Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014561.1 Kokia drynarioides strain JFW-HI SEQ_129600, 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: 265799
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Warning! 365 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:12 original size:2 final size:2
Alignment explanation
Indices: 6--40 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1 TTTAA
6 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
41 ATTTATTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1085 original size:30 final size:29
Alignment explanation
Indices: 1048--1154 Score: 108
Period size: 30 Copynumber: 3.6 Consensus size: 29
1038 CCCTATTTTC
* *
1048 TTTCAAAAATCACATTATAACCCTAAACT
1 TTTCCAAAATCACATTTTAACCCTAAACT
**
1077 TTTCCAAAATTGCATTTTAACACCTAAACT
1 TTTCCAAAATCACATTTTAAC-CCTAAACT
* * * *
1107 TCTCCAAAATTACATTTTGA-CCTCGAACT
1 TTTCCAAAATCACATTTTAACCCT-AAACT
1136 TTTCCAAAAATCACATTTT
1 TTTCC-AAAATCACATTTT
1155 GACCTCGTAC
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
28 3 0.05
29 25 0.38
30 37 0.57
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.36
Consensus pattern (29 bp):
TTTCCAAAATCACATTTTAACCCTAAACT
Found at i:1155 original size:30 final size:30
Alignment explanation
Indices: 1073--1264 Score: 126
Period size: 30 Copynumber: 6.4 Consensus size: 30
1063 TATAACCCTA
* * *
1073 AACTTTTCC-AAAATTGCATTTTAACAC-CTA
1 AACTTTTCCAAAAATTACATTTTGAC-CTC-G
*
1103 AACTTCTCC-AAAATTACATTTTGACCTCG
1 AACTTTTCCAAAAATTACATTTTGACCTCG
*
1132 AACTTTTCCAAAAATCACATTTTGACCTCG
1 AACTTTTCCAAAAATTACATTTTGACCTCG
* * * * * *
1162 TACTTTACCAAAGATTATATTTTGACCCCCA
1 AACTTTTCCAAAAATTACATTTTGA-CCTCG
* ** *
1193 AACTTCTCC-AAAATTACCATTTTTCCCTCT
1 AACTTTTCCAAAAATTA-CATTTTGACCTCG
* * *
1223 AA-ATTTCCAAATATCACATTTTCGACCTC-
1 AACTTTTCCAAAAATTACATTTT-GACCTCG
*
1252 AAATTTTCCAAAA
1 AACTTTTCCAAAA
1265 GCTCGATTTT
Statistics
Matches: 125, Mismatches: 30, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
29 21 0.17
30 90 0.72
31 14 0.11
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.35
Consensus pattern (30 bp):
AACTTTTCCAAAAATTACATTTTGACCTCG
Found at i:1263 original size:90 final size:89
Alignment explanation
Indices: 1051--1264 Score: 227
Period size: 90 Copynumber: 2.4 Consensus size: 89
1041 TATTTTCTTT
* * * * *
1051 CAAAAATCACATTATAACC-CTAAACTTTTCCAAAATTGCATTTTAACACCTAAACTTCTCCAAA
1 CAAAAATCACATTTTGACCTCGAAA-TTTTCCAAAATTACATTTTAACACCCAAACTTCTCCAAA
*
1115 ATTACATTTTGACCTCGAACTTTTC
65 ATTACATTTTGACCTCGAACATTTC
* * * * * *
1140 CAAAAATCACATTTTGACCTCGTACTTTACCAAAGATTATATTTTGACCCCCAAACTTCTCCAAA
1 CAAAAATCACATTTTGACCTCGAAATTTTCCAAA-ATTACATTTTAACACCCAAACTTCTCCAAA
** *
1205 ATTACCATTTTTCCCTCTAA-ATTTC
65 ATTA-CATTTTGACCTCGAACATTTC
*
1230 CAAATATCACATTTTCGACCTC-AAATTTTCCAAAA
1 CAAAAATCACATTTT-GACCTCGAAATTTTCCAAAA
1265 GCTCGATTTT
Statistics
Matches: 102, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
89 26 0.25
90 58 0.57
91 18 0.18
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.34
Consensus pattern (89 bp):
CAAAAATCACATTTTGACCTCGAAATTTTCCAAAATTACATTTTAACACCCAAACTTCTCCAAAA
TTACATTTTGACCTCGAACATTTC
Found at i:13751 original size:78 final size:78
Alignment explanation
Indices: 13588--14084 Score: 372
Period size: 78 Copynumber: 6.4 Consensus size: 78
13578 ATTGAAGATT
* * * * * * *
13588 CCAATCTTTTACCTCGAGCCTAACGCAGATCACCATCAGTCT-ATCTCTTACCCTGAG-CTTGGT
1 CCAATCTCTTACCCCGAGCCTGAGGCAGATCATCATCAG-CTGATCTCTTACCCCGAGCCTAGG-
*
13651 GCAGATTACAGCCATCTG
64 GCAGA-T-CA-CCATCAG
* *
13669 ---ATCTCTTACCCCGAGCCTAAGGCAGATCATCATCAGCTAATCTCTTACCCCGAGCCTAGGGC
1 CCAATCTCTTACCCCGAGCCTGAGGCAGATCATCATCAGCTGATCTCTTACCCCGAGCCTAGGGC
*
13731 AGATCATCATCAG
66 AGATCACCATCAG
* * * ** * * * *
13744 TCAATCTCTTACTCCGAGCCTGGGGCAGATTGTAATCATCCGATCTTTTACCCCGAGCCT-GAGG
1 CCAATCTCTTACCCCGAGCCTGAGGCAGATCATCATCAGCTGATCTCTTACCCCGAGCCTAG-GG
13808 CAGATCACCATCAG
65 CAGATCACCATCAG
* * * * * * * * *
13822 CCAATCTCTTACCCCGAGCTTGGGGCATATTA-CAACCGTCTGACCTTTTACCCCAAGCCTAGGG
1 CCAATCTCTTACCCCGAGCCTGAGGCAGATCATCATCAG-CTGATCTCTTACCCCGAGCCTAGGG
* *
13886 CAAATCACCATTAG
65 CAGATCACCATCAG
* * * * *
13900 CCAATCTTTTACCCCAAGCCTGAGGTAGAT--TGCAGTC-GTTTGATCTCTTACCTCGAGCCTAG
1 CCAATCTCTTACCCCGAGCCTGAGGCAGATCAT-CA-TCAG-CTGATCTCTTACCCCGAGCCTAG
*
13962 GGCAGATCATCATCAG
63 GGCAGATCACCATCAG
* * * * * * * *
13978 CCAATCTCTTACCCCGAGCCTGAGGTA-ATTA-CAACCATCCGATCTTTTACCTCGAG-CTTGGG
1 CCAATCTCTTACCCCGAGCCTGAGGCAGATCATC-ATCAGCTGATCTCTTACCCCGAGCCTAGGG
14040 TCAGATCACCATCAG
65 -CAGATCACCATCAG
* *
14055 CCAATCTCGTACCCCGAGCCTAAGGCAGAT
1 CCAATCTCTTACCCCGAGCCTGAGGCAGAT
14085 TGCAGCCATC
Statistics
Matches: 339, Mismatches: 60, Indels: 37
0.78 0.14 0.08
Matches are distributed among these distances:
75 5 0.01
76 7 0.02
77 62 0.18
78 259 0.76
79 6 0.02
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (78 bp):
CCAATCTCTTACCCCGAGCCTGAGGCAGATCATCATCAGCTGATCTCTTACCCCGAGCCTAGGGC
AGATCACCATCAG
Found at i:13796 original size:117 final size:117
Alignment explanation
Indices: 13588--14304 Score: 455
Period size: 117 Copynumber: 6.1 Consensus size: 117
13578 ATTGAAGATT
* * ** * * * * *
13588 CCAATCTTTTACCTCGAGCCTAACGCAGATCACCATCAGTCTATCTCTTACCCTGAGCTTGGTGC
1 CCAATCTCTTACCCCGAGCCTAGGGCAGATCATCATCAGTCAATCTCTTACCCCGAGCCTGGGGC
* * * * *
13653 AGATTACAGCCATCTGATCTCTTACCCCGAGCCTAAGGCAGATCATCATCAG
66 AGATTACAACCATCCGATCTTTTACCCCGAGCCTGAGGCAGATCACCATCAG
* *
13705 CTAATCTCTTACCCCGAGCCTAGGGCAGATCATCATCAGTCAATCTCTTACTCCGAGCCTGGGGC
1 CCAATCTCTTACCCCGAGCCTAGGGCAGATCATCATCAGTCAATCTCTTACCCCGAGCCTGGGGC
** *
13770 AGATTGTAATCATCCGATCTTTTACCCCGAGCCTGAGGCAGATCACCATCAG
66 AGATTACAACCATCCGATCTTTTACCCCGAGCCTGAGGCAGATCACCATCAG
* * * * * * * * * * *
13822 CCAATCTCTTACCCCGAGCTTGGGGCATATTA-CAACCGTCTGACCTTTTACCCCAAGCCTAGGG
1 CCAATCTCTTACCCCGAGCCTAGGGCAGATCATCATCAGTC-AATCTCTTACCCCGAGCCTGGGG
* * * ** * * * * **
13886 CAAATCACCATTAGCCAATCTTTTACCCCAAGCCTGAGGTAGAT-TGCAGTC-G
65 CAGATTACAACCATCCGATCTTTTACCCCGAGCCTGAGGCAGATCACCA-TCAG
*** * * *
13938 TTTGATCTCTTACCTCGAGCCTAGGGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTGAGG
1 -CCAATCTCTTACCCCGAGCCTAGGGCAGATCATCATCAGTCAATCTCTTACCCCGAGCCTGGGG
* * *
14003 TA-ATTACAACCATCCGATCTTTTACCTCGAGCTTG-GGTCAGATCACCATCAG
65 CAGATTACAACCATCCGATCTTTTACCCCGAGCCTGAGG-CAGATCACCATCAG
* * * ** *
14055 CCAATCTCGTACCCCGAGCCTAAGGCAGAT--TGCAGCCA-TCCAATCTCTTACTTCGAGCCTAG
1 CCAATCTCTTACCCCGAGCCTAGGGCAGATCAT-CA-TCAGT-CAATCTCTTACCCCGAGCCTGG
* * ** ** * * * * * * * * * * * *
14117 GGCAAATCATTATTAACCAATCTCTTACCCTGAACTTAAGGTAAATTA-CAGCCG
63 GGCAGATTACAACCATCCGATCTTTTACCCCGAGCCTGAGGCAGATCACCATCAG
* * * * * * * * * * *
14171 TCCTATCTTTTACCCCGAG-CTTGAGGTAGATTACCTTCAGCCAATATTTTACCCCGATCCTGGG
1 -CCAATCTCTTACCCCGAGCCTAG-GGCAGATCATCATCAGTCAATCTCTTACCCCGAGCCTGGG
* * * * *
14235 GCAGATTGCAAACATCCGATCTCTTACCTCGAGCCTGAGGCAGATCACCATCAA
64 GCAGATTACAACCATCCGATCTTTTACCCCGAGCCTGAGGCAGATCACCATCAG
* *
14289 CCAGTTTCTTACCCCG
1 CCAATCTCTTACCCCG
14305 CGACAGGGGC
Statistics
Matches: 438, Mismatches: 144, Indels: 36
0.71 0.23 0.06
Matches are distributed among these distances:
114 1 0.00
115 4 0.01
116 92 0.21
117 330 0.75
118 11 0.03
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (117 bp):
CCAATCTCTTACCCCGAGCCTAGGGCAGATCATCATCAGTCAATCTCTTACCCCGAGCCTGGGGC
AGATTACAACCATCCGATCTTTTACCCCGAGCCTGAGGCAGATCACCATCAG
Found at i:13884 original size:156 final size:154
Alignment explanation
Indices: 13708--14304 Score: 606
Period size: 156 Copynumber: 3.8 Consensus size: 154
13698 TCATCAGCTA
* * * * *
13708 ATCTCTTACCCCGAGCCTAGGGCAGATCATCATCAGTCAATCTCTTACTCCGAGCCTGGGGCAGA
1 ATCTTTTACCCCGAG-CTAGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGAGGCAGA
* * * *
13773 TTGTAATCATCCGATCTTTTACCCCGAGCCT-GAGGCAGATCACCATCAGCCAATCTCTTACCCC
65 TTGCAATCATCCGATCTCTTACCTCGAGCCTAG-GGCAGATCACCATCAACCAATCTCTTACCCC
* *
13837 GAGCTTGGGGCATATTACAACCGTCTG
129 GAGCTTGAGGTA-ATTACAACCGTCTG
* * * * * * *
13864 ACCTTTTACCCCAAGCCTAGGGCAAATCACCATTAGCCAATCTTTTACCCCAAGCCTGAGGTAGA
1 ATCTTTTACCCCGAG-CTAGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGAGGCAGA
* * ** * *
13929 TTGCAGTCGTTTGATCTCTTACCTCGAGCCTAGGGCAGATCATCATCAGCCAATCTCTTACCCCG
65 TTGCAATCATCCGATCTCTTACCTCGAGCCTAGGGCAGATCACCATCAACCAATCTCTTACCCCG
* * *
13994 AGCCTGAGGTAATTACAACCATCCG
130 AGCTTGAGGTAATTACAACCGTCTG
* * * *
14019 ATCTTTTACCTCGAGCTTGGGTCAGATCACCATCAGCCAATCTCGTACCCCGAGCCTAAGGCAGA
1 ATCTTTTACCCCGAGCTAGGG-CAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGAGGCAGA
** * * * ** * *
14084 TTGCAGCCATCCAATCTCTTACTTCGAGCCTAGGGCAAATCATTATTAACCAATCTCTTACCCTG
65 TTGCAATCATCCGATCTCTTACCTCGAGCCTAGGGCAGATCACCATCAACCAATCTCTTACCCCG
* * *
14149 AACTTAAGGTAAATTACAGCCGTCCT-
130 AGCTTGAGGT-AATTACAACCGT-CTG
* * * * * * * *
14175 ATCTTTTACCCCGAGCTTGAGGTAGATTACCTTCAGCCAATATTTTACCCCGATCCTGGGGCAGA
1 ATCTTTTACCCCGAGCTAG-GGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGAGGCAGA
* * *
14240 TTGCAAACATCCGATCTCTTACCTCGAGCCT-GAGGCAGATCACCATCAACCAGTTTCTTACCCC
65 TTGCAATCATCCGATCTCTTACCTCGAGCCTAG-GGCAGATCACCATCAACCAATCTCTTACCCC
14304 G
129 G
14305 CGACAGGGGC
Statistics
Matches: 361, Mismatches: 74, Indels: 12
0.81 0.17 0.03
Matches are distributed among these distances:
154 5 0.01
155 122 0.34
156 230 0.64
157 4 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (154 bp):
ATCTTTTACCCCGAGCTAGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTGAGGCAGAT
TGCAATCATCCGATCTCTTACCTCGAGCCTAGGGCAGATCACCATCAACCAATCTCTTACCCCGA
GCTTGAGGTAATTACAACCGTCTG
Found at i:13997 original size:39 final size:39
Alignment explanation
Indices: 13588--14146 Score: 309
Period size: 39 Copynumber: 14.4 Consensus size: 39
13578 ATTGAAGATT
* * ** *
13588 CCAATCTTTTACCTCGAGCCTAACGCAGATCACCATCAG
1 CCAATCTCTTACCCCGAGCCTAGGGCAGATCATCATCAG
* * * * * * *
13627 TCTATCTCTTACCCTGAG-CTTGGTGCAGATTA-CAGCCAT
1 CCAATCTCTTACCCCGAGCCTAGG-GCAGATCATCA-TCAG
** *
13666 CTGATCTCTTACCCCGAGCCTAAGGCAGATCATCATCAG
1 CCAATCTCTTACCCCGAGCCTAGGGCAGATCATCATCAG
*
13705 CTAATCTCTTACCCCGAGCCTAGGGCAGATCATCATCAG
1 CCAATCTCTTACCCCGAGCCTAGGGCAGATCATCATCAG
* * * ** * *
13744 TCAATCTCTTACTCCGAGCCTGGGGCAGATTGTAATCAT
1 CCAATCTCTTACCCCGAGCCTAGGGCAGATCATCATCAG
* * *
13783 CCGATCTTTTACCCCGAGCCT-GAGGCAGATCACCATCAG
1 CCAATCTCTTACCCCGAGCCTAG-GGCAGATCATCATCAG
* * * * * *
13822 CCAATCTCTTACCCCGAGCTTGGGGCATATTA-CAACCG
1 CCAATCTCTTACCCCGAGCCTAGGGCAGATCATCATCAG
** * * * * * *
13860 TCTGACCTTTTACCCCAAGCCTAGGGCAAATCACCATTAG
1 -CCAATCTCTTACCCCGAGCCTAGGGCAGATCATCATCAG
* * *
13900 CCAATCTTTTACCCCAAGCCT-GAGGTAGAT--TGCAGTC-G
1 CCAATCTCTTACCCCGAGCCTAG-GGCAGATCAT-CA-TCAG
*** *
13938 TTTGATCTCTTACCTCGAGCCTAGGGCAGATCATCATCAG
1 -CCAATCTCTTACCCCGAGCCTAGGGCAGATCATCATCAG
* * * *
13978 CCAATCTCTTACCCCGAGCCT-GAGGTA-ATTA-CAACCAT
1 CCAATCTCTTACCCCGAGCCTAG-GGCAGATCATC-ATCAG
* * * * *
14016 CCGATCTTTTACCTCGAG-CTTGGGTCAGATCACCATCAG
1 CCAATCTCTTACCCCGAGCCTAGGG-CAGATCATCATCAG
* * * *
14055 CCAATCTCGTACCCCGAGCCTAAGGCAGAT--TGCAGCCAT
1 CCAATCTCTTACCCCGAGCCTAGGGCAGATCAT-CA-TCAG
** * * * *
14094 CCAATCTCTTACTTCGAGCCTAGGGCAAATCATTATTAA
1 CCAATCTCTTACCCCGAGCCTAGGGCAGATCATCATCAG
14133 CCAATCTCTTACCC
1 CCAATCTCTTACCC
14147 TGAACTTAAG
Statistics
Matches: 386, Mismatches: 107, Indels: 54
0.71 0.20 0.10
Matches are distributed among these distances:
37 5 0.01
38 39 0.10
39 321 0.83
40 19 0.05
41 2 0.01
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (39 bp):
CCAATCTCTTACCCCGAGCCTAGGGCAGATCATCATCAG
Found at i:14139 original size:78 final size:78
Alignment explanation
Indices: 13708--14338 Score: 462
Period size: 78 Copynumber: 8.1 Consensus size: 78
13698 TCATCAGCTA
* * * * * * *
13708 ATCTCTTACCCCGAGCCTAGGGCAGATCATCATCAGTCAATCTCTTACTCCGAGCCTGGGGCAGA
1 ATCTCTTACCTCGAGCCTAGGGCAAATCACCATCAGCCAATCTCTTACCCCGAGCCTGAGGTAGA
* **
13773 TTGTAATCATCCG
66 TTGCAGCCATCCG
* * * * * * *
13786 ATCTTTTACCCCGAGCCT-GAGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCTTGGGGCAT
1 ATCTCTTACCTCGAGCCTAG-GGCAAATCACCATCAGCCAATCTCTTACCCCGAGCCTGAGGTAG
* * * *
13850 ATTACAACCGTCTG
65 ATTGCAGCCATCCG
* * * * * * *
13864 ACCTTTTACCCCAAGCCTAGGGCAAATCACCATTAGCCAATCTTTTACCCCAAGCCTGAGGTAGA
1 ATCTCTTACCTCGAGCCTAGGGCAAATCACCATCAGCCAATCTCTTACCCCGAGCCTGAGGTAGA
* * **
13929 TTGCAGTCGTTTG
66 TTGCAGCCATCCG
* *
13942 ATCTCTTACCTCGAGCCTAGGGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTGAGGTA-A
1 ATCTCTTACCTCGAGCCTAGGGCAAATCACCATCAGCCAATCTCTTACCCCGAGCCTGAGGTAGA
* *
14006 TTACAACCATCCG
66 TTGCAGCCATCCG
* * * * * *
14019 ATCTTTTACCTCGAG-CTTGGGTCAGATCACCATCAGCCAATCTCGTACCCCGAGCCTAAGGCAG
1 ATCTCTTACCTCGAGCCTAGGG-CAAATCACCATCAGCCAATCTCTTACCCCGAGCCTGAGGTAG
*
14083 ATTGCAGCCATCCA
65 ATTGCAGCCATCCG
* ** * * * * * * *
14097 ATCTCTTACTTCGAGCCTAGGGCAAATCATTATTAACCAATCTCTTACCCTGAACTTAAGGTAAA
1 ATCTCTTACCTCGAGCCTAGGGCAAATCACCATCAGCCAATCTCTTACCCCGAGCCTGAGGTAGA
* * *
14162 TTACAGCCGTCCT
66 TTGCAGCCATCCG
* * * * * * * * * * * *
14175 ATCTTTTACCCCGAG-CTTGAGGTAGATTACCTTCAGCCAATATTTTACCCCGATCCTGGGGCAG
1 ATCTCTTACCTCGAGCCTAG-GGCAAATCACCATCAGCCAATCTCTTACCCCGAGCCTGAGGTAG
**
14239 ATTGCAAACATCCG
65 ATTGCAGCCATCCG
* * * * * * * * *
14253 ATCTCTTACCTCGAGCCT-GAGGCAGATCACCATCAACCAGTTTCTTACCCCGCGACAGGGGCAG
1 ATCTCTTACCTCGAGCCTAG-GGCAAATCACCATCAGCCAATCTCTTACCCCGAGCCTGAGGTAG
* *
14317 ATTGCAACCATCCA
65 ATTGCAGCCATCCG
14331 ATCTCTTA
1 ATCTCTTA
14339 AAAAAATCTC
Statistics
Matches: 439, Mismatches: 107, Indels: 14
0.78 0.19 0.03
Matches are distributed among these distances:
76 5 0.01
77 63 0.14
78 363 0.83
79 8 0.02
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (78 bp):
ATCTCTTACCTCGAGCCTAGGGCAAATCACCATCAGCCAATCTCTTACCCCGAGCCTGAGGTAGA
TTGCAGCCATCCG
Found at i:14338 original size:39 final size:39
Alignment explanation
Indices: 14232--14338 Score: 88
Period size: 39 Copynumber: 2.7 Consensus size: 39
14222 CCCCGATCCT
* * * *
14232 GGGGCAGATTGCAAACATCCGATCTCTTACCTCGAGCCT
1 GGGGCAGATTGCAAACATCCAATCTCTTACCCCGAGACA
* ** * * * * * *
14271 GAGGCAGATCACCATCAACCAGTTTCTTACCCCGCGACA
1 GGGGCAGATTGCAAACATCCAATCTCTTACCCCGAGACA
*
14310 GGGGCAGATTGCAACCATCCAATCTCTTA
1 GGGGCAGATTGCAAACATCCAATCTCTTA
14339 AAAAAATCTC
Statistics
Matches: 47, Mismatches: 21, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.26, C:0.32, G:0.21, T:0.21
Consensus pattern (39 bp):
GGGGCAGATTGCAAACATCCAATCTCTTACCCCGAGACA
Found at i:14430 original size:52 final size:52
Alignment explanation
Indices: 14312--14438 Score: 184
Period size: 52 Copynumber: 2.5 Consensus size: 52
14302 CCGCGACAGG
* *
14312 GGCAGATTGCAACCATCCAATCTCTTAAAAAAATCTCTTACCCCAGTCATGA
1 GGCAGATTGCAACCATCAAATCTCTGAAAAAAATCTCTTACCCCAGTCATGA
* * * *
14364 GGAAAATAGCAACCATCAAATCTCTGAAAGAAATCTCTTACCCCAGTCATGA
1 GGCAGATTGCAACCATCAAATCTCTGAAAAAAATCTCTTACCCCAGTCATGA
*
14416 GGCAGATTGAAACCAT-AAATCTC
1 GGCAGATTGCAACCATCAAATCTC
14439 ATCTTTTACC
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
51 7 0.11
52 58 0.89
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (52 bp):
GGCAGATTGCAACCATCAAATCTCTGAAAAAAATCTCTTACCCCAGTCATGA
Found at i:16535 original size:29 final size:31
Alignment explanation
Indices: 16478--16567 Score: 102
Period size: 29 Copynumber: 3.1 Consensus size: 31
16468 TATATTAAAC
16478 CCCT-ATTTTCTTTCAAAAATTACATTTTAA
1 CCCTAATTTTCTTTCAAAAATTACATTTTAA
*
16508 CCCTAATTTT-TTTC-AAAATTGCATTTTAA
1 CCCTAATTTTCTTTCAAAAATTACATTTTAA
**
16537 CCCTAAACTTCTCTT---AAATTACATTTTAA
1 CCCTAATTTTCT-TTCAAAAATTACATTTTAA
16566 CC
1 CC
16568 TCGAACTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
29 37 0.70
30 9 0.17
31 7 0.13
ACGTcount: A:0.32, C:0.22, G:0.01, T:0.44
Consensus pattern (31 bp):
CCCTAATTTTCTTTCAAAAATTACATTTTAA
Found at i:16633 original size:28 final size:29
Alignment explanation
Indices: 16488--16659 Score: 138
Period size: 29 Copynumber: 5.9 Consensus size: 29
16478 CCCTATTTTC
**
16488 TTTCAAAAATTACATTTTAACC-CTAATTTT
1 TTTCAAAAATTACATTTTAACCTC-AA-ACT
*
16518 TTTC-AAAATTGCATTTTAACC-CTAAACT
1 TTTCAAAAATTACATTTTAACCTC-AAACT
* ** *
16546 TCTCTTAAATTACATTTTAACCTCGAACT
1 TTTCAAAAATTACATTTTAACCTCAAACT
* * * *
16575 TTTCCAAAAATCACAGTTTGATCCT-GAACT
1 TTT-CAAAAATTACA-TTTTAACCTCAAACT
*
16605 TTTCAAAAATTACA-TTTAATCTCAAACT
1 TTTCAAAAATTACATTTTAACCTCAAACT
* *
16633 TCTCCAAAATTACATTTTAACCTCAAA
1 TTTCAAAAATTACATTTTAACCTCAAA
16660 TTCTCCGAAG
Statistics
Matches: 115, Mismatches: 21, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
27 5 0.04
28 20 0.17
29 62 0.54
30 21 0.18
31 7 0.06
ACGTcount: A:0.37, C:0.22, G:0.03, T:0.39
Consensus pattern (29 bp):
TTTCAAAAATTACATTTTAACCTCAAACT
Found at i:17781 original size:2 final size:2
Alignment explanation
Indices: 17774--17819 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
17764 AACATGTATT
*
17774 CA CA CA CA CA CA CA CA CA TA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
17816 CA CA
1 CA CA
17820 TATATATAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.48, G:0.00, T:0.02
Consensus pattern (2 bp):
CA
Found at i:23421 original size:15 final size:14
Alignment explanation
Indices: 23380--23428 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
23370 CCAAATCCAA
* *
23380 AAAAAATTAGAGCT
1 AAAAAATTAAATCT
23394 AAAAAATTAAATCT
1 AAAAAATTAAATCT
* *
23408 AAAGAATCTAAATCC
1 AAAAAAT-TAAATCT
23423 AAAAAA
1 AAAAAA
23429 AAACCCGATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 18 0.62
15 11 0.38
ACGTcount: A:0.63, C:0.10, G:0.06, T:0.20
Consensus pattern (14 bp):
AAAAAATTAAATCT
Found at i:33438 original size:11 final size:11
Alignment explanation
Indices: 33408--33441 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
33398 CAATTTATCA
33408 ATTTGTTACTCT
1 ATTTGTTACT-T
33420 ATTT-TTACTT
1 ATTTGTTACTT
33430 ATTTGTTACTT
1 ATTTGTTACTT
33441 A
1 A
33442 ATCGAGTCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.24
11 12 0.57
12 4 0.19
ACGTcount: A:0.21, C:0.12, G:0.06, T:0.62
Consensus pattern (11 bp):
ATTTGTTACTT
Found at i:37871 original size:2 final size:2
Alignment explanation
Indices: 37864--37889 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
37854 TGGCCCTAAC
37864 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
37890 TAAGTTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:40199 original size:42 final size:42
Alignment explanation
Indices: 40152--40231 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
40142 ACTCAAATAA
* *
40152 CCAACATTAACATGAATTTATCTGAATGGAATCTTCCATTAG
1 CCAACATTAACATCAATCTATCTGAATGGAATCTTCCATTAG
*
40194 CCAACATTAACATCAATCTATTTGAATGGAATCTTCCA
1 CCAACATTAACATCAATCTATCTGAATGGAATCTTCCA
40232 GCAGTTAATC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (42 bp):
CCAACATTAACATCAATCTATCTGAATGGAATCTTCCATTAG
Found at i:44936 original size:15 final size:15
Alignment explanation
Indices: 44916--44950 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
44906 TGAAACTCGC
* *
44916 GGTGGTCTTGGAGGT
1 GGTGGTCTTGAAGGG
44931 GGTGGTCTTGAAGGG
1 GGTGGTCTTGAAGGG
44946 GGTGG
1 GGTGG
44951 GGCACTAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.09, C:0.06, G:0.57, T:0.29
Consensus pattern (15 bp):
GGTGGTCTTGAAGGG
Found at i:45618 original size:90 final size:90
Alignment explanation
Indices: 45465--45655 Score: 373
Period size: 90 Copynumber: 2.1 Consensus size: 90
45455 ATCTGCTGTC
45465 TCTGATGTTGATTCAAAGACATGAAAAGGATTCTCCATGACATTAGAGCCAGTCTTGCTTGAATT
1 TCTGATGTTGATTCAAAGACATGAAAAGGATTCTCCATGACATTAGAGCCAGTCTTGCTTGAATT
45530 AGAGGCTGGTTTCTGGGGGGCAGCA
66 AGAGGCTGGTTTCTGGGGGGCAGCA
45555 TCTGATGTTGATTCAAAGACATGAAAAGGATTCTCCATGACATTAGAGCCAGTCTTGCTTGAATT
1 TCTGATGTTGATTCAAAGACATGAAAAGGATTCTCCATGACATTAGAGCCAGTCTTGCTTGAATT
*
45620 AGAGGTTGGTTTCTGGGGGGCAGCA
66 AGAGGCTGGTTTCTGGGGGGCAGCA
45645 TCTGATGTTGA
1 TCTGATGTTGA
45656 CCTGTCCAAA
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 100 1.00
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (90 bp):
TCTGATGTTGATTCAAAGACATGAAAAGGATTCTCCATGACATTAGAGCCAGTCTTGCTTGAATT
AGAGGCTGGTTTCTGGGGGGCAGCA
Found at i:49920 original size:23 final size:21
Alignment explanation
Indices: 49894--49939 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
49884 AATAACTTGA
49894 TTAACTCAAATAATTTGAACTAT
1 TTAACTC-AA-AATTTGAACTAT
* *
49917 TTAATTCAAAATTTGAATTAT
1 TTAACTCAAAATTTGAACTAT
49938 TT
1 TT
49940 TTCGAGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 13 0.62
22 2 0.10
23 6 0.29
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (21 bp):
TTAACTCAAAATTTGAACTAT
Found at i:51003 original size:24 final size:23
Alignment explanation
Indices: 50954--51003 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
50944 TGATTTAAAT
**
50954 AAATACTCATATTTGTATAATTA
1 AAATACTCATATTTGTATAACCA
* *
50977 AAATATTCATATTTTTTATAACCA
1 AAATACTCATA-TTTGTATAACCA
51001 AAA
1 AAA
51004 AAAATATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (23 bp):
AAATACTCATATTTGTATAACCA
Found at i:51393 original size:15 final size:15
Alignment explanation
Indices: 51373--51438 Score: 55
Period size: 14 Copynumber: 4.3 Consensus size: 15
51363 ACTAAAAAAC
51373 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
51388 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
51407 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
*
51422 A-TTAATATTAA-AT
1 ATTTATTATTAATAT
51435 ATTT
1 ATTT
51439 TTCAATAACA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
13 3 0.07
14 11 0.26
15 10 0.24
16 1 0.02
17 7 0.17
18 1 0.02
19 9 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:51603 original size:22 final size:21
Alignment explanation
Indices: 51568--51611 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
51558 ATATTTAATA
51568 ATATTAAAAATTATAATATTTT
1 ATATTAAAAATTATAA-ATTTT
* * *
51590 ATATTAATATTTATTAATTTT
1 ATATTAAAAATTATAAATTTT
51611 A
1 A
51612 AATATTTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATATTAAAAATTATAAATTTT
Found at i:54741 original size:46 final size:46
Alignment explanation
Indices: 54674--54766 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
54664 GAGCATCCTC
54674 AAAACTTGCTTTTTTTGCTATGAAGATTGTGAAGACTTGATTTCGT
1 AAAACTTGCTTTTTTTGCTATGAAGATTGTGAAGACTTGATTTCGT
54720 AAAACTTGCTTTTTTTGCTATGAAGATTGTGAAGACTTGATTTCGT
1 AAAACTTGCTTTTTTTGCTATGAAGATTGTGAAGACTTGATTTCGT
54766 A
1 A
54767 GCAAGATGGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.43
Consensus pattern (46 bp):
AAAACTTGCTTTTTTTGCTATGAAGATTGTGAAGACTTGATTTCGT
Found at i:54942 original size:18 final size:18
Alignment explanation
Indices: 54921--54982 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
54911 TCATTCTAGT
*
54921 TTATTTTTATTT-ATTAAA
1 TTATTATTATTTAATT-AA
54939 TTATTATTATTTAATTAA
1 TTATTATTATTTAATTAA
*
54957 TTATGATT-TTTAA--AA
1 TTATTATTATTTAATTAA
54972 TTATTATTATT
1 TTATTATTATT
54983 GTTCATCATC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
15 9 0.23
16 2 0.05
17 5 0.13
18 20 0.51
19 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
TTATTATTATTTAATTAA
Found at i:63002 original size:94 final size:94
Alignment explanation
Indices: 62841--63068 Score: 357
Period size: 94 Copynumber: 2.4 Consensus size: 94
62831 TTTGTATATT
* * *
62841 CTCGTTAGCTTAGTGTGAGCAGCATCGTATACTAGTAACAGTTATATGTACAAATACCGTATTGA
1 CTCGTCAGCTTAGTGTGAGCAGCATCGTATACTGGTAACAGTTATATGTACAAATACCGTATCGA
** * **
62906 TGGCTGAGGTACCACATATGTTTCGTGTC
66 TGGCAAAGGTACCACATATGTTACAAGTC
* *
62935 CTCGTCAGCTTAGTGTGAGAAGCATCGTATACTGGTAACAGTTATATGTACAGATACCGTATCGA
1 CTCGTCAGCTTAGTGTGAGCAGCATCGTATACTGGTAACAGTTATATGTACAAATACCGTATCGA
*
63000 TGGCAAAGGTACCGCATATGTTACAAGTC
66 TGGCAAAGGTACCACATATGTTACAAGTC
63029 CTCGTCAGCTTAGTGTGAGCAGCATCGTATACTGGTAACA
1 CTCGTCAGCTTAGTGTGAGCAGCATCGTATACTGGTAACA
63069 AAAATGACAT
Statistics
Matches: 122, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 122 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (94 bp):
CTCGTCAGCTTAGTGTGAGCAGCATCGTATACTGGTAACAGTTATATGTACAAATACCGTATCGA
TGGCAAAGGTACCACATATGTTACAAGTC
Found at i:65516 original size:23 final size:23
Alignment explanation
Indices: 65468--65557 Score: 85
Period size: 23 Copynumber: 3.9 Consensus size: 23
65458 TTGTTTAATG
**
65468 TTAA-CGAACATGTTCATTTAAC-
1 TTAATCGAACATGTTCA-CGAACA
*
65490 TTAATCGAATATGTTCACGAACA
1 TTAATCGAACATGTTCACGAACA
* * *
65513 TTAAACGAACATATTCATGAACA
1 TTAATCGAACATGTTCACGAACA
*
65536 TAAAATCGAACATGTTCACGAA
1 T-TAATCGAACATGTTCACGAA
65558 TAATGTTAAT
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
22 7 0.13
23 31 0.57
24 16 0.30
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (23 bp):
TTAATCGAACATGTTCACGAACA
Found at i:68676 original size:51 final size:51
Alignment explanation
Indices: 68613--68793 Score: 299
Period size: 51 Copynumber: 3.5 Consensus size: 51
68603 TAAACGAAAG
* *
68613 GGTCCGATGACTAAGTGTCATCATGAGTAAATGAATCTTTTATGGATTAAT
1 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATTAAT
*
68664 GGTTCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATTAAT
1 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATTAAT
* * * *
68715 GGTCCGATGACTAAATGTCATCGTGAGTAAATGAATCCTATATGGAATAAA
1 GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATTAAT
68766 GGTCCGATGACTAAGTGTCATCGTGAGT
1 GGTCCGATGACTAAGTGTCATCGTGAGT
68794 TCATAGATTC
Statistics
Matches: 121, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 121 1.00
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (51 bp):
GGTCCGATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTATGGATTAAT
Found at i:75955 original size:78 final size:78
Alignment explanation
Indices: 75865--76016 Score: 250
Period size: 78 Copynumber: 1.9 Consensus size: 78
75855 ATGACTAAGT
* * * *
75865 GTCATTGTGAGTAAATGAATCCTTTATGGATTAATGGTTCGATGTCTAAGTGTCATCGTGAGTAA
1 GTCATCGTGAGTAAATGAATCCTTTATGGATTAATGGTTCGATGACTAAATGTCATCATGAGTAA
75930 ATGAATCCTCTTA
66 ATGAATCCTCTTA
* *
75943 GTCATCGTGAGTAAATGAATCCTTTATGGATTAATGGTTCGATGACTAAATGTTATTATGAGTAA
1 GTCATCGTGAGTAAATGAATCCTTTATGGATTAATGGTTCGATGACTAAATGTCATCATGAGTAA
76008 ATGAATCCT
66 ATGAATCCT
76017 TTATGAATTA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (78 bp):
GTCATCGTGAGTAAATGAATCCTTTATGGATTAATGGTTCGATGACTAAATGTCATCATGAGTAA
ATGAATCCTCTTA
Found at i:76027 original size:51 final size:51
Alignment explanation
Indices: 75943--76107 Score: 249
Period size: 51 Copynumber: 3.2 Consensus size: 51
75933 AATCCTCTTA
* *
75943 GTCATCGTGAGTAAATGAATCCTTTATGGATTAATGGTTCGATGACTAAAT
1 GTCATCATGAGTAAATGAATCCTTTATGGATTAATGGTTCGATGACTAAGT
* * *
75994 GTTATTATGAGTAAATGAATCCTTTATGAATTAATGGTTCGATGACTAAGT
1 GTCATCATGAGTAAATGAATCCTTTATGGATTAATGGTTCGATGACTAAGT
* * * *
76045 GTCATCGTGAGTAAATGAATCCTGTATGGATTAAAGGTCCGATGACTAAGT
1 GTCATCATGAGTAAATGAATCCTTTATGGATTAATGGTTCGATGACTAAGT
76096 GTCATCATGAGT
1 GTCATCATGAGT
76108 TTATAGATTC
Statistics
Matches: 101, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 101 1.00
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.35
Consensus pattern (51 bp):
GTCATCATGAGTAAATGAATCCTTTATGGATTAATGGTTCGATGACTAAGT
Found at i:78135 original size:53 final size:53
Alignment explanation
Indices: 78050--78167 Score: 200
Period size: 53 Copynumber: 2.2 Consensus size: 53
78040 GATCAGTCAT
*
78050 AATGTGTGAACTGTCTTTGCAAAGTATCGGATATGTGTACTATCATTTCATTG
1 AATGTGTGAACTATCTTTGCAAAGTATCGGATATGTGTACTATCATTTCATTG
* * *
78103 AATGTGTGAACTATCTTTGCAAAGTATTGGATATGTGTATTGTCATTTCATTG
1 AATGTGTGAACTATCTTTGCAAAGTATCGGATATGTGTACTATCATTTCATTG
78156 AATGTGTGAACT
1 AATGTGTGAACT
78168 GTCATTGTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 61 1.00
ACGTcount: A:0.27, C:0.11, G:0.21, T:0.41
Consensus pattern (53 bp):
AATGTGTGAACTATCTTTGCAAAGTATCGGATATGTGTACTATCATTTCATTG
Found at i:78179 original size:24 final size:25
Alignment explanation
Indices: 78143--78199 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 25
78133 ATATGTGTAT
* **
78143 TGTCATT-TCATTGAATGTGTGAAC
1 TGTCATTGTCATTGAATATGCAAAC
*
78167 TGTCATTGT-ATTGTATATGCAAAC
1 TGTCATTGTCATTGAATATGCAAAC
78191 TGTCATTGT
1 TGTCATTGT
78200 GCTTGTCTGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 27 0.96
25 1 0.04
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (25 bp):
TGTCATTGTCATTGAATATGCAAAC
Found at i:80200 original size:30 final size:30
Alignment explanation
Indices: 80149--80217 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 30
80139 AGTTTATATA
*
80149 TTTATTATTTTTAGAGAGTTAAA-T-TAAATT
1 TTTATCATTTTTAGAGAGTTAAAGTGT-AA-T
*
80179 TTTATCATTTTT-GATGGGTTAAAGTGTAAT
1 TTTATCATTTTTAGA-GAGTTAAAGTGTAAT
80209 TTTATCATT
1 TTTATCATT
80218 ACTAATTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 2 0.06
30 28 0.82
31 3 0.09
32 1 0.03
ACGTcount: A:0.30, C:0.03, G:0.13, T:0.54
Consensus pattern (30 bp):
TTTATCATTTTTAGAGAGTTAAAGTGTAAT
Found at i:91819 original size:30 final size:30
Alignment explanation
Indices: 91760--91826 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 30
91750 TAAATGATTT
**
91760 TAAAATTATTAAAATTATTTTTTTGATAAA
1 TAAAATTATTAAAATTATTTTAATGATAAA
91790 TAAAATTATTAAAATTATTTTAA--AT--A
1 TAAAATTATTAAAATTATTTTAATGATAAA
91816 TAAAATTATTA
1 TAAAATTATTA
91827 TATGATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 12 0.34
28 2 0.06
30 21 0.60
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (30 bp):
TAAAATTATTAAAATTATTTTAATGATAAA
Found at i:92181 original size:22 final size:22
Alignment explanation
Indices: 92131--92181 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
92121 ACAGTCGGCT
92131 TGTT-TTTGGTGGTTTTGTGTG
1 TGTTGTTTGGTGGTTTTGTGTG
* * *
92152 GGTGGTTTGTTGGTTTT-TAGTG
1 TGTTGTTTGGTGGTTTTGT-GTG
92174 TGTTGTTT
1 TGTTGTTT
92182 TTATGTTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.02, C:0.00, G:0.37, T:0.61
Consensus pattern (22 bp):
TGTTGTTTGGTGGTTTTGTGTG
Found at i:92949 original size:38 final size:40
Alignment explanation
Indices: 92884--92981 Score: 114
Period size: 38 Copynumber: 2.5 Consensus size: 40
92874 GAAAATTGAA
* * * *
92884 AATTAAAATAA-TATAATAATATCATATTT-TAAAAAAAT
1 AATTATAATAATTTTAATAATTTCATATTTCAAAAAAAAT
*
92922 AA-TATAATAATTTTAATAATTTTATATTTCAAAAAAAAT
1 AATTATAATAATTTTAATAATTTCATATTTCAAAAAAAAT
*
92961 AATTTTAATAATTTTAA-AATT
1 AATTATAATAATTTTAATAATT
92982 ATTTATTGAC
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
37 7 0.14
38 17 0.33
39 14 0.27
40 13 0.25
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (40 bp):
AATTATAATAATTTTAATAATTTCATATTTCAAAAAAAAT
Found at i:96834 original size:13 final size:13
Alignment explanation
Indices: 96805--96837 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
96795 TCACTATTTG
*
96805 ATTTTTCATTCTT
1 ATTTTTAATTCTT
96818 -TTTTTAATTCTT
1 ATTTTTAATTCTT
96830 ATTTTTAA
1 ATTTTTAA
96838 CACGTTGCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (13 bp):
ATTTTTAATTCTT
Found at i:103845 original size:22 final size:22
Alignment explanation
Indices: 103804--103846 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
103794 TTGAATTAAG
*
103804 AACCAAAAAATAATGCATAAAA
1 AACCAAAAAATAAGGCATAAAA
* *
103826 AACCAAAAAGTAAGGTATAAA
1 AACCAAAAAATAAGGCATAAA
103847 CCCCTTCAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.65, C:0.12, G:0.09, T:0.14
Consensus pattern (22 bp):
AACCAAAAAATAAGGCATAAAA
Found at i:104070 original size:28 final size:28
Alignment explanation
Indices: 104029--104103 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
104019 GTAATGCAAA
*
104029 AATATGGTCGTTGGAATCTAACCGTTAC
1 AATATGGCCGTTGGAATCTAACCGTTAC
* * *
104057 AATATGGCCATTGGAATTTGACCGTTAC
1 AATATGGCCGTTGGAATCTAACCGTTAC
*
104085 AATATGACCGTTGGAATCT
1 AATATGGCCGTTGGAATCT
104104 GATTGTTGCA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.32
Consensus pattern (28 bp):
AATATGGCCGTTGGAATCTAACCGTTAC
Found at i:104094 original size:14 final size:14
Alignment explanation
Indices: 104049--104096 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
104039 TTGGAATCTA
104049 ACCGTTACAATATG
1 ACCGTTACAATATG
* * ** *
104063 GCCATTGGAATTTG
1 ACCGTTACAATATG
104077 ACCGTTACAATATG
1 ACCGTTACAATATG
104091 ACCGTT
1 ACCGTT
104097 GGAATCTGAT
Statistics
Matches: 24, Mismatches: 10, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (14 bp):
ACCGTTACAATATG
Found at i:104115 original size:28 final size:28
Alignment explanation
Indices: 104037--104123 Score: 111
Period size: 28 Copynumber: 3.1 Consensus size: 28
104027 AAAATATGGT
* *
104037 CGTTGGAATCTAACCGTTACAATATGGC
1 CGTTGGAATCTGACCGTTACAATATGAC
* *
104065 CATTGGAATTTGACCGTTACAATATGAC
1 CGTTGGAATCTGACCGTTACAATATGAC
** *
104093 CGTTGGAATCTGATTGTTGCAATATGAC
1 CGTTGGAATCTGACCGTTACAATATGAC
104121 CGT
1 CGT
104124 CGAATTTTTG
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (28 bp):
CGTTGGAATCTGACCGTTACAATATGAC
Found at i:110646 original size:17 final size:17
Alignment explanation
Indices: 110616--110692 Score: 63
Period size: 17 Copynumber: 4.6 Consensus size: 17
110606 TTCCTATAAA
*
110616 AAATAATAAATAAAATT
1 AAATAATAAATAAAAAT
110633 AAAT-ATAAAGTAAAAAT
1 AAATAATAAA-TAAAAAT
* *
110650 AAATCACAAAT--AAAT
1 AAATAATAAATAAAAAT
* *
110665 AAATAATAAGTAAATAAA
1 AAATAATAAATAAA-AAT
110683 AAATAA-AAAT
1 AAATAATAAAT
110693 TAAATGCTAA
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
15 12 0.25
16 5 0.10
17 19 0.40
18 12 0.25
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (17 bp):
AAATAATAAATAAAAAT
Found at i:110651 original size:11 final size:10
Alignment explanation
Indices: 110616--110697 Score: 56
Period size: 11 Copynumber: 7.4 Consensus size: 10
110606 TTCCTATAAA
110616 AAATAATAAAT
1 AAATAA-AAAT
*
110627 AAAATTAAATAT
1 -AAA-TAAAAAT
110639 AAAGTAAAAAT
1 AAA-TAAAAAT
*
110650 AAATCACAAAT
1 AAAT-AAAAAT
110661 AAATAAATAAT
1 AAATAAA-AAT
* *
110672 AAGTAAATAAA
1 AAATAAA-AAT
110683 AAATAAAAATT
1 AAATAAAAA-T
110694 AAAT
1 AAAT
110698 GCTAAATAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
10 5 0.09
11 43 0.75
12 6 0.11
13 3 0.05
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:112398 original size:66 final size:66
Alignment explanation
Indices: 112326--112457 Score: 246
Period size: 66 Copynumber: 2.0 Consensus size: 66
112316 ATTGAACATG
112326 TTTACGAACAATGTTAATGAATAATAAACAAACAAACAATATATAAATACACACATATATATTTT
1 TTTACGAACAATGTTAATGAATAATAAACAAACAAACAATATATAAATACACACATATATATTTT
112391 A
66 A
* *
112392 TTTACGAACAATGTTAATGAATAATAAACAAACAAATAATATATAAATACACACATATTTATTTT
1 TTTACGAACAATGTTAATGAATAATAAACAAACAAACAATATATAAATACACACATATATATTTT
112457 A
66 A
112458 ATATTTTTAT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.32
Consensus pattern (66 bp):
TTTACGAACAATGTTAATGAATAATAAACAAACAAACAATATATAAATACACACATATATATTTT
A
Found at i:112514 original size:12 final size:12
Alignment explanation
Indices: 112487--112546 Score: 50
Period size: 12 Copynumber: 5.0 Consensus size: 12
112477 TCATTAATAA
112487 ATAAACGAG-TT
1 ATAAACGAGCTT
*
112498 AATAAATGAGCTT
1 -ATAAACGAGCTT
* * **
112511 ATAAATGATCCA
1 ATAAACGAGCTT
112523 ATAAACGAGCTT
1 ATAAACGAGCTT
*
112535 TTAAACGAGCTT
1 ATAAACGAGCTT
112547 GTTTGTGAAC
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
12 36 0.95
13 2 0.05
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.28
Consensus pattern (12 bp):
ATAAACGAGCTT
Found at i:112514 original size:24 final size:25
Alignment explanation
Indices: 112487--112543 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 25
112477 TCATTAATAA
* *
112487 ATAAACGAGT-TAATAAATGAGCTT
1 ATAAACGAGTCCAATAAACGAGCTT
*
112511 ATAAATGA-TCCAATAAACGAGCTT
1 ATAAACGAGTCCAATAAACGAGCTT
*
112535 TTAAACGAG
1 ATAAACGAG
112544 CTTGTTTGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.46, C:0.12, G:0.16, T:0.26
Consensus pattern (25 bp):
ATAAACGAGTCCAATAAACGAGCTT
Found at i:120462 original size:33 final size:33
Alignment explanation
Indices: 120408--120474 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 33
120398 ATCTTTATGC
* *
120408 CTTACATTGAAAATGATTTTTA-TATAGGGGGAG
1 CTTAAATTCAAAATGATTTTTATTA-AGGGGGAG
120441 CTTAAATTCAAAATG-TCTTTTATTAAGGGGGAG
1 CTTAAATTCAAAATGAT-TTTTATTAAGGGGGAG
120474 C
1 C
120475 AATTATTCGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 1 0.03
33 27 0.90
34 2 0.07
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.36
Consensus pattern (33 bp):
CTTAAATTCAAAATGATTTTTATTAAGGGGGAG
Found at i:123043 original size:11 final size:10
Alignment explanation
Indices: 123022--123047 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
123012 TCTTTTTCCC
123022 TTTTCTTTTT
1 TTTTCTTTTT
123032 TTTTCTTTTT
1 TTTTCTTTTT
123042 TTTTCT
1 TTTTCT
123048 GAGCATCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:124382 original size:18 final size:18
Alignment explanation
Indices: 124341--124391 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
124331 TCTTCCTCAG
*
124341 GATCTTCTTCCTCTTTAG
1 GATCTTCTTCCTCTTTAA
*
124359 GTTCTTCTTCCT-TTTCAA
1 GATCTTCTTCCTCTTT-AA
*
124377 GATCTTCTTCTTCTT
1 GATCTTCTTCCTCTT
124392 CAACTTACTG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 3 0.11
18 22 0.81
19 2 0.07
ACGTcount: A:0.10, C:0.27, G:0.08, T:0.55
Consensus pattern (18 bp):
GATCTTCTTCCTCTTTAA
Found at i:124393 original size:18 final size:18
Alignment explanation
Indices: 124331--124394 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
124321 TTCCACAGGA
* *
124331 TCTTCCTCAGGATCTTCT
1 TCTTCTTCAAGATCTTCT
* * * *
124349 TCCTCTTTAGGTTCTTCT
1 TCTTCTTCAAGATCTTCT
124367 TCCTT-TTCAAGATCTTCT
1 T-CTTCTTCAAGATCTTCT
124385 TCTTCTTCAA
1 TCTTCTTCAA
124395 CTTACTGTTG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
17 3 0.08
18 31 0.86
19 2 0.06
ACGTcount: A:0.12, C:0.30, G:0.08, T:0.50
Consensus pattern (18 bp):
TCTTCTTCAAGATCTTCT
Found at i:125659 original size:30 final size:31
Alignment explanation
Indices: 125614--125797 Score: 229
Period size: 30 Copynumber: 6.1 Consensus size: 31
125604 AGTTTAGAAG
* * *
125614 AGTTT-GGGGTCAAAATTTAATTTTTGTA-A
1 AGTTTAGGGGTTAAAATGTGATTTTTGTAGA
*
125643 AGTTTAGGGGTTAAAATGTGATTTTT-AAGA
1 AGTTTAGGGGTTAAAATGTGATTTTTGTAGA
125673 AGTTTAGGGGTTAAAATGTGATTTTT-TGAGA
1 AGTTTAGGGGTTAAAATGTGATTTTTGT-AGA
* *
125704 AGTTT-GAGGTCAAAATGTGATTTTTG-AGA
1 AGTTTAGGGGTTAAAATGTGATTTTTGTAGA
* *
125733 AGGTTAGGGGTTAAAATGTAATTTTTGT-GA
1 AGTTTAGGGGTTAAAATGTGATTTTTGTAGA
*
125763 AGTTTAGGGGTTAAAATGTGATTTTTTTAGA
1 AGTTTAGGGGTTAAAATGTGATTTTTGTAGA
125794 AGTT
1 AGTT
125798 CGGGGACCTC
Statistics
Matches: 134, Mismatches: 14, Indels: 12
0.84 0.09 0.08
Matches are distributed among these distances:
29 13 0.10
30 107 0.80
31 14 0.10
ACGTcount: A:0.30, C:0.01, G:0.27, T:0.42
Consensus pattern (31 bp):
AGTTTAGGGGTTAAAATGTGATTTTTGTAGA
Found at i:125715 original size:90 final size:90
Alignment explanation
Indices: 125614--125797 Score: 280
Period size: 90 Copynumber: 2.0 Consensus size: 90
125604 AGTTTAGAAG
* * * *
125614 AGTTTGGGGTCAAAATTTAATTTTTGTA-AAGTTTAGGGGTTAAAATGTGATTTTTAAGAAGTTT
1 AGTTTGAGGTCAAAATGTAATTTTTG-AGAAGGTTAGGGGTTAAAATGTAATTTTTAAGAAGTTT
125678 AGGGGTTAAAATGTGATTTTTTGAGA
65 AGGGGTTAAAATGTGATTTTTTGAGA
* **
125704 AGTTTGAGGTCAAAATGTGATTTTTGAGAAGGTTAGGGGTTAAAATGTAATTTTTGTGAAGTTTA
1 AGTTTGAGGTCAAAATGTAATTTTTGAGAAGGTTAGGGGTTAAAATGTAATTTTTAAGAAGTTTA
*
125769 GGGGTTAAAATGTGATTTTTTTAGA
66 GGGGTTAAAATGTGATTTTTTGAGA
125794 AGTT
1 AGTT
125798 CGGGGACCTC
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
89 1 0.01
90 84 0.99
ACGTcount: A:0.30, C:0.01, G:0.27, T:0.42
Consensus pattern (90 bp):
AGTTTGAGGTCAAAATGTAATTTTTGAGAAGGTTAGGGGTTAAAATGTAATTTTTAAGAAGTTTA
GGGGTTAAAATGTGATTTTTTGAGA
Found at i:126651 original size:3 final size:3
Alignment explanation
Indices: 126643--126667 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
126633 TTTCAAAATC
126643 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
126668 TTTGAATCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:128071 original size:39 final size:38
Alignment explanation
Indices: 128028--128560 Score: 263
Period size: 39 Copynumber: 13.9 Consensus size: 38
128018 TCTGTCACGG
* *
128028 GGTAAGAGATTGCATGATGGTGATCTGCCTTAGGCTCAA
1 GGTAAGAGATTGC-TGATGGTGATCTGCCTCAGGCTCGA
* *
128067 GGTAAAAGA-T-C-GAGTGGCTGTAATCTGCCCCAGGCTCG-
1 GGTAAGAGATTGCTGA-TGG-TG--ATCTGCCTCAGGCTCGA
* *
128105 GGATAAGAGATTGGCTAATGGTGATCTGCCTCAGGCTTGA
1 GG-TAAGAGATT-GCTGATGGTGATCTGCCTCAGGCTCGA
* * *
128145 GGGTAAGAGA-T-CGGATGGTTGCAATTTGCCTCAAGCTCGA
1 -GGTAAGAGATTGCTGATGG-TG--ATCTGCCTCAGGCTCGA
128185 GGTAAGAGATTGGCTGATGGTGATCTG---C--GCTCGA
1 GGTAAGAGATT-GCTGATGGTGATCTGCCTCAGGCTCGA
*
128219 GGTAAGAGATTGGTTGATGGTGATCTGCCTCAGGCTC-A
1 GGTAAGAGATT-GCTGATGGTGATCTGCCTCAGGCTCGA
* * *
128257 GGGTAA-AGGATTG--GATGGCTACAATCTGCCCCAGGCTCGG
1 -GGTAAGA-GATTGCTGATGG-T--GATCTGCCTCAGGCTCGA
*
128297 GGTAAGAGATTAGTTGATGGTGATCTGCCTCAGGCTCGA
1 GGTAAGAGATT-GCTGATGGTGATCTGCCTCAGGCTCGA
* * * * ** * *
128336 GGTAAAAGATCGAATGATTGCAATCTGCC-CTAGGTTCGG
1 GGTAAGAGATTG-CTGATGGTGATCTGCCTC-AGGCTCGA
* *
128375 GGTAAGAGATTGGCTGATGGTGATCTGCCTTAAGCTCGA
1 GGTAAGAGATT-GCTGATGGTGATCTGCCTCAGGCTCGA
* * * * * *
128414 GGTAAAAGA-T-C--A-GATG-TCTACCCCAGGCTTGG
1 GGTAAGAGATTGCTGATGGTGATCTGCCTCAGGCTCGA
* * * * *
128446 GGAAAGAGATTGGCTAATGATGATATGACC-CAAGCTCGA
1 GGTAAGAGATT-GCTGATGGTGATCTG-CCTCAGGCTCGA
* * *
128485 GGTAAAAGATTG--GATGGTTGTAATCTGCCCCAGGCTCGG
1 GGTAAGAGATTGCTGATGG-TG--ATCTGCCTCAGGCTCGA
**
128524 GGTAAGAGATTGGCTGATATTGATCTG-CTCTAGGCTC
1 GGTAAGAGATT-GCTGATGGTGATCTGCCTC-AGGCTC
128561 AGGGTAAAGA
Statistics
Matches: 376, Mismatches: 66, Indels: 104
0.69 0.12 0.19
Matches are distributed among these distances:
32 17 0.05
33 4 0.01
34 33 0.09
35 3 0.01
36 13 0.03
37 13 0.03
38 20 0.05
39 216 0.57
40 29 0.08
41 9 0.02
42 18 0.05
43 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (38 bp):
GGTAAGAGATTGCTGATGGTGATCTGCCTCAGGCTCGA
Found at i:128195 original size:79 final size:76
Alignment explanation
Indices: 128001--128212 Score: 230
Period size: 79 Copynumber: 2.7 Consensus size: 76
127991 CTAAGATATT
* * *
128001 GATGGTTGCAATCTGCCTC-TGTCACGGGGTAAGAGATT-GCATGATGGTGATCTGCCTTAGGCT
1 GATGGTTGCAATCTGCCTCAAG-CTC-GGGTAAGAGATTGGC-TGATGGTGATCTGCCTCAGGCT
128064 CAAGGTAAAAGATC
63 CAAGGTAAAAGATC
* * * * *
128078 GAGTGGCTGTAATCTGCCCCAGGCTCGGGATAAGAGATTGGCTAATGGTGATCTGCCTCAGGCTT
1 GA-TGGTTGCAATCTGCCTCAAGCTCGGG-TAAGAGATTGGCTGATGGTGATCTGCCTCAGGC-T
* * *
128143 GAGGGTAAGAGATC
63 CAAGGTAAAAGATC
*
128157 GGATGGTTGCAATTTGCCTCAAGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGC
1 -GATGGTTGCAATCTGCCTCAAGCTCG-GGTAAGAGATTGGCTGATGGTGATCTGC
128213 GCTCGAGGTA
Statistics
Matches: 112, Mismatches: 16, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
77 5 0.04
78 44 0.39
79 59 0.53
80 4 0.04
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (76 bp):
GATGGTTGCAATCTGCCTCAAGCTCGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAGGCTCAA
GGTAAAAGATC
Found at i:128222 original size:34 final size:34
Alignment explanation
Indices: 128179--128246 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
128169 TTTGCCTCAA
128179 GCTCGAGGTAAGAGATTGGCTGATGGTGATCTGC
1 GCTCGAGGTAAGAGATTGGCTGATGGTGATCTGC
*
128213 GCTCGAGGTAAGAGATTGGTTGATGGTGATCTGC
1 GCTCGAGGTAAGAGATTGGCTGATGGTGATCTGC
128247 CTCAGGCTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.21, C:0.13, G:0.38, T:0.28
Consensus pattern (34 bp):
GCTCGAGGTAAGAGATTGGCTGATGGTGATCTGC
Found at i:128244 original size:191 final size:190
Alignment explanation
Indices: 128028--128402 Score: 529
Period size: 191 Copynumber: 2.0 Consensus size: 190
128018 TCTGTCACGG
* **
128028 GGTAAGAGATTGCATGATGGTGATCTGCCTTAGGCTCAAGGTAAAAGATC-GAGTGGCTGTAATC
1 GGTAAGAGATTGCATGATGGTGATCTGCCTCAGGCTCAAGGTAAAAGATCGGA-TGGCTACAATC
* * *
128092 TGCCCCAGGCTCGGGATAAGAGATTGGCTAATGGTGATCTGCCTCAGGCTTGAGGGTAAGAGATC
65 TGCCCCAGGCTCGGGATAAGAGATTAGCTAATGGTGATCTGCCTCAGGCTCGA-GGTAAAAGATC
* * *
128157 GGATGGTTGCAATTTG-CCTCAAGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCGCTCGA
129 GAATGATTGCAATCTGCCCT-AAGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCGCTCGA
** * * *
128219 GGTAAGAGATTGGTTGATGGTGATCTGCCTCAGGCTCAGGGTAAAGGATTGGATGGCTACAATCT
1 GGTAAGAGATTGCATGATGGTGATCTGCCTCAGGCTCAAGGTAAAAGATCGGATGGCTACAATCT
* * *
128284 GCCCCAGGCTCGGGGTAAGAGATTAGTTGATGGTGATCTGCCTCAGGCTCGAGGTAAAAGATCGA
66 GCCCCAGGCTCGGGATAAGAGATTAGCTAATGGTGATCTGCCTCAGGCTCGAGGTAAAAGATCGA
* * *
128349 ATGATTGCAATCTGCCCTAGGTTCGGGGTAAGAGATTGGCTGATGGTGATCTGC
131 ATGATTGCAATCTGCCCTAAGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGC
128403 CTTAAGCTCG
Statistics
Matches: 162, Mismatches: 20, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
190 56 0.35
191 104 0.64
192 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (190 bp):
GGTAAGAGATTGCATGATGGTGATCTGCCTCAGGCTCAAGGTAAAAGATCGGATGGCTACAATCT
GCCCCAGGCTCGGGATAAGAGATTAGCTAATGGTGATCTGCCTCAGGCTCGAGGTAAAAGATCGA
ATGATTGCAATCTGCCCTAAGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCGCTCGA
Found at i:128316 original size:78 final size:78
Alignment explanation
Indices: 128213--128576 Score: 374
Period size: 78 Copynumber: 4.8 Consensus size: 78
128203 GGTGATCTGC
* * * * *
128213 GCTCGAGGTAAGAGATTGGTTGATGGTGATCTGCCTCAGGCTC-AGGGTAAAGGATTGGATGGCT
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAGGCTCGA-GGTAAAAGATCGGATGGTT
*
128277 ACAATCTGCCCCAG
65 GCAATCTGCCCCAG
* * * *
128291 GCTCGGGGTAAGAGATTAGTTGATGGTGATCTGCCTCAGGCTCGAGGTAAAAGATCGAATGATTG
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAGGCTCGAGGTAAAAGATCGGATGGTTG
*
128356 CAATCTGCCCTAG
66 CAATCTGCCCCAG
* * * *
128369 GTTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTTAAGCTCGAGGTAAAAGATC--A--GATG
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAGGCTCGAGGTAAAAGATCGGATGGTTG
*
128430 ---TCTACCCCAG
66 CAATCTGCCCCAG
* * * * * * *
128440 GCTTGGGGAAAGAGATTGGCTAATGATGATATGACC-CAAGCTCGAGGTAAAAGATTGGATGGTT
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTG-CCTCAGGCTCGAGGTAAAAGATCGGATGGTT
*
128504 GTAATCTGCCCCAG
65 GCAATCTGCCCCAG
**
128518 GCTCGGGGTAAGAGATTGGCTGATATTGATCTG-CTCTAGGCTC-AGGGT-AAAGATCGGAT
1 GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTC-AGGCTCGA-GGTAAAAGATCGGAT
128577 AATTGTGATC
Statistics
Matches: 238, Mismatches: 36, Indels: 25
0.80 0.12 0.08
Matches are distributed among these distances:
71 53 0.22
72 2 0.01
73 1 0.00
74 2 0.01
75 3 0.01
76 2 0.01
77 12 0.05
78 162 0.68
79 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (78 bp):
GCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAGGCTCGAGGTAAAAGATCGGATGGTTG
CAATCTGCCCCAG
Found at i:128317 original size:112 final size:113
Alignment explanation
Indices: 128100--128324 Score: 303
Period size: 112 Copynumber: 2.0 Consensus size: 113
128090 TCTGCCCCAG
* *
128100 GCTCGGGATAAGAGATTGGCTAATGGTGATCTGCCTCAGGCTTGAGGGTAAGAGATCGGATGGTT
1 GCTCGGGATAAGAGATTGGCTAATGGTGATCTGCCTCAGGCTTCAGGGTAAGAGATCGGATGGCT
* * * *
128165 GCAATTTGCCTCAAGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGC
66 ACAATCTGCCCCAAGCTCGAGGTAAGAGATTAGCTGATGGTGATCTGC
* * *
128213 GCTCGAGG-TAAGAGATTGGTTGATGGTGATCTGCCTCAGGC-TCAGGGTAA-AGGATTGGATGG
1 GCTCG-GGATAAGAGATTGGCTAATGGTGATCTGCCTCAGGCTTCAGGGTAAGA-GATCGGATGG
* * *
128275 CTACAATCTGCCCCAGGCTCGGGGTAAGAGATTAGTTGATGGTGATCTGC
64 CTACAATCTGCCCCAAGCTCGAGGTAAGAGATTAGCTGATGGTGATCTGC
128325 CTCAGGCTCG
Statistics
Matches: 98, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
111 1 0.01
112 59 0.60
113 36 0.37
114 2 0.02
ACGTcount: A:0.23, C:0.16, G:0.35, T:0.26
Consensus pattern (113 bp):
GCTCGGGATAAGAGATTGGCTAATGGTGATCTGCCTCAGGCTTCAGGGTAAGAGATCGGATGGCT
ACAATCTGCCCCAAGCTCGAGGTAAGAGATTAGCTGATGGTGATCTGC
Found at i:128566 original size:39 final size:39
Alignment explanation
Indices: 128502--128612 Score: 118
Period size: 38 Copynumber: 2.9 Consensus size: 39
128492 GATTGGATGG
* * * * * *
128502 TTGTAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGA
1 TTGTGATCTGCCCTAGGCTCAGGGTAAGAGATCGGATAA
*
128541 TAT-TGATCTGCTCTAGGCTCAGGGTAA-AGATCGGATAA
1 T-TGTGATCTGCCCTAGGCTCAGGGTAAGAGATCGGATAA
* *
128579 TTGTGATCTGCCCTATGATCAGGGTAAGAGATCG
1 TTGTGATCTGCCCTAGGCTCAGGGTAAGAGATCG
128613 AAATCTTCAA
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
37 1 0.02
38 30 0.51
39 27 0.46
40 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (39 bp):
TTGTGATCTGCCCTAGGCTCAGGGTAAGAGATCGGATAA
Found at i:128567 original size:149 final size:148
Alignment explanation
Indices: 128285--128572 Score: 366
Period size: 149 Copynumber: 1.9 Consensus size: 148
128275 CTACAATCTG
* * * * * *
128285 CCCCAGGCTCGGGGTAAGAGATTAGTTGATGGTGATCTGCCTCAGGCTCGAGGTAAAAGATCGAA
1 CCCCAGGCTCGGGGAAAGAGATTAGCTAATGATGATATGCCTCAAGCTCGAGGTAAAAGATCGAA
* * *
128350 TGATTGCAATCTGCCCTAGGTTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTTAAGCTCGAG
66 TGATTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATAGTGATCTGCCTTAAGCTCGAG
128415 GTAAAAGATCAGATGTCTA
131 GT-AAAGATCAGATGTCTA
* * * *
128434 CCCCAGGCTTGGGGAAAGAGATTGGCTAATGATGATATGACC-CAAGCTCGAGGTAAAAGATTGG
1 CCCCAGGCTCGGGGAAAGAGATTAGCTAATGATGATATG-CCTCAAGCTCGAGGTAAAAGATCGA
* * * *
128498 ATGGTTGTAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATATTGATCTG-CTCTAGGCTC-
65 ATGATTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATAGTGATCTGCCT-TAAGCTCG
128561 AGGGTAAAGATC
129 A-GGTAAAGATC
128573 GGATAATTGT
Statistics
Matches: 119, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
148 10 0.08
149 107 0.90
150 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (148 bp):
CCCCAGGCTCGGGGAAAGAGATTAGCTAATGATGATATGCCTCAAGCTCGAGGTAAAAGATCGAA
TGATTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATAGTGATCTGCCTTAAGCTCGAG
GTAAAGATCAGATGTCTA
Found at i:128884 original size:50 final size:50
Alignment explanation
Indices: 128786--128885 Score: 137
Period size: 50 Copynumber: 2.0 Consensus size: 50
128776 GTCATGTTTT
* * *
128786 TAAGGTACCAGGTTCACCATTACAGCCTCAACCTTTCTCATCACATCTTC
1 TAAGATACCAGGTTCACCATTACAGCCTCAACCTTTCCCATCAAATCTTC
* * * *
128836 TAAGATACCAGGTTCGCCGTTGCAGCCTCAACCTTTCCCTTCAAATCTTC
1 TAAGATACCAGGTTCACCATTACAGCCTCAACCTTTCCCATCAAATCTTC
128886 ATGGTACCGC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.24, C:0.34, G:0.12, T:0.30
Consensus pattern (50 bp):
TAAGATACCAGGTTCACCATTACAGCCTCAACCTTTCCCATCAAATCTTC
Found at i:137737 original size:20 final size:20
Alignment explanation
Indices: 137712--137759 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
137702 CTTATAGTCT
*
137712 TTCTTCAGGCTATCGAGATC
1 TTCTTCAAGCTATCGAGATC
137732 TTCTTCAAGCTATCGAGATC
1 TTCTTCAAGCTATCGAGATC
137752 TTCTTCAA
1 TTCTTCAA
137760 CCTTGTTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.38
Consensus pattern (20 bp):
TTCTTCAAGCTATCGAGATC
Found at i:140765 original size:30 final size:29
Alignment explanation
Indices: 140693--140934 Score: 213
Period size: 29 Copynumber: 8.2 Consensus size: 29
140683 AAAATGTAGT
* *
140693 TTTGGAGTTAAAATGTAATTTTTG-GAAAA
1 TTTGGGGTTAAAATGTAATTTTTGAG-AAG
** * * * *
140722 TACGAGGGCTAAAATGTGATTTTTAAGGAG
1 TTTG-GGGTTAAAATGTAATTTTTGAGAAG
*
140752 TTTGGGGGTTAAAATGTGATTTTT-ATGAAG
1 TTT-GGGGTTAAAATGTAATTTTTGA-GAAG
* * * *
140782 TTTGAGGTCAAAATTTAATTTTTGATAAGG
1 TTTGGGGTTAAAATGTAATTTTTGAGAA-G
* *
140812 TTAGAGGTTAAAATGTAATTTTTGAGAAG
1 TTTGGGGTTAAAATGTAATTTTTGAGAAG
* *
140841 GTTGGGGTCAAAATGTAATTTTTGAGAAG
1 TTTGGGGTTAAAATGTAATTTTTGAGAAG
* * *
140870 GTTGAGGTCAAAATGTAATTTTTGTA-AAG
1 TTTGGGGTTAAAATGTAATTTTTG-AGAAG
140899 TTTAGGGGTTAAAATGT-ATTTTTGAGAAG
1 TTT-GGGGTTAAAATGTAATTTTTGAGAAG
140928 TTTGGGG
1 TTTGGGG
140935 ACCTCCTGGG
Statistics
Matches: 175, Mismatches: 29, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
28 5 0.03
29 88 0.50
30 80 0.46
31 2 0.01
ACGTcount: A:0.32, C:0.02, G:0.27, T:0.39
Consensus pattern (29 bp):
TTTGGGGTTAAAATGTAATTTTTGAGAAG
Found at i:140821 original size:59 final size:58
Alignment explanation
Indices: 140758--140927 Score: 218
Period size: 59 Copynumber: 2.9 Consensus size: 58
140748 GGAGTTTGGG
* * * *
140758 GGTTAAAATGTGATTTTTATGAAGTTTGAGGTCAAAATTTAATTTTTGATAAGGTTAGA
1 GGTTAAAATGTAATTTTTATGAAGTTTGGGGTCAAAATGTAATTTTTGAGAAGGTT-GA
*
140817 GGTTAAAATGTAATTTTTGA-GAAGGTTGGGGTCAAAATGTAATTTTTGAGAAGGTTGA
1 GGTTAAAATGTAATTTTT-ATGAAGTTTGGGGTCAAAATGTAATTTTTGAGAAGGTTGA
* * * *
140875 GGTCAAAATGTAATTTTTGTAAAGTTTAGGGGTTAAAATGT-ATTTTTGAGAAG
1 GGTTAAAATGTAATTTTTATGAAGTTT-GGGGTCAAAATGTAATTTTTGAGAAG
140928 TTTGGGGACC
Statistics
Matches: 98, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
58 36 0.37
59 61 0.62
60 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.25, T:0.39
Consensus pattern (58 bp):
GGTTAAAATGTAATTTTTATGAAGTTTGGGGTCAAAATGTAATTTTTGAGAAGGTTGA
Found at i:142500 original size:42 final size:40
Alignment explanation
Indices: 142430--142507 Score: 129
Period size: 42 Copynumber: 1.9 Consensus size: 40
142420 TGTCTGTAAA
*
142430 TGGACTTTTAAATTTAAATAAATTTAAATTTAAAATGTAT
1 TGGACTTTAAAATTTAAATAAATTTAAATTTAAAATGTAT
142470 TGGACATTTAAAATTTAAAGTAAATTTAAATTTAAAAT
1 TGGAC-TTTAAAATTTAAA-TAAATTTAAATTTAAAAT
142508 TTGTCTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 5 0.14
41 12 0.34
42 18 0.51
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (40 bp):
TGGACTTTAAAATTTAAATAAATTTAAATTTAAAATGTAT
Found at i:142502 original size:17 final size:17
Alignment explanation
Indices: 142436--142505 Score: 61
Period size: 17 Copynumber: 3.7 Consensus size: 17
142426 TAAATGGACT
142436 TTTAAATTTAAA-TAAA
1 TTTAAATTTAAAGTAAA
142452 TTTAAATTTAAAATGTATTGGACA
1 TTTAAATTT-AAA-GTA----A-A
142476 TTTAAAATTTAAAGTAAA
1 TTT-AAATTTAAAGTAAA
142494 TTTAAATTTAAA
1 TTTAAATTTAAA
142506 ATTTGTCTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 17
0.73 0.00 0.27
Matches are distributed among these distances:
16 9 0.20
17 12 0.27
18 4 0.09
19 3 0.07
23 4 0.09
24 7 0.16
25 6 0.13
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.43
Consensus pattern (17 bp):
TTTAAATTTAAAGTAAA
Found at i:143130 original size:8 final size:7
Alignment explanation
Indices: 143116--143166 Score: 50
Period size: 7 Copynumber: 6.7 Consensus size: 7
143106 AATTTAAAAT
143116 AAATTAA
1 AAATTAA
143123 AAAGTTAA
1 AAA-TTAA
143131 TAAATTAAA
1 -AAATT-AA
143140 TAAATTAA
1 -AAATTAA
143148 AAATTAGA
1 AAATTA-A
143156 AAA-TAA
1 AAATTAA
143162 AAATT
1 AAATT
143167 TCTTACCACC
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
6 4 0.10
7 12 0.31
8 12 0.31
9 11 0.28
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (7 bp):
AAATTAA
Found at i:143130 original size:26 final size:25
Alignment explanation
Indices: 143101--143150 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
143091 GTATAAAATA
*
143101 TTAACAATTTAAAATAAATTAAAAAG
1 TTAACAAATT-AAATAAATTAAAAAG
*
143127 TTAATAAATTAAATAAATTAAAAA
1 TTAACAAATTAAATAAATTAAAAA
143151 TTAGAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (25 bp):
TTAACAAATTAAATAAATTAAAAAG
Found at i:143132 original size:16 final size:16
Alignment explanation
Indices: 143113--143159 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
143103 AACAATTTAA
*
143113 AATAAATTAAAAAGTT
1 AATAAATTAAAAAATT
143129 AATAAATTAAATAAATT
1 AATAAATTAAA-AAATT
*
143146 AA-AAATTAGAAAAT
1 AATAAATTAAAAAAT
143160 AAAAATTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 4 0.14
16 18 0.64
17 6 0.21
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (16 bp):
AATAAATTAAAAAATT
Found at i:143143 original size:9 final size:9
Alignment explanation
Indices: 143112--143148 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
143102 TAACAATTTA
143112 AAATAAATT
1 AAATAAATT
*
143121 AAA-AAGTT
1 AAATAAATT
143129 -AATAAATT
1 AAATAAATT
143137 AAATAAATT
1 AAATAAATT
143146 AAA
1 AAA
143149 AATTAGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
7 2 0.08
8 8 0.33
9 14 0.58
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (9 bp):
AAATAAATT
Found at i:143165 original size:25 final size:25
Alignment explanation
Indices: 143110--143163 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
143100 ATTAACAATT
143110 TAAAATAAATTAAAAAGTTAATAAA
1 TAAAATAAATTAAAAAGTTAATAAA
*
143135 TTAAATAAATTAAAAA-TTAGA-AAA
1 TAAAATAAATTAAAAAGTTA-ATAAA
143159 TAAAA
1 TAAAA
143164 ATTTCTTACC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 10 0.38
25 16 0.62
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.28
Consensus pattern (25 bp):
TAAAATAAATTAAAAAGTTAATAAA
Found at i:143932 original size:15 final size:14
Alignment explanation
Indices: 143910--143945 Score: 63
Period size: 15 Copynumber: 2.5 Consensus size: 14
143900 AAATTTTGAA
143910 AAATAAAAATAAAT
1 AAATAAAAATAAAT
143924 AACATAAAAATAAAT
1 AA-ATAAAAATAAAT
143939 AAATAAA
1 AAATAAA
143946 TGAAAACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAAATAAAT
Found at i:143951 original size:19 final size:21
Alignment explanation
Indices: 143906--143951 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
143896 TACTAAATTT
143906 TGAAAAATAAAAATAAATAACA
1 TGAAAAAT-AAAATAAATAACA
143928 T-AAAAAT-AAATAAATAA-A
1 TGAAAAATAAAATAAATAACA
143946 TGAAAA
1 TGAAAA
143952 CTTTATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 2 0.09
19 14 0.61
21 6 0.26
22 1 0.04
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (21 bp):
TGAAAAATAAAATAAATAACA
Found at i:144022 original size:28 final size:30
Alignment explanation
Indices: 143977--144032 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
143967 TTTTAGAAAC
*
143977 ATTTACAGAAAAAGACAA-CTAATTTTAAT
1 ATTTACAGAAAAAGACAACCAAATTTTAAT
144006 ATTTAC-GAAAATA-ACAACCAAATTTTA
1 ATTTACAGAAAA-AGACAACCAAATTTTA
144033 CAAAAACTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.30
Consensus pattern (30 bp):
ATTTACAGAAAAAGACAACCAAATTTTAAT
Found at i:156829 original size:32 final size:32
Alignment explanation
Indices: 156780--156842 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
156770 GAGCCATTTA
* **
156780 ACTTTGATGATGCCGTGAAGGATGAAAGATGG
1 ACTTCGATGATGCCGTGAAGGACAAAAGATGG
*
156812 ACTTCGATGATGTCGTGAAGGACAAAAGATG
1 ACTTCGATGATGCCGTGAAGGACAAAAGATG
156843 AAGACTAGCC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.33, C:0.11, G:0.32, T:0.24
Consensus pattern (32 bp):
ACTTCGATGATGCCGTGAAGGACAAAAGATGG
Found at i:162924 original size:97 final size:97
Alignment explanation
Indices: 162749--162925 Score: 225
Period size: 97 Copynumber: 1.8 Consensus size: 97
162739 ACGTTTGAAA
* * ** *
162749 AAGGATATTCGATTATCTCGATTTGAAAAAAAGTCGCACCTAGTAAGTTAAGGCATGAATTTTCA
1 AAGGATATTCGATTATCTCGATTTGAAAAAAAGTAGCACCTAGTAAGTTAAGACACAAAGTTTCA
* *
162814 GAATCAGAGATAAAGAAACATTGTCTCAATTT
66 AAATCAGAAATAAAGAAACATTGTCTCAATTT
* *
162846 AAGGGTATTCGATTAT-TCCGATTTGAAGAAAAA-TAGCGCCTAGTAAGTTAAGACACAAAGTTT
1 AAGGATATTCGATTATCT-CGATTTGAA-AAAAAGTAGCACCTAGTAAGTTAAGACACAAAGTTT
162909 CAAAACTC-GAAATAAAG
64 CAAAA-TCAGAAATAAAG
162926 GAATATTGCC
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
96 1 0.01
97 60 0.88
98 7 0.10
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.28
Consensus pattern (97 bp):
AAGGATATTCGATTATCTCGATTTGAAAAAAAGTAGCACCTAGTAAGTTAAGACACAAAGTTTCA
AAATCAGAAATAAAGAAACATTGTCTCAATTT
Found at i:163217 original size:30 final size:29
Alignment explanation
Indices: 163170--163277 Score: 121
Period size: 29 Copynumber: 3.7 Consensus size: 29
163160 AGCCCGAGGA
* *
163170 TAAAACGGTAA-TTTTGAATATTTCGGGGG
1 TAAAATGGTAATTTTTGAA-AGTTCGGGGG
* *
163199 TAAAATGGTAATTTTTGAAAAGTTCGAGGT
1 TAAAATGGTAATTTTTG-AAAGTTCGGGGG
*
163229 TAAAAATGG-AATTTTTGGAAGTTCGGGGG
1 T-AAAATGGTAATTTTTGAAAGTTCGGGGG
*
163258 TAAAATGGTAATTTTGGAAA
1 TAAAATGGTAATTTTTGAAA
163278 AGTTTGAACT
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
28 7 0.11
29 29 0.44
30 21 0.32
31 9 0.14
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.34
Consensus pattern (29 bp):
TAAAATGGTAATTTTTGAAAGTTCGGGGG
Found at i:163419 original size:58 final size:59
Alignment explanation
Indices: 163283--163491 Score: 280
Period size: 59 Copynumber: 3.6 Consensus size: 59
163273 GGAAAAGTTT
* * *
163283 GAACTTCCAAAAATTCCATTTTTGACC-CTAAACTTTTCTAAAATTACCATTTTACCCCA
1 GAACTTCCAAAAATTCCATTTTTGACCTC-GAACTTTTCCAAAATTACCATTTTACCCCC
* *
163342 TAACTTCCAAAAATCCCATTTTTGACCTCGAACTTTTCCAAAATTA-CATTTTACCCCC
1 GAACTTCCAAAAATTCCATTTTTGACCTCGAACTTTTCCAAAATTACCATTTTACCCCC
* * *
163400 GAACTTCCAAAAATTCCATTTTTGACCTTGAACTTTTCCAAAATTACCATTTTATCCTC
1 GAACTTCCAAAAATTCCATTTTTGACCTCGAACTTTTCCAAAATTACCATTTTACCCCC
* * *
163459 GAA-TATCTAAAATTTCCATTTTTGACCCCGAAC
1 GAACT-TCCAAAAATTCCATTTTTGACCTCGAAC
163492 CTTCGAAAAT
Statistics
Matches: 133, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
58 55 0.41
59 77 0.58
60 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.36
Consensus pattern (59 bp):
GAACTTCCAAAAATTCCATTTTTGACCTCGAACTTTTCCAAAATTACCATTTTACCCCC
Found at i:167301 original size:16 final size:18
Alignment explanation
Indices: 167280--167313 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
167270 CAATTAACCA
167280 TTCTTTG-A-CCCATTTT
1 TTCTTTGAATCCCATTTT
167296 TTCTTTGAATCCCATTTT
1 TTCTTTGAATCCCATTTT
167314 GTTTCTATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 1 0.06
18 8 0.50
ACGTcount: A:0.15, C:0.24, G:0.06, T:0.56
Consensus pattern (18 bp):
TTCTTTGAATCCCATTTT
Found at i:168585 original size:13 final size:13
Alignment explanation
Indices: 168567--168625 Score: 57
Period size: 13 Copynumber: 4.4 Consensus size: 13
168557 CGGATTCAAT
*
168567 GAAAAAAGCAAAA
1 GAAAAAAGAAAAA
*
168580 GAAAAAGGAAAAA
1 GAAAAAAGAAAAA
*
168593 GAGAGAAAAAAAAAA
1 GA-A-AAAAGAAAAA
168608 GAGAAAAA-AAAAA
1 GA-AAAAAGAAAAA
168621 GAAAA
1 GAAAA
168626 TGAGAGGTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
12 3 0.08
13 20 0.50
14 5 0.12
15 12 0.30
ACGTcount: A:0.80, C:0.02, G:0.19, T:0.00
Consensus pattern (13 bp):
GAAAAAAGAAAAA
Found at i:168608 original size:15 final size:14
Alignment explanation
Indices: 168588--168620 Score: 57
Period size: 14 Copynumber: 2.3 Consensus size: 14
168578 AAGAAAAAGG
168588 AAAAAGAGAGAAAAA
1 AAAAAGAGA-AAAAA
168603 AAAAAGAGAAAAAA
1 AAAAAGAGAAAAAA
168617 AAAA
1 AAAA
168621 GAAAATGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAAAGAGAAAAAA
Found at i:168867 original size:10 final size:10
Alignment explanation
Indices: 168852--168877 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
168842 CATCAAGTTT
168852 GCTCATTGAA
1 GCTCATTGAA
168862 GCTCATTGAA
1 GCTCATTGAA
168872 GCTCAT
1 GCTCAT
168878 ACTTTGATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (10 bp):
GCTCATTGAA
Found at i:169848 original size:50 final size:49
Alignment explanation
Indices: 169698--170214 Score: 265
Period size: 49 Copynumber: 10.5 Consensus size: 49
169688 TCGTAACGGT
* * * * ** *
169698 GAACCTTGCACTTCAGAAGCACGAAGGGAAATATTTAAGCCATAATGGA
1 GAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTAAGCCGCAATGGC
* * * * * * *
169747 AAATCC-AGTACCAC-GAAGACAT-AGAGGGAAAGGTTTAAGTCACAACGGC
1 GAA-CCTTGTACCTCAGAAG-CATGA-AGGGAAAGATTTAAGCCGCAATGGC
* * *
169796 GAACCTTGTACCTCAGAAGCATTAAAGGTAAAGATTTAAGCCGCAATAGC
1 GAACCTTGTACCTCAGAAGCA-TGAAGGGAAAGATTTAAGCCGCAATGGC
* * * * ** * * * *
169846 GAATCC-AGTATCACAAAAATAATGGAGGGAAAGGTTTAAGTCGCAACGGC
1 GAA-CCTTGTACCTC-AGAAGCATGAAGGGAAAGATTTAAGCCGCAATGGC
169896 GAACCTTGTACCTCAG-AGACATGAAGGGAAAGATTTAAGCCGCAATGGC
1 GAACCTTGTACCTCAGAAG-CATGAAGGGAAAGATTTAAGCCGCAATGGC
* * ** * * *
169945 GAA--TTCAGTACCAC-GAAGACA-CAGAGGGAAAGGGTTAAGTCGCAACGGT
1 GAACCTT--GTACCTCAGAAG-CATGA-AGGGAAAGATTTAAGCCGCAATGGC
* *
169994 GAACCTTGTGCCTCAG-AGACATGAAGGGAAAGATTTAAGCCGCAACGGC
1 GAACCTTGTACCTCAGAAG-CATGAAGGGAAAGATTTAAGCCGCAATGGC
* * * * *
170043 GAATCC-AGTA-C-CATGAAGACA-CAGAGGGAAAGGTTTAAGTCGCAACGGC
1 GAA-CCTTGTACCTCA-GAAG-CATGA-AGGGAAAGATTTAAGCCGCAATGGC
* * *
170092 GAACCTTGTACCTCAAAAGCATGAAAGGGAAAGATATATGCCGCAATGGC
1 GAACCTTGTACCTCAGAAGCATG-AAGGGAAAGATTTAAGCCGCAATGGC
* * * * * *
170142 AAATCTAGTACCAC-GAAG-ATTTGAAGGGAAAGGTTTAAGTCGCAATGGC
1 GAACCTTGTACCTCAGAAGCA--TGAAGGGAAAGATTTAAGCCGCAATGGC
** * *
170191 GAACCCGGTACCTTAGAAACATGA
1 GAACCTTGTACCTCAGAAGCATGA
170215 CGAGAAAGGT
Statistics
Matches: 349, Mismatches: 87, Indels: 64
0.70 0.17 0.13
Matches are distributed among these distances:
47 4 0.01
48 16 0.05
49 210 0.60
50 106 0.30
51 13 0.04
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.18
Consensus pattern (49 bp):
GAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTAAGCCGCAATGGC
Found at i:169998 original size:98 final size:98
Alignment explanation
Indices: 169657--170214 Score: 663
Period size: 98 Copynumber: 5.7 Consensus size: 98
169647 CAGGTTTCAT
* * * * * * * *
169657 TACCACGAGGATATAGAGGAAAAGGTTTAAGTCGTAACGGTGAACCTTGCACTTCAGAAGCACGA
1 TACCACGAAGACATAGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGA
* ** **
169722 AGGGAAATATTTAAGCCATAATGGAAAATCCAG
66 AGGGAAAGATTTAAGCCGCAATGGCGAATCCAG
* *
169755 TACCACGAAGACATAGAGGGAAAGGTTTAAGTCACAACGGCGAACCTTGTACCTCAGAAGCATTA
1 TACCACGAAGACATAGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCA-TG
* *
169820 AAGGTAAAGATTTAAGCCGCAATAGCGAATCCAG
65 AAGGGAAAGATTTAAGCCGCAATGGCGAATCCAG
* * * * *
169854 TATCACAAAAATAATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAG-AGACAT
1 TACCACGAAGA-CATAGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAG-CAT
*
169918 GAAGGGAAAGATTTAAGCCGCAATGGCGAATTCAG
64 GAAGGGAAAGATTTAAGCCGCAATGGCGAATCCAG
* * * *
169953 TACCACGAAGACACAGAGGGAAAGGGTTAAGTCGCAACGGTGAACCTTGTGCCTCAG-AGACATG
1 TACCACGAAGACATAGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAG-CATG
*
170017 AAGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
65 AAGGGAAAGATTTAAGCCGCAATGGCGAATCCAG
* * *
170051 TACCATGAAGACACAGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAAAAGCATGA
1 TACCACGAAGACATAGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATG-
* * * *
170116 AAGGGAAAGATATATGCCGCAATGGCAAATCTAG
65 AAGGGAAAGATTTAAGCCGCAATGGCGAATCCAG
* * * ** * *
170150 TACCACGAAGA-TTTGAAGGGAAAGGTTTAAGTCGCAATGGCGAACCCGGTACCTTAGAAACATG
1 TACCACGAAGACATAG-AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATG
170214 A
65 A
170215 CGAGAAAGGT
Statistics
Matches: 396, Mismatches: 58, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
98 191 0.48
99 160 0.40
100 45 0.11
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.18
Consensus pattern (98 bp):
TACCACGAAGACATAGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGA
AGGGAAAGATTTAAGCCGCAATGGCGAATCCAG
Found at i:170222 original size:49 final size:49
Alignment explanation
Indices: 169771--170224 Score: 305
Period size: 49 Copynumber: 9.2 Consensus size: 49
169761 GAAGACATAG
* * * *
169771 AGGGAAAGGTTTAAGTCACAACGGCGAACCTTGTACCTCAGAAGCATTAA
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTAGTACCTCAGAAACA-TGA
* * * ** * * * * *
169821 AGGTAAAGATTTAAGCCGCAATAGCGAATCC-AGTATCACAAAAATAATGG
1 AGGGAAAGGTTTAAGTCGCAACGGCGAA-CCTAGTACCTCAGAAA-CATGA
* *
169871 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAGACATGA
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTAGTACCTCAGAAACATGA
* * * * * *
169920 AGGGAAAGATTTAAGCCGCAATGGCGAA-TTCAGTACCAC-GAAGACA-CA
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCT-AGTACCTCAGAA-ACATGA
* * * * *
169968 GAGGGAAAGGGTTAAGTCGCAACGGTGAACCTTGTGCCTCAGAGACATGA
1 -AGGGAAAGGTTTAAGTCGCAACGGCGAACCTAGTACCTCAGAAACATGA
* * * *
170018 AGGGAAAGATTTAAGCCGCAACGGCGAATCC-AGTACCATGAAGACACA-G-
1 AGGGAAAGGTTTAAGTCGCAACGGCGAA-CCTAGTACC-T-CAGAAACATGA
*
170067 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCA-AAAGCATGAA
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTAGTACCTCAGAAA-CATG-A
* * * * * * * * **
170117 AGGGAAAGATATATGCCGCAATGGCAAATCTAGTACCAC-GAAGATTTGA
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTAGTACCTCAGAA-ACATGA
* ** *
170166 AGGGAAAGGTTTAAGTCGCAATGGCGAACCCGGTACCTTAGAAACATGA
1 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTAGTACCTCAGAAACATGA
* *
170215 CGAGAAAGGT
1 AGGGAAAGGT
170225 CGAATCCACG
Statistics
Matches: 301, Mismatches: 83, Indels: 41
0.71 0.20 0.10
Matches are distributed among these distances:
46 2 0.01
47 3 0.01
48 8 0.03
49 171 0.57
50 107 0.36
51 10 0.03
ACGTcount: A:0.37, C:0.19, G:0.27, T:0.18
Consensus pattern (49 bp):
AGGGAAAGGTTTAAGTCGCAACGGCGAACCTAGTACCTCAGAAACATGA
Found at i:170475 original size:103 final size:103
Alignment explanation
Indices: 170291--170485 Score: 266
Period size: 103 Copynumber: 1.9 Consensus size: 103
170281 ACAATGGCAA
* * *
170291 GTCTTTATCTCTCTAAAGTTGCAGTAAGAGCAAGATGAAGCTTCAACGTTAATTTCTATCCTCTT
1 GTCTTTATCTCTCTAAAGTTGCAGTAAGAGCAAGATGAAGCTTCAACATAAATCTCTATCCTCTT
* * *
170356 GAAGTTGTAGTAAAGTTGGATTAAAAACAAATAAACAG
66 GAAATTGCAGCAAAGTTGGATTAAAAACAAATAAACAG
* * * *
170394 GTCTTTATCTCTTTGAAGTTGCAGTAAGAGCAAGATGAAGCTTCGACATCAAATCT-TATCTTCT
1 GTCTTTATCTCTCTAAAGTTGCAGTAAGAGCAAGATGAAGCTTCAACAT-AAATCTCTATCCTCT
* *
170458 TGAAATTGCAGCGAAGTTTGATTAAAAA
65 TGAAATTGCAGCAAAGTTGGATTAAAAA
170486 TATAGTAGTG
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
103 75 0.95
104 4 0.05
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (103 bp):
GTCTTTATCTCTCTAAAGTTGCAGTAAGAGCAAGATGAAGCTTCAACATAAATCTCTATCCTCTT
GAAATTGCAGCAAAGTTGGATTAAAAACAAATAAACAG
Found at i:171133 original size:17 final size:18
Alignment explanation
Indices: 171113--171182 Score: 65
Period size: 17 Copynumber: 4.1 Consensus size: 18
171103 GAATTTTTAA
*
171113 TTTA-TTTAAGTTTAAAT
1 TTTATTTTAAATTTAAAT
171130 TTTATTTTAAATTTAAA-
1 TTTATTTTAAATTTAAAT
* * * *
171147 CTTCTTTTGAGTTTAAA-
1 TTTATTTTAAATTTAAAT
*
171164 CTTATTTTAAATTTAAAT
1 TTTATTTTAAATTTAAAT
171182 T
1 T
171183 AAATTTAAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
17 31 0.74
18 11 0.26
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.57
Consensus pattern (18 bp):
TTTATTTTAAATTTAAAT
Found at i:173035 original size:30 final size:30
Alignment explanation
Indices: 173001--173450 Score: 385
Period size: 30 Copynumber: 15.2 Consensus size: 30
172991 TAGAAATCAT
*
173001 ATTTTAACCCTTAAACTTTCTAAAAATTAC
1 ATTTTAACCCTTAAACTTTCCAAAAATTAC
173031 ATTTTAACCCTTAAACTTTCC-AAAATTAC
1 ATTTTAACCCTTAAACTTTCCAAAAATTAC
* **
173060 ATTTTAACCCCTAAACTTTCCAAATCTTAC
1 ATTTTAACCCTTAAACTTTCCAAAAATTAC
**
173090 ATTTTAACCCCCAAACTTTCCAAAAATTAC
1 ATTTTAACCCTTAAACTTTCCAAAAATTAC
* *
173120 ATTTCAACCCCTAAACTTTCCAAAAATTAC
1 ATTTTAACCCTTAAACTTTCCAAAAATTAC
* *
173150 ATTTCAACCCCTAAACTTTCCAAAAATTAC
1 ATTTTAACCCTTAAACTTTCCAAAAATTAC
*
173180 ATTTTAACCCTTAAAC-TTCCAAAAATCAC
1 ATTTTAACCCTTAAACTTTCCAAAAATTAC
*
173209 ATTTTTACCCTTAAACTTTCC-AAAATTACC
1 ATTTTAACCCTTAAACTTTCCAAAAATTA-C
* *
173239 ATTTT-ACCCTTGAAC-TTCCAAAAATTTC
1 ATTTTAACCCTTAAACTTTCCAAAAATTAC
* * **
173267 ATTTTTGA-TCTCGAACTTTCTC-AAAATTACC
1 A-TTTTAACCCTTAAACTTTC-CAAAAATTA-C
*** * *
173298 ATTTT-ACCCCCGAAC-TTCAAAAAATTCC
1 ATTTTAACCCTTAAACTTTCCAAAAATTAC
* * *
173326 ATTTTTGA-CCTCAAACTTTCCCAAAATTAC
1 A-TTTTAACCCTTAAACTTTCCAAAAATTAC
*
173356 TATTTT-ACCC-TAGAA-TTTCCAAAAATTCC
1 -ATTTTAACCCTTA-AACTTTCCAAAAATTAC
* *
173385 ATTTTTGACCC-CAAACTTTTCC-AAAATTACC
1 A-TTTTAACCCTTAAAC-TTTCCAAAAATTA-C
* ** *
173416 A-TTTACCCCTCGAAC-TTCCAAAAATTCC
1 ATTTTAACCCTTAAACTTTCCAAAAATTAC
173444 AATTTTA
1 -ATTTTA
173451 TCCTCGAACT
Statistics
Matches: 357, Mismatches: 37, Indels: 52
0.80 0.08 0.12
Matches are distributed among these distances:
28 14 0.04
29 139 0.39
30 193 0.54
31 11 0.03
ACGTcount: A:0.36, C:0.27, G:0.02, T:0.35
Consensus pattern (30 bp):
ATTTTAACCCTTAAACTTTCCAAAAATTAC
Found at i:173550 original size:30 final size:29
Alignment explanation
Indices: 173001--173566 Score: 320
Period size: 30 Copynumber: 19.2 Consensus size: 29
172991 TAGAAATCAT
* *
173001 ATTTTAACCCTTAAACTTTCTAAAAATTA-C
1 ATTTT-ACCCCTAAACTTTC-CAAAATTACC
*
173031 ATTTTAACCCTTAAACTTTCCAAAATTA-C
1 ATTTT-ACCCCTAAACTTTCCAAAATTACC
*
173060 ATTTTAACCCCTAAACTTTCCAAATCTTA-C
1 ATTTT-ACCCCTAAACTTTCCAAA-ATTACC
*
173090 ATTTTAACCCCCAAACTTTCCAAAAATTA-C
1 ATTTT-ACCCCTAAACTTTCC-AAAATTACC
*
173120 ATTTCAACCCCTAAACTTTCCAAAAATTA-C
1 ATTT-TACCCCTAAACTTTCC-AAAATTACC
*
173150 ATTTCAACCCCTAAACTTTCCAAAAATTA-C
1 ATTT-TACCCCTAAACTTTCC-AAAATTACC
* *
173180 ATTTTAACCCTTAAAC-TTCCAAAAAT-CAC
1 ATTTT-ACCCCTAAACTTTCCAAAATTAC-C
*
173209 ATTTTTACCCTTAAACTTTCCAAAATTACC
1 A-TTTTACCCCTAAACTTTCCAAAATTACC
* * *
173239 ATTTTACCCTTGAAC-TTCCAAAAATT-TC
1 ATTTTACCCCTAAACTTTCC-AAAATTACC
* * *
173267 ATTTTTGATCTC-GAACTTTCTCAAAATTACC
1 A-TTTT-ACCCCTAAACTTTC-CAAAATTACC
** *
173298 ATTTTACCCCCGAAC-TTCAAAAAATT-CC
1 ATTTTACCCCTAAACTTTC-CAAAATTACC
* *
173326 ATTTTTGACCTC-AAACTTTCCCAAAATTACT
1 A-TTTT-ACCCCTAAACTTT-CCAAAATTACC
173357 ATTTTA-CCCTAGAA-TTTCCAAAAATT-CC
1 ATTTTACCCCTA-AACTTTCC-AAAATTACC
173385 ATTTTTGACCCC-AAACTTTTCCAAAATTACC
1 A-TTTT-ACCCCTAAAC-TTTCCAAAATTACC
*
173416 A-TTTACCCCTCGAAC-TTCCAAAAATT-CC
1 ATTTTACCCCT-AAACTTTCC-AAAATTACC
* * * *
173444 AATTTTA-TCCTCGAACTTTTCTAAAATTACT
1 -ATTTTACCCCT-AAAC-TTTCCAAAATTACC
* * * *
173475 ATTTTACCCCAAAAC-TTCTAAAAATCCC
1 ATTTTACCCCTAAACTTTCCAAAATTACC
* * *
173503 ATTTTTGATCTC-GAACTTTTCCAAAATTACC
1 A-TTTT-ACCCCTAAAC-TTTCCAAAATTACC
*
173534 ATTTTACTCCTAAAC-TTCCAAAAATT-CC
1 ATTTTACCCCTAAACTTTCC-AAAATTACC
173562 ATTTT
1 ATTTT
173567 TGACCTCGAA
Statistics
Matches: 444, Mismatches: 47, Indels: 92
0.76 0.08 0.16
Matches are distributed among these distances:
28 53 0.12
29 143 0.32
30 210 0.47
31 38 0.09
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.36
Consensus pattern (29 bp):
ATTTTACCCCTAAACTTTCCAAAATTACC
Found at i:173577 original size:59 final size:58
Alignment explanation
Indices: 173001--173573 Score: 520
Period size: 59 Copynumber: 9.7 Consensus size: 58
172991 TAGAAATCAT
* * * * *
173001 ATTTTAACCCTTAAACTTTCTAAAAATTACA-TTTTAACCCTTAAACTTTCCAAAATTA-C
1 ATTTT-ACCCCTAAAC-TTCCAAAAATTCCATTTTTGA-CCTCAAACTTTCCAAAATTACC
** * * *
173060 ATTTTAACCCCTAAACTTTCCAAATCTTACA-TTTTAACCCCCAAACTTTCCAAAAATTA-C
1 ATTTT-ACCCCTAAAC-TTCCAAAAATTCCATTTTTGA-CCTCAAACTTTCC-AAAATTACC
* * ** *
173120 ATTTCAACCCCTAAACTTTCCAAAAATTACA-TTTCAACCCCTAAACTTTCCAAAAATTA-C
1 ATTT-TACCCCTAAAC-TTCCAAAAATTCCATTTTTGACCTC-AAACTTTCC-AAAATTACC
* *
173180 ATTTTAACCCTTAAACTTCCAAAAA-TCACATTTTT-ACCCTTAAACTTTCCAAAATTACC
1 ATTTT-ACCCCTAAACTTCCAAAAATTC-CATTTTTGA-CCTCAAACTTTCCAAAATTACC
* * * * *
173239 ATTTTACCCTTGAACTTCCAAAAATTTCATTTTTGATCTCGAACTTTCTCAAAATTACC
1 ATTTTACCCCTAAACTTCCAAAAATTCCATTTTTGACCTCAAACTTTC-CAAAATTACC
** * *
173298 ATTTTACCCCCGAACTTCAAAAAATTCCATTTTTGACCTCAAACTTTCCCAAAATTACT
1 ATTTTACCCCTAAACTTCCAAAAATTCCATTTTTGACCTCAAACTTT-CCAAAATTACC
* *
173357 ATTTTA-CCCTAGAATTTCCAAAAATTCCATTTTTGACCCCAAACTTTTCCAAAATTACC
1 ATTTTACCCCTA-AACTTCCAAAAATTCCATTTTTGACCTCAAAC-TTTCCAAAATTACC
* * * * *
173416 A-TTTACCCCTCGAACTTCCAAAAATTCCAATTTT-ATCCTCGAACTTTTCTAAAATTACT
1 ATTTTACCCCT-AAACTTCCAAAAATTCCATTTTTGA-CCTCAAAC-TTTCCAAAATTACC
* * * * *
173475 ATTTTACCCCAAAACTTCTAAAAATCCCATTTTTGATCTCGAACTTTTCCAAAATTACC
1 ATTTTACCCCTAAACTTCCAAAAATTCCATTTTTGACCTCAAAC-TTTCCAAAATTACC
*
173534 ATTTTACTCCTAAACTTCCAAAAATTCCATTTTTGACCTC
1 ATTTTACCCCTAAACTTCCAAAAATTCCATTTTTGACCTC
173574 GAACCTCTGA
Statistics
Matches: 441, Mismatches: 54, Indels: 38
0.83 0.10 0.07
Matches are distributed among these distances:
58 50 0.11
59 302 0.68
60 89 0.20
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.36
Consensus pattern (58 bp):
ATTTTACCCCTAAACTTCCAAAAATTCCATTTTTGACCTCAAACTTTCCAAAATTACC
Found at i:173623 original size:118 final size:116
Alignment explanation
Indices: 173166--173625 Score: 429
Period size: 118 Copynumber: 3.9 Consensus size: 116
173156 ACCCCTAAAC
* * **
173166 TTTCCAAAAATTA-CATTTTAACCCTTAAACTTCCAAAAA-TCACATTTTT-ACCCTTAAACTTT
1 TTTCC-AAAATTACCATTTT-ACCCCTGAACTTCCAAAAATTC-CATTTTTGA-CCTCGAACTTT
* * * * * *
173228 CCAAAATTACCATTTTACCCTTGAACT-TCCAAAAATTTCATTTTTGATCTCGAAC-
62 CTAAAATTACTATTTTACCC--CAAATATTCAAAAATTCCATTTTTGATCTCGAACT
* * * *
173283 TTTCTCAAAATTACCATTTTACCCCCGAACTTCAAAAAATTCCATTTTTGACCTCAAACTTTCCC
1 TTTC-CAAAATTACCATTTTACCCCTGAACTTCCAAAAATTCCATTTTTGACCTCGAACTTT-CT
* * * *
173348 AAAATTACTATTTTACCCTAGAAT-TTCCAAAAATTCCATTTTTGACCCCAAACT
64 AAAATTACTATTTTACCCCA-AATATT-CAAAAATTCCATTTTTGATCTCGAACT
*
173402 TTTCCAAAATTACCA-TTTACCCCTCGAACTTCCAAAAATTCCAATTTT-ATCCTCGAACTTTTC
1 TTTCCAAAATTACCATTTTACCCCT-GAACTTCCAAAAATTCCATTTTTGA-CCTCGAAC-TTTC
*
173465 TAAAATTACTATTTTACCCCAAA-ACTTCTAAAAATCCCATTTTTGATCTCGAACT
63 TAAAATTACTATTTTACCCCAAATA-TTC-AAAAATTCCATTTTTGATCTCGAACT
* * *
173520 TTTCCAAAATTACCATTTTACTCCTAAACTTCCAAAAATTCCATTTTTGACCTCGAAC-CTCTGA
1 TTTCCAAAATTACCATTTTACCCCTGAACTTCCAAAAATTCCATTTTTGACCTCGAACTTTCT-A
* * * *
173584 AAATCATTATTTTGATCTCGAAATATTC-AAAATTACCATTTT
65 AAATTACTATTTT-A-CCCCAAATATTCAAAAATT-CCATTTT
173626 GTCCCTGGCT
Statistics
Matches: 290, Mismatches: 32, Indels: 41
0.80 0.09 0.11
Matches are distributed among these distances:
116 4 0.01
117 75 0.26
118 186 0.64
119 24 0.08
120 1 0.00
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.37
Consensus pattern (116 bp):
TTTCCAAAATTACCATTTTACCCCTGAACTTCCAAAAATTCCATTTTTGACCTCGAACTTTCTAA
AATTACTATTTTACCCCAAATATTCAAAAATTCCATTTTTGATCTCGAACT
Found at i:176350 original size:17 final size:17
Alignment explanation
Indices: 176328--176374 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
176318 CCAATTTTAG
*
176328 ATTTTAAATTTTAATTC
1 ATTTTAAATTTAAATTC
* *
176345 ATTTTAAGTTTAAATTT
1 ATTTTAAATTTAAATTC
*
176362 ATTATAAATTTAA
1 ATTTTAAATTTAA
176375 GCTTATTTGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (17 bp):
ATTTTAAATTTAAATTC
Found at i:176370 original size:34 final size:33
Alignment explanation
Indices: 176332--176398 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 33
176322 TTTTAGATTT
*
176332 TAAATTTTAA-TTCATTTTAAGTTTAAATTTATTA
1 TAAA-TTTAACTT-ATTTGAAGTTTAAATTTATTA
*
176366 TAAATTTAAGCTTATTTGAGGTTTAAATTTATT
1 TAAATTTAA-CTTATTTGAAGTTTAAATTTATT
176399 TTGAAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 5 0.17
34 22 0.76
35 2 0.07
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.54
Consensus pattern (33 bp):
TAAATTTAACTTATTTGAAGTTTAAATTTATTA
Found at i:178166 original size:29 final size:29
Alignment explanation
Indices: 178133--178222 Score: 78
Period size: 29 Copynumber: 3.1 Consensus size: 29
178123 AACCCTCTAG
178133 AAATTATATTTTTACCCCCGAACTTCCAA
1 AAATTATATTTTTACCCCCGAACTTCCAA
* * **
178162 AAATTTTATTTTTGA-CCCC-AATTTTTTGAA
1 AAATTATATTTTT-ACCCCCGAA--CTTCCAA
*
178192 AAATTACCA-TTTTACCCCCGAACTTCCAA
1 AAATTA-TATTTTTACCCCCGAACTTCCAA
178221 AA
1 AA
178223 TTTCCATTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
28 2 0.04
29 23 0.50
30 18 0.39
31 3 0.07
ACGTcount: A:0.34, C:0.24, G:0.04, T:0.37
Consensus pattern (29 bp):
AAATTATATTTTTACCCCCGAACTTCCAA
Found at i:178252 original size:58 final size:59
Alignment explanation
Indices: 178142--178384 Score: 280
Period size: 58 Copynumber: 4.2 Consensus size: 59
178132 GAAATTATAT
**
178142 TTTTACCCCCGAACTTCCAAAAATTTTATTTTTGACCCCAATTTTTTGAAAAATTACCA
1 TTTTACCCCCGAACTTCCAAAAATTTTATTTTTGACCCCAATTTTTCCAAAAATTACCA
* ***
178201 TTTTACCCCCGAACTTCC-AAAATTTCCA-TTTTGACCTTGATTTTTCCAAAAATTACCA
1 TTTTACCCCCGAACTTCCAAAAATTT-TATTTTTGACCCCAATTTTTCCAAAAATTACCA
* * * * * **
178259 CTTTACCTCCAAACTTCTAAAAATTCTATTTTTGACCTTAATTTTTCCAAAAATTACCA
1 TTTTACCCCCGAACTTCCAAAAATTTTATTTTTGACCCCAATTTTTCCAAAAATTACCA
* * *
178318 -TTTA-CCCCGAACTTCCAAAAAATTTTACTTTTGACCCCGAA-CTTTCCCAAAATTACCA
1 TTTTACCCCCGAACTTCC-AAAAATTTTATTTTTGACCCC-AATTTTTCCAAAAATTACCA
178376 TTTTACCCC
1 TTTTACCCC
178385 TCAAGTGACC
Statistics
Matches: 155, Mismatches: 22, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
57 9 0.06
58 83 0.54
59 60 0.39
60 3 0.02
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.37
Consensus pattern (59 bp):
TTTTACCCCCGAACTTCCAAAAATTTTATTTTTGACCCCAATTTTTCCAAAAATTACCA
Found at i:178266 original size:29 final size:30
Alignment explanation
Indices: 178215--178320 Score: 94
Period size: 30 Copynumber: 3.6 Consensus size: 30
178205 ACCCCCGAAC
* *
178215 TTCC-AAAATTTCCATTTTGACCTTGATTT
1 TTCCAAAAATTACCATTTTGACCTTAATTT
* * **
178244 TTCCAAAAATTACCACTTT-ACCTCCAA-AC
1 TTCCAAAAATTACCATTTTGACCT-TAATTT
* *
178273 TTCTAAAAATT-CTATTTTTGACCTTAATTT
1 TTCCAAAAATTACCA-TTTTGACCTTAATTT
178303 TTCCAAAAATTACCATTT
1 TTCCAAAAATTACCATTT
178321 ACCCCGAACT
Statistics
Matches: 57, Mismatches: 14, Indels: 11
0.70 0.17 0.13
Matches are distributed among these distances:
28 2 0.04
29 23 0.40
30 30 0.53
31 2 0.04
ACGTcount: A:0.32, C:0.23, G:0.03, T:0.42
Consensus pattern (30 bp):
TTCCAAAAATTACCATTTTGACCTTAATTT
Found at i:178340 original size:117 final size:117
Alignment explanation
Indices: 178143--178384 Score: 301
Period size: 117 Copynumber: 2.1 Consensus size: 117
178133 AAATTATATT
* * **
178143 TTTACCCCCGAACTTCCAAAAATTTTATTTTTGACCCCAATTTTTTGAAAAATTACCATTTTACC
1 TTTACCCCCAAACTTCCAAAAATTCTATTTTTGACCCCAATTTTTCCAAAAATTACCATTTTACC
** **
178208 CCCGAACTTCCAAAATTTC-CATTTTGACCTTGATTTTTCCAAAAATTACCAC
66 CCCGAACTTCCAAAATTTCAC-TTTTGACCCCGAACTTTCCAAAAATTACCAC
* * **
178260 TTTACCTCCAAACTTCTAAAAATTCTATTTTTGACCTTAATTTTTCCAAAAATTACCA-TTTA-C
1 TTTACCCCCAAACTTCCAAAAATTCTATTTTTGACCCCAATTTTTCCAAAAATTACCATTTTACC
* * *
178323 CCCGAACTTCCAAAAAATTTTACTTTTGACCCCGAACTTTCCCAAAATTACCAT
66 CCCGAACTTCC--AAAATTTCACTTTTGACCCCGAACTTTCCAAAAATTACCAC
178377 TTTACCCC
1 TTTACCCC
178385 TCAAGTGACC
Statistics
Matches: 106, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
115 12 0.11
116 4 0.04
117 89 0.84
118 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.37
Consensus pattern (117 bp):
TTTACCCCCAAACTTCCAAAAATTCTATTTTTGACCCCAATTTTTCCAAAAATTACCATTTTACC
CCCGAACTTCCAAAATTTCACTTTTGACCCCGAACTTTCCAAAAATTACCAC
Found at i:185306 original size:18 final size:18
Alignment explanation
Indices: 185279--185321 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
185269 CAGATGCGAA
185279 GGAAAAGAAGAAAGAGAT
1 GGAAAAGAAGAAAGAGAT
* **
185297 GGAAAGGAAGCGAGAGAT
1 GGAAAAGAAGAAAGAGAT
185315 GAGAAAA
1 G-GAAAA
185322 ACACGATTGG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.56, C:0.02, G:0.37, T:0.05
Consensus pattern (18 bp):
GGAAAAGAAGAAAGAGAT
Found at i:185833 original size:29 final size:30
Alignment explanation
Indices: 185766--186084 Score: 202
Period size: 29 Copynumber: 10.8 Consensus size: 30
185756 NNNNNNNNNN
* *
185766 AAACTTTCCAAAAATTACATTTCAACCCCT
1 AAACTTTCCAAAAATTACATTTTAACCCTT
185796 AAACTTTCCAAAAATTACATTTTAACCCTT
1 AAACTTTCCAAAAATTACATTTTAACCCTT
* *
185826 AAAC-TTCCAAAAATCACATTTTTACCCTT
1 AAACTTTCCAAAAATTACATTTTAACCCTT
185855 AAACTTTCC-AAAATTACCATTTT-ACCCTT
1 AAACTTTCCAAAAATTA-CATTTTAACCCTT
* * * * *
185884 GAAC-TTCCAAAAATTTCATTTTTGA-TCTC
1 AAACTTTCCAAAAATTACA-TTTTAACCCTT
* **
185913 GAACTTTCTC-AAAATTACCATTTT-ACCCCC
1 AAACTTTC-CAAAAATTA-CATTTTAACCCTT
* * * * *
185943 GAAC-TTCAAAAAATTCCATTTTTGA-CCTC
1 AAACTTTCCAAAAATTACA-TTTTAACCCTT
*
185972 AAACTTTCCCAAAATTACTATTTT-ACCC-T
1 AAACTTTCCAAAAATTAC-ATTTTAACCCTT
* * *
186001 AGAA-TTTCCAAAAATTCCATTTTTGACCC-C
1 A-AACTTTCCAAAAATTACA-TTTTAACCCTT
* *
186031 AAACTTTTCC-AAAATTACCA-TTTACCCCTC
1 AAAC-TTTCCAAAAATTA-CATTTTAACCCTT
* *
186061 GAAC-TTCCAAAAATTCCAATTTTA
1 AAACTTTCCAAAAATTAC-ATTTTA
186085 TCCTCGAACT
Statistics
Matches: 236, Mismatches: 28, Indels: 50
0.75 0.09 0.16
Matches are distributed among these distances:
28 14 0.06
29 111 0.47
30 100 0.42
31 11 0.05
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.35
Consensus pattern (30 bp):
AAACTTTCCAAAAATTACATTTTAACCCTT
Found at i:186113 original size:30 final size:30
Alignment explanation
Indices: 185859--186178 Score: 151
Period size: 30 Copynumber: 10.8 Consensus size: 30
185849 ACCCTTAAAC
* *
185859 TTTCCAAAATTACCATTTTACCCTTGAAC-
1 TTTCCAAAATTACCATTTTATCCTCGAACT
*
185888 -TTCCAAAAATT-TCATTTTTGAT-CTCGAAC-
1 TTTCC-AAAATTACCA-TTTT-ATCCTCGAACT
* *
185917 TTTCTCAAAATTACCATTTTACCCCCGAAC-
1 TTTC-CAAAATTACCATTTTATCCTCGAACT
* *
185947 -TTCAAAAAATT-CCATTTT-TGACCTCAAACT
1 TTTC-CAAAATTACCATTTTAT--CCTCGAACT
* * * *
185977 TTCCCAAAATTACTATTTTACCCTAGAA--
1 TTTCCAAAATTACCATTTTATCCTCGAACT
* *
186005 TTTCCAAAAATT-CCATTTT-TGACCCCAAACT
1 TTTCC-AAAATTACCATTTTAT--CCTCGAACT
*
186036 TTTCCAAAATTACCA-TTTACCCCTCGAAC-
1 TTTCCAAAATTACCATTTTA-TCCTCGAACT
186065 -TTCCAAAAATT-CCAATTTTATCCTCGAACT
1 TTTCC-AAAATTACC-ATTTTATCCTCGAACT
* * * *
186095 TTTCTAAAATTACTATTTTA-CCCCAAAAC-
1 TTTCCAAAATTACCATTTTATCCTC-GAACT
* * *
186124 -TTCTAAAAATCCCATTTTTGAT-CTCGAACT
1 TTTCCAAAATTACCA-TTTT-ATCCTCGAACT
186154 TTTCCAAAATTACCATTTTACTCCT
1 TTTCCAAAATTACCATTTTA-TCCT
186179 AAACTTCCAA
Statistics
Matches: 217, Mismatches: 39, Indels: 68
0.67 0.12 0.21
Matches are distributed among these distances:
28 40 0.18
29 68 0.31
30 73 0.34
31 36 0.17
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (30 bp):
TTTCCAAAATTACCATTTTATCCTCGAACT
Found at i:186115 original size:177 final size:175
Alignment explanation
Indices: 185796--186205 Score: 553
Period size: 177 Copynumber: 2.3 Consensus size: 175
185786 TTCAACCCCT
* *
185796 AAACTTTCCAAAAATTACATTTTAACCCTTAAACTTCCAAAAA-TCACATTTTT-ACCCTTAAAC
1 AAACTTTCCCAAAATTACATTTT-ACCC-TAAACTTCCAAAAATTC-CATTTTTGACCCTCAAAC
* * *
185859 TTTCCAAAATTACCATTTTACCCTTGAACTTCCAAAAATTTCATTTTTGATCTCGAACTTTCTCA
63 TTTCCAAAATTACCATTTTACCCTCGAACTTCCAAAAATTCCAATTTTGATCTCGAACTTTCTCA
** *
185924 AAATTACCATTTTACCCCCGAACTTCAAAAAATTCCATTTTTGACCTC
128 AAATTACCATTTTACCCCAAAACTTCAAAAAATCCCATTTTTGACCTC
*
185972 AAACTTTCCCAAAATTACTATTTTACCCTAGAATTTCCAAAAATTCCATTTTTGACCC-CAAACT
1 AAACTTTCCCAAAATTAC-ATTTTACCCTA-AACTTCCAAAAATTCCATTTTTGACCCTCAAAC-
186036 TTTCCAAAATTACCA-TTTACCCCTCGAACTTCCAAAAATTCCAATTTT-ATCCTCGAACTTT-T
63 TTTCCAAAATTACCATTTTA-CCCTCGAACTTCCAAAAATTCCAATTTTGAT-CTCGAACTTTCT
* * *
186098 CTAAAATTACTATTTTACCCCAAAACTTCTAAAAATCCCATTTTTGATCTC
126 C-AAAATTACCATTTTACCCCAAAACTTCAAAAAATCCCATTTTTGACCTC
* *
186149 GAACTTTTCCAAAATTACCATTTTACTCCTAAACTTCCAAAAATTCCATTTTTGACC
1 AAACTTTCCCAAAATTA-CATTTTAC-CCTAAACTTCCAAAAATTCCATTTTTGACC
186206 TCGAACCTCT
Statistics
Matches: 209, Mismatches: 15, Indels: 19
0.86 0.06 0.08
Matches are distributed among these distances:
175 2 0.01
176 51 0.24
177 151 0.72
178 5 0.02
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (175 bp):
AAACTTTCCCAAAATTACATTTTACCCTAAACTTCCAAAAATTCCATTTTTGACCCTCAAACTTT
CCAAAATTACCATTTTACCCTCGAACTTCCAAAAATTCCAATTTTGATCTCGAACTTTCTCAAAA
TTACCATTTTACCCCAAAACTTCAAAAAATCCCATTTTTGACCTC
Found at i:186198 original size:59 final size:58
Alignment explanation
Indices: 185800--186211 Score: 451
Period size: 59 Copynumber: 7.0 Consensus size: 58
185790 ACCCCTAAAC
**
185800 TTTCCAAAAATTA-CATTTTAACCCTTAAACTTCCAAAAA-TCACATTTTT-ACCCTTAAAC-
1 TTTCC-AAAATTACCATTTT-ACCC-TAAACTTCCAAAAATTC-CATTTTTGA-CCTCGAACT
* * *
185859 TTTCCAAAATTACCATTTTACCCTTGAACTTCCAAAAATTTCATTTTTGATCTCGAAC-
1 TTTCCAAAATTACCATTTTACCC-TAAACTTCCAAAAATTCCATTTTTGACCTCGAACT
** * *
185917 TTTCTCAAAATTACCATTTTACCCCCGAACTTCAAAAAATTCCATTTTTGACCTCAAACT
1 TTTC-CAAAATTACCATTTTA-CCCTAAACTTCCAAAAATTCCATTTTTGACCTCGAACT
* * * * *
185977 TTCCCAAAATTACTATTTTACCCTAGAATTTCCAAAAATTCCATTTTTGACCCCAAACT
1 TTTCCAAAATTACCATTTTACCCTA-AACTTCCAAAAATTCCATTTTTGACCTCGAACT
* *
186036 TTTCCAAAATTACCA-TTTACCCCTCGAACTTCCAAAAATTCCAATTTT-ATCCTCGAACT
1 TTTCCAAAATTACCATTTTA-CCCT-AAACTTCCAAAAATTCCATTTTTGA-CCTCGAACT
* * * * * *
186095 TTTCTAAAATTACTATTTTACCCCAAAACTTCTAAAAATCCCATTTTTGATCTCGAACT
1 TTTCCAAAATTACCATTTTA-CCCTAAACTTCCAAAAATTCCATTTTTGACCTCGAACT
186154 TTTCCAAAATTACCATTTTACTCCTAAACTTCCAAAAATTCCATTTTTGACCTCGAAC
1 TTTCCAAAATTACCATTTTAC-CCTAAACTTCCAAAAATTCCATTTTTGACCTCGAAC
186212 CTCTGAAAAT
Statistics
Matches: 302, Mismatches: 38, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
58 50 0.17
59 237 0.78
60 15 0.05
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (58 bp):
TTTCCAAAATTACCATTTTACCCTAAACTTCCAAAAATTCCATTTTTGACCTCGAACT
Found at i:186211 original size:118 final size:118
Alignment explanation
Indices: 185800--186201 Score: 501
Period size: 118 Copynumber: 3.4 Consensus size: 118
185790 ACCCCTAAAC
* *
185800 TTTCCAAAAATTA-CATTTTAACCCTTAAACTTCCAAAAA-TCACATTTTTACCCTTAAAC-TTT
1 TTTCC-AAAATTACCATTTT-ACCCCTAAACTTCCAAAAATTC-CATTTTTACCCTCAAACTTTT
* * *
185862 CCAAAATTACCATTTTACCCTTGAACTTCCAAAAATTTCATTTTTGATCTCGAAC-
63 CCAAAATTACTATTTTACCCTAGAACTTCCAAAAATTCCATTTTTGATCTCGAACT
** * *
185917 TTTCTCAAAATTACCATTTTACCCCCGAACTTCAAAAAATTCCATTTTTGA-CCTCAAACTTTCC
1 TTTC-CAAAATTACCATTTTACCCCTAAACTTCCAAAAATTCCATTTTT-ACCCTCAAACTTTTC
* * * *
185981 CAAAATTACTATTTTACCCTAGAATTTCCAAAAATTCCATTTTTGACCCCAAACT
64 CAAAATTACTATTTTACCCTAGAACTTCCAAAAATTCCATTTTTGATCTCGAACT
* * * * *
186036 TTTCCAAAATTACCA-TTTACCCCTCGAACTTCCAAAAATTCCAATTTTATCCTCGAACTTTTCT
1 TTTCCAAAATTACCATTTTACCCCT-AAACTTCCAAAAATTCCATTTTTACCCTCAAACTTTTCC
* * * *
186100 AAAATTACTATTTTACCCCAAAACTTCTAAAAATCCCATTTTTGATCTCGAACT
65 AAAATTACTATTTTACCCTAGAACTTCCAAAAATTCCATTTTTGATCTCGAACT
*
186154 TTTCCAAAATTACCATTTTACTCCTAAACTTCCAAAAATTCCATTTTT
1 TTTCCAAAATTACCATTTTACCCCTAAACTTCCAAAAATTCCATTTTT
186202 GACCTCGAAC
Statistics
Matches: 246, Mismatches: 30, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
117 49 0.20
118 185 0.75
119 12 0.05
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.37
Consensus pattern (118 bp):
TTTCCAAAATTACCATTTTACCCCTAAACTTCCAAAAATTCCATTTTTACCCTCAAACTTTTCCA
AAATTACTATTTTACCCTAGAACTTCCAAAAATTCCATTTTTGATCTCGAACT
Found at i:186257 original size:118 final size:116
Alignment explanation
Indices: 185800--186259 Score: 429
Period size: 118 Copynumber: 3.9 Consensus size: 116
185790 ACCCCTAAAC
* * **
185800 TTTCCAAAAATTA-CATTTTAACCCTTAAACTTCCAAAAA-TCACATTTTT-ACCCTTAAACTTT
1 TTTCC-AAAATTACCATTTT-ACCCCTGAACTTCCAAAAATTC-CATTTTTGA-CCTCGAACTTT
* * * * * *
185862 CCAAAATTACCATTTTACCCTTGAACT-TCCAAAAATTTCATTTTTGATCTCGAAC-
62 CTAAAATTACTATTTTACCC--CAAATATTCAAAAATTCCATTTTTGATCTCGAACT
* * * *
185917 TTTCTCAAAATTACCATTTTACCCCCGAACTTCAAAAAATTCCATTTTTGACCTCAAACTTTCCC
1 TTTC-CAAAATTACCATTTTACCCCTGAACTTCCAAAAATTCCATTTTTGACCTCGAACTTT-CT
* * * *
185982 AAAATTACTATTTTACCCTAGAAT-TTCCAAAAATTCCATTTTTGACCCCAAACT
64 AAAATTACTATTTTACCCCA-AATATT-CAAAAATTCCATTTTTGATCTCGAACT
*
186036 TTTCCAAAATTACCA-TTTACCCCTCGAACTTCCAAAAATTCCAATTTT-ATCCTCGAACTTTTC
1 TTTCCAAAATTACCATTTTACCCCT-GAACTTCCAAAAATTCCATTTTTGA-CCTCGAAC-TTTC
*
186099 TAAAATTACTATTTTACCCCAAA-ACTTCTAAAAATCCCATTTTTGATCTCGAACT
63 TAAAATTACTATTTTACCCCAAATA-TTC-AAAAATTCCATTTTTGATCTCGAACT
* * *
186154 TTTCCAAAATTACCATTTTACTCCTAAACTTCCAAAAATTCCATTTTTGACCTCGAAC-CTCTGA
1 TTTCCAAAATTACCATTTTACCCCTGAACTTCCAAAAATTCCATTTTTGACCTCGAACTTTCT-A
* * * *
186218 AAATCATTATTTTGATCTCGAAATATTC-AAAATTACCATTTT
65 AAATTACTATTTT-A-CCCCAAATATTCAAAAATT-CCATTTT
186260 GTCCCTGGCT
Statistics
Matches: 290, Mismatches: 32, Indels: 41
0.80 0.09 0.11
Matches are distributed among these distances:
116 4 0.01
117 75 0.26
118 186 0.64
119 24 0.08
120 1 0.00
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.37
Consensus pattern (116 bp):
TTTCCAAAATTACCATTTTACCCCTGAACTTCCAAAAATTCCATTTTTGACCTCGAACTTTCTAA
AATTACTATTTTACCCCAAATATTCAAAAATTCCATTTTTGATCTCGAACT
Found at i:188984 original size:17 final size:17
Alignment explanation
Indices: 188962--189008 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
188952 CCAATTTTAG
*
188962 ATTTTAAATTTTAATTC
1 ATTTTAAATTTAAATTC
* *
188979 ATTTTAAGTTTAAATTT
1 ATTTTAAATTTAAATTC
*
188996 ATTATAAATTTAA
1 ATTTTAAATTTAA
189009 GCTTATTTGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (17 bp):
ATTTTAAATTTAAATTC
Found at i:189004 original size:34 final size:33
Alignment explanation
Indices: 188966--189032 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 33
188956 TTTTAGATTT
*
188966 TAAATTTTAA-TTCATTTTAAGTTTAAATTTATTA
1 TAAA-TTTAACTT-ATTTGAAGTTTAAATTTATTA
*
189000 TAAATTTAAGCTTATTTGAGGTTTAAATTTATT
1 TAAATTTAA-CTTATTTGAAGTTTAAATTTATT
189033 TTGAAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 5 0.17
34 22 0.76
35 2 0.07
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.54
Consensus pattern (33 bp):
TAAATTTAACTTATTTGAAGTTTAAATTTATTA
Found at i:190800 original size:29 final size:29
Alignment explanation
Indices: 190767--190856 Score: 78
Period size: 29 Copynumber: 3.1 Consensus size: 29
190757 AACCCTCTAG
190767 AAATTATATTTTTACCCCCGAACTTCCAA
1 AAATTATATTTTTACCCCCGAACTTCCAA
* * **
190796 AAATTTTATTTTTGA-CCCC-AATTTTTTGAA
1 AAATTATATTTTT-ACCCCCGAA--CTTCCAA
*
190826 AAATTACCA-TTTTACCCCCGAACTTCCAA
1 AAATTA-TATTTTTACCCCCGAACTTCCAA
190855 AA
1 AA
190857 TTTCCATTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
28 2 0.04
29 23 0.50
30 18 0.39
31 3 0.07
ACGTcount: A:0.34, C:0.24, G:0.04, T:0.37
Consensus pattern (29 bp):
AAATTATATTTTTACCCCCGAACTTCCAA
Found at i:190886 original size:58 final size:59
Alignment explanation
Indices: 190776--191018 Score: 280
Period size: 58 Copynumber: 4.2 Consensus size: 59
190766 GAAATTATAT
**
190776 TTTTACCCCCGAACTTCCAAAAATTTTATTTTTGACCCCAATTTTTTGAAAAATTACCA
1 TTTTACCCCCGAACTTCCAAAAATTTTATTTTTGACCCCAATTTTTCCAAAAATTACCA
* ***
190835 TTTTACCCCCGAACTTCC-AAAATTTCCA-TTTTGACCTTGATTTTTCCAAAAATTACCA
1 TTTTACCCCCGAACTTCCAAAAATTT-TATTTTTGACCCCAATTTTTCCAAAAATTACCA
* * * * * **
190893 CTTTACCTCCAAACTTCTAAAAATTCTATTTTTGACCTTAATTTTTCCAAAAATTACCA
1 TTTTACCCCCGAACTTCCAAAAATTTTATTTTTGACCCCAATTTTTCCAAAAATTACCA
* * *
190952 -TTTA-CCCCGAACTTCCAAAAAATTTTACTTTTGACCCCGAA-CTTTCCCAAAATTACCA
1 TTTTACCCCCGAACTTCC-AAAAATTTTATTTTTGACCCC-AATTTTTCCAAAAATTACCA
191010 TTTTACCCC
1 TTTTACCCC
191019 TCAAGTGACC
Statistics
Matches: 155, Mismatches: 22, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
57 9 0.06
58 83 0.54
59 60 0.39
60 3 0.02
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.37
Consensus pattern (59 bp):
TTTTACCCCCGAACTTCCAAAAATTTTATTTTTGACCCCAATTTTTCCAAAAATTACCA
Found at i:190900 original size:29 final size:30
Alignment explanation
Indices: 190849--190954 Score: 94
Period size: 30 Copynumber: 3.6 Consensus size: 30
190839 ACCCCCGAAC
* *
190849 TTCC-AAAATTTCCATTTTGACCTTGATTT
1 TTCCAAAAATTACCATTTTGACCTTAATTT
* * **
190878 TTCCAAAAATTACCACTTT-ACCTCCAA-AC
1 TTCCAAAAATTACCATTTTGACCT-TAATTT
* *
190907 TTCTAAAAATT-CTATTTTTGACCTTAATTT
1 TTCCAAAAATTACCA-TTTTGACCTTAATTT
190937 TTCCAAAAATTACCATTT
1 TTCCAAAAATTACCATTT
190955 ACCCCGAACT
Statistics
Matches: 57, Mismatches: 14, Indels: 11
0.70 0.17 0.13
Matches are distributed among these distances:
28 2 0.04
29 23 0.40
30 30 0.53
31 2 0.04
ACGTcount: A:0.32, C:0.23, G:0.03, T:0.42
Consensus pattern (30 bp):
TTCCAAAAATTACCATTTTGACCTTAATTT
Found at i:190974 original size:117 final size:117
Alignment explanation
Indices: 190777--191018 Score: 301
Period size: 117 Copynumber: 2.1 Consensus size: 117
190767 AAATTATATT
* * **
190777 TTTACCCCCGAACTTCCAAAAATTTTATTTTTGACCCCAATTTTTTGAAAAATTACCATTTTACC
1 TTTACCCCCAAACTTCCAAAAATTCTATTTTTGACCCCAATTTTTCCAAAAATTACCATTTTACC
** **
190842 CCCGAACTTCCAAAATTTC-CATTTTGACCTTGATTTTTCCAAAAATTACCAC
66 CCCGAACTTCCAAAATTTCAC-TTTTGACCCCGAACTTTCCAAAAATTACCAC
* * **
190894 TTTACCTCCAAACTTCTAAAAATTCTATTTTTGACCTTAATTTTTCCAAAAATTACCA-TTTA-C
1 TTTACCCCCAAACTTCCAAAAATTCTATTTTTGACCCCAATTTTTCCAAAAATTACCATTTTACC
* * *
190957 CCCGAACTTCCAAAAAATTTTACTTTTGACCCCGAACTTTCCCAAAATTACCAT
66 CCCGAACTTCC--AAAATTTCACTTTTGACCCCGAACTTTCCAAAAATTACCAC
191011 TTTACCCC
1 TTTACCCC
191019 TCAAGTGACC
Statistics
Matches: 106, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
115 12 0.11
116 4 0.04
117 89 0.84
118 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.37
Consensus pattern (117 bp):
TTTACCCCCAAACTTCCAAAAATTCTATTTTTGACCCCAATTTTTCCAAAAATTACCATTTTACC
CCCGAACTTCCAAAATTTCACTTTTGACCCCGAACTTTCCAAAAATTACCAC
Found at i:197940 original size:18 final size:18
Alignment explanation
Indices: 197913--197955 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
197903 CAGATGCGAA
197913 GGAAAAGAAGAAAGAGAT
1 GGAAAAGAAGAAAGAGAT
* **
197931 GGAAAGGAAGCGAGAGAT
1 GGAAAAGAAGAAAGAGAT
197949 GAGAAAA
1 G-GAAAA
197956 ACACGATTGG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.56, C:0.02, G:0.37, T:0.05
Consensus pattern (18 bp):
GGAAAAGAAGAAAGAGAT
Found at i:202712 original size:49 final size:49
Alignment explanation
Indices: 202629--203164 Score: 339
Period size: 49 Copynumber: 10.9 Consensus size: 49
202619 CTACAGGTCT
* ** * * *
202629 TAGTACCACAAAGACACGAAGGGAAGGGTTTAAGTCGCAACGGCAAACC
1 TAGTACCTCAAAGACATAAAGGGAAAGATTTAAGTCGCAACGGCGAACC
* * * * *
202678 TTGTACCTCAGAGACATAAAAGGAAAGATCTAAGTCGCAACGGCGGATCC
1 TAGTACCTCAAAGACATAAAGGGAAAGATTTAAGTCGCAACGGC-GAACC
* * * **
202728 -AATACCACAAAGATACA-AAAGGGAAAGGTTTAAGTCGCAACGATGAACC
1 TAGTACCTCAAAG--ACATAAAGGGAAAGATTTAAGTCGCAACGGCGAACC
* * * * * * * *
202777 TAATACCTCAGAGACATGAAGGGGAAGATCTAAGCCGCAACGACGGATCC
1 TAGTACCTCAAAGACATAAAGGGAAAGATTTAAGTCGCAACGGC-GAACC
* * * * * **
202827 -AGTATCGCAAAGACACAAAGGGAAGGGTTTAAGTCGCAACAACGAACC
1 TAGTACCTCAAAGACATAAAGGGAAAGATTTAAGTCGCAACGGCGAACC
* * * * *
202875 TAGTACCTCAAAGACATGAAGGGAAAGATTTAAGCCACAACGGTGAATC
1 TAGTACCTCAAAGACATAAAGGGAAAGATTTAAGTCGCAACGGCGAACC
* * * * *
202924 AAGTACCACAAAGACACAAAGGGAAGGGTTTAAGTCGCAACGGCGAACC
1 TAGTACCTCAAAGACATAAAGGGAAAGATTTAAGTCGCAACGGCGAACC
* * * * * *
202973 GT-GTACCTCACAAG-CATAAAAGGAAAGATCTAAGCCGCAATGAC-AGATC
1 -TAGTACCTCA-AAGACATAAAGGGAAAGATTTAAGTCGCAACGGCGA-ACC
* * * * * * *
203022 TAGTACCGCAAAAATACA-AAAGGGAAAGGTTTAAGTCACAATGACGAACT
1 TAGTACCTC--AAAGACATAAAGGGAAAGATTTAAGTCGCAACGGCGAACC
* * * * * * *
203072 TTGTACCTCAAATACATGAAGGGAAAGGTTTAAGTCGCAATGACGAACT
1 TAGTACCTCAAAGACATAAAGGGAAAGATTTAAGTCGCAACGGCGAACC
* * * * * *
203121 TAGTACCTTAGAGATATGAAGGGAAAGATTTAAGCCACAACGGC
1 TAGTACCTCAAAGACATAAAGGGAAAGATTTAAGTCGCAACGGC
203165 AAATCCAATA
Statistics
Matches: 372, Mismatches: 99, Indels: 32
0.74 0.20 0.06
Matches are distributed among these distances:
48 16 0.04
49 275 0.74
50 74 0.20
51 7 0.02
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (49 bp):
TAGTACCTCAAAGACATAAAGGGAAAGATTTAAGTCGCAACGGCGAACC
Found at i:202892 original size:98 final size:98
Alignment explanation
Indices: 202630--203116 Score: 528
Period size: 98 Copynumber: 4.9 Consensus size: 98
202620 TACAGGTCTT
* * * * *
202630 AGTACCACAAAGACACGAAGGGAAGGGTTTAAGTCGCAACGGCAAACCTTGTACCTCAGAGACAT
1 AGTACCACAAAGACACAAAGGGAAGGGTTTAAGTCGCAACGACGAACCTAGTACCTCAAAGACAT
* * * *
202695 AAAAGGAAAGATCTAAGTCGCAACGGCGGATCC
66 GAAGGGAAAGATCTAAGCCGCAACGACGGATCC
* * * * * *
202728 AATACCACAAAGATACAAAAGGGAAAGGTTTAAGTCGCAACGATGAACCTAATACCTCAGAGACA
1 AGTACCACAAAGACAC-AAAGGGAAGGGTTTAAGTCGCAACGACGAACCTAGTACCTCAAAGACA
*
202793 TGAAGGGGAAGATCTAAGCCGCAACGACGGATCC
65 TGAAGGGAAAGATCTAAGCCGCAACGACGGATCC
* * *
202827 AGTATCGCAAAGACACAAAGGGAAGGGTTTAAGTCGCAACAACGAACCTAGTACCTCAAAGACAT
1 AGTACCACAAAGACACAAAGGGAAGGGTTTAAGTCGCAACGACGAACCTAGTACCTCAAAGACAT
* * ** * *
202892 GAAGGGAAAGATTTAAGCCACAACGGTGAATCA
66 GAAGGGAAAGATCTAAGCCGCAACGACGGATCC
*
202925 AGTACCACAAAGACACAAAGGGAAGGGTTTAAGTCGCAACGGCGAACCGT-GTACCTCACAAG-C
1 AGTACCACAAAGACACAAAGGGAAGGGTTTAAGTCGCAACGACGAACC-TAGTACCTCA-AAGAC
* * * * *
202988 ATAAAAGGAAAGATCTAAGCCGCAATGACAGATCT
64 ATGAAGGGAAAGATCTAAGCCGCAACGACGGATCC
* * * * * * * * *
203023 AGTACCGCAAAAATACAAAAGGGAAAGGTTTAAGTCACAATGACGAACTTTGTACCTCAAATACA
1 AGTACCACAAAGACAC-AAAGGGAAGGGTTTAAGTCGCAACGACGAACCTAGTACCTCAAAGACA
* * * *
203088 TGAAGGGAAAGGTTTAAGTCGCAATGACG
65 TGAAGGGAAAGATCTAAGCCGCAACGACG
203117 AACTTAGTAC
Statistics
Matches: 324, Mismatches: 59, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
98 178 0.55
99 146 0.45
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (98 bp):
AGTACCACAAAGACACAAAGGGAAGGGTTTAAGTCGCAACGACGAACCTAGTACCTCAAAGACAT
GAAGGGAAAGATCTAAGCCGCAACGACGGATCC
Found at i:203046 original size:197 final size:197
Alignment explanation
Indices: 202630--203105 Score: 564
Period size: 197 Copynumber: 2.4 Consensus size: 197
202620 TACAGGTCTT
* * * * * *
202630 AGTACCACAAAGACACGAAGGGAAGGGTTTAAGTCGCAACGGCAAACCTTGTACCTCAGAGACAT
1 AGTACCGCAAAAACACAAAGGGAAGGGTTTAAGTCGCAACGACGAACCTTGTACCTCAAAGACAT
* * * * * * *
202695 AAAAGGAAAGATCTAAGTCGCAACGGCGGATCCAATACCACAAAGATACAAAAGGGAAAGGTTTA
66 GAAGGGAAAGATTTAAGCCACAACGGCGAATCCAATACCACAAAGACACAAAAGGGAAAGGTTTA
* * * * * *
202760 AGTCGCAACGATGAACCTAATACCTCAGAGACATGAAGGGGAAGATCTAAGCCGCAACGACGGAT
131 AGTCGCAACGACGAACCTAATACCTCAAAGACATAAAAGGAAAGATCTAAGCCGCAACGACAGAT
202825 CC
196 CC
* * * *
202827 AGTATCGCAAAGACACAAAGGGAAGGGTTTAAGTCGCAACAACGAACCTAGTACCTCAAAGACAT
1 AGTACCGCAAAAACACAAAGGGAAGGGTTTAAGTCGCAACGACGAACCTTGTACCTCAAAGACAT
* *
202892 GAAGGGAAAGATTTAAGCCACAACGGTGAAT-CAAGTACCACAAAGACAC-AAAGGGAAGGGTTT
66 GAAGGGAAAGATTTAAGCCACAACGGCGAATCCAA-TACCACAAAGACACAAAAGGGAAAGGTTT
* * *
202955 AAGTCGCAACGGCGAACCGT-GTACCTCACAAG-CATAAAAGGAAAGATCTAAGCCGCAATGACA
130 AAGTCGCAACGACGAACC-TAATACCTCA-AAGACATAAAAGGAAAGATCTAAGCCGCAACGACA
*
203018 GATCT
193 GATCC
* * * * * *
203023 AGTACCGCAAAAATACAAAAGGGAAAGGTTTAAGTCACAATGACGAACTTTGTACCTCAAATACA
1 AGTACCGCAAAAACAC-AAAGGGAAGGGTTTAAGTCGCAACGACGAACCTTGTACCTCAAAGACA
*
203088 TGAAGGGAAAGGTTTAAG
65 TGAAGGGAAAGATTTAAG
203106 TCGCAATGAC
Statistics
Matches: 237, Mismatches: 38, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
196 82 0.35
197 155 0.65
ACGTcount: A:0.41, C:0.20, G:0.24, T:0.16
Consensus pattern (197 bp):
AGTACCGCAAAAACACAAAGGGAAGGGTTTAAGTCGCAACGACGAACCTTGTACCTCAAAGACAT
GAAGGGAAAGATTTAAGCCACAACGGCGAATCCAATACCACAAAGACACAAAAGGGAAAGGTTTA
AGTCGCAACGACGAACCTAATACCTCAAAGACATAAAAGGAAAGATCTAAGCCGCAACGACAGAT
CC
Found at i:203119 original size:148 final size:148
Alignment explanation
Indices: 202629--203229 Score: 462
Period size: 148 Copynumber: 4.1 Consensus size: 148
202619 CTACAGGTCT
* * * * *
202629 TAGTACCACAAAGACACGAAGGGAAGGGTTTAAGTCGCAACGGCAAACCTTGTACCTCAGAGACA
1 TAGTACCTCAAAGACACGAAGGGAAAGGTTTAAGTCGCAACGACGAACCTTGTACCTCAAAGACA
* * * * *
202694 TAAAAGGAAAGATCTAAGTCGCAACGGCGGATCCAATACCACAAAGATACAAAAGGGAAAGGTTT
66 TAAAAGGAAAGATCTAAGCCGCAACGACAGATCCAATACCGCAAAAATACAAAAGGGAAAGGTTT
* *
202759 AAGTCGCAACGATGAACC
131 AAGTCACAACGACGAACC
* * * * * * * * * * *
202777 TAATACCTCAGAGACATGAAGGGGAAGATCTAAGCCGCAACGACGGATCC-AGTATCGCAAAGAC
1 TAGTACCTCAAAGACACGAAGGGAAAGGTTTAAGTCGCAACGAC-GAACCTTGTACCTCAAAGAC
* * * * * * * * * * * * *
202841 ACAAAGGGAAGGGTTTAAGTCGCAACAAC-GAACCTAGTACCTC--AAAGACATGAAGGGAAAGA
65 ATAAAAGGAAAGATCTAAGCCGCAACGACAGATCC-AATACCGCAAAAATACA-AAAGGGAAAGG
* ** *
202903 TTTAAGCCACAACGGTGAATC
128 TTTAAGTCACAACGACGAACC
* * * * * *
202924 AAGTACCACAAAGACACAAAGGGAAGGGTTTAAGTCGCAACGGCGAACCGTGTACCTCACAAG-C
1 TAGTACCTCAAAGACACGAAGGGAAAGGTTTAAGTCGCAACGACGAACCTTGTACCTCA-AAGAC
* * *
202988 ATAAAAGGAAAGATCTAAGCCGCAATGACAGATCTAGTACCGCAAAAATACAAAAGGGAAAGGTT
65 ATAAAAGGAAAGATCTAAGCCGCAACGACAGATCCAATACCGCAAAAATACAAAAGGGAAAGGTT
* *
203053 TAAGTCACAATGACGAACT
130 TAAGTCACAACGACGAACC
* * * * * * *
203072 TTGTACCTCAAATACATGAAGGGAAAGGTTTAAGTCGCAATGACGAA-CTTAGTACCTTAGAGAT
1 TAGTACCTCAAAGACACGAAGGGAAAGGTTTAAGTCGCAACGACGAACCTT-GTACCTCAAAGAC
* * * * * * * *
203136 ATGAAGGGAAAGATTTAAGCCACAACGGCAAATCCAATATCGCGAAAAATACGAAA-GGAAAGGT
65 ATAAAAGGAAAGATCTAAGCCGCAACGACAGATCCAATACCGC-AAAAATACAAAAGGGAAAGGT
* * *
203200 TTAAGTCGCAATGGCGAACC
129 TTAAGTCACAACGACGAACC
203220 TTA-TACCTCA
1 -TAGTACCTCA
203230 GGAGCATGAA
Statistics
Matches: 343, Mismatches: 98, Indels: 24
0.74 0.21 0.05
Matches are distributed among these distances:
146 9 0.03
147 101 0.29
148 212 0.62
149 21 0.06
ACGTcount: A:0.40, C:0.20, G:0.23, T:0.17
Consensus pattern (148 bp):
TAGTACCTCAAAGACACGAAGGGAAAGGTTTAAGTCGCAACGACGAACCTTGTACCTCAAAGACA
TAAAAGGAAAGATCTAAGCCGCAACGACAGATCCAATACCGCAAAAATACAAAAGGGAAAGGTTT
AAGTCACAACGACGAACC
Found at i:205562 original size:29 final size:30
Alignment explanation
Indices: 205530--205763 Score: 116
Period size: 29 Copynumber: 7.9 Consensus size: 30
205520 CAGAAATTAT
205530 ATTTTTACCCTCGAACTTCCAAAAATT-CC
1 ATTTTTACCCTCGAACTTCCAAAAATTACC
** *
205559 ATTTTTGA-CCTCGATTTTTCTAAAAATTACC
1 ATTTTT-ACCCTCGA-ACTTCCAAAAATTACC
* * *
205590 A-TTTTACCCT-AAACTTTCGAAAATATTTCC
1 ATTTTTACCCTCGAAC-TTCCAAAA-ATTACC
* * ** *
205620 TTTTTTTA-CCTTGATTTTTCCAAAAATTATC
1 -ATTTTTACCCTCGA-ACTTCCAAAAATTACC
* *
205651 A-TTTTACCCACGAGCTTCCAAAAATT-CC
1 ATTTTTACCCTCGAACTTCCAAAAATTACC
*
205679 ATTTTTTACCC-CAAACTTTCC-AAAATTACC
1 A-TTTTTACCCTCGAAC-TTCCAAAAATTACC
* * * *
205709 A-TTTTACCCCCCAAGTGACC-AAAATTACC
1 ATTTTTACCCTCGAACT-TCCAAAAATTACC
*
205738 A-ATTTACCCTCGAA-TATCCAAAAATT
1 ATTTTTACCCTCGAACT-TCCAAAAATT
205764 TCATTTCAAC
Statistics
Matches: 156, Mismatches: 31, Indels: 36
0.70 0.14 0.16
Matches are distributed among these distances:
28 14 0.09
29 77 0.49
30 42 0.27
31 10 0.06
32 13 0.08
ACGTcount: A:0.32, C:0.26, G:0.04, T:0.37
Consensus pattern (30 bp):
ATTTTTACCCTCGAACTTCCAAAAATTACC
Found at i:205685 original size:61 final size:60
Alignment explanation
Indices: 205518--205717 Score: 189
Period size: 61 Copynumber: 3.4 Consensus size: 60
205508 CCTTAAAATG
* *
205518 TCCAGAAATTAT-ATTTTTACCCTCGAACTTCCAAAAATTCCA-TTTTTGACCTCGATTTT
1 TCCAAAAATTATCA-TTTTACCCACGAACTTCCAAAAATTCCATTTTTTGACCTCGATTTT
* * * * *
205577 TCTAAAAATTACCATTTTACCCTA--AACTTTCGAAAATATTTCC-TTTTTTTACCTTGATTTT
1 TCCAAAAATTATCATTTTACCC-ACGAAC-TTCCAAAA-A-TTCCATTTTTTGACCTCGATTTT
* * * **
205638 TCCAAAAATTATCATTTTACCCACGAGCTTCCAAAAATTCCATTTTTT-ACCCCAAACTT
1 TCCAAAAATTATCATTTTACCCACGAACTTCCAAAAATTCCATTTTTTGACCTCGATTTT
*
205697 TCC-AAAATTACCATTTTACCC
1 TCCAAAAATTATCATTTTACCC
205718 CCCAAGTGAC
Statistics
Matches: 115, Mismatches: 17, Indels: 19
0.76 0.11 0.13
Matches are distributed among these distances:
58 20 0.17
59 37 0.32
60 10 0.09
61 46 0.40
62 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.04, T:0.40
Consensus pattern (60 bp):
TCCAAAAATTATCATTTTACCCACGAACTTCCAAAAATTCCATTTTTTGACCTCGATTTT
Found at i:210655 original size:21 final size:22
Alignment explanation
Indices: 210630--210670 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
210620 CATTGTAATC
210630 ATTGAAAAATAAAA-TAAAAGT
1 ATTGAAAAATAAAATTAAAAGT
210651 ATTGAAAAATAAAATTAAAA
1 ATTGAAAAATAAAATTAAAA
210671 CTTCAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.24
Consensus pattern (22 bp):
ATTGAAAAATAAAATTAAAAGT
Done.