Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 7 of 185
Found at i:1873534 original size:3 final size:3
Alignment explanation
Indices: 1873526--1873579 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
1873516 GGGTTAATCC
1873526 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1873574 ATA ATA
1 ATA ATA
1873580 GATTTTTGCC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1877083 original size:8 final size:9
Alignment explanation
Indices: 1877065--1877092 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
1877055 ACAAATTTAG
1877065 AAAAATAAA
1 AAAAATAAA
1877074 AAAAATAAA
1 AAAAATAAA
1877083 AAAAATAAA
1 AAAAATAAA
1877092 A
1 A
1877093 TCAGGCCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAATAAA
Found at i:1878825 original size:89 final size:89
Alignment explanation
Indices: 1878663--1878828 Score: 253
Period size: 89 Copynumber: 1.9 Consensus size: 89
1878653 ACGCTGGTAT
* * * *
1878663 ATGAAAACAAGATCTGCTTTCTTTGATTTGCTTTGCCACCAGTATGGGAAGGCAAGATCTGGTAT
1 ATGAAAACAAGATCTACTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGCTAT
1878728 CTCTGATCTACTTCACGCCAATAC
66 CTCTGATCTACTTCACGCCAATAC
* * *
1878752 ATGAAGACAAGATCTACTTTCTTTGGTCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGCTTT
1 ATGAAAACAAGATCTACTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGCTAT
1878817 CT-TCGATCTACT
66 CTCT-GATCTACT
1878829 CCACCACCTG
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
88 1 0.01
89 68 0.99
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (89 bp):
ATGAAAACAAGATCTACTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGCTAT
CTCTGATCTACTTCACGCCAATAC
Found at i:1878836 original size:45 final size:45
Alignment explanation
Indices: 1878669--1878901 Score: 159
Period size: 45 Copynumber: 5.2 Consensus size: 45
1878659 GTATATGAAA
* * * ** *
1878669 ACAAGATCTGCTTTCTTTGATTTGCTTTGCCACCAGTATGGGAAG
1 ACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTACGGGAAG
* * * * * **
1878714 GCAAGATCTGGTATC-TCTGATCTACTTCA-CGCCAATACATGAAG
1 ACAAGATCTGCTTTCTTC-GATCTACTTCACCACCAGTACGGGAAG
* * * * * *
1878758 ACAAGATCTACTTTCTTTGGTCTGCTTCGCCACCAGTATGGGAAG
1 ACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTACGGGAAG
* * * *
1878803 GCAAGATCTGCTTTCTTCGATCTACTCCACCACCTGTACGGGGAG
1 ACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTACGGGAAG
* * * **
1878848 ACAAGATCTGGTATCTAT-GATCTACTTCA-CGCCAGTACATGAAG
1 ACAAGATCTGCTTTCT-TCGATCTACTTCACCACCAGTACGGGAAG
*
1878892 ACAGGATCTG
1 ACAAGATCTG
1878902 TTATCTTTCA
Statistics
Matches: 138, Mismatches: 46, Indels: 9
0.72 0.24 0.05
Matches are distributed among these distances:
44 49 0.36
45 88 0.64
46 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.29
Consensus pattern (45 bp):
ACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTACGGGAAG
Found at i:1891204 original size:9 final size:9
Alignment explanation
Indices: 1891190--1891217 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
1891180 ACGAATTTAG
1891190 AAAAATAAA
1 AAAAATAAA
1891199 AAAAATAAA
1 AAAAATAAA
1891208 AAAAATAAA
1 AAAAATAAA
1891217 A
1 A
1891218 TCAGGCCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAATAAA
Found at i:1895048 original size:49 final size:49
Alignment explanation
Indices: 1894935--1895172 Score: 266
Period size: 49 Copynumber: 4.8 Consensus size: 49
1894925 ACCGAAAAAA
* * *
1894935 ATGAATGCAACAAAAACAAACAATGAAGCATAATTAGAAACACCACTTTATTT
1 ATGAATGCAAC-AAAACAATCAATGAAACATAAATA-AAACA--ACTTTATTT
* * *
1894988 ATGAATACAACAAAACAATGAATGAAGCATAAATAAAACAACTTTATTT
1 ATGAATGCAACAAAACAATCAATGAAACATAAATAAAACAACTTTATTT
* *
1895037 ATGAATGCAACAAAACAATCAATGAAATATAAATAAAACAATTTTATTT
1 ATGAATGCAACAAAACAATCAATGAAACATAAATAAAACAACTTTATTT
* * * *
1895086 ATGAATGCAAC-AATCAATGAA-GCATAA-GTAAAGAAAACACAACTTTATTT
1 ATGAATGCAACAAAACAATCAATG-A-AACATAAA-TAAA-ACAACTTTATTT
*
1895136 ATGAATGCAACAAAACATTCAATGAAACATAAATAAA
1 ATGAATGCAACAAAACAATCAATGAAACATAAATAAA
1895173 TAAATAAAAA
Statistics
Matches: 159, Mismatches: 19, Indels: 17
0.82 0.10 0.09
Matches are distributed among these distances:
47 1 0.01
48 13 0.08
49 69 0.43
50 27 0.17
51 17 0.11
52 22 0.14
53 10 0.06
ACGTcount: A:0.54, C:0.13, G:0.09, T:0.24
Consensus pattern (49 bp):
ATGAATGCAACAAAACAATCAATGAAACATAAATAAAACAACTTTATTT
Found at i:1895143 original size:99 final size:99
Alignment explanation
Indices: 1894935--1895172 Score: 293
Period size: 99 Copynumber: 2.4 Consensus size: 99
1894925 ACCGAAAAAA
* * *
1894935 ATGAATGCAACAAAAACAAACAATGAAGCATAATTAGAAACACCACTTTATTTATGAATACAACA
1 ATGAATGCAAC-AAAACAATCAATGAAACATAAATA-AAACA-CACTTTATTTATGAATACAACA
* *
1895000 AAACAATGAATGAAGCATAAATAAAACAACTTTATTT
63 AAACAATGAATGAAGAATAAAAAAAACAACTTTATTT
* * * *
1895037 ATGAATGCAACAAAACAATCAATGAAATATAAATAAAACA-ATTTTATTTATGAATGCAAC-AAT
1 ATGAATGCAACAAAACAATCAATGAAACATAAATAAAACACACTTTATTTATGAATACAACAAAA
* *
1895100 CAATGAA-GCATAAGTAAAGAAAACACAACTTTATTT
66 CAATGAATGAAGAA-TAAA-AAAA-ACAACTTTATTT
*
1895136 ATGAATGCAACAAAACATTCAATGAAACATAAATAAA
1 ATGAATGCAACAAAACAATCAATGAAACATAAATAAA
1895173 TAAATAAAAA
Statistics
Matches: 120, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
96 3 0.03
97 13 0.11
98 21 0.17
99 47 0.39
100 5 0.04
101 20 0.17
102 11 0.09
ACGTcount: A:0.54, C:0.13, G:0.09, T:0.24
Consensus pattern (99 bp):
ATGAATGCAACAAAACAATCAATGAAACATAAATAAAACACACTTTATTTATGAATACAACAAAA
CAATGAATGAAGAATAAAAAAAACAACTTTATTT
Found at i:1895185 original size:55 final size:50
Alignment explanation
Indices: 1895065--1895200 Score: 148
Period size: 55 Copynumber: 2.6 Consensus size: 50
1895055 TCAATGAAAT
* * *
1895065 ATAAATAAAACAATTTTATTTATGAATGCAACAATCAATGAAGCATAAGTAA
1 ATAAAT-AAA-AACTTTATTTATGAATGCAACAATCAATGAAACATAAATAA
* *
1895117 AGAAA-ACACAACTTTATTTATGAATGCAACAAAACATTCAATGAAACATAAATAA
1 ATAAATA-AAAACTTTATTTATGAATGCAAC---A-A-TCAATGAAACATAAATAA
1895172 ATAAATAAAAACTTTATTTATGAATGCAA
1 ATAAATAAAAACTTTATTTATGAATGCAA
1895201 ATTTGCTTAA
Statistics
Matches: 70, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
50 21 0.30
51 1 0.01
52 4 0.06
53 1 0.01
54 1 0.01
55 41 0.59
56 1 0.01
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.28
Consensus pattern (50 bp):
ATAAATAAAAACTTTATTTATGAATGCAACAATCAATGAAACATAAATAA
Found at i:1896807 original size:30 final size:32
Alignment explanation
Indices: 1896738--1896809 Score: 78
Period size: 33 Copynumber: 2.3 Consensus size: 32
1896728 TTGTTGTTTT
* *
1896738 TTTTACTACTTTCTTGCTTTTTTTTTATCGTT
1 TTTTGCTACTTTCTTGCTTTTTTTTTATCGTA
*
1896770 TTGTTGCTATTTTCTTG-TTTTTTTTTCA-C-TA
1 TT-TTGCTACTTTCTTGCTTTTTTTTT-ATCGTA
1896801 TTTTGCTAC
1 TTTTGCTAC
1896810 CATTTCACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
30 6 0.18
31 3 0.09
32 12 0.35
33 13 0.38
ACGTcount: A:0.10, C:0.15, G:0.08, T:0.67
Consensus pattern (32 bp):
TTTTGCTACTTTCTTGCTTTTTTTTTATCGTA
Found at i:1902495 original size:814 final size:814
Alignment explanation
Indices: 1900927--1902554 Score: 3256
Period size: 814 Copynumber: 2.0 Consensus size: 814
1900917 AGAGAGAGAA
1900927 TAAAATCAAAATGACTTTGTAAGCAGTTTTTATGTAGTGTTTGTCTGGTTTGGAAAGACGTTTGT
1 TAAAATCAAAATGACTTTGTAAGCAGTTTTTATGTAGTGTTTGTCTGGTTTGGAAAGACGTTTGT
1900992 AATGGATAGTTACGGAATGCATGTGTCAATTTCTTGCTTGACATTATATTTTATTTTCCCAGGCG
66 AATGGATAGTTACGGAATGCATGTGTCAATTTCTTGCTTGACATTATATTTTATTTTCCCAGGCG
1901057 TCAACAGGAAGCAGAATTGAAACTGATAGAAGAAGAGACTGCTAAGAGGGTGGAAGAAGCAATTC
131 TCAACAGGAAGCAGAATTGAAACTGATAGAAGAAGAGACTGCTAAGAGGGTGGAAGAAGCAATTC
1901122 AGAAGAAGGTTGAAGAGAGATTGAACTCAGAAGAAATCAAGCTGGAAATTCAGAAGCGACTAGAG
196 AGAAGAAGGTTGAAGAGAGATTGAACTCAGAAGAAATCAAGCTGGAAATTCAGAAGCGACTAGAG
1901187 GAAGGACGGAGAAGACTTAATGATGAAGTTGCTGCACAACTTGAGAAAGAAAAGGAAGCCGCTAT
261 GAAGGACGGAGAAGACTTAATGATGAAGTTGCTGCACAACTTGAGAAAGAAAAGGAAGCCGCTAT
1901252 TCTTGAAGCCAGGCAAAAAGAGGTAAAATTAAATATCAAAGAAAAAAAAAAGTCATGTGAATGCT
326 TCTTGAAGCCAGGCAAAAAGAGGTAAAATTAAATATCAAAGAAAAAAAAAAGTCATGTGAATGCT
1901317 GGTCTGTTGTTTGTTTCTGTTATTCTTTTTTATGCAATGGATAGAGTAGGGTGAAGCTCTAGTCT
391 GGTCTGTTGTTTGTTTCTGTTATTCTTTTTTATGCAATGGATAGAGTAGGGTGAAGCTCTAGTCT
1901382 AAAAAGAAACAACATGGTTTTAATTTTGAGTGAAGGAAAGACTGTTTTGGTTGTGGGCCATGTTT
456 AAAAAGAAACAACATGGTTTTAATTTTGAGTGAAGGAAAGACTGTTTTGGTTGTGGGCCATGTTT
1901447 GGTGTCATTTTGTAATGAACCTTGTTTGATAATGTGATACAGGAGGTAGCTAGAAAAGAGAACGA
521 GGTGTCATTTTGTAATGAACCTTGTTTGATAATGTGATACAGGAGGTAGCTAGAAAAGAGAACGA
1901512 AGAGTTGGAGAAGATGCTGGAAGAGAACAGAAAGAGGGTAGAAGAAACTCAAATAAGAGAAGCAA
586 AGAGTTGGAGAAGATGCTGGAAGAGAACAGAAAGAGGGTAGAAGAAACTCAAATAAGAGAAGCAA
1901577 TGGAGCAGCAGCGGAGAGAAGAGGAACGATATCGGGAACTAGAAGAGCTGCAAAGACAAAAGGAA
651 TGGAGCAGCAGCGGAGAGAAGAGGAACGATATCGGGAACTAGAAGAGCTGCAAAGACAAAAGGAA
1901642 GAGGCAATGAAGAGGAAGAAACAACAGGAAGAGGAAGAACGATTAAATCAAATGAAATTGTTGGG
716 GAGGCAATGAAGAGGAAGAAACAACAGGAAGAGGAAGAACGATTAAATCAAATGAAATTGTTGGG
1901707 AAAGAACAAATTACGGCCAAAGTTGTCATTTGCG
781 AAAGAACAAATTACGGCCAAAGTTGTCATTTGCG
1901741 TAAAATCAAAATGACTTTGTAAGCAGTTTTTATGTAGTGTTTGTCTGGTTTGGAAAGACGTTTGT
1 TAAAATCAAAATGACTTTGTAAGCAGTTTTTATGTAGTGTTTGTCTGGTTTGGAAAGACGTTTGT
1901806 AATGGATAGTTACGGAATGCATGTGTCAATTTCTTGCTTGACATTATATTTTATTTTCCCAGGCG
66 AATGGATAGTTACGGAATGCATGTGTCAATTTCTTGCTTGACATTATATTTTATTTTCCCAGGCG
1901871 TCAACAGGAAGCAGAATTGAAACTGATAGAAGAAGAGACTGCTAAGAGGGTGGAAGAAGCAATTC
131 TCAACAGGAAGCAGAATTGAAACTGATAGAAGAAGAGACTGCTAAGAGGGTGGAAGAAGCAATTC
1901936 AGAAGAAGGTTGAAGAGAGATTGAACTCAGAAGAAATCAAGCTGGAAATTCAGAAGCGACTAGAG
196 AGAAGAAGGTTGAAGAGAGATTGAACTCAGAAGAAATCAAGCTGGAAATTCAGAAGCGACTAGAG
1902001 GAAGGACGGAGAAGACTTAATGATGAAGTTGCTGCACAACTTGAGAAAGAAAAGGAAGCCGCTAT
261 GAAGGACGGAGAAGACTTAATGATGAAGTTGCTGCACAACTTGAGAAAGAAAAGGAAGCCGCTAT
1902066 TCTTGAAGCCAGGCAAAAAGAGGTAAAATTAAATATCAAAGAAAAAAAAAAGTCATGTGAATGCT
326 TCTTGAAGCCAGGCAAAAAGAGGTAAAATTAAATATCAAAGAAAAAAAAAAGTCATGTGAATGCT
1902131 GGTCTGTTGTTTGTTTCTGTTATTCTTTTTTATGCAATGGATAGAGTAGGGTGAAGCTCTAGTCT
391 GGTCTGTTGTTTGTTTCTGTTATTCTTTTTTATGCAATGGATAGAGTAGGGTGAAGCTCTAGTCT
1902196 AAAAAGAAACAACATGGTTTTAATTTTGAGTGAAGGAAAGACTGTTTTGGTTGTGGGCCATGTTT
456 AAAAAGAAACAACATGGTTTTAATTTTGAGTGAAGGAAAGACTGTTTTGGTTGTGGGCCATGTTT
1902261 GGTGTCATTTTGTAATGAACCTTGTTTGATAATGTGATACAGGAGGTAGCTAGAAAAGAGAACGA
521 GGTGTCATTTTGTAATGAACCTTGTTTGATAATGTGATACAGGAGGTAGCTAGAAAAGAGAACGA
1902326 AGAGTTGGAGAAGATGCTGGAAGAGAACAGAAAGAGGGTAGAAGAAACTCAAATAAGAGAAGCAA
586 AGAGTTGGAGAAGATGCTGGAAGAGAACAGAAAGAGGGTAGAAGAAACTCAAATAAGAGAAGCAA
1902391 TGGAGCAGCAGCGGAGAGAAGAGGAACGATATCGGGAACTAGAAGAGCTGCAAAGACAAAAGGAA
651 TGGAGCAGCAGCGGAGAGAAGAGGAACGATATCGGGAACTAGAAGAGCTGCAAAGACAAAAGGAA
1902456 GAGGCAATGAAGAGGAAGAAACAACAGGAAGAGGAAGAACGATTAAATCAAATGAAATTGTTGGG
716 GAGGCAATGAAGAGGAAGAAACAACAGGAAGAGGAAGAACGATTAAATCAAATGAAATTGTTGGG
1902521 AAAGAACAAATTACGGCCAAAGTTGTCATTTGCG
781 AAAGAACAAATTACGGCCAAAGTTGTCATTTGCG
1902555 CTTGGCTCCA
Statistics
Matches: 814, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
814 814 1.00
ACGTcount: A:0.38, C:0.11, G:0.27, T:0.24
Consensus pattern (814 bp):
TAAAATCAAAATGACTTTGTAAGCAGTTTTTATGTAGTGTTTGTCTGGTTTGGAAAGACGTTTGT
AATGGATAGTTACGGAATGCATGTGTCAATTTCTTGCTTGACATTATATTTTATTTTCCCAGGCG
TCAACAGGAAGCAGAATTGAAACTGATAGAAGAAGAGACTGCTAAGAGGGTGGAAGAAGCAATTC
AGAAGAAGGTTGAAGAGAGATTGAACTCAGAAGAAATCAAGCTGGAAATTCAGAAGCGACTAGAG
GAAGGACGGAGAAGACTTAATGATGAAGTTGCTGCACAACTTGAGAAAGAAAAGGAAGCCGCTAT
TCTTGAAGCCAGGCAAAAAGAGGTAAAATTAAATATCAAAGAAAAAAAAAAGTCATGTGAATGCT
GGTCTGTTGTTTGTTTCTGTTATTCTTTTTTATGCAATGGATAGAGTAGGGTGAAGCTCTAGTCT
AAAAAGAAACAACATGGTTTTAATTTTGAGTGAAGGAAAGACTGTTTTGGTTGTGGGCCATGTTT
GGTGTCATTTTGTAATGAACCTTGTTTGATAATGTGATACAGGAGGTAGCTAGAAAAGAGAACGA
AGAGTTGGAGAAGATGCTGGAAGAGAACAGAAAGAGGGTAGAAGAAACTCAAATAAGAGAAGCAA
TGGAGCAGCAGCGGAGAGAAGAGGAACGATATCGGGAACTAGAAGAGCTGCAAAGACAAAAGGAA
GAGGCAATGAAGAGGAAGAAACAACAGGAAGAGGAAGAACGATTAAATCAAATGAAATTGTTGGG
AAAGAACAAATTACGGCCAAAGTTGTCATTTGCG
Found at i:1932957 original size:27 final size:28
Alignment explanation
Indices: 1932927--1932987 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
1932917 ATATATTTTT
*
1932927 ATATATTTTAA-ATAAATTTTA-ATAGAA
1 ATATATTTTAATATAAATATTACATA-AA
*
1932954 ATATA-CTTAATATAAATATTACATAAA
1 ATATATTTTAATATAAATATTACATAAA
1932981 ATATATT
1 ATATATT
1932988 AAAGTATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
26 4 0.14
27 21 0.75
28 3 0.11
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (28 bp):
ATATATTTTAATATAAATATTACATAAA
Found at i:1932998 original size:28 final size:27
Alignment explanation
Indices: 1932934--1932999 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 27
1932924 TTTATATATT
*
1932934 TTAA-ATAAATTTTAATAGAAATATAC
1 TTAATATAAATATTAATAGAAATATAC
1932960 TTAATATAAATATTACATA-AAATATA-
1 TTAATATAAATATTA-ATAGAAATATAC
1932986 TTAAAGTATAAATA
1 TT-AA-TATAAATA
1933000 AGGGTTAAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
26 6 0.17
27 18 0.51
28 11 0.31
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (27 bp):
TTAATATAAATATTAATAGAAATATAC
Found at i:1947553 original size:15 final size:15
Alignment explanation
Indices: 1947533--1947561 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1947523 GTATTGTTGT
1947533 TTGATAACACGGTGA
1 TTGATAACACGGTGA
1947548 TTGATAACACGGTG
1 TTGATAACACGGTG
1947562 TGTGAGGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (15 bp):
TTGATAACACGGTGA
Found at i:1949912 original size:23 final size:21
Alignment explanation
Indices: 1949865--1949922 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 21
1949855 AAAAAAAATC
1949865 ATTTTTA-ATTATTTTCTTTT
1 ATTTTTACATTATTTTCTTTT
1949885 A-TTTTACATTATTTCTCTCTTT
1 ATTTTTACATTATTT-TCT-TTT
1949907 ATTTTT-CTATTATTTT
1 ATTTTTAC-ATTATTTT
1949923 TCATTTCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
19 5 0.15
20 8 0.24
21 3 0.09
22 6 0.18
23 11 0.33
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (21 bp):
ATTTTTACATTATTTTCTTTT
Found at i:1950496 original size:13 final size:13
Alignment explanation
Indices: 1950478--1950503 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1950468 AAAATATATT
1950478 TATTTAATTAAAA
1 TATTTAATTAAAA
1950491 TATTTAATTAAAA
1 TATTTAATTAAAA
1950504 ACTTAAATTT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TATTTAATTAAAA
Found at i:1952140 original size:69 final size:69
Alignment explanation
Indices: 1952029--1952163 Score: 216
Period size: 69 Copynumber: 2.0 Consensus size: 69
1952019 TTGGTTTTGC
* * *
1952029 CTTGTGAATTTAGATTTTTCTCAATTCTGGGTTGTTGCCCTTTTAGCTTTGAGGTCTCTCATATG
1 CTTGTGAAATTAGATTTTTCTCAATTCTGGGTTGTTACCCTTTTAGCTGTGAGGTCTCTCATATG
1952094 ATTT
66 ATTT
* * *
1952098 CTTGTGAAATTAGATTTTTCTCAGTTTTGGGTTGTTACCCTTTTTGCTGTGAGGTCTCTCATATG
1 CTTGTGAAATTAGATTTTTCTCAATTCTGGGTTGTTACCCTTTTAGCTGTGAGGTCTCTCATATG
1952163 A
66 A
1952164 CTTTTTGAAG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.16, C:0.16, G:0.20, T:0.48
Consensus pattern (69 bp):
CTTGTGAAATTAGATTTTTCTCAATTCTGGGTTGTTACCCTTTTAGCTGTGAGGTCTCTCATATG
ATTT
Found at i:1954182 original size:29 final size:25
Alignment explanation
Indices: 1954127--1954195 Score: 66
Period size: 29 Copynumber: 2.6 Consensus size: 25
1954117 TTGAATGGTT
* *
1954127 TTTATATATATTTTATTTTTTAGAA
1 TTTATATATATTTTATTTTCTAAAA
1954152 TTTATATATATTTCCTATATATTCTAAAA
1 TTTATATATATTT--TAT-T-TTCTAAAA
* *
1954181 TTTATACATTTTTTA
1 TTTATATATATTTTA
1954196 AAAAATGTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
25 13 0.36
27 5 0.14
28 1 0.03
29 17 0.47
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.59
Consensus pattern (25 bp):
TTTATATATATTTTATTTTCTAAAA
Found at i:1955130 original size:123 final size:123
Alignment explanation
Indices: 1954911--1955136 Score: 355
Period size: 123 Copynumber: 1.8 Consensus size: 123
1954901 AGGTGCTTGA
* ** *
1954911 GAAATCAAATAGGAAAATGGATGATACATTAGGCAATGTGAAGGAAGATGGGTCATGTAGGAAGA
1 GAAATCAAATAGGAAAATAGATGATACATTAGGCAATGCAAAGGAAGATGGGTCATGTAAGAAGA
** *
1954976 AATTGTAACGACCCGGCTTTTTTCGGTGTCGAAAAATGCGGTTTCGGAACCCCATTTC
66 AATTGTAACGACCCAACTTTTGTCGGTGTCGAAAAATGCGGTTTCGGAACCCCATTTC
1955034 GAAATCAAATAGGAAAATAGATGATAC-TCTAGGCAATGCAAAGGAAGATGGGTCATGTAAGAAG
1 GAAATCAAATAGGAAAATAGATGATACAT-TAGGCAATGCAAAGGAAGATGGGTCATGTAAGAAG
* *
1955098 AAATTGTAATGACCCAACTTTTGTCGGTGTCGAGAAATG
65 AAATTGTAACGACCCAACTTTTGTCGGTGTCGAAAAATG
1955137 TGATTTCAGA
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
122 1 0.01
123 92 0.99
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.24
Consensus pattern (123 bp):
GAAATCAAATAGGAAAATAGATGATACATTAGGCAATGCAAAGGAAGATGGGTCATGTAAGAAGA
AATTGTAACGACCCAACTTTTGTCGGTGTCGAAAAATGCGGTTTCGGAACCCCATTTC
Found at i:1974059 original size:30 final size:30
Alignment explanation
Indices: 1974023--1974081 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
1974013 AAAAAACTCT
*
1974023 CAAATTTTTCCCTAAATTTCTCAAAGCTCA
1 CAAATTTCTCCCTAAATTTCTCAAAGCTCA
**
1974053 CAAATTTCTCTTTAAATTTCTCAAAGCTC
1 CAAATTTCTCCCTAAATTTCTCAAAGCTC
1974082 TCTTTAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.25, G:0.03, T:0.39
Consensus pattern (30 bp):
CAAATTTCTCCCTAAATTTCTCAAAGCTCA
Found at i:1975934 original size:18 final size:18
Alignment explanation
Indices: 1975911--1975945 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1975901 GGTTGGATAA
1975911 GTATCCTAGCACTTATAT
1 GTATCCTAGCACTTATAT
1975929 GTATCCTAGCACTTATA
1 GTATCCTAGCACTTATA
1975946 CATAACCGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (18 bp):
GTATCCTAGCACTTATAT
Found at i:1975944 original size:86 final size:83
Alignment explanation
Indices: 1975826--1975981 Score: 215
Period size: 86 Copynumber: 1.8 Consensus size: 83
1975816 GTCAGGTACT
* ** * *
1975826 TATCCTAGCACTTATATGTATCCTAACCCTTATGGGATTCAA-GGAGTTCATCTCCTTGACAACA
1 TATCCTAGCACTTATATGTATCCTAACACTTAT-ACA-T-AACCG-GTGCATCTCCTTGACAACA
1975890 CTCATACCATGGGTTGGATAAG
62 CTCATACCATGGGTTGGATAAG
*
1975912 TATCCTAGCACTTATATGTATCCTAGCACTTATACATAACCGGTGCATCTCCTTGACAACACTCA
1 TATCCTAGCACTTATATGTATCCTAACACTTATACATAACCGGTGCATCTCCTTGACAACACTCA
1975977 TACCA
66 TACCA
1975982 CAACCCCTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
83 29 0.46
84 2 0.03
85 1 0.02
86 31 0.49
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (83 bp):
TATCCTAGCACTTATATGTATCCTAACACTTATACATAACCGGTGCATCTCCTTGACAACACTCA
TACCATGGGTTGGATAAG
Found at i:1976993 original size:27 final size:27
Alignment explanation
Indices: 1976963--1977018 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
1976953 TCTTGCAATA
*
1976963 ACTTTCGGAACCATACATGGCCTCCCT
1 ACTTTCAGAACCATACATGGCCTCCCT
*
1976990 ACTTTCAGAACCATATATGGCCTCCCT
1 ACTTTCAGAACCATACATGGCCTCCCT
1977017 AC
1 AC
1977019 ATTTGGCCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.36, G:0.12, T:0.27
Consensus pattern (27 bp):
ACTTTCAGAACCATACATGGCCTCCCT
Found at i:1978209 original size:636 final size:636
Alignment explanation
Indices: 1976990--1978735 Score: 3375
Period size: 636 Copynumber: 2.7 Consensus size: 636
1976980 TGGCCTCCCT
* * * *
1976990 ACTTTCAGAACCATATATGGCCTCCCTACATTTGGCCTTTATAACTCACTACTCGTTTTGGAAAT
1 ACTTTCGGAACCATACATGGCCTCCCTACATTTGGCCTTTATAACTCACTGCTCGTTTTGGGAAT
1977055 AGTGCCGCAAAACGAAAATATGTCTCTCGCACAACCGAGGTTATTGGCAAATGACGCGTTCCTTT
66 AGTGCCGCAAAACGAAAATATGTCTCTCGCACAACCGAGGTTATTGGCAAATGACGCGTTCCTTT
1977120 TAGAACATAATTTATGCATTTAGTCAGGTTTGTGGTCATATGACCATATTGTAGGTCGCCATCTT
131 TAGAACATAATTTATGCATTTAGTCAGGTTTGTGGTCATATGACCATATTGTAGGTCGCCATCTT
1977185 GTGCTTGTGTCCAGTATTCGAAAGGTATTTTATAGAGGTAGTATGCACCTTGATTGGTAACTGAA
196 GTGCTTGTGTCCAGTATTCGAAAGGTATTTTATAGAGGTAGTATGCACCTTGATTGGTAACTGAA
1977250 CGCAAAATCCCCAATATCTCATGAAAACGGTCCTTATTGATCTCGTACCCTACCAATATAAGTTG
261 CGCAAAATCCCCAATATCTCATGAAAACGGTCCTTATTGATCTCGTACCCTACCAATATAAGTTG
1977315 ATACCAAAAATTACTTACTACTATTCTATTCAAAATAAATTGAATATTACAAACGAAATTATATT
326 ATACCAAAAATTACTTACTACTATTCTATTCAAAATAAATTGAATATTACAAACGAAATTATATT
1977380 AATAGAGATTAAATACCCATGTTGGTTATTTGTCGTCGTTAAATGGTAAATCGATATTGCTCGTA
391 AATAGAGATTAAATACCCATGTTGGTTATTTGTCGTCGTTAAATGGTAAATCGATATTGCTCGTA
1977445 GTAGTTGTACGCAACGTGCCATAGACGCAAGTCCTATTTCTCAGGACACGATATTGCCCGCCGGT
456 GTAGTTGTACGCAACGTGCCATAGACGCAAGTCCTATTTCTCAGGACACGATATTGCCCGCCGGT
* *
1977510 AATACAATGGTTCGGTCTGTCAAAATTCGTCACACGAAACCATAGGTAGTTGCGATTGTGACACG
521 AATACAATGATTCGGTCTGTCAAAATTCATCACACGAAACCATAGGTAGTTGCGATTGTGACACG
*
1977575 CTGTGTGCCTGGTGTTGGCCCGCGCCTTTGCCTTGTTAATTTCTTGCAATA
586 CTGTGTGCATGGTGTTGGCCCGCGCCTTTGCCTTGTTAATTTCTTGCAATA
*
1977626 ATTTTCGGAACCATACATGGCCTCCCTACATTTGGCCTTTATAACTCACTGCTCGTTTTGGGAAT
1 ACTTTCGGAACCATACATGGCCTCCCTACATTTGGCCTTTATAACTCACTGCTCGTTTTGGGAAT
1977691 AGTGCCGCAAAACGAAAATATGTCTCTCGCACAACCGAGGTTATTGGCAAATGACGCGTTCCTTT
66 AGTGCCGCAAAACGAAAATATGTCTCTCGCACAACCGAGGTTATTGGCAAATGACGCGTTCCTTT
1977756 TAGAACATAATTTATGCATTTAGTCAGGTTTGTGGTCATATGACCATATTGTAGGTCGCCATCTT
131 TAGAACATAATTTATGCATTTAGTCAGGTTTGTGGTCATATGACCATATTGTAGGTCGCCATCTT
1977821 GTGCTTGTGTCCAGTATTCGAAAGGTATTTTATAGAGGTAGTATGCACCTTGATTGGTAACTGAA
196 GTGCTTGTGTCCAGTATTCGAAAGGTATTTTATAGAGGTAGTATGCACCTTGATTGGTAACTGAA
1977886 CGCAAAATCCCCAATATCTCATGAAAACGGTCCTTATTGATCTCGTACCCTACCAATATAAGTTG
261 CGCAAAATCCCCAATATCTCATGAAAACGGTCCTTATTGATCTCGTACCCTACCAATATAAGTTG
1977951 ATACCAAAAATTACTTACTACTATTCTATTCAAAATAAATTGAATATTACAAACGAAATTATATT
326 ATACCAAAAATTACTTACTACTATTCTATTCAAAATAAATTGAATATTACAAACGAAATTATATT
1978016 AATAGAGATTAAATACCCATGTTGGTTATTTGTCGTCGTTAAATGGTAAATCGATATTGCTCGTA
391 AATAGAGATTAAATACCCATGTTGGTTATTTGTCGTCGTTAAATGGTAAATCGATATTGCTCGTA
1978081 GTAGTTGTACGCAACGTGCCATAGACGCAAGTCCTATTTCTCAGGACACGATATTGCCCGCCGGT
456 GTAGTTGTACGCAACGTGCCATAGACGCAAGTCCTATTTCTCAGGACACGATATTGCCCGCCGGT
1978146 AATACAATGATTCGGTCTGTCAAAATTCATCACACGAAACCATAGGTAGTTGCGATTGTGACACG
521 AATACAATGATTCGGTCTGTCAAAATTCATCACACGAAACCATAGGTAGTTGCGATTGTGACACG
1978211 CTGTGTGCATGGTGTTGGCCCGCGCCTTTGCCTTGTTAATTTCTTGCAATA
586 CTGTGTGCATGGTGTTGGCCCGCGCCTTTGCCTTGTTAATTTCTTGCAATA
*
1978262 ACTTTCGGAACCATACATGGCCTCCCTACATTTGGCCTTTATAACTCACTGATCGTTTTGGGAAT
1 ACTTTCGGAACCATACATGGCCTCCCTACATTTGGCCTTTATAACTCACTGCTCGTTTTGGGAAT
*
1978327 AGTGCCGCAAAACGAAAATAAGTCTCTCGCACAACCGAGGTTATTGGCAAATGACGCGTTCCTTT
66 AGTGCCGCAAAACGAAAATATGTCTCTCGCACAACCGAGGTTATTGGCAAATGACGCGTTCCTTT
*
1978392 TAGAACATAATTTATGAATTTAGTCAGGTTTGTGGTCATATGACCATATTGTAGGTCGCCATCTT
131 TAGAACATAATTTATGCATTTAGTCAGGTTTGTGGTCATATGACCATATTGTAGGTCGCCATCTT
1978457 GTGCTTGTGTCCAGTATTCGAAAGGTATTTTATAGAGGTAGTATGCACCTTGATTGGTAACTGAA
196 GTGCTTGTGTCCAGTATTCGAAAGGTATTTTATAGAGGTAGTATGCACCTTGATTGGTAACTGAA
1978522 CGCAAAATCCCCAATATCTCATGAAAACGGTCCTTATTGATCTCGTACCCTACCAATATAAGTTG
261 CGCAAAATCCCCAATATCTCATGAAAACGGTCCTTATTGATCTCGTACCCTACCAATATAAGTTG
1978587 ATACCAAAAATTACTTACTACTATTCTATTCAAAATAAATTGAATATTACAAACGAAATTATATT
326 ATACCAAAAATTACTTACTACTATTCTATTCAAAATAAATTGAATATTACAAACGAAATTATATT
* *
1978652 AATAGAGATTAAATACCCATGTTGGTTATTTGTTGTCGTTAAATGATAAATCGATATTGCTCGTA
391 AATAGAGATTAAATACCCATGTTGGTTATTTGTCGTCGTTAAATGGTAAATCGATATTGCTCGTA
1978717 GTAGTTGTACGCAACGTGC
456 GTAGTTGTACGCAACGTGC
1978736 ATTAGATAAT
Statistics
Matches: 1096, Mismatches: 14, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
636 1096 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (636 bp):
ACTTTCGGAACCATACATGGCCTCCCTACATTTGGCCTTTATAACTCACTGCTCGTTTTGGGAAT
AGTGCCGCAAAACGAAAATATGTCTCTCGCACAACCGAGGTTATTGGCAAATGACGCGTTCCTTT
TAGAACATAATTTATGCATTTAGTCAGGTTTGTGGTCATATGACCATATTGTAGGTCGCCATCTT
GTGCTTGTGTCCAGTATTCGAAAGGTATTTTATAGAGGTAGTATGCACCTTGATTGGTAACTGAA
CGCAAAATCCCCAATATCTCATGAAAACGGTCCTTATTGATCTCGTACCCTACCAATATAAGTTG
ATACCAAAAATTACTTACTACTATTCTATTCAAAATAAATTGAATATTACAAACGAAATTATATT
AATAGAGATTAAATACCCATGTTGGTTATTTGTCGTCGTTAAATGGTAAATCGATATTGCTCGTA
GTAGTTGTACGCAACGTGCCATAGACGCAAGTCCTATTTCTCAGGACACGATATTGCCCGCCGGT
AATACAATGATTCGGTCTGTCAAAATTCATCACACGAAACCATAGGTAGTTGCGATTGTGACACG
CTGTGTGCATGGTGTTGGCCCGCGCCTTTGCCTTGTTAATTTCTTGCAATA
Found at i:1980962 original size:125 final size:126
Alignment explanation
Indices: 1980740--1980995 Score: 363
Period size: 125 Copynumber: 2.0 Consensus size: 126
1980730 GGCCAAACAT
* * * * *
1980740 GAACTACTGTAGAAAGAGAGCGTCGACATGGGAGCTTTTTTTAGTAATTTTGCTGACGGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTTAGTAATTTTGCTAACAGTACATC
* * * * *
1980805 TTGCTTGAAGCGTTTTTTACATTATTTGTTCAGAAACGTCTTCTCAAAATTA-TTTTTCAG
66 CTGCTTGAAGCGTTTTTCACACTATTTGTTCAGAAACGTATTCTCAAAATTATTTTTTCAA
* * *
1980865 GAACTACTGTAGAAAAATAGTGTCCACTTGGGAGCTTTTTTCT-GTAATTTTGCTAACAGTACAT
1 GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTT-TAGTAATTTTGCTAACAGTACAT
*
1980929 CCTGCTTGAAGCGTTTTTCACACTATTTGTTCAGAACCGTATTCTCAAAATTATTTTTTCAA
65 CCTGCTTGAAGCGTTTTTCACACTATTTGTTCAGAAACGTATTCTCAAAATTATTTTTTCAA
1980991 GAACT
1 GAACT
1980996 GTAGAAAAAA
Statistics
Matches: 115, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
125 102 0.89
126 13 0.11
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTTAGTAATTTTGCTAACAGTACATC
CTGCTTGAAGCGTTTTTCACACTATTTGTTCAGAAACGTATTCTCAAAATTATTTTTTCAA
Found at i:1981266 original size:15 final size:15
Alignment explanation
Indices: 1981242--1981280 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1981232 TTATTTTAAC
* * *
1981242 AAAACTCTAACCCTA
1 AAAACCCTAAACCAA
1981257 AAAACCCTAAACCAA
1 AAAACCCTAAACCAA
1981272 AAAACCCTA
1 AAAACCCTA
1981281 GGGACTAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.54, C:0.33, G:0.00, T:0.13
Consensus pattern (15 bp):
AAAACCCTAAACCAA
Found at i:1984857 original size:39 final size:38
Alignment explanation
Indices: 1984787--1984873 Score: 104
Period size: 39 Copynumber: 2.3 Consensus size: 38
1984777 TCTTTTCTAA
1984787 AAATT-AATTAAATTAAGGTTTAGGGGATTTAAATAAAT
1 AAATTAAATTAAATTAAGGTTTAGGGGATTTAAA-AAAT
* * **
1984825 AAATTAAATTAAATTAGGGTTTAGTGTTTTTAAAAAAT
1 AAATTAAATTAAATTAAGGTTTAGGGGATTTAAAAAAT
**
1984863 TCATTAAATTA
1 AAATTAAATTA
1984874 GTGTTTAGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 18 0.43
39 24 0.57
ACGTcount: A:0.46, C:0.01, G:0.13, T:0.40
Consensus pattern (38 bp):
AAATTAAATTAAATTAAGGTTTAGGGGATTTAAAAAAT
Found at i:1984892 original size:32 final size:33
Alignment explanation
Indices: 1984832--1984894 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
1984822 AATAAATTAA
1984832 ATTAAATTAGGGTTTAGTGTTTTTAAAAAATTC
1 ATTAAATTAGGGTTTAGTGTTTTTAAAAAATTC
*
1984865 ATTAAATTAGTGTTTAGT-TTTTTAAAAAAT
1 ATTAAATTAGGGTTTAGTGTTTTTAAAAAAT
1984895 AATATTATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.48
Consensus pattern (33 bp):
ATTAAATTAGGGTTTAGTGTTTTTAAAAAATTC
Found at i:1985212 original size:127 final size:126
Alignment explanation
Indices: 1984956--1985350 Score: 614
Period size: 127 Copynumber: 3.1 Consensus size: 126
1984946 TTTTGTGTTT
* *
1984956 TTTTTCTACAGTAGTTCTTGAAAAAATAA-TTTGAGAATATGGTTCTGAACAAATAGTGTGAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAACAAATAGTGTGAAAA
* * * * *
1985020 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCACATAGACACTT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * *
1985081 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGA-GGTTTCTGAATAACTAGTATCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATGG-TTCTGAACAAATAGTGTGAAA
* * * *
1985145 AAAGCTTCAAGAAAGGGTGCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
65 AACGCTTCAAG-CAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
*
1985208 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTAAGAAGATGGTTCTGAACAAATAGTGTGAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAACAAATAGTGTGAAAA
1985273 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
1985334 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
1985351 ATGTTTGGCT
Statistics
Matches: 242, Mismatches: 24, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
125 30 0.12
126 101 0.42
127 109 0.45
128 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAACAAATAGTGTGAAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:1985826 original size:24 final size:23
Alignment explanation
Indices: 1985770--1985826 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
1985760 AAGAACTTCT
*
1985770 ATTTTATTAAAAATATAAAAATA
1 ATTTTATTAAAAATATAAAAACA
1985793 ATTTACTATT-AAAATATTAAAAACA
1 ATTT--TATTAAAAATA-TAAAAACA
1985818 ACTTTTATT
1 A-TTTTATT
1985827 TTATTAATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.14
24 10 0.34
25 12 0.41
26 3 0.10
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAACA
Found at i:1988361 original size:29 final size:29
Alignment explanation
Indices: 1988329--1988385 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
1988319 GGACGCATTT
* *
1988329 TGCAAAAATTGGTCC-TTTCCGGTAAATAA
1 TGCAAAAATTAGCCCATTTCC-GTAAATAA
*
1988358 TGCAGAAATTAGCCCATTTCCGTAAATA
1 TGCAAAAATTAGCCCATTTCCGTAAATA
1988386 TACTTAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (29 bp):
TGCAAAAATTAGCCCATTTCCGTAAATAA
Found at i:1999484 original size:12 final size:13
Alignment explanation
Indices: 1999453--1999481 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1999443 TCAATCCCAC
1999453 AAAAA-AAAAAAG
1 AAAAAGAAAAAAG
1999465 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
1999478 AAAA
1 AAAA
1999482 GAAGATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:2002110 original size:44 final size:46
Alignment explanation
Indices: 2002026--2002114 Score: 146
Period size: 44 Copynumber: 2.0 Consensus size: 46
2002016 TTCGTTGTAA
* *
2002026 TGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGGAT
1 TGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGATTGAATGGAT
2002072 TGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGATTGAATGGA
1 TGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGATTGAATGGA
2002115 ATAGAGGTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 21 0.51
45 3 0.07
46 17 0.41
ACGTcount: A:0.26, C:0.04, G:0.31, T:0.38
Consensus pattern (46 bp):
TGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGATTGAATGGAT
Found at i:2002115 original size:39 final size:42
Alignment explanation
Indices: 2002024--2002129 Score: 128
Period size: 46 Copynumber: 2.5 Consensus size: 42
2002014 GGTTCGTTGT
* *
2002024 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGA
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGATTGA
2002066 ATGGATTGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGATTG-
1 A---A-TGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGATTGA
*
2002109 AATGGAATAGAGGTGTAATAG
1 AATGGAATAGAGGCGTAATAG
2002130 CATAAGGAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
39 16 0.29
40 2 0.04
42 1 0.02
43 1 0.02
44 15 0.27
45 4 0.07
46 17 0.30
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.36
Consensus pattern (42 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGATTGA
Found at i:2002370 original size:29 final size:26
Alignment explanation
Indices: 2002308--2002397 Score: 89
Period size: 26 Copynumber: 3.5 Consensus size: 26
2002298 TATATAATAC
*
2002308 TATAAAATATAATTTAA-AATAATTCT
1 TATAATATATAATTTAATAA-AATTCT
2002334 TATAATATATAATTTAATAAAATTCT
1 TATAATATATAATTTAATAAAATTCT
** *
2002360 TATTCTTATATGAATTTACTAAAA-TC-
1 TA-TAATATAT-AATTTAATAAAATTCT
2002386 -ATAATATATAAT
1 TATAATATATAAT
2002398 ACTATAAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
23 3 0.05
24 6 0.11
25 1 0.02
26 24 0.44
27 10 0.18
28 11 0.20
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (26 bp):
TATAATATATAATTTAATAAAATTCT
Found at i:2003903 original size:49 final size:49
Alignment explanation
Indices: 2003831--2003934 Score: 154
Period size: 49 Copynumber: 2.1 Consensus size: 49
2003821 AAAAAAAAAC
* ** * *
2003831 AAATTAAAATTAAGTTTAATATCATGAATCAAAATGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAACTCAACACTGTATA
*
2003880 AAATTAAAATTGAGTTCAATATCATGAATCAAAAACTCAACACTGTATA
1 AAATTAAAATTAAGTTCAATATCATGAATCAAAAACTCAACACTGTATA
2003929 AAATTA
1 AAATTA
2003935 TAGCACATGA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.32
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATCAAAAACTCAACACTGTATA
Found at i:2004103 original size:56 final size:56
Alignment explanation
Indices: 2004042--2004156 Score: 212
Period size: 56 Copynumber: 2.1 Consensus size: 56
2004032 AAATTACATA
* *
2004042 TTTCTTTAAAGAATTTTTAGAAGCACTTTCAATCATAATAACAATGAATATTTGTT
1 TTTCTTTAAACAATTTTTACAAGCACTTTCAATCATAATAACAATGAATATTTGTT
2004098 TTTCTTTAAACAATTTTTACAAGCACTTTCAATCATAATAACAATGAATATTTGTT
1 TTTCTTTAAACAATTTTTACAAGCACTTTCAATCATAATAACAATGAATATTTGTT
2004154 TTT
1 TTT
2004157 TAATCAAGTT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (56 bp):
TTTCTTTAAACAATTTTTACAAGCACTTTCAATCATAATAACAATGAATATTTGTT
Found at i:2004382 original size:24 final size:26
Alignment explanation
Indices: 2004330--2004379 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
2004320 TATATGTAAT
2004330 ATTATTAAAATAATATTTTTAATTTTA
1 ATTATTAAAATAATATTTTTAA-TTTA
*
2004357 ATTATTTAAA-AATATTTTTAATT
1 ATTATTAAAATAATATTTTTAATT
2004380 AATGCGTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 11 0.50
27 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
ATTATTAAAATAATATTTTTAATTTA
Found at i:2004414 original size:32 final size:32
Alignment explanation
Indices: 2004373--2004435 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
2004363 TAAAAATATT
2004373 TTTAATTAATGCGTTGTATATGAATATACACA
1 TTTAATTAATGCGTTGTATATGAATATACACA
2004405 TTTAATTAATGCGTTGTATATGAATATACAC
1 TTTAATTAATGCGTTGTATATGAATATACAC
2004436 TAGTGCAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.41
Consensus pattern (32 bp):
TTTAATTAATGCGTTGTATATGAATATACACA
Found at i:2004673 original size:25 final size:25
Alignment explanation
Indices: 2004639--2004700 Score: 115
Period size: 25 Copynumber: 2.5 Consensus size: 25
2004629 CAATTTACTG
2004639 GAATTGCAACTATAAAATACCTCTT
1 GAATTGCAACTATAAAATACCTCTT
2004664 GAATTGCAACTATAAAATACCTCTT
1 GAATTGCAACTATAAAATACCTCTT
*
2004689 GAAATGCAACTA
1 GAATTGCAACTA
2004701 GAGCTTCAGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (25 bp):
GAATTGCAACTATAAAATACCTCTT
Found at i:2025890 original size:41 final size:39
Alignment explanation
Indices: 2025845--2025937 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 39
2025835 AAACAGGCTT
*
2025845 TTAGCGGCGTTTGGACAAAAAATGCCACTAAAAATCGAGCA
1 TTAGCGGCGTTT--ACAAAAAACGCCACTAAAAATCGAGCA
** * *
2025886 TTAGCGGCGCTTTACGTAAAACGCCGCTAAAGATCGAGCA
1 TTAGCGGCG-TTTACAAAAAACGCCACTAAAAATCGAGCA
2025926 TTAGCGGCGTTT
1 TTAGCGGCGTTT
2025938 CTAGGAAAGC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 3 0.07
40 31 0.67
41 9 0.20
42 3 0.07
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.23
Consensus pattern (39 bp):
TTAGCGGCGTTTACAAAAAACGCCACTAAAAATCGAGCA
Found at i:2025953 original size:40 final size:40
Alignment explanation
Indices: 2025872--2025968 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 40
2025862 AAAAATGCCA
* *
2025872 CTAAAAATCGAGCATTAGCGGCGCTTTACGTAAAACGCCG
1 CTAAAAATCGAGCATTAGCGGCGCTTTACGGAAAACACCG
* * *
2025912 CTAAAGATCGAGCATTAGCGGCGTTTCTA-GGAAAGCACCG
1 CTAAAAATCGAGCATTAGCGGCGCTT-TACGGAAAACACCG
*
2025952 CTAAAAAT-TAGCATTAG
1 CTAAAAATCGAGCATTAG
2025969 AAAAAACGCC
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
39 8 0.16
40 39 0.80
41 2 0.04
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (40 bp):
CTAAAAATCGAGCATTAGCGGCGCTTTACGGAAAACACCG
Found at i:2026026 original size:41 final size:41
Alignment explanation
Indices: 2025980--2026191 Score: 343
Period size: 41 Copynumber: 5.2 Consensus size: 41
2025970 AAAAACGCCT
* * * *
2025980 ATCTTTAGCGGCATTTTTAAAAAAGCGCCGCTAATGCTTAG
1 ATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAG
*
2026021 ATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTTAG
1 ATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAG
*
2026062 ATCTCTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAG
1 ATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAG
* *
2026103 ATCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAG
1 ATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAG
*
2026144 ATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATACTCAG
1 ATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAG
2026185 ATCTTTA
1 ATCTTTA
2026192 ATTGAACATT
Statistics
Matches: 160, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 160 1.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (41 bp):
ATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAG
Found at i:2026481 original size:20 final size:19
Alignment explanation
Indices: 2026458--2026503 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
2026448 TTTTAAAATA
2026458 TTTAATTTAATTATATATGG
1 TTTAATTTAA-TATATATGG
**
2026478 TTTAAGGT-ATATATATGG
1 TTTAATTTAATATATATGG
2026496 -TTAATTTA
1 TTTAATTTA
2026504 GGATTTAGGG
Statistics
Matches: 21, Mismatches: 4, Indels: 4
0.72 0.14 0.14
Matches are distributed among these distances:
17 5 0.24
18 9 0.43
19 1 0.05
20 6 0.29
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (19 bp):
TTTAATTTAATATATATGG
Found at i:2026574 original size:14 final size:15
Alignment explanation
Indices: 2026547--2026578 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
2026537 AGGTTTATAA
2026547 ATTATGGAATTAGGG
1 ATTATGGAATTAGGG
2026562 ATTATGG-ATTAGGG
1 ATTATGGAATTAGGG
2026576 ATT
1 ATT
2026579 CTGATTTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (15 bp):
ATTATGGAATTAGGG
Found at i:2026628 original size:14 final size:14
Alignment explanation
Indices: 2026598--2026662 Score: 58
Period size: 14 Copynumber: 4.6 Consensus size: 14
2026588 GGGTTGTGAT
* *
2026598 TTAAGGTTTATGGG
1 TTAAGGGTTAGGGG
*
2026612 TTAGGGGTTAGGGG
1 TTAAGGGTTAGGGG
* *
2026626 TTAAGGGTTAGAGA
1 TTAAGGGTTAGGGG
* *
2026640 TTAAGAGTTAGGGA
1 TTAAGGGTTAGGGG
*
2026654 TTTAGGGTT
1 TTAAGGGTT
2026663 TATAGATTTA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 41 1.00
ACGTcount: A:0.25, C:0.00, G:0.40, T:0.35
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:2026679 original size:29 final size:28
Alignment explanation
Indices: 2026618--2026680 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
2026608 TGGGTTAGGG
*
2026618 GTTAGGGGTTAAGGGTTAGAGATTAAGA
1 GTTAGGGATTAAGGGTTAGAGATTAAGA
* * * *
2026646 GTTAGGGATTTAGGGTTTATAGATTTAGT
1 GTTAGGGATTAAGGG-TTAGAGATTAAGA
2026675 GTTAGG
1 GTTAGG
2026681 TTAGGGTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 13 0.45
29 16 0.55
ACGTcount: A:0.27, C:0.00, G:0.37, T:0.37
Consensus pattern (28 bp):
GTTAGGGATTAAGGGTTAGAGATTAAGA
Found at i:2026708 original size:34 final size:34
Alignment explanation
Indices: 2026646--2026710 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
2026636 GAGATTAAGA
* *
2026646 GTTAGGGATTTAGGGTTTATAGATTTAGTGTTAG
1 GTTAGGGATTTAGGGTTTAGAGAATTAGTGTTAG
*
2026680 GTTAGGG-TTTAGGGTTTAGATTAATTAGTGT
1 GTTAGGGATTTAGGGTTTAGA-GAATTAGTGT
2026711 ATTTTAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 12 0.44
34 15 0.56
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (34 bp):
GTTAGGGATTTAGGGTTTAGAGAATTAGTGTTAG
Found at i:2026741 original size:82 final size:82
Alignment explanation
Indices: 2026654--2026827 Score: 231
Period size: 82 Copynumber: 2.1 Consensus size: 82
2026644 GAGTTAGGGA
* * * *
2026654 TTTAGGGTTTATAGATTTAGTGTTAGGTTAGGGTTTAGGGTTTAGATTAATTAGTGTATTTTAAT
1 TTTAGGGTTTAGAGATTTAGGGTCAGGTTAGGGTTTAGGATTTAGATTAATTAGTGTATTTTAAT
*
2026719 TTATATATTAAATAATG
66 TTATATATTAAATAAGG
* * * * * *
2026736 TTTAGGGGTTAGGGATTTGGGGTCGGGTTAGGGTTTATGATTTAGATTAATTAGTGTTTTTTAAT
1 TTTAGGGTTTAGAGATTTAGGGTCAGGTTAGGGTTTAGGATTTAGATTAATTAGTGTATTTTAAT
*
2026801 TTCTATATTAAATAAGG
66 TTATATATTAAATAAGG
2026818 TTTAGAGGTT
1 TTTAG-GGTT
2026828 AGTGGTTTGG
Statistics
Matches: 78, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
82 75 0.96
83 3 0.04
ACGTcount: A:0.26, C:0.01, G:0.25, T:0.47
Consensus pattern (82 bp):
TTTAGGGTTTAGAGATTTAGGGTCAGGTTAGGGTTTAGGATTTAGATTAATTAGTGTATTTTAAT
TTATATATTAAATAAGG
Found at i:2026828 original size:82 final size:82
Alignment explanation
Indices: 2026679--2026840 Score: 254
Period size: 82 Copynumber: 2.0 Consensus size: 82
2026669 TTTAGTGTTA
* * *
2026679 GGTTAGGGTTTAGGGTTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAATGTTTAGGGG
1 GGTTAGGGTTTAGGATTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAAGGTTTAGAGG
2026744 TTAG-GGATTTGGGGTCG
66 TTAGTGG-TTTGGGGTCG
* * *
2026761 GGTTAGGGTTTATGATTTAGATTAATTAGTGTTTTTTAATTTCTATATTAAATAAGGTTTAGAGG
1 GGTTAGGGTTTAGGATTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAAGGTTTAGAGG
2026826 TTAGTGGTTTGGGGT
66 TTAGTGGTTTGGGGT
2026841 TTGGGGTTAA
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
82 71 0.97
83 2 0.03
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.46
Consensus pattern (82 bp):
GGTTAGGGTTTAGGATTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAAGGTTTAGAGG
TTAGTGGTTTGGGGTCG
Found at i:2027249 original size:17 final size:16
Alignment explanation
Indices: 2027216--2027249 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2027206 ATATTAGATT
*
2027216 TAAAAAAATTAATAAA
1 TAAAAAAATTAACAAA
2027232 TAAAAAAATGTAACAAA
1 TAAAAAAAT-TAACAAA
2027249 T
1 T
2027250 TGATACGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (16 bp):
TAAAAAAATTAACAAA
Found at i:2027559 original size:27 final size:26
Alignment explanation
Indices: 2027503--2027562 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
2027493 TTTTACTTTA
****
2027503 AAAAAATCAATTTATAAAAACGCCGC
1 AAAAAATCAATTTATAAAAACAAAAC
*
2027529 AAAAAATCAATTTATAAAAAACAAAAT
1 AAAAAATCAATTTAT-AAAAACAAAAC
2027556 AAAAAAT
1 AAAAAAT
2027563 ACGAACATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 15 0.54
27 13 0.46
ACGTcount: A:0.65, C:0.12, G:0.03, T:0.20
Consensus pattern (26 bp):
AAAAAATCAATTTATAAAAACAAAAC
Found at i:2031668 original size:42 final size:42
Alignment explanation
Indices: 2031622--2031787 Score: 161
Period size: 43 Copynumber: 3.9 Consensus size: 42
2031612 TTTGTTATAT
* * **
2031622 AAGCGTCGCTAAAGGTCGTGGCCTTTAATGGCGTTTTTGGGA
1 AAGCGCCGCTAAAGGTTGTGGCCTTTAGCGGCGTTTTTGGGA
* * * **
2031664 AAGCGTCGCTAAAGATTGTGGCCTTTAGCGGCATTTTTTAGA
1 AAGCGCCGCTAAAGGTTGTGGCCTTTAGCGGCGTTTTTGGGA
* * * *
2031706 AATGCGCCGCTAAACGTTATGGTCTTTAGCGGCGTTTGTGGGA
1 AA-GCGCCGCTAAAGGTTGTGGCCTTTAGCGGCGTTTTTGGGA
* * * *
2031749 TAAGCGCCGCTAAAAGTTATGGTCTTTAGCGGCATTTTT
1 -AAGCGCCGCTAAAGGTTGTGGCCTTTAGCGGCGTTTTT
2031788 TGCGGCGCTT
Statistics
Matches: 103, Mismatches: 19, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
42 37 0.36
43 64 0.62
44 2 0.02
ACGTcount: A:0.21, C:0.17, G:0.29, T:0.33
Consensus pattern (42 bp):
AAGCGCCGCTAAAGGTTGTGGCCTTTAGCGGCGTTTTTGGGA
Found at i:2032295 original size:28 final size:28
Alignment explanation
Indices: 2032263--2032351 Score: 108
Period size: 28 Copynumber: 3.2 Consensus size: 28
2032253 GTGCCCCCTG
*
2032263 TTTTT-AAGATTTTATAGCTTTGCCACTC
1 TTTTTCAA-ATTTTATAGTTTTGCCACTC
* * * *
2032291 TTTTTCAAATTTTACAATTTTGCCATTA
1 TTTTTCAAATTTTATAGTTTTGCCACTC
*
2032319 TTTTTCAAATTTTATAGTTTTGCCCCTC
1 TTTTTCAAATTTTATAGTTTTGCCACTC
2032347 TTTTT
1 TTTTT
2032352 TATATTTTGC
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 48 0.96
29 2 0.04
ACGTcount: A:0.21, C:0.17, G:0.07, T:0.55
Consensus pattern (28 bp):
TTTTTCAAATTTTATAGTTTTGCCACTC
Found at i:2032349 original size:56 final size:56
Alignment explanation
Indices: 2032263--2032370 Score: 155
Period size: 56 Copynumber: 1.9 Consensus size: 56
2032253 GTGCCCCCTG
2032263 TTTTTAAGATTTTATAGCTTTGCCACTCTTTTTCAAATTTTACAATTTTGCCATTA
1 TTTTTAAGATTTTATAGCTTTGCCACTCTTTTTCAAATTTTACAATTTTGCCATTA
* * * * *
2032319 TTTTTCAA-ATTTTATAGTTTTGCCCCTCTTTTTTATATTTTGCAATTTTGCC
1 TTTTT-AAGATTTTATAGCTTTGCCACTCTTTTTCAAATTTTACAATTTTGCC
2032371 CCTTTCTTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
56 44 0.96
57 2 0.04
ACGTcount: A:0.21, C:0.17, G:0.07, T:0.55
Consensus pattern (56 bp):
TTTTTAAGATTTTATAGCTTTGCCACTCTTTTTCAAATTTTACAATTTTGCCATTA
Found at i:2032358 original size:28 final size:28
Alignment explanation
Indices: 2032281--2032396 Score: 126
Period size: 28 Copynumber: 4.1 Consensus size: 28
2032271 ATTTTATAGC
*
2032281 TTTGCCACTCTTTTTCAAATTTTACAAT
1 TTTGCCCCTCTTTTTCAAATTTTACAAT
** * * *
2032309 TTTGCCATTATTTTTCAAATTTTATAGT
1 TTTGCCCCTCTTTTTCAAATTTTACAAT
* * *
2032337 TTTGCCCCTCTTTTTTATATTTTGCAAT
1 TTTGCCCCTCTTTTTCAAATTTTACAAT
2032365 TTTGCCCCT-TTCTTTACAAATTTTACAAT
1 TTTGCCCCTCTT-TTT-CAAATTTTACAAT
2032394 TTT
1 TTT
2032397 ACCTAGAATT
Statistics
Matches: 71, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
27 2 0.03
28 56 0.79
29 13 0.18
ACGTcount: A:0.22, C:0.19, G:0.05, T:0.54
Consensus pattern (28 bp):
TTTGCCCCTCTTTTTCAAATTTTACAAT
Found at i:2032690 original size:34 final size:34
Alignment explanation
Indices: 2032663--2032732 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
2032653 TGCTATTGAG
*
2032663 TTGAACTATTATGAGCATATTAATTGCTACTATA
1 TTGAACTATTATAAGCATATTAATTGCTACTATA
* *
2032697 TTGAACTATTATAAGCATATTGATTGCTACCATA
1 TTGAACTATTATAAGCATATTAATTGCTACTATA
2032731 TT
1 TT
2032733 ATTCTGTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.41
Consensus pattern (34 bp):
TTGAACTATTATAAGCATATTAATTGCTACTATA
Found at i:2039762 original size:9 final size:9
Alignment explanation
Indices: 2039718--2039941 Score: 78
Period size: 9 Copynumber: 23.6 Consensus size: 9
2039708 GCATGTGACG
*
2039718 AAAAATGAT
1 AAAAATTAT
*
2039727 AAAAA-AAT
1 AAAAATTAT
*
2039735 AAAAACTAAT
1 AAAAA-TTAT
*
2039745 AAAATTTAT
1 AAAAATTAT
*
2039754 ACAAATTAT
1 AAAAATTAT
2039763 AAAAATTATT
1 AAAAATTA-T
***
2039773 AAGTTTTAAT
1 AAAAATT-AT
*
2039783 AAGAAATATTT
1 AA-AAAT-TAT
*
2039794 AAAAGTTATT
1 AAAAATTA-T
*
2039804 AAAAATTAA
1 AAAAATTAT
*
2039813 AAAAATTGT
1 AAAAATTAT
*
2039822 AAAAAATTGT
1 -AAAAATTAT
**
2039832 AAACGTTTAT
1 AAA-AATTAT
*
2039842 AAAAATAAT
1 AAAAATTAT
2039851 AAAAATTAT
1 AAAAATTAT
*
2039860 AAAATATATAG
1 AAAA-AT-TAT
2039871 AAAAATT-T
1 AAAAATTAT
*
2039879 ATAAAATTTT
1 A-AAAATTAT
* * *
2039889 CTAAAGTCAT
1 -AAAAATTAT
2039899 AAGAAAATTAT
1 -A-AAAATTAT
2039910 AAAAA-TAT
1 AAAAATTAT
*
2039918 AAAAA-AAT
1 AAAAATTAT
2039926 ATAAAATTCAT
1 A-AAAATT-AT
2039937 AAAAA
1 AAAAA
2039942 AATATTGGGT
Statistics
Matches: 159, Mismatches: 38, Indels: 35
0.69 0.16 0.15
Matches are distributed among these distances:
8 19 0.12
9 63 0.40
10 56 0.35
11 20 0.13
12 1 0.01
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:2039880 original size:21 final size:20
Alignment explanation
Indices: 2039837--2039885 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
2039827 ATTGTAAACG
*
2039837 TTTATAAAA-ATAATAAAAA
1 TTTATAAAATATAAGAAAAA
2039856 -TTATAAAATATATAGAAAAA
1 TTTATAAAATATA-AGAAAAA
2039876 TTTATAAAAT
1 TTTATAAAAT
2039886 TTTCTAAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 8 0.31
19 3 0.12
20 6 0.23
21 9 0.35
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
TTTATAAAATATAAGAAAAA
Found at i:2039938 original size:19 final size:19
Alignment explanation
Indices: 2039895--2039946 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
2039885 TTTTCTAAAG
*
2039895 TCATAAGAAAATTATAAAAA
1 TCATAA-AAAAATATAAAAA
*
2039915 T-ATAAAAAAATATAAAAT
1 TCATAAAAAAATATAAAAA
2039933 TCATAAAAAAATAT
1 TCATAAAAAAATAT
2039947 TGGGTGCCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 12 0.41
19 16 0.55
20 1 0.03
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (19 bp):
TCATAAAAAAATATAAAAA
Found at i:2040278 original size:31 final size:31
Alignment explanation
Indices: 2040220--2040278 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
2040210 CCTCTACTTG
* *
2040220 ATTTTATATTTTTTTATAATATTTTTTTACA
1 ATTTTATATTTTTCTATAATATATTTTTACA
*
2040251 ATTTTATATTTTTACTATTATA-ATTTTT
1 ATTTTATATTTTT-CTATAATATATTTTT
2040279 TATTAATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 18 0.75
32 6 0.25
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (31 bp):
ATTTTATATTTTTCTATAATATATTTTTACA
Found at i:2040279 original size:16 final size:17
Alignment explanation
Indices: 2040238--2040294 Score: 50
Period size: 16 Copynumber: 3.5 Consensus size: 17
2040228 TTTTTTTATA
2040238 ATAT-TTTTTTAC-AAT
1 ATATATTTTTTACTAAT
* *
2040253 -TTTATATTTTTACTATT
1 ATATAT-TTTTTACTAAT
*
2040270 ATA-ATTTTTTATTAAT
1 ATATATTTTTTACTAAT
2040286 ATATATTTT
1 ATATATTTT
2040295 ATAATTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
14 2 0.06
15 1 0.03
16 19 0.59
17 9 0.28
18 1 0.03
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.65
Consensus pattern (17 bp):
ATATATTTTTTACTAAT
Found at i:2040372 original size:9 final size:9
Alignment explanation
Indices: 2040324--2040386 Score: 56
Period size: 9 Copynumber: 6.6 Consensus size: 9
2040314 ATAAAAAAAA
2040324 TTATATTTT
1 TTATATTTT
*
2040333 TTATAAATTCT
1 TTAT--ATTTT
2040344 TTACTATTTT
1 TTA-TATTTT
*
2040354 TTGTGA-TTT
1 TTAT-ATTTT
2040363 TTATATTTT
1 TTATATTTT
2040372 TTATATTTT
1 TTATATTTT
2040381 TCTATA
1 T-TATA
2040387 ACTTTATTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
8 1 0.02
9 24 0.55
10 11 0.25
11 7 0.16
12 1 0.02
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (9 bp):
TTATATTTT
Found at i:2043179 original size:263 final size:261
Alignment explanation
Indices: 2042716--2043362 Score: 785
Period size: 263 Copynumber: 2.5 Consensus size: 261
2042706 GTTACATTAG
* * * * * * *
2042716 GTTGGTGTCACAAGTCAATCGGGCATCAATTTGGTTA-GAGAAACTGCAAAAATATCCTTTTGAA
1 GTTGGTGTCACAAGTCAACCGGGCAACAAATCGGTTAGGA-AAATTACAAAAATATCATTTTGAA
* * * * *
2042780 TTTAAAATAATTTATATT-TTTCGAGGGTACTTTAGTTTTTT-TTT-TAAATTAATAAAAATATG
65 TTTAAAATAATTTATATTATTT-GAGAGCACTATAGTTTTTTATTTAAAAAATAATAAAAATATG
* * *
2042842 CACATAGTGAGATTTGATCTCATGCTAATTGCATTAGAAAAACTTTAAATTTACCCTTCAACCAA
129 CACATAGTGAGATTTGAACTCATGCTAATTGCATAAGAAAAACTTTAAATTTACCATTCAACCAA
* *
2042907 AGCTTTATTTTGTTATTTTAATACATTTTTATTTTAGTATCTATACTATTATTT-AAC-CCTTAC
194 AACTTTATTTTGTTATTTTAATACATTTTTATTTTAGTATCTATACTATTATTTAAACTCCTGAC
2042970 CAA
259 CAA
* *
2042973 GTTGGTGTCACAAGTCAACCGGGCAAAAAATCGGTTAGGAAAATTACAAAAATATCTTTTTGAAT
1 GTTGGTGTCACAAGTCAACCGGGCAACAAATCGGTTAGGAAAATTACAAAAATATCATTTTGAAT
* *
2043038 TTAAAATAAGTCATATTATTTGAGAGCACTATAGTCTTTTTATTTAAAAAAAACTAATAAAAATA
66 TTAAAATAATTTATATTATTTGAGAGCACTATAGT-TTTTTATTT--AAAAAA-TAATAAAAATA
* * * * *
2043103 TGCATATGGTGGGATTTGAACTCATG-TCAATTGCATAAGCAAAACTTTAAATTTATCATTCAAC
127 TGCACATAGTGAGATTTGAACTCATGCT-AATTGCATAAGAAAAACTTTAAATTTACCATTCAAC
*
2043167 CAAAATTTTATTTTGTTATTTTAATACATTTTTATTTTAGTATCTATACTATTATTTAAACTCCT
191 CAAAACTTTATTTTGTTATTTTAATACATTTTTATTTTAGTATCTATACTATTATTTAAACTCCT
**
2043232 GACTGA
256 GACCAA
* ** * * * *
2043238 GTTGGTGCCATGAGTCAACCGGACACCAACTCGGTTAGAAAAATTACAAAAATATCATTTTGAAT
1 GTTGGTGTCACAAGTCAACCGGGCAACAAATCGGTTAGGAAAATTACAAAAATATCATTTTGAAT
* * *
2043303 TTCAAATAATTTATATTATTT-A-AGGA-TAT-CTTTTTTATTTTTAAAAAATAATAAAAATAT
66 TTAAAATAATTTATATTATTTGAGAGCACTATAGTTTTTTA--TTTAAAAAATAATAAAAATAT
2043363 CCGTGAGATT
Statistics
Matches: 335, Mismatches: 42, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
257 80 0.24
258 10 0.03
259 15 0.04
260 12 0.04
261 1 0.00
262 10 0.03
263 123 0.37
264 4 0.01
265 80 0.24
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (261 bp):
GTTGGTGTCACAAGTCAACCGGGCAACAAATCGGTTAGGAAAATTACAAAAATATCATTTTGAAT
TTAAAATAATTTATATTATTTGAGAGCACTATAGTTTTTTATTTAAAAAATAATAAAAATATGCA
CATAGTGAGATTTGAACTCATGCTAATTGCATAAGAAAAACTTTAAATTTACCATTCAACCAAAA
CTTTATTTTGTTATTTTAATACATTTTTATTTTAGTATCTATACTATTATTTAAACTCCTGACCA
A
Found at i:2051383 original size:3 final size:3
Alignment explanation
Indices: 2051377--2051431 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
2051367 GGCGACAACA
2051377 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
2051425 AAG AAG A
1 AAG AAG A
2051432 CATTGTTTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:2052807 original size:22 final size:21
Alignment explanation
Indices: 2052775--2052815 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
2052765 TTAAATGCCA
2052775 TTTTTTATTAATTGTCTTTAT
1 TTTTTTATTAATTGTCTTTAT
*
2052796 TTTTTTATTTAATTTTCTTT
1 TTTTTTA-TTAATTGTCTTT
2052816 GTTTCACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTTTATTAATTGTCTTTAT
Found at i:2054671 original size:27 final size:29
Alignment explanation
Indices: 2054634--2054703 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 29
2054624 AATTTTGAAC
* *
2054634 TTGAGATTTGGGCTATAATTAGTTTA-T-T
1 TTGAG-TTTGGGCTATAATGAGTATATTAT
* *
2054662 TTGAGTTTGGACAATAATGAGTATATTAT
1 TTGAGTTTGGGCTATAATGAGTATATTAT
*
2054691 TTGGGTTTGGGCT
1 TTGAGTTTGGGCT
2054704 TAGTATAATA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
27 16 0.48
28 6 0.18
29 11 0.33
ACGTcount: A:0.24, C:0.04, G:0.26, T:0.46
Consensus pattern (29 bp):
TTGAGTTTGGGCTATAATGAGTATATTAT
Found at i:2056484 original size:21 final size:21
Alignment explanation
Indices: 2056458--2056497 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2056448 ATAAATAATA
*
2056458 TAATGGTTTTGCCTTTTAACT
1 TAATGGTTTTGACTTTTAACT
2056479 TAATGGTTTTGACTTTTAA
1 TAATGGTTTTGACTTTTAA
2056498 ATTTAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.10, G:0.15, T:0.53
Consensus pattern (21 bp):
TAATGGTTTTGACTTTTAACT
Found at i:2058289 original size:3 final size:3
Alignment explanation
Indices: 2058283--2058362 Score: 142
Period size: 3 Copynumber: 26.7 Consensus size: 3
2058273 TGAAGAAGGT
* *
2058283 GAA GAA GAA AAA TAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
2058331 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
2058363 CATTTTTTAA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (3 bp):
GAA
Found at i:2059901 original size:13 final size:13
Alignment explanation
Indices: 2059883--2059908 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2059873 AACGGGTCTT
2059883 TTACAAAAAAATA
1 TTACAAAAAAATA
2059896 TTACAAAAAAATA
1 TTACAAAAAAATA
2059909 AAAAATACTA
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:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (13 bp):
TTACAAAAAAATA
Found at i:2060171 original size:10 final size:10
Alignment explanation
Indices: 2060156--2060226 Score: 70
Period size: 10 Copynumber: 6.7 Consensus size: 10
2060146 GAGAAGAAAG
2060156 AAAGAAAGAA
1 AAAGAAAGAA
2060166 AAAGAAAGAA
1 AAAGAAAGAA
*
2060176 AAGGAAAGGAGAA
1 AAAG-AA--AGAA
2060189 GAAAGAAAGAA
1 -AAAGAAAGAA
* *
2060200 AAGGAAAGGA
1 AAAGAAAGAA
*
2060210 GAAGAAAGAA
1 AAAGAAAGAA
2060220 AAAGAAA
1 AAAGAAA
2060227 TGAGAAGAAG
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
10 34 0.69
11 6 0.12
13 6 0.12
14 3 0.06
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:2060190 original size:20 final size:20
Alignment explanation
Indices: 2060146--2060262 Score: 103
Period size: 20 Copynumber: 5.6 Consensus size: 20
2060136 AGAGGGACAA
2060146 GAGAAGAAAG-AAA-GAAAG
1 GAGAAGAAAGAAAAGGAAAG
* *
2060164 AAAAAGAAAGAAAAGGAAAGG
1 GAGAAGAAAGAAAAGGAAA-G
2060185 AGAAGAAAGAAAGAAAAGGAAAG
1 -G-AG-AAGAAAGAAAAGGAAAG
* *
2060208 GAGAAGAAAGAAAAAGAAAT
1 GAGAAGAAAGAAAAGGAAAG
*
2060228 GAGAAGAAGAAGAAGAGGAAAG
1 GAGAAG-A-AAGAAAAGGAAAG
*
2060250 GAAGAAAAAAGAA
1 G-AGAAGAAAGAA
2060263 GTACAGGTAA
Statistics
Matches: 80, Mismatches: 10, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
18 8 0.10
19 3 0.04
20 25 0.31
21 9 0.11
22 13 0.16
23 6 0.08
24 16 0.20
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (20 bp):
GAGAAGAAAGAAAAGGAAAG
Found at i:2060193 original size:24 final size:24
Alignment explanation
Indices: 2060162--2060262 Score: 117
Period size: 24 Copynumber: 4.5 Consensus size: 24
2060152 AAAGAAAGAA
2060162 AGAA-AAAGAAAGAAAAGGAAAGG
1 AGAAGAAAGAAAGAAAAGGAAAGG
2060185 AGAAGAAAGAAAGAAAAGGAAAGG
1 AGAAGAAAGAAAGAAAAGGAAAGG
*
2060209 AGAAGAAAG--A-AAAA-GAAATG
1 AGAAGAAAGAAAGAAAAGGAAAGG
*
2060229 AGAAG-AAG-AAGAAGAGGAAAGG
1 AGAAGAAAGAAAGAAAAGGAAAGG
*
2060251 AAGAAAAAAGAA
1 -AGAAGAAAGAA
2060263 GTACAGGTAA
Statistics
Matches: 67, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
19 3 0.04
20 11 0.16
21 7 0.10
22 6 0.09
23 8 0.12
24 31 0.46
25 1 0.01
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (24 bp):
AGAAGAAAGAAAGAAAAGGAAAGG
Found at i:2060234 original size:10 final size:9
Alignment explanation
Indices: 2060144--2060235 Score: 68
Period size: 10 Copynumber: 10.1 Consensus size: 9
2060134 TGAGAGGGAC
2060144 AAGAGAAGA
1 AAGAGAAGA
2060153 AAGA-AAGA
1 AAGAGAAGA
*
2060161 AAGAAAAAGA
1 AAG-AGAAGA
*
2060171 AAGAAAAGGA
1 AAGAGAA-GA
2060181 AAGGAGAAGA
1 AA-GAGAAGA
2060191 AAGA-AAGA
1 AAGAGAAGA
2060199 AA-AG--GA
1 AAGAGAAGA
2060205 AAGGAGAAGA
1 AA-GAGAAGA
*
2060215 AAGAAAAAGA
1 AAG-AGAAGA
2060225 AATGAGAAGA
1 AA-GAGAAGA
2060235 A
1 A
2060236 GAAGAAGAGG
Statistics
Matches: 69, Mismatches: 3, Indels: 21
0.74 0.03 0.23
Matches are distributed among these distances:
6 4 0.06
7 1 0.01
8 15 0.22
9 12 0.17
10 32 0.46
11 5 0.07
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (9 bp):
AAGAGAAGA
Found at i:2061834 original size:40 final size:40
Alignment explanation
Indices: 2061779--2061959 Score: 326
Period size: 40 Copynumber: 4.5 Consensus size: 40
2061769 AGGCTTGTGC
2061779 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
2061819 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
* *
2061859 ATAGCAGGCTTAATGCCGGTGAAATATTCAGATTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
*
2061899 CTAGCAGGCTTAATGCCAGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
*
2061939 CTAGCAGGCTTCATGCCGGTG
1 CTAGCAGGCTTAATGCCGGTG
2061960 TACGGAATCA
Statistics
Matches: 134, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 134 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (40 bp):
CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
Found at i:2067758 original size:27 final size:26
Alignment explanation
Indices: 2067728--2067783 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
2067718 ACTATGAATT
*
2067728 ACATATATTTTTGTGCATATTGTTAGA
1 ACATATA-GTTTGTGCATATTGTTAGA
*
2067755 AC--ATAGTTTGTGCGTATTGTTAGA
1 ACATATAGTTTGTGCATATTGTTAGA
2067779 ACATA
1 ACATA
2067784 GTTATATACG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
24 19 0.76
25 3 0.12
26 1 0.04
27 2 0.08
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (26 bp):
ACATATAGTTTGTGCATATTGTTAGA
Found at i:2067765 original size:24 final size:24
Alignment explanation
Indices: 2067737--2067786 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
2067727 TACATATATT
2067737 TTTGTGCATATTGTTAGAACATAG
1 TTTGTGCATATTGTTAGAACATAG
*
2067761 TTTGTGCGTATTGTTAGAACATAG
1 TTTGTGCATATTGTTAGAACATAG
2067785 TT
1 TT
2067787 ATATACGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (24 bp):
TTTGTGCATATTGTTAGAACATAG
Found at i:2068115 original size:40 final size:40
Alignment explanation
Indices: 2068051--2068271 Score: 343
Period size: 40 Copynumber: 5.5 Consensus size: 40
2068041 AGGCTTGTGC
*
2068051 CTAGCAGGCTTAATACCGGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
* *
2068091 CTACCAGGTTTAATGCCGGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
* *
2068131 ATAGCAGGCTTAATGCCGGTGAAATATTCAGATTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
* * *
2068171 CTAGCAGACTTAATGCCAGTGAAATATTCAGATTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
*
2068211 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACAT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
* *
2068251 CTAGCAGGCTTCATGCTGGTG
1 CTAGCAGGCTTAATGCCGGTG
2068272 TACGGAATCA
Statistics
Matches: 165, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 165 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (40 bp):
CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
Found at i:2073991 original size:40 final size:40
Alignment explanation
Indices: 2073936--2074097 Score: 279
Period size: 40 Copynumber: 4.0 Consensus size: 40
2073926 AAATATACAT
*
2073936 CGGTGAAATATTCAGACTATACGTATAGCAGGCTTAATGC
1 CGGTGAAATATTCAGACTATACGTCTAGCAGGCTTAATGC
*
2073976 CGGTGAAATATTCAGATTATACGTCTAGCAGGCTTAATGC
1 CGGTGAAATATTCAGACTATACGTCTAGCAGGCTTAATGC
*
2074016 CAGTGAAATATTCAGACTATACGTCTAGCAGGCTTAATGC
1 CGGTGAAATATTCAGACTATACGTCTAGCAGGCTTAATGC
* *
2074056 CGGTGAAATATTCAGACTATACATCTAGCAGGCTTCATGC
1 CGGTGAAATATTCAGACTATACGTCTAGCAGGCTTAATGC
2074096 CG
1 CG
2074098 ATGTACGGAA
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 115 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (40 bp):
CGGTGAAATATTCAGACTATACGTCTAGCAGGCTTAATGC
Found at i:2075986 original size:41 final size:41
Alignment explanation
Indices: 2075929--2076011 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
2075919 GAACACCCAG
* *
2075929 AACGTGACCGTCGACCTCCGCGTAGGTATACCCCTAGGACC
1 AACGTGACCATCGACCTCCGCATAGGTATACCCCTAGGACC
2075970 AACGTGACCATCGACCTCCGCATAGGTATACCCCTAGGACC
1 AACGTGACCATCGACCTCCGCATAGGTATACCCCTAGGACC
2076011 A
1 A
2076012 TACCTTGGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.25, C:0.36, G:0.22, T:0.17
Consensus pattern (41 bp):
AACGTGACCATCGACCTCCGCATAGGTATACCCCTAGGACC
Found at i:2083504 original size:3 final size:3
Alignment explanation
Indices: 2083496--2083576 Score: 65
Period size: 3 Copynumber: 26.0 Consensus size: 3
2083486 TTTAGGACTT
* * * *
2083496 TTA TTA TTA TTA TTA TTA TTTC TTCA TTA TT- TTA ATG TTA TTA TCTT
1 TTA TTA TTA TTA TTA TTA -TTA TT-A TTA TTA TTA TTA TTA TTA T-TA
* *
2083543 TTA TTA TTA TGA TTA TTAA TTA TTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
2083577 GTTTTATTTT
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
2 2 0.03
3 50 0.82
4 9 0.15
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:2083564 original size:16 final size:16
Alignment explanation
Indices: 2083533--2083576 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
2083523 TATTTTAATG
2083533 TTATTATC-TT-TT-A
1 TTATTATCATTATTAA
*
2083546 TTATTATGATTATTAA
1 TTATTATCATTATTAA
2083562 TTATTATCATTATTA
1 TTATTATCATTATTA
2083577 GTTTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 7 0.27
14 2 0.08
15 2 0.08
16 15 0.58
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (16 bp):
TTATTATCATTATTAA
Found at i:2090652 original size:89 final size:89
Alignment explanation
Indices: 2090078--2090633 Score: 1085
Period size: 89 Copynumber: 6.2 Consensus size: 89
2090068 ATGGAGTTGT
* *
2090078 AGATCTTGCCTTCCTGTACTGACGGCAAAGCAGATCGAAGAAGCCAGTCTTGCCTTCCTGTACTG
1 AGATCTTGCCTTCCTGTACTGATGGCGAAGCAGATCGAAGAAGCCAGTCTTGCCTTCCTGTACTG
2090143 ACAGCGGAGCAGACTAAAGATAGC
66 ACAGCGGAGCAGACTAAAGATAGC
2090167 AGATCTTGCCTTCCTGTACTGATGGCGAAGCAGATCGAAGAAGCCAGTCTTGCCTTCCTGTACTG
1 AGATCTTGCCTTCCTGTACTGATGGCGAAGCAGATCGAAGAAGCCAGTCTTGCCTTCCTGTACTG
2090232 ACAGCGGAGCAGACTAAAGATAGC
66 ACAGCGGAGCAGACTAAAGATAGC
2090256 AGATCTTGCCTTCCTGTACTGATGGCGAAGCAGATCGAAGAAGCCAGTCTTGCCTTCCTGTACTG
1 AGATCTTGCCTTCCTGTACTGATGGCGAAGCAGATCGAAGAAGCCAGTCTTGCCTTCCTGTACTG
2090321 ACAGCGGAGCAGACTAAAGATAGC
66 ACAGCGGAGCAGACTAAAGATAGC
2090345 AGATCTTGCCTTCCTGTACTGATGGCGAAGCAGATCGAAGAAGCCAGTCTTGCCTTCCTGTACTG
1 AGATCTTGCCTTCCTGTACTGATGGCGAAGCAGATCGAAGAAGCCAGTCTTGCCTTCCTGTACTG
2090410 ACAGCGGAGCAGACTAAAGATAGC
66 ACAGCGGAGCAGACTAAAGATAGC
2090434 AGATCTTGCCTTCCTGTACTGATGGCGAAGCAGATCGAAGAAGCCAGTCTTGCCTTCCTGTACTG
1 AGATCTTGCCTTCCTGTACTGATGGCGAAGCAGATCGAAGAAGCCAGTCTTGCCTTCCTGTACTG
2090499 ACAGCGGAGCAGACTAAAGATAGC
66 ACAGCGGAGCAGACTAAAGATAGC
2090523 AGATCTTGCCTTCCTGTACTGATGGCGAAGCAGATCGAAGAAGCCAGTCTTGCCTTCCTGTACTG
1 AGATCTTGCCTTCCTGTACTGATGGCGAAGCAGATCGAAGAAGCCAGTCTTGCCTTCCTGTACTG
*
2090588 ACAGCGGAGCAGACTAAAGATAGT
66 ACAGCGGAGCAGACTAAAGATAGC
2090612 AGATCTTGCCTTCCTGTACTGA
1 AGATCTTGCCTTCCTGTACTGA
2090634 CAGCGAAACG
Statistics
Matches: 464, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 464 1.00
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (89 bp):
AGATCTTGCCTTCCTGTACTGATGGCGAAGCAGATCGAAGAAGCCAGTCTTGCCTTCCTGTACTG
ACAGCGGAGCAGACTAAAGATAGC
Found at i:2090761 original size:95 final size:95
Alignment explanation
Indices: 2090648--2091035 Score: 582
Period size: 95 Copynumber: 4.1 Consensus size: 95
2090638 GAAACGGATT
* * * * *
2090648 GAAGATGGCATATTTTACCT-TCCTGTGACTACAGTAGAGTACATTAAAACTGATAACTCTATCT
1 GAAGATGGCAGATTTTACCTCT-CTGTGACTACAGTAGAGTACATTGAAGCCGATAATTCTATCT
2090712 CCCTGATTGGCAGTGGAATAGATTGAAGATC
65 CCCTGATTGGCAGTGGAATAGATTGAAGATC
* * *
2090743 AAAGATGGCAGATTTTACCTCTCTGTGACAACAGTGGAGTACATTGAAGCCGATAATTCTATCTC
1 GAAGATGGCAGATTTTACCTCTCTGTGACTACAGTAGAGTACATTGAAGCCGATAATTCTATCTC
* *
2090808 CCTAATTGGCAGTAGAATAGATTGAAGATC
66 CCTGATTGGCAGTGGAATAGATTGAAGATC
* *
2090838 GAAGATGGCAGATTTTACCT-TCCTGTGATTACAGTGGAGTACATTGAAGCCGATAATTCTATCT
1 GAAGATGGCAGATTTTACCTCT-CTGTGACTACAGTAGAGTACATTGAAGCCGATAATTCTATCT
*
2090902 CCCTGGTTGGCAGTGGAATAGATTGAAGATC
65 CCCTGATTGGCAGTGGAATAGATTGAAGATC
* **
2090933 GAAGATGACAGATTTTACCTCTCTGTGACTACAGTAGAGTACATTGAAGTTGATAATTCTATCTC
1 GAAGATGGCAGATTTTACCTCTCTGTGACTACAGTAGAGTACATTGAAGCCGATAATTCTATCTC
*
2090998 CCTGGTTGGCAGTGGAATAGATTGAAGATC
66 CCTGATTGGCAGTGGAATAGATTGAAGATC
*
2091028 GAATATGG
1 GAAGATGG
2091036 TAAATATTAT
Statistics
Matches: 267, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
94 1 0.00
95 264 0.99
96 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (95 bp):
GAAGATGGCAGATTTTACCTCTCTGTGACTACAGTAGAGTACATTGAAGCCGATAATTCTATCTC
CCTGATTGGCAGTGGAATAGATTGAAGATC
Found at i:2091265 original size:132 final size:132
Alignment explanation
Indices: 2091023--2091291 Score: 380
Period size: 132 Copynumber: 2.0 Consensus size: 132
2091013 AATAGATTGA
* *
2091023 AGATCGAATATGGTAAATATTATCTTCCCAAGACAGTGGAGAAGCAGATTTAAGCCATTAATCAT
1 AGATCGAAAATGGTAAATATTATCTTCCCAAGACAGTGGAGAAGCAGATTTAAACCATTAATCAT
* * *
2091088 ATCCCCTTAAGCAATAGTGGAATAGGTCAAAGATTGCAGAATCTGT-CACTTTAAGCAGTAGTGA
66 ATCCCCTTAAGCAATAGTGGAATAGGTCAAAGACTGCAGAATCTGTCCAC-CTAAGAAGTAGTGA
2091152 AGC
130 AGC
* * * * *
2091155 AGATCGAAAATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAACCATTAGTCCT
1 AGATCGAAAATGGTAAATATTATCTTCCCAAGACAGTGGAGAAGCAGATTTAAACCATTAATCAT
* * * *
2091220 ATCACCC-TAAGCAGTAGTGGAATAGGTCAAAGACTGTAGATTCTGTCCACCTAAGAAGTAGTGG
66 ATC-CCCTTAAGCAATAGTGGAATAGGTCAAAGACTGCAGAATCTGTCCACCTAAGAAGTAGTGA
2091284 AGC
130 AGC
2091287 AGATC
1 AGATC
2091292 AATAATAACG
Statistics
Matches: 121, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
132 115 0.95
133 6 0.05
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (132 bp):
AGATCGAAAATGGTAAATATTATCTTCCCAAGACAGTGGAGAAGCAGATTTAAACCATTAATCAT
ATCCCCTTAAGCAATAGTGGAATAGGTCAAAGACTGCAGAATCTGTCCACCTAAGAAGTAGTGAA
GC
Found at i:2092622 original size:3 final size:3
Alignment explanation
Indices: 2092614--2092711 Score: 74
Period size: 3 Copynumber: 32.0 Consensus size: 3
2092604 TTTAGCACTT
* * * *
2092614 TTA TTA TTA TTT TTC TTCA TTA TT- TTGA -TG TTA TTA TCTT TTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TT-A TTA TTA TTA T-TA TTA TTA
* * * *
2092660 TTA TGA TTA TTA ATA TTA ATA TTA TTA TTA TTA TTAA TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
2092706 TTA TTA
1 TTA TTA
2092712 GTTTTATTTG
Statistics
Matches: 74, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
2 2 0.03
3 65 0.88
4 7 0.09
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:2092816 original size:31 final size:31
Alignment explanation
Indices: 2092773--2092841 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
2092763 TTATTTATTC
2092773 TATATATATGTATATATGCATTATGCTTATA
1 TATATATATGTATATATGCATTATGCTTATA
* *
2092804 TATATATCTGTATATATGCATTATGCTTGTA
1 TATATATATGTATATATGCATTATGCTTATA
*
2092835 CATATAT
1 TATATAT
2092842 TTTTATAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.33, C:0.09, G:0.10, T:0.48
Consensus pattern (31 bp):
TATATATATGTATATATGCATTATGCTTATA
Found at i:2096749 original size:23 final size:23
Alignment explanation
Indices: 2096713--2096756 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
2096703 AAATCTGGTT
*
2096713 ATATATATATATATATGTTTTTC
1 ATATATATATATATATATTTTTC
2096736 ATATACTATA-ATATATATTTT
1 ATATA-TATATATATATATTTT
2096757 CAAATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (23 bp):
ATATATATATATATATATTTTTC
Found at i:2103364 original size:17 final size:17
Alignment explanation
Indices: 2103342--2103375 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
2103332 TTATCACATT
2103342 ATAGTACGATAATGTGG
1 ATAGTACGATAATGTGG
2103359 ATAGTACGATAATGTGG
1 ATAGTACGATAATGTGG
2103376 CATGCCACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.29
Consensus pattern (17 bp):
ATAGTACGATAATGTGG
Found at i:2103956 original size:30 final size:28
Alignment explanation
Indices: 2103864--2103971 Score: 117
Period size: 29 Copynumber: 3.7 Consensus size: 28
2103854 AAAAAAATAT
*
2103864 AAATTACATTTTAACCCCTAAGTTTTCTA
1 AAATTACATTTTAA-CCCTAACTTTTCTA
* ** *
2103893 AAATTACATATTGGCCACTAACTTTTTTA
1 AAATTACATTTTAACC-CTAACTTTTCTA
2103922 AAATTACATTTTAACCCTAAACTTTTCCTA
1 AAATTACATTTTAACCCT-AACTTTT-CTA
* *
2103952 AAATTACAATTTGACCCTAA
1 AAATTACATTTTAACCCTAA
2103972 AGGTTTTACA
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
28 4 0.06
29 43 0.66
30 18 0.28
ACGTcount: A:0.37, C:0.20, G:0.04, T:0.39
Consensus pattern (28 bp):
AAATTACATTTTAACCCTAACTTTTCTA
Found at i:2103979 original size:58 final size:58
Alignment explanation
Indices: 2103864--2103979 Score: 139
Period size: 58 Copynumber: 2.0 Consensus size: 58
2103854 AAAAAAATAT
* * ***
2103864 AAATTACATTTTAACCCCTAAGTTTTCTAAAATTACATATTGGCCACTAACTTTTTTA
1 AAATTACATTTTAACCCCTAACTTTTCTAAAATTACATATTGACCACTAAAGGTTTTA
2103922 AAATTACATTTTAA-CCCTAAACTTTTCCTAAAATTACA-ATTTGACC-CTAAAGGTTTTA
1 AAATTACATTTTAACCCCT-AACTTTT-CTAAAATTACATA-TTGACCACTAAAGGTTTTA
2103980 CACCCTTTGC
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
57 4 0.08
58 30 0.60
59 16 0.32
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.40
Consensus pattern (58 bp):
AAATTACATTTTAACCCCTAACTTTTCTAAAATTACATATTGACCACTAAAGGTTTTA
Found at i:2104200 original size:12 final size:12
Alignment explanation
Indices: 2104183--2104216 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
2104173 AAAAATGAAG
2104183 AAAGAAAAAAAC
1 AAAGAAAAAAAC
*
2104195 AAAGAAAAAAAT
1 AAAGAAAAAAAC
2104207 AAA-AAAAAAA
1 AAAGAAAAAAA
2104217 GCAGCAGCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.88, C:0.03, G:0.06, T:0.03
Consensus pattern (12 bp):
AAAGAAAAAAAC
Found at i:2104326 original size:11 final size:11
Alignment explanation
Indices: 2104310--2104346 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
2104300 AATTGACACG
2104310 AAAGAGAAGAA
1 AAAGAGAAGAA
2104321 AAAGAG-AGAA
1 AAAGAGAAGAA
2104331 AGAAGAGAAGAA
1 A-AAGAGAAGAA
2104343 AAAG
1 AAAG
2104347 GGAAATGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 5 0.21
11 14 0.58
12 5 0.21
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (11 bp):
AAAGAGAAGAA
Found at i:2104466 original size:4 final size:4
Alignment explanation
Indices: 2104452--2104499 Score: 55
Period size: 4 Copynumber: 12.2 Consensus size: 4
2104442 AGGGCCGAAG
* *
2104452 GAAA AAAA GAAA GAAA G-AA GAAA G-AA GAAA AAAGA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAA-A GAAA GAAA GAAA
2104499 G
1 G
2104500 TATAAAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
3 6 0.16
4 28 0.76
5 3 0.08
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:2104978 original size:15 final size:15
Alignment explanation
Indices: 2104958--2105000 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
2104948 CAAGAAAAAG
*
2104958 GAAAAAAAAGTGAAA
1 GAAAAAAAAGAGAAA
*
2104973 GAAAAATAAGAGAAA
1 GAAAAAAAAGAGAAA
*
2104988 AAGAAAAAAAGAG
1 GA-AAAAAAAGAG
2105001 CCCGAGTCGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (15 bp):
GAAAAAAAAGAGAAA
Found at i:2104999 original size:16 final size:16
Alignment explanation
Indices: 2104950--2105000 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
2104940 CCAATTTGCA
2104950 AGAAAAAGGAAAAAAA-
1 AGAAAAA-GAAAAAAAG
**
2104966 AGTGAAAGAAAAATAAG
1 AGAAAAAGAAAAA-AAG
2104983 AGAAAAAGAAAAAAAG
1 AGAAAAAGAAAAAAAG
2104999 AG
1 AG
2105001 CCCGAGTCGT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 6 0.21
16 12 0.41
17 11 0.38
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.04
Consensus pattern (16 bp):
AGAAAAAGAAAAAAAG
Found at i:2112130 original size:3 final size:3
Alignment explanation
Indices: 2112124--2112312 Score: 378
Period size: 3 Copynumber: 63.0 Consensus size: 3
2112114 TTTTATCTTC
2112124 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2112172 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2112220 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2112268 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2112313 CTACTATGTA
Statistics
Matches: 186, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 186 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2116585 original size:50 final size:51
Alignment explanation
Indices: 2116523--2116714 Score: 203
Period size: 50 Copynumber: 3.8 Consensus size: 51
2116513 AACTATTCTC
*
2116523 ATTCGATACACGTAGTAGCCCT-CACATAGTACTACGCACGTGATC-AAACT
1 ATTCGATACACGTAGTAG-CCTGCACATAGTACTACACACGTGATCGAAACT
* * *
2116573 TTTCGATTCACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCT
1 ATTCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAACT
* * * * * ****
2116624 ATCCGATACGCATAGTAGCCTGCACATAGTACTACACATGCGA-CCTTTC-
1 ATTCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAACT
* *
2116673 ATTCCGGTACACGTAGTAGCCTACACATAGTACTACACACGT
1 ATT-CGATACACGTAGTAGCCTGCACATAGTACTACACACGT
2116715 TACAATCACT
Statistics
Matches: 117, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
49 5 0.04
50 72 0.62
51 40 0.34
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (51 bp):
ATTCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAACT
Found at i:2119697 original size:28 final size:28
Alignment explanation
Indices: 2119634--2119811 Score: 252
Period size: 28 Copynumber: 6.4 Consensus size: 28
2119624 ATATTAAGTC
* *
2119634 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
2119661 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
2119689 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
2119717 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
2119745 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAATCAAACT
* * * *
2119772 CGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAA-TCAAACT
2119801 CGCACACTTAG
1 CGCACACTTAG
2119812 CGCCAATCTC
Statistics
Matches: 138, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
27 43 0.31
28 82 0.59
29 13 0.09
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:2119775 original size:83 final size:84
Alignment explanation
Indices: 2119633--2119811 Score: 254
Period size: 83 Copynumber: 2.1 Consensus size: 84
2119623 TATATTAAGT
* * *
2119633 CCGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTATATAATCAAACTCGCACACTT
1 CCGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
*
2119698 AGTGCTACATAA-TCAAAC
66 AGTGCTACACAATTCAAAC
* * *
2119716 TCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTC-AATTCGCACACT
1 CCGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAACTCGCACACT
* *
2119780 TAGTGCTGCACAATTTAAAC
65 TAGTGCTACACAATTCAAAC
2119800 CCGCACACTTAG
1 CCGCACACTTAG
2119812 CGCCAATCTC
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
83 43 0.51
84 41 0.49
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (84 bp):
CCGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
AGTGCTACACAATTCAAAC
Found at i:2127102 original size:19 final size:19
Alignment explanation
Indices: 2127078--2127120 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
2127068 ATTGAACATG
2127078 TTGGTATAATAGTGAATAT
1 TTGGTATAATAGTGAATAT
2127097 TTGGTATAATAGTGAATAT
1 TTGGTATAATAGTGAATAT
2127116 TTGGT
1 TTGGT
2127121 GGTTTGCACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.44
Consensus pattern (19 bp):
TTGGTATAATAGTGAATAT
Found at i:2127361 original size:50 final size:50
Alignment explanation
Indices: 2127161--2127361 Score: 140
Period size: 50 Copynumber: 4.0 Consensus size: 50
2127151 TTATCATTCG
* * * *
2127161 ATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCATTAATATCTA
1 ATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTTTC-A
* * * * * *
2127212 ACACATGTAGTAGCCTGGACATAGTACTACACACGTGATCGA--AGCTATGCG
1 ATACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CT-TTCA
* * * * * * * *
2127263 GTACGCATAGTAG-CTGCACATAGTACTACACATGCGGCCTTTC-GTTTCA
1 ATACACGTAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTTTCA
* * *
2127312 ATACACGTAGTAGCCTACACATAGGACTACACATGTGACCATCACTTTCA
1 ATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTTTCA
2127362 CTTTCATATA
Statistics
Matches: 110, Mismatches: 32, Indels: 17
0.69 0.20 0.11
Matches are distributed among these distances:
49 15 0.14
50 49 0.45
51 43 0.39
52 3 0.03
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
ATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTTTCA
Found at i:2132271 original size:21 final size:21
Alignment explanation
Indices: 2132245--2132286 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
2132235 AAAGGCATCC
2132245 TAATGAAATAGCTTCGAACTT
1 TAATGAAATAGCTTCGAACTT
2132266 TAATGAAATAGCTTCGAACTT
1 TAATGAAATAGCTTCGAACTT
2132287 AAAGAACAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (21 bp):
TAATGAAATAGCTTCGAACTT
Found at i:2133192 original size:76 final size:75
Alignment explanation
Indices: 2133067--2134355 Score: 1372
Period size: 76 Copynumber: 17.1 Consensus size: 75
2133057 TCGTCTTTGA
** *
2133067 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACATTGAGGTATTTTCAAGT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
2133132 TCTATTTTTC
66 TCTATTTTTC
* * ** *
2133142 AAAAAATAAACTCATAATCTGAGAAGTGAGTTGAGCCTCGGGTCACACATTGAGGTATTTTCAAG
1 -AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAAT
2133207 TTCTATTTTTC
65 TTCTATTTTTC
* * * * *
2133218 AAAAAATAAACTCATAATCTGAGAAGTGAGTTGAGCCTCAGGTCGCACGCTAAGGTATTTTCAAT
1 -AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAAT
*
2133283 TTCTGTTGTTTTTC
65 TTC---TATTTTTC
* * * * * *
2133297 AAAAATGAACTTATAATCCGAGAGGTAAGTTGAGCCTCGGGTCACACGCTAAGGTATTTTTAATT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
** * *
2133362 TCTGCTTATA
66 TCTATTTTTC
* * * * ***
2133372 AAAAATTAACTTATAATCCGAGAAGTCAGTTGAGCCTCGGGTCGCATATTGAGGTATTTTCAATT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
2133437 TCTATTTTTC
66 TCTATTTTTC
* * * *
2133447 AAAAATCAACTTATAATCCGAGAGGTGAGTTGAGCCTTGGGTCACACACTGAGGTATTTTCAATT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
*
2133512 TCTGTTTTTC
66 TCTATTTTTC
* * * * *
2133522 AAAAATCAACTCATAATCCGAGAAAATGAGTTGGGCCTCGGGGCGCGCGCTGAGGTATTCTT-AA
1 AAAAATCAACTCATAATCCGAG-AAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATT-TTCAA
* *
2133586 TTTTTGTTTTTC
64 TTTCTATTTTTC
* * * * *
2133598 AAAAATCAACTCATAATCCGAGAAAATGAGTTGGGCCTCGGGGCGCGCGCTGAGGTATTCTT-AA
1 AAAAATCAACTCATAATCCGAG-AAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATT-TTCAA
* *
2133662 TTTTTGTTTTTC
64 TTTCTATTTTTC
* * * * * *
2133674 AAAAATCAATTCATAATCCTAAAAGTGAGTTGAGCCTTGGGTCGCACGCTGGGGTATTTTCAATT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
*
2133739 TCTATTTGTC
66 TCTATTTTTC
* *
2133749 AAAAATCAATTCATAATCCGAGAAGATGAGTGGAGCCTCGGGTCGAGCA--CTGAGGTATTTTCA
1 AAAAATCAACTCATAATCCGAGAAG-TGAGTTGAGCCTCGGGTC-A-CACGCTGAGGTATTTTCA
*
2133812 ATTTTTATTTTTC
63 ATTTCTATTTTTC
* * *
2133825 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGTCTCAGGTCACACGCTGATGTATTTTTCAAT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTA-TTTTCAAT
*
2133890 TTCTGTTTTTC
65 TTCTATTTTTC
* * * * *
2133901 AAAAATCAATTCATAATCCGAGAGGTGAGTTGAGCCTCGAGTCGCGCGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
2133966 TCTATTTTTC
66 TCTATTTTTC
* * * * *
2133976 AAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCAGATCACACG-TCGAGGTATTTTTCAA
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCT-GAGGTA-TTTTCAA
2134040 TTTCTATTTTTC
64 TTTCTATTTTTC
* * * * *
2134052 AAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCAGATCACACG-TCGAGGTATTTTTCAA
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCT-GAGGTA-TTTTCAA
2134116 TTTCTATTTTTC
64 TTTCTATTTTTC
* * * * * * * * * *
2134128 AAAAATAAACTCAAAATCTGAGAGGCGAGTTGAGCCTTGAGTCACATGCCGAGGTATTTTTTAAT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTA-TTTTCAAT
2134193 TTCTATTTTTC
65 TTCTATTTTTC
* ** * * * * * *
2134204 AAAAATCAACTTATAATTTGAGAGGTGAGTTGAGCCACAGGTCGCGCGCTAAGGTATTTT-ATAT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCA-AT
*
2134268 TTCTGTTTTTC
65 TTCTATTTTTC
* * * ** ** * *
2134279 AAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCGTACGCCAAGGTGTTTTCAAGT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
2134344 TCT-TTTTT-
66 TCTATTTTTC
2134352 AAAA
1 AAAA
2134356 TAAAAATAAA
Statistics
Matches: 1062, Mismatches: 134, Indels: 37
0.86 0.11 0.03
Matches are distributed among these distances:
73 5 0.00
74 10 0.01
75 377 0.35
76 600 0.56
77 2 0.00
78 61 0.06
79 7 0.01
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (75 bp):
AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
TCTATTTTTC
Found at i:2133692 original size:227 final size:225
Alignment explanation
Indices: 2133067--2134355 Score: 1392
Period size: 227 Copynumber: 5.7 Consensus size: 225
2133057 TCGTCTTTGA
* ** *
2133067 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACATTGAGGTATTTTCAAGT
1 AAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
* * **
2133132 TCTATTTTTCAAAAAATAAACTCATAATCTGAGAAGTGAGTTGAGCCTCGGGTCACACATTGAGG
66 TCTATTTTTC-AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGG
* * * * * **
2133197 TATTTTCAAGTTCTATTTTTCAAAAAATAAACTCATAATCTGAGAAGTGAGTTGAGCCTCAGGTC
130 TATTTTCAATTTCTATTTTTC-AAAAATCAATTCATAATCCGAGAGGTGAGTTGAGCCTTGGGTC
* *
2133262 GCACGCTAAGGTATTTTCAATTTCTGTTGTTTTTC
194 GCACGCTGAGGTATTTTCAATTTC---TATTTTTC
* * * * *
2133297 AAAAATGAACTTATAATCCGAGAGGTAAGTTGAGCCTCGGGTCACACGCTAAGGTATTTTTAATT
1 AAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
** * * * * * * ***
2133362 TCTGCTTATAAAAAATTAACTTATAATCCGAGAAGTCAGTTGAGCCTCGGGTCGCATATTGAGGT
66 TCTATTTTTCAAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGT
*
2133427 ATTTTCAATTTCTATTTTTCAAAAATCAACTT-ATAATCCGAGAGGTGAGTTGAGCCTTGGGTCA
131 ATTTTCAATTTCTATTTTTCAAAAATCAA-TTCATAATCCGAGAGGTGAGTTGAGCCTTGGGTCG
* *
2133491 CACACTGAGGTATTTTCAATTTCTGTTTTTC
195 CACGCTGAGGTATTTTCAATTTCTATTTTTC
** * * * *
2133522 AAAAATCAACTCATAATCCGAGAAAATGAGTTGGGCCTCGGGGCGCGCGCTGAGGTATTCTT-AA
1 AAAAATCAACTCATAATCCGAG-AGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATT-TTCAA
* * * * * * *
2133586 TTTTTGTTTTTCAAAAATCAACTCATAATCCGAGAAAATGAGTTGGGCCTCGGGGCGCGCGCTGA
64 TTTCTATTTTTCAAAAATCAACTCATAATCCGAG-AAGTGAGTTGAGCCTCGGGTCACACGCTGA
* * * * *
2133651 GGTATTCTT-AATTTTTGTTTTTCAAAAATCAATTCATAATCCTAAAAGTGAGTTGAGCCTTGGG
128 GGTATT-TTCAATTTCTATTTTTCAAAAATCAATTCATAATCCGAGAGGTGAGTTGAGCCTTGGG
* *
2133715 TCGCACGCTGGGGTATTTTCAATTTCTATTTGTC
192 TCGCACGCTGAGGTATTTTCAATTTCTATTTTTC
* * *
2133749 AAAAATCAATTCATAATCCGAGAAGATGAGTGGAGCCTCGGGTCGAGCA--CTGAGGTATTTTCA
1 AAAAATCAACTCATAATCCGAG-AGGTGAGTTGAGCCTCGGGTC-A-CACGCTGAGGTATTTTCA
* * *
2133812 ATTTTTATTTTTCAAAAATCAACTCATAATCCGAGAAGTGAGTTGAGTCTCAGGTCACACGCTGA
63 ATTTCTATTTTTCAAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGA
* * * *
2133877 TGTATTTTTCAATTTCTGTTTTTCAAAAATCAATTCATAATCCGAGAGGTGAGTTGAGCCTCGAG
128 GGTA-TTTTCAATTTCTATTTTTCAAAAATCAATTCATAATCCGAGAGGTGAGTTGAGCCTTGGG
*
2133942 TCGCGCGCTGAGGTATTTTCAATTTCTATTTTTC
192 TCGCACGCTGAGGTATTTTCAATTTCTATTTTTC
* * * *
2133976 AAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCAGATCACACG-TCGAGGTATTTTTCAA
1 AAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCT-GAGGTA-TTTTCAA
* * * * *
2134040 TTTCTATTTTTCAAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCAGATCACACG-TCGA
64 TTTCTATTTTTCAAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCT-GA
* * * * * *
2134104 GGTATTTTTCAATTTCTATTTTTCAAAAATAAACTCAAAATCTGAGAGGCGAGTTGAGCCTTGAG
128 GGTA-TTTTCAATTTCTATTTTTCAAAAATCAATTCATAATCCGAGAGGTGAGTTGAGCCTTGGG
* * * *
2134169 TCACATGCCGAGGTATTTTTTAATTTCTATTTTTC
192 TCGCACGCTGAGGTA-TTTTCAATTTCTATTTTTC
* ** * * * * *
2134204 AAAAATCAACTTATAATTTGAGAGGTGAGTTGAGCCACAGGTCGCGCGCTAAGGTATTTT-ATAT
1 AAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCA-AT
* * * * ** **
2134268 TTCTGTTTTTCAAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCGTACGCCAAGG
65 TTCTATTTTTCAAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGG
* *
2134333 TGTTTTCAAGTTCT-TTTTT-AAAA
130 TATTTTCAATTTCTATTTTTCAAAA
2134356 TAAAAATAAA
Statistics
Matches: 908, Mismatches: 131, Indels: 46
0.84 0.12 0.04
Matches are distributed among these distances:
224 6 0.01
225 35 0.04
226 126 0.14
227 486 0.54
228 122 0.13
229 71 0.08
230 62 0.07
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (225 bp):
AAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAATT
TCTATTTTTCAAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACGCTGAGGT
ATTTTCAATTTCTATTTTTCAAAAATCAATTCATAATCCGAGAGGTGAGTTGAGCCTTGGGTCGC
ACGCTGAGGTATTTTCAATTTCTATTTTTC
Found at i:2133703 original size:151 final size:150
Alignment explanation
Indices: 2133067--2134355 Score: 1379
Period size: 151 Copynumber: 8.5 Consensus size: 150
2133057 TCGTCTTTGA
* ** *
2133067 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCACACATTGAGGTATTTTCAAGT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
* * * *
2133132 TCTATTTTTCAAAAAATAAACTCATAATCTGAGAAGTGAGTTGAGCCTCGGGTCACACATTGAGG
66 TCTATTTTTC-AAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACACTGAGG
*
2133197 TATTTTCAAGTTCTATTTTTC
130 TATTTTCAATTTCTATTTTTC
* * * *
2133218 AAAAAATAAACTCATAATCTGAGAAGTGAGTTGAGCCTCAGGTCGCACGCTAAGGTATTTTCAAT
1 -AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAAT
* * * * * *
2133283 TTCTGTTGTTTTTCAAAAATGAACTTATAATCCGAGAGGTAAGTTGAGCCTCGGGTCACACGCTA
65 TTC---TATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACACTG
* ** * *
2133348 AGGTATTTTTAATTTCTGCTTATA
127 AGGTATTTTCAATTTCTATTTTTC
* * * ***
2133372 AAAAATTAACTTATAATCCGAGAAGTCAGTTGAGCCTCGGGTCGCATATTGAGGTATTTTCAATT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
* *
2133437 TCTATTTTTCAAAAATCAACTTATAATCCGAGAGGTGAGTTGAGCCTTGGGTCACACACTGAGGT
66 TCTATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACACTGAGGT
*
2133502 ATTTTCAATTTCTGTTTTTC
131 ATTTTCAATTTCTATTTTTC
* * * *
2133522 AAAAATCAACTCATAATCCGAGAAAATGAGTTGGGCCTCGGGGCGCGCGCTGAGGTATTCTT-AA
1 AAAAATCAACTCATAATCCGAG-AAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATT-TTCAA
* * ** * * * * *
2133586 TTTTTGTTTTTCAAAAATCAACTCATAATCCGAGAAAATGAGTTGGGCCTCGGGGCGCGCGCTGA
64 TTTCTATTTTTCAAAAATCAACTCATAATCCGAG-AGGTGAGTTGAGCCTCGGGTCACACACTGA
* *
2133651 GGTATTCTT-AATTTTTGTTTTTC
128 GGTATT-TTCAATTTCTATTTTTC
* * * * *
2133674 AAAAATCAATTCATAATCCTAAAAGTGAGTTGAGCCTTGGGTCGCACGCTGGGGTATTTTCAATT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
* * * * *
2133739 TCTATTTGTCAAAAATCAATTCATAATCCGAGAAGATGAGTGGAGCCTCGGGTCGA-GCACTGAG
66 TCTATTTTTCAAAAATCAACTCATAATCCGAG-AGGTGAGTTGAGCCTCGGGTC-ACACACTGAG
*
2133803 GTATTTTCAATTTTTATTTTTC
129 GTATTTTCAATTTCTATTTTTC
* * * *
2133825 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGTCTCAGGTCACACGCTGATGTATTTTTCAAT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTA-TTTTCAAT
* * * * * *
2133890 TTCTGTTTTTCAAAAATCAATTCATAATCCGAGAGGTGAGTTGAGCCTCGAGTCGCGCGCTGAGG
65 TTCTATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACACTGAGG
2133955 TATTTTCAATTTCTATTTTTC
130 TATTTTCAATTTCTATTTTTC
* * * * * *
2133976 AAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCAGATCACACG-TCGAGGTATTTTTCAA
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCT-GAGGTA-TTTTCAA
* * * * *
2134040 TTTCTATTTTTCAAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCAGATCACAC-GTCGA
64 TTTCTATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACACT-GA
2134104 GGTATTTTTCAATTTCTATTTTTC
128 GGTA-TTTTCAATTTCTATTTTTC
* * * * * * * * * * *
2134128 AAAAATAAACTCAAAATCTGAGAGGCGAGTTGAGCCTTGAGTCACATGCCGAGGTATTTTTTAAT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTA-TTTTCAAT
* ** * * * * * *
2134193 TTCTATTTTTCAAAAATCAACTTATAATTTGAGAGGTGAGTTGAGCCACAGGTCGCGCGCTAAGG
65 TTCTATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACACTGAGG
*
2134258 TATTTT-ATATTTCTGTTTTTC
130 TATTTTCA-ATTTCTATTTTTC
* * * * ** * *
2134279 AAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCGTACGCCAAGGTGTTTTCAAGT
1 AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
2134344 TCT-TTTTT-AAAA
66 TCTATTTTTCAAAA
2134356 TAAAAATAAA
Statistics
Matches: 964, Mismatches: 155, Indels: 40
0.83 0.13 0.03
Matches are distributed among these distances:
148 4 0.00
149 5 0.01
150 110 0.11
151 430 0.45
152 286 0.30
153 61 0.06
154 61 0.06
155 7 0.01
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (150 bp):
AAAAATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTTCAATT
TCTATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACACTGAGGT
ATTTTCAATTTCTATTTTTC
Found at i:2134740 original size:28 final size:30
Alignment explanation
Indices: 2134651--2134774 Score: 157
Period size: 29 Copynumber: 4.3 Consensus size: 30
2134641 AAGAAAATAT
** *
2134651 AAATTACATTTTGACAC-CCAACTTTCTTA
1 AAATTACATTTTGACACTTAAACTTTCCTA
* *
2134680 AAATTACATTTTGACACTTCAACTTCCCTA
1 AAATTACATTTTGACACTTAAACTTTCCTA
*
2134710 AAATTAGATTTTGAC-CTT-AACTTTCCTA
1 AAATTACATTTTGACACTTAAACTTTCCTA
*
2134738 AAATTACATTTTGAC-CTTAAATTTTCCTA
1 AAATTACATTTTGACACTTAAACTTTCCTA
2134767 AAATTACA
1 AAATTACA
2134775 CATTAACCCC
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
28 26 0.30
29 37 0.43
30 23 0.27
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.40
Consensus pattern (30 bp):
AAATTACATTTTGACACTTAAACTTTCCTA
Found at i:2135002 original size:20 final size:20
Alignment explanation
Indices: 2134979--2135021 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
2134969 AGCACCAAAC
2134979 AAAGAAAAATG-AAAAAAGAA
1 AAAGAAAAA-GCAAAAAAGAA
* *
2134999 AAAGACAAAGCAAAAAATAA
1 AAAGAAAAAGCAAAAAAGAA
2135019 AAA
1 AAA
2135022 AAAGCAGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.79, C:0.05, G:0.12, T:0.05
Consensus pattern (20 bp):
AAAGAAAAAGCAAAAAAGAA
Found at i:2135133 original size:11 final size:11
Alignment explanation
Indices: 2135117--2135152 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
2135107 AATCGGCACG
2135117 AAAGAGAAGAA
1 AAAGAGAAGAA
2135128 AAAGAG-AGAA
1 AAAGAGAAGAA
2135138 AGAAGAGAAGAA
1 A-AAGAGAAGAA
2135150 AAA
1 AAA
2135153 AGGAAAGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 5 0.22
11 13 0.57
12 5 0.22
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (11 bp):
AAAGAGAAGAA
Found at i:2135143 original size:22 final size:20
Alignment explanation
Indices: 2135118--2135159 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 20
2135108 ATCGGCACGA
2135118 AAGAGAAGAAAAAGAGAGAAAG
1 AAGAGAAGAAAAA-AG-GAAAG
2135140 AAGAGAAGAAAAAAGGAAAG
1 AAGAGAAGAAAAAAGGAAAG
2135160 GAGAAAAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.25
21 2 0.10
22 13 0.65
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (20 bp):
AAGAGAAGAAAAAAGGAAAG
Found at i:2135282 original size:10 final size:10
Alignment explanation
Indices: 2135261--2135360 Score: 112
Period size: 10 Copynumber: 9.5 Consensus size: 10
2135251 GGTTGAAGGA
2135261 AAAAGAGAAAG
1 AAAA-AGAAAG
*
2135272 AAAACGAAAG
1 AAAAAGAAAG
2135282 AAAAAGAAAG
1 AAAAAGAAAG
2135292 AAAGAAAGAAAG
1 -AA-AAAGAAAG
*
2135304 AAGAAGAAAAG
1 AAAAAG-AAAG
*
2135315 AGAAAGAAAG
1 AAAAAGAAAG
2135325 AAGAAAAGAAAG
1 -A-AAAAGAAAG
2135337 AAAAAGAAAG
1 AAAAAGAAAG
2135347 AAAAAG-AAG
1 AAAAAGAAAG
2135356 AAAAA
1 AAAAA
2135361 AAGTAATAAA
Statistics
Matches: 78, Mismatches: 6, Indels: 12
0.81 0.06 0.12
Matches are distributed among these distances:
9 8 0.10
10 36 0.46
11 18 0.23
12 16 0.21
ACGTcount: A:0.76, C:0.01, G:0.23, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:2135284 original size:4 final size:4
Alignment explanation
Indices: 2135266--2135363 Score: 77
Period size: 4 Copynumber: 25.5 Consensus size: 4
2135256 AAGGAAAAAG
2135266 AGAA AGAAA ACGAA AG-A A-AA AGAA AGAA AGAA AGAA AG-A AG-A AGAA
1 AGAA AG-AA A-GAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA
* *
2135312 A-AG AGAA AGAA AG-A AGAAA AGAA AG-A A-AA AGAA AGAA AAAGA AGAA
1 AGAA AGAA AGAA AGAA AG-AA AGAA AGAA AGAA AGAA AGAA AGA-A AGAA
*
2135358 AAAA AG
1 AGAA AG
2135364 TAATAAAATA
Statistics
Matches: 77, Mismatches: 6, Indels: 22
0.73 0.06 0.21
Matches are distributed among these distances:
3 19 0.25
4 45 0.58
5 12 0.16
6 1 0.01
ACGTcount: A:0.76, C:0.01, G:0.23, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:2135334 original size:37 final size:35
Alignment explanation
Indices: 2135278--2135363 Score: 106
Period size: 37 Copynumber: 2.4 Consensus size: 35
2135268 AAAGAAAACG
2135278 AAAGAA-AAAGAAAGAAAGAAAGAAAGAAG-AAGAA
1 AAAGAAGAAAGAAAGAAAGAAAGAAA-AAGAAAGAA
2135312 AAGAGAAAGAAAG-AAGAAAAGAAAGAAAAAGAAAGAA
1 AA-AG-AAGAAAGAAAG-AAAGAAAGAAAAAGAAAGAA
*
2135349 AAAGAAGAAAAAAAG
1 AAAGAAGAAAGAAAG
2135364 TAATAAAATA
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
34 2 0.04
35 8 0.18
36 13 0.29
37 22 0.49
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (35 bp):
AAAGAAGAAAGAAAGAAAGAAAGAAAAAGAAAGAA
Found at i:2135363 original size:49 final size:49
Alignment explanation
Indices: 2135260--2135363 Score: 142
Period size: 49 Copynumber: 2.1 Consensus size: 49
2135250 GGGTTGAAGG
*
2135260 AAAAAGAGAAAGAAAACGAAAGAAAAAGAAAGAAAGAAAGAAAGAAGAA
1 AAAAAGAGAAAGAAAAAGAAAGAAAAAGAAAGAAAGAAAGAAAGAAGAA
*
2135309 GAAAAGAGAAAGAAAGAAGAAAAGAAAGAA-AAAGAAAG-AA-AAAGAAGAA
1 AAAAAGAGAAAGAAA-AAG-AAAGAAA-AAGAAAGAAAGAAAGAAAGAAGAA
2135358 AAAAAG
1 AAAAAG
2135364 TAATAAAATA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
49 28 0.57
50 4 0.08
51 15 0.31
52 2 0.04
ACGTcount: A:0.76, C:0.01, G:0.23, T:0.00
Consensus pattern (49 bp):
AAAAAGAGAAAGAAAAAGAAAGAAAAAGAAAGAAAGAAAGAAAGAAGAA
Found at i:2135717 original size:12 final size:12
Alignment explanation
Indices: 2135700--2135739 Score: 57
Period size: 11 Copynumber: 3.5 Consensus size: 12
2135690 AATCTGCAAG
2135700 AAAAAGGAAAAA
1 AAAAAGGAAAAA
2135712 AAAAAGG-AAAA
1 AAAAAGGAAAAA
*
2135723 AAAGA-GAAAAA
1 AAAAAGGAAAAA
2135734 AAAAAG
1 AAAAAG
2135740 AGCCCGAGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 1 0.04
11 16 0.67
12 7 0.29
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAAGGAAAAA
Found at i:2136943 original size:23 final size:25
Alignment explanation
Indices: 2136911--2136956 Score: 78
Period size: 23 Copynumber: 1.9 Consensus size: 25
2136901 TCATGTGAAA
2136911 ATATACTCATTCAGCTT-TAATTTC
1 ATATACTCATTCAGCTTCTAATTTC
2136935 ATAT-CTCATTCAGCTTCTAATT
1 ATATACTCATTCAGCTTCTAATT
2136957 CAACTTCTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.28, C:0.22, G:0.04, T:0.46
Consensus pattern (25 bp):
ATATACTCATTCAGCTTCTAATTTC
Found at i:2137666 original size:46 final size:46
Alignment explanation
Indices: 2137588--2137726 Score: 206
Period size: 46 Copynumber: 3.0 Consensus size: 46
2137578 ACAAGGCTAT
* * *
2137588 AACTTAGTATGGTTTTCTTCACGGAAATACCATACGTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
** *
2137634 AACTCAGTATGGTTTTAATCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
* *
2137680 AACTCAGTATGGTTTTCTTCACTGAAATACCATACTTACGTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
2137726 A
1 A
2137727 CTTAACCATG
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 82 1.00
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
Found at i:2143627 original size:74 final size:78
Alignment explanation
Indices: 2143521--2143737 Score: 289
Period size: 74 Copynumber: 2.8 Consensus size: 78
2143511 TATACTTTTC
* * *
2143521 AAAAATCAACTCATCTTGCGAGAGGTGAGTTGAGCCTTGGGGCACGCTGAGGTAATTTCAATTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGCTGAGGTAATTTCAATTTA
2143586 T-CTT-T-C-AAA
66 TGCTTCTGCTAAA
* *
2143595 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGCTGAGGTAATTTTAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGCTGAGGTAATTTCAATTTA
* ***
2143660 TGTTTCTGCTTTTC
66 TGCTTCTGC-TAAA
* * *
2143674 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGCTGAGGTAATTTCAATTT
2143738 CTGTTCTTTC
Statistics
Matches: 125, Mismatches: 13, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
74 61 0.49
75 2 0.02
76 1 0.01
77 1 0.01
79 60 0.48
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (78 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGCTGAGGTAATTTCAATTTA
TGCTTCTGCTAAA
Found at i:2143706 original size:79 final size:79
Alignment explanation
Indices: 2143515--2143742 Score: 279
Period size: 79 Copynumber: 2.9 Consensus size: 79
2143505 TTAATTTATA
* ** * * *
2143515 CTTTTCAAAAATCAACTCATCTTGCGAGAGGTGAGTTGAGCCTTGGGGCACGCTGAGGTAATTTC
1 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGTATTTTC
* *
2143580 AATTTAT-CTT-T-
66 AATTTCTGTTTCTG
*** * *
2143591 C--AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGCTGAGGTAATTTT
1 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGT-ATTTT
*
2143654 -AATTTTTGTTTCTG
65 CAATTTCTGTTTCTG
2143668 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGTATTTTC
1 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGTATTTTC
2143733 AATTTCTGTT
66 AATTTCTGTT
2143743 CTTTCAATTT
Statistics
Matches: 130, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
74 56 0.43
75 6 0.05
76 2 0.02
77 1 0.01
78 5 0.04
79 60 0.46
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.33
Consensus pattern (79 bp):
CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGTATTTTC
AATTTCTGTTTCTG
Found at i:2143749 original size:15 final size:15
Alignment explanation
Indices: 2143729--2143757 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2143719 GCTGAAGTAT
2143729 TTTCAATTTCTGTTC
1 TTTCAATTTCTGTTC
2143744 TTTCAATTTCTGTT
1 TTTCAATTTCTGTT
2143758 TTAATTCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.17, G:0.07, T:0.62
Consensus pattern (15 bp):
TTTCAATTTCTGTTC
Found at i:2143881 original size:79 final size:79
Alignment explanation
Indices: 2143768--2143920 Score: 243
Period size: 79 Copynumber: 1.9 Consensus size: 79
2143758 TTAATTCATG
* * *
2143768 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
1 TTTTCAAAAATCAACTCATATTGCGAAAGATGAGTTGAGCCTCAAGACACGCTGAAGTAATTTCA
2143833 ATTTCTGTTTCTAC
66 ATTTCTGTTTCTAC
* * *
2143847 TTTTCAAAAATCAACTCATATTGCGAAAGATGAGTTGAGCCTCAGGACACGCTGAAGTATTTTGA
1 TTTTCAAAAATCAACTCATATTGCGAAAGATGAGTTGAGCCTCAAGACACGCTGAAGTAATTTCA
*
2143912 ATTTTTGTT
66 ATTTCTGTT
2143921 CTTCCAATTT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 67 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (79 bp):
TTTTCAAAAATCAACTCATATTGCGAAAGATGAGTTGAGCCTCAAGACACGCTGAAGTAATTTCA
ATTTCTGTTTCTAC
Done.