Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold332
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: 2744988
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 17
Found at i:2030156 original size:21 final size:20
Alignment explanation
Indices: 2030110--2030164 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
2030100 ACATGCTGCC
**
2030110 TTGTATCGATACATGTTCAA
1 TTGTATCGATACATGGACAA
2030130 -TGTATCGATACATGGACAAA
1 TTGTATCGATACATGGAC-AA
*
2030150 TTGTATCGAGACATG
1 TTGTATCGATACATG
2030165 AAATTGGCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 15 0.50
20 2 0.07
21 13 0.43
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.33
Consensus pattern (20 bp):
TTGTATCGATACATGGACAA
Found at i:2031996 original size:13 final size:13
Alignment explanation
Indices: 2031978--2032004 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2031968 ACATTATGCT
2031978 TTGTATCAATACA
1 TTGTATCAATACA
2031991 TTGTATCAATACA
1 TTGTATCAATACA
2032004 T
1 T
2032005 GATCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (13 bp):
TTGTATCAATACA
Found at i:2032013 original size:19 final size:18
Alignment explanation
Indices: 2031988--2032050 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 18
2031978 TTGTATCAAT
*
2031988 ACATTGTATCAATACATG
1 ACATTGTATCGATACATG
2032006 ATCATTGTATCGATACATG
1 A-CATTGTATCGATACATG
2032025 CACAATTGTATCGATACATG
1 -AC-ATTGTATCGATACATG
*
2032045 AAATTG
1 ACATTG
2032051 GCAGTAGCTA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
18 5 0.12
19 18 0.45
20 17 0.43
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (18 bp):
ACATTGTATCGATACATG
Found at i:2043881 original size:1 final size:1
Alignment explanation
Indices: 2043871--2043928 Score: 53
Period size: 1 Copynumber: 58.0 Consensus size: 1
2043861 TGGCAATTGG
* * * ** * *
2043871 AAAAAGAAAAAAACAAAACAAAAAAAAGGAAAAAGAAAAAAAAAAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2043929 GTGAAGATTT
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.88, C:0.05, G:0.07, T:0.00
Consensus pattern (1 bp):
A
Found at i:2043901 original size:29 final size:29
Alignment explanation
Indices: 2043869--2043926 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
2043859 CATGGCAATT
*
2043869 GGAAAAAGAAAAAAACAAAACAAAAAAAA
1 GGAAAAAGAAAAAAAAAAAACAAAAAAAA
2043898 GGAAAAAGAAAAAAAAAAAACAAAAAAAA
1 GGAAAAAGAAAAAAAAAAAACAAAAAAAA
2043927 AAGTGAAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.84, C:0.05, G:0.10, T:0.00
Consensus pattern (29 bp):
GGAAAAAGAAAAAAAAAAAACAAAAAAAA
Found at i:2043903 original size:21 final size:20
Alignment explanation
Indices: 2043879--2043917 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
2043869 GGAAAAAGAA
2043879 AAAAACAAAACAAAAAAAAGG
1 AAAAACAAAA-AAAAAAAAGG
*
2043900 AAAAAGAAAAAAAAAAAA
1 AAAAACAAAAAAAAAAAA
2043918 CAAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.87, C:0.05, G:0.08, T:0.00
Consensus pattern (20 bp):
AAAAACAAAAAAAAAAAAGG
Found at i:2051167 original size:13 final size:13
Alignment explanation
Indices: 2051149--2051175 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2051139 ACATTATGCT
2051149 TTGTATCGATACA
1 TTGTATCGATACA
2051162 TTGTATCGATACA
1 TTGTATCGATACA
2051175 T
1 T
2051176 GATCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2051173 original size:33 final size:32
Alignment explanation
Indices: 2051131--2051194 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
2051121 ACATCCAGAA
* *
2051131 GTATCGATACATTATGCTTTGTATCGATACATT
1 GTATCGATACATGAT-CATTGTATCGATACATT
2051164 GTATCGATACATGATCATTGTATCGATACAT
1 GTATCGATACATGATCATTGTATCGATACAT
2051195 GCACAATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (32 bp):
GTATCGATACATGATCATTGTATCGATACATT
Found at i:2051184 original size:19 final size:18
Alignment explanation
Indices: 2051159--2051216 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 18
2051149 TTGTATCGAT
2051159 ACATTGTATCGATACATG
1 ACATTGTATCGATACATG
2051177 ATCATTGTATCGATACATG
1 A-CATTGTATCGATACATG
*
2051196 CACAATTATATCGATACATG
1 -AC-ATTGTATCGATACATG
2051216 A
1 A
2051217 AACTAGCAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.53
20 16 0.44
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (18 bp):
ACATTGTATCGATACATG
Found at i:2051303 original size:20 final size:20
Alignment explanation
Indices: 2051274--2051330 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
2051264 TTATATCAAT
*
2051274 ACAA-TGTATCGATACGTGA
1 ACAATTGTATCGATACATGA
*
2051293 ACAATTGTATCGATACATTA
1 ACAATTGTATCGATACATGA
**
2051313 TGAATTGTATCGATACAT
1 ACAATTGTATCGATACAT
2051331 AGCAATGGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (20 bp):
ACAATTGTATCGATACATGA
Found at i:2052010 original size:14 final size:14
Alignment explanation
Indices: 2051991--2052017 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2051981 TTCCTTGAGT
2051991 TTACATTAACTATG
1 TTACATTAACTATG
2052005 TTACATTAACTAT
1 TTACATTAACTAT
2052018 AGAATGGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.04, T:0.44
Consensus pattern (14 bp):
TTACATTAACTATG
Found at i:2053075 original size:20 final size:21
Alignment explanation
Indices: 2053050--2053096 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
2053040 GTCTAATATT
*
2053050 GATACATTCACTT-ATGTATC
1 GATACATTAACTTGATGTATC
*
2053070 GATACATTAACTTGTTGTATC
1 GATACATTAACTTGATGTATC
2053091 GATACA
1 GATACA
2053097 AATTGTAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (21 bp):
GATACATTAACTTGATGTATC
Found at i:2056363 original size:13 final size:13
Alignment explanation
Indices: 2056345--2056370 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2056335 ACAATTCTTC
2056345 ATGTATCGATACA
1 ATGTATCGATACA
2056358 ATGTATCGATACA
1 ATGTATCGATACA
2056371 TTGTCCTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2056364 original size:33 final size:33
Alignment explanation
Indices: 2056322--2056390 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
2056312 GCCGTTGGGC
*
2056322 ACAATGTATCGATACAATTCTTC-ATGTATCGAT
1 ACAATGTATCGATAC-ATTCTCCTATGTATCGAT
*
2056355 ACAATGTATCGATACATTGTCCTATGTATCGAT
1 ACAATGTATCGATACATTCTCCTATGTATCGAT
2056388 ACA
1 ACA
2056391 TTTCACTTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 5 0.15
33 28 0.85
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (33 bp):
ACAATGTATCGATACATTCTCCTATGTATCGAT
Found at i:2056445 original size:20 final size:19
Alignment explanation
Indices: 2056419--2056472 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
2056409 CTGCCAGTTT
**
2056419 CATGTATTGATACAATTGGG
1 CATGTATTGATACAA-TGAA
* * *
2056439 TATGTATCGATAGAATGAA
1 CATGTATTGATACAATGAA
2056458 CATGTATTGATACAA
1 CATGTATTGATACAA
2056473 GGCATAATAT
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.33
Consensus pattern (19 bp):
CATGTATTGATACAATGAA
Found at i:2061347 original size:73 final size:73
Alignment explanation
Indices: 2061228--2061368 Score: 221
Period size: 73 Copynumber: 1.9 Consensus size: 73
2061218 TACATGCATT
*
2061228 TGAAATTATAGCCGTTGAGCTTAATGTATAGTGATGAACAGTGATGTA-TCGATACATGAACAAT
1 TGAAATTATAGCCGTTGAGCTCAATGTATAGTGATGAACAGTGATGTACT-GATACATGAACAAT
2061292 GATGAATAG
65 GATGAATAG
* * * *
2061301 TGAAATTATAGCCGTTGGGCTCAATTTATAGTGATGAATAGTGATGTACTGATACATGAACAGTG
1 TGAAATTATAGCCGTTGAGCTCAATGTATAGTGATGAACAGTGATGTACTGATACATGAACAATG
2061366 ATG
66 ATG
2061369 TATCGATACT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
73 61 0.98
74 1 0.02
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (73 bp):
TGAAATTATAGCCGTTGAGCTCAATGTATAGTGATGAACAGTGATGTACTGATACATGAACAATG
ATGAATAG
Found at i:2061365 original size:22 final size:22
Alignment explanation
Indices: 2061334--2061393 Score: 86
Period size: 22 Copynumber: 2.7 Consensus size: 22
2061324 ATTTATAGTG
*
2061334 ATGAATAGTGATGTA-CTGATAC
1 ATGAACAGTGATGTATC-GATAC
2061356 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
*
2061378 TTGAACAGTGATGTAT
1 ATGAACAGTGATGTAT
2061394 AGTGATGAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 34 0.97
23 1 0.03
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.32
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:2065625 original size:34 final size:35
Alignment explanation
Indices: 2065562--2065628 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 35
2065552 CTAAGTGATT
2065562 GAGAGGTTTTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTTTATCTTAGCCTTTG-AAAAGATAGAGA
2065598 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGGTTT-TATCTTAGCCTTTGAAAAGATAG
2065629 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 12 0.40
37 10 0.33
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.31
Consensus pattern (35 bp):
GAGAGGTTTTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:2072139 original size:19 final size:19
Alignment explanation
Indices: 2072115--2072175 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
2072105 AGCGATACAT
2072115 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
*
2072134 TGTATC-A-A-TACA--T-
1 TGTATCGATACAACACTTA
2072147 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
2072166 TGTATCGATA
1 TGTATCGATA
2072176 TAGTTACTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
13 6 0.18
14 2 0.06
15 1 0.03
16 6 0.18
17 1 0.03
18 2 0.06
19 16 0.47
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:2072150 original size:32 final size:32
Alignment explanation
Indices: 2072109--2072171 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
2072099 CTTTGTAGCG
2072109 ATACATTGTATCGATACAACACTTATGTATCA
1 ATACATTGTATCGATACAACACTTATGTATCA
2072141 ATACATTGTATCGATACAACACTTATGTATC
1 ATACATTGTATCGATACAACACTTATGTATC
2072172 GATATAGTTA
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:0.19, G:0.10, T:0.35
Consensus pattern (32 bp):
ATACATTGTATCGATACAACACTTATGTATCA
Found at i:2072521 original size:13 final size:13
Alignment explanation
Indices: 2072503--2072529 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2072493 GGAGTCTACA
2072503 GTATCGATACATT
1 GTATCGATACATT
2072516 GTATCGATACATT
1 GTATCGATACATT
2072529 G
1 G
2072530 CTTCTAACAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.37
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:2078161 original size:16 final size:16
Alignment explanation
Indices: 2078142--2078177 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
2078132 TAAAGACGTT
2078142 ACATATTTTTTTGAAA
1 ACATATTTTTTTGAAA
2078158 ACATATTTTTTTGAAA
1 ACATATTTTTTTGAAA
2078174 ACAT
1 ACAT
2078178 TGAGTAGGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (16 bp):
ACATATTTTTTTGAAA
Found at i:2079508 original size:19 final size:20
Alignment explanation
Indices: 2079486--2079533 Score: 89
Period size: 19 Copynumber: 2.5 Consensus size: 20
2079476 CGATACAATG
2079486 TATCGATACATGCTC-ATTA
1 TATCGATACATGCTCAATTA
2079505 TATCGATACATGCTCAATTA
1 TATCGATACATGCTCAATTA
2079525 TATCGATAC
1 TATCGATAC
2079534 GTGAAATTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.35
Consensus pattern (20 bp):
TATCGATACATGCTCAATTA
Found at i:2079615 original size:20 final size:20
Alignment explanation
Indices: 2079565--2079617 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
2079555 CTAAGTGAAA
*
2079565 TGTATCGATACATGGGACAT
1 TGTATCGATACATGAGACAT
*
2079585 TGTA-CTAATACATGAAGA-AT
1 TGTATC-GATACATG-AGACAT
2079605 TGTATCGATACAT
1 TGTATCGATACAT
2079618 TATGTCCAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 1 0.04
20 23 0.85
21 3 0.11
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATGAGACAT
Found at i:2082924 original size:19 final size:19
Alignment explanation
Indices: 2082900--2082938 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
2082890 GTAATAAAAG
2082900 ATGCCAAAAAGGGTTTACA
1 ATGCCAAAAAGGGTTTACA
2082919 ATGCCAAAAAGGGTTTACA
1 ATGCCAAAAAGGGTTTACA
2082938 A
1 A
2082939 CCCTCTATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.21
Consensus pattern (19 bp):
ATGCCAAAAAGGGTTTACA
Found at i:2083961 original size:43 final size:43
Alignment explanation
Indices: 2083913--2083996 Score: 159
Period size: 43 Copynumber: 2.0 Consensus size: 43
2083903 GGACTTTACA
*
2083913 TGCAAAAAGACAATATTCTAAGGTAAGTAGTCTAAATAGATGT
1 TGCAAAAAGACAACATTCTAAGGTAAGTAGTCTAAATAGATGT
2083956 TGCAAAAAGACAACATTCTAAGGTAAGTAGTCTAAATAGAT
1 TGCAAAAAGACAACATTCTAAGGTAAGTAGTCTAAATAGAT
2083997 AGTCCGTAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.26
Consensus pattern (43 bp):
TGCAAAAAGACAACATTCTAAGGTAAGTAGTCTAAATAGATGT
Found at i:2089408 original size:6 final size:6
Alignment explanation
Indices: 2089397--2089423 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2089387 ACTTATTATA
2089397 TTTGCT TTTGCT TTTGCT TTTGCT TTT
1 TTTGCT TTTGCT TTTGCT TTTGCT TTT
2089424 CATTTATCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.15, T:0.70
Consensus pattern (6 bp):
TTTGCT
Found at i:2100933 original size:21 final size:21
Alignment explanation
Indices: 2100909--2100973 Score: 107
Period size: 21 Copynumber: 3.2 Consensus size: 21
2100899 ACTCCAACCA
*
2100909 CCACACTAGAAATATATGTTT
1 CCACACTAGAAGTATATGTTT
2100930 -C-CACTAGAAGTATATGTTT
1 CCACACTAGAAGTATATGTTT
2100949 CCACACTAGAAGTATATGTTT
1 CCACACTAGAAGTATATGTTT
2100970 CCAC
1 CCAC
2100974 TATAAACCTA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 17 0.41
20 2 0.05
21 22 0.54
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.32
Consensus pattern (21 bp):
CCACACTAGAAGTATATGTTT
Found at i:2100936 original size:19 final size:19
Alignment explanation
Indices: 2100912--2100975 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
2100902 CCAACCACCA
*
2100912 CACTAGAAATATATGTTTC
1 CACTAGAAGTATATGTTTC
2100931 CACTAGAAGTATATGTTTCC
1 CACTAGAAGTATATGTTT-C
2100951 ACACTAGAAGTATATGTTTC
1 -CACTAGAAGTATATGTTTC
2100971 CACTA
1 CACTA
2100976 TAAACCTAGA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 22 0.52
20 2 0.05
21 18 0.43
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (19 bp):
CACTAGAAGTATATGTTTC
Found at i:2102031 original size:34 final size:34
Alignment explanation
Indices: 2101996--2102127 Score: 185
Period size: 34 Copynumber: 3.9 Consensus size: 34
2101986 GTGAAGCATG
* *
2101996 TTAGGTGTGTTAGGTGATGTATTTGGTGAGAATG
1 TTAGGTGTGTTAGGTAATGTATTTGGTGAGAATA
*
2102030 TTAGGTGTGTTAGGTGATGTATTTGGTGAGAATA
1 TTAGGTGTGTTAGGTAATGTATTTGGTGAGAATA
* *
2102064 TTAGATGTGTTAGGTAATGTATTTGCG-GAAAATA
1 TTAGGTGTGTTAGGTAATGTATTTG-GTGAGAATA
* *
2102098 TTAGGTGTGTTAGGTAATGTGTTAGGTGAG
1 TTAGGTGTGTTAGGTAATGTATTTGGTGAG
2102128 TAAGATATTT
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
33 1 0.01
34 86 0.98
35 1 0.01
ACGTcount: A:0.24, C:0.01, G:0.35, T:0.40
Consensus pattern (34 bp):
TTAGGTGTGTTAGGTAATGTATTTGGTGAGAATA
Found at i:2106880 original size:34 final size:34
Alignment explanation
Indices: 2106845--2106963 Score: 168
Period size: 34 Copynumber: 3.5 Consensus size: 34
2106835 GTGAAGCATG
*
2106845 TTAGGTGTGTTAGGTGATGTATTTGGTGAGAATG
1 TTAGGTGTGTTAGGTGATGTATTTGGTGAGAATA
*
2106879 TTAGGTGTGTTAGGTGATGTATTTGGTGAGGATA
1 TTAGGTGTGTTAGGTGATGTATTTGGTGAGAATA
* * * *
2106913 TTAGATGTATTAGGTAATGTATTTGG-GGGAAATA
1 TTAGGTGTGTTAGGTGATGTATTTGGTGAG-AATA
2106947 TTAGGTGTGTTAGGTGA
1 TTAGGTGTGTTAGGTGA
2106964 GTAAGATATT
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
33 2 0.03
34 72 0.97
ACGTcount: A:0.24, C:0.00, G:0.36, T:0.40
Consensus pattern (34 bp):
TTAGGTGTGTTAGGTGATGTATTTGGTGAGAATA
Found at i:2110445 original size:41 final size:41
Alignment explanation
Indices: 2110388--2110469 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
2110378 AACTTAGTAA
2110388 GATCACATTTAACCTCTATGGTCTAAGTTAAAACAAAAACC
1 GATCACATTTAACCTCTATGGTCTAAGTTAAAACAAAAACC
2110429 GATCACATTTAACCTCTATGGTCTAAGTTAAAACAAAAACC
1 GATCACATTTAACCTCTATGGTCTAAGTTAAAACAAAAACC
2110470 ACAATTAACC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (41 bp):
GATCACATTTAACCTCTATGGTCTAAGTTAAAACAAAAACC
Found at i:2115156 original size:13 final size:13
Alignment explanation
Indices: 2115138--2115163 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2115128 ACATTTTGGG
2115138 ATGTATCGATACA
1 ATGTATCGATACA
2115151 ATGTATCGATACA
1 ATGTATCGATACA
2115164 TATTATGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2115158 original size:33 final size:32
Alignment explanation
Indices: 2115116--2115183 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
2115106 CGTTACAAGC
* *
2115116 CAATGTATCGATACATTTTGGGATGTATCGATA
1 CAATGTATCGATACATATTAGG-TGTATCGATA
*
2115149 CAATGTATCGATACATATTATGTGTATCGATA
1 CAATGTATCGATACATATTAGGTGTATCGATA
2115181 CAA
1 CAA
2115184 ACAGTTAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATATTAGGTGTATCGATA
Found at i:2115271 original size:20 final size:21
Alignment explanation
Indices: 2115224--2115276 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
2115214 GCAAATGACC
*
2115224 TGTATCGATACATTATTTACA
1 TGTATCGATACATTATGTACA
*
2115245 AGTATCGATACATT-TGGT-CA
1 TGTATCGATACATTAT-GTACA
2115265 TGTATCGATACA
1 TGTATCGATACA
2115277 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTATGTACA
Found at i:2115282 original size:13 final size:13
Alignment explanation
Indices: 2115264--2115288 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2115254 ACATTTGGTC
2115264 ATGTATCGATACA
1 ATGTATCGATACA
2115277 ATGTATCGATAC
1 ATGTATCGATAC
2115289 TGTGCAATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2115870 original size:22 final size:22
Alignment explanation
Indices: 2115843--2115887 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
2115833 TTTTCTTTTC
2115843 TCTCCCCCTTAATCAAAA-AATT
1 TCTCCCCCTTAAT-AAAATAATT
2115865 TCTCCCCCTTAATAAAATAATT
1 TCTCCCCCTTAATAAAATAATT
2115887 T
1 T
2115888 AACAATTTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.36, C:0.29, G:0.00, T:0.36
Consensus pattern (22 bp):
TCTCCCCCTTAATAAAATAATT
Found at i:2117291 original size:21 final size:21
Alignment explanation
Indices: 2117260--2117311 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 21
2117250 GCTGCTAGTG
*
2117260 TGGGGGCTGCCCGGTTGCGACT
1 TGGGGG-TGCCCGGTCGCGACT
2117282 TGGGGGTG-CCGGTCGCGACT
1 TGGGGGTGCCCGGTCGCGACT
2117302 TGGTGGGTGC
1 TGG-GGGTGC
2117312 TACCTAAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 14 0.52
21 7 0.26
22 6 0.22
ACGTcount: A:0.04, C:0.23, G:0.50, T:0.23
Consensus pattern (21 bp):
TGGGGGTGCCCGGTCGCGACT
Found at i:2117762 original size:12 final size:12
Alignment explanation
Indices: 2117745--2117781 Score: 65
Period size: 12 Copynumber: 3.0 Consensus size: 12
2117735 ATAAGCCCTT
2117745 TGTATCGATACA
1 TGTATCGATACA
2117757 TGTATCGATACAA
1 TGTATCGATAC-A
2117770 TGTATCGATACA
1 TGTATCGATACA
2117782 GAGAATGCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (12 bp):
TGTATCGATACA
Found at i:2117774 original size:13 final size:13
Alignment explanation
Indices: 2117745--2117781 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
2117735 ATAAGCCCTT
2117745 TGTATCGATAC-A
1 TGTATCGATACAA
2117757 TGTATCGATACAA
1 TGTATCGATACAA
2117770 TGTATCGATACA
1 TGTATCGATACA
2117782 GAGAATGCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2117997 original size:8 final size:8
Alignment explanation
Indices: 2117984--2118009 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
2117974 AACATCATTC
2117984 ATCACAAA
1 ATCACAAA
2117992 ATCACAAA
1 ATCACAAA
2118000 ATCACAAA
1 ATCACAAA
2118008 AT
1 AT
2118010 TTAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (8 bp):
ATCACAAA
Found at i:2120357 original size:13 final size:13
Alignment explanation
Indices: 2120339--2120363 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2120329 CATAAAATGT
2120339 TGTATCGATACAA
1 TGTATCGATACAA
2120352 TGTATCGATACA
1 TGTATCGATACA
2120364 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2120445 original size:13 final size:13
Alignment explanation
Indices: 2120427--2120451 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2120417 ATTACTCAAA
2120427 TGTATCGATACAT
1 TGTATCGATACAT
2120440 TGTATCGATACA
1 TGTATCGATACA
2120452 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2120553 original size:52 final size:52
Alignment explanation
Indices: 2120460--2120583 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
2120450 CACTGATCTT
*
2120460 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
2120511 TGTATCAATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2120563 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
2120584 CTTTTCATAT
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
51 18 0.27
52 49 0.73
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2123841 original size:21 final size:21
Alignment explanation
Indices: 2123816--2123858 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
2123806 CATGTCAGGA
2123816 GCATCTCGTCATGCAATGAAT
1 GCATCTCGTCATGCAATGAAT
2123837 GCATCTCGTCATGCAATGAAT
1 GCATCTCGTCATGCAATGAAT
2123858 G
1 G
2123859 TCATTTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (21 bp):
GCATCTCGTCATGCAATGAAT
Found at i:2128797 original size:31 final size:31
Alignment explanation
Indices: 2128759--2128934 Score: 171
Period size: 31 Copynumber: 5.7 Consensus size: 31
2128749 ATACCTTTTT
*
2128759 AAAGTCCACGACTAAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
*
2128790 AAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
* * * *
2128821 AAAGTCCGCCACTCAGTGGC-ATCCTTTTCTTT
1 AAAGTCCACGACTCAGTGGCAAT-CTCTTC-TC
*
2128853 AAAGTCCACGACTCAGTGGC-AT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCT-TCTC
* * *
2128883 AAAGTCCACGACTTAGTGGC-ATTTTTTCTTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTC-TC
* * *
2128914 AAAGCCCACAACTCTGTGGCA
1 AAAGTCCACGACTCAGTGGCA
2128935 CCTTTTCCTT
Statistics
Matches: 124, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
30 29 0.23
31 74 0.60
32 21 0.17
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCAATCTCTTCTC
Found at i:2128901 original size:93 final size:93
Alignment explanation
Indices: 2128756--2129041 Score: 254
Period size: 93 Copynumber: 3.0 Consensus size: 93
2128746 CAAATACCTT
*
2128756 TTTAAAGTCCACGACTAAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTCTGC-T
1 TTTAAAGTCCACGACTCAGTGGC-ATCTCTTCTCAAAGTCCACGACTCAGTGGC-ATCTCTGCTT
* * *
2128820 CAAAGTCCGCCACTCAGTGGCATCCTTTT-C
64 CAAAGCCCACAACTCAGTGGCA-CCTTTTCC
* * * * *
2128850 TTTAAAGTCCACGACTCAGTGGCAT-TTTGTCTCAAAGTCCACGACTTAGTGGCATTTTTTCTTC
1 TTTAAAGTCCACGACTCAGTGGCATCTCT-TCTCAAAGTCCACGACTCAGTGGCATCTCTGCTTC
*
2128914 AAAGCCCACAACTCTGTGGCACCTTTTCC
65 AAAGCCCACAACTCAGTGGCACCTTTTCC
* * * * * * * * *
2128943 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCACCTTCTT
1 TTTAAAGTCCACGACTCAGTGGCA---TC-TCTTCTCAAAGTCCACGACTCAGTGGCATC-TCTG
* *
2129008 CTTTTCAAAGCCCACGACTCCGTGGCACTCTTTT
61 C--TTCAAAGCCCACAACTCAGTGGCAC-CTTTT
2129042 TAAAGCCCAC
Statistics
Matches: 156, Mismatches: 24, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
92 13 0.08
93 66 0.42
94 22 0.14
96 1 0.01
97 20 0.13
98 6 0.04
100 23 0.15
101 5 0.03
ACGTcount: A:0.22, C:0.32, G:0.15, T:0.30
Consensus pattern (93 bp):
TTTAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACTCAGTGGCATCTCTGCTTCA
AAGCCCACAACTCAGTGGCACCTTTTCC
Found at i:2128989 original size:34 final size:33
Alignment explanation
Indices: 2128914--2130586 Score: 832
Period size: 34 Copynumber: 50.6 Consensus size: 33
2128904 TTTTTTCTTC
* *
2128914 AAAGCCCACAACTCTGTGGCACCTT-TTCCTTT
1 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
2128946 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
2128979 CAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
*
2129013 CAAAGCCCACGACTCCGTGGCA-C-TC-T-TTTT
1 -AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
*
2129043 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
* *
2129076 AAAGCCCACAACTCTGTGGCACTCTTTTTTCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-C-TTCTT-CTTTT
*
2129112 CAAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
* * **
2129146 AAAGCCCACAACTCTGTGGCACCTACAAC-TTT
1 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
* * ** ** *
2129178 -ATG---GC-ACTCTTTTTC-CCTT-TTC---A
1 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
** * * * * * *
2129201 AAGCCCACA-ACTC-CGTG-GCAC-CTTTTTCT-TTTA
1 AAAGCC-CACA-ACTC-CGTG-GCACCTTCT-TCTTTT
** * * * * * *
2129234 AAGCCCAAAACTC-CGTG-GCAC-CTTCTTC-T-TTTC
1 AAAGCCCACA-ACTC-CGTG-GCAC--CTTCTTCTTTT
* *
2129267 AAAGACCACGACTCCGTGGCA-C-TC-T-TTTT
1 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
2129296 AAAGCCCACAACTCCGTGGCACCTTCTTCCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTCTT-CTTTT
* *
2129330 AAAGCCCACAACTCTGTGGCACTCTTTTTTTCCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-C--TTCTT-C-TTTT
*
2129368 GAAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
2129402 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
1 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
*
2129435 CAAAGCCCACGACTCCGTGGCA-C-TC-T-TTTT
1 -AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
*
2129465 AAAGCCCACAACTCCGTGGCACCTTTTTTCTTTT
1 AAAGCCCACAACTCCGTGGCACC-TTCTTCTTTT
* *
2129499 AAAGCCCACAACTCTGTGGCACTCTTTTTTCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-C-TTCTT-CTTTT
*
2129535 CAAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
* *
2129569 AAAGCCCACAACTCTGTGGCACC--C-AC----
1 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
** ** ** ** *
2129595 AACTCCGTGGC-ACTCTTTTTC-CCTT-TTC---A
1 AAAGCC--CACAACTCCGTGGCACCTTCTTCTTTT
** * * * * * *
2129624 AAGCCCACA-ACTC-CGTG-GCAC-CTTTTTCT-TTTA
1 AAAGCC-CACA-ACTC-CGTG-GCACCTTCT-TCTTTT
** ** * *** ** *
2129657 AAGCCCACAACTCCGT-GGCACCTTCTTC-T-TTTC
1 AAAGCC-C-ACAAC-TCCGTGGCACCTTCTTCTTTT
*
2129690 AAAGCCCACGACTCCGTGGCA-C-TC-T-TTTT
1 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
2129719 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTCTTC-TTTT
*
2129753 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTCTT--CTTTT
* *
2129789 CAAAGCCCACAACTCTGTGGCACCTTTTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
* *
2129823 AAAGCCCACAACTCCATGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTCTT--CTTTT
* * * * **
2129859 -AAGTCCACAATTCCGTGGCATCTTTTTCCCTTCCC
1 AAAGCCCACAACTCCGTGGCACCTTCTT--CTT-TT
* * * *
2129894 AAAGCCCACACAAGTCGGTGGCAAC-TCTTC--TC
1 AAAG-CC-CACAACTCCGTGGCACCTTCTTCTTTT
*
2129926 AAAGCCCACGACTCCGTGGCA-C-TC-T-TTTT
1 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
2129955 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTCTTC-TTTT
*
2129989 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTCTT--CTTTT
* *
2130025 CAAAGCCCACAACTCTGTGGCACCTTTTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
*
2130059 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTCTT--CTTTT
* * * * * **
2130095 -AAGTCCACAATTCTGTGGCATCTTTTTTCCTTCCC
1 AAAGCCCACAACTCCGTGGCA-CCTTCTT-CTT-TT
* * * *
2130130 AAAGCCCACACAAGTCGGTGGCAAC-TCTTC--TC
1 AAAG-CC-CACAACTCCGTGGCACCTTCTTCTTTT
*
2130162 AAAGCCCACGACTCCGTGGCA-C-TC-T-TTTT
1 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
2130191 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTCTTC-TTTT
*
2130225 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTCTT--CTTTT
* *
2130261 CAAAGCCCACAACTCTGTGGCACCTTTTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
*
2130295 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTCTT--CTTTT
* * * * **
2130331 -AAGTCCACAATTCCGTGGCATCTTTTTCCCTTCCC
1 AAAGCCCACAACTCCGTGGCACCTTCTT--CTT-TT
* * * *
2130366 AAAGCCCACACAAGTCGGTGGCAAC-TCTTC--TC
1 AAAG-CC-CACAACTCCGTGGCACCTTCTTCTTTT
*
2130398 AAAGCCCACGACTCCGTGGCA-C-TC-T-TTTT
1 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
2130427 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTCTTC-TTTT
*
2130461 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTCTT--CTTTT
* *
2130497 CAAAGCCCACAACTCTGTGGCACCTTTTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
*
2130531 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTCTT--CTTTT
* *
2130567 -AAGTCCACAATTCCGTGGCA
1 AAAGCCCACAACTCCGTGGCA
2130587 TCTTTTTCCC
Statistics
Matches: 1342, Mismatches: 161, Indels: 273
0.76 0.09 0.15
Matches are distributed among these distances:
24 1 0.00
25 1 0.00
26 9 0.01
27 14 0.01
28 8 0.01
29 179 0.13
30 57 0.04
31 28 0.02
32 58 0.04
33 242 0.18
34 317 0.24
35 126 0.09
36 90 0.07
37 145 0.11
38 46 0.03
39 21 0.02
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.32
Consensus pattern (33 bp):
AAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
Found at i:2129229 original size:87 final size:87
Alignment explanation
Indices: 2129083--2129351 Score: 304
Period size: 87 Copynumber: 3.0 Consensus size: 87
2129073 TTTAAAGCCC
* * *
2129083 ACAACTCTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAA
1 ACAACTTTATGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAA
2129148 AGCCCACAACTCTGTGGCACCT
66 AGCCCACAACTCTGTGGCACCT
2129170 ACAACTTTATGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAA
1 ACAACTTTATGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAA
* *
2129235 AGCCCAAAACTCCGTGGCACCT
66 AGCCCACAACTCTGTGGCACCT
* ** * * ** ** *
2129257 TCTTCTTTTCAAAGACCACGACTCCGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCACCTTC
1 ACAAC-TTT--ATG---GC-ACTCTTTTTC-C-CTTTTCAAAGCCCACAACTCCGTGGCACCTT-
*
2129322 TTCCTTTTAAAGCCCACAACTCTGTGGCAC
56 TTTCTTTTAAAGCCCACAACTCTGTGGCAC
2129352 TCTTTTTTTC
Statistics
Matches: 154, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
87 84 0.55
88 3 0.02
90 2 0.01
93 1 0.01
94 6 0.04
95 1 0.01
96 30 0.19
97 27 0.18
ACGTcount: A:0.22, C:0.34, G:0.13, T:0.32
Consensus pattern (87 bp):
ACAACTTTATGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAA
AGCCCACAACTCTGTGGCACCT
Found at i:2129595 original size:17 final size:17
Alignment explanation
Indices: 2129573--2129607 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
2129563 TCTTTTAAAG
*
2129573 CCCACAACTCTGTGGCA
1 CCCACAACTCCGTGGCA
2129590 CCCACAACTCCGTGGCA
1 CCCACAACTCCGTGGCA
2129607 C
1 C
2129608 TCTTTTTCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.46, G:0.17, T:0.14
Consensus pattern (17 bp):
CCCACAACTCCGTGGCA
Found at i:2129642 original size:54 final size:50
Alignment explanation
Indices: 2129540--2129645 Score: 167
Period size: 54 Copynumber: 2.0 Consensus size: 50
2129530 CTTTTCAAAG
*
2129540 CCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCA
1 CCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCA
2129590 CCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCA
1 CCCACAACTCCGTGGCAC-CTTTTT--CTTTT-AAAGCCCACAACTCCGTGGCA
2129644 CC
1 CC
2129646 TTTTTCTTTT
Statistics
Matches: 51, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
50 18 0.35
51 6 0.12
53 5 0.10
54 22 0.43
ACGTcount: A:0.21, C:0.40, G:0.13, T:0.26
Consensus pattern (50 bp):
CCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCA
Found at i:2129649 original size:87 final size:87
Alignment explanation
Indices: 2129503--2129678 Score: 325
Period size: 87 Copynumber: 2.0 Consensus size: 87
2129493 TCTTTTAAAG
* *
2129503 CCCACAACTCTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
1 CCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
*
2129568 TAAAGCCCACAACTCTGTGGCA
66 TAAAGCCCACAACTCCGTGGCA
2129590 CCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
1 CCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
2129655 TAAAGCCCACAACTCCGTGGCA
66 TAAAGCCCACAACTCCGTGGCA
2129677 CC
1 CC
2129679 TTCTTCTTTT
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 86 1.00
ACGTcount: A:0.20, C:0.37, G:0.12, T:0.30
Consensus pattern (87 bp):
CCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
TAAAGCCCACAACTCCGTGGCA
Found at i:2129975 original size:132 final size:132
Alignment explanation
Indices: 2129178--2130643 Score: 474
Period size: 132 Copynumber: 10.7 Consensus size: 132
2129168 CTACAACTTT
* **
2129178 ATGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTT-TTAAAGCC
1 ATGGCAC-CTTCTT-CCTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTCCCAAAGCC
* * * * *
2129239 CAAAACTCCGTGGCACCTTCTTCTTTTCAAAGACCACGACTCCGTGGCACTCTTTTTAAAGCCCA
63 CACAACTCGGTGGCAACTTCTTC--TTCAAAGCCCACAACTCCGTGGCACTCTTTTTAAAGCCCA
2129304 CAACTCC
126 CAACTCC
* * * ***
2129311 GTGGCACCTTCTTCCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTTTCCTTTTTGAAAGCCC
1 ATGGCACCTTCTTCCTTTTAAAGCCCACAACTCCGTGGCACTC--TTTTTCCCTTCCCAAAGCCC
* * * *
2129376 ACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGC
64 ACAACTCGGTGGCAACTTCTTC-TTCAAAGCCCACAACTCCGTGGCA-C-TC-T-TTTT-AAAGC
*
2129441 CCACGACTCC
123 CCACAACTCC
* * **
2129451 GTGGCA-C-TC-T--TTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-TCTT-TTAAAGCCCAC
1 ATGGCACCTTCTTCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTCCCAAAGCCCAC
* * * *
2129508 AACTCTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAG
66 AACTCGGTGGCA-AC-TTCTT-C--TTCAAAGCCCACAACTCCGTGGCA-C--TCT-TTTTAAAG
*
2129573 CCCACAACTCT
122 CCCACAACTCC
* * * ** * ** ** ** **
2129584 GTGGCACCCACAACTCCGTGGCACTCTTT--TTCCCTTTTCAAAGCC--CACAACTCCGTGGCAC
1 ATGG----CAC--CTTC-T-TC-CT-TTTAAAGCCC---ACAACTCCGTGGC-ACTCTTTTTC-C
** * * *
2129645 CTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACGACTCCGTGGC
51 C---TTC--CCAAAGCCCACAACTCGGTGGCAACTTCTTC--TTCAAAGCCCACAACTCCGTGGC
2129710 ACTCTTTTTAAAGCCCACAACTCC
109 ACTCTTTTTAAAGCCCACAACTCC
* * **
2129734 GTGGCACCTTCTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCAC
1 ATGGCACCTTCTTCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTCCCAAAGCCCAC
* * * * * * *
2129799 AACTCTGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCATGGCACTCTTTTTCCCTTTTAAGTC
66 AACTCGGTGGCAACTTCTTC-TTCAAAGCCCACAACTCCGTGGCACTC---TT---TTTAAAGCC
*
2129864 CACAATTCC
124 CACAACTCC
* * * ** * *
2129873 GTGGCATCTTTTTCCCTTCCCAAAGCCCACACAAGTCGGTGGCAACTC---TT--C-T--CAAAG
1 ATGGCACCTTCTT-CCTT-TTAAAG-CC-CACAACTCCGTGGC-ACTCTTTTTCCCTTCCCAAAG
* * *
2129930 CCCACGACTCCGTGGC-AC-TCTT-TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTTAAA
61 CCCACAACTCGGTGGCAACTTCTTCTTCAAAGCCCACAACTCCGTGGCA----C-TCTTTTTAAA
2129992 GCCCACAACTCC
121 GCCCACAACTCC
* * * **
2130004 GTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCTGTGGCAC-CTTTTT--CTT-TTAAAGCC
1 ATGGCAC-CTTCTT-CCTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTCCCAAAGCC
* * * ** * * * *
2130065 CACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAATTCTGTGGCATCTTTTTTCCTTCCC
63 CACAACTCGGTGGCA-ACTTCTT--CTTCAAAGCCCACAACTCCGTGGCA-C-TCTTT--TT---
* *
2130130 AAAGCCCACACAAGTCG
118 AAAG-CC-CACAACTCC
* * * *
2130147 GTGGCAAC-TCTT-C--TCAAAGCCCACGACTCCGTGGCACTC--TTT---TT---AAAGCCCAC
1 ATGGCACCTTCTTCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTCCCAAAGCCCAC
* * *
2130200 AACTCCGTGGCACCTTCTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAA
66 AACTCGGTGGCAACTTCTTC--TTCAAAGCCCACAACTCCGTGGCACTC----T---TTTT-AAA
*
2130265 GCCCACAACTCT
121 GCCCACAACTCC
* * ** *
2130277 GTGGCACCTT-TTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT--TTAAGTCCAC
1 ATGGCACCTTCTTCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTCCCAAAGCCCAC
* * * * * * * *
2130339 AATTCCGTGGCATCTTTTTCCCTTCCCAAAGCCCACACAAGTCGGTGGCAACTCTTCTCAAAGCC
66 AACTCGGTGGCAACTTCTT--CTT--CAAAG-CC-CACAACTCCGTGGC-ACTCTTTTTAAAGCC
*
2130404 CACGACTCC
124 CACAACTCC
* * ***
2130413 GTGGCA-C-TC-T--TTTTAAAGCCCACAACTCCGTGGCAC-CTTCTT--CTTTTTAAAGCCCAC
1 ATGGCACCTTCTTCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTCCCAAAGCCCAC
* * * * *
2130470 AACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCTGTGGCACCTTTTTCTTTTAAAG
66 AACTCGGTGGCA-ACTTCTT--C--TTCAAAGCCCACAACTCCGTGGCA-C--TCT-TTTTAAAG
2130535 CCCACAACTCC
122 CCCACAACTCC
* * * *
2130546 GTGGCACTCTTTTTCCCTTTT-AAGTCCACAATTCCGTGGCA-TCTTTTTCCCTTCCCAAAGCCC
1 ATGGCAC-CTTCTT-CCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTCCCAAAG-CC
*
2130609 ACACAAGTCGGTGGCAAC-TCTTC-TCAAAGCCCACA
63 -CACAACTCGGTGGCAACTTCTTCTTCAAAGCCCACA
2130644 CAAGTCGGTG
Statistics
Matches: 1054, Mismatches: 146, Indels: 263
0.72 0.10 0.18
Matches are distributed among these distances:
128 1 0.00
129 8 0.01
130 84 0.08
131 91 0.09
132 123 0.12
133 120 0.11
134 74 0.07
135 61 0.06
136 117 0.11
137 12 0.01
138 8 0.01
139 109 0.10
140 38 0.04
141 31 0.03
142 14 0.01
143 51 0.05
144 11 0.01
146 6 0.01
147 2 0.00
148 5 0.00
149 7 0.01
150 22 0.02
151 3 0.00
153 1 0.00
154 28 0.03
155 4 0.00
156 1 0.00
157 22 0.02
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.32
Consensus pattern (132 bp):
ATGGCACCTTCTTCCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTCCCAAAGCCCAC
AACTCGGTGGCAACTTCTTCTTCAAAGCCCACAACTCCGTGGCACTCTTTTTAAAGCCCACAACT
CC
Found at i:2130004 original size:236 final size:227
Alignment explanation
Indices: 2128914--2130642 Score: 1808
Period size: 236 Copynumber: 7.3 Consensus size: 227
2128904 TTTTTTCTTC
* *
2128914 AAAGCCCACAACTCTGTGGCACCTT--TTCCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
1 AAAGCCCACAACTCCGTGGCACCTTCCTTCC--CAAAGCCCAC-ACTCCGTGGCA----C-TCTT
* *
2128977 TTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACGACTCCGTGGCA----C-T
58 TTCAAAGCCCACGACTCCGTGGCA-C-TC-T-TTTT-AAAGCCCACAACTCCGTGGCACCTTCTT
2129037 CTTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTT-AAAGCCCACAACTCTGTGGCACT
118 CTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTCAAAGCCCACAACTCTGTGGCAC-
*
2129099 CTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTT
182 C-TTTTT-CTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
* * * * * ** **
2129146 AAAGCCCACAACTCTGTGGCACCTACAACTT---TATG---GCACTCTTTTTC-C-CTTTTCAAA
1 AAAGCCCACAACTCCGTGGCACCTTC--CTTCCCAAAGCCCACACTCCGTGGCACTCTTTTCAAA
* * * *
2129203 GCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCAAAACTCCGTGGCACCTTCTTCTTTTCA
64 GCCCACGACTCCGTGGCA-C--TCT-TTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTTA
* * * *
2129268 AAGACCACGACTCCGTGGCACTC----T--TTTT-AAAGCCCACAACTCCGTGGCACCTTCTTCC
125 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTCAAAGCCCACAACTCTGTGGCACCTT-TTTC
* *
2129326 TTTTAAAGCCCACAACTCTGTGGCACTCTTTTTTTCCTTTTT
189 TTTTAAAGCCCACAACTCCGTGGCACTC--TTTTTCC-CTTT
* **
2129368 GAAAGCCCACAACTCCGTGGCACCTT-TTTCTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCT
1 -AAAGCCCACAACTCCGTGGCACCTTCCTTC--CCAAAGCCCAC-ACTCCGTGGCA----C-TCT
*
2129432 TTTCAAAGCCCACGACTCCGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCACCTT-TTTTCT
57 TTTCAAAGCCCACGACTCCGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCT-T
* *
2129496 TTTAAAGCCCACAACTCTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTT
121 TTTAAAGCCCACAACTCCGTGGCACTC-TTTTTCCTTTTCAAAGCCCACAACTCTGTGGCACCTT
2129561 TTTCTTTTAAAGCCCACAACTCTGTGGCACCCACAACTCCGTGGCACTCTTTTTCCCTTTT
185 TTTCTTTT-------A-AA-------G--CCCACAACTCCGTGGCACTCTTTTTCCC-TTT
* **
2129622 CAAAGCCCACAACTCCGTGGCACCTT-TTTCTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCT
1 -AAAGCCCACAACTCCGTGGCACCTTCCTTC--CCAAAGCCCAC-ACTCCGTGGCA----C-TCT
2129686 TTTCAAAGCCCACGACTCCGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTT
57 TTTCAAAGCCCACGACTCCGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTT
2129751 TTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCTGTGGCACCTTT
122 TTAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTTCAAAGCCCACAACTCTGTGGCACCTTT
*
2129816 TTCTTTTAAAGCCCACAACTCCATGGCACTCTTTTTCCCTTT
186 TTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
* * * * *
2129858 TAAGTCCACAATTCCGTGGCATCTTTTTCCCTTCCCAAAGCCCACACAAGTCGGTGGCAACTCTT
1 AAAGCCCACAACTCCGTGGCA-C--CTT-CCTTCCCAAAGCCCACAC---TCCGTGGC-ACTCTT
*
2129923 CTCAAAGCCCACGACTCCGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
58 TTCAAAGCCCACGACTCCGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
2129988 TAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCTGTGGCACCTTTT
123 TAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTTCAAAGCCCACAACTCTGTGGCACCTTTT
2130053 TCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
187 TCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
* * * * * *
2130094 TAAGTCCACAATTCTGTGGCATCTTTTTTCCTTCCCAAAGCCCACACAAGTCGGTGGCAACTCTT
1 AAAGCCCACAACTCCGTGGCA-C---CTTCCTTCCCAAAGCCCACAC---TCCGTGGC-ACTCTT
*
2130159 CTCAAAGCCCACGACTCCGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
58 TTCAAAGCCCACGACTCCGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
2130224 TAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCTGTGGCACCTTTT
123 TAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTTCAAAGCCCACAACTCTGTGGCACCTTTT
2130289 TCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
187 TCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
* * * * *
2130330 TAAGTCCACAATTCCGTGGCATCTTTTTCCCTTCCCAAAGCCCACACAAGTCGGTGGCAACTCTT
1 AAAGCCCACAACTCCGTGGCA-C--CTT-CCTTCCCAAAGCCCACAC---TCCGTGGC-ACTCTT
*
2130395 CTCAAAGCCCACGACTCCGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
58 TTCAAAGCCCACGACTCCGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
2130460 TAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCTGTGGCACCTTTT
123 TAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTTCAAAGCCCACAACTCTGTGGCACCTTTT
2130525 TCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
187 TCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
* * * * *
2130566 TAAGTCCACAATTCCGTGGCATCTTTTTCCCTTCCCAAAGCCCACACAAGTCGGTGGCAACTCTT
1 AAAGCCCACAACTCCGTGGCA-C--CTT-CCTTCCCAAAGCCCACAC---TCCGTGGC-ACTCTT
*
2130631 CTCAAAGCCCAC
58 TTCAAAGCCCAC
2130643 ACAAGTCGGT
Statistics
Matches: 1368, Mismatches: 55, Indels: 144
0.87 0.04 0.09
Matches are distributed among these distances:
217 21 0.02
218 8 0.01
219 22 0.02
220 67 0.05
221 4 0.00
222 5 0.00
223 24 0.02
224 26 0.02
225 3 0.00
227 6 0.00
228 2 0.00
229 6 0.00
231 5 0.00
232 76 0.06
233 2 0.00
234 1 0.00
235 24 0.02
236 740 0.54
237 36 0.03
238 11 0.01
239 12 0.01
240 35 0.03
241 1 0.00
246 3 0.00
247 3 0.00
253 5 0.00
254 198 0.14
255 3 0.00
256 19 0.01
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.31
Consensus pattern (227 bp):
AAAGCCCACAACTCCGTGGCACCTTCCTTCCCAAAGCCCACACTCCGTGGCACTCTTTTCAAAGC
CCACGACTCCGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTTAAAGCCC
ACAACTCCGTGGCACTCTTTTTCCTTTTCAAAGCCCACAACTCTGTGGCACCTTTTTCTTTTAAA
GCCCACAACTCCGTGGCACTCTTTTTCCCTTT
Found at i:2130642 original size:32 final size:32
Alignment explanation
Indices: 2130596--2130736 Score: 189
Period size: 32 Copynumber: 4.4 Consensus size: 32
2130586 ATCTTTTTCC
*
2130596 CTTCCCAAAGCCCACACAAGTCGGTGGCAACT
1 CTTCTCAAAGCCCACACAAGTCGGTGGCAACT
2130628 CTTCTCAAAGCCCACACAAGTCGGTGGCAACT
1 CTTCTCAAAGCCCACACAAGTCGGTGGCAACT
* * *
2130660 TTTCCCAAAGCCCACACAAGTCAGTGGCAAC-
1 CTTCTCAAAGCCCACACAAGTCGGTGGCAACT
* *
2130691 CACTCTCTAAAGCCCACACAAGTCGGTGGCAACC
1 C-TTCTC-AAAGCCCACACAAGTCGGTGGCAACT
2130725 CTTCT--AAGCCCA
1 CTTCTCAAAGCCCA
2130737 ATATAGCTGG
Statistics
Matches: 97, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
30 7 0.07
32 62 0.64
33 27 0.28
34 1 0.01
ACGTcount: A:0.29, C:0.37, G:0.17, T:0.17
Consensus pattern (32 bp):
CTTCTCAAAGCCCACACAAGTCGGTGGCAACT
Found at i:2130676 original size:64 final size:65
Alignment explanation
Indices: 2130597--2130723 Score: 213
Period size: 64 Copynumber: 2.0 Consensus size: 65
2130587 TCTTTTTCCC
* *
2130597 TTCCCAAAGCCCACACAAGTCGGTGGCAA-CTCT-TCTCAAAGCCCACACAAGTCGGTGGCAACT
1 TTCCCAAAGCCCACACAAGTCAGTGGCAACCACTCTCT-AAAGCCCACACAAGTCGGTGGCAACT
2130660 T
65 T
2130661 TTCCCAAAGCCCACACAAGTCAGTGGCAACCACTCTCTAAAGCCCACACAAGTCGGTGGCAAC
1 TTCCCAAAGCCCACACAAGTCAGTGGCAACCACTCTCTAAAGCCCACACAAGTCGGTGGCAAC
2130724 CCTTCTAAGC
Statistics
Matches: 59, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
64 28 0.47
65 28 0.47
66 3 0.05
ACGTcount: A:0.30, C:0.35, G:0.18, T:0.17
Consensus pattern (65 bp):
TTCCCAAAGCCCACACAAGTCAGTGGCAACCACTCTCTAAAGCCCACACAAGTCGGTGGCAACTT
Found at i:2130771 original size:21 final size:21
Alignment explanation
Indices: 2130747--2130813 Score: 50
Period size: 21 Copynumber: 3.1 Consensus size: 21
2130737 ATATAGCTGG
2130747 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
* * *
2130768 CCTTTAAGTC--CA-ATATCGCTGG
1 CCTTGAA-TCAGCACAT-TGGC--A
2130790 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
2130811 CCT
1 CCT
2130814 CATCTTTAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 11 0.33
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (21 bp):
CCTTGAATCAGCACATTGGCA
Found at i:2130782 original size:43 final size:44
Alignment explanation
Indices: 2130724--2131140 Score: 428
Period size: 43 Copynumber: 9.1 Consensus size: 44
2130714 CGGTGGCAAC
*
2130724 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAT
*
2130768 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA--T
* *
2130814 CATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-
1 C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAT
* * *
2130859 CCTGTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----T
* *
2130907 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-
1 -CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAT
* * *
2130951 CCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA---T
*
2130998 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-
1 C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAT
* * * *
2131043 CCTTTAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA---T
* * * * *
2131090 CATCTTTACGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACAT
1 C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAT
2131136 CCTTT
1 CCTTT
2131141 TTCTCATCTT
Statistics
Matches: 312, Mismatches: 38, Indels: 46
0.79 0.10 0.12
Matches are distributed among these distances:
43 149 0.48
44 8 0.03
45 2 0.01
46 3 0.01
47 2 0.01
48 39 0.12
49 109 0.35
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (44 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAT
Found at i:2130952 original size:92 final size:92
Alignment explanation
Indices: 2130729--2131127 Score: 674
Period size: 92 Copynumber: 4.3 Consensus size: 92
2130719 GCAACCCTTC
* *
2130729 TAAGCCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
*
2130794 GAATCAGCACATTGGCACC-TCATCTT
66 GAATCAGCATATTGGCACCTTCATCTT
* *
2130820 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTGTAAGTCCAATATCGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
*
2130885 GAATCAGCATATTGGCACCTTTATCTT
66 GAATCAGCATATTGGCACCTTCATCTT
*
2130912 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCTAATATCGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
*
2130977 GAATCAGCATATTGGCATCTTCATCTT
66 GAATCAGCATATTGGCACCTTCATCTT
* *
2131004 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGCCCGATATCGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
*
2131069 GAATCAGCATATTGGCATCTTCATCTT
66 GAATCAGCATATTGGCACCTTCATCTT
* *
2131096 TACGTTCAATGTAGCTGGCCTTGAATCAGCAC
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
2131128 GTTGACATCC
Statistics
Matches: 291, Mismatches: 16, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
91 79 0.27
92 212 0.73
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (92 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
GAATCAGCATATTGGCACCTTCATCTT
Found at i:2132096 original size:33 final size:33
Alignment explanation
Indices: 2132059--2132125 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2132049 TTCAACGATT
2132059 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
2132092 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
2132125 T
1 T
2132126 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:2132097 original size:13 final size:13
Alignment explanation
Indices: 2132079--2132103 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2132069 CATAAAATGT
2132079 TGTATCGATACAA
1 TGTATCGATACAA
2132092 TGTATCGATACA
1 TGTATCGATACA
2132104 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2132259 original size:52 final size:52
Alignment explanation
Indices: 2132166--2132289 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
2132156 CACTGATCTT
*
2132166 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
2132217 TGTATCAATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
2132269 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
2132290 CTTTTCATAT
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
51 18 0.27
52 49 0.73
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2139288 original size:19 final size:20
Alignment explanation
Indices: 2139243--2139294 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
2139233 TTACAAGCCA
*
2139243 ATGTATCGATACATTTTAAG
1 ATGTATCGATACATATTAAG
**
2139263 ATGTATCGATACATATTGTG
1 ATGTATCGATACATATTAAG
2139283 -TGTATCGATACA
1 ATGTATCGATACA
2139295 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATATTAAG
Found at i:2139394 original size:13 final size:13
Alignment explanation
Indices: 2139376--2139400 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2139366 ACATTTGGTC
2139376 ATGTATCGATACA
1 ATGTATCGATACA
2139389 ATGTATCGATAC
1 ATGTATCGATAC
2139401 TGTGCAATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2140577 original size:52 final size:52
Alignment explanation
Indices: 2140510--2140673 Score: 197
Period size: 51 Copynumber: 3.2 Consensus size: 52
2140500 TAATTGGACA
* **
2140510 TATCGATACATTGAAGAATGTATCAATACATTTGGGTCAAAAACCCAAAATG
1 TATCGATACAATGAAGAATGTATTGATACATTTGGGTCAAAAACCCAAAATG
* * *
2140562 TGTCGATACAATGAAGAATGTATTGATACATTTGGATC-AAAACCCATAATG
1 TATCGATACAATGAAGAATGTATTGATACATTTGGGTCAAAAACCCAAAATG
* * * * * **
2140613 TATCCATATAATGAAAAATGTCTTGATACATTTGGGTC-AAAATCCTGAATG
1 TATCGATACAATGAAGAATGTATTGATACATTTGGGTCAAAAACCCAAAATG
2140664 TATCGATACA
1 TATCGATACA
2140674 TTTTCTTTAC
Statistics
Matches: 95, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
51 62 0.65
52 33 0.35
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.30
Consensus pattern (52 bp):
TATCGATACAATGAAGAATGTATTGATACATTTGGGTCAAAAACCCAAAATG
Found at i:2140743 original size:20 final size:20
Alignment explanation
Indices: 2140714--2140785 Score: 101
Period size: 20 Copynumber: 3.5 Consensus size: 20
2140704 ACAAGGTCCG
*
2140714 GTATCCATACATTCACTTAT
1 GTATCGATACATTCACTTAT
2140734 GTATCGATACATTCACTTAT
1 GTATCGATACATTCACTTAT
*
2140754 GTATTGATACATTCAC-TAGTT
1 GTATCGATACATTCACTTA--T
2140775 GTATCGATACA
1 GTATCGATACA
2140786 AGTTGTAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.04
20 34 0.72
21 11 0.23
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (20 bp):
GTATCGATACATTCACTTAT
Found at i:2147536 original size:13 final size:13
Alignment explanation
Indices: 2147518--2147543 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2147508 TACAGCAAGT
2147518 ATGTATCGATACA
1 ATGTATCGATACA
2147531 ATGTATCGATACA
1 ATGTATCGATACA
2147544 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2149791 original size:21 final size:21
Alignment explanation
Indices: 2149758--2149802 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2149748 TTGCAAGTTG
*
2149758 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2149780 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
2149800 AAA
1 AAA
2149803 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2151622 original size:15 final size:15
Alignment explanation
Indices: 2151602--2151633 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2151592 ATAAAAATGT
*
2151602 TCAAAATGAGGAAGC
1 TCAAAATGAAGAAGC
2151617 TCAAAATGAAGAAGC
1 TCAAAATGAAGAAGC
2151632 TC
1 TC
2151634 CAAACGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.16
Consensus pattern (15 bp):
TCAAAATGAAGAAGC
Found at i:2155543 original size:14 final size:14
Alignment explanation
Indices: 2155524--2155567 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
2155514 AAATAAATTT
2155524 TTGATATGAATTAC
1 TTGATATGAATTAC
*
2155538 TTGATA--AATT-T
1 TTGATATGAATTAC
2155549 TTGATATGAATTAC
1 TTGATATGAATTAC
2155563 TTGAT
1 TTGAT
2155568 TAAGGGGGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
11 6 0.24
12 4 0.16
13 4 0.16
14 11 0.44
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.48
Consensus pattern (14 bp):
TTGATATGAATTAC
Found at i:2155550 original size:25 final size:25
Alignment explanation
Indices: 2155516--2155567 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
2155506 ATATGTGCAA
2155516 ATAAATTTTTGATATGAATTACTTG
1 ATAAATTTTTGATATGAATTACTTG
2155541 ATAAATTTTTGATATGAATTACTTG
1 ATAAATTTTTGATATGAATTACTTG
2155566 AT
1 AT
2155568 TAAGGGGGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.48
Consensus pattern (25 bp):
ATAAATTTTTGATATGAATTACTTG
Found at i:2156308 original size:13 final size:13
Alignment explanation
Indices: 2156290--2156315 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2156280 TACAGCAAGT
2156290 ATGTATCGATACA
1 ATGTATCGATACA
2156303 ATGTATCGATACA
1 ATGTATCGATACA
2156316 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2159193 original size:21 final size:20
Alignment explanation
Indices: 2159164--2159206 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
2159154 GACTAGTGTG
* *
2159164 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
2159185 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
2159205 GG
1 GG
2159207 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:2159656 original size:13 final size:13
Alignment explanation
Indices: 2159638--2159674 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
2159628 TAATCCCCCA
*
2159638 GTATCGATACAGT
1 GTATCGATACACT
2159651 GTATCGATACACT
1 GTATCGATACACT
2159664 GTATCGATACA
1 GTATCGATACA
2159675 AAGAAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (13 bp):
GTATCGATACACT
Found at i:2165849 original size:20 final size:21
Alignment explanation
Indices: 2165824--2165876 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
2165814 TACAAGCCAA
* *
2165824 TGTATCGATACAAT-TTTTTG
1 TGTATCGATACAATACTTTGG
2165844 TGTATCGATAC-ATACTTTGG
1 TGTATCGATACAATACTTTGG
2165864 TGTATCGATACAA
1 TGTATCGATACAA
2165877 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 26 0.90
21 1 0.03
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (21 bp):
TGTATCGATACAATACTTTGG
Found at i:2165881 original size:19 final size:19
Alignment explanation
Indices: 2165824--2165882 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
2165814 TACAAGCCAA
* *
2165824 TGTATCGATACAATTTTTTG
1 TGTATCGATACAA-CTTTGG
2165844 TGTATCGATACATACTTTGG
1 TGTATCGATACA-ACTTTGG
*
2165864 TGTATCGATACAAGTTTGG
1 TGTATCGATACAACTTTGG
2165883 CTACTACCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.17
20 28 0.80
21 1 0.03
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.42
Consensus pattern (19 bp):
TGTATCGATACAACTTTGG
Found at i:2171824 original size:46 final size:44
Alignment explanation
Indices: 2171771--2171881 Score: 123
Period size: 46 Copynumber: 2.5 Consensus size: 44
2171761 CAGAAGAGTC
* * *
2171771 TTGTGCCAAGTAGCGCTACTACCAAAAGCACCTTTGCCAAAGAAAG
1 TTGTGCCAAGTAGCACTACTACCAAAAGCACCTCTACCAAAG--AG
* * * * *
2171817 TTGTGCCAAGAAGCATTATTGCCAAAAGCACCTCTACCAAAGTG
1 TTGTGCCAAGTAGCACTACTACCAAAAGCACCTCTACCAAAGAG
*
2171861 TTGTGCCAAGTAACACTACTA
1 TTGTGCCAAGTAGCACTACTA
2171882 TTAAAGTACC
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
44 17 0.33
46 35 0.67
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (44 bp):
TTGTGCCAAGTAGCACTACTACCAAAAGCACCTCTACCAAAGAG
Found at i:2172915 original size:13 final size:13
Alignment explanation
Indices: 2172897--2172922 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2172887 CAATTTTTTG
2172897 TGTATCGATACAT
1 TGTATCGATACAT
2172910 TGTATCGATACAT
1 TGTATCGATACAT
2172923 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2173648 original size:21 final size:21
Alignment explanation
Indices: 2173607--2173650 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2173597 CTCCCCTTTA
* *
2173607 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
2173628 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
2173649 TC
1 TC
2173651 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:2175471 original size:13 final size:13
Alignment explanation
Indices: 2175453--2175478 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2175443 ATAATCATCC
2175453 TGTATCGATACAA
1 TGTATCGATACAA
2175466 TGTATCGATACAA
1 TGTATCGATACAA
2175479 AGAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2179421 original size:21 final size:21
Alignment explanation
Indices: 2179392--2179436 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2179382 AAGTTTTCAT
*
2179392 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
2179412 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
2179434 TTT
1 TTT
2179437 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:2182533 original size:15 final size:15
Alignment explanation
Indices: 2182513--2182543 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2182503 ATTTCGTTTG
*
2182513 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2182528 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2182543 G
1 G
2182544 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2184376 original size:21 final size:21
Alignment explanation
Indices: 2184347--2184391 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2184337 AAGTTTTCAT
*
2184347 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
2184367 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
2184389 TTT
1 TTT
2184392 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:2186623 original size:13 final size:13
Alignment explanation
Indices: 2186605--2186630 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2186595 CAATTTTTTG
2186605 TGTATCGATACAT
1 TGTATCGATACAT
2186618 TGTATCGATACAT
1 TGTATCGATACAT
2186631 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2192597 original size:2 final size:2
Alignment explanation
Indices: 2192592--2192616 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2192582 TGATCGTGTG
2192592 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2192617 TAGCTAGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2193808 original size:32 final size:32
Alignment explanation
Indices: 2193772--2193832 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
2193762 TTGATCAAGA
2193772 AATTCAAGAATGTATTTGGGT-TTGGTAAAAAT
1 AATTCAAGAATGTATTT-GGTATTGGTAAAAAT
2193804 AATTCAAGAATGTATTTGGTATTGGTAAA
1 AATTCAAGAATGTATTTGGTATTGGTAAA
2193833 GAATGTTCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 3 0.11
32 25 0.89
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (32 bp):
AATTCAAGAATGTATTTGGTATTGGTAAAAAT
Found at i:2194826 original size:52 final size:51
Alignment explanation
Indices: 2194758--2194883 Score: 152
Period size: 51 Copynumber: 2.5 Consensus size: 51
2194748 TTATGCAAAT
* * *
2194758 AATTAAAAATAT-TTTATATTAAATCAT-GAAGTATTA-TTAAAAGATAATTAA
1 AATTAAAAAAATATTTATATTAAATC-TCAAAGTATTATTTAAAA-A-AATAAA
*
2194809 AATTAAAAAAATATTTATATTAAATCTCAAATTATTATTTAAAAAAATAAA
1 AATTAAAAAAATATTTATATTAAATCTCAAAGTATTATTTAAAAAAATAAA
*
2194860 AAATAAAAAAA-ATTTATATTAAAT
1 AATTAAAAAAATATTTATATTAAAT
2194884 TTCATATTAA
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
50 13 0.19
51 27 0.40
52 21 0.31
53 6 0.09
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (51 bp):
AATTAAAAAAATATTTATATTAAATCTCAAAGTATTATTTAAAAAAATAAA
Found at i:2195228 original size:53 final size:52
Alignment explanation
Indices: 2195160--2195369 Score: 241
Period size: 53 Copynumber: 4.0 Consensus size: 52
2195150 ATTAAAAAAC
*
2195160 TATTT-AAAAATAATAAATTATTAAAAATAGTTTATATTAAATATCAAATTAT
1 TATTTAAAAAATAA-AAATTATTAAAAATATTTTATATTAAATATCAAATTAT
* * * *
2195212 TATTTAAAAAATAATAAA-AATTAAAAAGTACTTTATATTAAATATCAAATAAC
1 TATTTAAAAAATAA-AAATTATTAAAAA-TATTTTATATTAAATATCAAATTAT
* *
2195265 TATTTAAAAAATTAAAATT-TTAAAAATATTTTATATTAAATCTCAAATTAT
1 TATTTAAAAAATAAAAATTATTAAAAATATTTTATATTAAATATCAAATTAT
* *
2195316 TATTTTAAAACGATCAAAAATTA--AAAAATATTTTATATTAAATCCTCAAATTAT
1 TA-TTTAAAA-AAT-AAAAATTATTAAAAATATTTTATATTAAAT-ATCAAATTAT
2195370 GAAAAATATT
Statistics
Matches: 138, Mismatches: 12, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
51 23 0.17
52 30 0.22
53 69 0.50
54 16 0.12
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.40
Consensus pattern (52 bp):
TATTTAAAAAATAAAAATTATTAAAAATATTTTATATTAAATATCAAATTAT
Found at i:2195338 original size:104 final size:105
Alignment explanation
Indices: 2195148--2195358 Score: 293
Period size: 104 Copynumber: 2.0 Consensus size: 105
2195138 TAAAATATAC
*
2195148 ATATTAAAAAACTATTTAAAAATAATAAATTATTAAAAATAGTTTATATTAAATATCAAATTATT
1 ATATCAAAAAACTATTTAAAAATAATAAATTATTAAAAATAGTTTATATTAAATATCAAATTATT
* *
2195213 ATTTAAAAAATAATAAAAATTAAAAAGTACTTTATATTAA
66 ATTTAAAAAACAATAAAAATTAAAAAATACTTTATATTAA
* * * *
2195253 ATATCAAATAACTATTTAAAAA-ATTAAAATT-TTAAAAATATTTTATATTAAATCTCAAATTAT
1 ATATCAAAAAACTATTTAAAAATAAT-AAATTATTAAAAATAGTTTATATTAAATATCAAATTAT
* * *
2195316 TATTT-TAAAACGATCAAAAATTAAAAAATATTTTATATTAA
65 TATTTAAAAAACAAT-AAAAATTAAAAAATACTTTATATTAA
2195357 AT
1 AT
2195359 CCTCAAATTA
Statistics
Matches: 94, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
103 6 0.06
104 63 0.67
105 25 0.27
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.39
Consensus pattern (105 bp):
ATATCAAAAAACTATTTAAAAATAATAAATTATTAAAAATAGTTTATATTAAATATCAAATTATT
ATTTAAAAAACAATAAAAATTAAAAAATACTTTATATTAA
Found at i:2196182 original size:22 final size:22
Alignment explanation
Indices: 2196137--2196182 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
2196127 TTTCAAATAA
* *
2196137 AATTAAATGTATATATAACTAT
1 AATTAAATATATATATAACAAT
*
2196159 AATTAAATATATATATGACAAT
1 AATTAAATATATATATAACAAT
2196181 AA
1 AA
2196183 AAGTAGTAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.37
Consensus pattern (22 bp):
AATTAAATATATATATAACAAT
Found at i:2196498 original size:51 final size:52
Alignment explanation
Indices: 2196311--2196539 Score: 286
Period size: 51 Copynumber: 4.4 Consensus size: 52
2196301 AGTAAAAAGA
** *
2196311 TTTATTA-TTTTTAAATTGTAATTCTAGATTTAATATAAAATATTTTTAATT
1 TTTATTATTTTTTAAATAATAATTCGAGATTTAATATAAAATATTTTTAATT
* *
2196362 TTATATTATTTTTTAAATAATAATTTGAGATATAATATAAAATATTTTTAAAATT
1 TT-TATTATTTTTTAAATAATAATTCGAGATTTAATATAAAATATTTTT--AATT
* * * *
2196417 TTTATTATTTTTTAAATAGTTATTCGAGATTTAATATAAAATATTTTTTACT
1 TTTATTATTTTTTAAATAATAATTCGAGATTTAATATAAAATATTTTTAATT
* * *
2196469 TTT-TTATTTTTTAAATAATAATTCAAGATTTAGTAT-AAATATTTTTTATTT
1 TTTATTATTTTTTAAATAATAATTCGAGATTTAATATAAAATA-TTTTTAATT
2196520 TTTATTA-TTTTTAAATAATA
1 TTTATTATTTTTTAAATAATA
2196540 TTTTTAATAT
Statistics
Matches: 154, Mismatches: 18, Indels: 12
0.84 0.10 0.07
Matches are distributed among these distances:
50 5 0.03
51 53 0.34
52 13 0.08
53 35 0.23
54 42 0.27
55 6 0.04
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (52 bp):
TTTATTATTTTTTAAATAATAATTCGAGATTTAATATAAAATATTTTTAATT
Found at i:2196758 original size:16 final size:16
Alignment explanation
Indices: 2196734--2196764 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2196724 TAATTCAAGA
*
2196734 TTTATTATAAAATATT
1 TTTAATATAAAATATT
2196750 TTTAATATAAAATAT
1 TTTAATATAAAATAT
2196765 ATATATATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTAATATAAAATATT
Found at i:2197285 original size:55 final size:53
Alignment explanation
Indices: 2197218--2197354 Score: 168
Period size: 55 Copynumber: 2.5 Consensus size: 53
2197208 TATCTTACAA
* *
2197218 ATTTTTAAATAGTAATTTTAGATTTAATATAAAATACTTTTTAAATTTTTGTT
1 ATTTTTAAATAGTAATTTCAGATTTAATATAAAATACTTTTTAAATTTTTATT
* * * * *
2197271 ATTTTTTTAAATAGTCA-TTCAGGATTTAATGTAAGATAGTTTTTTAATTTTTATT
1 A--TTTTTAAATAGTAATTTCA-GATTTAATATAAAATACTTTTTAAATTTTTATT
*
2197326 ATTTTTAAATAGTAATTTGAGATTTAATA
1 ATTTTTAAATAGTAATTTCAGATTTAATA
2197355 AAGAGTTTAA
Statistics
Matches: 70, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
53 22 0.31
54 6 0.09
55 42 0.60
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (53 bp):
ATTTTTAAATAGTAATTTCAGATTTAATATAAAATACTTTTTAAATTTTTATT
Found at i:2199145 original size:17 final size:17
Alignment explanation
Indices: 2199123--2199160 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
2199113 TTAAATCAAA
2199123 TAAATTAATATGAATAT
1 TAAATTAATATGAATAT
2199140 TAAATTAATATGAATAT
1 TAAATTAATATGAATAT
2199157 TAAA
1 TAAA
2199161 AAAAGGGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (17 bp):
TAAATTAATATGAATAT
Found at i:2201250 original size:78 final size:78
Alignment explanation
Indices: 2201155--2201310 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 78
2201145 CCTTAAATGG
2201155 GTTTGAAAATTTTGAAAAGACTATAATGTAATCCTTAACAATTTAATATCATTAAAACTAAATAT
1 GTTTGAAAATTTTGAAAAGACTATAATGTAATCCTTAACAATTTAATATCATTAAAACTAAATAT
2201220 AATTACATTGAAA
66 AATTACATTGAAA
*
2201233 GTTTGAAAATTTTGAAAAGACTATAATGTAATCCTTAACAATTTAATATCATTAAAAGTAAATAT
1 GTTTGAAAATTTTGAAAAGACTATAATGTAATCCTTAACAATTTAATATCATTAAAACTAAATAT
2201298 AATTACATTGAAA
66 AATTACATTGAAA
2201311 ATTAAACAGA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.36
Consensus pattern (78 bp):
GTTTGAAAATTTTGAAAAGACTATAATGTAATCCTTAACAATTTAATATCATTAAAACTAAATAT
AATTACATTGAAA
Found at i:2202061 original size:6 final size:5
Alignment explanation
Indices: 2202035--2202074 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
2202025 GTCATGGGCG
* *
2202035 ATAAA ATAAA ATAAA TTAAA ATGAAA ATAAA ATAAG ATAA
1 ATAAA ATAAA ATAAA ATAAA AT-AAA ATAAA ATAAA ATAA
2202075 TTAATGTGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (5 bp):
ATAAA
Found at i:2202063 original size:16 final size:15
Alignment explanation
Indices: 2202036--2202065 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
2202026 TCATGGGCGA
2202036 TAAAATAAAATAAAT
1 TAAAATAAAATAAAT
2202051 TAAAATGAAAATAAA
1 TAAAAT-AAAATAAA
2202066 ATAAGATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (15 bp):
TAAAATAAAATAAAT
Found at i:2203577 original size:11 final size:11
Alignment explanation
Indices: 2203563--2203593 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
2203553 CATTTTTTCA
2203563 TTTTTTTCTTT
1 TTTTTTTCTTT
*
2203574 TTTTGTTCTTT
1 TTTTTTTCTTT
2203585 TTTTTTTCT
1 TTTTTTTCT
2203594 GTCTCAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:2204128 original size:16 final size:16
Alignment explanation
Indices: 2204109--2204140 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2204099 TTTATTTCAA
*
2204109 GTTCGATTCATTTTGG
1 GTTCAATTCATTTTGG
2204125 GTTCAATTCATTTTGG
1 GTTCAATTCATTTTGG
2204141 AATTGGGTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.12, G:0.22, T:0.50
Consensus pattern (16 bp):
GTTCAATTCATTTTGG
Found at i:2204151 original size:16 final size:16
Alignment explanation
Indices: 2204132--2204185 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
2204122 TGGGTTCAAT
2204132 TCATTTTGGAATTGGG
1 TCATTTTGGAATTGGG
**
2204148 TCATTTTGG-ATTTAG
1 TCATTTTGGAATTGGG
2204163 TCATTTT-GAATTCGGG
1 TCATTTTGGAATT-GGG
*
2204179 TTATTTT
1 TCATTTT
2204186 CGAGTTTGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
14 1 0.03
15 14 0.45
16 16 0.52
ACGTcount: A:0.19, C:0.07, G:0.22, T:0.52
Consensus pattern (16 bp):
TCATTTTGGAATTGGG
Found at i:2204167 original size:15 final size:16
Alignment explanation
Indices: 2204132--2204174 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
2204122 TGGGTTCAAT
*
2204132 TCATTTTGGAATTGGG
1 TCATTTTGGAATTGAG
*
2204148 TCATTTTGG-ATTTAG
1 TCATTTTGGAATTGAG
2204163 TCATTTT-GAATT
1 TCATTTTGGAATT
2204175 CGGGTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 1 0.04
15 14 0.58
16 9 0.38
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.51
Consensus pattern (16 bp):
TCATTTTGGAATTGAG
Found at i:2204807 original size:63 final size:62
Alignment explanation
Indices: 2204725--2204992 Score: 242
Period size: 62 Copynumber: 4.3 Consensus size: 62
2204715 TCGTTTTTGA
** * * *
2204725 AAAAATGAGTTTGGCTTAAAAGAAAAAAACTTAGACAATAATCCCTAAGC-CAACCTATTGAG
1 AAAAATGAGTTTGATTTAAAAGAAAAAGACCTAGAC-ATAATCCCTAAGCTCAACCTATTTAG
* * * * *
2204787 AAAAAATGAGTTTGATTTAAAAGAAAAAGACCTATACGTCAA--CTTTAGACTCGACCTATTTAG
1 -AAAAATGAGTTTGATTTAAAAGAAAAAGACCTAGACAT-AATCCCTAAG-CTCAACCTATTTAG
* * * * * * *
2204850 AAAAATAAGTTTGAATTAAAAG-AAAAGTCCTAGACAATAATCCTTAGGCTCGACTTATTTAG
1 AAAAATGAGTTTGATTTAAAAGAAAAAGACCTAGAC-ATAATCCCTAAGCTCAACCTATTTAG
* * * * *
2204912 AAAAATGAGTTTGATTT-GAA-AAAAAGACCTAGACATCATTCCTAAGCTTAACCTATATAG
1 AAAAATGAGTTTGATTTAAAAGAAAAAGACCTAGACATAATCCCTAAGCTCAACCTATTTAG
*
2204972 AAAAATGAGTTGGATTTAAAA
1 AAAAATGAGTTTGATTTAAAA
2204993 AAGGAAATTC
Statistics
Matches: 165, Mismatches: 32, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
60 34 0.21
61 33 0.20
62 51 0.31
63 47 0.28
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (62 bp):
AAAAATGAGTTTGATTTAAAAGAAAAAGACCTAGACATAATCCCTAAGCTCAACCTATTTAG
Found at i:2204995 original size:124 final size:124
Alignment explanation
Indices: 2204756--2204992 Score: 275
Period size: 122 Copynumber: 1.9 Consensus size: 124
2204746 GAAAAAAACT
2204756 TAGACAATAATCCCTAAGCCAACCTATTGAGAAAAAATGAGTTTGATTTAAAAGAAAAAGACCTA
1 TAGACAATAATCCCTAAGCCAACCTATTGAGAAAAAATGAGTTTGATTTAAAAGAAAAAGACCTA
* * * * * * *
2204821 TACGTCAACTTTAGACTCGACCTATTTAGAAAAATAAGTTTGAATTAAAAGAAAAGTCC
66 GACATCAACCTAAGACTCAACCTATATAGAAAAATAAGTTGGAATTAAAAGAAAAGTCC
* * * * * *
2204880 TAGACAATAATCCTTAGGCTCGACTTATTTAG-AAAAATGAGTTTGATTT-GAA-AAAAAGACCT
1 TAGACAATAATCCCTAAGC-CAACCTATTGAGAAAAAATGAGTTTGATTTAAAAGAAAAAGACCT
* * * *
2204942 AGACATCATTCCTAAG-CTTAACCTATATAGAAAAATGAGTTGGATTTAAAA
65 AGACATCA-ACCTAAGACTCAACCTATATAGAAAAATAAGTTGGAATTAAAA
2204993 AAGGAAATTC
Statistics
Matches: 94, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
122 45 0.48
123 6 0.06
124 34 0.36
125 9 0.10
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.28
Consensus pattern (124 bp):
TAGACAATAATCCCTAAGCCAACCTATTGAGAAAAAATGAGTTTGATTTAAAAGAAAAAGACCTA
GACATCAACCTAAGACTCAACCTATATAGAAAAATAAGTTGGAATTAAAAGAAAAGTCC
Found at i:2210213 original size:52 final size:51
Alignment explanation
Indices: 2210135--2210264 Score: 199
Period size: 52 Copynumber: 2.5 Consensus size: 51
2210125 CCCGAAATAT
* *
2210135 GAAAAGTTGCTTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGG
1 GAAAA-TTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGG
2210187 GAAAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGG
1 GAAAA-TTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGG
*
2210239 GCAAATTGCCTGCATGTATCGATACA
1 GAAAATTGCCTGCATGTATCGATACA
2210265 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
51 21 0.29
52 47 0.64
53 5 0.07
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (51 bp):
GAAAATTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGG
Found at i:2210277 original size:51 final size:50
Alignment explanation
Indices: 2210135--2210284 Score: 171
Period size: 52 Copynumber: 2.9 Consensus size: 50
2210125 CCCGAAATAT
* * *
2210135 GAAAAGTTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGG
2210187 GAAAATTTGCCTGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACA----AAATAGTGTATCGATACATCTGG
*
2210239 GCAAA-TTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 GAAAATTTGCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
2210285 ATGTATCGGT
Statistics
Matches: 88, Mismatches: 4, Indels: 13
0.84 0.04 0.12
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
50 1 0.01
51 33 0.38
52 46 0.52
53 1 0.01
54 4 0.05
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (50 bp):
GAAAATTTGCCTGCATGTATCGATACAAAATAGTGTATCGATACATCTGG
Found at i:2210375 original size:33 final size:33
Alignment explanation
Indices: 2210338--2210404 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2210328 AGTAGCTTAA
2210338 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
2210371 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
2210404 A
1 A
2210405 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:2210378 original size:13 final size:13
Alignment explanation
Indices: 2210360--2210384 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2210350 CAAAAAAATA
2210360 TGTATCGATACAT
1 TGTATCGATACAT
2210373 TGTATCGATACA
1 TGTATCGATACA
2210385 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2211067 original size:31 final size:31
Alignment explanation
Indices: 2211032--2211093 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
2211022 TGAAAAGAAA
2211032 AAGAAAGCAAATGTTCAAAAAAAAACATTAC
1 AAGAAAGCAAATGTTCAAAAAAAAACATTAC
2211063 AAGAAAGCAAATGTTCAAAAAAAAACATTAC
1 AAGAAAGCAAATGTTCAAAAAAAAACATTAC
2211094 GTATTTATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.61, C:0.13, G:0.10, T:0.16
Consensus pattern (31 bp):
AAGAAAGCAAATGTTCAAAAAAAAACATTAC
Found at i:2213007 original size:19 final size:19
Alignment explanation
Indices: 2212983--2213021 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
2212973 TGTTGTACTA
2212983 TTTGAGGTATGGGTGTGTG
1 TTTGAGGTATGGGTGTGTG
2213002 TTTGAGGTATGGGTGTGTG
1 TTTGAGGTATGGGTGTGTG
2213021 T
1 T
2213022 AAGGCTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.10, C:0.00, G:0.46, T:0.44
Consensus pattern (19 bp):
TTTGAGGTATGGGTGTGTG
Found at i:2221368 original size:79 final size:79
Alignment explanation
Indices: 2221251--2221610 Score: 415
Period size: 79 Copynumber: 4.6 Consensus size: 79
2221241 TCATTGATGT
* * * **
2221251 TTTTATTTCCAAAATATCGATTTTCCACAATCAAGGATACTCCAACCCCGTTATTTTTGAGGGGA
1 TTTTATTTCTAAAACATCGATTTTCCATAATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGA
*
2221316 TACTCCAACCTTGA
66 TACTCCAACCTCGA
* * * *
2221330 TTTTATTTCTAAAACA-CTGATTTTTCACT-ATCGGGGATACTCTAACCCCGTTATTTTTAAGAG
1 TTTTATTTCTAAAACATC-GATTTTCCA-TAATCGGGGATACTCCAACCCCGTTATTTTTGAGGG
*
2221393 GATACTCCAACCTCGG
64 GATACTCCAACCTCGA
* * * * * *
2221409 TTTTATTTCTGAAACGTCGATTTTCCATCAT-TGGGAGACTTCAACCCCGTTATTTTTCGAGGGG
1 TTTTATTTCTAAAACATCGATTTTCCATAATCGGGGATACTCCAACCCCGTTATTTTT-GAGGGG
*
2221473 ATACTCCAACGC-CGG
65 ATACTCCAAC-CTCGA
* * *
2221488 TTTTATTTCTAAAACATCGATTTTCCATAATCGGGGATACTCCAACCCCGTTATTTTCGACGAGA
1 TTTTATTTCTAAAACATCGATTTTCCATAATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGA
* *
2221553 TACTCCAGCC-CTA
66 TACTCCAACCTCGA
* *
2221566 GTTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATACTCCA
1 -TTTTATTTCTAAAACATCGATTTTCCATAATCGGGGATACTCCA
2221611 CCCTATTACT
Statistics
Matches: 239, Mismatches: 34, Indels: 16
0.83 0.12 0.06
Matches are distributed among these distances:
78 26 0.11
79 189 0.79
80 24 0.10
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (79 bp):
TTTTATTTCTAAAACATCGATTTTCCATAATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGA
TACTCCAACCTCGA
Found at i:2221539 original size:158 final size:155
Alignment explanation
Indices: 2221251--2222107 Score: 739
Period size: 158 Copynumber: 5.3 Consensus size: 155
2221241 TCATTGATGT
* * * * *
2221251 TTTTATTTCCAAAATATCGATTTTCCACAATCAAGGATACTCCAACCCCGTTATTTTT-GAGGGG
1 TTTTATTTCTAAAACATCGATTTTCCAC-ATC-GGGAGACTTCAACCCCGTTATTTTTCGAGGGG
* * * * *
2221315 ATACTCCAACCTTGATTTTATTTCTAAAACA-CTGATTTTTCACTATCGGGGATACTCTAACCCC
64 ATACTCCAACC-CGGTTTTATTTCTAAAACATC-GATTTTCCACAATCGGGGATACTCCAACCCC
2221379 GTTATTTTTAAGAGGATACTCCAA-CCTCGG
127 GTTATTTTTAAG-GGATACTCCAACCCT-GG
* * *
2221409 TTTTATTTCTGAAACGTCGATTTTCCATCATTGGGAGACTTCAACCCCGTTATTTTTCGAGGGGA
1 TTTTATTTCTAAAACATCGATTTTCCA-CATCGGGAGACTTCAACCCCGTTATTTTTCGAGGGGA
*
2221474 TACTCCAACGCCGGTTTTATTTCTAAAACATCGATTTTCCATAATCGGGGATACTCCAACCCCGT
65 TACTCCAAC-CCGGTTTTATTTCTAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCCGT
* * * * *
2221539 TATTTTCGACGAGATACTCCAGCCCTAG
129 TATTTT-TAAGGGATACTCCAACCCTGG
* *
2221567 TTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATACTCCACCCTATTACTCTAACCCCGTT
1 TTTTATTTCTAAAACATCGATTTTCCAC-ATC-GGG--A---GA--C---T--TC-AACCCCGTT
* * ** * *
2221632 A-TTTTCGACGGGATACTCCAACCCTGGTTTTATTTCTAAAACATTGATTTTTTAGAATCGGAGA
51 ATTTTTCGAGGGGATACTCCAACCC-GGTTTTATTTCTAAAACATCGATTTTCCACAATCGGGGA
* *
2221696 TACTCCAACCCCGTTATTTTTGAAGGGATACTCTAA-CCTCGA
115 TACTCCAACCCCGTTATTTTT-AAGGGATACTCCAACCCT-GG
* * *
2221738 TTTTATTTCGAAAACATC-ATTTTCCACTATCGGAGATAC-TCTAACCCTGTTA-TTTTCGAGGG
1 TTTTATTTCTAAAACATCGATTTTCCAC-ATCGG-GAGACTTC-AACCCCGTTATTTTTCGAGGG
* * * * * **
2221800 GATATTCCAATCCTGGTTTTATTTCTAAAACATCAATTTT-CACAACCGAGGATACTCCAACCTT
63 GATACTCCAA-CCCGGTTTTATTTCTAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCC
* * * *
2221864 GTTATTTCTGATGGGATACTTCAACCCTAG
127 GTTATTT-TTAAGGGATACTCCAACCCTGG
* * * * *
2221894 TTTTATTTCTAAAACACCAATTTTCTACCATCGGGGAGACTCCAATCCCGTTATTTTT-GAGGGG
1 TTTTATTTCTAAAACATCGATTTTCCA-CATC-GGGAGACTTCAACCCCGTTATTTTTCGAGGGG
** * * * * *
2221958 ATACTTAAACTCCGATTTTATTTCTAAAACATCGACTTTCCACAATCGAGGATACTCTAATCCCG
64 ATACTCCAAC-CCGGTTTTATTTCTAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCCG
* *
2222023 TTATTTTTGAGGGGATACTCCAACCCTGA
128 TTATTTTT-AAGGGATACTCCAACCCTGG
* *
2222052 TTTTATTT-TCAAAACATCGATTTTTCATCATCGGG-GATATTCCAACCCCGTTATTT
1 TTTTATTTCT-AAAACATCGATTTTCCA-CATCGGGAGA-CTT-CAACCCCGTTATTT
2222108 CCTAGGAGAT
Statistics
Matches: 568, Mismatches: 92, Indels: 78
0.77 0.12 0.11
Matches are distributed among these distances:
156 54 0.10
157 145 0.26
158 219 0.39
159 11 0.02
161 1 0.00
163 1 0.00
164 1 0.00
165 1 0.00
166 1 0.00
168 1 0.00
169 3 0.01
170 17 0.03
171 103 0.18
172 10 0.02
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.36
Consensus pattern (155 bp):
TTTTATTTCTAAAACATCGATTTTCCACATCGGGAGACTTCAACCCCGTTATTTTTCGAGGGGAT
ACTCCAACCCGGTTTTATTTCTAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCCGTTA
TTTTTAAGGGATACTCCAACCCTGG
Found at i:2221670 original size:46 final size:45
Alignment explanation
Indices: 2221531--2221670 Score: 101
Period size: 41 Copynumber: 3.0 Consensus size: 45
2221521 GGGATACTCC
* *
2221531 AACCCCGTTATTTTCGACGAGATACTCCAGCCCTAGTTTTATTTCT
1 AACCCCGTTATTTTCGACGGGATACTCCAACCCT-GTTTTATTTCT
** * * * *
2221577 AAAACATCGATT-TTTCACAATCGGGGATACTCC-ACCC--TATTA-CTCT
1 --AACCCCG-TTATTT-TCGA-C-GGGATACTCCAACCCTGTTTTATTTCT
2221623 AACCCCGTTATTTTCGACGGGATACTCCAACCCTGGTTTTATTTCT
1 AACCCCGTTATTTTCGACGGGATACTCCAACCCT-GTTTTATTTCT
2221669 AA
1 AA
2221671 AACATTGATT
Statistics
Matches: 68, Mismatches: 14, Indels: 22
0.65 0.13 0.21
Matches are distributed among these distances:
41 10 0.15
42 5 0.07
43 4 0.06
44 8 0.12
45 4 0.06
46 8 0.12
47 4 0.06
48 8 0.12
49 4 0.06
50 4 0.06
51 9 0.13
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (45 bp):
AACCCCGTTATTTTCGACGGGATACTCCAACCCTGTTTTATTTCT
Found at i:2221682 original size:92 final size:92
Alignment explanation
Indices: 2221525--2221702 Score: 284
Period size: 92 Copynumber: 1.9 Consensus size: 92
2221515 TAATCGGGGA
*
2221525 TACTCCAACCCCGTTATTTTCGACGAGATACTCCAGCCCTAGTTTTATTTCTAAAACATCGATTT
1 TACTCCAACCCCGTTATTTTCGACGAGATACTCCAACCCTAGTTTTATTTCTAAAACATCGATTT
*
2221590 TTCACAATCGGGGATACTCCACCCTAT
66 TTCACAATCGGAGATACTCCACCCTAT
* * * *
2221617 TACTCTAACCCCGTTATTTTCGACGGGATACTCCAACCCTGGTTTTATTTCTAAAACATTGATTT
1 TACTCCAACCCCGTTATTTTCGACGAGATACTCCAACCCTAGTTTTATTTCTAAAACATCGATTT
* *
2221682 TTTAGAATCGGAGATACTCCA
66 TTCACAATCGGAGATACTCCA
2221703 ACCCCGTTAT
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
92 78 1.00
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.34
Consensus pattern (92 bp):
TACTCCAACCCCGTTATTTTCGACGAGATACTCCAACCCTAGTTTTATTTCTAAAACATCGATTT
TTCACAATCGGAGATACTCCACCCTAT
Found at i:2221752 original size:79 final size:78
Alignment explanation
Indices: 2221617--2222107 Score: 481
Period size: 79 Copynumber: 6.2 Consensus size: 78
2221607 TCCACCCTAT
* * * * *
2221617 TACTCTAACCCCGTTATTTTCGACGGGATACTCCAACCCTGGTTTTATTTCTAAAACATTGATTT
1 TACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCC-GATTTTATTTCTAAAACATCGATTT
** *
2221682 TTTAGAATCGGAGA
65 TCCACAATCGGAGA
* * *
2221696 TACTCCAACCCCGTTATTTTTGAAGGGATACTCTAACCTCGATTTTATTTCGAAAACATC-ATTT
1 TACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACC-CGATTTTATTTCTAAAACATCGATTT
*
2221760 TCCACTATCGGAGA
65 TCCACAATCGGAGA
* * * * * * *
2221774 TACTCTAACCCTGTTATTTTCGAGGGGATATTCCAATCCTGGTTTTATTTCTAAAACATCAATTT
1 TACTCCAACCCCGTTATTTTTGAGGGGATACTCCAA-CCCGATTTTATTTCTAAAACATCGATTT
*
2221839 T-CACAA-CCGAGGA
65 TCCACAATCGGA-GA
** * * * * * *
2221852 TACTCCAACCTTGTTATTTCTGATGGGATACTTCAACCCTAGTTTTATTTCTAAAACACCAATTT
1 TACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCGA-TTTTATTTCTAAAACATCGATTT
* * *
2221917 TCTACCATCGGGGA
65 TCCACAATCGGAGA
* * ** *
2221931 GACTCCAATCCCGTTATTTTTGAGGGGATACTTAAACTCCGATTTTATTTCTAAAACATCGACTT
1 TACTCCAACCCCGTTATTTTTGAGGGGATACTCCAAC-CCGATTTTATTTCTAAAACATCGATTT
2221996 TCCACAATC-GAGGA
65 TCCACAATCGGA-GA
* *
2222010 TACTCTAATCCCGTTATTTTTGAGGGGATACTCCAACCCTGATTTTATTT-TCAAAACATCGATT
1 TACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCC-GATTTTATTTCT-AAAACATCGATT
* *
2222074 TTTCATC-ATCGGGGA
64 TTCCA-CAATCGGAGA
*
2222089 TATTCCAACCCCGTTATTT
1 TACTCCAACCCCGTTATTT
2222108 CCTAGGAGAT
Statistics
Matches: 338, Mismatches: 61, Indels: 26
0.80 0.14 0.06
Matches are distributed among these distances:
77 5 0.01
78 124 0.37
79 201 0.59
80 8 0.02
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (78 bp):
TACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCGATTTTATTTCTAAAACATCGATTTT
CCACAATCGGAGA
Found at i:2221754 original size:171 final size:171
Alignment explanation
Indices: 2221451--2221778 Score: 464
Period size: 171 Copynumber: 1.9 Consensus size: 171
2221441 GGGAGACTTC
* *
2221451 AACCCCGTTATTTTTCGAGGGGATACTCCAACGCCGGTTTTATTTCTAAAACATCGATTTTCCAT
1 AACCCCGTTATTTTTCGACGGGATACTCCAACGCCGGTTTTATTTCTAAAACATCGATTTTCCAG
* * * * *
2221516 AATCGGGGATACTCCAACCCCGTTATTTTCGACGAGATACTCCAGCCCTAGTTTTATTTCTAAAA
66 AATCGGAGATACTCCAACCCCGTTATTTTCGAAGAGATACTCCAACCCGAGTTTTATTTCGAAAA
* *
2221581 CATCGATTTTTCACAATCGGGGATACTCCACCCTATTACTCT
131 CATC-ATTTTCCACAATCGGAGATACTCCACCCTATTACTCT
* **
2221623 AACCCCGTTA-TTTTCGACGGGATACTCCAAC-CCTGGTTTTATTTCTAAAACATTGATTTTTTA
1 AACCCCGTTATTTTTCGACGGGATACTCCAACGCC-GGTTTTATTTCTAAAACATCGATTTTCCA
* * *
2221686 GAATCGGAGATACTCCAACCCCGTTATTTTTGAAGGGATACTCTAACCTCGA-TTTTATTTCGAA
65 GAATCGGAGATACTCCAACCCCGTTATTTTCGAAGAGATACTCCAACC-CGAGTTTTATTTCGAA
*
2221750 AACATCATTTTCCACTATCGGAGATACTC
129 AACATCATTTTCCACAATCGGAGATACTC
2221779 TAACCCTGTT
Statistics
Matches: 138, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
170 22 0.16
171 104 0.75
172 12 0.09
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (171 bp):
AACCCCGTTATTTTTCGACGGGATACTCCAACGCCGGTTTTATTTCTAAAACATCGATTTTCCAG
AATCGGAGATACTCCAACCCCGTTATTTTCGAAGAGATACTCCAACCCGAGTTTTATTTCGAAAA
CATCATTTTCCACAATCGGAGATACTCCACCCTATTACTCT
Found at i:2221917 original size:157 final size:155
Alignment explanation
Indices: 2221617--2222107 Score: 512
Period size: 157 Copynumber: 3.1 Consensus size: 155
2221607 TCCACCCTAT
* * * * * *
2221617 TACTCTAACCCCGTTATTTTCGACGGGATACTCCAACCCTGGTTTTATTTCTAAAACATTGATTT
1 TACTCCAACCCCGTTATTTTCGAGGGGATATTCCAATCCTGGTTTTATTTCTAAAACA-TCAATT
* *
2221682 TTTAGAATCG-GAGATACTCCAACCCCGTTATTTTTGAAGGGATAC-TCTAA-CCTCGATTTTAT
65 TTCACAATCGAG-GATACTCCAA-CCCGTTATTTTTGAAGGGATACTTC-AACCCT-GATTTTAT
* *
2221744 TTCGAAAACATCATTTTCCACTATCGGAGA
126 TTCTAAAACATCATTTTCCACTATCGGGGA
* *
2221774 TACTCTAACCCTGTTATTTTCGAGGGGATATTCCAATCCTGGTTTTATTTCTAAAACATCAATTT
1 TACTCCAACCCCGTTATTTTCGAGGGGATATTCCAATCCTGGTTTTATTTCTAAAACATCAATTT
* * * *
2221839 TCACAACCGAGGATACTCCAACCTTGTTATTTCTGATGGGATACTTCAACCCT-AGTTTTATTTC
66 TCACAATCGAGGATACTCCAACC-CGTTATTTTTGAAGGGATACTTCAACCCTGA-TTTTATTTC
* * *
2221903 TAAAACACCAATTTTCTACCATCGGGGA
129 TAAAACATC-ATTTTCCACTATCGGGGA
* * * * * *
2221931 GACTCCAATCCCGTTATTTTTGAGGGGATACTT-AAACTCC-GATTTTATTTCTAAAACATCGAC
1 TACTCCAACCCCGTTATTTTCGAGGGGATA-TTCCAA-TCCTGGTTTTATTTCTAAAACATC-AA
* * * *
2221994 TTTCCACAATCGAGGATACTCTAATCCCGTTATTTTTGAGGGGATACTCCAACCCTGATTTTATT
63 TTTTCACAATCGAGGATACTCCAA-CCCGTTATTTTTGAAGGGATACTTCAACCCTGATTTTATT
*
2222059 T-TCAAAACATCGATTTTTCA-TCATCGGGGA
127 TCT-AAAACATC-ATTTTCCACT-ATCGGGGA
*
2222089 TATTCCAACCCCGTTATTT
1 TACTCCAACCCCGTTATTT
2222108 CCTAGGAGAT
Statistics
Matches: 281, Mismatches: 40, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
155 3 0.01
156 56 0.20
157 122 0.43
158 97 0.35
159 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (155 bp):
TACTCCAACCCCGTTATTTTCGAGGGGATATTCCAATCCTGGTTTTATTTCTAAAACATCAATTT
TCACAATCGAGGATACTCCAACCCGTTATTTTTGAAGGGATACTTCAACCCTGATTTTATTTCTA
AAACATCATTTTCCACTATCGGGGA
Found at i:2237927 original size:79 final size:79
Alignment explanation
Indices: 2237819--2238186 Score: 382
Period size: 79 Copynumber: 4.7 Consensus size: 79
2237809 TTATTGATGT
* * * * * * *
2237819 TTTTATTTCTAAAATACTGATTTTCCACCATTGGGGATACTCTAACCCTGTTATTTTCGAGGGAA
1 TTTTATTTCTAAAACACTAATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
*
2237884 TACTCCAACCCCAA
66 TACTCCAACCCCGA
* * * * *
2237898 TTTTATTTCTAAAACACTAATTTTTCACCATCGAGGATACTCCAACCCCATTATTTTTGAGGGGA
1 TTTTATTTCTAAAACACTAATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
* *
2237963 TACTCAAACCTCGA
66 TACTCCAACCCCGA
* * * * ** * * * **
2237977 TTTTATTTTTGAAAC-GTCGATTTTCCATTATCGAGGATACTCCAAGCCCATTATTTTTAAGGGG
1 TTTTATTTCTAAAACACT-AATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGG
* * *
2238041 ATACTCCGACCCTGG
65 ATACTCCAACCCCGA
2238056 TTTTATTTCTAAAACACTAATTTTCCACAATCGGGGATACTCCAACCCCGTT-TTTTCGAAGGGG
1 TTTTATTTCTAAAACACTAATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCG-AGGGG
** *
2238120 -TACTCCAACCTTGG
65 ATACTCCAACCCCGA
** *
2238134 TTTTATTTCTAAAACACTAATTTTTTACAATCGGGGATACTCCAACCCTGTTA
1 TTTTATTTCTAAAACACTAATTTTCCACAATCGGGGATACTCCAACCCCGTTA
2238187 CTCCAACCCC
Statistics
Matches: 242, Mismatches: 43, Indels: 8
0.83 0.15 0.03
Matches are distributed among these distances:
78 66 0.27
79 175 0.72
80 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (79 bp):
TTTTATTTCTAAAACACTAATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
TACTCCAACCCCGA
Found at i:2238190 original size:14 final size:14
Alignment explanation
Indices: 2238171--2238200 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2238161 CAATCGGGGA
*
2238171 TACTCCAACCCTGT
1 TACTCCAACCCCGT
2238185 TACTCCAACCCCGT
1 TACTCCAACCCCGT
2238199 TA
1 TA
2238201 TTTTCGAGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.43, G:0.07, T:0.27
Consensus pattern (14 bp):
TACTCCAACCCCGT
Found at i:2238349 original size:78 final size:78
Alignment explanation
Indices: 2238258--2238554 Score: 343
Period size: 79 Copynumber: 3.8 Consensus size: 78
2238248 TTTTCACTTT
*
2238258 TAAAACACTGATTTTTCACAATCGAGGATACTCCAACACCATTATTTCTGAGGGGATA-TCTAAC
1 TAAAACACCGATTTTTCACAATCGAGGATACTCCAACACCATTATTTCTGAGGGGATACTCTAAC
*
2238322 CCTGATTTTATTTT
66 CC-GATTTTATTTC
* * * * *
2238336 TAAAATACCGATTTTTCACCATC-AGGGATACTCCAACTCCGTTATTTCCGAGGGGATACTCTAA
1 TAAAACACCGATTTTTCACAATCGA-GGATACTCCAACACCATTATTTCTGAGGGGATACTCTAA
*
2238400 CCCCAGTTTTATTTC
65 CCCGA-TTTTATTTC
* * * * *
2238415 TAAAACATCGACTTTTCACAATCGAGGATACTCCAAC-CCTGTTATTT-TCGAAGGGATACTTTA
1 TAAAACACCGATTTTTCACAATCGAGGATACTCCAACACC-ATTATTTCT-GAGGGGATACTCT-
2238478 AACCCGATTTTATTTC
63 AACCCGATTTTATTTC
* * * *
2238494 CAAAACACCGATTTTTCACCATTG-GAGATATTCCAACACCATTATTTCTGAGGGGATACTC
1 TAAAACACCGATTTTTCACAATCGAG-GATACTCCAACACCATTATTTCTGAGGGGATACTC
2238555 CAAGGGAATA
Statistics
Matches: 184, Mismatches: 25, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
77 1 0.01
78 54 0.29
79 119 0.65
80 10 0.05
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (78 bp):
TAAAACACCGATTTTTCACAATCGAGGATACTCCAACACCATTATTTCTGAGGGGATACTCTAAC
CCGATTTTATTTC
Found at i:2238547 original size:158 final size:157
Alignment explanation
Indices: 2238270--2238554 Score: 398
Period size: 158 Copynumber: 1.8 Consensus size: 157
2238260 AAACACTGAT
*
2238270 TTTTCACAATCGAGGATACTCCAACACCATTATTTCTGAGGGGATATCTAACCCTGATTTTATTT
1 TTTTCACAATCGAGGATACTCCAACACCATTATTTCTGAAGGGATATCTAACCCTGATTTTATTT
** * * *
2238335 TTAAAATACCGATTTTTCACCATCAGGGATACTCCAACTCCGTTATTTCCGAGGGGATACTCTAA
66 CCAAAACACCGATTTTTCACCATCAGGGATACTCCAACACCATTATTTCCGAGGGGATACTCTAA
2238400 CCCCAGTTTTATTTCTAAAACATCGAC
131 CCCCAGTTTTATTTCTAAAACATCGAC
* *
2238427 TTTTCACAATCGAGGATACTCCAAC-CCTGTTATTT-TCGAAGGGATACTTTAAACCC-GATTTT
1 TTTTCACAATCGAGGATACTCCAACACC-ATTATTTCT-GAAGGGATA-TCT-AACCCTGATTTT
* * *
2238489 ATTTCCAAAACACCGATTTTTCACCAT-TGGAGATATTCCAACACCATTATTTCTGAGGGGATAC
62 ATTTCCAAAACACCGATTTTTCACCATCAGG-GATACTCCAACACCATTATTTCCGAGGGGATAC
2238553 TC
126 TC
2238555 CAAGGGAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
156 3 0.03
157 41 0.37
158 63 0.56
159 5 0.04
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.34
Consensus pattern (157 bp):
TTTTCACAATCGAGGATACTCCAACACCATTATTTCTGAAGGGATATCTAACCCTGATTTTATTT
CCAAAACACCGATTTTTCACCATCAGGGATACTCCAACACCATTATTTCCGAGGGGATACTCTAA
CCCCAGTTTTATTTCTAAAACATCGAC
Done.