Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008690.1 Hibiscus syriacus cultivar Beakdansim tig00111718_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 531595
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 1 of 3
Found at i:5960 original size:117 final size:117
Alignment explanation
Indices: 5790--6077 Score: 470
Period size: 117 Copynumber: 2.5 Consensus size: 117
5780 TTTCCCGAAA
* * **
5790 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACAAAGCCGAGGAGTCTGCAGTAAT
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAGTCTGCAGTAAT
5855 AAC-TTCTCTATCCAGTCACTCCAATCACTACAATGTGTAGGTTCCCCAGAAC
66 AACTTTCTC-ATCCAGTCACTCCAATCACTACAATGTGTAGGTTCCCCAGAAC
* * *
5907 CATACACCCACCTGCACACCAGTAAGGACATACCCTGAGCACACAGTAAAGGAGTCTGCGGTAAT
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAGTCTGCAGTAAT
5972 AACTTTCTCATCCAGTCACTCCAATCACTACAATGTGTAGGTTCCCCAGAAC
66 AACTTTCTCATCCAGTCACTCCAATCACTACAATGTGTAGGTTCCCCAGAAC
* * *
6024 CATACACCTACTTGCACACCAATAAGGACTTACCCTGAGCACACAGCAAAGGAG
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAG
6078 CTTGAAATGC
Statistics
Matches: 158, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
117 153 0.97
118 5 0.03
ACGTcount: A:0.33, C:0.32, G:0.16, T:0.19
Consensus pattern (117 bp):
CATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAGCAAAGGAGTCTGCAGTAAT
AACTTTCTCATCCAGTCACTCCAATCACTACAATGTGTAGGTTCCCCAGAAC
Found at i:7045 original size:29 final size:29
Alignment explanation
Indices: 7006--7194 Score: 152
Period size: 28 Copynumber: 6.6 Consensus size: 29
6996 ATTTTTTTTA
* * *
7006 AATTACGAAAATATCACCATTTTGAAATT
1 AATTACCAAAATATCACCATTTTCAAAAT
* *
7035 AATTACCAAAATAGCATCATTTTCAAAAT
1 AATTACCAAAATATCACCATTTTCAAAAT
* *
7064 AATTACTAAAATATCACTC-TTTTAAAAAT
1 AATTACCAAAATATCAC-CATTTTCAAAAT
* * * * * * *
7093 -TTTACGAAATTGTCACCTTTTTAAAAAA
1 AATTACCAAAATATCACCATTTTCAAAAT
*
7121 AATTA-CAAAATAGCACCATTTTCAAAAT
1 AATTACCAAAATATCACCATTTTCAAAAT
* * * *
7149 AATTACCAGAATAGCATCA-TTTCCAAAT
1 AATTACCAAAATATCACCATTTTCAAAAT
* *
7177 AATTACTAAAATGTCACC
1 AATTACCAAAATATCACC
7195 CGATCAACGG
Statistics
Matches: 126, Mismatches: 30, Indels: 9
0.76 0.18 0.05
Matches are distributed among these distances:
27 1 0.01
28 63 0.50
29 61 0.48
30 1 0.01
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
AATTACCAAAATATCACCATTTTCAAAAT
Found at i:7137 original size:28 final size:28
Alignment explanation
Indices: 7005--7188 Score: 122
Period size: 29 Copynumber: 6.4 Consensus size: 28
6995 CATTTTTTTT
* * *
7005 AAATTACGAAAATATCACCATTTTGAAAT
1 AAATTAC-AAAATAGCACCATTTTCAAAA
* *
7034 TAATTACCAAAATAGCATCATTTTCAAAA
1 AAATTA-CAAAATAGCACCATTTTCAAAA
* *
7063 TAATTACTAAAATATCACTC-TTTT-AAAA
1 AAATTAC-AAAATAGCAC-CATTTTCAAAA
** * * * *
7091 ATTTTACGAAATTGTCACCTTTTTAAAAA
1 AAATTACAAAATAG-CACCATTTTCAAAA
7120 AAATTACAAAATAGCACCATTTTCAAAA
1 AAATTACAAAATAGCACCATTTTCAAAA
* * * *
7148 TAATTACCAGAATAGCATCA-TTTCCAAA
1 AAATTA-CAAAATAGCACCATTTTCAAAA
*
7176 TAATTACTAAAAT
1 AAATTAC-AAAAT
7189 GTCACCCGAT
Statistics
Matches: 123, Mismatches: 24, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
27 6 0.05
28 50 0.41
29 65 0.53
30 2 0.02
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (28 bp):
AAATTACAAAATAGCACCATTTTCAAAA
Found at i:7192 original size:85 final size:87
Alignment explanation
Indices: 7006--7194 Score: 222
Period size: 85 Copynumber: 2.2 Consensus size: 87
6996 ATTTTTTTTA
* * ** * *
7006 AATTACGAAAATATCACCATTTTGAAATTAATTACCAAAATAGCATCATTTTCAAAATAATTACT
1 AATTACGAAAATGTCACCATTTTAAAAAAAATTACCAAAATAGCACCATTTTCAAAATAATTACC
* *
7071 AAAATATCACTCTTTTAAAAAT
66 AAAATAGCACTCATTTAAAAAT
* * *
7093 -TTTACGAAATTGTCACCTTTTTAAAAAAAATTA-CAAAATAGCACCATTTTCAAAATAATTACC
1 AATTACGAAAATGTCACCATTTTAAAAAAAATTACCAAAATAGCACCATTTTCAAAATAATTACC
* **
7156 AGAATAGCA-TCATTTCCAAAT
66 AAAATAGCACTCATTTAAAAAT
*
7177 AATTACTAAAATGTCACC
1 AATTACGAAAATGTCACC
7195 CGATCAACGG
Statistics
Matches: 84, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
84 9 0.11
85 49 0.58
86 26 0.31
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.33
Consensus pattern (87 bp):
AATTACGAAAATGTCACCATTTTAAAAAAAATTACCAAAATAGCACCATTTTCAAAATAATTACC
AAAATAGCACTCATTTAAAAAT
Found at i:7939 original size:3 final size:3
Alignment explanation
Indices: 7933--7959 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7923 AATTCAATTA
7933 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
7960 TTCAAATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:8380 original size:10 final size:10
Alignment explanation
Indices: 8348--8374 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
8338 TCCAAATCAG
8348 AAAAAAAACT
1 AAAAAAAACT
8358 AAAAAAAACT
1 AAAAAAAACT
8368 AAAAAAA
1 AAAAAAA
8375 GGTAAATTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.85, C:0.07, G:0.00, T:0.07
Consensus pattern (10 bp):
AAAAAAAACT
Found at i:14172 original size:24 final size:25
Alignment explanation
Indices: 14145--14191 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
14135 ATTAACTACA
14145 TTATTATAAA-AATATAAT-ATTAAT
1 TTATTATAAATAATA-AATCATTAAT
*
14169 TTATTTTAAATAATAAATCATTA
1 TTATTATAAATAATAAATCATTA
14192 TTTGATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
TTATTATAAATAATAAATCATTAAT
Found at i:14181 original size:28 final size:29
Alignment explanation
Indices: 14150--14206 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
14140 CTACATTATT
14150 ATAA-AAAT-ATAATATTAATTTATTTTAA
1 ATAATAAATCATAAT-TTAATTTATTTTAA
* *
14178 ATAATAAATCATTATTTGATTTATTTTAA
1 ATAATAAATCATAATTTAATTTATTTTAA
14207 CATATAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.16
29 17 0.68
30 4 0.16
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (29 bp):
ATAATAAATCATAATTTAATTTATTTTAA
Found at i:14194 original size:24 final size:24
Alignment explanation
Indices: 14145--14199 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 24
14135 ATTAACTACA
*
14145 TTATTATAAAAATATAATATTAAT
1 TTATTTTAAAAATATAATATTAAT
14169 TTATTTTAAATAATA-AATCATT-AT
1 TTATTTTAAA-AATATAAT-ATTAAT
14193 TTGATTT
1 TT-ATTT
14200 ATTTTAACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 16 0.59
25 11 0.41
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
TTATTTTAAAAATATAATATTAAT
Found at i:23892 original size:2 final size:2
Alignment explanation
Indices: 23885--23918 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
23875 CGGGCGGTTA
23885 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23919 GATGTTATCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24139 original size:20 final size:21
Alignment explanation
Indices: 24109--24147 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
24099 ATTACATATA
24109 CAAATATGACAAAACCGGTCC
1 CAAATATGACAAAACCGGTCC
24130 CAAA-ATGACAAAACCGGT
1 CAAATATGACAAAACCGGT
24148 AAAACGCTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.46, C:0.26, G:0.15, T:0.13
Consensus pattern (21 bp):
CAAATATGACAAAACCGGTCC
Found at i:24417 original size:182 final size:174
Alignment explanation
Indices: 24171--24645 Score: 625
Period size: 171 Copynumber: 2.7 Consensus size: 174
24161 ATATGTGTCG
*
24171 AGTGTCGATAATTTAATATAAGTATCGAAACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCC
1 AGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCC
* ** * * * *
24236 TATAAAGTGTCGATACTTTAAAAAAATATATCAATCAACAATAATATAACAGGTAAAAATATGAT
66 TAAAAAGTGTCGATACTTTATGAAAATGTATCGATCCATAATAATATAACAGGTAAAAA-A--AT
*
24301 AAAACTGATCTCAAAAATGAAAAAACCGGAAAAAA-TTACCGGATATATTGAA
128 ---A-TG-TCTCAAAAATGAAAAAACC-GAAAAAAGTTACCGGATATATTAAA
* *
24353 AGTGTCAATAATTTAATATTAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCC
1 AGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCC
* * * *
24418 TAAAAAGTGTC-ACACTTTATGAAAATGTATCGATCCTTACTAATATAACAAGT--AAAAATATG
66 TAAAAAGTGTCGATACTTTATGAAAATGTATCGATCCATAATAATATAACAGGTAAAAAAATATG
* * *
24480 TCTCAAAAATGACAAAACCGAAAAAAGTTACCGTATATGTTAAA
131 TCTCAAAAATGAAAAAACCGAAAAAAGTTACCGGATATATTAAA
* * * *
24524 AGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAAAAATTATTGCGCT
1 AGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCC
* *
24589 TAAAAAGTGTCGATACTTTATGAAAATGTATCGATCCATAACAATATAATAGGTAAA
66 TAAAAAGTGTCGATACTTTATGAAAATGTATCGATCCATAATAATATAACAGGTAAA
24646 TTTACAATTT
Statistics
Matches: 259, Mismatches: 30, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
170 7 0.03
171 102 0.39
172 38 0.15
173 1 0.00
174 1 0.00
176 2 0.01
178 1 0.00
179 3 0.01
181 32 0.12
182 72 0.28
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (174 bp):
AGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCC
TAAAAAGTGTCGATACTTTATGAAAATGTATCGATCCATAATAATATAACAGGTAAAAAAATATG
TCTCAAAAATGAAAAAACCGAAAAAAGTTACCGGATATATTAAA
Found at i:25133 original size:199 final size:199
Alignment explanation
Indices: 24785--26069 Score: 2018
Period size: 199 Copynumber: 6.5 Consensus size: 199
24775 GTAAACTTAT
* * * *
24785 GTGTCGATACATTTATAACAAGTGTCGATCTCAAAAACATCGAAAATCATTATTATAATTTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* * * * *
24850 GGTAAATTAGTAATATTACCAGTCTAAATATACCGATTTTTGAGAAAACATGTGTAAAAAAAGTA
66 GGTAAATTAGAAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAAAGTA
* ** * *
24915 TCGACACGAATTAAACAAGTGTTGATACTTTTGGTCTAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
*
24980 AAAC
196 AAAA
*
24984 GTGTAGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
25049 GGTAAATTAGAAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAAAGTA
66 GGTAAATTAGAAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAAAGTA
* * * *
25114 TCGACACAAATTGAACAAGTGTCGATACTTTTTGTCCATAATGTATTTCAAAAACAAGTGCACT-
131 TCGACACAAATCGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
25178 AAAA
196 AAAA
* *
25182 GTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACTATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* * *
25247 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAGTC-GGTGTACAAAAAGT
66 GGTAAATTAGAAATATAACCGGTCTAAATATACCGATTTTTGAGAAA-ACAGGTGTACAAAAAGT
* *
25311 ATCGACACAAATCTAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTAAAAACCAAGTGCACT
130 ATCGACACAAATCGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACT
25376 AAAAA
195 AAAAA
* *
25381 GTGTCGATACATTTATAACAAGTGTCGATCTCAAAAACATCGAAAATCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* * *
25446 GGTAAATTAGCAATATAACCGGTCTAAATATACCAATTTTTGAGAAAACAGGTGTAAAAAAAGTA
66 GGTAAATTAGAAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAAAGTA
* *
25511 TCGACACAAATCAAATAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
25576 AAAA
196 AAAA
25580 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* * *
25645 GGTAAATTGGAAATATAACCGGTCTAAATATACCGATTTTTTAGAAAACAAGTGTACAAAAAGTA
66 GGTAAATTAGAAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAAAGTA
* *
25710 TCGACACAAATCGAACAAGTGTCGATACTTTT-TTCTAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
25774 AAAA
196 AAAA
* * *
25778 GTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCAAAAACTATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
*
25843 GGTAAATTA-ACAATATAATCGGTCTAAATATACCGATTTTTGAGAAAATC-GGTGTACAAAAAG
66 GGTAAATTAGA-AATATAACCGGTCTAAATATACCGATTTTTGAGAAAA-CAGGTGTACAAAAAG
*
25906 TATCGACACAAATCGAGCAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTG--C
129 TATCGACACAAATCGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCAC
25969 ----AA
194 TAAAAA
*
25971 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAAAAATCGAAAACCATAATTATAATGTAAT
1 GTGTCGATACATTTATAACAAGTGTCGATCCC-AAAAACATCGAAAACCATAATTATAATGTAAT
**
26036 AGGTAAATTA-ACAATATAATTGGTCTAAATATAC
65 AGGTAAATTAGA-AATATAACCGGTCTAAATATAC
26070 TGGTTTAAAT
Statistics
Matches: 1011, Mismatches: 68, Indels: 19
0.92 0.06 0.02
Matches are distributed among these distances:
193 33 0.03
194 62 0.06
197 2 0.00
198 368 0.36
199 546 0.54
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (199 bp):
GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
GGTAAATTAGAAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAAAGTA
TCGACACAAATCGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
AAAA
Found at i:25518 original size:397 final size:397
Alignment explanation
Indices: 24785--26069 Score: 2041
Period size: 397 Copynumber: 3.2 Consensus size: 397
24775 GTAAACTTAT
* * * *
24785 GTGTCGATACATTTATAACAAGTGTCGATCTCAAAAACATCGAAAATCATTATTATAATTTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* * * * *
24850 GGTAAATTAGTAATATTACCAGTCTAAATATACCGATTTTTGAGAAAACATGTGTAAAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAAGTGTACAAAAAGTA
* *
24915 TCGACACGAAT-TAAACAAGTGTTGATACTTTTGGTCTAGAATGTATTTCAAAACCAAGTGCACT
131 TCGACACAAATCT-AACAAGTGTCGATACTTTTGGTCTAGAATGTATTTCAAAACCAAGTGCACT
* * *
24979 AAAACGTGTAGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATG
195 AAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATG
*
25044 TAATAGGTAAATTAGAAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAA
260 TAATAGGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAA
* * * *
25109 AAGTATCGACACAAATTGAACAAGTGTCGATACTTTTTGTCCATAATGTATTTCAAAAACAAGTG
325 AAGTATCGACACAAATCGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTG
25174 CACTAAAA
390 CACTAAAA
* *
25182 GTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACTATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* * *
25247 GGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAGTC-GGTGTACAAAAAGT
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAA-ACAAGTGTACAAAAAGT
* *
25311 ATCGACACAAATCTAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTAAAAACCAAGTGCACT
130 ATCGACACAAATCTAACAAGTGTCGATACTTTTGGTCTAGAATGTATTTCAAAACCAAGTGCACT
* *
25376 AAAAAGTGTCGATACATTTATAACAAGTGTCGATCTCAAAAACATCGAAAATCATAATTATAATG
195 AAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATG
* *
25441 TAATAGGTAAATTAGCAATATAACCGGTCTAAATATACCAATTTTTGAGAAAACAGGTGTAAAAA
260 TAATAGGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAA
* *
25506 AAGTATCGACACAAATCAAATAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTG
325 AAGTATCGACACAAATCGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTG
25571 CACTAAAAA
390 CACT-AAAA
25580 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
* * *
25645 GGTAAATTGGAAATATAACCGGTCTAAATATACCGATTTTTTAGAAAACAAGTGTACAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAAGTGTACAAAAAGTA
* *
25710 TCGACACAAATCGAACAAGTGTCGATACTTTT-TTCTAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCTAACAAGTGTCGATACTTTTGGTCTAGAATGTATTTCAAAACCAAGTGCACTA
*
25774 AAAAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATC-AAAAACTATAATTATAATG
196 AAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAAC-ATAATTATAATG
* *
25838 TAATAGGTAAATTAACAATATAATCGGTCTAAATATACCGATTTTTGAGAAAATC-GGTGTACAA
260 TAATAGGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAAA-CAGGTGTACAA
*
25902 AAAGTATCGACACAAATCGAGCAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGT
324 AAAGTATCGACACAAATCGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGT
25967 G--C---AA
389 GCACTAAAA
*
25971 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAAAAATCGAAAACCATAATTATAATGTAAT
1 GTGTCGATACATTTATAACAAGTGTCGATCCC-AAAAACATCGAAAACCATAATTATAATGTAAT
* **
26036 AGGTAAATTAACAATATAATTGGTCTAAATATAC
65 AGGTAAATTAGCAATATAACCGGTCTAAATATAC
26070 TGGTTTAAAT
Statistics
Matches: 823, Mismatches: 58, Indels: 19
0.91 0.06 0.02
Matches are distributed among these distances:
391 34 0.04
392 60 0.07
395 1 0.00
396 5 0.01
397 565 0.69
398 158 0.19
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (397 bp):
GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATA
GGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAAGTGTACAAAAAGTA
TCGACACAAATCTAACAAGTGTCGATACTTTTGGTCTAGAATGTATTTCAAAACCAAGTGCACTA
AAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGT
AATAGGTAAATTAGCAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAA
AGTATCGACACAAATCGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGC
ACTAAAA
Found at i:25917 original size:596 final size:590
Alignment explanation
Indices: 24785--26069 Score: 2176
Period size: 596 Copynumber: 2.2 Consensus size: 590
24775 GTAAACTTAT
* *
24785 GTGTCGATACATTTATAACAAGTGTCGATCTCAAAAACATCGAAAATCATTATTATAATTTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCTCAAAAACATCGAAAATCATAATTATAATGTAATA
* * * * *
24850 GGTAAATTAGTAATATTACCAGTCTAAATATACCGATTTTTGAGAAAACATGTGTAAAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCAATTTTTGAGAAAACAGGTGTAAAAAAAGTA
* * * *
24915 TCGACACGAATTAAACAAGTGTTGATACTTTTGGTCTAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
*
24980 AAACGTGTAGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGT
196 AAAAGTGTAGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGT
*
25045 AATAGGTAAATTAGAAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAGGTGTACAAAA
261 AATAGGTAAATTAGAAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAAGTGTACAAAA
* *
25110 AGTATCGACACAAATTGAACAAGTGTCGATACTTTTTGTCCATAATGTATTTCAAAAACAAGTGC
326 AGTATCGACACAAATCGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGC
*
25175 ACTAAAAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACTATAATTATAA
391 ACTAAAAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCAAAAACTATAATTATAA
* * *
25240 TGTAATAGGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAGTCGGTGTACA
456 TGTAATAGGTAAATTAACAATATAACCGGTCTAAATATACCGATTTTTGAGAAAATCGGTGTACA
*
25305 AAAAGTATCGACACAAATCTAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTAAAAACCAAG
521 AAAAGTATCGACACAAATCGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTAAAAACCAAG
25370 TGCACTAAAAA
586 TG--C----AA
25381 GTGTCGATACATTTATAACAAGTGTCGATCTCAAAAACATCGAAAATCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCTCAAAAACATCGAAAATCATAATTATAATGTAATA
25446 GGTAAATTAGCAATATAACCGGTCTAAATATACCAATTTTTGAGAAAACAGGTGTAAAAAAAGTA
66 GGTAAATTAGCAATATAACCGGTCTAAATATACCAATTTTTGAGAAAACAGGTGTAAAAAAAGTA
*
25511 TCGACACAAATCAAATAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
*
25576 AAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGT
196 AAAAGTGTAGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGT
* *
25641 AATAGGTAAATTGGAAATATAACCGGTCTAAATATACCGATTTTTTAGAAAACAAGTGTACAAAA
261 AATAGGTAAATTAGAAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAAGTGTACAAAA
* *
25706 AGTATCGACACAAATCGAACAAGTGTCGATACTTTTT-TCTAGAATGTATTTCAAAACCAAGTGC
326 AGTATCGACACAAATCGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGC
25770 ACTAAAAAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCAAAAACTATAATTATA
391 ACT-AAAAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCAAAAACTATAATTATA
*
25835 ATGTAATAGGTAAATTAACAATATAATCGGTCTAAATATACCGATTTTTGAGAAAATCGGTGTAC
455 ATGTAATAGGTAAATTAACAATATAACCGGTCTAAATATACCGATTTTTGAGAAAATCGGTGTAC
* *
25900 AAAAAGTATCGACACAAATCGAGCAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAA
520 AAAAAGTATCGACACAAATCGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTAAAAACCAA
25965 GTGCAA
585 GTGCAA
* * *
25971 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAAAAATCGAAAACCATAATTATAATGTAAT
1 GTGTCGATACATTTATAACAAGTGTCGATCTC-AAAAACATCGAAAATCATAATTATAATGTAAT
* **
26036 AGGTAAATTAACAATATAATTGGTCTAAATATAC
65 AGGTAAATTAGCAATATAACCGGTCTAAATATAC
26070 TGGTTTAAAT
Statistics
Matches: 652, Mismatches: 35, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
590 33 0.05
591 61 0.09
594 1 0.00
595 27 0.04
596 530 0.81
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (590 bp):
GTGTCGATACATTTATAACAAGTGTCGATCTCAAAAACATCGAAAATCATAATTATAATGTAATA
GGTAAATTAGCAATATAACCGGTCTAAATATACCAATTTTTGAGAAAACAGGTGTAAAAAAAGTA
TCGACACAAATCAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
AAAAGTGTAGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGT
AATAGGTAAATTAGAAATATAACCGGTCTAAATATACCGATTTTTGAGAAAACAAGTGTACAAAA
AGTATCGACACAAATCGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGC
ACTAAAAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCAAAAACTATAATTATAA
TGTAATAGGTAAATTAACAATATAACCGGTCTAAATATACCGATTTTTGAGAAAATCGGTGTACA
AAAAGTATCGACACAAATCGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTAAAAACCAAG
TGCAA
Found at i:26443 original size:15 final size:15
Alignment explanation
Indices: 26423--26464 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
26413 TTTCTCAAAT
26423 CTCTTCTCAACCCAC
1 CTCTTCTCAACCCAC
* *
26438 CTCTTCCCAACCCAG
1 CTCTTCTCAACCCAC
*
26453 TTCTTCTCAACC
1 CTCTTCTCAACC
26465 ACAAATTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.19, C:0.50, G:0.02, T:0.29
Consensus pattern (15 bp):
CTCTTCTCAACCCAC
Found at i:29060 original size:21 final size:21
Alignment explanation
Indices: 29036--29081 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
29026 ACAAAATGTA
29036 TCGACAAAACTAAAACAAGTG
1 TCGACAAAACTAAAACAAGTG
* * **
29057 TCGATACATTTAAAACAAGTG
1 TCGACAAAACTAAAACAAGTG
29078 TCGA
1 TCGA
29082 TCCCCAAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.22
Consensus pattern (21 bp):
TCGACAAAACTAAAACAAGTG
Found at i:29431 original size:199 final size:200
Alignment explanation
Indices: 29052--30363 Score: 1917
Period size: 199 Copynumber: 6.6 Consensus size: 200
29042 AAACTAAAAC
* *
29052 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCCAAAATATCGAAAAACATAATTATAATGTAA
1 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* *
29117 TAGGTAAATTATTC-ATGTAAAAGGTCTAAATATACCGGTTTTTGAGAAAAACATGTGTACAAAA
66 TAGGTAAATTATTCAATGTAAACGGTCTAAATATACCGGTTTTTGAG-AAAACAGGTGTACAAAA
** *
29181 AGTATCGACACAAATCTAACAAGTGTCGATACTTTTTCTCCAGACTGTATTTCAAAACCAAGTGC
130 AGTATCGACACAAATCTAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGC
29246 AC-TAAA
195 ACAT-AA
* * *
29252 AAGTGTCGATACATATATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* * * *
29317 TAGGTAAATTA-GCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACCGGTGTACAAAAA
66 TAGGTAAATTATTCAATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAA
* *
29381 GTATCGACACAAATCGAGCAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCA
131 GTATCGACACAAATCTAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCA
29446 CATAA
196 CATAA
* *
29451 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCAAAAAAACATAATTATAATGTA
1 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATC-GAAAAACATAATTATAATGTA
* * ** * *
29516 ATAGATAAATTATTC-ATGTAAACAGTCTAAATATACAAGTTTTTGAGAAAATAGGTGTAAAAAA
65 ATAGGTAAATTATTCAATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAA
* * * * *
29580 AATATCGACACAAATCAAACAAGTGTCGATATTTTTGGTCCAAAATGTATTTCAAAACCAAGTGT
130 AGTATCGACACAAATCTAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGC
29645 AC-TAAA
195 ACAT-AA
* * *
29651 AAGTGTCAATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
** * * *
29716 TAGGTAAATTA-GAAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAACA
66 TAGGTAAATTATTCAATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAA
* * * * *
29780 GTATCGACACAAATATAACAAGT-TAGATACTTTTGGTCCATAATGTATTTCAGAATCAAGTGCA
131 GTATCGACACAAATCTAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCA
29844 CATAA
196 CATAA
* *
29849 AAGTGTCGATACATTTAAAACAAGTGTCGATCTCGAAAACATCGAAAAACATAATTATAATGTAA
1 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
*
29914 TAGGTAAATTATTC-ATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAA
66 TAGGTAAATTATTCAATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAA
* **
29978 GTATCGACACAAATCTAATAAGTGTCGATACTTTTTCTCCAGAATGTATTTCAAAACCAAGTGCA
131 GTATCGACACAAATCTAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCA
30043 C-TAAA
196 CAT-AA
* * * *
30048 AAGTGTCGATACATTTATAACAAGTTTCGATCCCAAAAATATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
* * * * *
30113 TAGGTAAATTA-ACAATGTAACCGGTCTAAATGTACCGGTTTTTGAGAAAATAGGTGTACAAACA
66 TAGGTAAATTATTCAATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAA
* ** * *
30177 GTATCTACACAAATAGAACAAGTGTCGATAGTTTTGGTCCAGAATGTATTTCAGAACCAAGTGCA
131 GTATCGACACAAATCTAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCA
30242 CATAA
196 CATAA
* *
30247 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAATATCGAAAAACATAATTATAATGTAA
1 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
*
30312 TAGGTAAATTATTCAA-GTAAACGGTCTAAATATACCAGTTTTTGAGAAAACA
66 TAGGTAAATTATTCAATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACA
30364 CACAAATTTA
Statistics
Matches: 989, Mismatches: 110, Indels: 27
0.88 0.10 0.02
Matches are distributed among these distances:
198 178 0.18
199 531 0.54
200 279 0.28
201 1 0.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (200 bp):
AAGTGTCGATACATTTAAAACAAGTGTCGATCCCAAAAACATCGAAAAACATAATTATAATGTAA
TAGGTAAATTATTCAATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAA
GTATCGACACAAATCTAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCA
CATAA
Found at i:30062 original size:397 final size:398
Alignment explanation
Indices: 29052--30448 Score: 2217
Period size: 397 Copynumber: 3.6 Consensus size: 398
29042 AAACTAAAAC
* *
29052 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCCAAAATATCGAAAAACATAATTATAATGTAA
1 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAA
* *
29117 TAGGTAAATTATTCATGTAAAAGGTCTAAATATACCGGTTTTTGAGAAAAACATGTGTACAAAAA
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCAGTTTTTGAG-AAAACATGTGTACAAAAA
* *
29182 GTATCGACACAAATCTAACAAGTGTCGATACTTTTTCTCCAGACTGTATTTCAAAACCAAGTGCA
130 GTATCGACACAAATCTAACAAGTGTCGATACTTTTTCTCCAAAATGTATTTCAAAACCAAGTGCA
*
29247 CTAAAAAGTGTCGATACATATATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAA
195 CTAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAA
* *
29312 TGTAATAGGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACCGGTGTACA
260 TGTAATAGGTAAATTAGAAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACA
* * * *
29377 AAAAGTATCGACACAAATCGAGCAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAG
325 AACAGTATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAG
29442 TGCACATAA
390 TGCACATAA
*
29451 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCAAAAAAACATAATTATAATGTA
1 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATC-GAAAAACATAATTATAATGTA
* * * * * *
29516 ATAGATAAATTATTCATGTAAACAGTCTAAATATACAAGTTTTTGAGAAAATAGGTGTAAAAAAA
65 ATAGGTAAATTATTCATGTAAACGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAA
* * * *
29581 ATATCGACACAAATCAAACAAGTGTCGATA-TTTTTGGTCCAAAATGTATTTCAAAACCAAGTGT
130 GTATCGACACAAATCTAACAAGTGTCGATACTTTTT-CTCCAAAATGTATTTCAAAACCAAGTGC
*
29645 ACTAAAAAGTGTCAATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATA
194 ACTAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATA
29710 ATGTAATAGGTAAATTAGAAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTAC
259 ATGTAATAGGTAAATTAGAAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTAC
* * * *
29775 AAACAGTATCGACACAAATATAACAAGT-TAGATACTTTTGGTCCATAATGTATTTCAGAATCAA
324 AAACAGTATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAA
29839 GTGCACATAA
389 GTGCACATAA
*
29849 AAGTGTCGATACATTTAAAACAAGTGTCGATCTCGAAAACATCGAAAAACATAATTATAATGTAA
1 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAA
*
29914 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAG
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAG
* *
29979 TATCGACACAAATCTAATAAGTGTCGATACTTTTTCTCCAGAATGTATTTCAAAACCAAGTGCAC
131 TATCGACACAAATCTAACAAGTGTCGATACTTTTTCTCCAAAATGTATTTCAAAACCAAGTGCAC
* *
30044 TAAAAAGTGTCGATACATTTATAACAAGTTTCGATCCCAAAAATATCGAAAACCATAATTATAAT
196 TAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAAT
* * *
30109 GTAATAGGTAAATTA-ACAATGTAACCGGTCTAAATGTACCGGTTTTTGAGAAAATAGGTGTACA
261 GTAATAGGTAAATTAGA-AATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACA
* *
30173 AACAGTATCTACACAAATAGAACAAGTGTCGATAGTTTTGGTCCAGAATGTATTTCAGAACCAAG
325 AACAGTATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAG
30238 TGCACATAA
390 TGCACATAA
*
30247 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAATATCGAAAAACATAATTATAATGTAA
1 AAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAA
*
30312 TAGGTAAATTATTCAAGTAAACGGTCTAAATATACCAGTTTTT--G-----A---G-----AAA-
66 TAGGTAAATTATTCATGTAAACGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAG
*
30361 -A-C-ACACAAATTTAACAAGTGTCGATACTTTTTCTCCAAAATGTATTTCAAAACCAAGTGCAC
131 TATCGACACAAATCTAACAAGTGTCGATACTTTTTCTCCAAAATGTATTTCAAAACCAAGTGCAC
30423 TAAAAAGTGTCGATACATTTATAACA
196 TAAAAAGTGTCGATACATTTATAACA
30449 TGTAACACCC
Statistics
Matches: 930, Mismatches: 63, Indels: 30
0.91 0.06 0.03
Matches are distributed among these distances:
379 83 0.09
380 1 0.00
381 1 0.00
383 3 0.00
388 1 0.00
391 1 0.00
396 2 0.00
397 278 0.30
398 240 0.26
399 258 0.28
400 62 0.07
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (398 bp):
AAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAA
TAGGTAAATTATTCATGTAAACGGTCTAAATATACCAGTTTTTGAGAAAACATGTGTACAAAAAG
TATCGACACAAATCTAACAAGTGTCGATACTTTTTCTCCAAAATGTATTTCAAAACCAAGTGCAC
TAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAAT
GTAATAGGTAAATTAGAAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAA
ACAGTATCGACACAAATAGAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAGAACCAAGT
GCACATAA
Found at i:31325 original size:23 final size:23
Alignment explanation
Indices: 31299--31386 Score: 99
Period size: 23 Copynumber: 3.8 Consensus size: 23
31289 AGCTCATATA
31299 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
31322 AATT-TATCCCGAAG-GACCGCGTAG
1 AATTGCA--CCGAAGTG-CCACGTAG
*
31346 AAATGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
31369 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
31387 TATAAGATTG
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
22 1 0.02
23 34 0.64
24 17 0.32
25 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.25, T:0.18
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:36262 original size:20 final size:21
Alignment explanation
Indices: 36239--36280 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
36229 CTCTAGCCCA
36239 AAAATCA-TATTTTTAGCTCG
1 AAAATCATTATTTTTAGCTCG
36259 AAAATCACTTTATTTTTAGCTC
1 AAAATCA--TTATTTTTAGCTC
36281 AACACTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
23 12 0.63
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (21 bp):
AAAATCATTATTTTTAGCTCG
Found at i:37902 original size:23 final size:23
Alignment explanation
Indices: 37876--37963 Score: 99
Period size: 23 Copynumber: 3.8 Consensus size: 23
37866 AGCTCATATA
37876 AATTACACCGAAGTGCCACGTAG
1 AATTACACCGAAGTGCCACGTAG
* *
37899 AATTTGTC-CCGAAG-GACCGCGTAG
1 AA-TT-ACACCGAAGTG-CCACGTAG
*
37923 AAATACACCGAAGTGCCACGTAG
1 AATTACACCGAAGTGCCACGTAG
*
37946 AATTACACCGTAGTGCCA
1 AATTACACCGAAGTGCCA
37964 TATAAGATTA
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
22 1 0.02
23 33 0.62
24 18 0.34
25 1 0.02
ACGTcount: A:0.33, C:0.26, G:0.23, T:0.18
Consensus pattern (23 bp):
AATTACACCGAAGTGCCACGTAG
Found at i:39886 original size:21 final size:21
Alignment explanation
Indices: 39862--39902 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
39852 GAAAATAGTT
*
39862 ATACATGAAGTAACGATACAA
1 ATACATCAAGTAACGATACAA
**
39883 ATACATCAAGTTTCGATACA
1 ATACATCAAGTAACGATACA
39903 TTTTTGTCCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.24
Consensus pattern (21 bp):
ATACATCAAGTAACGATACAA
Found at i:42813 original size:198 final size:196
Alignment explanation
Indices: 42293--43002 Score: 761
Period size: 198 Copynumber: 3.6 Consensus size: 196
42283 ATACATATGT
* * * * *
42293 AAGAAT-ATGTGTCGATACATTTTCAAAA-AGTATTGACCCCAAAAATATCGAAA-CAAATAATT
1 AAGAATAAAGTGTCGATACA-TTT-AAAATTGTATCGATCCCAAAAACATCGAAACCAAA-AATT
* * * * * * * *
42355 ATAATGTAATATTTAAATTAACAATGTAACCAGTATACATATACCGG-TTAATTATAAAACAGGT
63 ATAATGTAATATGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGT
* * * * *
42419 CAACATAAAGTATAGACACTTTTTAAGTTTGTGTCGATACTTTTTTCCA-AAAGAAAGCACAAAC
128 CAA-ATAAAGTATCGACACTTTATAA-TTTGTGTCGATACTTTTTTCCATAATGAATGC-CCAAC
*
42483 -AGGTTC
190 GAGGTAC
* * * * * *
42489 ACGCATAAAGTGTCGATACATTTAAAATTGTATCGATCACACAAACATCGAAACCGATAATTATA
1 AAGAATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCAAAAATTATA
* * * *
42554 ATGTAATATGTCAATTTACAATGTAATCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCAG
66 ATGTAATATGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCA-
* * *
42619 AATAAAGTATCGACAGTTGTGTAATTTGTGTCGATACATTTTATCCATAATGAATGCCCAACGAG
130 AATAAAGTATCGACACTT-TATAATTTGTGTCGATAC-TTTTTTCCATAATGAATGCCCAACGAG
42684 GTAC
193 GTAC
* * *
42688 AAGAATAACGTGTCGATACATTTAAAATTGTATCGATCCCAAAAATATCGAAA-CAAAAATTACA
1 AAGAATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCAAAAATTATA
* * * *
42752 ATGTTATAGGTAAATTTACAATGTACCCGGTATAAATATACCGGTTTTATGAGAAAATAGGTTTA
66 ATGTAATATGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGG-TCA
* *
42817 AATAATGTATCGACACCTTTATAGTTTGTGTCGATACTTTTTTCCAGAATGAATTAGGAATGCCC
130 AATAAAGTATCGACA-CTTTATAATTTGTGTCGATACTTTTTTCC---AT-AA-T--GAATGCCC
*
42882 AACGAGGTGC
187 AACGAGGTAC
* * * *
42892 AAGCATAAAGTGTCGATACATTTAAAATTGTATCGATCCAAAAAACAACGAAACCAATAATTATA
1 AAGAATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCAAAAATTATA
* *
42957 ATGCAATATGTAAATTTGCAATGCT-ACCGGTATAAATATACCGGTT
66 ATGTAATATGTAAATTTACAATG-TAACCGGTATAAATATACCGGTT
43003 AAATGTATAT
Statistics
Matches: 428, Mismatches: 66, Indels: 31
0.82 0.13 0.06
Matches are distributed among these distances:
195 4 0.01
196 69 0.16
197 64 0.15
198 109 0.25
199 63 0.15
200 2 0.00
201 2 0.00
202 1 0.00
204 65 0.15
205 48 0.11
206 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (196 bp):
AAGAATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCAAAAATTATA
ATGTAATATGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCAA
ATAAAGTATCGACACTTTATAATTTGTGTCGATACTTTTTTCCATAATGAATGCCCAACGAGGTA
C
Found at i:43569 original size:2 final size:2
Alignment explanation
Indices: 43564--43603 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
43554 TCACACATGA
43564 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43604 CATAAAAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43837 original size:158 final size:156
Alignment explanation
Indices: 43498--43964 Score: 498
Period size: 158 Copynumber: 2.9 Consensus size: 156
43488 ATTCTAAATG
* *
43498 ATATATGTATATCACATATGAAAGAAGTATATATGTATTGTATTTTTTATCAAAAATCACACATG
1 ATATATATATATCACATATGAAAGAAATATATATGTATTGTATTTTTTATCAAAAATCACACA-G
* * *
43563 AATATATATATATATATATATATATATATATATATATATATCATAAAAAATCATTTAAATTGAAA
65 GA-ATATATATGTATATATATATATATAT-TGTATATA-ATCATAAAAAATCATTTAAATTGAAA
*
43628 TCAAATAATATCATAATATGATCAATTATGT
127 T-AAATAATATCATAATATGATCAATTATAT
** * * * *
43659 ATGATATATGCATCACATATGAAAGAAATAAACATGTATTGTATTTTTTAAAACAAAAATCACAG
1 AT-ATATATATATCACATATGAAAGAAATATATATGTATTGTATTTTTT--ATCAAAAATCACAC
* * *
43724 AGGAATATAT-TGT-CATATATATATATATTGTATATGATCATAAAAAAT-ATTTCAA-T--AAT
63 AGGAATATATATGTATATATATATATATATTGTATATAATCATAAAAAATCATTTAAATTGAAAT
* * *
43783 ATTATAATATGATTAATTATGTATGATATATATAT
128 A-AATAATATCA-TAA-TATG-ATCA-AT-TATAT
*
43818 ATATATATATTTCACATATGAAAGAAATATATATGTATTGTATTTTTTTTATCAAAAAT-ACACA
1 ATATATATATATCACATATGAAAGAAATATATATGTATTGTA--TTTTTTATCAAAAATCACACA
* * * * * *
43882 GGAATGTGTGTGTGTATATATATATATATTGTATATAATCGTAAAAAAATTATTTAAATTGAAAT
64 GGAATATATATGTATATATATATATATATTGTATATAATCAT-AAAAAATCATTTAAATTGAAAT
43947 AAAATAATATCATAATAT
128 -AAATAATATCATAATAT
43965 TATAAATATT
Statistics
Matches: 254, Mismatches: 33, Indels: 37
0.78 0.10 0.11
Matches are distributed among these distances:
153 1 0.00
154 11 0.04
155 3 0.01
156 5 0.02
157 20 0.08
158 60 0.24
159 37 0.15
160 27 0.11
161 10 0.04
162 50 0.20
163 5 0.02
164 24 0.09
165 1 0.00
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (156 bp):
ATATATATATATCACATATGAAAGAAATATATATGTATTGTATTTTTTATCAAAAATCACACAGG
AATATATATGTATATATATATATATATTGTATATAATCATAAAAAATCATTTAAATTGAAATAAA
TAATATCATAATATGATCAATTATAT
Found at i:44284 original size:7 final size:7
Alignment explanation
Indices: 44272--44296 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
44262 ACAAATTACA
44272 TATAAAT
1 TATAAAT
44279 TATAAAT
1 TATAAAT
44286 TATAAAT
1 TATAAAT
44293 TATA
1 TATA
44297 TTCAGGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TATAAAT
Found at i:44430 original size:24 final size:25
Alignment explanation
Indices: 44394--44459 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 25
44384 TATATAATTG
* * *
44394 AAATGAATGTTATTTTGAAAAA-AA
1 AAATTAATATTATTTTAAAAAATAA
44418 AAATTAATATTATTTTAAAAAATAA
1 AAATTAATATTATTTTAAAAAATAA
44443 AAA-T-ATATATATTTTAA
1 AAATTAATAT-TATTTTAA
44460 TAATTTAACC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 4 0.11
24 28 0.76
25 5 0.14
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (25 bp):
AAATTAATATTATTTTAAAAAATAA
Found at i:47812 original size:16 final size:17
Alignment explanation
Indices: 47791--47823 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
47781 TATTTAAAAC
47791 ATTA-TTTCTTAAATTA
1 ATTATTTTCTTAAATTA
*
47807 ATTATTTTTTTAAATTA
1 ATTATTTTCTTAAATTA
47824 TATTCGACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTATTTTCTTAAATTA
Found at i:54146 original size:27 final size:27
Alignment explanation
Indices: 54108--54167 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
54098 TATTGCACCC
54108 TCCATCATATCAAGGACTAGAACTCTA
1 TCCATCATATCAAGGACTAGAACTCTA
54135 TCCATCATATCAAGGACTAGAACTCTA
1 TCCATCATATCAAGGACTAGAACTCTA
*
54162 TGCATC
1 TCCATC
54168 TGTTTTCTCG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.27
Consensus pattern (27 bp):
TCCATCATATCAAGGACTAGAACTCTA
Found at i:57794 original size:23 final size:23
Alignment explanation
Indices: 57764--57841 Score: 113
Period size: 23 Copynumber: 3.4 Consensus size: 23
57754 GTTCTACGCA
57764 GTCCTTCGGGACAATTCTATGTG
1 GTCCTTCGGGACAATTCTATGTG
* *
57787 GTCTTTCGGGACAATTCTATGCG
1 GTCCTTCGGGACAATTCTATGTG
*
57810 GTCCTTCGGGACAAATCTATGTG
1 GTCCTTCGGGACAATTCTATGTG
57833 G-CACTTCGG
1 GTC-CTTCGG
57842 TGCAAATTCT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
22 1 0.02
23 48 0.98
ACGTcount: A:0.18, C:0.23, G:0.27, T:0.32
Consensus pattern (23 bp):
GTCCTTCGGGACAATTCTATGTG
Found at i:57859 original size:24 final size:24
Alignment explanation
Indices: 57767--57859 Score: 81
Period size: 23 Copynumber: 4.0 Consensus size: 24
57757 CTACGCAGTC
*
57767 CTTCGGGAC-AATTCTATGTGGTC-
1 CTTCGGGACAAATTCTATGCGG-CA
*
57790 TTTCGGGAC-AATTCTATGCGGTC-
1 CTTCGGGACAAATTCTATGCGG-CA
*
57813 CTTCGGGACAAA-TCTATGTGGCA
1 CTTCGGGACAAATTCTATGCGGCA
*
57836 CTTCGGTG-CAAATTCTACGCGGCA
1 CTTCGG-GACAAATTCTATGCGGCA
57860 GTTTCGACTG
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
22 1 0.02
23 47 0.78
24 12 0.20
ACGTcount: A:0.20, C:0.24, G:0.26, T:0.30
Consensus pattern (24 bp):
CTTCGGGACAAATTCTATGCGGCA
Found at i:59897 original size:20 final size:20
Alignment explanation
Indices: 59871--59925 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
59861 ACTTATATAA
* *
59871 AGTATCGAAACTTTTGTAGGT
1 AGTATCGATACTTTTG-AGCT
*
59892 -GTATCGATACTCTTGAGCT
1 AGTATCGATACTTTTGAGCT
59911 AGTATCGATACTTTT
1 AGTATCGATACTTTT
59926 AGTTTGTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 3 0.10
20 26 0.90
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (20 bp):
AGTATCGATACTTTTGAGCT
Found at i:62349 original size:7 final size:7
Alignment explanation
Indices: 62337--62371 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
62327 TGTCAGATAG
62337 TTCCAAC
1 TTCCAAC
62344 TTCCAAC
1 TTCCAAC
62351 TTCCAAC
1 TTCCAAC
62358 TTCCAAC
1 TTCCAAC
62365 TTCCAAC
1 TTCCAAC
62372 AATGATCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.29, C:0.43, G:0.00, T:0.29
Consensus pattern (7 bp):
TTCCAAC
Found at i:65985 original size:12 final size:11
Alignment explanation
Indices: 65964--66017 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 11
65954 TTTTACCATA
65964 TTAAATTTTCTT
1 TTAAA-TTTCTT
65976 TTAAACTTTCTTT
1 TTAAA-TTTC-TT
65989 TTAAATTTCTT
1 TTAAATTTCTT
*
66000 TTTAATCTTCTT
1 TTAAAT-TTCTT
*
66012 TGAAAT
1 TTAAAT
66018 CTTTTTATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
11 7 0.19
12 22 0.61
13 7 0.19
ACGTcount: A:0.26, C:0.11, G:0.02, T:0.61
Consensus pattern (11 bp):
TTAAATTTCTT
Found at i:65992 original size:13 final size:12
Alignment explanation
Indices: 65964--66004 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
65954 TTTTACCATA
65964 TTAAATTT-TCTT
1 TTAAATTTCT-TT
65976 TTAAACTTTCTTT
1 TTAAA-TTTCTTT
65989 TTAAATTTCTTT
1 TTAAATTTCTTT
66001 TTAA
1 TTAA
66005 TCTTCTTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 16 0.59
13 10 0.37
14 1 0.04
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (12 bp):
TTAAATTTCTTT
Found at i:66002 original size:25 final size:24
Alignment explanation
Indices: 65964--66012 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
65954 TTTTACCATA
65964 TTAAATTTTCTTTTAAACTTTCTTT
1 TTAAATTTTCTTTTAAAC-TTCTTT
*
65989 TTAAA-TTTCTTTTTAATCTTCTTT
1 TTAAATTTTC-TTTTAAACTTCTTT
66013 GAAATCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.22, C:0.12, G:0.00, T:0.65
Consensus pattern (24 bp):
TTAAATTTTCTTTTAAACTTCTTT
Found at i:66629 original size:20 final size:20
Alignment explanation
Indices: 66586--66724 Score: 93
Period size: 20 Copynumber: 7.0 Consensus size: 20
66576 TTTTATGATG
* * *
66586 TTCTAGAACCTTCCACAATG
1 TTCTAGAACATTCCATAATA
* *
66606 TTCTAGAACATTCTATAGTA
1 TTCTAGAACATTCCATAATA
* **
66626 TTCTAAAATGTTCCATAATA
1 TTCTAGAACATTCCATAATA
*
66646 TTCTAGAACTTTCCATAATA
1 TTCTAGAACATTCCATAATA
* * ** *
66666 TTCTTGATCATTTCC-TTGTG
1 TTCTAGAACA-TTCCATAATA
* *
66686 TTCTAGAAC-TATCAATTATA
1 TTCTAGAACAT-TCCATAATA
*
66706 TTCTAGAACACTCCATAAT
1 TTCTAGAACATTCCATAAT
66725 CATCTCCAAA
Statistics
Matches: 88, Mismatches: 27, Indels: 8
0.72 0.22 0.07
Matches are distributed among these distances:
18 1 0.01
19 2 0.02
20 81 0.92
21 4 0.05
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (20 bp):
TTCTAGAACATTCCATAATA
Found at i:67997 original size:2 final size:2
Alignment explanation
Indices: 67990--68021 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
67980 CATTAATGAA
67990 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
68022 GTTCATTGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70597 original size:28 final size:28
Alignment explanation
Indices: 70565--70620 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
70555 TTAACACTAG
*
70565 AAATGCACTACTTCTATGACATAATCAT
1 AAATGCACTACTTCTATAACATAATCAT
*
70593 AAATGCACTAGTTCTATAACATAATCAT
1 AAATGCACTACTTCTATAACATAATCAT
70621 CTACATTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (28 bp):
AAATGCACTACTTCTATAACATAATCAT
Found at i:71913 original size:12 final size:12
Alignment explanation
Indices: 71881--71920 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
71871 TGCGAGAAAA
71881 TTAAAATC-A-T
1 TTAAAATCTATT
71891 TT-AAATCTATT
1 TTAAAATCTATT
*
71902 TTAAAATTTATT
1 TTAAAATCTATT
71914 TTAAAAT
1 TTAAAAT
71921 ATAGATTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
9 5 0.19
10 3 0.12
11 3 0.12
12 15 0.58
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (12 bp):
TTAAAATCTATT
Found at i:71932 original size:22 final size:21
Alignment explanation
Indices: 71907--72225 Score: 451
Period size: 22 Copynumber: 14.6 Consensus size: 21
71897 CTATTTTAAA
71907 ATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAAATAT-GATTG
71929 ATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAAATATG-ATTG
***
71951 ATTTATTTTAAAATATGAAAA
1 ATTTATTTTAAAATATGATTG
71972 ATTTTATTTTAAAATATGCATTG
1 A-TTTATTTTAAAATATG-ATTG
71995 ATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAAATATG-ATTG
72017 ATTTATTTTAAAATA-GATTG
1 ATTTATTTTAAAATATGATTG
72037 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATAT-GATTG
*
72059 ATTTGTTTTAAAATATAGATTG
1 ATTTATTTTAAAATAT-GATTG
72081 ATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAAATAT-GATTG
72103 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATAT-GATTG
72125 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATAT-GATTG
*
72147 ATTTATTTTAAAATATGAATTT
1 ATTTATTTTAAAATATG-ATTG
*
72169 ATTTATTTTAAATTATGGATTG
1 ATTTATTTTAAAATAT-GATTG
72191 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATAT-GATTG
*
72213 ATTTATTTAAAAA
1 ATTTATTTTAAAA
72226 AAATTATTAT
Statistics
Matches: 274, Mismatches: 16, Indels: 14
0.90 0.05 0.05
Matches are distributed among these distances:
20 19 0.07
21 5 0.02
22 247 0.90
23 3 0.01
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.50
Consensus pattern (21 bp):
ATTTATTTTAAAATATGATTG
Found at i:72306 original size:31 final size:31
Alignment explanation
Indices: 72249--72307 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
72239 ATTTGTATGG
* *
72249 ATTATTTAAATTTCAGTATTATAAAACTAAA
1 ATTATTTAAATTTAAGTATTACAAAACTAAA
*
72280 ATTATTTAAATTTAAGTATTGCAAAACT
1 ATTATTTAAATTTAAGTATTACAAAACT
72308 CTTTTAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATTTAAGTATTACAAAACTAAA
Found at i:72723 original size:23 final size:21
Alignment explanation
Indices: 72697--72745 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
72687 AATTTTTAAT
*
72697 TTAAACTATAAAAAAATAAAATA
1 TTAAAATAT-AAAAAATAAAA-A
*
72720 TTAAAATATTAAAAATAAAAA
1 TTAAAATATAAAAAATAAAAA
72741 TTAAA
1 TTAAA
72746 TTACTGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 6 0.25
22 10 0.42
23 8 0.33
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
TTAAAATATAAAAAATAAAAA
Found at i:72755 original size:22 final size:22
Alignment explanation
Indices: 72708--72756 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
72698 TAAACTATAA
*
72708 AAAAATAAAATATTAAAATATT
1 AAAAATAAAATATTAAAATATG
*
72730 AAAAATAAAA-ATTAAATTACTG
1 AAAAATAAAATATTAAAATA-TG
72752 AAAAA
1 AAAAA
72757 GTTATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (22 bp):
AAAAATAAAATATTAAAATATG
Found at i:72800 original size:14 final size:14
Alignment explanation
Indices: 72783--72816 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
72773 TGGTACAAAA
72783 ATTTTAATGTTTAT
1 ATTTTAATGTTTAT
*
72797 ATTTTAATTTTTAT
1 ATTTTAATGTTTAT
72811 ATTTTA
1 ATTTTA
72817 TTTATATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (14 bp):
ATTTTAATGTTTAT
Found at i:73200 original size:20 final size:20
Alignment explanation
Indices: 73149--73200 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
73139 TTAATTTTTC
**
73149 ATTTTTATTTTTGATATTTT
1 ATTTTTATTTTTGATATAAT
*
73169 ATATTTATTTTTGATA-AAT
1 ATTTTTATTTTTGATATAAT
73188 ATTTTTATATTTT
1 ATTTTTAT-TTTT
73201 AAATAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 8 0.30
20 19 0.70
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (20 bp):
ATTTTTATTTTTGATATAAT
Found at i:73738 original size:20 final size:22
Alignment explanation
Indices: 73707--73746 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
73697 TATGTAGTCA
73707 TTTAACTTTTGTC-ATCAAACT
1 TTTAACTTTTGTCAATCAAACT
73728 TTTAA-TTTTGTCAATCAAA
1 TTTAACTTTTGTCAATCAAA
73747 TTTAATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.33, C:0.15, G:0.05, T:0.47
Consensus pattern (22 bp):
TTTAACTTTTGTCAATCAAACT
Found at i:73744 original size:21 final size:18
Alignment explanation
Indices: 73706--73753 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 18
73696 TTATGTAGTC
73706 ATTTAACTTTTGTCATCAA
1 ATTTAA-TTTTGTCATCAA
73725 ACTTTTAATTTTGTCAATCAA
1 A--TTTAATTTTGTC-ATCAA
73746 ATTTAATT
1 ATTTAATT
73754 ATTTAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 8 0.31
20 7 0.27
21 11 0.42
ACGTcount: A:0.33, C:0.12, G:0.04, T:0.50
Consensus pattern (18 bp):
ATTTAATTTTGTCATCAA
Found at i:85664 original size:20 final size:21
Alignment explanation
Indices: 85639--85690 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
85629 TTTTCCCAAT
*
85639 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
85659 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
85680 TCGCAATGCGA
1 TCGCAATGCGA
85691 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:85704 original size:20 final size:20
Alignment explanation
Indices: 85679--85779 Score: 105
Period size: 20 Copynumber: 5.0 Consensus size: 20
85669 AATTGGGAAA
85679 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
85699 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
85719 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
85740 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
85760 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
85780 TTCACAACGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.03
20 51 0.75
21 13 0.19
22 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:85723 original size:61 final size:61
Alignment explanation
Indices: 85676--85792 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
85666 GCGAATTGGG
* * * * *
85676 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * * *
85737 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCACAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
85793 TTACATAGCG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:85780 original size:20 final size:20
Alignment explanation
Indices: 85741--85793 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
85731 TAATACAAAA
* *
85741 TCGCAACGAGATACTGACTT
1 TCGCAACGCGATTCTGACTT
85761 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATTCTGACTT
*
85781 TCACAACGCGATT
1 TCGCAACGCGATT
85794 TACATAGCGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTT
Found at i:86372 original size:20 final size:19
Alignment explanation
Indices: 86325--86384 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
86315 GTTGCGATTC
**
86325 TCTCGTTGCGATAGTCATT
1 TCTCGTTGCGATTCTCATT
*
86344 TCGCGTTGCGATTCTCATT
1 TCTCGTTGCGATTCTCATT
*
86363 ATCTCGTTGCGATTTTCATT
1 -TCTCGTTGCGATTCTCATT
86383 TC
1 TC
86385 AACCAAAAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
19 18 0.51
20 17 0.49
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.45
Consensus pattern (19 bp):
TCTCGTTGCGATTCTCATT
Found at i:87057 original size:22 final size:22
Alignment explanation
Indices: 87016--87096 Score: 144
Period size: 22 Copynumber: 3.6 Consensus size: 22
87006 CTCGTATAAA
87016 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
87039 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
87061 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
87083 TGCACCGTAGTGCC
1 TGCACCGAAGTGCC
87097 ATATAATGAT
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
22 45 0.79
23 12 0.21
ACGTcount: A:0.25, C:0.30, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:87092 original size:13 final size:13
Alignment explanation
Indices: 87030--87092 Score: 52
Period size: 10 Copynumber: 5.5 Consensus size: 13
87020 CCGAAGTGCC
87030 CCGTAGAATTGCA
1 CCGTAGAATTGCA
*
87043 CC---GAAGTGC-
1 CCGTAGAATTGCA
87052 CCGTAGAATTGCA
1 CCGTAGAATTGCA
*
87065 CC---GAAGTGC-
1 CCGTAGAATTGCA
87074 CCGTAGAATTGCA
1 CCGTAGAATTGCA
87087 CCGTAG
1 CCGTAG
87093 TGCCATATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 16
0.66 0.07 0.28
Matches are distributed among these distances:
9 4 0.11
10 12 0.32
12 12 0.32
13 10 0.26
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (13 bp):
CCGTAGAATTGCA
Found at i:87431 original size:29 final size:29
Alignment explanation
Indices: 87398--87469 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
87388 TTTTCTGCAT
**
87398 ATTCATGTCATGTAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATACAA
*
87427 ATTCATGTCATGTAATACATTTAATACAA
1 ATTCATGTCATGTAATACATATAATACAA
87456 ATTCATGTCATGTA
1 ATTCATGTCATGTA
87470 TCATAATATG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATACAA
Found at i:87883 original size:66 final size:65
Alignment explanation
Indices: 87772--87921 Score: 219
Period size: 66 Copynumber: 2.3 Consensus size: 65
87762 TTTTTCTCAT
* *
87772 GGGGGAATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCATTCTGGAATTTCATATACGA
1 GGGGGTATCGGTT--CCCCCTGGGGGTATCGATTCCCCTCAAGCATTCTGGAA-ATCATATACGA
87837 TGA
63 TGA
* * *
87840 GGGGGTATCGGTTCCCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAAATCATATTCGTTGA
1 GGGGGTATCGGTTCCCCCTGGGGGTATCGATTCCCCTCAAGCATTCTGGAAATCATATACGATGA
*
87905 AGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
87922 TTGAATGGGT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
65 27 0.36
66 37 0.49
68 12 0.16
ACGTcount: A:0.18, C:0.26, G:0.28, T:0.28
Consensus pattern (65 bp):
GGGGGTATCGGTTCCCCCTGGGGGTATCGATTCCCCTCAAGCATTCTGGAAATCATATACGATGA
Found at i:87931 original size:21 final size:21
Alignment explanation
Indices: 87901--87943 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
87891 ATCATATTCG
* *
87901 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
87922 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
87943 T
1 T
87944 AGCCCGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:87946 original size:65 final size:64
Alignment explanation
Indices: 87773--87946 Score: 197
Period size: 65 Copynumber: 2.6 Consensus size: 64
87763 TTTTCTCATG
* *
87773 GGGGAATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCATTCTGGAATTTCATATACGAT
1 GGGGTATCGGTT--CCCCCTGGGGGTATCGATTCCCCT--AGCATTCTGGAATATCATATACGAT
*
87838 GAG
62 GAA
* *
87841 GGGGTATCGGTTCCCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAA-ATCATATTCGTTGA
1 GGGGTATCGGTTCCCCCTGGGGGTATCGATT-CCC-CTAGCATTCTGGAATATCATATACGATGA
87905 A
64 A
* * *
87906 GGGGTATCGGTTCCCCTTGAATGGGTACCGATTCCCCTAGC
1 GGGGTATCGGTTCCCCCTG--GGGGTATCGATTCCCCTAGC
87947 CCGAAAATCC
Statistics
Matches: 94, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
65 34 0.36
66 34 0.36
67 13 0.14
68 13 0.14
ACGTcount: A:0.18, C:0.26, G:0.27, T:0.28
Consensus pattern (64 bp):
GGGGTATCGGTTCCCCCTGGGGGTATCGATTCCCCTAGCATTCTGGAATATCATATACGATGAA
Found at i:94029 original size:22 final size:22
Alignment explanation
Indices: 93988--94068 Score: 144
Period size: 22 Copynumber: 3.6 Consensus size: 22
93978 CTCGTATAAA
93988 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
94011 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
94033 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
94055 TGCACCGTAGTGCC
1 TGCACCGAAGTGCC
94069 ATATAATGAT
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
22 45 0.79
23 12 0.21
ACGTcount: A:0.25, C:0.30, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:94064 original size:13 final size:13
Alignment explanation
Indices: 94002--94064 Score: 52
Period size: 10 Copynumber: 5.5 Consensus size: 13
93992 CCGAAGTGCC
94002 CCGTAGAATTGCA
1 CCGTAGAATTGCA
*
94015 CC---GAAGTGC-
1 CCGTAGAATTGCA
94024 CCGTAGAATTGCA
1 CCGTAGAATTGCA
*
94037 CC---GAAGTGC-
1 CCGTAGAATTGCA
94046 CCGTAGAATTGCA
1 CCGTAGAATTGCA
94059 CCGTAG
1 CCGTAG
94065 TGCCATATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 16
0.66 0.07 0.28
Matches are distributed among these distances:
9 4 0.11
10 12 0.32
12 12 0.32
13 10 0.26
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (13 bp):
CCGTAGAATTGCA
Found at i:94403 original size:29 final size:29
Alignment explanation
Indices: 94370--94441 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
94360 TTTTCTGCAT
**
94370 ATTCATGTCATGTAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATACAA
*
94399 ATTCATGTCATGTAATACATTTAATACAA
1 ATTCATGTCATGTAATACATATAATACAA
94428 ATTCATGTCATGTA
1 ATTCATGTCATGTA
94442 TCATAATATG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATACAA
Found at i:94904 original size:21 final size:21
Alignment explanation
Indices: 94874--94916 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
94864 ATCATATTCG
* *
94874 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
94895 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
94916 T
1 T
94917 AGCCCGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:94916 original size:67 final size:67
Alignment explanation
Indices: 94745--94894 Score: 223
Period size: 67 Copynumber: 2.2 Consensus size: 67
94735 TTTTCTCACG
* *
94745 GGGGAATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCATTCTGGAATTTCATATATGAT
1 GGGGTATCGGTT-CCCCCCTGGGGGTATCGATTCCCCTCAAGCATTCTGGAATATCATATATGAT
*
94810 GAG
65 GAA
* *
94813 GGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCTAGCATTCTGGAA-ATCATAT-TCGTT
1 GGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCAAGCATTCTGGAATATCATATAT-GAT
94876 GAA
65 GAA
94879 GGGGTATCGGTTCCCC
1 GGGGTATCGGTTCCCC
94895 TTGAATGGGT
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
65 1 0.01
66 26 0.34
67 38 0.50
68 11 0.14
ACGTcount: A:0.18, C:0.26, G:0.27, T:0.29
Consensus pattern (67 bp):
GGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCAAGCATTCTGGAATATCATATATGATG
AA
Found at i:97139 original size:63 final size:63
Alignment explanation
Indices: 97040--97170 Score: 244
Period size: 63 Copynumber: 2.1 Consensus size: 63
97030 GTTACGTGAT
* *
97040 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
1 GAGGTCAATGCCTTGCATGAGGAGATCGGTACTCTACACGATAACGATGGTGCATGGCGTGTG
97103 GAGGTCAATGCCTTGCATGAGGAGATCGGTACTCTACACGATAACGATGGTGCATGGCGTGTG
1 GAGGTCAATGCCTTGCATGAGGAGATCGGTACTCTACACGATAACGATGGTGCATGGCGTGTG
97166 GAGGT
1 GAGGT
97171 GTATACTTTA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.22, C:0.18, G:0.36, T:0.24
Consensus pattern (63 bp):
GAGGTCAATGCCTTGCATGAGGAGATCGGTACTCTACACGATAACGATGGTGCATGGCGTGTG
Found at i:97819 original size:42 final size:42
Alignment explanation
Indices: 97743--97945 Score: 183
Period size: 42 Copynumber: 4.8 Consensus size: 42
97733 GACTCGCCTG
* * *
97743 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
* * * * *
97785 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
* * * * *
97827 TCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGTCCCTA
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
* * * ** *
97869 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCTACTG
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
** * *
97911 TCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 TCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
97946 CCCGATTCAC
Statistics
Matches: 125, Mismatches: 35, Indels: 2
0.77 0.22 0.01
Matches are distributed among these distances:
42 121 0.97
43 4 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.24
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
Found at i:97924 original size:84 final size:84
Alignment explanation
Indices: 97740--97915 Score: 325
Period size: 84 Copynumber: 2.1 Consensus size: 84
97730 CCCGACTCGC
*
97740 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
97805 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
*
97824 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGTCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
*
97889 CCCACCGTTCAAGAGGCTA
66 CCCACCGTTCAAGAGGCCA
97908 CTGTCATC
1 CTGTCATC
97916 GTTGAAGAGG
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 89 1.00
ACGTcount: A:0.22, C:0.37, G:0.17, T:0.24
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCGTTCAAGAGGCCA
Found at i:97945 original size:84 final size:84
Alignment explanation
Indices: 97740--97945 Score: 288
Period size: 84 Copynumber: 2.5 Consensus size: 84
97730 CCCGACTCGC
* * * *
97740 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
97805 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
* * * *
97824 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGTCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
*
97889 CCCACCGTTCAAGAGGCTA
66 CCCACCGTTCAAGAGGCCA
** *
97908 CTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CTGTCATCCCTCAAGA-GTCCACTCCCACCATTCAAGAG
97946 CCCGATTCAC
Statistics
Matches: 112, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
84 108 0.96
85 4 0.04
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.24
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCGTTCAAGAGGCCA
Found at i:99322 original size:14 final size:14
Alignment explanation
Indices: 99303--99338 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
99293 ATTGTTTAAT
99303 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
99317 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
99331 TGATTTGT
1 TGATTTGT
99339 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:99516 original size:33 final size:33
Alignment explanation
Indices: 99479--99549 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
99469 AACGAGAGAA
99479 TCGCAACGCGAAAT-TAGCGTTGCGATTTTCATT
1 TCGCAACGCG-AATCTAGCGTTGCGATTTTCATT
** * **
99512 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCAACGCGAATCTAGCGTTGCGATTTTCATT
99545 TCGCA
1 TCGCA
99550 TTGTGATAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 2 0.06
33 30 0.94
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (33 bp):
TCGCAACGCGAATCTAGCGTTGCGATTTTCATT
Found at i:99522 original size:19 final size:19
Alignment explanation
Indices: 99498--99552 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 19
99488 GAAATTAGCG
99498 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
99517 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
99531 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
99550 TTG
1 TTG
99553 TGATAGTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 6 0.21
16 7 0.24
17 7 0.24
19 9 0.31
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:101865 original size:12 final size:12
Alignment explanation
Indices: 101848--101872 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
101838 TCTTCGGGGA
101848 CTTTTTCTTCTT
1 CTTTTTCTTCTT
101860 CTTTTTCTTCTT
1 CTTTTTCTTCTT
101872 C
1 C
101873 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:102081 original size:24 final size:24
Alignment explanation
Indices: 102047--102100 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
102037 CTGAAACATC
*
102047 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
102071 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
102095 ATCAAA
1 ATCAAA
102101 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:102870 original size:20 final size:20
Alignment explanation
Indices: 102845--102895 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
102835 TGTATTATCT
102845 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
*
102865 CGTTGCGAAAGTCATAATCG
1 CGTTGCGAAAGTCAGAATCG
102885 CGTTGCGAAAG
1 CGTTGCGAAAG
102896 GTAATCATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGAATCG
Found at i:103138 original size:20 final size:20
Alignment explanation
Indices: 103110--103158 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
103100 TCATTTGACT
103110 ATCGCAACGCGAAAATGGCG
1 ATCGCAACGCGAAAATGGCG
* * *
103130 ATCGTAACGTGAAAATGGCT
1 ATCGCAACGCGAAAATGGCG
103150 ATCGCAACG
1 ATCGCAACG
103159 ACAAAATCGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.22, G:0.27, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCG
Found at i:103164 original size:20 final size:19
Alignment explanation
Indices: 103108--103165 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
103098 ATTCATTTGA
103108 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGC-AAAATGG
* * *
103128 CGATCGTAACGTGAAAATGG
1 CTATCGCAACG-CAAAATGG
103148 CTATCGCAACGACAAAAT
1 CTATCGCAACG-CAAAAT
103166 CGCAATGCGA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (19 bp):
CTATCGCAACGCAAAATGG
Found at i:103225 original size:19 final size:19
Alignment explanation
Indices: 103184--103248 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
103174 GAAATGAAAA
103184 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
103200 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
103217 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
103236 TCGCATTACGATT
1 TCGCATTGCGATT
103249 CTCTCGTTGC
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
14 11 0.26
16 3 0.07
17 3 0.07
19 26 0.60
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:103279 original size:20 final size:20
Alignment explanation
Indices: 103254--103292 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
103244 CGATTCTCTC
103254 GTTGCGATAGTCAGTTTTGT
1 GTTGCGATAGTCAGTTTTGT
*
103274 GTTGCGATAGTCTGTTTTG
1 GTTGCGATAGTCAGTTTTG
103293 CCTTCAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.10, G:0.31, T:0.46
Consensus pattern (20 bp):
GTTGCGATAGTCAGTTTTGT
Found at i:105307 original size:20 final size:20
Alignment explanation
Indices: 105265--105350 Score: 82
Period size: 20 Copynumber: 4.3 Consensus size: 20
105255 TAGTTTACTT
* * **
105265 TCGCAACACGAAACTTAAAA
1 TCGCAACACGAAAATGACTA
105285 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
105305 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
* * *
105325 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
105345 TCGCAA
1 TCGCAA
105351 TGCGAAATGA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.38, C:0.26, G:0.21, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:105328 original size:40 final size:39
Alignment explanation
Indices: 105284--105359 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 39
105274 GAAACTTAAA
105284 ATCGCAACACGAAAATGACTATCGCAACGCGGAAATGGCT
1 ATCGCAACACGAAAATGACTATCGCAACGC-GAAATGGCT
* * * *
105324 ATCGCAACGCGGAAATGGCTATCGCAATGCGAAATG
1 ATCGCAACACGAAAATGACTATCGCAACGCGAAATG
105360 AAAATCGCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
39 6 0.19
40 26 0.81
ACGTcount: A:0.36, C:0.24, G:0.25, T:0.16
Consensus pattern (39 bp):
ATCGCAACACGAAAATGACTATCGCAACGCGAAATGGCT
Found at i:105379 original size:14 final size:14
Alignment explanation
Indices: 105360--105417 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
105350 ATGCGAAATG
105360 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
105374 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
105390 ATTAAATCGCAACGAC
1 A--AAATCGCAACGAC
105406 AAAATCGCAACG
1 AAAATCGCAACG
105418 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.16, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:105386 original size:33 final size:32
Alignment explanation
Indices: 105344--105433 Score: 135
Period size: 32 Copynumber: 2.8 Consensus size: 32
105334 GGAAATGGCT
105344 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAAT-AAAATCGCAACGACAAA
*
105377 ATCGCAATGCGAAATTAAATCGCAACGACAAA
1 ATCGCAATGCGAAATAAAATCGCAACGACAAA
* *
105409 ATCGCAACGCGAAACACAAATCGCA
1 ATCGCAATGCGAAATA-AAATCGCA
105434 TTGCGATTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
32 29 0.56
33 23 0.44
ACGTcount: A:0.47, C:0.24, G:0.17, T:0.12
Consensus pattern (32 bp):
ATCGCAATGCGAAATAAAATCGCAACGACAAA
Found at i:105451 original size:19 final size:19
Alignment explanation
Indices: 105429--105543 Score: 126
Period size: 19 Copynumber: 6.6 Consensus size: 19
105419 GAAACACAAA
105429 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
105448 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
105464 TCG--TTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
*
105480 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
105496 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
105513 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
105532 TCGCATTGCGAT
1 TCGCATTGCGAT
105544 AGCCATTTCC
Statistics
Matches: 82, Mismatches: 5, Indels: 18
0.78 0.05 0.17
Matches are distributed among these distances:
14 15 0.18
15 3 0.04
16 12 0.15
17 4 0.05
18 12 0.15
19 36 0.44
ACGTcount: A:0.13, C:0.20, G:0.21, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:105470 original size:14 final size:14
Alignment explanation
Indices: 105451--105508 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
105441 TTTCATTTCG
105451 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
105465 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
105481 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
105497 CGTTGCGATTTT
1 CGTTGCGATTTT
105509 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:105515 original size:33 final size:33
Alignment explanation
Indices: 105434--105527 Score: 172
Period size: 32 Copynumber: 2.9 Consensus size: 33
105424 ACAAATCGCA
*
105434 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
105467 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
105499 TTGCGATTTTCATTTCGCATTGCGATTTT
1 TTGCGATTTTCATTTCGCATTGCGATTTT
105528 CATTTCGCAT
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.53
33 28 0.47
ACGTcount: A:0.12, C:0.18, G:0.21, T:0.49
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:105550 original size:19 final size:19
Alignment explanation
Indices: 105508--105571 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
105498 GTTGCGATTT
**
105508 TCATTTCGCATTGCGATTT
1 TCATTTCGCATTGCGATAG
105527 TCATTTCGCATTGCGATAG
1 TCATTTCGCATTGCGATAG
* *
105546 CCATTTCCGCGTTGCGATAG
1 TCATTT-CGCATTGCGATAG
105566 TCATTT
1 TCATTT
105572 TCGTGTTGCG
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
19 22 0.56
20 17 0.44
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (19 bp):
TCATTTCGCATTGCGATAG
Found at i:105562 original size:20 final size:19
Alignment explanation
Indices: 105509--105582 Score: 67
Period size: 20 Copynumber: 3.8 Consensus size: 19
105499 TTGCGATTTT
* ***
105509 CATTTCGCATTGCGATTTT
1 CATTTCGCGTTGCGATAGC
*
105528 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
105547 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
105567 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
105583 AAGTAAACTA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
19 21 0.45
20 23 0.49
21 3 0.06
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.39
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:106090 original size:18 final size:18
Alignment explanation
Indices: 106064--106108 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
106054 GTCGATCAGA
*
106064 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
106082 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
106100 TGATGGCTC
1 TGATGGCTC
106109 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:107453 original size:20 final size:20
Alignment explanation
Indices: 107428--107501 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 20
107418 AATAGTTACT
*
107428 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACGC
**
107448 GAAAATGACTATCGCAACGC
1 GAAAATGAAAATCGCAACGC
** **
107468 GAATTTGACTATCGCAACGC
1 GAAAATGAAAATCGCAACGC
*
107488 GAAACT-AAAATCGC
1 GAAAATGAAAATCGC
107502 GTTGCGATTC
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
19 6 0.13
20 39 0.87
ACGTcount: A:0.43, C:0.23, G:0.18, T:0.16
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACGC
Found at i:107988 original size:41 final size:41
Alignment explanation
Indices: 107925--108038 Score: 142
Period size: 41 Copynumber: 2.8 Consensus size: 41
107915 CGCTTTGAAA
* *
107925 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTATGTATTATCGCATTGCGAAAGTAAGT
* * * *
107966 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATTATGTATTATCGCATTGCGAAAGTAAGT
*
108007 ATCGCATTGCGA-TA-GTCAGTATCGCATTGCGA
1 ATCGCATTGCGATTATGT-ATTATCGCATTGCGA
108039 TTTTCCCAAT
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.03
40 15 0.24
41 45 0.73
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (41 bp):
ATCGCATTGCGATTATGTATTATCGCATTGCGAAAGTAAGT
Found at i:108011 original size:20 final size:20
Alignment explanation
Indices: 107986--108039 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
107976 GATTTTGTAT
107986 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
108006 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
108026 TATCGCATTGCGAT
1 TATCGCATTGCGAT
108040 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:108024 original size:61 final size:62
Alignment explanation
Indices: 107925--108042 Score: 168
Period size: 61 Copynumber: 1.9 Consensus size: 62
107915 CGCTTTGAAA
* * * *
107925 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGATTATGTAGTATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
*
107987 ATCGCATTGCGA-TA-GTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGATTATGT-AGTATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT
108043 CCCAATTCGC
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
60 2 0.04
61 36 0.72
62 12 0.24
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (62 bp):
ATCGCATTGCGATTATGTAGTATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
Found at i:108058 original size:61 final size:61
Alignment explanation
Indices: 107925--108060 Score: 150
Period size: 61 Copynumber: 2.2 Consensus size: 61
107915 CGCTTTGAAA
* * * * ** *
107925 ATCGCATTGCGATTATGT-ATTATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGA-TA-GTAAGTATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
*
107987 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCATTGCGATAGTAAGTATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAAT
*
108049 -TCGCGTTGCGAT
1 ATCGCATTGCGAT
108061 TTACTTATTC
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
60 2 0.03
61 47 0.75
62 14 0.22
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (61 bp):
ATCGCATTGCGATAGTAAGTATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:108150 original size:21 final size:21
Alignment explanation
Indices: 108110--108150 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
108100 ACTGTAGACC
**
108110 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
108131 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
108151 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:114274 original size:23 final size:24
Alignment explanation
Indices: 114220--114279 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
114210 GCTGCAAGAT
*
114220 AATTTTTAACATTATTTTTTTAGTA
1 AATTTTTAA-ATTATTTTTTTAGGA
* *
114245 AATTTTTAAATTATTTTTTTTGGG
1 AATTTTTAAATTATTTTTTTAGGA
114269 AA-TTTTAAATT
1 AATTTTTAAATT
114280 TTATATTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
23 9 0.28
24 14 0.44
25 9 0.28
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.60
Consensus pattern (24 bp):
AATTTTTAAATTATTTTTTTAGGA
Found at i:114507 original size:26 final size:23
Alignment explanation
Indices: 114445--114500 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
114435 ATGAAGACTA
114445 TGCTGAATGAAACAACAAAACAC
1 TGCTGAATGAAACAACAAAACAC
114468 TGCTGAATGAAACAACAAAACAC
1 TGCTGAATGAAACAACAAAACAC
114491 TGCTGAATGA
1 TGCTGAATGA
114501 TTCAACATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.48, C:0.20, G:0.16, T:0.16
Consensus pattern (23 bp):
TGCTGAATGAAACAACAAAACAC
Found at i:114735 original size:17 final size:18
Alignment explanation
Indices: 114697--114739 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
114687 CAAAGCCAAT
*
114697 TCATTCAGAGCCTTTAAA
1 TCATTCAGAGCCATTAAA
*
114715 TCATTCAG-GCCATTGAA
1 TCATTCAGAGCCATTAAA
114732 TCATTCAG
1 TCATTCAG
114740 CGCTTAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (18 bp):
TCATTCAGAGCCATTAAA
Found at i:124896 original size:21 final size:19
Alignment explanation
Indices: 124858--124897 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
124848 TTTAAATACC
*
124858 TATTAAATCCTTATATTTT
1 TATTAAATCCTAATATTTT
124877 TATTAAATAGCCTAATATTTT
1 TATTAAAT--CCTAATATTTT
124898 AGTCACCATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
21 10 0.56
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (19 bp):
TATTAAATCCTAATATTTT
Found at i:127506 original size:15 final size:17
Alignment explanation
Indices: 127469--127503 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
127459 AGAAATTCTT
*
127469 AAATAAGAAAGTTCTCA
1 AAATAAGAAAGGTCTCA
127486 AAATAAGAAAGGTC-CA
1 AAATAAGAAAGGTCTCA
127502 AA
1 AA
127504 TAATTCCAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.57, C:0.11, G:0.14, T:0.17
Consensus pattern (17 bp):
AAATAAGAAAGGTCTCA
Found at i:142371 original size:46 final size:45
Alignment explanation
Indices: 142304--142473 Score: 250
Period size: 45 Copynumber: 3.8 Consensus size: 45
142294 ATAAAATCTT
* * *
142304 TTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCCATATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
*
142349 TTACCATTTAATACCATAAGCTCGTAAGCTTATTTTATCAATATAC
1 TTACCATTT-ATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
* * *
142395 TTATCATTTGTTCCATAAGCTCGTAAGCTTATTTTATCAATACAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
* *
142440 TTGCCATTTATTCCATAAGCTTGTAAGCTTATTT
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTT
142474 GCATGCTTAC
Statistics
Matches: 113, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
45 72 0.64
46 41 0.36
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.41
Consensus pattern (45 bp):
TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
Found at i:147998 original size:21 final size:21
Alignment explanation
Indices: 147965--148004 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
147955 GTTCGGGATA
147965 TAATAATAATTATTATATTAT
1 TAATAATAATTATTATATTAT
* * *
147986 TAATACTATTTATTTTATT
1 TAATAATAATTATTATATT
148005 TTACAGCTCC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
TAATAATAATTATTATATTAT
Found at i:153527 original size:14 final size:13
Alignment explanation
Indices: 153495--153571 Score: 50
Period size: 14 Copynumber: 5.6 Consensus size: 13
153485 AATCGATACC
*
153495 TTTTGCATTTGCA
1 TTTTGCATTTACA
153508 -TTTGCATTTACA
1 TTTTGCATTTACA
153520 TCTTTGCATTTTTAC-
1 T-TTTGCA--TTTACA
**
153535 TTTTGTTTTTATCA
1 TTTTGCATTTA-CA
*
153549 TTTTTGCGTTTACA
1 -TTTTGCATTTACA
153563 TCTTTGCAT
1 T-TTTGCAT
153572 AATTATATTT
Statistics
Matches: 50, Mismatches: 6, Indels: 15
0.70 0.08 0.21
Matches are distributed among these distances:
12 15 0.30
13 2 0.04
14 18 0.36
15 10 0.20
16 5 0.10
ACGTcount: A:0.16, C:0.16, G:0.10, T:0.58
Consensus pattern (13 bp):
TTTTGCATTTACA
Found at i:158693 original size:23 final size:23
Alignment explanation
Indices: 158667--158735 Score: 60
Period size: 23 Copynumber: 3.3 Consensus size: 23
158657 TATCTCGCTC
158667 AAGATTGTTTTTCCTTGAAACAG
1 AAGATTGTTTTTCCTTGAAACAG
* * **
158690 AAGA-T-TTTAT-C-T--CACTC
1 AAGATTGTTTTTCCTTGAAACAG
158707 AAGATTGTTTTTCCTTGAAACAG
1 AAGATTGTTTTTCCTTGAAACAG
158730 AAGATT
1 AAGATT
158736 TTATCTCACT
Statistics
Matches: 32, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
17 6 0.19
18 1 0.03
19 5 0.16
20 2 0.06
21 5 0.16
22 1 0.03
23 12 0.38
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (23 bp):
AAGATTGTTTTTCCTTGAAACAG
Found at i:158699 original size:40 final size:40
Alignment explanation
Indices: 158646--158839 Score: 291
Period size: 40 Copynumber: 4.8 Consensus size: 40
158636 CTCATTTAAT
* *
158646 ACAGAATATTTTATCTCGCTCAAGATTGTTTTTCCTTGAA
1 ACAGAAGATTTTATCTCACTCAAGATTGTTTTTCCTTGAA
158686 ACAGAAGATTTTATCTCACTCAAGATTGTTTTTCCTTGAA
1 ACAGAAGATTTTATCTCACTCAAGATTGTTTTTCCTTGAA
158726 ACAGAAGATTTTATCTCACTCAAGATTGTTTTTCCTTGAA
1 ACAGAAGATTTTATCTCACTCAAGATTGTTTTTCCTTGAA
* *
158766 ACAAAAGATTTTATCTCACTCAAGATTATTTTTCCTTGAA
1 ACAGAAGATTTTATCTCACTCAAGATTGTTTTTCCTTGAA
** ** *
158806 ACAAGAA-ATTGAATCTCACTTGAGATGGTTTTTC
1 AC-AGAAGATTTTATCTCACTCAAGATTGTTTTTC
158840 TTAAAACTTA
Statistics
Matches: 142, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 139 0.98
41 3 0.02
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (40 bp):
ACAGAAGATTTTATCTCACTCAAGATTGTTTTTCCTTGAA
Found at i:159415 original size:136 final size:136
Alignment explanation
Indices: 159169--159510 Score: 535
Period size: 136 Copynumber: 2.5 Consensus size: 136
159159 AACATTTCCA
159169 GAAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAATAAGAAGAGCTT
1 GAAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAATAAGAAGAGCTT
* ** * **
159234 GTTCGACCTATCACTTGATTCACGGCATTTTGAATCAGTGACGCCTCGCTTGAGGTATTGACATT
66 GTTCGACCTATCACTTGATTCACGACATTTCAAATCAGTGACGCCTCGCTTGAGGAATCAAC-TT
159299 TCT-AAT
130 TCTCAAT
* * *
159305 GGAGAGTTCATAATAAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATAAGAAGAGCTT
1 GAAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAATAAGAAGAGCTT
159370 GTTCGACCTATCACTTGATTCACGACATTTCAAATCAGTGACGCCTCGCTTGAGGAATCAACTTT
66 GTTCGACCTATCACTTGATTCACGACATTTCAAATCAGTGACGCCTCGCTTGAGGAATCAACTTT
* *
159435 TTCAGT
131 CTCAAT
* * *
159441 GAAGAGTTCATAATGAGAAGAACTCATCC-AAAGAGAGAGAAGAAGTTCATAATGAGAAGAACTT
1 GAAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAATAAGAAGAGCTT
159505 GTTCGA
66 GTTCGA
159511 TCTCACATCA
Statistics
Matches: 188, Mismatches: 17, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
135 41 0.22
136 147 0.78
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (136 bp):
GAAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAATAAGAAGAGCTT
GTTCGACCTATCACTTGATTCACGACATTTCAAATCAGTGACGCCTCGCTTGAGGAATCAACTTT
CTCAAT
Found at i:159508 original size:20 final size:20
Alignment explanation
Indices: 159445--159508 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
159435 TTCAGTGAAG
159445 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
* **
159465 CA-TCCA-AA-GAGAGAGAAGA
1 -AGTTCATAATGAGA-AGAACT
159484 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
*
159504 TGTTC
1 AGTTC
159509 GATCTCACAT
Statistics
Matches: 32, Mismatches: 7, Indels: 9
0.67 0.15 0.19
Matches are distributed among these distances:
18 5 0.16
19 9 0.28
20 13 0.41
21 5 0.16
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (20 bp):
AGTTCATAATGAGAAGAACT
Found at i:159690 original size:228 final size:228
Alignment explanation
Indices: 159293--159827 Score: 759
Period size: 228 Copynumber: 2.4 Consensus size: 228
159283 TTGAGGTATT
* *
159293 GACATTTCTAATGGAGAGTTCATAATAAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
1 GACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
* * * *
159358 TAAGAAGAGCTTGTTCGACCTATCACTTGATTCACGACATTTCAAATCAGTGACGCCTCGCTTGA
66 TGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCAAATCAATGACACCTCGCTTGA
* * * *
159423 GGAATCAACTTTTTCAGTGAAGAGTTCATAATGAGAAGAACTCATCCAAAGAGAGAGAAGAAGTT
131 GGAATCAACATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCCAAAGAGAAAGAAGAAGTT
* *
159488 CATAATGAGAAGAACTTGTTCGATCTCACATCA
196 CATAATGAGAAGAACTTGTTCAACCTCACATCA
* *
159521 GACATTTCCAATGGATAGTTCATAATGAGAAGAACTCATCCGGCAGAGGGAGAAGAAGTTCATAA
1 GACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
* * * * * *
159586 TGAGAAGAGTTTTTTCGACCTATCACTCGATTCACGGCATTTCGAATCAATGACACCTTGGTTGA
66 TGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCAAATCAATGACACCTCGCTTGA
* ** * *
159651 GGGATTGACATTTCCAATGAATAGTTCATAATGAGAAGAACTCATCCAACGAGAAAGAAGAAGTT
131 GGAATCAACATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCCAAAGAGAAAGAAGAAGTT
**
159716 CATAATGAGAAGAACTTGTTCAACCTTGCATCA
196 CATAATGAGAAGAACTTGTTCAACCTCACATCA
* * * * *
159749 G-TATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCCAACA-AGGAAGAAGAATTTCATAA
1 GACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
*
159812 TGAGAAGAACTTGTTC
66 TGAGAAGAGCTTGTTC
159828 AATCCAATGC
Statistics
Matches: 270, Mismatches: 37, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
226 30 0.11
227 38 0.14
228 202 0.75
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (228 bp):
GACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAA
TGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCAAATCAATGACACCTCGCTTGA
GGAATCAACATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCCAAAGAGAAAGAAGAAGTT
CATAATGAGAAGAACTTGTTCAACCTCACATCA
Found at i:159768 original size:91 final size:91
Alignment explanation
Indices: 159660--159829 Score: 304
Period size: 91 Copynumber: 1.9 Consensus size: 91
159650 AGGGATTGAC
* *
159660 ATTTCCAATGAATAGTTCATAATGAGAAGAACTCATCCAACGAGAAAGAAGAAGTTCATAATGAG
1 ATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCCAACAAGAAAGAAGAAGTTCATAATGAG
159725 AAGAACTTGTTCAACCTTGCATCAGT
66 AAGAACTTGTTCAACCTTGCATCAGT
* *
159751 ATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCCAACAAGGAAGAAGAATTTCATAATGAG
1 ATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCCAACAAGAAAGAAGAAGTTCATAATGAG
159816 AAGAACTTGTTCAA
66 AAGAACTTGTTCAA
159830 TCCAATGCTT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 75 1.00
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (91 bp):
ATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCCAACAAGAAAGAAGAAGTTCATAATGAG
AAGAACTTGTTCAACCTTGCATCAGT
Found at i:161821 original size:2 final size:2
Alignment explanation
Indices: 161814--161847 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
161804 GGGGTTCACC
161814 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
161848 TTGAATTTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:173814 original size:18 final size:18
Alignment explanation
Indices: 173791--173828 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
173781 AGGGTCAAAG
173791 TTAGAAATCAAGTTTTTC
1 TTAGAAATCAAGTTTTTC
173809 TTAGAAATCAAGTTTTTC
1 TTAGAAATCAAGTTTTTC
173827 TT
1 TT
173829 TCACTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (18 bp):
TTAGAAATCAAGTTTTTC
Found at i:177539 original size:23 final size:22
Alignment explanation
Indices: 177508--177550 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
177498 AATATTATTT
177508 CAAAACCTAAAATTCTCAAATCC
1 CAAAACCTAAAA-TCTCAAATCC
*
177531 CAAATCCTAAAATCTCAAAT
1 CAAAACCTAAAATCTCAAAT
177551 ATTCAATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (22 bp):
CAAAACCTAAAATCTCAAATCC
Found at i:177854 original size:31 final size:30
Alignment explanation
Indices: 177801--177895 Score: 82
Period size: 31 Copynumber: 3.0 Consensus size: 30
177791 GATTGTTAAA
* * *
177801 ATCAAGACACTTAAAGTGATAACGTTTATAAT
1 ATCAA-ACAC-TAAAATAATAACATTTATAAT
* *
177833 ATCAAACACATAAAATAATAACATTTACAAC
1 ATCAAACAC-TAAAATAATAACATTTATAAT
** *
177864 ATCAAATGTCTAAAATAATAATATTTATAAT
1 ATCAAA-CACTAAAATAATAACATTTATAAT
177895 A
1 A
177896 ATAAATACAT
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
31 45 0.88
32 6 0.12
ACGTcount: A:0.52, C:0.13, G:0.05, T:0.31
Consensus pattern (30 bp):
ATCAAACACTAAAATAATAACATTTATAAT
Found at i:179278 original size:45 final size:45
Alignment explanation
Indices: 179214--179306 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 45
179204 ACTGTATATC
179214 GATACTGCACGTGCTTGCTTAAACATAGAGGTAAAACAAGTTTGT
1 GATACTGCACGTGCTTGCTTAAACATAGAGGTAAAACAAGTTTGT
*
179259 GATACTGTACGTGCTTGCTTAAACATAGAGGTAAAACAAGTTTGT
1 GATACTGCACGTGCTTGCTTAAACATAGAGGTAAAACAAGTTTGT
179304 GAT
1 GAT
179307 GACAATCTGT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (45 bp):
GATACTGCACGTGCTTGCTTAAACATAGAGGTAAAACAAGTTTGT
Found at i:186391 original size:20 final size:20
Alignment explanation
Indices: 186366--186404 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
186356 AACTATATAA
186366 TTTATGATTGAT-TATTTTTG
1 TTTATGATTG-TCTATTTTTG
*
186386 TTTATGTTTGTCTATTTTT
1 TTTATGATTGTCTATTTTT
186405 TATTGATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.15, C:0.03, G:0.13, T:0.69
Consensus pattern (20 bp):
TTTATGATTGTCTATTTTTG
Found at i:192316 original size:14 final size:14
Alignment explanation
Indices: 192278--192318 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
192268 TATTTAATTA
192278 TTTATTTTAT-TAT
1 TTTATTTTATCTAT
192291 TTTATTCTTATCT-T
1 TTTATT-TTATCTAT
192305 TTTATCTTTATCTA
1 TTTAT-TTTATCTA
192319 AAATTATATC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 6 0.25
14 16 0.67
15 2 0.08
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTATTTTATCTAT
Found at i:196211 original size:31 final size:30
Alignment explanation
Indices: 196095--196198 Score: 149
Period size: 31 Copynumber: 3.4 Consensus size: 30
196085 GAGTCGAGTG
196095 TTACCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTA-GTTCTTCGGGACATATGGACTGA
* *
196126 TTACC-A-TTCTTTGGGATATATGGACTGA
1 TTACCTAGTTCTTCGGGACATATGGACTGA
196154 TTACCTACGTTCTTCGGGACATATGGACTGA
1 TTACCTA-GTTCTTCGGGACATATGGACTGA
196185 TTACCTAGGTTCTT
1 TTACCTA-GTTCTT
196199 ATGGACCTAT
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
28 25 0.38
29 1 0.02
30 1 0.02
31 38 0.58
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (30 bp):
TTACCTAGTTCTTCGGGACATATGGACTGA
Found at i:200650 original size:31 final size:31
Alignment explanation
Indices: 200608--200714 Score: 178
Period size: 31 Copynumber: 3.5 Consensus size: 31
200598 GAGTCGAGGG
200608 TTACCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGA
*
200639 TTATCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGA
* *
200670 TTACCTATGTTCTTCGGGACATATAGATTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGA
*
200701 TTACCTAGGTTCTT
1 TTACCTATGTTCTT
200715 ATTGACCTAT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 71 1.00
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGA
Found at i:200730 original size:31 final size:31
Alignment explanation
Indices: 200608--200730 Score: 129
Period size: 31 Copynumber: 4.0 Consensus size: 31
200598 GAGTCGAGGG
* * *
200608 TTACCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTAGGTTCTTAGGGACATATGGATTGA
* * * *
200639 TTATCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTAGGTTCTTAGGGACATATGGATTGA
* * *
200670 TTACCTATGTTCTTCGGGACATATAGATTGA
1 TTACCTAGGTTCTTAGGGACATATGGATTGA
** *
200701 TTACCTAGGTTCTTATTGACCTATGGATTG
1 TTACCTAGGTTCTTAGGGACATATGGATTG
200731 GTCATTCGGG
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 82 1.00
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (31 bp):
TTACCTAGGTTCTTAGGGACATATGGATTGA
Found at i:201266 original size:21 final size:21
Alignment explanation
Indices: 201242--201283 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
201232 GGGATGAAAT
201242 TACTATAGCAGTGCATCGATA
1 TACTATAGCAGTGCATCGATA
*
201263 TACTGTAGCAGTGCATCGATA
1 TACTATAGCAGTGCATCGATA
201284 CACATTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (21 bp):
TACTATAGCAGTGCATCGATA
Done.