignment explanation
Indices: 18069164--18069260 Score: 110
Period size: 40 Copynumber: 2.4 Consensus size: 40
18069154 CTATCTCGAT
*
18069164 ATCGCACACTTAGTGCCTCA-TATAGCCGAAACTATTCT-A
1 ATCGCACACTAAGTGCCT-ATTATAGCCGAAACTATTCTGA
* *
18069203 ATTCGCACACTAAGTG-CTATTTATAGCCGAAGCTATTTTGA
1 A-TCGCACACTAAGTGCCTA-TTATAGCCGAAACTATTCTGA
*
18069244 AACGCACACTAAGTGCC
1 ATCGCACACTAAGTGCC
18069261 AAACATAGTC
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
38 1 0.02
39 3 0.06
40 42 0.86
41 3 0.06
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (40 bp):
ATCGCACACTAAGTGCCTATTATAGCCGAAACTATTCTGA
Found at i:18074393 original size:4 final size:4
Alignment explanation
Indices: 18074384--18074416 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
18074374 CACACGCCTC
18074384 CTCA CTCA CTCA CTCA CTCA CTCA CTCA CTCA C
1 CTCA CTCA CTCA CTCA CTCA CTCA CTCA CTCA C
18074417 CAAGTAGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.52, G:0.00, T:0.24
Consensus pattern (4 bp):
CTCA
Found at i:18076476 original size:21 final size:21
Alignment explanation
Indices: 18076450--18076530 Score: 81
Period size: 21 Copynumber: 3.9 Consensus size: 21
18076440 GTTCTACTTA
*
18076450 TATGAGTTTCTGTTCAGCACT
1 TATGAGCTTCTGTTCAGCACT
* * * *
18076471 TTTGAGCTTCTGTTTAACCCT
1 TATGAGCTTCTGTTCAGCACT
* * *
18076492 TATGGGTTTCTGTTTAGCACT
1 TATGAGCTTCTGTTCAGCACT
*
18076513 TATGTGCTTCTGTTCAGC
1 TATGAGCTTCTGTTCAGC
18076531 CTTCGGGCTT
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.46
Consensus pattern (21 bp):
TATGAGCTTCTGTTCAGCACT
Found at i:18076478 original size:42 final size:43
Alignment explanation
Indices: 18076432--18076527 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 43
18076422 TAGCTATCAC
* *
18076432 GAGCTTCTGTTCT-A-CTTATATGAGTTTCTGTTCAGCACTTTT
1 GAGCTTCTGTTCTAACCCT-TATGAGTTTCTGTTCAGCACTTAT
* *
18076474 GAGCTTCTGTT-TAACCCTTATGGGTTTCTGTTTAGCACTTAT
1 GAGCTTCTGTTCTAACCCTTATGAGTTTCTGTTCAGCACTTAT
*
18076516 GTGCTTCTGTTC
1 GAGCTTCTGTTC
18076528 AGCCTTCGGG
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
41 1 0.02
42 43 0.93
43 2 0.04
ACGTcount: A:0.15, C:0.20, G:0.19, T:0.47
Consensus pattern (43 bp):
GAGCTTCTGTTCTAACCCTTATGAGTTTCTGTTCAGCACTTAT
Found at i:18077615 original size:31 final size:31
Alignment explanation
Indices: 18077577--18077640 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
18077567 CCTTTTCATA
18077577 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
18077608 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
18077639 TT
1 TT
18077641 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:18077877 original size:24 final size:24
Alignment explanation
Indices: 18077831--18077949 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
18077821 GCTTTATCAT
*
18077831 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
18077856 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
18077880 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
**
18077903 ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTA
18077927 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
18077950 TCACTTCCTC
Statistics
Matches: 85, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
23 24 0.28
24 48 0.56
25 13 0.15
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:18077910 original size:47 final size:48
Alignment explanation
Indices: 18077831--18077949 Score: 172
Period size: 47 Copynumber: 2.5 Consensus size: 48
18077821 GCTTTATCAT
*
18077831 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGG-CATAAGCCCTTTCA
*
18077880 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
18077927 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
18077950 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
46 2 0.03
47 43 0.65
48 9 0.14
49 12 0.18
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:18078025 original size:20 final size:20
Alignment explanation
Indices: 18078000--18078059 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
18077990 TATGATTACC
18078000 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
18078020 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
18078040 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
18078060 CCATCTTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:18078030 original size:11 final size:11
Alignment explanation
Indices: 18078000--18078054 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
18077990 TATGATTACC
18078000 TCATGTGCATA
1 TCATGTGCATA
*
18078011 TCA--TACATA
1 TCATGTGCATA
18078020 TCATGTGCATA
1 TCATGTGCATA
* *
18078031 TCA--TACATT
1 TCATGTGCATA
18078040 TCATGTGCATA
1 TCATGTGCATA
18078051 TCAT
1 TCAT
18078055 ACATACCATC
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:18081592 original size:10 final size:10
Alignment explanation
Indices: 18081577--18081601 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
18081567 CTAATCATTT
18081577 TATCCGAAAC
1 TATCCGAAAC
18081587 TATCCGAAAC
1 TATCCGAAAC
18081597 TATCC
1 TATCC
18081602 TCAACAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.32, G:0.08, T:0.24
Consensus pattern (10 bp):
TATCCGAAAC
Found at i:18096158 original size:23 final size:20
Alignment explanation
Indices: 18096118--18096158 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
18096108 GTTTGATAGT
18096118 TCAATTTTTGTTAGCTTAAC
1 TCAATTTTTGTTAGCTTAAC
18096138 TCAATTTCTTAGTGTAGCTTA
1 TCAATTT-TT-GT-TAGCTTA
18096159 TTAAACCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
22 2 0.11
23 7 0.39
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.49
Consensus pattern (20 bp):
TCAATTTTTGTTAGCTTAAC
Found at i:18102358 original size:41 final size:39
Alignment explanation
Indices: 18102313--18102419 Score: 103
Period size: 37 Copynumber: 2.7 Consensus size: 39
18102303 CTTCGAGTCA
* **
18102313 ATGAGACACTAGGTGTCAATTCATTACTTTGGATATATTCG
1 ATGAGACACTAGGTGTCAATT-ATTACTTTAG-TATAGCCG
* * *
18102354 ATGAGGCACT-GAGTGCCAA-T-TTACTTTAGTTTAGCCG
1 ATGAGACACTAG-GTGTCAATTATTACTTTAGTATAGCCG
18102391 ATGAGACACTAGGTGTCAAATTATTACTT
1 ATGAGACACTAGGTGTC-AATTATTACTT
18102420 CGAATTATCC
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
37 18 0.34
38 11 0.21
39 1 0.02
40 8 0.15
41 15 0.28
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.35
Consensus pattern (39 bp):
ATGAGACACTAGGTGTCAATTATTACTTTAGTATAGCCG
Found at i:18102636 original size:24 final size:24
Alignment explanation
Indices: 18102590--18102636 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
18102580 GAAATATCAA
*
18102590 ATGAAATGCATGAATTATGTGTTC
1 ATGAAATGCATAAATTATGTGTTC
*
18102614 ATGAAATGGATAATATTAT-TGTT
1 ATGAAATGCATAA-ATTATGTGTT
18102637 AATTGACATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.36, C:0.04, G:0.19, T:0.40
Consensus pattern (24 bp):
ATGAAATGCATAAATTATGTGTTC
Found at i:18112491 original size:15 final size:15
Alignment explanation
Indices: 18112473--18112516 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
18112463 GAAGCCCAGA
18112473 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
18112488 ATAAAGAAATTCATG
1 ATAAAGAAATCCAAG
*
18112503 ATAAGGAAATCCAA
1 ATAAAGAAATCCAA
18112517 TTTACAACAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.57, C:0.11, G:0.14, T:0.18
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:18121113 original size:22 final size:22
Alignment explanation
Indices: 18121088--18121132 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
18121078 CAAACTAAGC
18121088 AAATATTCAATATGCTTAAACT
1 AAATATTCAATATGCTTAAACT
18121110 AAATATTCAATATGCTTAAACT
1 AAATATTCAATATGCTTAAACT
18121132 A
1 A
18121133 GTTTGTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.36
Consensus pattern (22 bp):
AAATATTCAATATGCTTAAACT
Found at i:18121995 original size:12 final size:11
Alignment explanation
Indices: 18121967--18122000 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
18121957 ATAATTCTCG
18121967 ATAATTTTTAA
1 ATAATTTTTAA
*
18121978 ATAATTTTCTAT
1 ATAATTTT-TAA
18121990 ATAATTTTTAA
1 ATAATTTTTAA
18122001 TATTTATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (11 bp):
ATAATTTTTAA
Found at i:18122003 original size:12 final size:12
Alignment explanation
Indices: 18121967--18122003 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
18121957 ATAATTCTCG
18121967 ATAATTTTTAA-
1 ATAATTTTTAAT
18121978 ATAATTTTCT-AT
1 ATAATTTT-TAAT
18121990 ATAATTTTTAAT
1 ATAATTTTTAAT
18122002 AT
1 AT
18122004 TTATATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (12 bp):
ATAATTTTTAAT
Found at i:18122128 original size:17 final size:17
Alignment explanation
Indices: 18122099--18122131 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
18122089 TAAATATAAA
18122099 AAAATATTTATTTTTAT
1 AAAATATTTATTTTTAT
18122116 AAAAT-TTTAATTTTTA
1 AAAATATTT-ATTTTTA
18122132 AATATTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
AAAATATTTATTTTTAT
Found at i:18122274 original size:26 final size:24
Alignment explanation
Indices: 18122227--18122278 Score: 77
Period size: 26 Copynumber: 2.1 Consensus size: 24
18122217 ATGGATGAAA
*
18122227 TTTTTAATTAAATGACTAATTTAT
1 TTTTTAATTAAATAACTAATTTAT
18122251 TTTTTAATCTACAATAACTAATTTAT
1 TTTTTAAT-TA-AATAACTAATTTAT
18122277 TT
1 TT
18122279 ATTTTTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 8 0.32
25 2 0.08
26 15 0.60
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.54
Consensus pattern (24 bp):
TTTTTAATTAAATAACTAATTTAT
Found at i:18125043 original size:28 final size:28
Alignment explanation
Indices: 18125012--18125068 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
18125002 TCGTATTCCC
18125012 TTAAATTAAAATTAAAT-AATAGAAAATT
1 TTAAATT-AAATTAAATAAATAGAAAATT
* * *
18125040 TTAAATTTAATTATATAAATATAAAATT
1 TTAAATTAAATTAAATAAATAGAAAATT
18125068 T
1 T
18125069 ATAATATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 7 0.28
28 18 0.72
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (28 bp):
TTAAATTAAATTAAATAAATAGAAAATT
Found at i:18125057 original size:27 final size:27
Alignment explanation
Indices: 18125012--18125086 Score: 69
Period size: 28 Copynumber: 2.6 Consensus size: 27
18125002 TCGTATTCCC
* *
18125012 TTAAATTAAAATTAAATAATAGAAAATT
1 TTAAATT-TAATTATATAATAGAAAATT
*
18125040 TTAAATTTAATTATATAAATATAAAATT
1 TTAAATTTAATTATAT-AATAGAAAATT
* *
18125068 TATAATATTTTATAATATA
1 T-TAA-ATTTAATTATATA
18125087 TGAATCGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 7 0.18
28 18 0.46
29 4 0.10
30 10 0.26
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (27 bp):
TTAAATTTAATTATATAATAGAAAATT
Found at i:18125389 original size:165 final size:162
Alignment explanation
Indices: 18125113--18125436 Score: 544
Period size: 165 Copynumber: 2.0 Consensus size: 162
18125103 ATAATTGAGC
* *
18125113 CACATTCGCTCAAGTTAGACTAAATTCAAAATGGATAATTAAGCTAAATTTGAGCAACATTTTGG
1 CACATTCACTCAAGCTAGACTAAATTCAAAATGGATAATTAAGCTAAATTTGAGCAACATTTTGG
* *
18125178 AACTAGACTGCAATTTAGGCAATGGATAAATCTACCCTTCTAGGATATTACTTTGCTAATACT-T
66 AACTAGACTGCAATTTAGGCAATGGATAAATCTACCCTTATAGGATATTACTTTGC-AAAACTCT
18125242 TTTCCTAACTTTTATCATATCAATACTTGCGCT
130 TTTCCTAACTTTTATCATATCAATACTTGCGCT
18125275 CACATTCACTCAAGCTAGACTAAATTCAAAATGGATAATTAAGCTAAATTTGAGCTAAAGCATTT
1 CACATTCACTCAAGCTAGACTAAATTCAAAATGGATAATTAAGCTAAATTTGAGC--AA-CATTT
*
18125340 TGGAACTAGACTGCAATTTAGGGC-ATGGATAAATCTACCCTTATAGGATATTACTTTGCAAAAT
63 TGGAACTAGACTGCAATTTA-GGCAATGGATAAATCTACCCTTATAGGATATTACTTTGCAAAAC
18125404 TCTTTTCCTAACTTTTATCATATCAATACTTGC
127 TCTTTTCCTAACTTTTATCATATCAATACTTGC
18125437 ATATCGAAAC
Statistics
Matches: 152, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
162 53 0.35
164 6 0.04
165 90 0.59
166 3 0.02
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (162 bp):
CACATTCACTCAAGCTAGACTAAATTCAAAATGGATAATTAAGCTAAATTTGAGCAACATTTTGG
AACTAGACTGCAATTTAGGCAATGGATAAATCTACCCTTATAGGATATTACTTTGCAAAACTCTT
TTCCTAACTTTTATCATATCAATACTTGCGCT
Found at i:18129358 original size:26 final size:26
Alignment explanation
Indices: 18129327--18129434 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
18129317 TGAAATGCCC
*
18129327 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
18129353 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
18129379 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
18129405 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
18129431 ATCA
1 ATCA
18129435 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:18129933 original size:12 final size:12
Alignment explanation
Indices: 18129916--18129940 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18129906 TTTTAAAATT
18129916 ATGAATAATATA
1 ATGAATAATATA
18129928 ATGAATAATATA
1 ATGAATAATATA
18129940 A
1 A
18129941 AACATAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
ATGAATAATATA
Found at i:18129997 original size:11 final size:11
Alignment explanation
Indices: 18129983--18130053 Score: 54
Period size: 11 Copynumber: 6.0 Consensus size: 11
18129973 TACATAACAT
*
18129983 ATAAAAAAATA
1 ATAAAAATATA
18129994 ATAAGTAATATATA
1 ATAA--AA-ATATA
18130008 ATAAAAATATA
1 ATAAAAATATA
*
18130019 ATAAATGTTATATA
1 ATAAA---AATATA
18130033 AT-AAAATATA
1 ATAAAAATATA
*
18130043 ATATAAATATA
1 ATAAAAATATA
18130054 TATAGGAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
10 7 0.14
11 21 0.43
12 2 0.04
13 4 0.08
14 15 0.31
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (11 bp):
ATAAAAATATA
Found at i:18130019 original size:25 final size:25
Alignment explanation
Indices: 18129983--18130055 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 25
18129973 TACATAACAT
* *
18129983 ATAAAAAAATAATAAGTAATATATA
1 ATAAAAATATAATAAATAATATATA
**
18130008 ATAAAAATATAATAAATGTTATATA
1 ATAAAAATATAATAAATAATATATA
*
18130033 AT-AAAATATAATATA-AATATATA
1 ATAAAAATATAATAAATAATATATA
18130056 TAGGAAAATA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
23 6 0.15
24 12 0.29
25 23 0.56
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (25 bp):
ATAAAAATATAATAAATAATATATA
Found at i:18131915 original size:26 final size:26
Alignment explanation
Indices: 18131886--18131941 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
18131876 TGGTACAAAT
*
18131886 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTACGTAAATGTTCCA
*
18131912 TGATAATGGTTTACGTAAATGTTCCA
1 TGATAATGGGTTACGTAAATGTTCCA
18131938 TGAT
1 TGAT
18131942 GGGCATTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTACGTAAATGTTCCA
Found at i:18136328 original size:26 final size:27
Alignment explanation
Indices: 18136299--18136352 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
18136289 TCACACAAGT
*
18136299 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
18136325 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
18136352 T
1 T
18136353 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:18136534 original size:27 final size:27
Alignment explanation
Indices: 18136353--18136552 Score: 220
Period size: 27 Copynumber: 7.4 Consensus size: 27
18136343 GGGGCAAAAT
* * * *
18136353 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
18136380 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
18136407 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
18136434 AGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
18136461 AGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
18136488 AATAATTCTACTCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * **
18136515 GGTAATTCTACCTTATAGGGACATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
18136542 GGTAATTCTAC
1 GGTAATTCTAC
18136553 AAGTTATCCA
Statistics
Matches: 145, Mismatches: 28, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 145 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:18148708 original size:16 final size:16
Alignment explanation
Indices: 18148687--18148720 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
18148677 TTGGGTTGTG
18148687 TGGGCC-ACACGGTGTA
1 TGGGCCGACACGG-GTA
18148703 TGGGCCGACACGGGTA
1 TGGGCCGACACGGGTA
18148719 TG
1 TG
18148721 TGGGATTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.18, C:0.24, G:0.41, T:0.18
Consensus pattern (16 bp):
TGGGCCGACACGGGTA
Found at i:18153432 original size:40 final size:40
Alignment explanation
Indices: 18153369--18153577 Score: 278
Period size: 40 Copynumber: 5.2 Consensus size: 40
18153359 GGATTTAGCT
* *
18153369 GGATATAG-CAACTCGCACAAATGCCTTTGGGTCTTAGCCC
1 GGATATAGTC-ACTAGCACAAATGCCTTTGGGACTTAGCCC
**
18153409 GGATATAGTCACTAGCATGAATGCCTTTGGGACTTAGCCC
1 GGATATAGTCACTAGCACAAATGCCTTTGGGACTTAGCCC
18153449 GGATATAGTCACTAGCACAAATGCCTTTGGGACTTAGCCC
1 GGATATAGTCACTAGCACAAATGCCTTTGGGACTTAGCCC
* *
18153489 GGGTATAG-CAACTACTCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTC-ACTA---GCACAAATGCCTTTGGGACTTAGCCC
* * *
18153532 GGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTCACTAGCACAAATGCCTTTGGGACTTAGCCC
18153572 GGATAT
1 GGATAT
18153578 CATCCGAATA
Statistics
Matches: 152, Mismatches: 11, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
39 1 0.01
40 115 0.76
41 1 0.01
43 35 0.23
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.25
Consensus pattern (40 bp):
GGATATAGTCACTAGCACAAATGCCTTTGGGACTTAGCCC
Found at i:18153550 original size:83 final size:80
Alignment explanation
Indices: 18153354--18153577 Score: 290
Period size: 83 Copynumber: 2.8 Consensus size: 80
18153344 ACCCAAGTAT
* * * * *
18153354 CTTCGGGATTTAG-CTGGATATAGCAACTCGCACAAATGCCTTTGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTTGGGACTTAGCCCGGATATAGT
**
18153418 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* * *
18153433 CTTTGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTTGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTTGGGACTTAGCCCGGATATAGT
18153497 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* *
18153516 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTTGGGACTTAGCCCGGATAT
18153578 CATCCGAATA
Statistics
Matches: 125, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
79 12 0.10
80 48 0.38
83 65 0.52
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTTGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:18161506 original size:40 final size:40
Alignment explanation
Indices: 18161428--18161651 Score: 310
Period size: 40 Copynumber: 5.5 Consensus size: 40
18161418 ACCCAAGTAT
* *
18161428 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
18161467 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
18161507 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
18161547 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
18161590 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
18161630 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
18161652 CATCCGAATA
Statistics
Matches: 166, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
39 12 0.07
40 117 0.70
41 1 0.01
43 36 0.22
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:18161624 original size:83 final size:80
Alignment explanation
Indices: 18161428--18161651 Score: 317
Period size: 83 Copynumber: 2.8 Consensus size: 80
18161418 ACCCAAGTAT
* * * *
18161428 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
18161492 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* *
18161507 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
18161571 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
*
18161590 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
18161652 CATCCGAATA
Statistics
Matches: 129, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 13 0.10
80 49 0.38
83 67 0.52
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:18167574 original size:71 final size:71
Alignment explanation
Indices: 18167490--18167653 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
18167480 CGATTTGTCT
18167490 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
18167555 CTTTCA
66 CTTTCA
18167561 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
18167626 CTTTCA
66 CTTTCA
18167632 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
18167654 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:18167691 original size:71 final size:70
Alignment explanation
Indices: 18167490--18167687 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
18167480 CGATTTGTCT
* * * *
18167490 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
18167555 CTTTCA
65 CTTTCA
* * * *
18167561 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
18167626 CTTTCA
65 CTTTCA
* *
18167632 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
18167688 TACAGGGTCT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:18177378 original size:29 final size:30
Alignment explanation
Indices: 18177340--18177403 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 30
18177330 AAATTATTAT
*
18177340 TTTAGATAATATTTTTAAA-TTTTTTATAA
1 TTTAAATAATATTTTTAAATTTTTTTATAA
18177369 TTTAAATAATATTTTTAAATTTTTTTATAA
1 TTTAAATAATATTTTTAAATTTTTTTATAA
18177399 TTTAA
1 TTTAA
18177404 CACTTATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 18 0.55
30 15 0.45
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (30 bp):
TTTAAATAATATTTTTAAATTTTTTTATAA
Found at i:18183496 original size:11 final size:11
Alignment explanation
Indices: 18183476--18183504 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
18183466 ATCTTTATGC
18183476 AAAAAA-TAAA
1 AAAAAATTAAA
18183486 AAAAAATTAAA
1 AAAAAATTAAA
18183497 AAAAAATT
1 AAAAAATT
18183505 GGTGGCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAAATTAAA
Found at i:18187809 original size:22 final size:22
Alignment explanation
Indices: 18187781--18187825 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
18187771 GAAAAAGGTG
18187781 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
18187803 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
18187825 T
1 T
18187826 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:18190786 original size:213 final size:213
Alignment explanation
Indices: 18190419--18190847 Score: 858
Period size: 213 Copynumber: 2.0 Consensus size: 213
18190409 GATCTGTCAC
18190419 CTGTGAATGCTCCCATTGATTCTCTTGTAGTACCTATGACTAATTCACCTACACCCACTTTAAAC
1 CTGTGAATGCTCCCATTGATTCTCTTGTAGTACCTATGACTAATTCACCTACACCCACTTTAAAC
18190484 ACTCTTCCTGAAAATACACCTACTCCAATTGACAGTCTTCAAAAAACACCACCACCCAAACAGCT
66 ACTCTTCCTGAAAATACACCTACTCCAATTGACAGTCTTCAAAAAACACCACCACCCAAACAGCT
18190549 TCGTGTCTACACAAGAAAAAGAAGACATATCCCTGAGACTGTTTTGCAATCTGATTCTTGCCGAG
131 TCGTGTCTACACAAGAAAAAGAAGACATATCCCTGAGACTGTTTTGCAATCTGATTCTTGCCGAG
18190614 AATTGGATTTGGGTCCAG
196 AATTGGATTTGGGTCCAG
18190632 CTGTGAATGCTCCCATTGATTCTCTTGTAGTACCTATGACTAATTCACCTACACCCACTTTAAAC
1 CTGTGAATGCTCCCATTGATTCTCTTGTAGTACCTATGACTAATTCACCTACACCCACTTTAAAC
18190697 ACTCTTCCTGAAAATACACCTACTCCAATTGACAGTCTTCAAAAAACACCACCACCCAAACAGCT
66 ACTCTTCCTGAAAATACACCTACTCCAATTGACAGTCTTCAAAAAACACCACCACCCAAACAGCT
18190762 TCGTGTCTACACAAGAAAAAGAAGACATATCCCTGAGACTGTTTTGCAATCTGATTCTTGCCGAG
131 TCGTGTCTACACAAGAAAAAGAAGACATATCCCTGAGACTGTTTTGCAATCTGATTCTTGCCGAG
18190827 AATTGGATTTGGGTCCAG
196 AATTGGATTTGGGTCCAG
18190845 CTG
1 CTG
18190848 CCGAAATGGA
Statistics
Matches: 216, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
213 216 1.00
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (213 bp):
CTGTGAATGCTCCCATTGATTCTCTTGTAGTACCTATGACTAATTCACCTACACCCACTTTAAAC
ACTCTTCCTGAAAATACACCTACTCCAATTGACAGTCTTCAAAAAACACCACCACCCAAACAGCT
TCGTGTCTACACAAGAAAAAGAAGACATATCCCTGAGACTGTTTTGCAATCTGATTCTTGCCGAG
AATTGGATTTGGGTCCAG
Found at i:18192591 original size:22 final size:22
Alignment explanation
Indices: 18192563--18192607 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
18192553 AGGGGGAGTG
18192563 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
18192585 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
18192607 T
1 T
18192608 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:18193078 original size:118 final size:117
Alignment explanation
Indices: 18192853--18193087 Score: 434
Period size: 117 Copynumber: 2.0 Consensus size: 117
18192843 ATTGTGCACA
*
18192853 ATAATTTATTCCTGACTAAAAAAGGCTCGCACGAATACACATGCATGTGGTTCAAACTGTTGACA
1 ATAATTTATTCCTGACTAAAAAAGGCTCACACGAATACACATGCATGTGGTTCAAACTGTTGACA
18192918 TAGTAAATGGTCATGTTTCCAAACAGTTGTAAACCTATTTCCCAATTCTAAC
66 TAGTAAATGGTCATGTTTCCAAACAGTTGTAAACCTATTTCCCAATTCTAAC
**
18192970 ATAATTTATTCCTGACTAAAAAAGGCTCACACGAATACACATGCATGTGGTTTGAACTGTATGAC
1 ATAATTTATTCCTGACTAAAAAAGGCTCACACGAATACACATGCATGTGGTTCAAACTGT-TGAC
18193035 ATAGTAAATGGTCATGTTTCCAAACAGTTGTAAACCTATTTCCCAATTCTAAC
65 ATAGTAAATGGTCATGTTTCCAAACAGTTGTAAACCTATTTCCCAATTCTAAC
18193088 CAGGGTTACA
Statistics
Matches: 114, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
117 57 0.50
118 57 0.50
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (117 bp):
ATAATTTATTCCTGACTAAAAAAGGCTCACACGAATACACATGCATGTGGTTCAAACTGTTGACA
TAGTAAATGGTCATGTTTCCAAACAGTTGTAAACCTATTTCCCAATTCTAAC
Found at i:18194284 original size:35 final size:36
Alignment explanation
Indices: 18194235--18194303 Score: 113
Period size: 35 Copynumber: 1.9 Consensus size: 36
18194225 CTTAGAAAAA
*
18194235 GCTTTTACTAATATTTCTAACGATTTACCAATATTG
1 GCTTTTACCAATATTTCTAACGATTTACCAATATTG
*
18194271 GCTTTT-CCAATATTTCTAAGGATTTACCAATAT
1 GCTTTTACCAATATTTCTAACGATTTACCAATAT
18194304 CGTTAGATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 25 0.81
36 6 0.19
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.43
Consensus pattern (36 bp):
GCTTTTACCAATATTTCTAACGATTTACCAATATTG
Found at i:18194302 original size:20 final size:20
Alignment explanation
Indices: 18194238--18194303 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
18194228 AGAAAAAGCT
* *
18194238 TTTACTAATATTTCTAACGA
1 TTTACCAATATTTCTAAGGA
*
18194258 TTTACCAATA--T-T--GGC
1 TTTACCAATATTTCTAAGGA
*
18194273 TTTTCCAATATTTCTAAGGA
1 TTTACCAATATTTCTAAGGA
18194293 TTTACCAATAT
1 TTTACCAATAT
18194304 CGTTAGATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
15 10 0.29
17 2 0.06
18 2 0.06
20 21 0.60
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.44
Consensus pattern (20 bp):
TTTACCAATATTTCTAAGGA
Found at i:18200935 original size:11 final size:11
Alignment explanation
Indices: 18200872--18200958 Score: 50
Period size: 11 Copynumber: 7.5 Consensus size: 11
18200862 CAAATGCATC
18200872 TAAAATAATAA
1 TAAAATAATAA
* * *
18200883 CAAGATTAACAA
1 TAA-AATAATAA
*
18200895 TAAAATAAAAA
1 TAAAATAATAA
*
18200906 TTATACAATATCTAA
1 -TA-A-AATA-ATAA
18200921 -AAAATAATAA
1 TAAAATAATAA
18200931 TAAAATAATAA
1 TAAAATAATAA
* *
18200942 CAATATAATAA
1 TAAAATAATAA
*
18200953 TGAAAT
1 TAAAAT
18200959 GATAGCAAAC
Statistics
Matches: 56, Mismatches: 14, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
10 3 0.05
11 34 0.61
12 11 0.20
13 2 0.04
14 4 0.07
15 2 0.04
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:18203035 original size:20 final size:21
Alignment explanation
Indices: 18202999--18203037 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
18202989 TTATCCCAAA
*
18202999 CTCTCAAACATTTTTACTTTT
1 CTCTCAAACACTTTTACTTTT
18203020 CTCTCAAA-ACTTTTACTT
1 CTCTCAAACACTTTTACTT
18203038 CTTCCCACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.49
Consensus pattern (21 bp):
CTCTCAAACACTTTTACTTTT
Found at i:18203210 original size:29 final size:30
Alignment explanation
Indices: 18203178--18203235 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
18203168 AACTTTTTAT
*
18203178 TTTTTCCC-AAAACTTTTACTCCTTCCCAC
1 TTTTCCCCTAAAACTTTTACTCCTTCCCAC
18203207 TTTTCCCCTAAAACTTTTACTCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCTTCCCA
18203236 TCCCACCTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.21, C:0.38, G:0.00, T:0.41
Consensus pattern (30 bp):
TTTTCCCCTAAAACTTTTACTCCTTCCCAC
Found at i:18203471 original size:17 final size:17
Alignment explanation
Indices: 18203441--18203536 Score: 65
Period size: 17 Copynumber: 5.5 Consensus size: 17
18203431 TAGTAATAAT
*
18203441 TTTAT-TTATATAAACTA
1 TTTATATTAT-TAAATTA
18203458 TTTATATTATTAAATTAAA
1 TTTATATTATTAAATT--A
* *
18203477 TTTCACATT-TTATATTA
1 TTT-ATATTATTAAATTA
*
18203494 TTTATATTATTAAATTG
1 TTTATATTATTAAATTA
*
18203511 TTTAGTCA-TATTGAA-TA
1 TTTA-T-ATTATTAAATTA
18203528 TTTATATTA
1 TTTATATTA
18203537 AAATTGAATT
Statistics
Matches: 63, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
15 1 0.02
16 7 0.11
17 29 0.46
18 11 0.17
19 11 0.17
20 4 0.06
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.55
Consensus pattern (17 bp):
TTTATATTATTAAATTA
Found at i:18204962 original size:33 final size:31
Alignment explanation
Indices: 18204888--18204963 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 31
18204878 TGTACATTAA
*
18204888 ATATACACTAATATAATAATAGTTATAATAAT
1 ATATACAC-AATATAATAATAGTAATAATAAT
* *
18204920 AT-TA-GCAATAGTAATAATTTGTAATAATAAT
1 ATATACACAATA-TAATAA-TAGTAATAATAAT
18204951 ATATACACAATAT
1 ATATACACAATAT
18204964 GGTATTTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
29 4 0.11
30 7 0.19
31 15 0.42
32 5 0.14
33 5 0.14
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (31 bp):
ATATACACAATATAATAATAGTAATAATAAT
Found at i:18205023 original size:2 final size:2
Alignment explanation
Indices: 18204974--18205004 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
18204964 GGTATTTAAA
*
18204974 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18205005 ATAGTATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18205583 original size:17 final size:17
Alignment explanation
Indices: 18205558--18205622 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 17
18205548 TAGGGTTTTT
*
18205558 TTAGTTTTTTTTTTGGG
1 TTAGGTTTTTTTTTGGG
***
18205575 TTAGGTTTTTCTTTTTTC
1 TTAGGTTTTT-TTTTGGG
**
18205593 TT-CTTTTTTTTTTGGGG
1 TTAGGTTTTTTTTT-GGG
18205610 TTAGGTTTTTTTT
1 TTAGGTTTTTTTT
18205623 AGGGGGGTTA
Statistics
Matches: 34, Mismatches: 11, Indels: 5
0.68 0.22 0.10
Matches are distributed among these distances:
16 4 0.12
17 16 0.47
18 14 0.41
ACGTcount: A:0.05, C:0.05, G:0.18, T:0.72
Consensus pattern (17 bp):
TTAGGTTTTTTTTTGGG
Found at i:18206703 original size:72 final size:72
Alignment explanation
Indices: 18206490--18206965 Score: 645
Period size: 72 Copynumber: 6.6 Consensus size: 72
18206480 GTGATCTGAA
*
18206490 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATTGAAATTACCTCA--
* *
18206555 ATGTGAAC-TGAG
61 ACGTG-TCTTGAG
* *
18206567 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAACG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAACAGAAATTGAAATTACCTCAACG
18206632 TGTCTTGAG
64 TGTCTTGAG
** *
18206641 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAACGTG
18206706 TCTTGAG
66 TCTTGAG
* * * *
18206713 GTTCAACTCA-TTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAACGTG
18206777 TCTTGAG
66 TCTTGAG
** * * *
18206784 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTAAAAACAG--ATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAACGTG
**
18206847 TCCCGAG
66 TCTTGAG
* *
18206854 GCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAACGTG
**
18206919 TCCCGAG
66 TCTTGAG
18206926 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
18206966 ATATAAATTG
Statistics
Matches: 375, Mismatches: 20, Indels: 13
0.92 0.05 0.03
Matches are distributed among these distances:
70 63 0.17
71 69 0.18
72 146 0.39
73 1 0.00
74 35 0.09
76 21 0.06
77 40 0.11
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (72 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAACGTG
TCTTGAG
Found at i:18206927 original size:142 final size:144
Alignment explanation
Indices: 18206490--18206966 Score: 649
Period size: 142 Copynumber: 3.3 Consensus size: 144
18206480 GTGATCTGAA
* * *
18206490 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAAAACAG-AATTGAAATTACCTCAGC
**
18206555 ATGTGAACTGAGGCTCAACTCACCTCTCGCAATAT-AAGTTGATTTTTTTGAAAACAGAAATTGA
63 --GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAA-TTGA--TTTTTGAAAACAGAAATTGA
* *
18206619 AAATACCTCAACGTGTCTTGAG
123 AATTACCTCAGCGTGTCTTGAG
** *
18206641 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAATTACCTCAACGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAG-AATTGAAATTACCTCAGCGT
* * * * *
18206705 GTCTTGAGGTTCAACTCA-TTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACC
65 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAACAGAAATTGAAATTACC
18206769 TCAGCGTGTCTTGAG
130 TCAGCGTGTCTTGAG
**
18206784 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTT-AAAAACAG-ATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAATTGAAATTACCTCAGCGTG
*
18206847 TCCCGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAACAGAAATTGAAATTACCT
66 TCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAACAGAAATTGAAATTACCT
**
18206912 CAGCGTGTCCCGAG
131 CAGCGTGTCTTGAG
*
18206926 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAA
18206967 TATAAATTGA
Statistics
Matches: 295, Mismatches: 27, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
141 33 0.11
142 88 0.30
143 86 0.29
145 15 0.05
146 17 0.06
148 23 0.08
149 5 0.02
151 28 0.09
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (144 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAACAGAATTGAAATTACCTCAGCGTG
TCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAACAGAAATTGAAATTACCT
CAGCGTGTCTTGAG
Found at i:18207100 original size:72 final size:72
Alignment explanation
Indices: 18207020--18207160 Score: 273
Period size: 72 Copynumber: 2.0 Consensus size: 72
18207010 AATCATTTTG
*
18207020 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
18207085 TTTTGAA
66 TTTTGAA
18207092 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
18207157 TTTT
66 TTTT
18207161 TTTTTTTGAA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (72 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAA
Found at i:18207184 original size:80 final size:79
Alignment explanation
Indices: 18207085--18207241 Score: 192
Period size: 82 Copynumber: 2.0 Consensus size: 79
18207075 ATGAGTTGAA
* * * **
18207085 TTTTGAAAACAGAAATTGAAATTACCTCA-ACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATA
1 TTTTGAAAACAGAAATTGAAAATACCTCACACGTGAAC-CGAGGCTCAACTCACCTCTCGCAATA
*
18207148 TGAGTTGAATTTTTTT
65 TGAGCTG-ATTTTTTT
* *
18207164 TTTTGAAAGACGGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAAT
1 TTTTGAAA-ACAGAAATTGAAAATACCTCA-CACGTGAACCGAGGCTCAACTCACCTCTCGCAAT
18207229 ATGAGCTGATTTT
64 ATGAGCTGATTTT
18207242 GAAAAAGTAG
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
79 8 0.12
80 19 0.29
81 5 0.08
82 33 0.50
83 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32
Consensus pattern (79 bp):
TTTTGAAAACAGAAATTGAAAATACCTCACACGTGAACCGAGGCTCAACTCACCTCTCGCAATAT
GAGCTGATTTTTTT
Found at i:18207310 original size:54 final size:55
Alignment explanation
Indices: 18207210--18207315 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 55
18207200 GAACCGAGGC
* *
18207210 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
* * * *
18207264 TCAACCCACTTCTCGCAATATGAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAAAAAGCAGAAATTGAAAA
18207316 CAGAAATTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
54 33 0.75
55 11 0.25
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (55 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:18207322 original size:13 final size:13
Alignment explanation
Indices: 18207295--18207328 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
18207285 GAGTTGATTC
*
18207295 TTGAACAACATAAA
1 TTGAA-AACAGAAA
18207309 TTGAAAACAGAAA
1 TTGAAAACAGAAA
18207322 TTGAAAA
1 TTGAAAA
18207329 TACCTCAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:18207362 original size:140 final size:140
Alignment explanation
Indices: 18207166--18207932 Score: 1394
Period size: 140 Copynumber: 5.5 Consensus size: 140
18207156 ATTTTTTTTT
*
18207166 TTGAAAGACGGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCGCAATA
18207230 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTC
62 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTC
*
18207295 TTGAACAACATAAA
127 TTGAACAACGTAAA
*
18207309 TTGAAAACAGAAATTGAAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
18207374 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGA
*
18207439 ACAGCGTAAA
131 ACAACGTAAA
*
18207449 TTGAAAACAGAAATTGTAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
18207514 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTT-TCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGA
18207578 ACAACGTAAA
131 ACAACGTAAA
* * *
18207588 TTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTTAACTCACCTATCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
18207653 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGA
18207718 ACAACGTAAA
131 ACAACGTAAA
18207728 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
18207793 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGA
18207858 ACAACGTAAA
131 ACAACGTAAA
18207868 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
18207933 TTGAAATTAA
Statistics
Matches: 607, Mismatches: 15, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
139 136 0.22
140 443 0.73
142 22 0.04
143 6 0.01
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.25
Consensus pattern (140 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGA
ACAACGTAAA
Found at i:18207699 original size:419 final size:421
Alignment explanation
Indices: 18207166--18207932 Score: 1405
Period size: 419 Copynumber: 1.8 Consensus size: 421
18207156 ATTTTTTTTT
* *
18207166 TTGAAAGACGGAAATTGAAAATACCTCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAGACAGAAATTGAAAATACCTCAGCA-GTGAACCGAGGCTCAACTCACCTATCGCAATAT
*
18207231 GAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCT
65 GAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCT
18207296 TGAACAACATAAATTGAAAACAGAAATTGAAAATACCTCAGCATGACCTGAGGCTCAACTCACCT
130 TGAACAACATAAATTGAAAACAGAAATTGAAAATACCTCAGCATGACCTGAGGCTCAACTCACCT
*
18207361 CTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATG
195 CTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATG
* *
18207426 AGTTGATTCTTGAACAGCGTAAATTGAAAACAGAAATTGTAAATACCTCAGCGTGACCTGAGGCT
260 AGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCT
18207491 CAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTT
325 CAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTT
18207556 CGCAATATGAGTTGATTCTTGAACAACGTAAA
390 CGCAATATGAGTTGATTCTTGAACAACGTAAA
* *
18207588 TTGAAA-ACAGAAATTGAAAATACCTTAGC-GTG-ACCTGAGGCTTAACTCACCTATCGCAATAT
1 TTGAAAGACAGAAATTGAAAATACCTCAGCAGTGAACC-GAGGCTCAACTCACCTATCGCAATAT
18207650 GAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCT
65 GAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCT
* *
18207715 TGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCT
130 TGAACAACATAAATTGAAAACAGAAATTGAAAATACCTCAGCATGACCTGAGGCTCAACTCACCT
18207780 CTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATG
195 CTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATG
18207845 AGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCT
260 AGTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCT
18207910 CAACTCACCTCTCGCAATATGAG
325 CAACTCACCTCTCGCAATATGAG
18207933 TTGAAATTAA
Statistics
Matches: 334, Mismatches: 10, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
418 3 0.01
419 304 0.91
421 21 0.06
422 6 0.02
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.25
Consensus pattern (421 bp):
TTGAAAGACAGAAATTGAAAATACCTCAGCAGTGAACCGAGGCTCAACTCACCTATCGCAATATG
AGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTT
GAACAACATAAATTGAAAACAGAAATTGAAAATACCTCAGCATGACCTGAGGCTCAACTCACCTC
TCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGA
GTTGATTCTTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTC
AACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTTC
GCAATATGAGTTGATTCTTGAACAACGTAAA
Found at i:18207706 original size:279 final size:279
Alignment explanation
Indices: 18207166--18207932 Score: 1383
Period size: 279 Copynumber: 2.7 Consensus size: 279
18207156 ATTTTTTTTT
*
18207166 TTGAAAGACGGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCGCAATA
18207230 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTC
62 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTT-TCGCAATATGAGTTGATTC
* *
18207295 TTGAACAACATAAATTGAAAACAGAAATTGAAAATACCTCAGCATGACCTGAGGCTCAACTCACC
126 TTGAACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACC
*
18207360 TCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATAT
191 TCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATAT
*
18207425 GAGTTGATTCTTGAACAGCGTAAA
256 GAGTTGATTCTTGAACAACGTAAA
*
18207449 TTGAAAACAGAAATTGTAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
18207514 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTTCGCAATATGAGTTGATTCTTGAA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTTCGCAATATGAGTTGATTCTTGAA
* * *
18207579 CAACGTAAATTGAAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTTAACTCACCTATCG
131 CAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCG
18207644 CAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTT
196 CAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTT
18207709 GATTCTTGAACAACGTAAA
261 GATTCTTGAACAACGTAAA
18207728 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
18207793 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCA-CTTTCGCAATATGAGTTGATTCTTGA
18207858 ACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTC
130 ACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTC
18207923 GCAATATGAG
195 GCAATATGAG
18207933 TTGAAATTAA
Statistics
Matches: 468, Mismatches: 14, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
279 271 0.58
280 170 0.36
282 21 0.04
283 6 0.01
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.25
Consensus pattern (279 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTTCGCAATATGAGTTGATTCTTGAA
CAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCG
CAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTT
GATTCTTGAACAACGTAAA
Found at i:18207869 original size:54 final size:54
Alignment explanation
Indices: 18207769--18207874 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
18207759 GACCTGAGGC
*
18207769 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
18207823 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
18207875 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:18207999 original size:72 final size:71
Alignment explanation
Indices: 18207865--18208030 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
18207855 TGAACAACGT
* * * *
18207865 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
18207930 GAGTTG
66 GAGTTG
*
18207936 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
18208001 TGAGTTG
65 TGAGTTG
**
18208008 ATTTTGAAAAACAAAAATT-AAAA
1 AAATT-AAAAACAAAAATTGAAAA
18208031 GGCTTAACTC
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:18208125 original size:122 final size:123
Alignment explanation
Indices: 18207905--18208150 Score: 381
Period size: 122 Copynumber: 2.0 Consensus size: 123
18207895 GCGTGACCTG
* *
18207905 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
18207970 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAAA-AAAAATTAAA
* * * *
18208030 AGGCTTAACTCACCTCTCGCAATATGAG-T-CAATTTAAA-ACATAAACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
* *
18208092 TGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAAAAATTAAA
18208150 A
1 A
18208151 ATACCTCAAC
Statistics
Matches: 113, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
120 11 0.10
121 4 0.04
122 63 0.56
123 7 0.06
124 1 0.01
125 27 0.24
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.24
Consensus pattern (123 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAAAAATTAAA
Found at i:18208176 original size:70 final size:70
Alignment explanation
Indices: 18208030--18208203 Score: 219
Period size: 70 Copynumber: 2.5 Consensus size: 70
18208020 AAAAATTAAA
* * * * * *
18208030 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCAGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
18208094 CCCCG
66 CCCCG
*
18208099 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAA-AAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGT
* **
18208163 GTCTTG
65 GCCCCG
18208169 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTT
18208204 CCCTTGAAAA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
69 27 0.29
70 61 0.66
71 4 0.04
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.28
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:18215428 original size:53 final size:53
Alignment explanation
Indices: 18215348--18215455 Score: 216
Period size: 53 Copynumber: 2.0 Consensus size: 53
18215338 GACGTCTCTC
18215348 CATCTCTGCGCATACTGTCTGAAGGTCTCTGATGGCTTTTTCTCCATCATTTG
1 CATCTCTGCGCATACTGTCTGAAGGTCTCTGATGGCTTTTTCTCCATCATTTG
18215401 CATCTCTGCGCATACTGTCTGAAGGTCTCTGATGGCTTTTTCTCCATCATTTG
1 CATCTCTGCGCATACTGTCTGAAGGTCTCTGATGGCTTTTTCTCCATCATTTG
18215454 CA
1 CA
18215456 AGGTCATCCG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.16, C:0.27, G:0.19, T:0.39
Consensus pattern (53 bp):
CATCTCTGCGCATACTGTCTGAAGGTCTCTGATGGCTTTTTCTCCATCATTTG
Found at i:18216422 original size:12 final size:12
Alignment explanation
Indices: 18216400--18216435 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
18216390 TGGGATATGC
*
18216400 AATGAATGAATG
1 AATGCATGAATG
*
18216412 GATGCATGAATG
1 AATGCATGAATG
18216424 AATGCATGAATG
1 AATGCATGAATG
18216436 TCAAATGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:18216422 original size:16 final size:17
Alignment explanation
Indices: 18216396--18216427 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
18216386 AGTATGGGAT
18216396 ATGCAATGAATGAATGG
1 ATGCAATGAATGAATGG
18216413 ATGC-ATGAATGAATG
1 ATGCAATGAATGAATG
18216428 CATGAATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.06, G:0.28, T:0.25
Consensus pattern (17 bp):
ATGCAATGAATGAATGG
Found at i:18218998 original size:35 final size:34
Alignment explanation
Indices: 18218943--18219026 Score: 123
Period size: 35 Copynumber: 2.4 Consensus size: 34
18218933 GTGGCTAGGG
** **
18218943 TTTTTTTAGTTTTTTTTTTGGGTTAGGTTTTTCT
1 TTTTTTTCTTTTTTTTTTTGGGTTAGGTTAATCT
18218977 TTTTTCTTCTTTTTTTTTTTGGGTTAGGTTAATCT
1 TTTTT-TTCTTTTTTTTTTTGGGTTAGGTTAATCT
18219012 TTTTTTTCTTTTTTT
1 TTTTTTTCTTTTTTT
18219027 GTGTTTTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
34 15 0.33
35 30 0.67
ACGTcount: A:0.06, C:0.06, G:0.13, T:0.75
Consensus pattern (34 bp):
TTTTTTTCTTTTTTTTTTTGGGTTAGGTTAATCT
Found at i:18219306 original size:38 final size:36
Alignment explanation
Indices: 18219212--18219337 Score: 121
Period size: 36 Copynumber: 3.4 Consensus size: 36
18219202 TTTAGGTATT
* *
18219212 TTATATATATTATGTATATATTTTTAATGCCATTAG
1 TTATATATATTATGTATATATTTTAAATACCATTAG
* *
18219248 TTATATATTTCTTATGTATATATTCTTAAATACTATTA-
1 TTATATA--TATTATGTATATATT-TTAAATACCATTAG
* *
18219286 -TATATATATATATATATATATTTTAAATACCATATTG
1 TTATATATAT-TATGTATATATTTTAAATACCAT-TAG
18219323 TGTATATATTATTAT
1 T-TATATA-TATTAT
18219338 TACAAATTAT
Statistics
Matches: 73, Mismatches: 8, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
35 12 0.16
36 19 0.26
37 6 0.08
38 14 0.19
39 19 0.26
40 3 0.04
ACGTcount: A:0.37, C:0.06, G:0.05, T:0.53
Consensus pattern (36 bp):
TTATATATATTATGTATATATTTTAAATACCATTAG
Found at i:18223470 original size:2 final size:2
Alignment explanation
Indices: 18223463--18223494 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
18223453 GTTTTATTAG
18223463 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18223495 TAATGTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18233476 original size:27 final size:28
Alignment explanation
Indices: 18233446--18233498 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
18233436 TAAATCTATC
* * *
18233446 TATTATCTCTA-TCATATTAATTTAAAA
1 TATTATCTATATTAATATAAATTTAAAA
18233473 TATTATCTATATTAATATAAATTTAA
1 TATTATCTATATTAATATAAATTTAA
18233499 TGGTTAAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (28 bp):
TATTATCTATATTAATATAAATTTAAAA
Found at i:18239329 original size:17 final size:17
Alignment explanation
Indices: 18239307--18239360 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
18239297 GCCCTACTAA
18239307 ATCACCCCACTAACTCC
1 ATCACCCCACTAACTCC
*
18239324 ATCACCTCACTAA----
1 ATCACCCCACTAACTCC
18239337 ATCACCCCACTAACTCC
1 ATCACCCCACTAACTCC
18239354 ATCACCC
1 ATCACCC
18239361 AATTAAACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
13 12 0.39
17 19 0.61
ACGTcount: A:0.31, C:0.50, G:0.00, T:0.19
Consensus pattern (17 bp):
ATCACCCCACTAACTCC
Found at i:18239338 original size:30 final size:29
Alignment explanation
Indices: 18239302--18239390 Score: 115
Period size: 30 Copynumber: 3.0 Consensus size: 29
18239292 CCCACGCCCT
18239302 ACTAAATCACCCCACTAACTCCATCACCTC
1 ACTAAATCACCCCACTAACTCCATCACC-C
18239332 ACTAAATCACCCCACTAACTCCATCACCC
1 ACTAAATCACCCCACTAACTCCATCACCC
* * * * *
18239361 AATTAAACCATCTCACTAACTCCATTACCC
1 -ACTAAATCACCCCACTAACTCCATCACCC
18239391 CACTTGCCAC
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.35, C:0.44, G:0.00, T:0.21
Consensus pattern (29 bp):
ACTAAATCACCCCACTAACTCCATCACCC
Found at i:18239342 original size:13 final size:13
Alignment explanation
Indices: 18239302--18239349 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 13
18239292 CCCACGCCCT
18239302 ACTAAATCACCCC
1 ACTAAATCACCCC
*
18239315 ACTAACTCCATCACCTC
1 ACTAA----ATCACCCC
18239332 ACTAAATCACCCC
1 ACTAAATCACCCC
18239345 ACTAA
1 ACTAA
18239350 CTCCATCACC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 17 0.59
17 12 0.41
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.19
Consensus pattern (13 bp):
ACTAAATCACCCC
Found at i:18239401 original size:24 final size:24
Alignment explanation
Indices: 18239374--18239422 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
18239364 TAAACCATCT
*
18239374 CACTAACTCCATTACCCCACTTGC
1 CACTAACTCCATCACCCCACTTGC
18239398 CACTAACTCCATCACCCCACTTGC
1 CACTAACTCCATCACCCCACTTGC
18239422 C
1 C
18239423 TACAAAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.49, G:0.04, T:0.22
Consensus pattern (24 bp):
CACTAACTCCATCACCCCACTTGC
Found at i:18239801 original size:3 final size:3
Alignment explanation
Indices: 18239778--18239956 Score: 104
Period size: 3 Copynumber: 60.7 Consensus size: 3
18239768 AGGGAGAGTG
* * *
18239778 TTA TTT TTA ATA TTG TTA TTA TTA TATA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * *
18239824 -TA TTTA TT- TTA TTA CTG TTA CTA TTA TT- TTA -TA TATA TTTA TTA
1 TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA -TTA TTA
* * ** ** * *
18239868 TCA TTA TTAA TT- TTT TTA TTA GAA ACA -TA TTG TTA TTT TTA TTA
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
18239912 TTT TTA -TA TTA TTA TTA TTA TTT TTA TTA ATA -TA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18239957 GTCTTCTATT
Statistics
Matches: 134, Mismatches: 29, Indels: 26
0.71 0.15 0.14
Matches are distributed among these distances:
2 15 0.11
3 106 0.79
4 12 0.09
5 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:18240150 original size:17 final size:18
Alignment explanation
Indices: 18240117--18240149 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18240107 CTCCATATGT
18240117 ATATATATTATTGTTTTC
1 ATATATATTATTGTTTTC
18240135 ATAT-TATTATT-TTTT
1 ATATATATTATTGTTTT
18240150 TTGTATAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 7 0.47
18 4 0.27
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (18 bp):
ATATATATTATTGTTTTC
Found at i:18242294 original size:24 final size:24
Alignment explanation
Indices: 18242243--18242334 Score: 84
Period size: 24 Copynumber: 3.8 Consensus size: 24
18242233 GCTATAATCG
18242243 GTAAACTCCT-TCTGAGCTGATGAACA
1 GTAAACT-CTATC-GAGCTG-TGAACA
*
18242269 GTAAGCTCTATCGAGCTG-GAAACA
1 GTAAACTCTATCGAGCTGTG-AACA
*
18242293 GTAAACTCTGA-CAAGCTGTGAACA
1 GTAAACTCT-ATCGAGCTGTGAACA
18242317 GTAAACTCTTAT-GAGCTG
1 GTAAACTC-TATCGAGCTG
18242335 ATATATCAGT
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
23 1 0.02
24 36 0.64
25 11 0.20
26 8 0.14
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.25
Consensus pattern (24 bp):
GTAAACTCTATCGAGCTGTGAACA
Found at i:18249255 original size:9 final size:9
Alignment explanation
Indices: 18249236--18249268 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
18249226 TATAAAGTAC
18249236 AATATTATTA
1 AATA-TATTA
18249246 AATATATTA
1 AATATATTA
18249255 AATATATTA
1 AATATATTA
18249264 AATAT
1 AATAT
18249269 GATTTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 19 0.83
10 4 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
AATATATTA
Found at i:18249307 original size:16 final size:15
Alignment explanation
Indices: 18249281--18249322 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
18249271 TTTATTATTT
*
18249281 TAATAAATTTTTTGA
1 TAATAAATTTTTTAA
*
18249296 TATTATAATTTTTTAA
1 TAATA-AATTTTTTAA
18249312 TAATAAATTTT
1 TAATAAATTTT
18249323 AACAATAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (15 bp):
TAATAAATTTTTTAA
Found at i:18249335 original size:15 final size:16
Alignment explanation
Indices: 18249310--18249339 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
18249300 ATAATTTTTT
18249310 AATAATAAATTTTAAC
1 AATAATAAATTTTAAC
18249326 AATAAT-AATTTTAA
1 AATAATAAATTTTAA
18249340 ATTTTAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
AATAATAAATTTTAAC
Found at i:18250903 original size:37 final size:37
Alignment explanation
Indices: 18250839--18250914 Score: 98
Period size: 37 Copynumber: 2.1 Consensus size: 37
18250829 CGAAGTAAAT
* ** * *
18250839 AAATTGCATCCAGCGCCCATCCGTATAACCGAAATAA
1 AAATTGCATCCAGCGCCAATCAATATAAACAAAATAA
*
18250876 AAATTGCATCCAGCGCTAATCAATATAAACAAAATAA
1 AAATTGCATCCAGCGCCAATCAATATAAACAAAATAA
18250913 AA
1 AA
18250915 CTTGTGCCCT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.46, C:0.24, G:0.11, T:0.20
Consensus pattern (37 bp):
AAATTGCATCCAGCGCCAATCAATATAAACAAAATAA
Found at i:18263545 original size:22 final size:22
Alignment explanation
Indices: 18263499--18263589 Score: 53
Period size: 23 Copynumber: 4.1 Consensus size: 22
18263489 CATATATGTT
* *
18263499 TTGTTAT-CATAT-TCTTATATG
1 TTGTTATGCATATATTTTA-ATA
18263520 TTGTTATGCATATATTTTAATA
1 TTGTTATGCATATATTTTAATA
* *
18263542 TTGTCA-GCTATATATCTTTTATA
1 TTGTTATGC-ATATAT-TTTAATA
* * * *
18263565 TTATTGTACGTATATTTCTAATA
1 TTGTTATGCATATATTT-TAATA
18263588 TT
1 TT
18263590 ATATTGTATA
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
21 9 0.17
22 20 0.37
23 24 0.44
24 1 0.02
ACGTcount: A:0.27, C:0.09, G:0.09, T:0.55
Consensus pattern (22 bp):
TTGTTATGCATATATTTTAATA
Found at i:18263614 original size:21 final size:21
Alignment explanation
Indices: 18263574--18263614 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18263564 ATTATTGTAC
* **
18263574 GTATATTTCTAATATTATATT
1 GTATATTTCTAACACAATATT
18263595 GTATATTTCTAACACAATAT
1 GTATATTTCTAACACAATAT
18263615 ATATATATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.49
Consensus pattern (21 bp):
GTATATTTCTAACACAATATT
Found at i:18263618 original size:2 final size:2
Alignment explanation
Indices: 18263611--18263643 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
18263601 TTCTAACACA
18263611 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 A
18263644 CTTATGTAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18268423 original size:23 final size:23
Alignment explanation
Indices: 18268397--18268441 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
18268387 TGGGTATGTG
*
18268397 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
18268420 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
18268442 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:18280976 original size:28 final size:28
Alignment explanation
Indices: 18280944--18281042 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
18280934 GCCATAAGCC
*
18280944 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
18280972 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
18281000 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
18281029 CGCACACTTAGTGC
1 CGCACACTTAGTGC
18281043 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:18284450 original size:37 final size:37
Alignment explanation
Indices: 18284409--18284530 Score: 156
Period size: 37 Copynumber: 3.3 Consensus size: 37
18284399 TCCATTTGAA
18284409 AACACGCCAAATGCTCATAAGAGCTTATCCACCAGAT
1 AACACGCCAAATGCTCATAAGAGCTTATCCACCAGAT
* ** * *
18284446 AACACGCCAATTGCTCCGAAGAGC-TAGTCCAACAGAA
1 AACACGCCAAATGCTCATAAGAGCTTA-TCCACCAGAT
* *
18284483 AACATGCCAAATGCTCATAAGAGCTAATCCACCAGAT
1 AACACGCCAAATGCTCATAAGAGCTTATCCACCAGAT
*
18284520 AACATGCCAAA
1 AACACGCCAAA
18284531 ACAGGGAGTA
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
36 2 0.03
37 68 0.96
38 1 0.01
ACGTcount: A:0.40, C:0.29, G:0.15, T:0.16
Consensus pattern (37 bp):
AACACGCCAAATGCTCATAAGAGCTTATCCACCAGAT
Found at i:18286531 original size:18 final size:19
Alignment explanation
Indices: 18286508--18286546 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
18286498 TAAATGGTAA
*
18286508 AAAATTGAAAACT-TAAAT
1 AAAATTAAAAACTCTAAAT
*
18286526 AAAATTAAAAATTCTAAAT
1 AAAATTAAAAACTCTAAAT
18286545 AA
1 AA
18286547 TATAAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (19 bp):
AAAATTAAAAACTCTAAAT
Found at i:18286543 original size:19 final size:18
Alignment explanation
Indices: 18286508--18286556 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
18286498 TAAATGGTAA
* *
18286508 AAAATTGAAAACTTAAAT
1 AAAATTAAAAATTTAAAT
18286526 AAAATTAAAAATTCTAAAT
1 AAAATTAAAAATT-TAAAT
* *
18286545 AATATAAAAAAT
1 AAAATTAAAAAT
18286557 AAATTATTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAATTAAAAATTTAAAT
Found at i:18286730 original size:18 final size:18
Alignment explanation
Indices: 18286693--18286741 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
18286683 TGTAATTTTA
* *
18286693 TCAAATTTTAAATAAATT
1 TCAAATTTTTAATTAATT
*
18286711 TCAAATTTTTAATTATTT
1 TCAAATTTTTAATTAATT
*
18286729 TC-AATTATTAATT
1 TCAAATTTTTAATT
18286742 TTGAATATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 10 0.37
18 17 0.63
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (18 bp):
TCAAATTTTTAATTAATT
Found at i:18289455 original size:49 final size:49
Alignment explanation
Indices: 18289376--18289663 Score: 295
Period size: 49 Copynumber: 6.0 Consensus size: 49
18289366 TCTATTGTGA
* * *
18289376 GGTCACGTGTGTAGTACTAAGTGCGGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
18289425 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
** * **
18289475 AATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGT-CTCAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATAATT
* **
18289524 AGGTCAC--GTGT-G---T-AGTGCAGGCTACTACGTGTATCAGATGGTT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * **
18289567 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACTGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
18289617 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
18289664 CTTTGGCTAC
Statistics
Matches: 198, Mismatches: 30, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
43 35 0.18
44 1 0.01
45 4 0.02
46 1 0.01
47 1 0.01
48 4 0.02
49 86 0.43
50 66 0.33
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:18289555 original size:43 final size:43
Alignment explanation
Indices: 18289494--18289582 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
18289484 TGTAGTACTA
*
18289494 AGTGCAGGCTACTACGTGTCTCAGATGGTTAGGTCACGTGTGT
1 AGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGT
18289537 AGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGT
1 AGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGT
18289580 AGT
1 AGT
18289583 ACTAAGTGCA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (43 bp):
AGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGT
Found at i:18291829 original size:34 final size:35
Alignment explanation
Indices: 18291777--18291846 Score: 124
Period size: 34 Copynumber: 2.0 Consensus size: 35
18291767 AAGTAAATAT
18291777 ATAATTATAAACTCAGTTTCTTACTTTTTCATCAC
1 ATAATTATAAACTCAGTTTCTTACTTTTTCATCAC
*
18291812 ATAATTAT-AACTCAGTTTTTTACTTTTTCATCAC
1 ATAATTATAAACTCAGTTTCTTACTTTTTCATCAC
18291846 A
1 A
18291847 GCAGTTAACA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 26 0.76
35 8 0.24
ACGTcount: A:0.31, C:0.19, G:0.03, T:0.47
Consensus pattern (35 bp):
ATAATTATAAACTCAGTTTCTTACTTTTTCATCAC
Found at i:18299662 original size:38 final size:38
Alignment explanation
Indices: 18299615--18299697 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
18299605 GATATGTTTT
* *
18299615 ACATATATTCAGTTCAAAACT-GCCAGTAGACATGCTTA
1 ACATGTATTCAGTTCAAAACTAG-CAGTAAACATGCTTA
* *
18299653 ACATGTATTCAGTTCAACATTAGCAGTAAACATGCTTA
1 ACATGTATTCAGTTCAAAACTAGCAGTAAACATGCTTA
18299691 ACATGTA
1 ACATGTA
18299698 CTCAATAGGG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 39 0.98
39 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.30
Consensus pattern (38 bp):
ACATGTATTCAGTTCAAAACTAGCAGTAAACATGCTTA
Found at i:18300194 original size:2 final size:2
Alignment explanation
Indices: 18300187--18300216 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18300177 TTTTAAGTGC
18300187 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18300217 TAAATACATG
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):
AT
Found at i:18302846 original size:12 final size:12
Alignment explanation
Indices: 18302829--18302857 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
18302819 TACAACAAAA
18302829 GAGGAAAGTAAG
1 GAGGAAAGTAAG
18302841 GAGGAAAGTAAG
1 GAGGAAAGTAAG
18302853 GAGGA
1 GAGGA
18302858 GATAATGGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.45, T:0.07
Consensus pattern (12 bp):
GAGGAAAGTAAG
Found at i:18306320 original size:13 final size:13
Alignment explanation
Indices: 18306302--18306332 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
18306292 AACCAGAGAA
18306302 AATCGAAGAAAAC
1 AATCGAAGAAAAC
*
18306315 AATCGAAGAACAC
1 AATCGAAGAAAAC
18306328 AATCG
1 AATCG
18306333 GAGCCAACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.19, G:0.16, T:0.10
Consensus pattern (13 bp):
AATCGAAGAAAAC
Found at i:18311709 original size:6 final size:6
Alignment explanation
Indices: 18311698--18311722 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
18311688 TCAAATATTA
18311698 AAATTC AAATTC AAATTC AAATTC A
1 AAATTC AAATTC AAATTC AAATTC A
18311723 GTTCACTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATTC
Found at i:18312197 original size:63 final size:63
Alignment explanation
Indices: 18312098--18312223 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
18312088 AAAGAAAGGC
18312098 ACTATAGGGATGTATCTTATTCTATAGGTGACAAAAATTCAATTAGACTCAAAAAAAAATTAA
1 ACTATAGGGATGTATCTTATTCTATAGGTGACAAAAATTCAATTAGACTCAAAAAAAAATTAA
18312161 ACTATAGGGATGTATCTTATTCTATAGGTGACAAAAATTCAATTAGACTCAAAAAAAAATTAA
1 ACTATAGGGATGTATCTTATTCTATAGGTGACAAAAATTCAATTAGACTCAAAAAAAAATTAA
18312224 CTTTTTTTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (63 bp):
ACTATAGGGATGTATCTTATTCTATAGGTGACAAAAATTCAATTAGACTCAAAAAAAAATTAA
Found at i:18312441 original size:21 final size:22
Alignment explanation
Indices: 18312417--18312463 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
18312407 TTCTCTTAAC
*
18312417 AAAAAATTTAAAA-AATTTCTA
1 AAAAAATTCAAAATAATTTCTA
*
18312438 AAAAAATTCAAAATAATTTTTA
1 AAAAAATTCAAAATAATTTCTA
18312460 AAAA
1 AAAA
18312464 TTCAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (22 bp):
AAAAAATTCAAAATAATTTCTA
Found at i:18312479 original size:18 final size:18
Alignment explanation
Indices: 18312439--18312495 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
18312429 AAATTTCTAA
*
18312439 AAAAATTCAAAATAATTTTT
1 AAAAATTC-AAAT-ATTTAT
18312459 AAAAATTCAAATATTTAT
1 AAAAATTCAAATATTTAT
18312477 AAAAATTCCAAAT-TTTAT
1 AAAAATT-CAAATATTTAT
18312495 A
1 A
18312496 TATTTTTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 18 0.51
19 9 0.26
20 8 0.23
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAAATTCAAATATTTAT
Found at i:18312521 original size:16 final size:16
Alignment explanation
Indices: 18312503--18312550 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 16
18312493 ATATATTTTT
18312503 AAAATATTATAAAAATAA
1 AAAAT-TTA-AAAAATAA
18312521 AAAATTTAAAAAATAAA
1 AAAATTTAAAAAAT-AA
18312538 TAAAATTTAAAAA
1 -AAAATTTAAAAA
18312551 CTCAAAAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.21
17 5 0.18
18 17 0.61
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAATTTAAAAAATAA
Found at i:18312524 original size:18 final size:18
Alignment explanation
Indices: 18312503--18312550 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
18312493 ATATATTTTT
18312503 AAAATATTATAAAAATAA
1 AAAATATTATAAAAATAA
18312521 AAAAT-TTA-AAAAATAA
1 AAAATATTATAAAAATAA
18312537 ATAAA-ATT-TAAAAA
1 A-AAATATTATAAAAA
18312551 CTCAAAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 9 0.33
17 13 0.48
18 5 0.19
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAATATTATAAAAATAA
Found at i:18314151 original size:21 final size:19
Alignment explanation
Indices: 18314126--18314175 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
18314116 AGAAGTTAGA
18314126 AATTTTAAAATATTATATTAT-
1 AATTTTAAAA-A-TA-ATTATG
18314147 AATTTTAACAAATAATTATG
1 AATTTTAA-AAATAATTATG
18314167 AATTTTAAA
1 AATTTTAAA
18314176 CCTAAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 6 0.22
20 10 0.37
21 9 0.33
22 2 0.07
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (19 bp):
AATTTTAAAAATAATTATG
Found at i:18314920 original size:14 final size:14
Alignment explanation
Indices: 18314901--18314951 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
18314891 GTTTGCCAGT
*
18314901 AAAATGTTTTCCGG
1 AAAATGATTTCCGG
*
18314915 AAAATGATTTCTGG
1 AAAATGATTTCCGG
* * *
18314929 AAAATAATTTACTG
1 AAAATGATTTCCGG
18314943 AAAAT-ATTT
1 AAAATGATTT
18314952 TCTGGTATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
13 4 0.13
14 27 0.87
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCCGG
Found at i:18315064 original size:20 final size:20
Alignment explanation
Indices: 18315039--18315077 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
18315029 GCTTTTACAT
18315039 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
18315059 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
18315078 TTTTAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:18318352 original size:47 final size:47
Alignment explanation
Indices: 18318283--18318387 Score: 156
Period size: 47 Copynumber: 2.2 Consensus size: 47
18318273 TTACACGGAT
* * *
18318283 CACATATCACACTGATGTCATATCCCAAATATGGTCTTATACAGTAG
1 CACATATCACACCGATGCCATATCCCAAATATGGTCTTATACAGAAG
** *
18318330 CACATATCACACCGATGCCATATCCCGGATATGGTCTTATACGGAAG
1 CACATATCACACCGATGCCATATCCCAAATATGGTCTTATACAGAAG
18318377 CACATATCACA
1 CACATATCACA
18318388 TTTGTCCGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (47 bp):
CACATATCACACCGATGCCATATCCCAAATATGGTCTTATACAGAAG
Found at i:18323999 original size:52 final size:48
Alignment explanation
Indices: 18323816--18324022 Score: 150
Period size: 47 Copynumber: 4.2 Consensus size: 48
18323806 TGCACATAGT
* * * ** * *
18323816 CACATATCACATACTGAGGCCATAACCCAGCCATGGTCTTACACGG-AT
1 CACATATCACAT-CCGAAGCCATAGCCCAGATATGGTCTTATACGGAAG
* * * * * * * *
18323864 CACATATCACA-CTGATGTCATATCCTAAATATGGTCTTATACAGTAG
1 CACATATCACATCCGAAGCCATAGCCCAGATATGGTCTTATACGGAAG
* * *
18323911 CACATATCACA-CCGATGCCATATCCCGGATATGGTCTTATACGGAAG
1 CACATATCACATCCGAAGCCATAGCCCAGATATGGTCTTATACGGAAG
* *
18323958 CACATATCACATTTGTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAAT
1 CACATATCACA----TCCGAAGCCATAGCCCAGATATGGTCTTATACGG-AAG
*
18324011 CACATTTCACAT
1 CACATATCACAT
18324023 GCTGTCATGG
Statistics
Matches: 129, Mismatches: 23, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
46 24 0.19
47 52 0.40
48 11 0.09
49 1 0.01
52 29 0.22
53 12 0.09
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.26
Consensus pattern (48 bp):
CACATATCACATCCGAAGCCATAGCCCAGATATGGTCTTATACGGAAG
Found at i:18327678 original size:50 final size:50
Alignment explanation
Indices: 18327596--18327695 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
18327586 GAGATGAATT
*
18327596 GCTAGGAGTGATGGCGGTAATTATGAATTTTTTTAAAGAATATTGAAGTA
1 GCTAGGAGTGATGGCGGTAATTATGAAGTTTTTTAAAGAATATTGAAGTA
*
18327646 GCTATGAGTGATGGCGGTAATTATGAAGTTTTTTAAAGAATATTGAAGTA
1 GCTAGGAGTGATGGCGGTAATTATGAAGTTTTTTAAAGAATATTGAAGTA
18327696 ATCTTTGCAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (50 bp):
GCTAGGAGTGATGGCGGTAATTATGAAGTTTTTTAAAGAATATTGAAGTA
Found at i:18334411 original size:47 final size:46
Alignment explanation
Indices: 18334315--18334492 Score: 209
Period size: 47 Copynumber: 3.8 Consensus size: 46
18334305 TACCGTTGAG
* * *
18334315 ATCCGAACTCGTTGAGTTGCGTTTCGAGTTCATGA-GAATTATG-AGGC
1 ATCCGAACTCGTTGAGTTGCGTTTCGAGTTCATTATG---GATGCAAGC
*
18334362 ATCCGAACTCGTTGAGTTGCGTTTAGAGTTCATTTATGGATGCAAGC
1 ATCCGAACTCGTTGAGTTGCGTTTCGAGTTCA-TTATGGATGCAAGC
* * *
18334409 ATCCGAACTCGTTGAGCTGTG-TTCTGAGTTTATTATGGATGCAAGC
1 ATCCGAACTCGTTGAGTTGCGTTTC-GAGTTCATTATGGATGCAAGC
* *
18334455 ACCCGAGCTCGTTGAGTTGCGTTTCGAGTTCATTATGG
1 ATCCGAACTCGTTGAGTTGCGTTTCGAGTTCATTATGG
18334493 GTGAGATTAT
Statistics
Matches: 113, Mismatches: 13, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
46 48 0.42
47 62 0.55
48 2 0.02
49 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (46 bp):
ATCCGAACTCGTTGAGTTGCGTTTCGAGTTCATTATGGATGCAAGC
Found at i:18337167 original size:11 final size:11
Alignment explanation
Indices: 18337153--18337181 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
18337143 TTCCCTCCCC
18337153 CTCTCCCTCTT
1 CTCTCCCTCTT
18337164 CTCTCCCTCTT
1 CTCTCCCTCTT
18337175 CTCTCCC
1 CTCTCCC
18337182 CATTTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (11 bp):
CTCTCCCTCTT
Found at i:18337682 original size:9 final size:9
Alignment explanation
Indices: 18337670--18337699 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
18337660 ATTATAATAT
18337670 TTATATTTA
1 TTATATTTA
18337679 TTATATTTA
1 TTATATTTA
*
18337688 TTGTATTTA
1 TTATATTTA
18337697 TTA
1 TTA
18337700 CATGTCTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (9 bp):
TTATATTTA
Found at i:18337797 original size:17 final size:19
Alignment explanation
Indices: 18337756--18337811 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 19
18337746 ACTTATGTAT
18337756 TATATTATATATATTTTAA
1 TATATTATATATATTTTAA
*
18337775 TATATTATATGTATTTTAA
1 TATATTATATATATTTTAA
18337794 TATTATGTTATATATATT
1 TA-TA--TTATATATATT
18337812 ATAAACATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 20 0.62
20 2 0.06
22 10 0.31
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.59
Consensus pattern (19 bp):
TATATTATATATATTTTAA
Done.