Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold171
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: 2364178
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.28
Warning! 278680 characters in sequence are not A, C, G, or T
File 12 of 13
Found at i:1904570 original size:22 final size:22
Alignment explanation
Indices: 1904542--1904601 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
1904532 ATATTTTTAA
1904542 AAAAAATTTATAAATTAAAAAT
1 AAAAAATTTATAAATTAAAAAT
*
1904564 AAAAAA-TTATAAATATTAAAAT
1 AAAAAATTTATAAAT-TAAAAAT
**
1904586 TTAAAATTTA-AAATTA
1 AAAAAATTTATAAATTA
1904602 TTTTATTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
21 9 0.28
22 20 0.62
23 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
AAAAAATTTATAAATTAAAAAT
Found at i:1904585 original size:29 final size:29
Alignment explanation
Indices: 1904545--1904602 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
1904535 TTTTTAAAAA
1904545 AAATTTATAAATTAAAAATAAAAAATTAT
1 AAATTTATAAATTAAAAATAAAAAATTAT
* **
1904574 AAATATTA-AAATTTAAAATTTAAAATTAT
1 AAAT-TTATAAATTAAAAATAAAAAATTAT
1904603 TTTATTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 22 0.88
30 3 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (29 bp):
AAATTTATAAATTAAAAATAAAAAATTAT
Found at i:1904599 original size:7 final size:7
Alignment explanation
Indices: 1904544--1904600 Score: 53
Period size: 7 Copynumber: 7.9 Consensus size: 7
1904534 ATTTTTAAAA
1904544 AAAATTT
1 AAAATTT
1904551 ATAAA-TT
1 A-AAATTT
* *
1904558 AAAAATA
1 AAAATTT
*
1904565 AAAAATT
1 AAAATTT
1904572 ATAAATATT
1 A-AAAT-TT
1904581 AAAATTT
1 AAAATTT
1904588 AAAATTT
1 AAAATTT
1904595 AAAATT
1 AAAATT
1904601 ATTTTATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
6 3 0.07
7 27 0.63
8 10 0.23
9 3 0.07
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (7 bp):
AAAATTT
Found at i:1905146 original size:3 final size:3
Alignment explanation
Indices: 1905138--1905178 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
1905128 TTGTGAATTG
1905138 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1905179 GCAATAATGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1906688 original size:13 final size:13
Alignment explanation
Indices: 1906670--1906696 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1906660 GTAACGTGGC
1906670 TAAATTTTGAGAT
1 TAAATTTTGAGAT
1906683 TAAATTTTGAGAT
1 TAAATTTTGAGAT
1906696 T
1 T
1906697 GCGGGTGGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (13 bp):
TAAATTTTGAGAT
Found at i:1908644 original size:30 final size:30
Alignment explanation
Indices: 1908610--1908686 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 30
1908600 TTTATTTCAC
** * *
1908610 TCAAATAAATTTTTTGCTTTTAATTTATAT
1 TCAAATAAATTTTTAACCTTTAATTTAAAT
* **
1908640 TCAAATTAATCCTTAACCTTTAATTTAAAT
1 TCAAATAAATTTTTAACCTTTAATTTAAAT
*
1908670 TTAAATAAATTTTTAAC
1 TCAAATAAATTTTTAAC
1908687 TTTTTAAATC
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.39, C:0.10, G:0.01, T:0.49
Consensus pattern (30 bp):
TCAAATAAATTTTTAACCTTTAATTTAAAT
Found at i:1908849 original size:39 final size:39
Alignment explanation
Indices: 1908806--1908880 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 39
1908796 GCTTACTTAA
* **
1908806 AAAATAATAAAATAGTTTAAAATTTTATTTATTTAAGAC
1 AAAATAATAAAATAGTTCAAAAGGTTATTTATTTAAGAC
* * *
1908845 AAAATAGTGAAATAGTTCAAAAGGTTATTTGTTTAA
1 AAAATAATAAAATAGTTCAAAAGGTTATTTATTTAA
1908881 AAAAAAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 30 1.00
ACGTcount: A:0.48, C:0.03, G:0.11, T:0.39
Consensus pattern (39 bp):
AAAATAATAAAATAGTTCAAAAGGTTATTTATTTAAGAC
Found at i:1911007 original size:140 final size:144
Alignment explanation
Indices: 1910829--1911101 Score: 401
Period size: 144 Copynumber: 1.9 Consensus size: 144
1910819 GTGTTTATTG
* * *
1910829 CCCTACGAAAAACCATAAGAATATTAGAAATTTTG-AAAATTAAGATAAAAATTTTTATTTAATT
1 CCCTACAAAAAACCATAAGAATATTAGAAATGTTGAAAAATGAAGATAAAAATTTTTATTTAATT
* * *
1910893 TTTAA-ATTC-TAAAAA-ATTCATTTCATACTTTAATGAAGAACCGAAAAGATATGAAAAGTTTT
66 TTTAATATTCAAAAAAATATTCATTTCATACCTTAATGAAGAACCAAAAAGATATGAAAAGTTTT
1910955 GAAGATTTCTATAC
131 GAAGATTTCTATAC
* * *
1910969 CCCTACAAAAAACTATAGGAATATTAGAAATGTTGAAAAATGAAGATAATAATTTTTATTTAATT
1 CCCTACAAAAAACCATAAGAATATTAGAAATGTTGAAAAATGAAGATAAAAATTTTTATTTAATT
* * * *
1911034 TTTAATTTTCAAAAAAATATTCATTTCGTACCTTAATGGAGAACCAAAAAGATATGAAAATTTTT
66 TTTAATATTCAAAAAAATATTCATTTCATACCTTAATGAAGAACCAAAAAGATATGAAAAGTTTT
1911099 GAA
131 GAA
1911102 TTTTTTCATA
Statistics
Matches: 116, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
140 31 0.27
141 32 0.28
142 3 0.03
143 5 0.04
144 45 0.39
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.35
Consensus pattern (144 bp):
CCCTACAAAAAACCATAAGAATATTAGAAATGTTGAAAAATGAAGATAAAAATTTTTATTTAATT
TTTAATATTCAAAAAAATATTCATTTCATACCTTAATGAAGAACCAAAAAGATATGAAAAGTTTT
GAAGATTTCTATAC
Found at i:1912273 original size:11 final size:11
Alignment explanation
Indices: 1912259--1912287 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
1912249 TTTTTTTTAA
1912259 TTTTTTC-TTT
1 TTTTTTCTTTT
1912269 TTTTTTCTTTT
1 TTTTTTCTTTT
1912280 TTTTTTCT
1 TTTTTTCT
1912288 CTCTTTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:1912283 original size:21 final size:21
Alignment explanation
Indices: 1912259--1912299 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1912249 TTTTTTTTAA
* *
1912259 TTTTTTCTTTTTTTTTCTTTT
1 TTTTTTCTCTCTTTTTCTTTT
1912280 TTTTTTCTCTCTTTTTCTTT
1 TTTTTTCTCTCTTTTTCTTT
1912300 CCATTCACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (21 bp):
TTTTTTCTCTCTTTTTCTTTT
Found at i:1912294 original size:11 final size:10
Alignment explanation
Indices: 1912259--1912299 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
1912249 TTTTTTTTAA
1912259 TTTTTTCTTT
1 TTTTTTCTTT
1912269 TTTTTTCTTTT
1 TTTTTTC-TTT
*
1912280 TTTTTTCTCT
1 TTTTTTCTTT
*
1912290 CTTTTTCTTT
1 TTTTTTCTTT
1912300 CCATTCACCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
10 17 0.63
11 10 0.37
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:1913007 original size:13 final size:13
Alignment explanation
Indices: 1912989--1913026 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1912979 TCACTATTCA
*
1912989 TGTATCGATACAT
1 TGTATCGATACAG
1913002 TGTATCGATACAG
1 TGTATCGATACAG
1913015 TGTATCGATACA
1 TGTATCGATACA
1913027 CTATAAATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1913559 original size:34 final size:35
Alignment explanation
Indices: 1913496--1913562 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1913486 CTAAGTGATT
1913496 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
1913532 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
1913563 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:1914366 original size:166 final size:165
Alignment explanation
Indices: 1913952--1914366 Score: 398
Period size: 166 Copynumber: 2.5 Consensus size: 165
1913942 CAATATATAC
* * * ** * *
1913952 AAAAAATTAAAAATTCATTAAAATAATTTGAATTTTTGAAAACTAATTTAATGTGAATTTAATGA
1 AAAAAATTCAAAACTCATGAAAATAA-AGGAATTTTTGAAAACTAATTTAATATGAATTAAATGA
* ** * * *
1914017 CAATATTATATGAATTTTAAAAATTTTAAACTATGAAAAATTCCTCCGAAAACATTTACGGAATA
65 TAATATTA-ATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCTCCAAAAACATTTACGGAATA
* *
1914082 GAAAAATTAATATTTTAGAAACAGAAAAATTTTAAAG
129 GAAAAATTAATATTTTAGAAACAAAAAAATTCTAAAG
* * * * * *
1914119 AAAAAATTTAAAACTCATGAAAATAAATGAACTATTGAAAAATAATTTAATATGAATTAAATAAT
1 AAAAAATTCAAAACTCATGAAAATAAAGGAATTTTTGAAAACTAATTTAATATGAATTAAATGAT
* *
1914184 AATACTTGATGAATTTTAAAAATTAAAAACTAAGAACAATACCCT-CAAAAACATTTAC-GAAGT
66 AATA-TTAATGAATTTTAAAAATTAAAAACTAAGAAAAAT-CCCTCCAAAAACATTTACGGAA-T
* *
1914247 A-AAAAACTCT-GTATTTT-GTAAATAAAAGAAATTCTAAA-
128 AGAAAAA-T-TAATATTTTAG-AAACAAAA-AAATTCTAAAG
* *
1914285 AGAAAA-TCAATAACTCAT-AAAATAAAGGGAATTTTTCAAAACTAATTTAATAATG-ATTAAAT
1 AAAAAATTCAA-AACTCATGAAAATAAA-GGAATTTTTGAAAACTAATTTAAT-ATGAATTAAAT
*
1914347 GATAATATTTAAAGAATTTT
63 GATAATA-TTAATGAATTTT
1914367 GATGCTTGAA
Statistics
Matches: 205, Mismatches: 33, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
165 20 0.10
166 144 0.70
167 41 0.20
ACGTcount: A:0.52, C:0.07, G:0.08, T:0.33
Consensus pattern (165 bp):
AAAAAATTCAAAACTCATGAAAATAAAGGAATTTTTGAAAACTAATTTAATATGAATTAAATGAT
AATATTAATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCTCCAAAAACATTTACGGAATAGA
AAAATTAATATTTTAGAAACAAAAAAATTCTAAAG
Found at i:1915447 original size:85 final size:85
Alignment explanation
Indices: 1915297--1915737 Score: 453
Period size: 85 Copynumber: 5.2 Consensus size: 85
1915287 AGACAGTTAG
* * * * *
1915297 GTCAACAAAGTATGAAAAGG-GTTACCTAGGACTAAGCCAATTGGT-GAACAAATGATACAAA-A
1 GTCAACAAAGGAT-AAAAGGATTTACCCAGGACTAAGCCAATAGGTAG-ACAAAAGATA-AAAGA
*
1915359 GTTGATCGGGATTGAACCGACAA
63 GTTGATCGAGATTGAACCGACAA
** *
1915382 GTCAACAAAGGATAAAAGGATTTACCCAGGACTAAGCCAATAGGTAGACAAGGGATGAAAGAGTT
1 GTCAACAAAGGATAAAAGGATTTACCCAGGACTAAGCCAATAGGTAGACAAAAGATAAAAGAGTT
* * * *
1915447 GACCGAGATTAAACTGGCAA
66 GATCGAGATTGAACCGACAA
* * * * * * * *
1915467 GTCAATAAAGGATAAAA-GATTTACCCAGGACAAAGCCGACAAGTAGACAAAGGATGAAGGAGTT
1 GTCAACAAAGGATAAAAGGATTTACCCAGGACTAAGCCAATAGGTAGACAAAAGATAAAAGAGTT
1915531 GATCGAGATTGAACCGACAA
66 GATCGAGATTGAACCGACAA
* * * *
1915551 GTCAACAAAGGATAAAAGGATTCA-CCTGAAACTAAGCCAATAGGTAAACAAAAGATAAAAGAGT
1 GTCAACAAAGGATAAAAGGATTTACCCAG-GACTAAGCCAATAGGTAGACAAAAGATAAAAGAGT
*
1915615 TGACCGAGATTGAACCGACAA
65 TGATCGAGATTGAACCGACAA
* * * * * * * *
1915636 ATCAACAAAGGATAAAAGGATTTACTCGGGACTAAGTCGATAGGTAAATAAAA-ATAAAAAAGGT
1 GTCAACAAAGGATAAAAGGATTTACCCAGGACTAAGCCAATAGGTAGACAAAAGATAAAAGA-GT
* * **
1915700 TGATCGGGAGTGAATTGACAA
65 TGATCGAGATTGAACCGACAA
1915721 GTCAACAAAGGATAAAA
1 GTCAACAAAGGATAAAA
1915738 ACTTAACCGA
Statistics
Matches: 298, Mismatches: 51, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
84 92 0.31
85 203 0.68
86 3 0.01
ACGTcount: A:0.45, C:0.14, G:0.23, T:0.17
Consensus pattern (85 bp):
GTCAACAAAGGATAAAAGGATTTACCCAGGACTAAGCCAATAGGTAGACAAAAGATAAAAGAGTT
GATCGAGATTGAACCGACAA
Found at i:1915650 original size:42 final size:42
Alignment explanation
Indices: 1915343--1915653 Score: 181
Period size: 42 Copynumber: 7.4 Consensus size: 42
1915333 CCAATTGGTG
* * *
1915343 AACAAATGATACAAA-AGTTGATCGGGATTGAACCGACAAGTC
1 AACAAAGGATA-AAAGAGTTGACCGAGATTGAACCGACAAGTC
* * * * * *
1915385 AACAAAGGATAAAAG-GATTTACCCAGGACT-AAGCCAATAGGT-
1 AACAAAGGATAAAAGAG-TTGACCGA-GATTGAA-CCGACAAGTC
* * * * *
1915427 AGACAAGGGATGAAAGAGTTGACCGAGATTAAACTGGCAAGTC
1 A-ACAAAGGATAAAAGAGTTGACCGAGATTGAACCGACAAGTC
* * * **
1915470 AATAAAGGATAAAAGA-TTTACCCAGGA-CAAAGCCGACAAGT-
1 AACAAAGGATAAAAGAGTTGACCGA-GATTGAA-CCGACAAGTC
* * *
1915511 AGACAAAGGATGAAGGAGTTGATCGAGATTGAACCGACAAGTC
1 A-ACAAAGGATAAAAGAGTTGACCGAGATTGAACCGACAAGTC
* * * * * * *
1915554 AACAAAGGATAAAAG-GATTCACCTGAAACT-AAGCCAATAGGTA
1 AACAAAGGATAAAAGAG-TTGACC-GAGATTGAA-CCGACAAGTC
* *
1915597 AACAAAAGATAAAAGAGTTGACCGAGATTGAACCGACAAATC
1 AACAAAGGATAAAAGAGTTGACCGAGATTGAACCGACAAGTC
1915639 AACAAAGGATAAAAG
1 AACAAAGGATAAAAG
1915654 GATTTACTCG
Statistics
Matches: 195, Mismatches: 55, Indels: 38
0.68 0.19 0.13
Matches are distributed among these distances:
41 15 0.08
42 109 0.56
43 69 0.35
44 2 0.01
ACGTcount: A:0.46, C:0.15, G:0.23, T:0.16
Consensus pattern (42 bp):
AACAAAGGATAAAAGAGTTGACCGAGATTGAACCGACAAGTC
Found at i:1915881 original size:47 final size:46
Alignment explanation
Indices: 1915803--1915916 Score: 149
Period size: 47 Copynumber: 2.4 Consensus size: 46
1915793 CGAGCGAAGA
* *
1915803 TGAAAAGAGTTTGACCAAG-ACTAATGCCAATACAGTCAAACAACAG
1 TGAAAA-AGTTTGACCAAGTCCTAACGCCAATACAGTCAAACAACAG
**
1915849 TGGAAAAAGTTTGACCAAGTCCTAACGCCAATACAGTCAAACAATGG
1 T-GAAAAAGTTTGACCAAGTCCTAACGCCAATACAGTCAAACAACAG
*
1915896 TGAGAAAAGTTTGACTAAGTC
1 TGA-AAAAGTTTGACCAAGTC
1915917 TGTCAATACC
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
46 15 0.25
47 45 0.75
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.20
Consensus pattern (46 bp):
TGAAAAAGTTTGACCAAGTCCTAACGCCAATACAGTCAAACAACAG
Found at i:1917605 original size:13 final size:13
Alignment explanation
Indices: 1917587--1917613 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1917577 ACATGCTGCT
1917587 TTGTATCGATACA
1 TTGTATCGATACA
1917600 TTGTATCGATACA
1 TTGTATCGATACA
1917613 T
1 T
1917614 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1917610 original size:33 final size:32
Alignment explanation
Indices: 1917568--1917632 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
1917558 CACACCCAGA
*
1917568 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATG-TGCATTGTATCGATACAT
*
1917601 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTGCATTGTATCGATACAT
1917633 GGACAAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGTGCATTGTATCGATACAT
Found at i:1917644 original size:21 final size:19
Alignment explanation
Indices: 1917597--1917654 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
1917587 TTGTATCGAT
*
1917597 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
1917616 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
1917635 ACAAATTGTATCGATACATG
1 AC--ATTGTATCGATACATG
1917655 AACCTGGTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 18 0.53
21 16 0.47
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:1917709 original size:20 final size:19
Alignment explanation
Indices: 1917684--1917736 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
1917674 TATCACTATT
1917684 TGTATCGATACATG-GTACAA
1 TGTATCGATACATGAG-A-AA
1917704 TGTATCGATACATGAAGAAA
1 TGTATCGATACATG-AGAAA
1917724 TGTATCGATACAT
1 TGTATCGATACAT
1917737 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (19 bp):
TGTATCGATACATGAGAAA
Found at i:1923737 original size:20 final size:20
Alignment explanation
Indices: 1923714--1923754 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
1923704 ATGAATTTTG
1923714 ATGTTTGTTATGAT-TGAATT
1 ATGTTTGTT-TGATATGAATT
1923734 ATGTTTGTTTGATATGAATT
1 ATGTTTGTTTGATATGAATT
1923754 A
1 A
1923755 GGGTCTATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.54
Consensus pattern (20 bp):
ATGTTTGTTTGATATGAATT
Found at i:1924229 original size:13 final size:13
Alignment explanation
Indices: 1924211--1924235 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1924201 AGATTGCACA
1924211 GTATCGATACATT
1 GTATCGATACATT
1924224 GTATCGATACAT
1 GTATCGATACAT
1924236 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1924248 original size:20 final size:21
Alignment explanation
Indices: 1924223--1924275 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1924213 ATCGATACAT
*
1924223 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGTA-AAGAA
*
1924243 TGTATCGATACTTGTAAAGAA
1 TGTATCGATACATGTAAAGAA
1924264 TGTATCGATACA
1 TGTATCGATACA
1924276 GGTCATTGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATGTAAAGAA
Found at i:1924353 original size:13 final size:13
Alignment explanation
Indices: 1924335--1924360 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1924325 TACACACAAG
1924335 ATGTATCGATACA
1 ATGTATCGATACA
1924348 ATGTATCGATACA
1 ATGTATCGATACA
1924361 TCCCAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1924377 original size:33 final size:32
Alignment explanation
Indices: 1924317--1924380 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
1924307 CTTAACTGTT
*
1924317 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
1924349 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
1924381 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:1930506 original size:13 final size:13
Alignment explanation
Indices: 1930488--1930525 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
1930478 CAGCATTCTC
*
1930488 TGTATCGATACAT
1 TGTATCGATACAG
1930501 TGTATCGATACAG
1 TGTATCGATACAG
*
1930514 TGTATCAATACA
1 TGTATCGATACA
1930526 AAAGGTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1932972 original size:13 final size:13
Alignment explanation
Indices: 1932950--1932980 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1932940 CGAGACAGAT
1932950 TACATAGTATCGA
1 TACATAGTATCGA
*
1932963 TACATTGTATCGA
1 TACATAGTATCGA
1932976 TACAT
1 TACAT
1932981 GACCAAATGT
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:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATAGTATCGA
Found at i:1932993 original size:20 final size:21
Alignment explanation
Indices: 1932968--1933020 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1932958 ATCGATACAT
*
1932968 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGTA-AAGAA
*
1932988 TGTATCGATACTTGTAAAGAA
1 TGTATCGATACATGTAAAGAA
1933009 TGTATCGATACA
1 TGTATCGATACA
1933021 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATGTAAAGAA
Found at i:1933090 original size:19 final size:19
Alignment explanation
Indices: 1933062--1933124 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
1933052 CTTAACTGTT
1933062 TGTATCGATACACACAAGA
1 TGTATCGATACACACAAGA
*
1933081 TGTATTGAT----AC-A-A
1 TGTATCGATACACACAAGA
1933094 TGTATCGATACACACAAGA
1 TGTATCGATACACACAAGA
1933113 TGTATCGATACA
1 TGTATCGATACA
1933125 ATGTATCGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 9 0.25
14 1 0.03
15 2 0.06
17 2 0.06
18 1 0.03
19 21 0.58
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (19 bp):
TGTATCGATACACACAAGA
Found at i:1933103 original size:32 final size:32
Alignment explanation
Indices: 1933062--1933157 Score: 147
Period size: 32 Copynumber: 3.0 Consensus size: 32
1933052 CTTAACTGTT
*
1933062 TGTATCGATACACACAAGATGTATTGATACAA
1 TGTATCGATACACACAAGATGTATCGATACAA
1933094 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAGATGTATCGATACAA
* * *
1933126 TGTATCGATGCATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAGATGTATCGATACA
1933158 TTGTCTTATA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 42 0.71
33 17 0.29
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACACAAGATGTATCGATACAA
Found at i:1936347 original size:13 final size:13
Alignment explanation
Indices: 1936329--1936355 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1936319 ACATGTTGCT
1936329 TTGTATCGATACA
1 TTGTATCGATACA
1936342 TTGTATCGATACA
1 TTGTATCGATACA
1936355 T
1 T
1936356 GGACAAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1939522 original size:47 final size:47
Alignment explanation
Indices: 1939448--1939916 Score: 398
Period size: 47 Copynumber: 10.1 Consensus size: 47
1939438 ACGCACATCG
* * * * ** *
1939448 TGACAAGGTCATAACACCAATACAGTCAAACAATAGTGACAAAAGTT
1 TGACCAGGTCCTAACGCCAATACAGTCAAACGACGGTGAGAAAAGTT
* * * *
1939495 TGACCAGGTCTTAACGCCAATACAGTCAAATGACAGTGAGAAAAATT
1 TGACCAGGTCCTAACGCCAATACAGTCAAACGACGGTGAGAAAAGTT
* * * *
1939542 TGACCAAGTCCTAAAGCCAATATAATCAAACGA---TG-GAAAGAGTT
1 TGACCAGGTCCTAACGCCAATACAGTCAAACGACGGTGAGAAA-AGTT
* * * * **
1939586 TAACCAGGTCCTAACACCAATATAGTCAAACAACGGTGAGAAGTGTT
1 TGACCAGGTCCTAACGCCAATACAGTCAAACGACGGTGAGAAAAGTT
* * * * * * *
1939633 TGACCAAGTCCTAACTCTAATATAGTCAAATGACGGTAAGGAAAGTT
1 TGACCAGGTCCTAACGCCAATACAGTCAAACGACGGTGAGAAAAGTT
* * * * *
1939680 TGACCAAGTCCTAATGCCAATATAGTCAAATGACGATGAGAAAAGTT
1 TGACCAGGTCCTAACGCCAATACAGTCAAACGACGGTGAGAAAAGTT
* * * *
1939727 TGACCAGGTCCTAATGCTAATATAGTCAAACGAGGGTG-GAAAGAGTT
1 TGACCAGGTCCTAACGCCAATACAGTCAAACGACGGTGAGAAA-AGTT
* * *
1939774 TGACTA-GTCCTAAGGCCAATACAGTCAAACGAAGGTGA-AAAGAGTT
1 TGACCAGGTCCTAACGCCAATACAGTCAAACGACGGTGAGAAA-AGTT
* * *
1939820 TGACCAAAG-CCTAACGCCAATACAGTCAAACGAGGGTGAGAAGAGTT
1 TGACC-AGGTCCTAACGCCAATACAGTCAAACGACGGTGAGAAAAGTT
* * * * *
1939867 TGACCAGGTCTTAATGCCAATACAATCAAACAATGGTGA-AAAGAGTT
1 TGACCAGGTCCTAACGCCAATACAGTCAAACGACGGTGAGAAA-AGTT
1939914 TGA
1 TGA
1939917 GTGAAGAGCG
Statistics
Matches: 350, Mismatches: 60, Indels: 24
0.81 0.14 0.06
Matches are distributed among these distances:
43 4 0.01
44 32 0.09
46 47 0.13
47 261 0.75
48 6 0.02
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.21
Consensus pattern (47 bp):
TGACCAGGTCCTAACGCCAATACAGTCAAACGACGGTGAGAAAAGTT
Found at i:1939847 original size:140 final size:138
Alignment explanation
Indices: 1939464--1939916 Score: 436
Period size: 140 Copynumber: 3.2 Consensus size: 138
1939454 GGTCATAACA
* ** * * *
1939464 CCAATACAGTCAAACAATAGT-GACAAAAGTTTGACCAGGTCTTAACGCCAATACAGTCAAATGA
1 CCAATATAGTCAAACAACGGTGGA-AAGAGTTTGA-CAAGTCCTAACGCCAATACAGTCAAATGA
* * *
1939528 CA-GTGAGAAAAATTTGACCAAGTCCTAAAGCCAATATAATC-AA-ACGATG-GAAAGAGTTTAA
64 -AGGTGA-AAAAGTTTGACCAAGTCCTAAAGCCAATATAGTCAAAGACGATGAGAAA-AGTTTGA
**
1939589 CCAGGTCCTAACA
126 CCAGGTCCTAATG
* * * *
1939602 CCAATATAGTCAAACAACGGT-GAGAAGTGTTTGACCAAGTCCTAACTCTAATATAGTCAAATGA
1 CCAATATAGTCAAACAACGGTGGA-AAGAGTTTGA-CAAGTCCTAACGCCAATACAGTCAAATGA
* *
1939666 CGGT-AAGGAAAGTTTGACCAAGTCCTAATGCCAATATAGTCAAATGACGATGAGAAAAGTTTGA
64 AGGTGAA--AAAGTTTGACCAAGTCCTAAAGCCAATATAGTCAAA-GACGATGAGAAAAGTTTGA
1939730 CCAGGTCCTAATG
126 CCAGGTCCTAATG
* * * * * *
1939743 CTAATATAGTCAAACGAGGGTGGAAAGAGTTTGACTAGTCCTAAGGCCAATACAGTCAAACGAAG
1 CCAATATAGTCAAACAACGGTGGAAAGAGTTTGACAAGTCCTAACGCCAATACAGTCAAATGAAG
* * * * *
1939808 GTGAAAAGAGTTTGACCAAAG-CCTAACGCCAATACAGTCAAACGAGGGTGAGAAGAGTTTGACC
66 GTGAAAA-AGTTTGACC-AAGTCCTAAAGCCAATATAGTCAAA-GACGATGAGAAAAGTTTGACC
*
1939872 AGGTCTTAATG
128 AGGTCCTAATG
* * * *
1939883 CCAATACAATCAAACAATGGTGAAAAGAGTTTGA
1 CCAATATAGTCAAACAACGGTGGAAAGAGTTTGA
1939917 GTGAAGAGCG
Statistics
Matches: 262, Mismatches: 42, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
136 1 0.00
137 1 0.00
138 85 0.32
139 4 0.02
140 110 0.42
141 55 0.21
142 6 0.02
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.21
Consensus pattern (138 bp):
CCAATATAGTCAAACAACGGTGGAAAGAGTTTGACAAGTCCTAACGCCAATACAGTCAAATGAAG
GTGAAAAAGTTTGACCAAGTCCTAAAGCCAATATAGTCAAAGACGATGAGAAAAGTTTGACCAGG
TCCTAATG
Found at i:1940854 original size:16 final size:17
Alignment explanation
Indices: 1940833--1940880 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 17
1940823 ATTCATTATT
1940833 CTTTCTTTTTTTTTT-C
1 CTTTCTTTTTTTTTTGC
1940849 CTTTCTTACTTCTTTTTTGC
1 CTTTCTT--TT-TTTTTTGC
*
1940869 CTCTCTTTTTTT
1 CTTTCTTTTTTT
1940881 GTTTTTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
16 7 0.26
17 3 0.11
18 4 0.15
19 6 0.22
20 7 0.26
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.73
Consensus pattern (17 bp):
CTTTCTTTTTTTTTTGC
Found at i:1941594 original size:9 final size:9
Alignment explanation
Indices: 1941580--1941609 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
1941570 TTCTCTTTTC
1941580 TTTTTATTT
1 TTTTTATTT
1941589 TTTTTA-TT
1 TTTTTATTT
1941597 TTTTTATTT
1 TTTTTATTT
1941606 TTTT
1 TTTT
1941610 AAAAAAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTATTT
Found at i:1941598 original size:8 final size:8
Alignment explanation
Indices: 1941580--1941610 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
1941570 TTCTCTTTTC
1941580 TTTTTATTT
1 TTTTTA-TT
1941589 TTTTTATT
1 TTTTTATT
1941597 TTTTTATT
1 TTTTTATT
1941605 TTTTTA
1 TTTTTA
1941611 AAAAAATTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 16 0.73
9 6 0.27
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTATT
Found at i:1953315 original size:18 final size:18
Alignment explanation
Indices: 1953292--1953327 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1953282 CTATCAGAAG
1953292 ACTGGCTATAAGATTTGT
1 ACTGGCTATAAGATTTGT
*
1953310 ACTGGCTATGAGATTTGT
1 ACTGGCTATAAGATTTGT
1953328 TCTCGATGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.39
Consensus pattern (18 bp):
ACTGGCTATAAGATTTGT
Found at i:1955772 original size:13 final size:12
Alignment explanation
Indices: 1955695--1955776 Score: 67
Period size: 14 Copynumber: 6.3 Consensus size: 12
1955685 CCAATTTGCC
1955695 ATTTGTCAAGAA
1 ATTTGTCAAGAA
1955707 ATGGTTGTCAAGAA
1 AT--TTGTCAAGAA
1955721 ATTATCGTCAAGAA
1 ATT-T-GTCAAGAA
* *
1955735 CTTTTGTCGAGAA
1 -ATTTGTCAAGAA
*
1955748 TGTTTGTC-AGAA
1 -ATTTGTCAAGAA
1955760 ACTTTGTCAAGAA
1 A-TTTGTCAAGAA
1955773 ATTT
1 ATTT
1955777 TCATCAATAC
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
12 16 0.28
13 19 0.33
14 21 0.36
15 2 0.03
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.35
Consensus pattern (12 bp):
ATTTGTCAAGAA
Found at i:1956980 original size:51 final size:51
Alignment explanation
Indices: 1956816--1957152 Score: 200
Period size: 51 Copynumber: 6.4 Consensus size: 51
1956806 GAAAAAACGA
* * *
1956816 GGTTGGAGTATCCTCGATTGTGAAAATTTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGGAAATAAAATCGG
* * * * * *
1956868 TGTTGGAGTATCCCCGATTATAGGAAAATTGGTGTTTTGAAAATAAAACCGA
1 GGTTGGAGTATCCCCGATTAT-GAAAAATTGGTATTTTGGAAATAAAATCGG
* *** * *
1956920 GGTTAGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTTGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAATCGG
** **** * *
1956971 GGTTGGAGTATCCCC---TCGGAAATAACGGGGTTGGAGTATCCCCGATGAT-TAA-CGG
1 GGTTGGAGTATCCCCGATTATGAAA-AA-----TT-G-GTATTTTGGA-AATAAAATCGG
* * * *
1957026 GGTTGGAGTGTCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGA
1 GGTTGGAGTATCCCCGATTATGAA-AAATT-G-GTATTTTGGAAATAAAATCGG
* * * *
1957080 AGTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGA-AAAATTGGTATTTTGGAAATAAAATCGG
* *
1957131 AGTTGGAATATCCCCGATTATG
1 GGTTGGAGTATCCCCGATTATG
1957153 GAGAATTGAG
Statistics
Matches: 212, Mismatches: 55, Indels: 36
0.70 0.18 0.12
Matches are distributed among these distances:
48 5 0.02
49 2 0.01
51 72 0.34
52 54 0.25
53 26 0.12
54 22 0.10
55 16 0.08
56 6 0.03
57 2 0.01
58 6 0.03
59 1 0.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAATCGG
Found at i:1957031 original size:27 final size:28
Alignment explanation
Indices: 1956969--1957043 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 28
1956959 AAATAAAGTT
***
1956969 GGGGTTGGAGTATCCCCTCGGAAATAAC
1 GGGGTTGGAGTATCCCCGATGAAATAAC
*
1956997 GGGGTTGGAGTATCCCCGATG-ATTAAC
1 GGGGTTGGAGTATCCCCGATGAAATAAC
*
1957024 GGGGTTGGAGTGTCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
1957044 TGTGAAGAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 24 0.57
28 18 0.43
ACGTcount: A:0.20, C:0.20, G:0.36, T:0.24
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGATGAAATAAC
Found at i:1957108 original size:211 final size:211
Alignment explanation
Indices: 1956758--1957152 Score: 582
Period size: 211 Copynumber: 1.9 Consensus size: 211
1956748 AGATAACAAC
* *
1956758 GGGGTTGGAGTGTTCCCTCGAAAGTAACGGGGTTGGAGTACCCCCGATGAAAAAACGAGGTTGGA
1 GGGGTTGGAGTATCCCCTCGAAAGTAACGGGGTTGGAGTACCCCCGATGAAAAAACGAGGTTGGA
* * **
1956823 GTATCCTCGATTGTGAAAATTTGGTATTTTTGGAAATAAAATCGGTGTTGGAGTATCCCCGATTA
66 GTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGAAGTTGGAGTATCCCCGATTA
* *
1956888 TAGGAAAATTGGTGTTTTGAAAATAAAACC-GAGGTTAGAGTATCCCCGATTATGAAAAATCAAT
131 TAGGAAAATTAGTGTTTTGAAAATAAAACCGGA-GTTAGAATATCCCCGATTATGAAAAATCAAT
1956952 ATTTTGGAAATAAAGTT
195 ATTTTGGAAATAAAGTT
* ** *
1956969 GGGGTTGGAGTATCCCCTCGGAAA-TAACGGGGTTGGAGTATCCCCGATG-ATTAACGGGGTTGG
1 GGGGTTGGAGTATCCCCTC-GAAAGTAACGGGGTTGGAGTACCCCCGATGAAAAAACGAGGTTGG
* *
1957032 AGTGTCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGAAGTTGGAGTATCCCCGA
65 AGTATCCCCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGAAGTTGGAGTATCCCCGA
* *
1957097 TTATA-GAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTATG
128 TTATAGGAAAATTAGTGTTTTGAAAATAAAACCGGAGTTAGAATATCCCCGATTATG
1957153 GAGAATTGAG
Statistics
Matches: 164, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
210 27 0.16
211 92 0.56
212 45 0.27
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (211 bp):
GGGGTTGGAGTATCCCCTCGAAAGTAACGGGGTTGGAGTACCCCCGATGAAAAAACGAGGTTGGA
GTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGAAGTTGGAGTATCCCCGATTA
TAGGAAAATTAGTGTTTTGAAAATAAAACCGGAGTTAGAATATCCCCGATTATGAAAAATCAATA
TTTTGGAAATAAAGTT
Found at i:1959531 original size:33 final size:33
Alignment explanation
Indices: 1959473--1959539 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1959463 AAAATTTCCA
***
1959473 AATGTATCGATACAAAGATCCATGTATCCATAC
1 AATGTATCGATACAAAGAAAAATGTATCCATAC
* *
1959506 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCCATAC
1959539 A
1 A
1959540 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCCATAC
Found at i:1959583 original size:19 final size:18
Alignment explanation
Indices: 1959559--1959626 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1959549 CAGTAGCTAA
1959559 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1959578 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1959593 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1959610 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1959627 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1959599 original size:13 final size:13
Alignment explanation
Indices: 1959581--1959605 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1959571 ACAATACTTA
1959581 TGTATCGATACAT
1 TGTATCGATACAT
1959594 TGTATCGATACA
1 TGTATCGATACA
1959606 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1959603 original size:32 final size:32
Alignment explanation
Indices: 1959562--1959624 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1959552 TAGCTAATTA
*
1959562 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1959594 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1959625 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1959688 original size:21 final size:22
Alignment explanation
Indices: 1959662--1959717 Score: 80
Period size: 21 Copynumber: 2.6 Consensus size: 22
1959652 GTTGGGACCC
* *
1959662 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACATTTCTACAAA
1959683 TGTATCGATACA-TTCTACAAA
1 TGTATCGATACATTTCTACAAA
1959704 TGTATCGATACATT
1 TGTATCGATACATT
1959718 CGAATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 4 0.13
21 26 0.84
22 1 0.03
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (22 bp):
TGTATCGATACATTTCTACAAA
Found at i:1959916 original size:28 final size:27
Alignment explanation
Indices: 1959877--1960167 Score: 309
Period size: 28 Copynumber: 10.5 Consensus size: 27
1959867 ACACAACCCT
*
1959877 TTTAAAGCCCACGAGTCAGTGGCATCTC
1 TTTAAAGCCCACAAGTCAGTGGCATC-C
*
1959905 TTTAAAGCCCACAAGTTAGTGGCATCC
1 TTTAAAGCCCACAAGTCAGTGGCATCC
* *
1959932 TTCCAAAGCCCACGAGTCAGTGGCATCC
1 TT-TAAAGCCCACAAGTCAGTGGCATCC
* *
1959960 ATTCAAAGCCCACAAGTTAGTGGCATCC
1 -TTTAAAGCCCACAAGTCAGTGGCATCC
*
1959988 TTTCAAAGCCCACGAGTCAGTGGCATCC
1 TTT-AAAGCCCACAAGTCAGTGGCATCC
* * *
1960016 TTCCAAAGCCCATAAGTGAGTGGCATCTC
1 TT-TAAAGCCCACAAGTCAGTGGCATC-C
* * *
1960045 TTCAAAGCCTACAAGTTAGTGGCATCC
1 TTTAAAGCCCACAAGTCAGTGGCATCC
*
1960072 TTTCAAAGTCCACAAGTCAGTGGCA-CC
1 TTT-AAAGCCCACAAGTCAGTGGCATCC
* *
1960099 TCTTCAAAGCCCACGAGTCAGTGGCA-CT
1 T-TT-AAAGCCCACAAGTCAGTGGCATCC
*
1960127 TTTCGAAG-CCACAAGTCAGTGGCATCC
1 TTT-AAAGCCCACAAGTCAGTGGCATCC
1960154 TTTCAAAGCCCACA
1 TTT-AAAGCCCACA
1960168 CAAGTTGGTG
Statistics
Matches: 226, Mismatches: 28, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
26 15 0.07
27 25 0.11
28 181 0.80
29 5 0.02
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.23
Consensus pattern (27 bp):
TTTAAAGCCCACAAGTCAGTGGCATCC
Found at i:1959968 original size:56 final size:55
Alignment explanation
Indices: 1959874--1960166 Score: 378
Period size: 56 Copynumber: 5.3 Consensus size: 55
1959864 TCTACACAAC
* * *
1959874 CCTTTTAAAGCCCACGAGTCAGTGGCATCTCTTTAAAGCCCACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACGAGTCAGTGGCATC-CTTCAAAGCCCACAAGTCAGTGGCAT
* *
1959930 CCTTCCAAAGCCCACGAGTCAGTGGCATCCATTCAAAGCCCACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACGAGTCAGTGGCATCC-TTCAAAGCCCACAAGTCAGTGGCAT
* *
1959986 CCTTTCAAAGCCCACGAGTCAGTGGCATCCTTCCAAAGCCCATAAGTGAGTGGCAT
1 CCTTTCAAAGCCCACGAGTCAGTGGCATCCTT-CAAAGCCCACAAGTCAGTGGCAT
* * * *
1960042 -CTCTTCAAAGCCTACAAGTTAGTGGCATCCTTTCAAAGTCCACAAGTCAGTGGCA-
1 CCT-TTCAAAGCCCACGAGTCAGTGGCATCC-TTCAAAGCCCACAAGTCAGTGGCAT
* *
1960097 CCTCTTCAAAGCCCACGAGTCAGTGGCA-CTTTTCGAAG-CCACAAGTCAGTGGCAT
1 CCT-TTCAAAGCCCACGAGTCAGTGGCATC-CTTCAAAGCCCACAAGTCAGTGGCAT
1960152 CCTTTCAAAGCCCAC
1 CCTTTCAAAGCCCAC
1960167 ACAAGTTGGT
Statistics
Matches: 213, Mismatches: 17, Indels: 16
0.87 0.07 0.07
Matches are distributed among these distances:
54 28 0.13
55 15 0.07
56 168 0.79
57 2 0.01
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.23
Consensus pattern (55 bp):
CCTTTCAAAGCCCACGAGTCAGTGGCATCCTTCAAAGCCCACAAGTCAGTGGCAT
Found at i:1960021 original size:84 final size:83
Alignment explanation
Indices: 1959880--1960167 Score: 386
Period size: 84 Copynumber: 3.5 Consensus size: 83
1959870 CAACCCTTTT
* *
1959880 AAAGCCCACGAGTCAGTGGCATCTCTTT-AAAGCCCACAAGTTAGTGGCATCCTTCCAAAGCCCA
1 AAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGCATCCTTCCAAAGCCCA
1959944 CGAGTCAGTGGCATCCATTC
65 CGAGTCAGTGGCATCC-TTC
* * *
1959964 AAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACGAGTCAGTGGCATCCTTCCAAAGCCCAT
1 AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCCAAAGCCCAC
* *
1960029 AAGTGAGTGGCATCTCTTC
66 GAGTCAGTGGCATC-CTTC
* * * *
1960048 AAAGCCTACAAGTTAGTGGCATCCTTTCAAAGTCCACAAGTCAGTGGCA-CCTCTTCAAAGCCCA
1 AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCT-TCCAAAGCCCA
*
1960112 CGAGTCAGTGGCA-CTTTTC
65 CGAGTCAGTGGCATC-CTTC
*
1960131 GAAG-CCACAAGTCAGTGGCATCCTTTCAAAGCCCACA
1 AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACA
1960168 CAAGTTGGTG
Statistics
Matches: 182, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
82 30 0.16
83 15 0.08
84 136 0.75
85 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (83 bp):
AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCCAAAGCCCAC
GAGTCAGTGGCATCCTTC
Found at i:1961121 original size:13 final size:13
Alignment explanation
Indices: 1961103--1961128 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1961093 TAATTTTTTG
1961103 TGTATCGATACAT
1 TGTATCGATACAT
1961116 TGTATCGATACAT
1 TGTATCGATACAT
1961129 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1961214 original size:20 final size:20
Alignment explanation
Indices: 1961189--1961261 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1961179 ATCTTTTTTT
1961189 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1961209 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1961230 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1961250 ATGTATCGATAC
1 ATGTATCGATAC
1961262 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1961240 original size:41 final size:42
Alignment explanation
Indices: 1961167--1961261 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
1961157 CTGCCAAGAA
*
1961167 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
1961209 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
1961250 ATGTATCGATAC
1 ATGTATCGATAC
1961262 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:1963732 original size:13 final size:13
Alignment explanation
Indices: 1963714--1963752 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1963704 ATAATCACCC
*
1963714 TGTATCGATACAG
1 TGTATCGATACAA
1963727 TGTATCGATACAA
1 TGTATCGATACAA
1963740 TGTATCGATACAA
1 TGTATCGATACAA
1963753 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1963763 original size:20 final size:20
Alignment explanation
Indices: 1963738--1963816 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
1963728 GTATCGATAC
1963738 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
1963758 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
1963783 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
1963803 CATGTATCGATACA
1 AATGTATCGATACA
1963817 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:1965850 original size:15 final size:15
Alignment explanation
Indices: 1965830--1965860 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1965820 ATTTCGTTTG
*
1965830 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1965845 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1965860 G
1 G
1965861 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1967688 original size:21 final size:21
Alignment explanation
Indices: 1967659--1967703 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1967649 AAGTTTTCAT
*
1967659 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1967679 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1967701 TTT
1 TTT
1967704 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1969936 original size:13 final size:13
Alignment explanation
Indices: 1969918--1969943 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1969908 TAATTTTTTG
1969918 TGTATCGATACAT
1 TGTATCGATACAT
1969931 TGTATCGATACAT
1 TGTATCGATACAT
1969944 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1970029 original size:20 final size:20
Alignment explanation
Indices: 1970004--1970076 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1969994 ATCTTTTTTT
1970004 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1970024 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1970045 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1970065 ATGTATCGATAC
1 ATGTATCGATAC
1970077 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1970055 original size:41 final size:42
Alignment explanation
Indices: 1969982--1970076 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
1969972 CTGCCAAGAA
*
1969982 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
1970024 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
1970065 ATGTATCGATAC
1 ATGTATCGATAC
1970077 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:1973137 original size:21 final size:20
Alignment explanation
Indices: 1973103--1973145 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
1973093 TATTAAAAAG
*
1973103 TTAGCTAATGAAAATAATGAA
1 TTAGCTAATGAAAACAA-GAA
1973124 TTAGCTAA-GAAAAACAAGAA
1 TTAGCTAATG-AAAACAAGAA
1973144 TT
1 TT
1973146 TGCATGATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (20 bp):
TTAGCTAATGAAAACAAGAA
Found at i:1973144 original size:20 final size:21
Alignment explanation
Indices: 1973103--1973145 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
1973093 TATTAAAAAG
*
1973103 TTAGCTAATGAAAATAATGAA
1 TTAGCTAATGAAAATAAAGAA
1973124 TTAGCTAA-GAAAA-ACAAGAA
1 TTAGCTAATGAAAATA-AAGAA
1973144 TT
1 TT
1973146 TGCATGATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 11 0.55
21 8 0.40
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (21 bp):
TTAGCTAATGAAAATAAAGAA
Found at i:1977333 original size:19 final size:21
Alignment explanation
Indices: 1977287--1977339 Score: 74
Period size: 19 Copynumber: 2.6 Consensus size: 21
1977277 TTTCAATAAT
1977287 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACAAACAGTAA
* *
1977308 ATGTATCGATACATA-AGT-A
1 TTGTATCGATACAAACAGTAA
1977327 TTGTATCGATACA
1 TTGTATCGATACA
1977340 GTGTATCGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 13 0.45
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (21 bp):
TTGTATCGATACAAACAGTAA
Found at i:1977413 original size:33 final size:33
Alignment explanation
Indices: 1977371--1977567 Score: 186
Period size: 33 Copynumber: 6.0 Consensus size: 33
1977361 GCCAAGGAAA
* *
1977371 TGTATCGATACATTATTCAATATATCGATACAT
1 TGTATCGATACATTACTCAATGTATCGATACAT
* ** *
1977404 TGTATCGATACATCGA-TCTTTGCATCGATACA-
1 TGTATCGATACAT-TACTCAATGTATCGATACAT
* * ** *
1977436 TCTA-GGA-AGTTTACCCAGATGTATCGATACAT
1 TGTATCGATACATTACTCA-ATGTATCGATACAT
* *
1977468 TGTATCGATACATTGCTCAGTGTATCGATACAT
1 TGTATCGATACATTACTCAATGTATCGATACAT
* *
1977501 TGTATCGATACATTGCTCAGTGTATCGATACAT
1 TGTATCGATACATTACTCAATGTATCGATACAT
* * *
1977534 TATATCGATACATTGCTCATTGTATCGATACAT
1 TGTATCGATACATTACTCAATGTATCGATACAT
1977567 T
1 T
1977568 TTACAATGTA
Statistics
Matches: 135, Mismatches: 23, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
29 1 0.01
30 3 0.02
31 13 0.10
32 6 0.04
33 105 0.78
34 7 0.05
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (33 bp):
TGTATCGATACATTACTCAATGTATCGATACAT
Found at i:1977473 original size:13 final size:13
Alignment explanation
Indices: 1977455--1977548 Score: 77
Period size: 13 Copynumber: 8.2 Consensus size: 13
1977445 TTTACCCAGA
1977455 TGTATCGATACAT
1 TGTATCGATACAT
1977468 TGTATCGATACAT
1 TGTATCGATACAT
*
1977481 TG---C--T-CAG
1 TGTATCGATACAT
1977488 TGTATCGATACAT
1 TGTATCGATACAT
1977501 TGTATCGATACAT
1 TGTATCGATACAT
*
1977514 TG---C--T-CAG
1 TGTATCGATACAT
1977521 TGTATCGATACAT
1 TGTATCGATACAT
*
1977534 TATATCGATACAT
1 TGTATCGATACAT
1977547 TG
1 TG
1977549 CTCATTGTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 24
0.68 0.06 0.26
Matches are distributed among these distances:
7 8 0.13
8 2 0.03
10 4 0.06
12 2 0.03
13 47 0.75
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1977493 original size:20 final size:18
Alignment explanation
Indices: 1977468--1977588 Score: 91
Period size: 20 Copynumber: 6.8 Consensus size: 18
1977458 ATCGATACAT
1977468 TGTATCGATACATTGCTCA
1 TGTATCGATACATT-CTCA
1977487 GTGTATCGATACA---T--
1 -TGTATCGATACATTCTCA
1977501 TGTATCGATACATTGCTCA
1 TGTATCGATACATT-CTCA
1977520 GTGTATCGATACA-T-T-A
1 -TGTATCGATACATTCTCA
1977536 --TATCGATACATTGCTCA
1 TGTATCGATACATT-CTCA
*
1977553 TTGTATCGATACATTTTACAA
1 -TGTATCGATACATTCT-C-A
1977574 TGTATCGATACATTC
1 TGTATCGATACATTC
1977589 AGGCATTTTT
Statistics
Matches: 83, Mismatches: 2, Indels: 32
0.71 0.02 0.27
Matches are distributed among these distances:
13 22 0.27
14 1 0.01
16 3 0.04
17 3 0.04
19 2 0.02
20 51 0.61
21 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (18 bp):
TGTATCGATACATTCTCA
Found at i:1980003 original size:79 final size:79
Alignment explanation
Indices: 1979872--1980057 Score: 273
Period size: 79 Copynumber: 2.4 Consensus size: 79
1979862 TAAATTTCTT
* * *
1979872 AATTTCTCATAATCGAGGATACTCCAACCCCGTCATTTCCGAGGGGATACTCCAACCCCGGTTTT
1 AATTTTTCATAATCGGGGATACTCCAACCCCGTCATTTCCGAGGGGATACTCCAACCCCAGTTTT
1979937 ATTTCTAAAACATC
66 ATTTCTAAAACATC
* * * *
1979951 AATTTTTCATAATCGGGGATACTCTAACCCCGTTATTTTCGAGGGGATACTCCAACCCTAGTTTT
1 AATTTTTCATAATCGGGGATACTCCAACCCCGTCATTTCCGAGGGGATACTCCAACCCCAGTTTT
1980016 ATTTCTAAAACATC
66 ATTTCTAAAACATC
* * * *
1980030 AATTCTCCACAATCGGGGATATTCCAAC
1 AATTTTTCATAATCGGGGATACTCCAAC
1980058 TCCGATTTTA
Statistics
Matches: 95, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 95 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.31
Consensus pattern (79 bp):
AATTTTTCATAATCGGGGATACTCCAACCCCGTCATTTCCGAGGGGATACTCCAACCCCAGTTTT
ATTTCTAAAACATC
Found at i:1980170 original size:102 final size:102
Alignment explanation
Indices: 1979993--1980176 Score: 264
Period size: 102 Copynumber: 1.8 Consensus size: 102
1979983 TTATTTTCGA
* * *
1979993 GGGGATACTCCAACCCTAGTTTTATTTCTAAAACATCAATTCTCCACAATCGGGGATATTCCAAC
1 GGGGATACTCCAACCCTAATTTTATTTCTAAAACACCAATTCTCCACAATCGAGGATATTCCAAC
* * *
1980058 TCCGATTTTATTTCCAAAACACTAATTTTTCACAATC
66 CCCGACTTTATTACCAAAACACTAATTTTTCACAATC
*
1980095 GGGGATACTCCAA-TCTCAATTTTATTTCTAAAACACCAATTCTCCACAATCGAGGATACTT-CA
1 GGGGATACTCCAACCCT-AATTTTATTTCTAAAACACCAATTCTCCACAATCGAGGATA-TTCCA
*
1980158 ACCCCGGCTTTATTACCAA
64 ACCCCGACTTTATTACCAA
1980177 TTTTTCATAA
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
101 2 0.03
102 68 0.94
103 2 0.03
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.32
Consensus pattern (102 bp):
GGGGATACTCCAACCCTAATTTTATTTCTAAAACACCAATTCTCCACAATCGAGGATATTCCAAC
CCCGACTTTATTACCAAAACACTAATTTTTCACAATC
Found at i:1980171 original size:51 final size:51
Alignment explanation
Indices: 1979993--1980162 Score: 214
Period size: 51 Copynumber: 3.3 Consensus size: 51
1979983 TTATTTTCGA
* * *
1979993 GGGGATACTCCAACCCTAGTTTTATTTCTAAAACATCAATTCTCCACAATC
1 GGGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATTCTCCACAATC
* * * * * * *
1980044 GGGGATATTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCACAATC
1 GGGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATTCTCCACAATC
* *
1980095 GGGGATACTCCAATCTCAATTTTATTTCTAAAACACCAATTCTCCACAATC
1 GGGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATTCTCCACAATC
* *
1980146 GAGGATACTTCAACCCC
1 GGGGATACTCCAACCCC
1980163 GGCTTTATTA
Statistics
Matches: 96, Mismatches: 23, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 96 1.00
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.31
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAATTTTATTTCTAAAACACCAATTCTCCACAATC
Found at i:1981237 original size:13 final size:13
Alignment explanation
Indices: 1981219--1981245 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1981209 ACAATATTCC
1981219 TTGTATCGATACA
1 TTGTATCGATACA
1981232 TTGTATCGATACA
1 TTGTATCGATACA
1981245 T
1 T
1981246 GGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1982077 original size:22 final size:22
Alignment explanation
Indices: 1982052--1982093 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
1982042 TTTTTAAAGA
1982052 TTTGACAAAGGGGGAGAAATGC
1 TTTGACAAAGGGGGAGAAATGC
*
1982074 TTTGATAAAGGGGGAGAAAT
1 TTTGACAAAGGGGGAGAAAT
1982094 ATGTTTATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.36, T:0.21
Consensus pattern (22 bp):
TTTGACAAAGGGGGAGAAATGC
Found at i:1982139 original size:50 final size:50
Alignment explanation
Indices: 1982081--1982192 Score: 188
Period size: 50 Copynumber: 2.2 Consensus size: 50
1982071 TGCTTTGATA
* *
1982081 AAGGGGGAGAAATATGTTTATCTAGGATGAGAAAATCTTATTAATCAATT
1 AAGGGGGAGAAATATGTTTATCTAGGATCAGAAAATCTCATTAATCAATT
*
1982131 AAGGGGGAGAAATATGTTTATCTAGGATCAGAAAATCTCATTAATTAATT
1 AAGGGGGAGAAATATGTTTATCTAGGATCAGAAAATCTCATTAATCAATT
*
1982181 AAGGGAGAGAAA
1 AAGGGGGAGAAA
1982193 AACGAAAACT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 58 1.00
ACGTcount: A:0.42, C:0.06, G:0.23, T:0.29
Consensus pattern (50 bp):
AAGGGGGAGAAATATGTTTATCTAGGATCAGAAAATCTCATTAATCAATT
Found at i:1982753 original size:13 final size:13
Alignment explanation
Indices: 1982735--1982761 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1982725 ACATTAAGCC
1982735 TTGTATCGATACA
1 TTGTATCGATACA
1982748 TTGTATCGATACA
1 TTGTATCGATACA
1982761 T
1 T
1982762 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1982791 original size:20 final size:19
Alignment explanation
Indices: 1982745--1982801 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1982735 TTGTATCGAT
*
1982745 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
* *
1982764 TCATTGTATTGATACATGG
1 ACATTGTATCGATACATGG
1982783 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
1982802 AAATTGGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:1982867 original size:13 final size:13
Alignment explanation
Indices: 1982846--1982876 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1982836 CGATACATGG
*
1982846 TACAATGTATCGA
1 TACATTGTATCGA
1982859 TACATTGTATCGA
1 TACATTGTATCGA
1982872 TACAT
1 TACAT
1982877 GATGAATTGT
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:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:1982872 original size:33 final size:33
Alignment explanation
Indices: 1982830--1982897 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
1982820 CTACCACTGT
*
1982830 TTGTATCGATACATGGT-ACAATGTATCGATACA
1 TTGTATCGATACATGATGA-AATGTATCGATACA
*
1982863 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAAATGTATCGATACA
1982896 TT
1 TT
1982898 TCTTGTAACG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (33 bp):
TTGTATCGATACATGATGAAATGTATCGATACA
Found at i:1984024 original size:20 final size:20
Alignment explanation
Indices: 1983999--1984123 Score: 115
Period size: 20 Copynumber: 5.8 Consensus size: 20
1983989 TTTTACCCAG
1983999 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
1984019 ATGTATCGATACATTCTGTCTTTTACCCA
1 ATGTATCGATACA-----T-TTTT---CA
*
1984048 GATGTATCGATACATTCTTCA
1 -ATGTATCGATACATTTTTCA
* * *
1984069 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
1984089 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
*
1984109 ATATATCGATACATT
1 ATGTATCGATACATT
1984124 CTATCTTTTT
Statistics
Matches: 86, Mismatches: 9, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
20 60 0.70
21 2 0.02
24 3 0.03
25 2 0.02
26 4 0.05
29 2 0.02
30 13 0.15
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1984069 original size:50 final size:50
Alignment explanation
Indices: 1983989--1984173 Score: 237
Period size: 50 Copynumber: 3.9 Consensus size: 50
1983979 AAAGTCACAT
1983989 TTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATTCTGTC
1 TTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATTCTGTC
*
1984039 TTTTACCCAGATGTATCGATACATTCTTCAATGTATCGATACA---TG--
1 TTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATTCTGTC
** * *
1984084 ---TA-TGA-ATGTATCGATACATTTTTCAATATATCGATACATTCTATC
1 TTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATTCTGTC
*
1984129 TTTTTACCCAGATGTATCGATACATTTTTTAATGTATCGATACAT
1 -TTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACAT
1984174 CTAGTTAAAA
Statistics
Matches: 114, Mismatches: 10, Indels: 21
0.79 0.07 0.14
Matches are distributed among these distances:
40 31 0.27
41 1 0.01
42 2 0.02
43 1 0.01
47 2 0.02
49 2 0.02
50 43 0.38
51 32 0.28
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (50 bp):
TTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATTCTGTC
Found at i:1985859 original size:28 final size:28
Alignment explanation
Indices: 1985802--1985942 Score: 160
Period size: 28 Copynumber: 4.9 Consensus size: 28
1985792 TGGGGAAGAA
*
1985802 TTAGTGGCACCCTTTTCAAAAGCCCACAAG
1 TTAGTGGCAACC-TTT-AAAAGCCCACAAG
1985832 TTAGTGGCAACCTTTAAAAGCCCACAAG
1 TTAGTGGCAACCTTTAAAAGCCCACAAG
* * *
1985860 TCAGTAGCAATCTTTAAAAGCCCACAAG
1 TTAGTGGCAACCTTTAAAAGCCCACAAG
* * *
1985888 TCAGTGGCAACCTTCAAAAGCACACAAG
1 TTAGTGGCAACCTTTAAAAGCCCACAAG
1985916 TT-GAT-GCAAACCTTTCAAAAGCCCACA
1 TTAG-TGGC-AACCTTT-AAAAGCCCACA
1985943 CAAGTTGGTG
Statistics
Matches: 97, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
27 3 0.03
28 70 0.72
29 13 0.13
30 11 0.11
ACGTcount: A:0.36, C:0.28, G:0.16, T:0.21
Consensus pattern (28 bp):
TTAGTGGCAACCTTTAAAAGCCCACAAG
Found at i:1986207 original size:104 final size:103
Alignment explanation
Indices: 1985962--1986270 Score: 425
Period size: 104 Copynumber: 3.0 Consensus size: 103
1985952 GGCGTCTTCT
* * * *
1985962 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TT-G--TCTTTAAGTCCAATG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACACCTTTGGCACCTTTAAGTCCAATA
*
1986023 TAGCTGGCCTTGAATCAGCACATTGGCA-C--TTCATC
66 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATC
* *
1986058 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACGCCTTTGGCACCTTTAAGTCCAATA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACACCTTTGGCACCTTTAAGTCCAATA
*
1986123 TAGCTGGCCTTGAATCAGTATATTGGCACCTTTTCCATC
66 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTT-CATC
* * *
1986162 TTTAAGTTCAATGTAGCTGGCCTTGAATCAGCATATTGACACCTTTGGCACCTTTAAGTCTAATA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACACCTTTGGCACCTTTAAGTCCAATA
* * *
1986227 TCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCATC
66 TAGCTGGCCTTGAATCAGCATATTGGCACCTT-TTCATC
1986266 TTTAA
1 TTTAA
1986271 AACCCAATGA
Statistics
Matches: 187, Mismatches: 17, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
96 39 0.21
97 2 0.01
98 1 0.01
100 39 0.21
101 1 0.01
103 2 0.01
104 102 0.55
105 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (103 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACACCTTTGGCACCTTTAAGTCCAATA
TAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATC
Found at i:1986269 original size:52 final size:50
Alignment explanation
Indices: 1985962--1986270 Score: 374
Period size: 52 Copynumber: 6.1 Consensus size: 50
1985952 GGCGTCTTCT
* *
1985962 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TT-GTC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCATC
* *
1986010 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-TTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCATC
* * * *
1986058 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACGCCTTTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT--CATC
*
1986110 TTTAAGTCCAATATAGCTGGCCTTGAATCAGTATATTGGCACCTTTTCCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT-CATC
* * * *
1986162 TTTAAGTTCAATGTAGCTGGCCTTGAATCAGCATATTGACACCTTTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT--CATC
* * *
1986214 TTTAAGTCTAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT--TCATC
1986266 TTTAA
1 TTTAA
1986271 AACCCAATGA
Statistics
Matches: 223, Mismatches: 29, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
47 3 0.01
48 76 0.34
49 1 0.00
50 2 0.01
51 3 0.01
52 134 0.60
53 3 0.01
54 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (50 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCATC
Found at i:1986313 original size:156 final size:153
Alignment explanation
Indices: 1985962--1986320 Score: 392
Period size: 156 Copynumber: 2.4 Consensus size: 153
1985952 GGCGTCTTCT
* * *
1985962 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-G--TCTTTAAGTCCAAT
1 TTTAAACCCAATATAGCTGGCCATGAATCAGCACATTGGCACCTTTTCGCATCTTTAAGTCCAAT
* *
1986022 GTAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATC
66 GTAGCTGGCCTTGAATCAGCACATTGACACTTCACCTTTAAGTCCAATATCGCTGGCCTTGAATC
* **
1986087 AGCATATTGACGCCTTTGGCACC
131 AGCATATTGACACCTTCAGCACC
** * * * *
1986110 TTTAAGTCCAATATAGCTGGCCTTGAATCAGTATATTGGCACCTTTTC-CATCTTTAAGTTCAAT
1 TTTAAACCCAATATAGCTGGCCATGAATCAGCACATTGGCACCTTTTCGCATCTTTAAGTCCAAT
* * *
1986174 GTAGCTGGCCTTGAATCAGCATATTGACACCTTTGGCACCTTTAAGTCTAATATCGTTGGCCTTG
66 GTAGCTGGCCTTGAATCAGCACATTGACA-C-TT--CACCTTTAAGTCCAATATCGCTGGCCTTG
* * *
1986239 AATCAGCATATTGGCACCTTCATCATC
127 AATCAGCATATTGACACCTTCAGCACC
* * * *
1986266 TTTAAAACCCAATGA-CGCTGGTCATGAATCAGCACATTGTCA-TTTTTCGCATCTT
1 TTT-AAACCCAAT-ATAGCTGGCCATGAATCAGCACATTGGCACCTTTTCGCATCTT
1986321 CGAGCCTAAT
Statistics
Matches: 176, Mismatches: 23, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
148 41 0.23
150 2 0.01
152 40 0.23
153 1 0.01
154 2 0.01
156 55 0.31
157 34 0.19
158 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.33
Consensus pattern (153 bp):
TTTAAACCCAATATAGCTGGCCATGAATCAGCACATTGGCACCTTTTCGCATCTTTAAGTCCAAT
GTAGCTGGCCTTGAATCAGCACATTGACACTTCACCTTTAAGTCCAATATCGCTGGCCTTGAATC
AGCATATTGACACCTTCAGCACC
Found at i:1987032 original size:19 final size:20
Alignment explanation
Indices: 1986987--1987039 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
1986977 ATTTCAACGA
1986987 TTTGTATCGATACATAAAAT
1 TTTGTATCGATACATAAAAT
* *
1987007 ATTGTATCGATACAT-AAGT
1 TTTGTATCGATACATAAAAT
1987026 TTTGTATCGATACA
1 TTTGTATCGATACA
1987040 ATTTAAGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (20 bp):
TTTGTATCGATACATAAAAT
Found at i:1987100 original size:13 final size:13
Alignment explanation
Indices: 1987082--1987139 Score: 65
Period size: 13 Copynumber: 4.9 Consensus size: 13
1987072 ATTACTCAAA
1987082 TGTATCGATACAT
1 TGTATCGATACAT
*
1987095 TGTATCGATACAC
1 TGTATCGATACAT
1987108 TG-ATC--T---T
1 TGTATCGATACAT
1987115 TGTATCGATACAT
1 TGTATCGATACAT
1987128 TGTATCGATACA
1 TGTATCGATACA
1987140 CTGATCTTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
7 2 0.05
8 3 0.08
10 2 0.05
12 3 0.08
13 27 0.73
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1987119 original size:20 final size:20
Alignment explanation
Indices: 1987094--1987159 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
1987084 TATCGATACA
1987094 TTGTATCGATACACTGATCT
1 TTGTATCGATACACTGATCT
1987114 TTGTATCGAT--AC--A---
1 TTGTATCGATACACTGATCT
1987127 TTGTATCGATACACTGATCT
1 TTGTATCGATACACTGATCT
1987147 TTGTATCGATACA
1 TTGTATCGATACA
1987160 TGCAGGCAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 10 0.26
15 2 0.05
16 1 0.03
17 1 0.03
18 2 0.05
20 23 0.59
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACACTGATCT
Found at i:1987124 original size:33 final size:33
Alignment explanation
Indices: 1987082--1987160 Score: 158
Period size: 33 Copynumber: 2.4 Consensus size: 33
1987072 ATTACTCAAA
1987082 TGTATCGATACATTGTATCGATACACTGATCTT
1 TGTATCGATACATTGTATCGATACACTGATCTT
1987115 TGTATCGATACATTGTATCGATACACTGATCTT
1 TGTATCGATACATTGTATCGATACACTGATCTT
1987148 TGTATCGATACAT
1 TGTATCGATACAT
1987161 GCAGGCAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATTGTATCGATACACTGATCTT
Found at i:1991250 original size:28 final size:31
Alignment explanation
Indices: 1991210--1991287 Score: 108
Period size: 33 Copynumber: 2.5 Consensus size: 31
1991200 TTCTTTATTG
*
1991210 TTACTTTGTGTGAATATT-AT-GT-GCTCCT
1 TTACTTTGTGTGAATATTCATCGTCCCTCCT
1991238 TTACTTTGTGTGAATATTTCGATCGTCCCTCCT
1 TTACTTTGTGTGAATA-TTC-ATCGTCCCTCCT
1991271 TTACTTTGTGTGAATAT
1 TTACTTTGTGTGAATAT
1991288 AACATTATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
28 16 0.36
29 2 0.05
31 2 0.05
32 3 0.07
33 21 0.48
ACGTcount: A:0.18, C:0.17, G:0.17, T:0.49
Consensus pattern (31 bp):
TTACTTTGTGTGAATATTCATCGTCCCTCCT
Found at i:1998915 original size:52 final size:52
Alignment explanation
Indices: 1998834--1998954 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1998824 TGAAGAGTTA
*
1998834 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
1998886 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
1998938 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
1998955 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:1998967 original size:52 final size:51
Alignment explanation
Indices: 1998834--1998974 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
1998824 TGAAGAGTTA
1998834 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
1998886 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
1998938 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1998975 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1998981 original size:13 final size:13
Alignment explanation
Indices: 1998963--1998987 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1998953 CAAAGATCAG
1998963 TGTATCGATACAA
1 TGTATCGATACAA
1998976 TGTATCGATACA
1 TGTATCGATACA
1998988 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1999070 original size:13 final size:13
Alignment explanation
Indices: 1999052--1999076 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1999042 CAAAAAAATA
1999052 TGTATCGATACAT
1 TGTATCGATACAT
1999065 TGTATCGATACA
1 TGTATCGATACA
1999077 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1999072 original size:33 final size:33
Alignment explanation
Indices: 1999030--1999096 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1999020 AGTAGCTTAA
1999030 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1999063 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1999096 A
1 A
1999097 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:2000035 original size:49 final size:49
Alignment explanation
Indices: 1999889--2000046 Score: 147
Period size: 49 Copynumber: 3.1 Consensus size: 49
1999879 AAAAGTGATA
* * * * *
1999889 AAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G
* ** * * *
1999940 AAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG
1 ---AA-GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
1999993 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-ATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
*
2000041 ATGATG
1 AAGATG
2000047 AGAAAAGTGA
Statistics
Matches: 85, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
48 8 0.09
49 37 0.44
50 2 0.02
53 1 0.01
54 2 0.02
55 35 0.41
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:2000106 original size:170 final size:166
Alignment explanation
Indices: 1999825--2000210 Score: 650
Period size: 170 Copynumber: 2.3 Consensus size: 166
1999815 TTTTAGAGAT
*
1999825 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT--AAAGATGAAAAAGTGAT
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAAAGATGAAAAAGTGAT
1999888 AAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCA
66 AAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCA
1999953 ACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
131 ACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
*
1999989 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAATGATGATGAGAAAAG
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAA--A-GATGA-AAAAG
*
2000054 TGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGAT
62 TGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGAT
2000119 GTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
127 GTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
* *
2000159 GATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
1 GAT-GAAGA--TGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAA
2000211 GGTGCCAATG
Statistics
Matches: 208, Mismatches: 5, Indels: 9
0.94 0.02 0.04
Matches are distributed among these distances:
164 44 0.21
166 2 0.01
168 1 0.00
169 5 0.02
170 112 0.54
171 4 0.02
173 40 0.19
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.25
Consensus pattern (166 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAAAGATGAAAAAGTGAT
AAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGATGTCA
ACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAA
Found at i:2000268 original size:49 final size:49
Alignment explanation
Indices: 2000125--2000962 Score: 1097
Period size: 49 Copynumber: 17.7 Consensus size: 49
2000115 GGATGTCAAC
* *
2000125 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
* *
2000177 ATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
*
2000220 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
2000269 ATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* *
2000312 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * * *
2000361 ATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* *
2000410 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* *
2000459 ATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* *
2000502 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* *
2000551 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
*
2000600 GTGCTGAGTCAAGGCCAGCTACATTGGACTT----A--AAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* *
2000643 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
2000692 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
*
2000741 GTGCTGAGTCAAGGCCAGCTACATTGGACTT----A--AAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* *
2000784 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* *
2000833 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* *
2000882 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
* * *
2000931 ATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTA
2000963 GAAGGGTTGC
Statistics
Matches: 694, Mismatches: 62, Indels: 63
0.85 0.08 0.08
Matches are distributed among these distances:
43 198 0.29
45 4 0.01
47 5 0.01
48 1 0.00
49 458 0.66
52 28 0.04
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
Found at i:2000401 original size:141 final size:137
Alignment explanation
Indices: 2000169--2000962 Score: 1115
Period size: 141 Copynumber: 5.6 Consensus size: 137
2000159 GATGGAAAAT
* * * *
2000169 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGG
* * *
2000234 CCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
66 CCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
2000299 T-A-AAG
131 TAAGAAG
* *
2000304 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGAT
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT-AA-A-G--G-TGCCAATGTGCTGAG
* * * * * * *
2000369 TCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACAT
60 TCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATAT
2000434 TGGACTTAAAGATAAAG
125 TGGACTT-AAG---AAG
* * *
2000451 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGG
2000516 CCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
66 CCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
2000581 TAAAGATGAAG
131 T--A-A-GAAG
2000592 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGG
2000657 CCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
66 CCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
2000722 TAAAGATGGAG
131 T-AAGA---AG
2000733 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGG
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGG
2000798 CCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
66 CCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
2000863 TAAAGATGAAG
131 T--A-A-GAAG
* *
2000874 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGAC-T-----TAAAGGTGCCAATGTGCTGAG
* *
2000939 TCAAGGCCAGCTATATTGGGCTTA
60 TCAAGGCCAGCTACATTGGACTTA
2000963 GAAGGGTTGC
Statistics
Matches: 601, Mismatches: 31, Indels: 42
0.89 0.05 0.06
Matches are distributed among these distances:
135 36 0.06
136 2 0.00
137 1 0.00
138 3 0.00
139 1 0.00
140 3 0.00
141 459 0.76
142 6 0.01
143 3 0.00
144 4 0.01
145 1 0.00
146 2 0.00
147 80 0.13
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (137 bp):
GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGG
CCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
TAAGAAG
Found at i:2000439 original size:190 final size:185
Alignment explanation
Indices: 2000125--2000967 Score: 1207
Period size: 190 Copynumber: 4.5 Consensus size: 185
2000115 GGATGTCAAC
* * *
2000125 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATATGCTGATTCAAG
*
2000190 GCCAGCTATATTGGACTT-AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
63 GCCAGCTATATTGGACTTAAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
* * *
2000254 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAAT
128 GATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAT
*
2000312 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
2000377 AGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
66 AGCTATATTGGACTTAA-----AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
2000442 AAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAT
126 AAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAT
*
2000502 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
2000567 AGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGAC-T-
66 AGCTATATTGGACTT--A-A--AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
* * *
2000630 ----TAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAA
126 AAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAA
2000691 T
185 T
* * * * * *
2000692 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAGGTGCCAATGTGCTGAGTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
*
2000757 AGCTACATTGGACTT-AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
66 AGCTATATTGGACTTAAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
2000821 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
131 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAAT
*
2000882 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
* *
2000947 AGCTATATTGGGCTTAGAAGG
66 AGCTATATTGGACTTAAAAGG
2000968 GTTGCCACCG
Statistics
Matches: 594, Mismatches: 34, Indels: 52
0.87 0.05 0.08
Matches are distributed among these distances:
184 120 0.20
185 3 0.01
186 2 0.00
187 35 0.06
188 1 0.00
189 2 0.00
190 425 0.72
191 4 0.01
192 1 0.00
193 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (185 bp):
GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
AGCTATATTGGACTTAAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAT
Found at i:2001006 original size:33 final size:33
Alignment explanation
Indices: 2000962--2001034 Score: 130
Period size: 33 Copynumber: 2.2 Consensus size: 33
2000952 TATTGGGCTT
2000962 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
2000995 AGAAGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
2001028 A-AAGGGT
1 AGAAGGGT
2001035 GAAAGATGCC
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 5 0.13
33 33 0.87
ACGTcount: A:0.21, C:0.16, G:0.36, T:0.27
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:2001078 original size:33 final size:33
Alignment explanation
Indices: 2001036--2002183 Score: 1031
Period size: 33 Copynumber: 33.8 Consensus size: 33
2001026 AGAAAGGGTG
* *
2001036 AAAGA-TGCCACGAAGTTGTGGACTTAAAAAGA
1 AAAGAGTGCCACGAAGTTGTGGGCTTAAAAGGA
*
2001068 ACAA-AGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAA
1 A-AAGAGTGCCACGAAGTTGTGGGC-TTAAAA-GG--A
* *
2001105 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGAAGTTGTGGGCTTAAAAGG-A
*
2001139 AAAGAGTGCCACGAAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGAAGTTGTGGGCTTAAAAGG-A
* *
2001173 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGAAGTTGTGGGCTTAAAAGG-A
* *
2001207 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGA
1 AAAGAGTGCCACGAAGTTGTGGGCTTAAAAGGA
* *
2001240 AAAGTGTGCCAC-AGAGTTGTGGGCTTTAAAAGAA
1 AAAGAGTGCCACGA-AGTTGTGGGC-TTAAAAGGA
* * *
2001274 AAAGAATGCCACGGAGTTGTGGGCTTAGAAGGA
1 AAAGAGTGCCACGAAGTTGTGGGCTTAAAAGGA
*
2001307 AAAGAGTGCCACGTAA-TTGTGGGCTTTAAAGGA
1 AAAGAGTGCCACG-AAGTTGTGGGCTTAAAAGGA
* *
2001340 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGA
1 AAAGAGTGCCACGAAGTTGTGGGCTTAAAAGGA
*
2001373 AAAGAGTGCCACGTAA-TTGTGGGCTTTAAAGGA
1 AAAGAGTGCCACG-AAGTTGTGGGCTTAAAAGGA
*
2001406 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGAGTGCCACGAAGTTGTGGGC-TT-AAAA-GG-A
* *
2001443 AAAGGGTGCCAC-AGAGTTGTGGGCTTTAAAAAGA
1 AAAGAGTGCCACGA-AGTTGTGGGC-TTAAAAGGA
* *
2001477 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGA
1 AAAGAGTGCCACGAAGTTGTGGGCTTAAAAGGA
*
2001510 AAAGAGTGCCACGTAA-TTGTGGGCTTTAAAGGA
1 AAAGAGTGCCACG-AAGTTGTGGGCTTAAAAGGA
*
2001543 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGAGTGCCACGAAGTTGTGGGC-TT-AAAA-GG-A
* *
2001580 AAAGGGTGCCAC-AGAGTTGTGGGCTTTAAAAAGAA
1 AAAGAGTGCCACGA-AGTTGTGGGC-TT-AAAAGGA
* **
2001615 AAAGTGTGCCAC-AGAGTTGTGGGCTTTTAAGGA
1 AAAGAGTGCCACGA-AGTTGTGGGCTTAAAAGGA
*
2001648 AAAGAGTGCCACGTAA-TTGTGGGCTTTAAAGGA
1 AAAGAGTGCCACG-AAGTTGTGGGCTTAAAAGGA
*
2001681 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGAGTGCCACGAAGTTGTGGGC-TT-AAAA-GG-A
* *
2001718 AAAGGGTGCCAC-AGAGTTGTGGGCTTTAAAAAGAA
1 AAAGAGTGCCACGA-AGTTGTGGGC-TT-AAAAGGA
* **
2001753 AAAGTGTGCCAC-AGAGTTGTGGGCTT-TTA--A
1 AAAGAGTGCCACGA-AGTTGTGGGCTTAAAAGGA
* *
2001783 AAAG-GTGCCACGGAGTTGTGGGCTTAGAAGGA
1 AAAGAGTGCCACGAAGTTGTGGGCTTAAAAGGA
*
2001815 AAAGAGTGCCACGTAA-TTGTGGGCTTTAAAGGA
1 AAAGAGTGCCACG-AAGTTGTGGGCTTAAAAGGA
*
2001848 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGAGTGCCACGAAGTTGTGGGC-TT-AAAA-GG-A
* *
2001885 AAAGGGTGCCAC-AGAGTTGTGGGCTTTAAAAAGAA
1 AAAGAGTGCCACGA-AGTTGTGGGC-TT-AAAAGGA
* **
2001920 AAAGTGTGCCAC-AGAGTTGTGGGCTTTTAAGGA
1 AAAGAGTGCCACGA-AGTTGTGGGCTTAAAAGGA
*
2001953 AAAGAGTGCCACGTAA-TTGTGGGCTTTAAAGGA
1 AAAGAGTGCCACG-AAGTTGTGGGCTTAAAAGGA
*
2001986 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGAGTGCCACGAAGTTGTGGGC-TT-AAAA-GG-A
* *
2002023 AAAGGGTGCCAC-AGAGTTGTGGGCTTTAAAAAGAA
1 AAAGAGTGCCACGA-AGTTGTGGGC-TT-AAAAGGA
*
2002058 AAAGTGTGCCAC-AGAGTTGTGGGCTTTTAAAA--A
1 AAAGAGTGCCACGA-AGTTGTGGGC--TTAAAAGGA
* *
2002091 AAAG-GTGCCACGGAGTTGTGGGCTTTGAAA--A
1 AAAGAGTGCCACGAAGTTGTGGGC-TTAAAAGGA
* *
2002122 AAAG-GTGCCACGGAGTTGTGGCCTTTGAAAAGGGAA
1 AAAGAGTGCCACGAAGTTGTGGGC-TT-AAAA-GG-A
2002158 AAAGAGTGCCAC-AGAGTTGTGGGCTT
1 AAAGAGTGCCACGA-AGTTGTGGGCTT
2002184 TGAAGAAAAA
Statistics
Matches: 963, Mismatches: 89, Indels: 124
0.82 0.08 0.11
Matches are distributed among these distances:
29 19 0.02
30 6 0.01
31 32 0.03
32 34 0.04
33 360 0.37
34 177 0.18
35 121 0.13
36 35 0.04
37 179 0.19
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (33 bp):
AAAGAGTGCCACGAAGTTGTGGGCTTAAAAGGA
Found at i:2001724 original size:138 final size:135
Alignment explanation
Indices: 2001041--2002193 Score: 1330
Period size: 138 Copynumber: 8.5 Consensus size: 135
2001031 GGGTGAAAGA
* * * * *
2001041 TGCCACGAAGTTGTGGAC-TTAAAAAGAACAA-AGTGCCACGGAGTTGTGGGCTTTAAAAGGGAA
1 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-GAA-GG--
* *
2001104 AAAAGAGTGCCACGGAGTTGTGGGC-TTAGAAGGAAAAAGAGTGCCACGAAGTTGTGGGC-TTAG
62 AAAAGAGTGCCAC-GAGTTGTGGGCTTTA-AAGG-AAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
2001167 AAGGAAAAAGAG
124 AAGGAAAAAGGG
* * * *
2001179 TGCCACGGAGTTGTGGGC-TTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAA
1 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAGGAAAA
* * * *
2001243 GTGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGAATGCCACGGAGTTGTGGGC-TTAGAAGG-
66 GAGTGCCAC-GAGTTGTGGGCTTT-AAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGA
*
2001306 AAAAGAG
129 AAAAGGG
* * * * *
2001313 TGCCACGTAATTGTGGGCTTT--AAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAA
1 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAGGAAAA
*
2001376 GAGTGCCACGTAATTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGG
66 GAGTGCCACG-AGTTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA-GG
2001441 AAAAAGGG
128 AAAAAGGG
* * *
2001449 TGCCACAGAGTTGTGGGCTTTAAAAAG-AAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAA
1 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAGGAAAA
*
2001513 GAGTGCCACGTAATTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGG
66 GAGTGCCACG-AGTTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA-GG
2001578 AAAAAGGG
128 AAAAAGGG
* * *
2001586 TGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTTAAGGAAAA
1 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAGGAAAA
*
2001651 GAGTGCCACGTAATTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGG
66 GAGTGCCACG-AGTTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA-GG
2001716 AAAAAGGG
128 AAAAAGGG
* * *
2001724 TGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTT-TA--AAAA
1 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAGGAAAA
* *
2001786 G-GTGCCACGGAGTTGTGGGC-TTAGAAGGAAAAGAGTGCCACGTAATTGTGGGCTTT-AAAGG-
66 GAGTGCCAC-GAGTTGTGGGCTTTA-AAGGAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGA
*
2001847 AAAAGAG
129 AAAAGGG
* * * *
2001854 TGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGGGTGCCACAGAGTTGTGGGCTTTAAAAAGA
1 TGCCACGGAGTTGTGGGCTTT-AAAA-AGAAAAAGAGTGCCACAGAGTTGTGGGCTTT--GAAGG
* * * *
2001919 AAAAGTGTGCCACAGAGTTGTGGGCTTTTAAGGAAAAGAGTGCCACGTAATTGTGGGCTTT-AAA
62 AAAAGAGTGCCAC-GAGTTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
*
2001983 GG-AAAAGAG
126 GGAAAAAGGG
* * * *
2001992 TGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGGGTGCCACAGAGTTGTGGGCTTTAAAAAGA
1 TGCCACGGAGTTGTGGGCTTT-AAAA-AGAAAAAGAGTGCCACAGAGTTGTGGGCTTT--GAAGG
* * *
2002057 AAAAGTGTGCCACAGAGTTGTGGGCTTTTAAA-AAAAAG-GTGCCACGGAGTTGTGGGCTTT-GA
62 AAAAGAGTGCCAC-GAGTTGTGGGC-TTTAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
2002119 A--AAAAA-GG
125 AGGAAAAAGGG
* * *
2002127 TGCCACGGAGTTGTGGCCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAGAAA
1 TGCCACGGAGTTGTGGGCTTT-AAAA-AGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAGGAA
2002192 AA
64 AA
2002194 ATGTCACTGA
Statistics
Matches: 941, Mismatches: 49, Indels: 55
0.90 0.05 0.05
Matches are distributed among these distances:
130 26 0.03
131 6 0.01
132 61 0.06
133 73 0.08
134 72 0.08
135 122 0.13
136 33 0.04
137 168 0.18
138 351 0.37
139 29 0.03
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (135 bp):
TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAGGAAAA
GAGTGCCACGAGTTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAA
AAGGG
Found at i:2001866 original size:305 final size:305
Alignment explanation
Indices: 2001036--2002187 Score: 1595
Period size: 305 Copynumber: 3.8 Consensus size: 305
2001026 AGAAAGGGTG
* * *
2001036 AAAGA-TGCCACG-AAGTTGTGGACTTAAAAAGAACAA-AGTGCCACGGAGTTGTGGGCTTTAAA
1 AAAGAGTGCCACGTAA-TTGTGGGCTTTAAAGGAA-AAGAGTGCCACGGAGTTGTGGGCTTTAAA
* * * *
2001098 AGGGAAAAAAGAGTGCCACGGAGTTGTGGGC-TTAGAAGGAAAAAGAGTGCCAC-GAAGTTGTGG
64 AGGG-AAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAG-AGTTGTGG
** *
2001161 GCTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACGGAGTTG
127 GCTT----TTAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGG-AAAAGAGTGCCACGGAATTG
* ** *
2001226 TGGGC-TTAGAAGGAAAAGTGTGCCACAGAGTTGTGGGCTTT-AAAA--GAAAAAGAATGCCACG
187 TGGGCTTTA-AAGGAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGGGAAAAAGGGTGCCACA
* * * * *
2001287 GAGTTGTGGGC-TT-AGAAGGAAAAGAGTGCCAC-GTAATTGTGGGCTTTAAAGGA
251 GAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAG-AGTTGTGGGCTTTTAAGGA
* * * *
2001340 AAAGAGTGCCACGGAGTTGTGGGC-TTAGAAGGAAAAGAGTGCCACGTAATTGTGGGCTTT-AAA
1 AAAGAGTGCCACGTAATTGTGGGCTTTA-AAGGAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
* * *
2001403 -GG-AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGGGTGCCACAGAGTTGTGGG
65 GGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-AAAA-AGAAAAAGTGTGCCACAGAGTTGTGGG
* *
2001466 CTTTAAAAAGAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAGAGTGCCACGTAATTGTG
128 CTTT---TA-AAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAGAGTGCCACGGAATTGTG
*
2001531 GGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGGGTGCCACAGAG
189 GGCTTTAAAGGAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGGGAAAAAGGGTGCCACAGAG
2001596 TTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTTAAGGA
254 TTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTTAAGGA
2001648 AAAGAGTGCCACGTAATTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA
1 AAAGAGTGCCACGTAATTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA
*
2001713 GGGAAAAAGGGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCT
65 GGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCT
*
2001778 TTTAAAAAG-GTGCCACGGAGTTGTGGGCTTAGAAGGAAAAGAGTGCCACGTAATTGTGGGCTTT
130 TTTAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAGAGTGCCACGGAATTGTGGGCTTT
*
2001842 AAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGGGTGCCACAGAGTTGTGG
195 AAAGGAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGGGAAAAAGGGTGCCACAGAGTTGTGG
2001907 GCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTTAAGGA
260 GCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTTAAGGA
2001953 AAAGAGTGCCACGTAATTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA
1 AAAGAGTGCCACGTAATTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA
*
2002018 GGGAAAAAGGGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCT
65 GGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCT
* * * * *
2002083 TTTAAAAAAAAGGTGCCACGGAGTTGTGGGCTTTGAA-AAAAAG-GTGCCACGGAGTTGTGGCCT
130 TTT-AAAAAGA-GTGCCACGGAGTTGTGGGCTTAGAAGGAAAAGAGTGCCACGGAATTGTGGGCT
2002146 TTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAA
193 TT--AAA-GG-AAAAGAGTGCCACAGAGTTGTGGGCTTTGAA
2002188 GAAAAAATGT
Statistics
Matches: 779, Mismatches: 38, Indels: 56
0.89 0.04 0.06
Matches are distributed among these distances:
301 25 0.03
302 2 0.00
303 59 0.08
304 79 0.10
305 340 0.44
306 54 0.07
307 8 0.01
308 112 0.14
309 6 0.01
310 62 0.08
311 6 0.01
312 26 0.03
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (305 bp):
AAAGAGTGCCACGTAATTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAG
GGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTT
TTAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAGAGTGCCACGGAATTGTGGGCTTTA
AAGGAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGGGAAAAAGGGTGCCACAGAGTTGTGGG
CTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTTAAGGA
Found at i:2002268 original size:62 final size:62
Alignment explanation
Indices: 2002164--2002552 Score: 656
Period size: 62 Copynumber: 6.3 Consensus size: 62
2002154 GGAAAAAGAG
* * * * * *
2002164 TGCCACAGAGTTGTGGGCTTTGAA-GAAAAAATGTCACTGAGTCGTGGACTTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
2002225 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
*
2002287 TGCCACTGAGTTGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
*
2002349 TGCCACTGAGTCGTGGACTTTGAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
*
2002411 TGCCACTGAGTTGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
*
2002473 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGA-AGAGAT
1 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGACA-A-AA
2002536 TGCCACTGAGTCGTGGA
1 TGCCACTGAGTCGTGGA
2002553 TTTTGAGAAG
Statistics
Matches: 312, Mismatches: 13, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
61 21 0.07
62 273 0.88
63 18 0.06
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.24
Consensus pattern (62 bp):
TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGACAAAA
Found at i:2003508 original size:1 final size:1
Alignment explanation
Indices: 2003502--2003544 Score: 68
Period size: 1 Copynumber: 43.0 Consensus size: 1
2003492 GTTGTTCTTC
* *
2003502 TTTTTTTTTCTTTTTTTTTTTTTTGTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2003545 GGAAAAGAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.00, C:0.02, G:0.02, T:0.95
Consensus pattern (1 bp):
T
Found at i:2003802 original size:14 final size:13
Alignment explanation
Indices: 2003785--2003858 Score: 58
Period size: 14 Copynumber: 5.4 Consensus size: 13
2003775 TTTGCACTTT
2003785 TTTTCTGTGTTTTG
1 TTTT-TGTGTTTTG
* *
2003799 TTTTTTTTTTTTG
1 TTTTTGTGTTTTG
* *
2003812 TTTTTTTGTTTTTT
1 TTTTTGTG-TTTTG
*
2003826 TTTTTGTGTGTTTT
1 TTTTTGTGT-TTTG
*
2003840 TTTTTGTTTGTTTG
1 TTTTTGTGT-TTTG
2003854 TTTTT
1 TTTTT
2003859 TTTTTATCAC
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
13 15 0.29
14 36 0.71
ACGTcount: A:0.00, C:0.01, G:0.15, T:0.84
Consensus pattern (13 bp):
TTTTTGTGTTTTG
Found at i:2003805 original size:18 final size:18
Alignment explanation
Indices: 2003782--2003863 Score: 80
Period size: 18 Copynumber: 4.5 Consensus size: 18
2003772 GACTTTGCAC
*
2003782 TTTTTTTCTGTGTTTTGT
1 TTTTTTTTTGTGTTTTGT
*
2003800 TTTTTTTTTTTGTTTT-T
1 TTTTTTTTTGTGTTTTGT
2003817 TTGTTTTTTT-T-TTTGTGT
1 TT-TTTTTTTGTGTTT-TGT
*
2003835 GTTTTTTTTTGTTTGTTTGT
1 -TTTTTTTTTGTGT-TTTGT
2003855 TTTTTTTTT
1 TTTTTTTTT
2003864 ATCACCTTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 13
0.79 0.03 0.19
Matches are distributed among these distances:
16 3 0.05
17 5 0.09
18 29 0.53
19 12 0.22
20 4 0.07
21 2 0.04
ACGTcount: A:0.00, C:0.01, G:0.13, T:0.85
Consensus pattern (18 bp):
TTTTTTTTTGTGTTTTGT
Found at i:2003805 original size:20 final size:18
Alignment explanation
Indices: 2003782--2003863 Score: 76
Period size: 20 Copynumber: 4.3 Consensus size: 18
2003772 GACTTTGCAC
*
2003782 TTTTTTTCTGTGTTTTGTTT
1 TTTTTTTTTGTG-TTT-TTT
*
2003802 TTTTTTTTTGTTTTTTTGTT
1 TTTTTTTTTG-TGTTTT-TT
*
2003822 TTTTTTTTTGTGTGTTTT
1 TTTTTTTTTGTGTTTTTT
*
2003840 TTTTTGTTTGT-TTGTTTT
1 TTTTTTTTTGTGTT-TTTT
2003858 TTTTTT
1 TTTTTT
2003864 ATCACCTTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
17 1 0.02
18 21 0.40
19 5 0.10
20 24 0.46
21 1 0.02
ACGTcount: A:0.00, C:0.01, G:0.13, T:0.85
Consensus pattern (18 bp):
TTTTTTTTTGTGTTTTTT
Found at i:2003845 original size:34 final size:33
Alignment explanation
Indices: 2003794--2003863 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 33
2003784 TTTTTCTGTG
* *
2003794 TTTTGTTTTTTTTTTTTGTTTTTTTGTTTTTTT
1 TTTTGTTGTTTTTTTTTGTTTGTTTGTTTTTTT
2003827 TTTTGTGTGTTTTTTTTTGTTTGTTTGTTTTTTT
1 TTTTGT-TGTTTTTTTTTGTTTGTTTGTTTTTTT
2003861 TTT
1 TTT
2003864 ATCACCTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 6 0.18
34 28 0.82
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (33 bp):
TTTTGTTGTTTTTTTTTGTTTGTTTGTTTTTTT
Found at i:2003874 original size:34 final size:34
Alignment explanation
Indices: 2003802--2003875 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
2003792 TGTTTTGTTT
* ****
2003802 TTTTTTTTTGTTTTTTTGTTTTTTTTTTTGTGTG
1 TTTTTTTTTGTTTGTTTGTTTTTTTTTTTGCACC
2003836 TTTTTTTTTGTTTGTTTGTTTTTTTTTTAT-CACC
1 TTTTTTTTTGTTTGTTTGTTTTTTTTTT-TGCACC
2003870 TTTTTT
1 TTTTTT
2003876 AAGGGAACTC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 33 0.97
35 1 0.03
ACGTcount: A:0.03, C:0.04, G:0.11, T:0.82
Consensus pattern (34 bp):
TTTTTTTTTGTTTGTTTGTTTTTTTTTTTGCACC
Found at i:2003875 original size:1 final size:1
Alignment explanation
Indices: 2003794--2003863 Score: 59
Period size: 1 Copynumber: 70.0 Consensus size: 1
2003784 TTTTTCTGTG
* * * * * * * * *
2003794 TTTTGTTTTTTTTTTTTGTTTTTTTGTTTTTTTTTTTGTGTGTTTTTTTTTGTTTGTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2003859 TTTTT
1 TTTTT
2003864 ATCACCTTTT
Statistics
Matches: 51, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (1 bp):
T
Found at i:2005168 original size:18 final size:18
Alignment explanation
Indices: 2005145--2005181 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
2005135 TGCTGCCTTG
2005145 GCCGTGTCGGGTTGGCAT
1 GCCGTGTCGGGTTGGCAT
2005163 GCCGTGTCGGGTTGGCAT
1 GCCGTGTCGGGTTGGCAT
2005181 G
1 G
2005182 ACTGATGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.22, G:0.46, T:0.27
Consensus pattern (18 bp):
GCCGTGTCGGGTTGGCAT
Found at i:2010846 original size:52 final size:52
Alignment explanation
Indices: 2010765--2010885 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
2010755 TGAAGAGTTA
*
2010765 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
2010817 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
2010869 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
2010886 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:2010898 original size:52 final size:51
Alignment explanation
Indices: 2010765--2010905 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
2010755 TGAAGAGTTA
2010765 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
2010817 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
2010869 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
2010906 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:2010912 original size:13 final size:13
Alignment explanation
Indices: 2010894--2010918 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2010884 CAAAGATCAG
2010894 TGTATCGATACAA
1 TGTATCGATACAA
2010907 TGTATCGATACA
1 TGTATCGATACA
2010919 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2011001 original size:13 final size:13
Alignment explanation
Indices: 2010983--2011007 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2010973 CAAAAAAATA
2010983 TGTATCGATACAT
1 TGTATCGATACAT
2010996 TGTATCGATACA
1 TGTATCGATACA
2011008 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2011003 original size:33 final size:33
Alignment explanation
Indices: 2010961--2011027 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2010951 AGTAGCTTAA
2010961 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
2010994 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
2011027 A
1 A
2011028 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:2016289 original size:3 final size:3
Alignment explanation
Indices: 2016281--2016321 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
2016271 CAAAAATCAA
2016281 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2016322 ATAAATTCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2017281 original size:156 final size:156
Alignment explanation
Indices: 2016687--2018162 Score: 1104
Period size: 157 Copynumber: 9.5 Consensus size: 156
2016677 ATCCCATTTC
* * * * * * * *
2016687 TAGTCCTTTTTAAGTCCTTTAGGGGTA-CTAGGATACTTTCACGTCGAAAGTATCTCTTATGGGT
1 TAGTCTTTTTTAAGTCCTTTAGGGGTACCGA-GATACTTTTACGTAGAAGGTATCCCCTAGGGGT
* * * * *
2016751 ATTTTCGTAATTTTTTTAGAACCGAGTCCTAGATAACCACCGGGTTTACTTTTATGCC-AGAGGT
65 ATTTTCGTAA-TTTTTTAGAACCGAGTCCTAGGTCATCACCGGGTCTGCTTTTATGCCGA-AGGT
** * *
2016815 GGGCATTTAGGATAGGTTCATCATCATTTC
128 GGGCATTTAGGATAGGTTCA-CCCCTTTTA
* * * * * * * ** *
2016845 TAATC-TTTTTAAGTCCTTTAGAGTTGCCGAGATACTTTCACATTGAAGGTATACCTATAAGGGT
1 TAGTCTTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTTACGTAGAAGGTAT-CCCCTAGGGGT
** * * * ** * ** *** *
2016909 ATTTTTATAATTTTCTAGAATCGAGTCGTAGGTTGTCATCGGGTCCACTTTTATGTTAAAAGTGG
65 ATTTTCGTAATTTTTTAGAACCGAGTCCTAGGTCATCACCGGGTCTGCTTTTATGCCGAAGGTGG
* * *
2016974 GTATTTAGGACAGGTTCACCTCTTTTA
130 GCATTTAGGATAGGTTCACCCCTTTTA
* *** * * * * * * *
2017001 TAGTCTTTTTTAAGTCCTTTAGAGGTGTTGGGATACTTTCATGTTGAAAG-AACCCCTAGAGGTA
1 TAGTCTTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTTACGTAGAAGGTATCCCCTAGGGGTA
* * * *
2017065 TTTTCGTAATTTTTCAGAACCGAATCCTAGGTCATCACCGAGT-TCGCTTTTATGCTGAAGGTGG
66 TTTTCGTAATTTTTTAGAACCGAGTCCTAGGTCATCACCGGGTCT-GCTTTTATGCCGAAGGTGG
* * *
2017129 GTATTTATGATAGGCTCACCCCTTTTA
130 GCATTTAGGATAGGTTCACCCCTTTTA
* * * *
2017156 TAGTCTTTTTTAGGTCCTTTAGGGGTACCGGGATACTTTTATGTAGAATGTATCCCCTAGGGGTA
1 TAGTCTTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTTACGTAGAAGGTATCCCCTAGGGGTA
* * * * *
2017221 TTTTCATAATTTTTTAGAATCGAGTCCTAGGTCATCGCCGGGTTTGTTTTTATGCCGAAGGTGGG
66 TTTTCGTAATTTTTTAGAACCGAGTCCTAGGTCATCACCGGGTCTGCTTTTATGCCGAAGGTGGG
* *
2017286 TATTTAGGATAAGTTCACCCCTTTTA
131 CATTTAGGATAGGTTCACCCCTTTTA
* * * * * * *
2017312 TAGTCTTTTTTAAGTTCGTTAGGGGTACCAAGATA-TTTTCACATCGAAGGTAACCTCTAGGGGT
1 TAGTCTTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTT-ACGTAGAAGGTATCCCCTAGGGGT
* * *** * * **
2017376 ATTTTCGTAATTTTTCAAAATAAAGTCTTAGGTCATCACCGGGTCTGCTTTTATG-CTAAAATAG
65 ATTTTCGTAATTTTTTAGAACCGAGTCCTAGGTCATCACCGGGTCTGCTTTTATGCCGAAGGT-G
** * *
2017440 GGTGTTTAGGATAGGTTCATCGCTTTTA
129 GGCATTTAGGATAGGTTCACCCCTTTTA
* * * *
2017468 TAGTCTTTTTTAAGTCCTTTA---G-A--G-G-TAC-----CGTCGAAGATACCCCCTAGAGGTA
1 TAGTCTTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTTACGTAGAAGGTATCCCCTAGGGGTA
* * * * * * * *
2017520 TTTTCATAATTTTTCAGAACCGAATCCTAGGTCGTCACCGAGTCTGCTTTTATACCAAAGTTGGG
66 TTTTCGTAATTTTTTAGAACCGAGTCCTAGGTCATCACCGGGTCTGCTTTTATGCCGAAGGTGGG
* * * *
2017585 CATTTAGAATAGTTTCATCCCTTGTA
131 CATTTAGGATAGGTTCACCCCTTTTA
* * * *
2017611 TGAGTC-TTTTTAAGTCCTTTAGGGTTGCCGAGATACTTTTATGTCA-AAGGTATACCCTTAGGG
1 T-AGTCTTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTTACGT-AGAAGGTAT-CCCCTAGGG
* * * * * *
2017674 GTA-TTTCGGTAATTTTTTAGAACCAACTCTTAGGTCATCACTGGGT-TCGCTTTTATGTCTAAG
63 GTATTTTC-GTAATTTTTTAGAACCGAGTCCTAGGTCATCACCGGGTCT-GCTTTTATGCCGAAG
*
2017737 GTGGGCATTTAGGATAGGTTCATCCCTTTTA
126 GTGGGCATTTAGGATAGGTTCACCCCTTTTA
** * * * *
2017768 TAGTCCTTTTTGCA-TCCTTTAGGGTTGCCGAGATACTTTTACGTCA-AAGGTATACCCTTAAGG
1 TAGT-CTTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTTACGT-AGAAGGTAT-CCCCTAGGG
* * * * * *
2017831 ATATTTTGGTAATTTTTTAGAACCAACTCCTAGGTCATCACCGGGTCTACTTTTATGCTGAAGGT
63 GTATTTTCGTAATTTTTTAGAACCGAGTCCTAGGTCATCACCGGGTCTGCTTTTATGCCGAAGGT
* *
2017896 GGGCATTTAGGATAGGTTCATCCCTTTTG
128 GGGCATTTAGGATAGGTTCACCCCTTTTA
* ** * * * * *
2017925 TAGGCCATTTTAAGTCTTTTAGGGGTACCGAGATGCTTTCACGTCGAGGGTATCCCCTAAGGGTA
1 TAGTCTTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTTACGTAGAAGGTATCCCCT-A--G--
* * * * * * * *
2017990 GGGTATTTTCATAATCTTTTAGAACCGAATCTTAGGTTATAATCGGGTCTGCTTTTATACCGAAG
61 GGGTATTTTCGTAATTTTTTAGAACCGAGTCCTAGGTCATCACCGGGTCTGCTTTTATGCCGAAG
*
2018055 GTGGGCATTGAGGATAGGTTCA-CCCTTTTA
126 GTGGGCATTTAGGATAGGTTCACCCCTTTTA
* * * * ** *
2018085 TGAGTC-TTTTTAAGTCTTTTAGGGGTATC-AGGTACTTCTACGTCA-AAATTATCCCCTAAGGG
1 T-AGTCTTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTTACGT-AGAAGGTATCCCCTAGGGG
*
2018147 CATTTTCGTAATTTTT
64 TATTTTCGTAATTTTT
2018163 CTTAAACTTA
Statistics
Matches: 1056, Mismatches: 220, Indels: 88
0.77 0.16 0.06
Matches are distributed among these distances:
143 102 0.10
144 8 0.01
148 2 0.00
149 2 0.00
150 1 0.00
151 3 0.00
152 1 0.00
153 1 0.00
154 16 0.02
155 128 0.12
156 263 0.25
157 373 0.35
158 32 0.03
159 19 0.02
160 29 0.03
161 76 0.07
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.38
Consensus pattern (156 bp):
TAGTCTTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTTACGTAGAAGGTATCCCCTAGGGGTA
TTTTCGTAATTTTTTAGAACCGAGTCCTAGGTCATCACCGGGTCTGCTTTTATGCCGAAGGTGGG
CATTTAGGATAGGTTCACCCCTTTTA
Found at i:2017621 original size:143 final size:143
Alignment explanation
Indices: 2017368--2017632 Score: 336
Period size: 143 Copynumber: 1.9 Consensus size: 143
2017358 AAGGTAACCT
* * * * * * *
2017368 CTAGGGGTATTTTCGTAATTTTTCAAAATAAAGTCTTAGGTCATCACCGGGTCTGCTTTTATGCT
1 CTAGAGGTATTTTCATAATTTTTCAAAACAAAGTCCTAGGTCATCACCGAGTCTGCTTTTATACC
** * * *
2017433 AAAATAGGGTGTTTAGGATAGGTTCATCGCTTTTATAGTCTTTTTTAAGTCCTTTAGAGGTACCG
66 AAAATAGGGCATTTAGAATAGGTTCATCCCTTGTATAGTCTTTTTTAAGTCCTTTAGAGGTACCG
2017498 TCGAAGATACCCC
131 TCGAAGATACCCC
* * *
2017511 CTAGAGGTATTTTCATAATTTTTCAGAACCGAA-TCCTAGGTCGTCACCGAGTCTGCTTTTATAC
1 CTAGAGGTATTTTCATAATTTTTCA-AAACAAAGTCCTAGGTCATCACCGAGTCTGCTTTTATAC
* * *
2017575 CAAAGTTGGGCATTTAGAATAGTTTCATCCCTTGTATGAGTC-TTTTTAAGTCCTTTAG
65 CAAAATAGGGCATTTAGAATAGGTTCATCCCTTGTAT-AGTCTTTTTTAAGTCCTTTAG
2017633 GGTTGCCGAG
Statistics
Matches: 102, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
143 94 0.92
144 8 0.08
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.38
Consensus pattern (143 bp):
CTAGAGGTATTTTCATAATTTTTCAAAACAAAGTCCTAGGTCATCACCGAGTCTGCTTTTATACC
AAAATAGGGCATTTAGAATAGGTTCATCCCTTGTATAGTCTTTTTTAAGTCCTTTAGAGGTACCG
TCGAAGATACCCC
Found at i:2019616 original size:235 final size:235
Alignment explanation
Indices: 2019205--2019672 Score: 724
Period size: 235 Copynumber: 2.0 Consensus size: 235
2019195 ATATCATTAT
*
2019205 TAATATGGCTCATAAAATAAGAGTCATCAAAAATAACAAAACTTCATTACCTACATAATCAAGGG
1 TAATATGGCTCATAAAATAAGAGTCATCAAAAATAACAAAACTTCATTACCTACATAATCAAAGG
* * *
2019270 ACATTTTAAGTCAAGCTTGGTCGGGATTCGCATCCGGGCCACGTTTTGACAACTTGGCGACTCCC
66 ACATTTTAAGTCAAGCTTGGTCGGGATTCGCATCCGGGCCACGTTGTGACAACTTAGCGACTCCA
** *
2019335 CTGGGGACAGTTAGAGAGGCAGGCCTAGAATTGATTACGTGTTAAATAAATTTTGATTAATTTGG
131 CTGGGGACAGTTAGAGACCCAGGCCTAAAATTGATTACGTGTTAAATAAATTTTGATTAATTTGG
2019400 TTTC-ACTTAATATTTAATTATCATCCCCGATACTTTTTAC
196 TTTCAAC-TAATATTTAATTATCATCCCCGATACTTTTTAC
* * * *
2019440 TAATATGGCTCATAAAATAAGAGTCATCAAAACTAACAAAACTTCATTACTTACTTAATTAAAGG
1 TAATATGGCTCATAAAATAAGAGTCATCAAAAATAACAAAACTTCATTACCTACATAATCAAAGG
* * * * * *
2019505 -CTATTTTAAGTCGAGCTTGGTCGGGATTCGCATCTGGGCCATGTTGTGGCAGCTTAGCGACTCT
66 AC-ATTTTAAGTCAAGCTTGGTCGGGATTCGCATCCGGGCCACGTTGTGACAACTTAGCGACTCC
* *
2019569 ACTGGGGATAGTTAGAGCCCCAGGCCTAAAATTGATTACGTGTTAAATAAATTTTGATTAATTTG
130 ACTGGGGACAGTTAGAGACCCAGGCCTAAAATTGATTACGTGTTAAATAAATTTTGATTAATTTG
*
2019634 GTTTCAACTAATATTTAATTATCATCCTCGATACTTTTT
195 GTTTCAACTAATATTTAATTATCATCCCCGATACTTTTT
2019673 TTAAAAAAAA
Statistics
Matches: 211, Mismatches: 20, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
234 1 0.00
235 208 0.99
236 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (235 bp):
TAATATGGCTCATAAAATAAGAGTCATCAAAAATAACAAAACTTCATTACCTACATAATCAAAGG
ACATTTTAAGTCAAGCTTGGTCGGGATTCGCATCCGGGCCACGTTGTGACAACTTAGCGACTCCA
CTGGGGACAGTTAGAGACCCAGGCCTAAAATTGATTACGTGTTAAATAAATTTTGATTAATTTGG
TTTCAACTAATATTTAATTATCATCCCCGATACTTTTTAC
Found at i:2022704 original size:112 final size:112
Alignment explanation
Indices: 2022544--2022756 Score: 288
Period size: 112 Copynumber: 1.9 Consensus size: 112
2022534 TCATGTTTTC
* ** *
2022544 TACATCTTGATCCATTCATGCCTAAGAAAATGGGCACGTATCTCATCAG-TTTCGATCTTTTTGA
1 TACATCTTGATCCATTCATGCCTAAGAAAATGAGCACGTATCTCATCAGCTTT-GAAATCTTTGA
*
2022608 GCCCCACAACATCAAATTTGCTT-GATTTTTGAAGAAATTCACACTTCA
65 GCCCCACAACATCAAATTTG-TTAGATTTTTAAAGAAATTCACACTTCA
* ** *
2022656 TACATTTTGATCCATTTGTGCCTAAG-AAATAGAGCACGTATCTTATCAGCTTTGAAATCTTTGA
1 TACATCTTGATCCATTCATGCCTAAGAAAAT-GAGCACGTATCTCATCAGCTTTGAAATCTTTGA
*
2022720 GCCCCGCAACATCAAATTTGTTAGATTTTTAAAGAAA
65 GCCCCACAACATCAAATTTGTTAGATTTTTAAAGAAA
2022757 CTTATATTTC
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
111 6 0.07
112 79 0.90
113 3 0.03
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (112 bp):
TACATCTTGATCCATTCATGCCTAAGAAAATGAGCACGTATCTCATCAGCTTTGAAATCTTTGAG
CCCCACAACATCAAATTTGTTAGATTTTTAAAGAAATTCACACTTCA
Done.