Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 153 of 185
Found at i:47166178 original size:57 final size:58
Alignment explanation
Indices: 47166108--47166226 Score: 159
Period size: 57 Copynumber: 2.1 Consensus size: 58
47166098 TAGGCCTTGG
* *** *
47166108 TGTAGGAACAATTATCAAGTTCAGGGGGTAACTCG-TAAAAAAAGGTTCAAGCTCCAA
1 TGTAGGAAAAATTATCAAGTTCAGGACCTAACTCGAAAAAAAAAGGTTCAAGCTCCAA
* *
47166165 TGTAGGAAAAATTATCAAGTTCAGGACCTAACTTGAAAAAAAAAAGGTTCAGGCTCCAA
1 TGTAGGAAAAATTATCAAGTTCAGGACCTAACTCG-AAAAAAAAAGGTTCAAGCTCCAA
47166224 TGT
1 TGT
47166227 GAAAAAGGTT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
57 30 0.57
59 23 0.43
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (58 bp):
TGTAGGAAAAATTATCAAGTTCAGGACCTAACTCGAAAAAAAAAGGTTCAAGCTCCAA
Found at i:47173056 original size:41 final size:41
Alignment explanation
Indices: 47173011--47173285 Score: 433
Period size: 41 Copynumber: 6.7 Consensus size: 41
47173001 GGTTTTAAAA
*
47173011 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
47173052 CCTAGCAGGCTAAGTGCCGGTGATCTGAATAAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
47173093 CCTAGCAGGCTAAGTGCTGGTGATCTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
47173134 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* *
47173175 CCTAGCAGGCTAAGTGCCGATGATCTGAATCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* * * *
47173216 CCTAGCAAGCTAAGTGTCGGTGATCTGAATCAAGCTTTAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
47173257 CCTAGCAGGGCTAAGTGCCAGTGAATCTG
1 CCTAGCA-GGCTAAGTGCCGGTG-ATCTG
47173286 TGTAAATTAA
Statistics
Matches: 214, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
41 197 0.92
42 12 0.06
43 5 0.02
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
Found at i:47173626 original size:35 final size:35
Alignment explanation
Indices: 47173587--47173656 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
47173577 TTCGATGAAG
* *
47173587 TGCAAGCGATAAGCACATATATGCATTTAGATATA
1 TGCAAGCGATAAACACATATATACATTTAGATATA
* * *
47173622 TGCAAGTGATAAATACATATATACATTTAGTTATA
1 TGCAAGCGATAAACACATATATACATTTAGATATA
47173657 ATAACTGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.33
Consensus pattern (35 bp):
TGCAAGCGATAAACACATATATACATTTAGATATA
Found at i:47180139 original size:41 final size:41
Alignment explanation
Indices: 47180094--47180368 Score: 424
Period size: 41 Copynumber: 6.7 Consensus size: 41
47180084 GGTTTTAAAA
*
47180094 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
47180135 CCTAGCAGGCTAAGTGCCGGTGATCTGAATAAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
47180176 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* * *
47180217 GCTAGCAGGCTAAGTGTCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* *
47180258 CCTAGCAGGCTAAGTGCCGATGATCTGAATCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* * * *
47180299 CCTAGCAAGCTAAGTGTCGGTGATCTGAATCAAGCTTTAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
47180340 CCTAGCAGGGCTAAGTGCCAGTGAATCTG
1 CCTAGCA-GGCTAAGTGCCGGTG-ATCTG
47180369 TGTAAATTAA
Statistics
Matches: 212, Mismatches: 20, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
41 195 0.92
42 12 0.06
43 5 0.02
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
Found at i:47182903 original size:40 final size:40
Alignment explanation
Indices: 47182858--47182935 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 40
47182848 TTTTCAAATT
*
47182858 CACTTTCGATTCAAT-CACAATTCA-ATTCAATTTCACTTTC
1 CACTTTCGAATCAATACACAATTCAGA-T-AATTTCACTTTC
**
47182898 CACTTTTTAATCAATACACAATTCAGATAATTTCACTT
1 CACTTTCGAATCAATACACAATTCAGATAATTTCACTT
47182936 CGATTCAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 22 0.67
41 10 0.30
42 1 0.03
ACGTcount: A:0.33, C:0.24, G:0.03, T:0.40
Consensus pattern (40 bp):
CACTTTCGAATCAATACACAATTCAGATAATTTCACTTTC
Found at i:47184215 original size:24 final size:23
Alignment explanation
Indices: 47184176--47184240 Score: 73
Period size: 24 Copynumber: 2.9 Consensus size: 23
47184166 TCTTAATATA
* *
47184176 ATATTTATA-TTATAATTATTTT
1 ATATATATATTTATAATTAATTT
47184198 A-ATAATATACTTTATAATTAATTT
1 ATAT-ATATA-TTTATAATTAATTT
47184222 ATATATATATTTA-AATTAA
1 ATATATATATTTATAATTAA
47184241 ATCATTATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
21 2 0.05
22 11 0.30
23 4 0.11
24 18 0.49
25 2 0.05
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
ATATATATATTTATAATTAATTT
Found at i:47185158 original size:25 final size:25
Alignment explanation
Indices: 47185121--47185262 Score: 103
Period size: 25 Copynumber: 5.7 Consensus size: 25
47185111 TAAATAATAC
*
47185121 GCCATAAAGGCTTTTCACAAGATTA
1 GCCACAAAGGCTTTTCACAAGATTA
* * * *
47185146 ACCACAAAAGC-TTTC-CAGGTAATA
1 GCCACAAAGGCTTTTCACAAG-ATTA
**
47185170 CGCCACAAAGGCTTTTCACGGGATTA
1 -GCCACAAAGGCTTTTCACAAGATTA
* * * *
47185196 ACCACAAAAGATTTTCAGATA-A-TA
1 GCCACAAAGGCTTTTCACA-AGATTA
* *
47185220 CGCCACAAAGGCTTTTTATAAGATTA
1 -GCCACAAAGGCTTTTCACAAGATTA
47185246 GCCACAAAGGCTTTTCA
1 GCCACAAAGGCTTTTCA
47185263 GAGAATTCTC
Statistics
Matches: 88, Mismatches: 21, Indels: 16
0.70 0.17 0.13
Matches are distributed among these distances:
23 3 0.03
24 10 0.11
25 63 0.72
26 9 0.10
27 3 0.03
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (25 bp):
GCCACAAAGGCTTTTCACAAGATTA
Found at i:47185181 original size:50 final size:50
Alignment explanation
Indices: 47185114--47185264 Score: 203
Period size: 50 Copynumber: 3.0 Consensus size: 50
47185104 GTCTTTCTAA
*
47185114 ATAATACGCCATAAAGGCTTTTCACAAGATTAACCACAAAAGCTTTCCAG
1 ATAATACGCCACAAAGGCTTTTCACAAGATTAACCACAAAAGCTTTCCAG
* ** * *
47185164 GTAATACGCCACAAAGGCTTTTCACGGGATTAACCACAAAAGATTTTCAG
1 ATAATACGCCACAAAGGCTTTTCACAAGATTAACCACAAAAGCTTTCCAG
* * * * *
47185214 ATAATACGCCACAAAGGCTTTTTATAAGATTAGCCACAAAGGCTTTTCAG
1 ATAATACGCCACAAAGGCTTTTCACAAGATTAACCACAAAAGCTTTCCAG
47185264 A
1 A
47185265 GAATTCTCGA
Statistics
Matches: 87, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 87 1.00
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (50 bp):
ATAATACGCCACAAAGGCTTTTCACAAGATTAACCACAAAAGCTTTCCAG
Found at i:47187857 original size:16 final size:16
Alignment explanation
Indices: 47187820--47187861 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
47187810 TTAATCATAT
*
47187820 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
47187836 TT-AAATATATTATAA
1 TTAAAATATATTATAA
47187851 TTAAAATATAT
1 TTAAAATATAT
47187862 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:47187868 original size:14 final size:15
Alignment explanation
Indices: 47187829--47187870 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
47187819 TTTAAACATA
*
47187829 ATTATTATTAAATAT
1 ATTATAATTAAATAT
47187844 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
47187858 A-TATAATTTAATA
1 ATTATAATTAAATA
47187871 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:47187967 original size:120 final size:120
Alignment explanation
Indices: 47187818--47188354 Score: 889
Period size: 120 Copynumber: 4.5 Consensus size: 120
47187808 ATTTAATCAT
*
47187818 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* * * *
47187883 GTCAATATTGTTATATGAATTTACTTAAATCATAATATATGATACTATAAAATATA
65 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* * * *
47187939 AATTAACATAATTATTTTTAAATATATTATAATTAAAATCTATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
47188004 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGGTA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
47188059 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
47188124 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
*
47188179 ATTTAACATAATTATTATTAAATGTATTTTAATTAAAATATATAATTTAATAAAATTC-TAATAA
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
47188243 TCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* *
47188298 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
47188355 TAAAATAATT
Statistics
Matches: 394, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
119 109 0.28
120 282 0.72
121 3 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
Found at i:47188101 original size:18 final size:17
Alignment explanation
Indices: 47188080--47188114 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
47188070 TTATTATTAA
*
47188080 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
47188098 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
47188115 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:47191160 original size:22 final size:23
Alignment explanation
Indices: 47191131--47191183 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
47191121 AAAAAAATAT
47191131 AAAC-TATA-AAGTATATTAAAA
1 AAACATATATAAGTATATTAAAA
** *
47191152 AAACATATATTTGTATTTTAAAA
1 AAACATATATAAGTATATTAAAA
47191175 AAA-ATATAT
1 AAACATATAT
47191184 TCATATATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.15
22 10 0.37
23 13 0.48
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.36
Consensus pattern (23 bp):
AAACATATATAAGTATATTAAAA
Found at i:47191184 original size:22 final size:23
Alignment explanation
Indices: 47191141--47191184 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
47191131 AAACTATAAA
47191141 GTATATTAAAAAAACATATATTT
1 GTATATTAAAAAAACATATATTT
*
47191164 GTATTTTAAAAAAA-ATATATT
1 GTATATTAAAAAAACATATATT
47191185 CATATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (23 bp):
GTATATTAAAAAAACATATATTT
Found at i:47191196 original size:23 final size:23
Alignment explanation
Indices: 47191142--47191196 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
47191132 AACTATAAAG
**
47191142 TATATTAAAAAAACATATATTTG
1 TATATTAAAAAAACATATATTCA
*
47191165 TATTTTAAAAAAA-ATATATTCA
1 TATATTAAAAAAACATATATTCA
47191187 TATATATAAA
1 TATAT-TAAA
47191197 TAAATAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (23 bp):
TATATTAAAAAAACATATATTCA
Found at i:47191924 original size:22 final size:21
Alignment explanation
Indices: 47191889--47192022 Score: 77
Period size: 19 Copynumber: 6.7 Consensus size: 21
47191879 AAAGGGTATC
* *
47191889 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
47191910 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
47191933 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
47191952 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
47191971 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* * *
47191990 TATATAT--TATATCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
47192009 TGCATATCATATCT
1 TACAAATCATATCT
47192023 AAGATTGCAT
Statistics
Matches: 94, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
17 2 0.02
19 60 0.64
21 7 0.07
22 15 0.16
23 10 0.11
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:47191932 original size:23 final size:22
Alignment explanation
Indices: 47191889--47191946 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
47191879 AAAGGGTATC
* *
47191889 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
47191910 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
47191933 TGCATATCATATCT
1 TACAAATCATATCT
47191947 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:47191949 original size:19 final size:19
Alignment explanation
Indices: 47191925--47192035 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
47191915 AATCATATCT
47191925 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
47191944 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
47191963 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
47191982 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
47192001 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
47192020 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
47192036 CCTGAAGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:47191972 original size:38 final size:38
Alignment explanation
Indices: 47191925--47192028 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
47191915 AATCATATCT
47191925 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
47191963 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
47192001 TCTAAGATTGCATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
47192029 GCATATCCCT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.40
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:47192527 original size:44 final size:43
Alignment explanation
Indices: 47192479--47192921 Score: 113
Period size: 44 Copynumber: 10.1 Consensus size: 43
47192469 ACTACTGCTT
*
47192479 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCC
1 AGGGAGATAAGATCTG-AATCTTCAATCTACTCCACTGTTGTCC
* ** * ***
47192523 AGGGA-AGT-AGAATTACTG--GCTTCAATGAACTCCACTATAACCAC
1 AGGGAGA-TAAG-A-T-CTGAATCTTCAATCTACTCCACTGTTGTC-C
* * * * ** *
47192567 AGGGAGGTAAAATCTGTCATCTTCGATCTACTCCACTACTG-CTT
1 AGGGAGATAAGATCTG-AATCTTCAATCTACTCCACTGTTGTC-C
* * *
47192611 AGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCT
1 AGGGAGATAAGATCTG-AATCTTCAATCTACTCCACTGTTGTCC
* * ***
47192655 AGGGA-AGT-AGAATTACTG--GCTTCAATGTACTCCACTGTAACCAC
1 AGGGAGA-TAAG-A-T-CTGAATCTTCAATCTACTCCACTGTTGTC-C
* * * * * * ** *
47192699 AGGGAGGTAAAATCCGCCATCTTCGATCTACTTCACTACTG-CTT
1 AGGGAGATAAGATCTG-AATCTTCAATCTACTCCACTGTTGTC-C
* * *
47192743 AGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCT
1 AGGGAGATAAGATCTG-AATCTTCAATCTACTCCACTGTTGTCC
* * ***
47192787 AGGGA-AGT-AGAATTACTG--GCTTCAATGTACTCCACTGTAACCAC
1 AGGGAGA-TAAG-A-T-CTGAATCTTCAATCTACTCCACTGTTGTC-C
* * * * * ** **
47192831 AGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGTTT
1 AGGGAGATAAGATCTG-AATCTTCAATCTACTCCACTGTTGTCC
* *
47192875 AGGGAGATAAGACCTGGAATCTTCAATCTATTCCACTGTTGTCC
1 AGGGAGATAAGATCT-GAATCTTCAATCTACTCCACTGTTGTCC
47192919 AGG
1 AGG
47192922 AAAGTAGAAT
Statistics
Matches: 274, Mismatches: 92, Indels: 66
0.63 0.21 0.15
Matches are distributed among these distances:
42 8 0.03
43 64 0.23
44 143 0.52
45 50 0.18
46 9 0.03
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (43 bp):
AGGGAGATAAGATCTGAATCTTCAATCTACTCCACTGTTGTCC
Found at i:47192588 original size:132 final size:132
Alignment explanation
Indices: 47192364--47193390 Score: 1689
Period size: 132 Copynumber: 7.8 Consensus size: 132
47192354 TAGGACTTAC
* * * *
47192364 AATCTTCAACCTATTCCACTGCTGACCAGGG-AGATATG-ATTACTGGCTTCAATGTACTCTACT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAG-TA-GAATTACTGGCTTCAATGTACTCCACT
*
47192427 GTAACCACAGGGAGGTAAAATCCGCCATCTTCGCTCTGCTCCACTACTGCTTAGGGAGATAAGAT
64 GTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
47192492 CTGA
129 CTGA
* *
47192496 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGAACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* * * *
47192561 AACCACAGGGAGGTAAAATCTGTCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGACCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
47192626 GA
131 GA
*
47192628 AATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* * *
47192693 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACTTCACTACTGCTTAGGGAGATAAGACCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
47192758 GA
131 GA
*
47192760 AATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* * *
47192825 AACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACTACTGTTTAGGGAGATAAGACCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
*
47192890 GG
131 GA
* * *
47192892 AATCTTCAATCTATTCCACTGTTGTCCAGGAAAGTAGAATTACTAGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
*
47192957 AACCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
47193022 GA
131 GA
* *
47193024 AATCTTCAATCTATTCCACTGTTGTTCAGGGAAGTAGAATTATTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
47193089 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
47193154 GA
131 GA
* * * * *
47193156 AATCTTTAATCTATTCCACTATTGCCCAGGGAAATAGAATTACTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
*
47193221 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAAATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
47193286 GA
131 GA
* *
47193288 AATCTTCAATCTATTCCACTGTTGTCCAAGGAAGTAGAATTACTGGCTTTAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
** *
47193353 AACCACATTGAGGTAAAATCTGCCATCTTCGATCTGCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
47193391 TCGCTGTCAA
Statistics
Matches: 838, Mismatches: 55, Indels: 4
0.93 0.06 0.00
Matches are distributed among these distances:
131 1 0.00
132 835 1.00
133 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
GA
Found at i:47193042 original size:44 final size:44
Alignment explanation
Indices: 47192981--47193307 Score: 122
Period size: 44 Copynumber: 7.4 Consensus size: 44
47192971 AAAATCCACC
* *
47192981 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
* **
47193025 ATCTTCAATCTATTCCACTGTTG-TTCAGGGA-AGT-AGAAT-T--A
1 ATCTTCAATCTACTCCACTACTGCTT-AGGGAGA-TAAG-ATCTGAA
* * ** * * * **
47193066 TTGGCTTCAATGTACTCCACTGTAAC--CACAGGGAGGTAAAATCCGCC
1 AT--CTTCAATCTACTCCAC--T-ACTGCTTAGGGAGATAAGATCTGAA
* *
47193113 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
* * * ** *
47193157 ATCTTTAATCTATTCCACTATTGCCCAGGGAAAT-AGAATTACTG--
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAG-A-T-CTGAA
* * * ** * * * **
47193201 -GCTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCACTACT--GCTTAGGGAGATAAGATCTGAA
* * *
47193245 ATCTTCGATCTGCTCCACTACTGCTTAGGGAAATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
*
47193289 ATCTTCAATCTATTCCACT
1 ATCTTCAATCTACTCCACT
47193308 GTTGTCCAAG
Statistics
Matches: 196, Mismatches: 61, Indels: 52
0.63 0.20 0.17
Matches are distributed among these distances:
41 2 0.01
42 5 0.03
43 39 0.20
44 113 0.58
45 32 0.16
46 4 0.02
47 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (44 bp):
ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTGAA
Found at i:47198894 original size:4 final size:4
Alignment explanation
Indices: 47198887--47198920 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
47198877 ATTTATTTAT
*
47198887 ATAA ATAA ATGA ATAA ATAAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA AT-AA ATAA ATAA ATAA A
47198921 ATTCAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:47198930 original size:13 final size:13
Alignment explanation
Indices: 47198887--47198922 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
47198877 ATTTATTTAT
*
47198887 ATAAAT-AAATGA
1 ATAAATAAAATAA
47198899 ATAAATAAAATAA
1 ATAAATAAAATAA
47198912 ATAAATAAAAT
1 ATAAATAAAAT
47198923 TCAAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 6 0.27
13 16 0.73
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (13 bp):
ATAAATAAAATAA
Found at i:47208764 original size:64 final size:64
Alignment explanation
Indices: 47208660--47208788 Score: 215
Period size: 64 Copynumber: 2.0 Consensus size: 64
47208650 GCAAGAAGCG
47208660 TAAGACTATTGCAGGGGTTGTGCACGTCAGTTCTGTGAGTGAGAAAGAAGGAATAATGAACAAT
1 TAAGACTATTGCAGGGGTTGTGCACGTCAGTTCTGTGAGTGAGAAAGAAGGAATAATGAACAAT
* * *
47208724 TAAGACTATTGCAGGGGTTGTGCGCGTCAGTTCT-TCGAGTGAGAAGGAAGGAATAATTAACAAT
1 TAAGACTATTGCAGGGGTTGTGCACGTCAGTTCTGT-GAGTGAGAAAGAAGGAATAATGAACAAT
47208788 T
1 T
47208789 GTAGCTATAT
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
63 1 0.02
64 60 0.98
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (64 bp):
TAAGACTATTGCAGGGGTTGTGCACGTCAGTTCTGTGAGTGAGAAAGAAGGAATAATGAACAAT
Found at i:47209837 original size:140 final size:140
Alignment explanation
Indices: 47209585--47209849 Score: 521
Period size: 140 Copynumber: 1.9 Consensus size: 140
47209575 GGGTAGATAT
47209585 GGACAAGCTGGGTTTTGAAGTGATTTTTCCTTCTAGCAATGCGTGTGACTCATTTATGTCCACTT
1 GGACAAGCTGGGTTTTGAAGTGATTTTTCCTTCTAGCAATGCGTGTGACTCATTTATGTCCACTT
*
47209650 GGAAGAACTCTTCAGATTTTTACTTAGAAGAGGACCTAGTTGGGAATGAGGATGTGGCCCTTTTG
66 GGAAGAACTCTTCAAATTTTTACTTAGAAGAGGACCTAGTTGGGAATGAGGATGTGGCCCTTTTG
47209715 CTGCGAATGA
131 CTGCGAATGA
47209725 GGACAAGCTGGGTTTTGAAGTGATTTTTCCTTCTAGCAATGCGTGTGACTCATTTATGTCCACTT
1 GGACAAGCTGGGTTTTGAAGTGATTTTTCCTTCTAGCAATGCGTGTGACTCATTTATGTCCACTT
47209790 GGAAGAACTCTTCAAATTTTTACTTAGAAGAGGACCTAGTTGGGAATGAGGATGTGGCCC
66 GGAAGAACTCTTCAAATTTTTACTTAGAAGAGGACCTAGTTGGGAATGAGGATGTGGCCC
47209850 CTTCTAATAA
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 124 1.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (140 bp):
GGACAAGCTGGGTTTTGAAGTGATTTTTCCTTCTAGCAATGCGTGTGACTCATTTATGTCCACTT
GGAAGAACTCTTCAAATTTTTACTTAGAAGAGGACCTAGTTGGGAATGAGGATGTGGCCCTTTTG
CTGCGAATGA
Found at i:47210211 original size:58 final size:58
Alignment explanation
Indices: 47210116--47210339 Score: 256
Period size: 58 Copynumber: 3.9 Consensus size: 58
47210106 TGTTAGCTGA
* *
47210116 GGATATGAATCTGTGAGCTATTTTATACTTGTAAAAATTTTGAAAGATAATCAACTGG
1 GGATGTGAATCTGTGAGCTATTTTATACTTGTGAAAATTTTGAAAGATAATCAACTGG
*
47210174 GGATGTGAATCTGTGAGCTATTTTATACTTGTGAAAATTTTGAAAGATAATCAATTGG
1 GGATGTGAATCTGTGAGCTATTTTATACTTGTGAAAATTTTGAAAGATAATCAACTGG
* * ** * * * *
47210232 GGATGTGAATTTGAGAAATGTTTTATACTTGTGAAAACTTTGAAACATAA-CATATCT-A
1 GGATGTGAATCTGTGAGCTATTTTATACTTGTGAAAATTTTGAAAGATAATCA-A-CTGG
* * * * *
47210290 AGAGTTTGAATCTGCGAGCTGTTTTATACTTGTGAAAATTTT-AAAAATAA
1 GGA-TGTGAATCTGTGAGCTATTTTATACTTGTGAAAATTTTGAAAGATAA
47210340 CATAGCTGAG
Statistics
Matches: 143, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
57 2 0.01
58 108 0.76
59 33 0.23
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.37
Consensus pattern (58 bp):
GGATGTGAATCTGTGAGCTATTTTATACTTGTGAAAATTTTGAAAGATAATCAACTGG
Found at i:47210678 original size:69 final size:69
Alignment explanation
Indices: 47210402--47210687 Score: 245
Period size: 69 Copynumber: 4.1 Consensus size: 69
47210392 ATCCTGCCAA
* ** * * *
47210402 CCTTAGTATGACAGTTGGGAGTTTTACTCTCTTTAATTGTGTTAGAGGTTGCGACTCTTTGCCTA
1 CCTTAGTATGACAGTTGGGAGCTTTACTCTCACTAACTGTGTTAGAGGCTGCGACTCTTCGCCTA
47210467 CGAG
66 CGAG
* * * * * * * *
47210471 CCTAAATATGATAGTTGGGAGTTTTACTCTCATTAACTGTGTTAGAGTCTGCTG-CCCTTCGCAT
1 CCTTAGTATGACAGTTGGGAGCTTTACTCTCACTAACTGTGTTAGAGGCTGC-GACTCTTCGCCT
*
47210535 GCGAG
65 ACGAG
* * * * * ** * * * * *
47210540 CCTCAATATTACAGCTGGGAGCTCTGTTCTCGCTAACTGTGTTGGAGGTTGCGACTTTTCACCTA
1 CCTTAGTATGACAGTTGGGAGCTTTACTCTCACTAACTGTGTTAGAGGCTGCGACTCTTCGCCTA
47210605 CGAG
66 CGAG
* * *
47210609 CCTTAGTATGACAGTTGGGAGCTTTGCTCTCACTAACTGT-TTTGAAGGCTGCGGCTCTTCG-CT
1 CCTTAGTATGACAGTTGGGAGCTTTACTCTCACTAACTGTGTTAG-AGGCTGCGACTCTTCGCCT
*
47210672 CGCGAG
65 -ACGAG
47210678 CCTTAGTATG
1 CCTTAGTATG
47210688 GCATAAATGT
Statistics
Matches: 171, Mismatches: 42, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
68 6 0.04
69 164 0.96
70 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.35
Consensus pattern (69 bp):
CCTTAGTATGACAGTTGGGAGCTTTACTCTCACTAACTGTGTTAGAGGCTGCGACTCTTCGCCTA
CGAG
Found at i:47222482 original size:2 final size:2
Alignment explanation
Indices: 47222475--47222512 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
47222465 GAGTTTCTAT
47222475 CA CA CA CA CA CA CA CA 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
47222513 AAAAAAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:47223578 original size:2 final size:2
Alignment explanation
Indices: 47223571--47223608 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
47223561 AAGCTACCCC
* *
47223571 AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47223609 GAAATAAGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:47226394 original size:17 final size:17
Alignment explanation
Indices: 47226358--47226399 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
47226348 GTAAAGTATG
*
47226358 ATAAAAGAAAAGGGAAA
1 ATAAAAGAAAAGAGAAA
47226375 ATAAAAGAAAA-AGAATA
1 ATAAAAGAAAAGAGAA-A
47226392 ATATAAAG
1 ATA-AAAG
47226400 GGAAGAGAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 3 0.14
17 15 0.68
18 4 0.18
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (17 bp):
ATAAAAGAAAAGAGAAA
Found at i:47228635 original size:19 final size:22
Alignment explanation
Indices: 47228589--47228637 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
47228579 AAAAAGAACT
47228589 TATTTTCTGTTGACTTGTAAGTC
1 TATTTTCTGTTGAC-TGTAAGTC
47228612 T-TTTTCTGTTGA-T-TAAG-C
1 TATTTTCTGTTGACTGTAAGTC
47228630 TATTTTCT
1 TATTTTCT
47228638 ATGAAGCTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 2 0.08
19 10 0.40
20 1 0.04
22 11 0.44
23 1 0.04
ACGTcount: A:0.16, C:0.12, G:0.14, T:0.57
Consensus pattern (22 bp):
TATTTTCTGTTGACTGTAAGTC
Found at i:47229212 original size:23 final size:23
Alignment explanation
Indices: 47229186--47229233 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
47229176 GCCAATATAT
*
47229186 AAATCAAATC-TCTTAAGATTACA
1 AAATCAAATCTTC-TAAAATTACA
47229209 AAATCAAATCTTCTAAAATTACA
1 AAATCAAATCTTCTAAAATTACA
47229232 AA
1 AA
47229234 TCTTCCAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.29
Consensus pattern (23 bp):
AAATCAAATCTTCTAAAATTACA
Found at i:47231694 original size:24 final size:24
Alignment explanation
Indices: 47231662--47231722 Score: 108
Period size: 24 Copynumber: 2.6 Consensus size: 24
47231652 CACATTGTAG
47231662 AATTGAGAAATTAAGTATAAATGA
1 AATTGAGAAATTAAGTATAAATGA
47231686 AATTGAGAAATTAAGTATAAATGA
1 AATTGAGAAATTAAGTATAAATGA
47231710 AATT--GAAATTAAG
1 AATTGAGAAATTAAG
47231723 GTGGATAGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
22 9 0.24
24 28 0.76
ACGTcount: A:0.54, C:0.00, G:0.16, T:0.30
Consensus pattern (24 bp):
AATTGAGAAATTAAGTATAAATGA
Found at i:47234022 original size:68 final size:68
Alignment explanation
Indices: 47233908--47234049 Score: 203
Period size: 68 Copynumber: 2.1 Consensus size: 68
47233898 CTTAGAATTG
* * * *
47233908 GAAGTCCGTCAAGACAGTAAACATGAGATCATATTGTGTGAGACCATAGTTAGGCTATGACAGCA
1 GAAGTCCGCCAAGACAGTAAACATGAGATCATATTGTATAAGACCATAGATAGGCTATGACAGCA
47233973 TAT
66 TAT
* * * * *
47233976 GAAGTCCGCCAGGACAGTAAACATGGGATCATATTGTATAATACCATAGATGGGCTATGGCAGCA
1 GAAGTCCGCCAAGACAGTAAACATGAGATCATATTGTATAAGACCATAGATAGGCTATGACAGCA
47234041 TAT
66 TAT
47234044 GAAGTC
1 GAAGTC
47234050 TGCTAAGATA
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.24
Consensus pattern (68 bp):
GAAGTCCGCCAAGACAGTAAACATGAGATCATATTGTATAAGACCATAGATAGGCTATGACAGCA
TAT
Found at i:47240293 original size:25 final size:24
Alignment explanation
Indices: 47240243--47240295 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
47240233 AAGTTTAAGC
* *
47240243 GAGCCATATCAGGAAGCTTATTAA
1 GAGCCATATCAGGAAGCTCATAAA
* *
47240267 GAGCCTATATCGGGACGCTCATAAA
1 GAGCC-ATATCAGGAAGCTCATAAA
47240292 GAGC
1 GAGC
47240296 TATGGTATGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.21
Consensus pattern (24 bp):
GAGCCATATCAGGAAGCTCATAAA
Found at i:47240381 original size:64 final size:64
Alignment explanation
Indices: 47240280--47240432 Score: 243
Period size: 64 Copynumber: 2.4 Consensus size: 64
47240270 CCTATATCGG
* * *
47240280 GACGCTCATAAAGAGCTATGGTATGTCCACATTATATGCAAGATCCATACCAATCATATAACAA
1 GACGCTCACAAAGAGCTGTAGTATGTCCACATTATATGCAAGATCCATACCAATCATATAACAA
* * *
47240344 GACGCTCACAAAGAGCTGCAGTATGTCCACATTATATGCAAGATTCATACCAATCATATAACAG
1 GACGCTCACAAAGAGCTGTAGTATGTCCACATTATATGCAAGATCCATACCAATCATATAACAA
*
47240408 GATGCTCACAAAGAGCTGTAGTATG
1 GACGCTCACAAAGAGCTGTAGTATG
47240433 ATCGCAACAC
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 81 1.00
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (64 bp):
GACGCTCACAAAGAGCTGTAGTATGTCCACATTATATGCAAGATCCATACCAATCATATAACAA
Found at i:47244879 original size:13 final size:13
Alignment explanation
Indices: 47244855--47244889 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
47244845 AAATAAATAA
*
47244855 AAATAAACAAAAC
1 AAATAAAAAAAAC
*
47244868 AATTAAAAAAAAC
1 AAATAAAAAAAAC
47244881 AAATAAAAA
1 AAATAAAAA
47244890 GGGGTAAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (13 bp):
AAATAAAAAAAAC
Found at i:47250062 original size:19 final size:19
Alignment explanation
Indices: 47250038--47250077 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
47250028 CCGTTAGTTA
47250038 ATGTTAGTTAAGTCTGTTG
1 ATGTTAGTTAAGTCTGTTG
47250057 ATGTTAGTTAAGTCTGTTG
1 ATGTTAGTTAAGTCTGTTG
47250076 AT
1 AT
47250078 TTGGATTCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.23, C:0.05, G:0.25, T:0.47
Consensus pattern (19 bp):
ATGTTAGTTAAGTCTGTTG
Found at i:47254518 original size:10 final size:10
Alignment explanation
Indices: 47254490--47254547 Score: 57
Period size: 10 Copynumber: 5.8 Consensus size: 10
47254480 TAGTTAGCTA
*
47254490 TTAGTTAGTCG
1 TTAGTTAAT-G
47254501 TTAGTTAATG
1 TTAGTTAATG
*
47254511 TTAATTAATG
1 TTAGTTAATG
47254521 TTAGTTAA-G
1 TTAGTTAATG
*
47254530 TCT-GTTGATG
1 T-TAGTTAATG
47254540 TTAGTTAA
1 TTAGTTAA
47254548 GTCTGTTGAC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
9 7 0.18
10 24 0.62
11 8 0.21
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.48
Consensus pattern (10 bp):
TTAGTTAATG
Found at i:47254542 original size:19 final size:19
Alignment explanation
Indices: 47254518--47254556 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
47254508 ATGTTAATTA
47254518 ATGTTAGTTAAGTCTGTTG
1 ATGTTAGTTAAGTCTGTTG
47254537 ATGTTAGTTAAGTCTGTTG
1 ATGTTAGTTAAGTCTGTTG
47254556 A
1 A
47254557 CTTGGATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.05, G:0.26, T:0.46
Consensus pattern (19 bp):
ATGTTAGTTAAGTCTGTTG
Found at i:47256215 original size:24 final size:24
Alignment explanation
Indices: 47256179--47256241 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
47256169 TGGTATAGGA
* * *
47256179 GTCAAAAATTGTATTTGCAGAAAT
1 GTCACAAACTGTATTTACAGAAAT
47256203 GT-AGCAAACTGTATTTACAGAAAT
1 GTCA-CAAACTGTATTTACAGAAAT
*
47256227 GTCACAAATTGTATT
1 GTCACAAACTGTATT
47256242 CTAGAATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 1 0.03
24 31 0.94
25 1 0.03
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (24 bp):
GTCACAAACTGTATTTACAGAAAT
Found at i:47256428 original size:54 final size:54
Alignment explanation
Indices: 47256362--47256731 Score: 390
Period size: 54 Copynumber: 6.9 Consensus size: 54
47256352 GTAGTCCTTA
* * ** *
47256362 AGATTC-TAAAAATCTTGTATGTAGAAGGTCGTGATCGTAAATCAGTGGACCATG
1 AGATTCGT-AAAATCTTGAAAGTAGAAGGTCGTGATCGTAAATCAGCAGACCGTG
* * *
47256416 AGATTCGTAAAATCTTGAAAGTAGAAGGTCGTGATCGTAACTTAACAGACCGTG
1 AGATTCGTAAAATCTTGAAAGTAGAAGGTCGTGATCGTAAATCAGCAGACCGTG
** ** * * * *
47256470 AGATTCACAAAATCTCAAAAATAAAAGGTCGTGATTGTAAATCAGTAGACCGTG
1 AGATTCGTAAAATCTTGAAAGTAGAAGGTCGTGATCGTAAATCAGCAGACCGTG
* * * *
47256524 AGATTTGTAAAATCTCGAAAGTAAAAGGTCGTGATCATAAATC-G-ACGAACCGTG
1 AGATTCGTAAAATCTTGAAAGTAGAAGGTCGTGATCGTAAATCAGCA-G-ACCGTG
* * * * *
47256578 AGATTTGTAAAATCTCGAAAATAGAAGGTC-TGATCATAAATCAGCAGACTGTG
1 AGATTCGTAAAATCTTGAAAGTAGAAGGTCGTGATCGTAAATCAGCAGACCGTG
* * * **
47256631 AGATTCGTAAAATCTTAAAAATAGAAGGTCGTGATTGTAAATCAGCAGACCAAG
1 AGATTCGTAAAATCTTGAAAGTAGAAGGTCGTGATCGTAAATCAGCAGACCGTG
*
47256685 AAATTCGTAAAAT-TTCGAAAGTAGAAGGTCGTGATCGTAAATCAGCA
1 AGATTCGTAAAATCTT-GAAAGTAGAAGGTCGTGATCGTAAATCAGCA
47256732 TAACAACCCA
Statistics
Matches: 268, Mismatches: 41, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
52 1 0.00
53 48 0.18
54 217 0.81
55 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.26
Consensus pattern (54 bp):
AGATTCGTAAAATCTTGAAAGTAGAAGGTCGTGATCGTAAATCAGCAGACCGTG
Found at i:47256675 original size:161 final size:162
Alignment explanation
Indices: 47256386--47256730 Score: 460
Period size: 161 Copynumber: 2.1 Consensus size: 162
47256376 TTGTATGTAG
* * * *
47256386 AAGGTCGTGATCGTAAATCAGTGGACCATGAGATTCGTAAAATCTTGAAAGTAGAAGGTCGTGAT
1 AAGGTCGTGATCGTAAATCAGCGAACCATGAGATTCGTAAAATCTCGAAAATAGAAGGTCGTGAT
* * * *
47256451 CGTAACTTAACAGACCGTGAGATTCACAAAATCTCAAAAATAAAAGGTCGTGATTGTAAATCAGT
66 CATAAATCAACAGACCGTGAGATTCACAAAATCTCAAAAATAAAAGGTCGTGATTGTAAATCAGC
** * *
47256516 AGACCGTGAGATTTGTAAAATCTCGAAAGTAA
131 AGACCAAGAAATTCGTAAAATCTCGAAAGTAA
* * *
47256548 AAGGTCGTGATCATAAATC-GACGAACCGTGAGATTTGTAAAATCTCGAAAATAGAAGGTC-TGA
1 AAGGTCGTGATCGTAAATCAG-CGAACCATGAGATTCGTAAAATCTCGAAAATAGAAGGTCGTGA
* * ** * *
47256611 TCATAAATCAGCAGACTGTGAGATTCGTAAAATCTTAAAAATAGAAGGTCGTGATTGTAAATCAG
65 TCATAAATCAACAGACCGTGAGATTCACAAAATCTCAAAAATAAAAGGTCGTGATTGTAAATCAG
* *
47256676 CAGACCAAGAAATTCGTAAAATTTCGAAAGTAG
130 CAGACCAAGAAATTCGTAAAATCTCGAAAGTAA
47256709 AAGGTCGTGATCGTAAATCAGC
1 AAGGTCGTGATCGTAAATCAGC
47256731 ATAACAACCC
Statistics
Matches: 157, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
161 105 0.67
162 52 0.33
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (162 bp):
AAGGTCGTGATCGTAAATCAGCGAACCATGAGATTCGTAAAATCTCGAAAATAGAAGGTCGTGAT
CATAAATCAACAGACCGTGAGATTCACAAAATCTCAAAAATAAAAGGTCGTGATTGTAAATCAGC
AGACCAAGAAATTCGTAAAATCTCGAAAGTAA
Found at i:47263087 original size:37 final size:37
Alignment explanation
Indices: 47263046--47263221 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
47263036 TTTGAGTACT
47263046 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
47263083 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
47263120 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
47263157 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
47263194 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
47263222 TAGCTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:47263293 original size:45 final size:46
Alignment explanation
Indices: 47263184--47263307 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
47263174 GTGATAAGTG
* *
47263184 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
47263230 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
47263275 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
47263308 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:47270786 original size:37 final size:37
Alignment explanation
Indices: 47270745--47270920 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
47270735 TTTGAGTACT
47270745 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
47270782 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
47270819 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
47270856 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
47270893 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
47270921 TAGCTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:47270992 original size:45 final size:46
Alignment explanation
Indices: 47270883--47271006 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
47270873 GTGATAAGTG
* *
47270883 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
47270929 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
47270974 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
47271007 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:47284809 original size:87 final size:87
Alignment explanation
Indices: 47284663--47284841 Score: 322
Period size: 87 Copynumber: 2.1 Consensus size: 87
47284653 GGTGTGAACG
*
47284663 GTGTGTTTCCGAGGGGTGATCCAAGCAAGTCTTTTATGTTAATTCGTAGGTGTTTATTACGCAAT
1 GTGTGTTTCCGAGGGGTGATCCAAGCAAGTCTTTTATGTTAATTCGTAGGTGTTTATTACCCAAT
47284728 TATGATTTGGGAAATAAAGGCA
66 TATGATTTGGGAAATAAAGGCA
* *
47284750 GTGTGTTTCCGAGGGGTGATCCAAGCAAGTCTTTTATGTTAATTTGTAGGTGTTTATTACCCATT
1 GTGTGTTTCCGAGGGGTGATCCAAGCAAGTCTTTTATGTTAATTCGTAGGTGTTTATTACCCAAT
47284815 TATGATTTGGGAAATAAAGGCA
66 TATGATTTGGGAAATAAAGGCA
*
47284837 ATGTG
1 GTGTG
47284842 GTAGAACTAT
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 88 1.00
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.37
Consensus pattern (87 bp):
GTGTGTTTCCGAGGGGTGATCCAAGCAAGTCTTTTATGTTAATTCGTAGGTGTTTATTACCCAAT
TATGATTTGGGAAATAAAGGCA
Found at i:47286578 original size:114 final size:113
Alignment explanation
Indices: 47286399--47286630 Score: 419
Period size: 114 Copynumber: 2.0 Consensus size: 113
47286389 TTTCTCTCTT
*
47286399 TTTCCTTTCTTCTACACGTTGGAAGCATGGGACATATGAAGACATATCTTCATATTTCCTTAATA
1 TTTCATTTCTTCTACACGTTGGAAGCATGGGACATATGAAGACATATCTTCATATTTCCTTAATA
* *
47286464 ATTATCTTAATAATAAATAATTTAGATAAAAAAATATTCAACATCATAA
66 ATTATCTTAATAATAAATAATTTAAAT-AAAAAACATTCAACATCATAA
*
47286513 TTTCATTTCTTCTACACGTTGGAAGCATGGGACATATGAAGACATTTCTTCATATTTCCTTAATA
1 TTTCATTTCTTCTACACGTTGGAAGCATGGGACATATGAAGACATATCTTCATATTTCCTTAATA
47286578 ATTATCTTAATAATAAATAATTTAAATAAAAAACATTCAACATCATAA
66 ATTATCTTAATAATAAATAATTTAAATAAAAAACATTCAACATCATAA
47286626 TTTCA
1 TTTCA
47286631 ATGTAAGGGC
Statistics
Matches: 114, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
113 25 0.22
114 89 0.78
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.38
Consensus pattern (113 bp):
TTTCATTTCTTCTACACGTTGGAAGCATGGGACATATGAAGACATATCTTCATATTTCCTTAATA
ATTATCTTAATAATAAATAATTTAAATAAAAAACATTCAACATCATAA
Found at i:47287749 original size:30 final size:31
Alignment explanation
Indices: 47287710--47287769 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
47287700 GGAGGTGAGA
*
47287710 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
47287741 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
47287770 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:47287945 original size:21 final size:21
Alignment explanation
Indices: 47287905--47287945 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
47287895 GGAGGTAAGT
*
47287905 GGGAATAAGTAAAAGTTTTGA
1 GGGAATAAGTAAAAATTTTGA
47287926 GGGAA-AAGTAAAAATGTTTG
1 GGGAATAAGTAAAAAT-TTTG
47287946 GGAGTTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.29, T:0.27
Consensus pattern (21 bp):
GGGAATAAGTAAAAATTTTGA
Found at i:47287997 original size:9 final size:9
Alignment explanation
Indices: 47287983--47288010 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
47287973 TATAGTTTGA
47287983 TATTCGAAT
1 TATTCGAAT
47287992 TATTCGAAT
1 TATTCGAAT
47288001 TATTCGAAT
1 TATTCGAAT
47288010 T
1 T
47288011 CGAAAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:47288266 original size:29 final size:30
Alignment explanation
Indices: 47288202--47288312 Score: 100
Period size: 31 Copynumber: 3.7 Consensus size: 30
47288192 ATATCAAAAT
* * *
47288202 TATACAT-AAACTTTGATTTAATGTGCAGTTG
1 TATACATGAAACTTTAATTT--GGTGCAATTG
*
47288233 TATACATG-AACTTTAATTTGGTGCAATTA
1 TATACATGAAACTTTAATTTGGTGCAATTG
* * * *
47288262 TATACGTGAAACTCTAATTGTGGTTCAAATG
1 TATACATGAAACTTTAATT-TGGTGCAATTG
*
47288293 TATACTTGAAACTTTAATTT
1 TATACATGAAACTTTAATTT
47288313 TGATTTAATC
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
29 14 0.21
30 10 0.15
31 42 0.64
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.41
Consensus pattern (30 bp):
TATACATGAAACTTTAATTTGGTGCAATTG
Found at i:47292780 original size:30 final size:29
Alignment explanation
Indices: 47292746--47292805 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 29
47292736 AATTTTAAAA
*
47292746 TTTTAAAAATTCAGAAA-CATATAAAATTAT
1 TTTTAAAAATT-AAAAATCAT-TAAAATTAT
47292776 TTTTAAAAATTAAAAATCATTAAAATTAT
1 TTTTAAAAATTAAAAATCATTAAAATTAT
47292805 T
1 T
47292806 AAAAAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (29 bp):
TTTTAAAAATTAAAAATCATTAAAATTAT
Found at i:47292783 original size:29 final size:29
Alignment explanation
Indices: 47292745--47292813 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
47292735 TAATTTTAAA
*
47292745 ATTTT-AAAAATTCAGAAA-CATATAAAATT
1 ATTTTAAAAAATT-AAAAATCAT-TAAAATT
*
47292774 ATTTTTAAAAATTAAAAATCATTAAAATT
1 ATTTTAAAAAATTAAAAATCATTAAAATT
*
47292803 A-TTAAAAAAAT
1 ATTTTAAAAAAT
47292814 AAACATTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 8 0.23
29 17 0.49
30 10 0.29
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.36
Consensus pattern (29 bp):
ATTTTAAAAAATTAAAAATCATTAAAATT
Found at i:47316806 original size:36 final size:36
Alignment explanation
Indices: 47316759--47316949 Score: 211
Period size: 36 Copynumber: 5.0 Consensus size: 36
47316749 GCTAAGCTAC
*
47316759 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
* *
47316795 CACTTATCACTTTTTCACTTGATCTGATAAGTATAA
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
* *
47316831 CACTTATCGCTTTTTCACTTGATCAAATAAGTGTAGCTAAAG
1 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--T--AG
* * *
47316873 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
*
47316913 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
47316949 C
1 C
47316950 TAAAGCTACC
Statistics
Matches: 131, Mismatches: 14, Indels: 20
0.79 0.08 0.12
Matches are distributed among these distances:
36 95 0.73
38 3 0.02
40 3 0.02
42 2 0.02
44 2 0.02
46 26 0.20
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:47316883 original size:46 final size:46
Alignment explanation
Indices: 47316831--47316985 Score: 186
Period size: 46 Copynumber: 3.6 Consensus size: 46
47316821 ATAAGTATAA
* *
47316831 CACTTATCGCTTTTTCACTTGATCAAATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
47316877 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AG----
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
47316913 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
47316959 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTTTCACTTGATCAGA
47316986 AGTACTCAAA
Statistics
Matches: 91, Mismatches: 8, Indels: 20
0.76 0.07 0.17
Matches are distributed among these distances:
36 28 0.31
38 2 0.02
39 1 0.01
40 3 0.03
42 3 0.03
43 1 0.01
44 2 0.02
46 51 0.56
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (46 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:47316888 original size:82 final size:82
Alignment explanation
Indices: 47316795--47316985 Score: 310
Period size: 82 Copynumber: 2.3 Consensus size: 82
47316785 ATAAGTATAG
* * * *
47316795 CACTTATCACTTTTTCACTTGATCTGATAAGTATAACACTTATCGCTTTTTCACTTGATCAAATA
1 CACTTATCACTTTATCTCTTGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAAATA
47316860 AGTGTAGCTAAAGCTAC
66 AGTGTAGCTAAAGCTAC
* * * *
47316877 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCACTTATCACTTTTTCACTTGATCAGATA
1 CACTTATCACTTTATCTCTTGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAAATA
47316942 AGTGTAGCTAAAGCTAC
66 AGTGTAGCTAAAGCTAC
47316959 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTATCTCTTGATCAGA
47316986 AGTACTCAAA
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
82 101 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (82 bp):
CACTTATCACTTTATCTCTTGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAAATA
AGTGTAGCTAAAGCTAC
Found at i:47316891 original size:118 final size:117
Alignment explanation
Indices: 47316733--47316944 Score: 379
Period size: 118 Copynumber: 1.8 Consensus size: 117
47316723 CATTTGTCCC
*
47316733 TGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCAC
1 TGATCAAATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCAC
*
47316798 TTATCACTTTTTCACTTGATCTGATAAGTATAACACTTATCGCTTTTTCACT
66 TTATCACTTTTTCACTTGATCAGATAAGTATAACACTTATCGCTTTTTCACT
* *
47316850 TGATCAAATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCA
1 TGATCAAATAAGTGTAGCT-AAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCA
47316915 CTTATCACTTTTTCACTTGATCAGATAAGT
65 CTTATCACTTTTTCACTTGATCAGATAAGT
47316945 GTAGCTAAAG
Statistics
Matches: 90, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
117 18 0.20
118 72 0.80
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.37
Consensus pattern (117 bp):
TGATCAAATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCAC
TTATCACTTTTTCACTTGATCAGATAAGTATAACACTTATCGCTTTTTCACT
Found at i:47319395 original size:73 final size:73
Alignment explanation
Indices: 47319268--47319415 Score: 233
Period size: 73 Copynumber: 2.0 Consensus size: 73
47319258 CAGAGAATAT
* * *
47319268 TTACTATTCATGCATCTTTTCTTGAAGGGACTATTTACTGTTTACGCCATAGAATATTTCCTGTT
1 TTACTATTCATGCATCTTTTCTTGAAGGGAATATTTACTGCTTACGCCAGAGAATATTTCCTGTT
47319333 CACTTGTC
66 CACTTGTC
* * **
47319341 TTACTATTCATGCGTCTTTTCTTGCAGGGAATATTTACTGCTTACGTTAGAGAATATTTCCTGTT
1 TTACTATTCATGCATCTTTTCTTGAAGGGAATATTTACTGCTTACGCCAGAGAATATTTCCTGTT
47319406 CACTTGTC
66 CACTTGTC
47319414 TT
1 TT
47319416 TTCTTGCATC
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.21, C:0.20, G:0.15, T:0.45
Consensus pattern (73 bp):
TTACTATTCATGCATCTTTTCTTGAAGGGAATATTTACTGCTTACGCCAGAGAATATTTCCTGTT
CACTTGTC
Found at i:47322215 original size:8 final size:8
Alignment explanation
Indices: 47322181--47322240 Score: 68
Period size: 8 Copynumber: 7.5 Consensus size: 8
47322171 TAATGATGTG
*
47322181 AATAATAA
1 AATATTAA
47322189 AATATATAA
1 AATAT-TAA
47322198 AATA-TAA
1 AATATTAA
47322205 AATATTAA
1 AATATTAA
*
47322213 AATATCAA
1 AATATTAA
*
47322221 AATATCAA
1 AATATTAA
*
47322229 AATATTAG
1 AATATTAA
47322237 AATA
1 AATA
47322241 ATAATAATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
7 7 0.15
8 32 0.70
9 7 0.15
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (8 bp):
AATATTAA
Found at i:47322418 original size:23 final size:24
Alignment explanation
Indices: 47322392--47322438 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
47322382 CGTGATAATA
*
47322392 TTAAAAAT-GTACATAATATAGTG
1 TTAAAAATAATACATAATATAGTG
47322415 TTAAAAATACATACATAATATAGT
1 TTAAAAATA-ATACATAATATAGT
47322439 TAAGATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.38
25 13 0.62
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (24 bp):
TTAAAAATAATACATAATATAGTG
Found at i:47322453 original size:22 final size:24
Alignment explanation
Indices: 47322401--47322454 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
47322391 ATTAAAAATG
47322401 TACATAATATAGTGTTAAAAATACA
1 TACATAATATAG-GTTAAAAATACA
* *
47322426 TACATAATATA-GTT-AAGATATA
1 TACATAATATAGGTTAAAAATACA
47322448 TACATAA
1 TACATAA
47322455 GATAACATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 13 0.48
23 3 0.11
25 11 0.41
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (24 bp):
TACATAATATAGGTTAAAAATACA
Found at i:47322501 original size:25 final size:25
Alignment explanation
Indices: 47322473--47322602 Score: 84
Period size: 23 Copynumber: 5.6 Consensus size: 25
47322463 GTAGAAAAAT
47322473 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* *
47322498 ATATATAAATAAAATAGTA-TAAA-
1 ATATATAAATAATATAATATTAAAG
**
47322521 ATATATACGTAATATAGA-ATCT-AA-
1 ATATATAAATAATATA-ATAT-TAAAG
** *
47322545 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
47322567 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
47322590 AAATAT-AATAATA
1 ATATATAAATAATA
47322603 ACAAAAAAGG
Statistics
Matches: 84, Mismatches: 12, Indels: 20
0.72 0.10 0.17
Matches are distributed among these distances:
21 4 0.05
22 12 0.14
23 38 0.45
24 12 0.14
25 18 0.21
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:47332831 original size:30 final size:29
Alignment explanation
Indices: 47332736--47332881 Score: 170
Period size: 30 Copynumber: 4.9 Consensus size: 29
47332726 TGTAGGTACA
*
47332736 AGTT-GTGGTGGAGCAAGTGTGGTTAGTGG
1 AGTTGGTGGTGGAG-AAGTGTGGCTAGTGG
* **
47332765 AGTAGGTAATGGAGCAAGTGTGGCTAGTGG
1 AGTTGGTGGTGGAG-AAGTGTGGCTAGTGG
*
47332795 ATTTGGTGGTGGAGAAGGTGTGGCTAGTGG
1 AGTTGGTGGTGGAGAA-GTGTGGCTAGTGG
* *
47332825 AGTTGGTGGTGGAAAATGAGTGGCTAGTGG
1 AGTTGGTGGTGGAGAA-GTGTGGCTAGTGG
47332855 AGTTGGTGGTGGA-AAGGTGTGGCTAGT
1 AGTTGGTGGTGGAGAA-GTGTGGCTAGT
47332882 TGAGAAAAGT
Statistics
Matches: 101, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
29 17 0.17
30 84 0.83
ACGTcount: A:0.21, C:0.04, G:0.47, T:0.28
Consensus pattern (29 bp):
AGTTGGTGGTGGAGAAGTGTGGCTAGTGG
Found at i:47340985 original size:13 final size:13
Alignment explanation
Indices: 47340967--47340992 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47340957 GTAAGCATGT
47340967 GATTTCATAAAAA
1 GATTTCATAAAAA
47340980 GATTTCATAAAAA
1 GATTTCATAAAAA
47340993 AATTCAAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (13 bp):
GATTTCATAAAAA
Found at i:47341547 original size:29 final size:28
Alignment explanation
Indices: 47341505--47341566 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 28
47341495 ATTGGATAGC
*
47341505 CCACTAAGGAAGGAA-GAAGCCCAAACTGT
1 CCACTAAGGAAGGAATG-AGCCC-AACCGT
47341534 CCACTAAGGAAGGAATGAGCCCAACCGT
1 CCACTAAGGAAGGAATGAGCCCAACCGT
47341562 CCACT
1 CCACT
47341567 TGAGGTGCCC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
28 10 0.32
29 20 0.65
30 1 0.03
ACGTcount: A:0.37, C:0.29, G:0.23, T:0.11
Consensus pattern (28 bp):
CCACTAAGGAAGGAATGAGCCCAACCGT
Found at i:47346096 original size:16 final size:16
Alignment explanation
Indices: 47346058--47346096 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
47346048 TGTATGCGGT
47346058 AATA-AGAAGAGAAAA
1 AATAGAGAAGAGAAAA
47346073 AA-AGGAGAAGAGAAAA
1 AATA-GAGAAGAGAAAA
47346089 AATAGAGA
1 AATAGAGA
47346097 TGCATGGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 1 0.05
15 2 0.10
16 17 0.81
17 1 0.05
ACGTcount: A:0.69, C:0.00, G:0.26, T:0.05
Consensus pattern (16 bp):
AATAGAGAAGAGAAAA
Found at i:47350288 original size:18 final size:18
Alignment explanation
Indices: 47350265--47350327 Score: 76
Period size: 18 Copynumber: 3.5 Consensus size: 18
47350255 AAAACTAAAG
47350265 AAAAATCATTAAAA-TTCA
1 AAAAATCATTAAAACTT-A
47350283 AAAAATCATTAAAACTTA
1 AAAAATCATTAAAACTTA
* *
47350301 AAAAATTATAAAAAC-TA
1 AAAAATCATTAAAACTTA
47350318 AAAGAATCAT
1 AAA-AATCAT
47350328 AATCTATATT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
17 5 0.12
18 33 0.82
19 2 0.05
ACGTcount: A:0.63, C:0.10, G:0.02, T:0.25
Consensus pattern (18 bp):
AAAAATCATTAAAACTTA
Found at i:47350403 original size:18 final size:18
Alignment explanation
Indices: 47350352--47350395 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
47350342 ATTTGTGTGC
* *
47350352 AAAATTTTTTAAAAATTT
1 AAAAATTTTCAAAAATTT
*
47350370 AAAAATTTTCATAAATTT
1 AAAAATTTTCAAAAATTT
*
47350388 TAAAATTT
1 AAAAATTT
47350396 CGAAAAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
AAAAATTTTCAAAAATTT
Found at i:47350588 original size:12 final size:11
Alignment explanation
Indices: 47350570--47350599 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
47350560 AAGTTTTAGT
47350570 ATTTTTTTGGG
1 ATTTTTTTGGG
47350581 ATTTTTTTGGG
1 ATTTTTTTGGG
47350592 ATTTTTTT
1 ATTTTTTT
47350600 AATGTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.10, C:0.00, G:0.20, T:0.70
Consensus pattern (11 bp):
ATTTTTTTGGG
Found at i:47366258 original size:50 final size:52
Alignment explanation
Indices: 47366199--47366328 Score: 140
Period size: 50 Copynumber: 2.5 Consensus size: 52
47366189 GTGTGTTCTG
* * *
47366199 CATTTAATAAAGTTATGCATTATGTAACTTCTATGCTAG-TTAAGTGTGCAT
1 CATTAAATAAAGTTATGCATTATGTAACTCCCATGCTAGTTTAAGTGTGCAT
* ** * *
47366250 CA-TAAATAATGACATGCATTATGTAACTCCCATGTTAGTTTAAGTTTGCAT
1 CATTAAATAAAGTTATGCATTATGTAACTCCCATGCTAGTTTAAGTGTGCAT
* *
47366301 CATTAAATTAAGTCT-TGCATTAAGTAAC
1 CATTAAATAAAGT-TATGCATTATGTAAC
47366329 GCATTTAGTT
Statistics
Matches: 63, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
50 29 0.46
51 15 0.24
52 19 0.30
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (52 bp):
CATTAAATAAAGTTATGCATTATGTAACTCCCATGCTAGTTTAAGTGTGCAT
Found at i:47367540 original size:16 final size:17
Alignment explanation
Indices: 47367509--47367541 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
47367499 ACGAAATTAG
47367509 AATTAGATTAAAGAAAT
1 AATTAGATTAAAGAAAT
*
47367526 AATTTGATT-AAGAAAT
1 AATTAGATTAAAGAAAT
47367542 TAACTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (17 bp):
AATTAGATTAAAGAAAT
Found at i:47368800 original size:21 final size:21
Alignment explanation
Indices: 47368774--47368826 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
47368764 TATATGGCCA
47368774 GGCCATGTGGCTTAGGGACAT
1 GGCCATGTGGCTTAGGGACAT
47368795 GGCCATGTGGCTTAGGGACAT
1 GGCCATGTGGCTTAGGGACAT
* *
47368816 GGTCGTGTGGC
1 GGCCATGTGGC
47368827 CAAACTATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.15, C:0.19, G:0.42, T:0.25
Consensus pattern (21 bp):
GGCCATGTGGCTTAGGGACAT
Found at i:47370374 original size:70 final size:70
Alignment explanation
Indices: 47370277--47370508 Score: 322
Period size: 70 Copynumber: 3.3 Consensus size: 70
47370267 ATAAAAATGT
* * * *
47370277 ACAAGACTATGGTTAGACCATGACAATGTTTACATAAGACCATAGGCTAGGCTATGGCAGTTTTT
1 ACAAGACCATGGTTGGACCATGGCAATGTTTACATAAGACCATAGGCTGGGCTATGGCAGTTTTT
47370342 TAGAC
66 TAGAC
* *
47370347 ACAAGACCATGGTTGGACCATGGCAATGTTTACATAATACCATAGGCTGGGCTATGGCATTTTTT
1 ACAAGACCATGGTTGGACCATGGCAATGTTTACATAAGACCATAGGCTGGGCTATGGCA-GTTTT
47370412 TTAGAC
65 TTAGAC
* * * * *
47370418 GCAAGACCATGGTTGGACCATTGCAATGTTTACGTAAGACCATA-GTTGGGCTATGACAGTTTTT
1 ACAAGACCATGGTTGGACCATGGCAATGTTTACATAAGACCATAGGCTGGGCTATGGCAGTTTTT
*
47370482 CAGAC
66 TAGAC
**
47370487 GTAAGACCATGGTTGGACCATG
1 ACAAGACCATGGTTGGACCATG
47370509 ACAGTGTATA
Statistics
Matches: 145, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
69 29 0.20
70 66 0.46
71 50 0.34
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (70 bp):
ACAAGACCATGGTTGGACCATGGCAATGTTTACATAAGACCATAGGCTGGGCTATGGCAGTTTTT
TAGAC
Found at i:47370405 original size:34 final size:34
Alignment explanation
Indices: 47370300--47370405 Score: 106
Period size: 34 Copynumber: 3.1 Consensus size: 34
47370290 TAGACCATGA
*
47370300 CAATGTTTACATAAGACCATAGGCTAGGCTATGG
1 CAATGTTTACATAAGACCATAGGCTGGGCTATGG
* * * * * *
47370334 CAGTTTTTTAGACACAAGACCAT-GGTTGGACCATGG
1 CA-ATGTTT--ACATAAGACCATAGGCTGGGCTATGG
*
47370370 CAATGTTTACATAATACCATAGGCTGGGCTATGG
1 CAATGTTTACATAAGACCATAGGCTGGGCTATGG
47370404 CA
1 CA
47370406 TTTTTTTTAG
Statistics
Matches: 54, Mismatches: 14, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
33 10 0.19
34 14 0.26
35 8 0.15
36 11 0.20
37 11 0.20
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (34 bp):
CAATGTTTACATAAGACCATAGGCTGGGCTATGG
Found at i:47374738 original size:15 final size:16
Alignment explanation
Indices: 47374718--47374749 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
47374708 AATTGAATTG
47374718 GAATATATATAT-TAT
1 GAATATATATATATAT
47374733 GAATATATATATATAT
1 GAATATATATATATAT
47374749 G
1 G
47374750 TGTAAATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (16 bp):
GAATATATATATATAT
Found at i:47374914 original size:27 final size:25
Alignment explanation
Indices: 47374881--47375017 Score: 137
Period size: 25 Copynumber: 5.7 Consensus size: 25
47374871 GAACTTTAGT
*
47374881 GTGCTCTCTGATTTTTAGCACGTTA
1 GTGCTCTCTGATTATTAGCACGTTA
47374906 GTGCTCTCTGATTATTAGCACGTTA
1 GTGCTCTCTGATTATTAGCACGTTA
*
47374931 GTGCTCTCTGATTACTAGCACGTTA
1 GTGCTCTCTGATTATTAGCACGTTA
* * * *
47374956 ATACTCTCCG--T-TTAGCACATCT-
1 GTGCTCTCTGATTATTAGCACGT-TA
*
47374978 GTGCTCTCTG--TA-TAGCACTTTA
1 GTGCTCTCTGATTATTAGCACGTTA
47375000 GTGCTCTCTG-TTCATTAG
1 GTGCTCTCTGATT-ATTAG
47375018 TGCATAATAA
Statistics
Matches: 95, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
21 1 0.01
22 32 0.34
23 3 0.03
24 1 0.01
25 58 0.61
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.40
Consensus pattern (25 bp):
GTGCTCTCTGATTATTAGCACGTTA
Found at i:47381536 original size:16 final size:16
Alignment explanation
Indices: 47381515--47381545 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47381505 TTCACTATTA
*
47381515 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
47381531 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
47381546 ACATACATGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:47386567 original size:18 final size:18
Alignment explanation
Indices: 47386544--47386580 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
47386534 GGCGGCCCTA
*
47386544 GTGGATCACGCTTCTTTG
1 GTGGATCAAGCTTCTTTG
*
47386562 GTGGATCAAGTTTCTTTG
1 GTGGATCAAGCTTCTTTG
47386580 G
1 G
47386581 CTTTGATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.16, G:0.30, T:0.41
Consensus pattern (18 bp):
GTGGATCAAGCTTCTTTG
Found at i:47387471 original size:21 final size:22
Alignment explanation
Indices: 47387445--47387491 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
47387435 CTCTGCTCAA
*
47387445 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
47387466 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
47387488 ACTC
1 ACTC
47387492 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:47394195 original size:22 final size:22
Alignment explanation
Indices: 47394170--47394260 Score: 76
Period size: 22 Copynumber: 4.0 Consensus size: 22
47394160 GAGATTTCAA
47394170 TAAATTATATTTAAAATTATTT
1 TAAATTATATTTAAAATTATTT
* * *
47394192 TAAATGAAAATTTAATAATTTTTT
1 TAAAT-TATATTTAA-AATTATTT
* * *
47394216 TTAATT-TATCTAAAAATATTTT
1 TAAATTATATTTAAAATTA-TTT
* *
47394238 TAAATTATATTTAACATTTTTT
1 TAAATTATATTTAAAATTATTT
47394260 T
1 T
47394261 TAAGTTCCCT
Statistics
Matches: 51, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
21 3 0.06
22 22 0.43
23 15 0.29
24 11 0.22
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (22 bp):
TAAATTATATTTAAAATTATTT
Found at i:47394236 original size:45 final size:45
Alignment explanation
Indices: 47394172--47394263 Score: 107
Period size: 45 Copynumber: 2.0 Consensus size: 45
47394162 GATTTCAATA
* *
47394172 AATTATATTTAAAATTA-TTTTAAATGAAAATTTAATAATTTTTTTT
1 AATTATATCTAAAAATATTTTTAAAT-AAAATTTAA-AATTTTTTTT
* * *
47394218 AATT-TATCTAAAAATATTTTTAAATTATATTTAACATTTTTTTT
1 AATTATATCTAAAAATATTTTTAAATAAAATTTAAAATTTTTTTT
47394262 AA
1 AA
47394264 GTTCCCTATG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
44 11 0.28
45 17 0.43
46 12 0.30
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.54
Consensus pattern (45 bp):
AATTATATCTAAAAATATTTTTAAATAAAATTTAAAATTTTTTTT
Found at i:47418015 original size:20 final size:20
Alignment explanation
Indices: 47417990--47418029 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
47417980 TATTTTAAAA
47417990 TTTGAAAATTATTTTGAATT
1 TTTGAAAATTATTTTGAATT
47418010 TTTGAAAATTATTTTGAATT
1 TTTGAAAATTATTTTGAATT
47418030 ATTTTGTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (20 bp):
TTTGAAAATTATTTTGAATT
Found at i:47419353 original size:12 final size:12
Alignment explanation
Indices: 47419338--47419367 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
47419328 AATAATTAAA
47419338 TAAATTAGAAAT
1 TAAATTAGAAAT
*
47419350 TAAATTGGAAAT
1 TAAATTAGAAAT
47419362 TAAATT
1 TAAATT
47419368 CAGATTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (12 bp):
TAAATTAGAAAT
Found at i:47420632 original size:23 final size:23
Alignment explanation
Indices: 47420606--47420750 Score: 220
Period size: 23 Copynumber: 6.3 Consensus size: 23
47420596 ATAAGTGCCA
47420606 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
47420629 CACTGATATGTAGCTGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
47420652 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
47420675 CACTGAAATGTAGTCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
47420698 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
47420721 CACTGGA-ATGTAGCCGAAGCTAC
1 CACT-GATATGTAGCCGAAGCTAC
47420744 CACTGAT
1 CACTGAT
47420751 CAATAACACT
Statistics
Matches: 110, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
22 2 0.02
23 106 0.96
24 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:47420717 original size:69 final size:69
Alignment explanation
Indices: 47420606--47420749 Score: 252
Period size: 69 Copynumber: 2.1 Consensus size: 69
47420596 ATAAGTGCCA
* *
47420606 CACTGATATGTAGCCGAAGCTACCACTGATATGTAGCTGTAGCTACCACTGAAATGTAGCCGAAG
1 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTACCACTGAAATGTAGCCGAAG
47420671 CTAC
66 CTAC
* *
47420675 CACTGAAATGTAGTCGAAGCTACCACTGATATGTAGCCGTAGCTACCACTGGAATGTAGCCGAAG
1 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTACCACTGAAATGTAGCCGAAG
47420740 CTAC
66 CTAC
47420744 CACTGA
1 CACTGA
47420750 TCAATAACAC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 71 1.00
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (69 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTACCACTGAAATGTAGCCGAAG
CTAC
Found at i:47424874 original size:3 final size:3
Alignment explanation
Indices: 47424866--47424924 Score: 75
Period size: 3 Copynumber: 20.0 Consensus size: 3
47424856 TATTTTAATG
* * *
47424866 TTA TTA TTA TTA TTG TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
47424914 CTA TTA -TA TTA
1 TTA TTA TTA TTA
47424925 ATATAATTAC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:47425822 original size:110 final size:109
Alignment explanation
Indices: 47425603--47425881 Score: 452
Period size: 110 Copynumber: 2.6 Consensus size: 109
47425593 AAGTTTTTCT
* * ** *
47425603 AAATGAGGCAATATTTACCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCAATT
*
47425668 TTTCTCGTTCAACCAAATAGCTAAATATCATTTTAAAAAATTCA
66 TTTCTCGTTCAACCAAATAGCTAAATATCATTTCAAAAAATTCA
*
47425712 AAATAAGGCAATGTTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTTTCAAT
1 AAATAAGGCAATG-TTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCAAT
* * *
47425777 TTTTCTCGTTCAACCAAATAGCTAAATATCCTTTCAGAAATTTCA
65 TTTTCTCGTTCAACCAAATAGCTAAATATCATTTCAAAAAATTCA
47425822 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG-AAACGTGCCCTAATGTGCTGGGTTTC
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTC
47425882 GGTTTCTCGT
Statistics
Matches: 158, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
108 25 0.16
109 32 0.20
110 101 0.64
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.33
Consensus pattern (109 bp):
AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCAATT
TTTCTCGTTCAACCAAATAGCTAAATATCATTTCAAAAAATTCA
Found at i:47428696 original size:22 final size:21
Alignment explanation
Indices: 47428665--47428706 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
47428655 TTCTTGCAAA
*
47428665 AATAAAATAGTAAAAATAAAT
1 AATAAAATAGGAAAAATAAAT
*
47428686 AATAATAATAGGAAAATTAAA
1 AATAA-AATAGGAAAAATAAA
47428707 ATGTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (21 bp):
AATAAAATAGGAAAAATAAAT
Found at i:47436666 original size:8 final size:8
Alignment explanation
Indices: 47436655--47436683 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
47436645 AATAAATAAA
47436655 AAAATATT
1 AAAATATT
47436663 AAAATATT
1 AAAATATT
47436671 -AAATATT
1 AAAATATT
47436678 AAAATA
1 AAAATA
47436684 AAATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
AAAATATT
Found at i:47441767 original size:26 final size:27
Alignment explanation
Indices: 47441738--47441806 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 27
47441728 TAAGATGGGT
47441738 ATATAAAAAATTTT-AATAAATAAAA-A
1 ATATAAAAAATTTTAAAT-AATAAAATA
* *
47441764 ATATATAAAATTATTAAATATTAAAATA
1 ATATAAAAAATT-TTAAATAATAAAATA
*
47441792 AAATAAAATAATTTT
1 ATATAAAA-AATTTT
47441807 TTTAAAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
26 11 0.31
27 8 0.23
28 12 0.34
29 4 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (27 bp):
ATATAAAAAATTTTAAATAATAAAATA
Found at i:47452378 original size:22 final size:22
Alignment explanation
Indices: 47452335--47452393 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
47452325 TGTAGTTTTC
47452335 TAGGTGAAAAGA-T-GGATGTGA
1 TAGGTG-AAAGATTAGGATGTGA
*
47452356 TAGGTGAAAGATTAGGATTTGA
1 TAGGTGAAAGATTAGGATGTGA
* *
47452378 TGGGTGAAAGGTTAGG
1 TAGGTGAAAGATTAGG
47452394 GTATTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.15
21 7 0.21
22 21 0.64
ACGTcount: A:0.34, C:0.00, G:0.39, T:0.27
Consensus pattern (22 bp):
TAGGTGAAAGATTAGGATGTGA
Found at i:47452648 original size:6 final size:6
Alignment explanation
Indices: 47452639--47452683 Score: 56
Period size: 6 Copynumber: 7.2 Consensus size: 6
47452629 AAAACAAAAC
47452639 AAAATA AAAATA AAAAT- AAAATA AAATAGTA AAAATA AATAATA A
1 AAAATA AAAATA AAAATA AAAATA AAA-A-TA AAAATA AA-AATA A
47452684 TAAAAGGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
5 5 0.14
6 18 0.51
7 7 0.20
8 5 0.14
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:47452653 original size:16 final size:15
Alignment explanation
Indices: 47452628--47452688 Score: 50
Period size: 17 Copynumber: 3.7 Consensus size: 15
47452618 GTTTCCCTGC
*
47452628 AAAAACAAAACAAAAT
1 AAAAATAAAA-AAAAT
47452644 AAAAATAAAAATAAAAT
1 AAAAAT-AAAA-AAAAT
47452661 AAAATAGTAAAAATAAAT
1 AAAA-A-TAAAAA-AAAT
*
47452679 AATAATAAAA
1 AAAAATAAAA
47452689 GGAAAATTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
16 10 0.26
17 15 0.39
18 12 0.32
19 1 0.03
ACGTcount: A:0.79, C:0.03, G:0.02, T:0.16
Consensus pattern (15 bp):
AAAAATAAAAAAAAT
Found at i:47452685 original size:19 final size:19
Alignment explanation
Indices: 47452634--47452677 Score: 65
Period size: 17 Copynumber: 2.4 Consensus size: 19
47452624 CTGCAAAAAC
*
47452634 AAAACAAAATAAAA-A-TA
1 AAAATAAAATAAAATAGTA
47452651 AAAATAAAATAAAATAGTA
1 AAAATAAAATAAAATAGTA
47452670 AAAATAAA
1 AAAATAAA
47452678 TAATAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 13 0.54
18 1 0.04
19 10 0.42
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (19 bp):
AAAATAAAATAAAATAGTA
Found at i:47452707 original size:29 final size:29
Alignment explanation
Indices: 47452639--47452707 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
47452629 AAAACAAAAC
* *
47452639 AAAATAAAAATAAAAATAAAATAAAATAGT
1 AAAATTAAAATAAAAATAAAAGAAAATA-T
* *
47452669 AAAAAT-AAATAATAATAAAAGGAAAAT-T
1 AAAATTAAAATAAAAATAAAA-GAAAATAT
47452697 AAAATTAAAAT
1 AAAATTAAAAT
47452708 GTGTATTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
28 6 0.19
29 17 0.53
30 9 0.28
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (29 bp):
AAAATTAAAATAAAAATAAAAGAAAATAT
Found at i:47474958 original size:18 final size:17
Alignment explanation
Indices: 47474936--47475105 Score: 156
Period size: 18 Copynumber: 10.0 Consensus size: 17
47474926 AATACTAAGA
47474936 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
47474953 ATTTTTGTTAAA-T-TAT
1 A-TTTTATTAAATTATAT
* *
47474969 A-TTTAAT-AATAAT-T
1 ATTTTATTAAATTATAT
* *
47474983 ATTTTAAATTATATTTTAT
1 ATTTT--ATTAAATTATAT
* *
47475002 AATATTA-TATATTATA-
1 -ATTTTATTAAATTATAT
*
47475018 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
47475036 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
47475053 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
47475070 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
47475088 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
47475106 TTAATAATAA
Statistics
Matches: 127, Mismatches: 13, Indels: 25
0.77 0.08 0.15
Matches are distributed among these distances:
13 2 0.02
14 6 0.05
15 9 0.07
16 9 0.07
17 37 0.29
18 59 0.46
19 1 0.01
20 4 0.03
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.58
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:47474989 original size:26 final size:25
Alignment explanation
Indices: 47474951--47475009 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
47474941 ATTAAATTAT
*
47474951 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
47474977 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
47475003 ATATTAT
1 ATATTAT
47475010 ATATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:47475008 original size:15 final size:15
Alignment explanation
Indices: 47474964--47475019 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
47474954 TTTTTGTTAA
*
47474964 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
47474979 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
47474990 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
47475005 ATTATATATTATAAT
1 ATTATATTTTATAAT
47475020 TTTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:47475008 original size:120 final size:120
Alignment explanation
Indices: 47474794--47475087 Score: 479
Period size: 120 Copynumber: 2.5 Consensus size: 120
47474784 TGATACAATC
47474794 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
1 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
* *
47474859 AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCAT
66 AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
47474914 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
1 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
47474979 AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
66 AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
*** * * *
47475034 AT-ATTTTA-TTAA-ATTATA-TATTTTATTAAATTATATATTTTTATTAAATTATAT
1 ATAAGAATATTTAATACTA-AGAATTTTATTAAATTATATATTTTTGTTAAATTATAT
47475088 ATTTTTATTA
Statistics
Matches: 165, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
117 37 0.22
118 5 0.03
119 3 0.02
120 120 0.73
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (120 bp):
ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
Found at i:47475037 original size:41 final size:40
Alignment explanation
Indices: 47474872--47475090 Score: 119
Period size: 41 Copynumber: 5.6 Consensus size: 40
47474862 TATTTTAAAT
* *
47474872 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCA
1 TATATTTTATAATATTATATATTATAATTTTAGTAAATT-A
* * * *
47474913 TATA----AGAATATT-TAATACTAAGAATTTTATTAAATTA
1 TATATTTTATAATATTAT-ATA-TTATAATTTTAGTAAATTA
* **
47474950 TATATTTTTGTTAA-ATTATAT-TTAATAATAATTATTTTAAA-T-
1 TATA-TTTT-ATAATATTATATATT-ATAAT--TT-TAGTAAATTA
47474992 TATATTTTATAATATTATATATTATAATTTTAGTAAATTCA
1 TATATTTTATAATATTATATATTATAATTTTAGTAAATT-A
* *
47475033 TATATTTTAT--TA-AAT-TA-TAT-ATTTTATTAAATTA
1 TATATTTTATAATATTATATATTATAATTTTAGTAAATTA
47475067 TATATTTTTATTAA-ATTATATATT
1 TATA-TTTTA-TAATATTATATATT
47475091 TTTATTAAAT
Statistics
Matches: 136, Mismatches: 17, Indels: 51
0.67 0.08 0.25
Matches are distributed among these distances:
34 5 0.04
35 17 0.12
36 5 0.04
37 17 0.12
38 23 0.17
39 7 0.05
40 5 0.04
41 34 0.25
42 11 0.08
43 6 0.04
44 6 0.04
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (40 bp):
TATATTTTATAATATTATATATTATAATTTTAGTAAATTA
Found at i:47475040 original size:53 final size:54
Alignment explanation
Indices: 47474982--47475119 Score: 124
Period size: 51 Copynumber: 2.5 Consensus size: 54
47474972 TAATAATAAT
*
47474982 TATTTTAAATTATATTTTATAATATTATATATTATA-A-TTTTAGTAAATTCATA
1 TATTTTAAATTATATTTTATAATATTATAAATTATATATTTTTAGTAAATT-ATA
* * * *
47475035 TATTTT--ATTAAATTATAT-ATTTTATTAAATTATATATTTTTATTAAATTATA
1 TATTTTAAATTATATTTTATAATATTA-TAAATTATATATTTTTAGTAAATTATA
*
47475087 TATTTTTATTAAATTATATTTAATAATAATTAT
1 TA---TT-TTAAATTATATTTTATAAT-ATTAT
47475120 GTTAAAATAT
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
50 5 0.08
51 18 0.28
52 6 0.09
53 17 0.26
55 2 0.03
56 2 0.03
58 9 0.14
59 3 0.05
60 3 0.05
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (54 bp):
TATTTTAAATTATATTTTATAATATTATAAATTATATATTTTTAGTAAATTATA
Found at i:47478131 original size:26 final size:26
Alignment explanation
Indices: 47478100--47478155 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
47478090 GCAAGAAGAG
*
47478100 ATGGAATCACTCCATAAGAATAGAAT
1 ATGGAATCACTCCATAAGAATAGAAC
*
47478126 ATGGAATCACTCTATAAGAATAGAAC
1 ATGGAATCACTCCATAAGAATAGAAC
47478152 ATGG
1 ATGG
47478156 GATCTAGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.45, C:0.14, G:0.18, T:0.23
Consensus pattern (26 bp):
ATGGAATCACTCCATAAGAATAGAAC
Found at i:47481426 original size:91 final size:90
Alignment explanation
Indices: 47481224--47481444 Score: 273
Period size: 90 Copynumber: 2.4 Consensus size: 90
47481214 TAGGTAACAT
* * * * * *
47481224 AATAATACACAAATTGATA-TCTTAGATATCACATTGAAAATTTTCAAAGTATAGGTACCGTATT
1 AATAATACACAAATTGATAGT-TTAGGTATCACATTGGATATTTTCAAAATACAGGTACCATATT
* *
47481288 GGACATTTATGAAAGTAAATGTACCA
65 AGACATTTATAAAAGTAAATGTACCA
*
47481314 AATAATAAACAAATTGATAGTTTAGGTATCACATTGGATATTTTCAAAATACAGGTACCATATTA
1 AATAATACACAAATTGATAGTTTAGGTATCACATTGGATATTTTCAAAATACAGGTACCATATTA
* **
47481379 GACCTTTTATAAAAGTACGTGTACCA
66 GA-CATTTATAAAAGTAAATGTACCA
* * * *
47481405 AATAATACACAAATTGGTAGTTCAAGTAACACATTGGATA
1 AATAATACACAAATTGATAGTTTAGGTATCACATTGGATA
47481445 ATTTATGAAA
Statistics
Matches: 112, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
90 57 0.51
91 55 0.49
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.32
Consensus pattern (90 bp):
AATAATACACAAATTGATAGTTTAGGTATCACATTGGATATTTTCAAAATACAGGTACCATATTA
GACATTTATAAAAGTAAATGTACCA
Found at i:47482311 original size:3 final size:3
Alignment explanation
Indices: 47482303--47482333 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
47482293 AAAAATGTTC
47482303 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
47482334 TATTAAGCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:47487075 original size:873 final size:875
Alignment explanation
Indices: 47485078--47487282 Score: 3124
Period size: 875 Copynumber: 2.5 Consensus size: 875
47485068 ACGACACACC
* *
47485078 ACCAATAAAACGATTAAGGAAAACTTCAATGAAACATAATAAAAAATAATACT-AAACGAGATGC
1 ACCAATAAAACGATTAAGGAAAACTTCAATGAAACATAATAATAAATAATAATAAAAC-AGATGC
* * * * *
47485142 TAGTCTGAGGTTTCTCCGATGCTAATCCGTGTCCTAGTTTTCTGTGTTACCTGAGAGTTAAGAAA
65 TAGTCCGAGGTTCCTTCGATGCTAATCCGAGTCCTAGTTTTCTGTGTTACCTGAGAGGTAAGAAA
* * * ** *
47485207 AATAGGGAGTGGGCTTATGACAGCCCAATGCAAGTCTAATTTTTAAACCATTACATATAATTGTT
130 AATGGGGAGTGAGCTTATGACAACCCAATGTGAGTTTAATTTTTAAACCATTACA-ATAATTGTT
* * ** *
47485272 CAAACGACAAAGCATTCAATTTAAAACATCATAGCAAATTAAATATAATATAAGAGACATTCAAT
194 CAAACGATAAAG-ACTCAATTTAAAACATCATAGCAAATTAAGCATAATATAAGGGACATTCAAT
* *
47485337 AAATCAATGCATGTACAAGTTATGTCCATGATGCAATGCAATTATAATTTTAAATTCCCACTCAT
258 AAATCAATGCATGTACAAGTTATGTTCATGATGCAATGCAATTATAATTTTAAATTCCCACCCAT
** * *
47485402 CCATCCTATTTGCCCTCGAGCATCGCTCGACACTTGAAAACACATTTCAGTAATTGACCATCTTG
323 CCATCCTATTTGCCCTCGAGCATCGCTCGACACTCCAAAACACATTTCAGTAACTGACCATCTCG
* * * *
47485467 GATTTCCCGGTGACGATGGTCGTTCACTTATCATCTGTGACGATGAA-TTTTAATACAATAACTT
388 GATTTCCAGATAACGATGGTCGTTCACTTATCATCTGTGACGAT-AACTTTTACTACAATAACTT
* * *** * * * *
47485531 ACCAAATGTAACACCCCCGATTTGGATTAGGAGTTTCGAGTAAGTTAAATGCGTTACATTGATCA
452 ACCAAATGTAAAACCCCCAACCAGGATTAGGAGTTTCGACTAAGTCAAAGGCATTACATTGATCA
* *
47485596 CCAAAGTAATCCAGTAAAGCCATTCTTTTGCTTGAGTTGAATTGTATGAAAATCACTCTTTTGTT
517 CCAAAGTAATCCAGTAAAGCCATTCTTTTGCTTGAGTTGAATTGGATGAAAACCACTCTTTTGTT
* * * * *
47485661 TTTAGGAAAGACATTCATTAATTAATCTGAATTTACTTAGTAATCTATCTACAATATTATTAATG
582 TTTAAGAAAGACATTAATTAATTAATCTGAATTTACTCAGTAATCTATCTACAATATTAGTAACG
* *
47485726 TGAATTTTTTTTGAGAAAACGGTTTATGGTTTTAAAAGACTTATCAAAACTTTAAGTATTTTGCA
647 TGAATTATTTTTGAGAAAACGATTTATGGTTTTAAAAGACTTATCAAAACTTTAAGTATTTTGCA
* * *
47485791 AAGCAACAGAAACCAATAATAAGGATAATAATTTTCTAAACCAATTAACATGCAATAATTAGAGT
712 AAGCAACAGAAACCAATAATAAGAATAATAATTTTCTAAACCAATTAACATGCAATAATCAAAGT
* **
47485856 AATAACTAAATGTCATGCTTAAAAATTTATAAGCTAAATAATCTCAAACCACAATTATGAAAGCA
777 AATAACTAAATGTCATGCTTAAAAATTTATAAGCTAAATAATCCCAAACCACAATTAACAAAGCA
* * *
47485921 ATATATAATTAATAGCTTACGACCCAATTAACAA
842 ATAAATAAATAATAGCTTACAACCCAATTAACAA
* * **
47485955 ACCAATAAATCGATTAAGGAAAACTTCAATGGAACATAATAATAAATAAT-A-AAATGAGATGCT
1 ACCAATAAAACGATTAAGGAAAACTTCAATGAAACATAATAATAAATAATAATAAAACAGATGCT
* *
47486018 AGTCCAAGGTTCC-TCTGATG-TCAATCCGAGTCCTAGTTTTCTGTGTTACCTGAGAGGTAAGGA
66 AGTCCGAGGTTCCTTC-GATGCT-AATCCGAGTCCTAGTTTTCTGTGTTACCTGAGAGGTAAGAA
*
47486081 AAATGGGGAGTGAGCTTATGACAACCCAATGTGAGTTTAATTTTTAAACCATTACATATAATTCT
129 AAATGGGGAGTGAGCTTATGACAACCCAATGTGAGTTTAATTTTTAAACCATTACA-ATAATTGT
* * *
47486146 TCAAACGGTAAA-ACATTCAATTTAAAACATCATAACAAATTAAGCATAATATAAGGGGCATTCA
193 TCAAACGATAAAGAC--TCAATTTAAAACATCATAGCAAATTAAGCATAATATAAGGGACATTCA
* * * *
47486210 GTTAATCAATGCATGTACACGTTATGTTCATGATGCAATGCAATTATAATTTTAAATTGCCACCC
256 ATAAATCAATGCATGTACAAGTTATGTTCATGATGCAATGCAATTATAATTTTAAATTCCCACCC
* * *
47486275 ATCCATCTTATCTGCCCCCGAGCATCGCTCGACACTCCAAAACACATTTCAGTAACTGACCATCT
321 ATCCATCCTATTTGCCCTCGAGCATCGCTCGACACTCCAAAACACATTTCAGTAACTGACCATCT
* * * * *
47486340 CGGATTTCCTGATAACGATGGTCATTCACTTGTCAT-TCATGATGATAACTTTTACTACAATAAC
386 CGGATTTCCAGATAACGATGGTCGTTCACTTATCATCT-GTGACGATAACTTTTACTACAATAAC
** * *
47486404 TTACCAAATGTAAAACCCTTAACCAGGCTTAGGAGTTTTGACTAAGTCAAAGGCATTACATTGAT
450 TTACCAAATGTAAAACCCCCAACCAGGATTAGGAGTTTCGACTAAGTCAAAGGCATTACATTGAT
** * ** * *
47486469 CACTGAAGTGATCCAGTAAAGTTATT-TTTTGTTTGAGTTGAATTGGATGAAAACCGCTCTTTT-
515 CACCAAAGTAATCCAGTAAAGCCATTCTTTTGCTTGAGTTGAATTGGATGAAAACCACTCTTTTG
* **
47486532 TTTTTAAGAAATACATTAATTAATTAATCTGGCTTTACTCAGTAATCTATCTACAATATTAGTAA
580 TTTTTAAGAAAGACATTAATTAATTAATCTGAATTTACTCAGTAATCTATCTACAATATTAGTAA
*
47486597 CGTGAAGTTATTTTTGAGCAAACGATTTATGGTTTTAAAAGACTTATCAAAACTTTAAGTATTTT
645 CGTGAA-TTATTTTTGAGAAAACGATTTATGGTTTTAAAAGACTTATCAAAACTTTAAGTATTTT
* ** *
47486662 GCAAAGCAACAGAAATCAATAATAAGAATAATGGTTTTCTAAACCAATTAGCATGCAATAATCAA
709 GCAAAGCAACAGAAACCAATAATAAGAATAATAATTTTCTAAACCAATTAACATGCAATAATCAA
* *
47486727 AGTAATAACTAAATTTCATGCTT-AAAATTTATAAGCTAAATAATCCCAAACCACAGTTAACAAA
774 AGTAATAACTAAATGTCATGCTTAAAAATTTATAAGCTAAATAATCCCAAACCACAATTAACAAA
47486791 GCAATAAATAAATAATAGCTTACAACCCAATTAACAA
839 GCAATAAATAAATAATAGCTTACAACCCAATTAACAA
** *
47486828 ACCAATAAAACGATTAAAAAAAACTTCAATGTAACATAATAATAAATAATAATAAAACATGATGC
1 ACCAATAAAACGATTAAGGAAAACTTCAATGAAACATAATAATAAATAATAATAAAACA-GATGC
* * * *
47486893 TAGTCCGAGGTTCCTTCGATGCTAATTCAAGTCCTAGTTTTTTGTGTTACTTGAGAGGTAAGAAA
65 TAGTCCGAGGTTCCTTCGATGCTAATCCGAGTCCTAGTTTTCTGTGTTACCTGAGAGGTAAGAAA
*
47486958 AAGGGGGAGTGAGCTTATGACAACCCAATGTGAGTTTAATTTTTAAACCATTAC-ATAATTGTTC
130 AATGGGGAGTGAGCTTATGACAACCCAATGTGAGTTTAATTTTTAAACCATTACAATAATTGTTC
*
47487022 AAACGATAAAGACTCAATTTAAAACATCATAGCAAATTAAGCATACTATAAGGGACATTCAATAA
195 AAACGATAAAGACTCAATTTAAAACATCATAGCAAATTAAGCATAATATAAGGGACATTCAATAA
*
47487087 ATCAATGCATGTACAAGTTATGTTCATGATGTAATGCAATTATAATTTTAAATTCCCACCCATCC
260 ATCAATGCATGTACAAGTTATGTTCATGATGCAATGCAATTATAATTTTAAATTCCCACCCATCC
* * * * * *
47487152 ATCCTATTTGCCTTCGAGCATCACTCGACATTCCAAAATAGATTTCAGTAACTAACCATC-CTGG
325 ATCCTATTTGCCCTCGAGCATCGCTCGACACTCCAAAACACATTTCAGTAACTGACCATCTC-GG
* * * *
47487216 ATTTCCAAATGAA-GATGGTTGTTCACTTATCATCTGTGACGATGACTTTTACTAGAATAACTTA
389 ATTTCCAGAT-AACGATGGTCGTTCACTTATCATCTGTGACGATAACTTTTACTACAATAACTTA
47487280 CCA
453 CCA
47487283 TCCTGGTTTG
Statistics
Matches: 1173, Mismatches: 138, Indels: 38
0.87 0.10 0.03
Matches are distributed among these distances:
872 1 0.00
873 396 0.34
874 195 0.17
875 417 0.36
876 114 0.10
877 50 0.04
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.32
Consensus pattern (875 bp):
ACCAATAAAACGATTAAGGAAAACTTCAATGAAACATAATAATAAATAATAATAAAACAGATGCT
AGTCCGAGGTTCCTTCGATGCTAATCCGAGTCCTAGTTTTCTGTGTTACCTGAGAGGTAAGAAAA
ATGGGGAGTGAGCTTATGACAACCCAATGTGAGTTTAATTTTTAAACCATTACAATAATTGTTCA
AACGATAAAGACTCAATTTAAAACATCATAGCAAATTAAGCATAATATAAGGGACATTCAATAAA
TCAATGCATGTACAAGTTATGTTCATGATGCAATGCAATTATAATTTTAAATTCCCACCCATCCA
TCCTATTTGCCCTCGAGCATCGCTCGACACTCCAAAACACATTTCAGTAACTGACCATCTCGGAT
TTCCAGATAACGATGGTCGTTCACTTATCATCTGTGACGATAACTTTTACTACAATAACTTACCA
AATGTAAAACCCCCAACCAGGATTAGGAGTTTCGACTAAGTCAAAGGCATTACATTGATCACCAA
AGTAATCCAGTAAAGCCATTCTTTTGCTTGAGTTGAATTGGATGAAAACCACTCTTTTGTTTTTA
AGAAAGACATTAATTAATTAATCTGAATTTACTCAGTAATCTATCTACAATATTAGTAACGTGAA
TTATTTTTGAGAAAACGATTTATGGTTTTAAAAGACTTATCAAAACTTTAAGTATTTTGCAAAGC
AACAGAAACCAATAATAAGAATAATAATTTTCTAAACCAATTAACATGCAATAATCAAAGTAATA
ACTAAATGTCATGCTTAAAAATTTATAAGCTAAATAATCCCAAACCACAATTAACAAAGCAATAA
ATAAATAATAGCTTACAACCCAATTAACAA
Found at i:47487688 original size:28 final size:29
Alignment explanation
Indices: 47487657--47487717 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 29
47487647 GCTAACACAT
*
47487657 ACATAACATG-TTCACATTTAGGGTTCGC
1 ACATAACATGTTTCACATATAGGGTTCGC
*
47487685 ACAT-ACATGTTTCACATATAGGGTTTGC
1 ACATAACATGTTTCACATATAGGGTTCGC
47487713 ACATA
1 ACATA
47487718 TAGAGTTTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (29 bp):
ACATAACATGTTTCACATATAGGGTTCGC
Found at i:47487717 original size:15 final size:15
Alignment explanation
Indices: 47487669--47487728 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 15
47487659 ATAACATGTT
* *
47487669 CACATTTAGGGTTCG
1 CACATATAGGGTTTG
* *
47487684 CACATACA-TGTTT-
1 CACATATAGGGTTTG
47487697 CACATATAGGGTTTG
1 CACATATAGGGTTTG
*
47487712 CACATATAGAGTTTG
1 CACATATAGGGTTTG
47487727 CA
1 CA
47487729 TGTAGGGTTC
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
13 7 0.19
14 7 0.19
15 22 0.61
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (15 bp):
CACATATAGGGTTTG
Found at i:47487798 original size:24 final size:24
Alignment explanation
Indices: 47487743--47487898 Score: 72
Period size: 24 Copynumber: 6.6 Consensus size: 24
47487733 GGGTTCGCAT
*
47487743 ATAA-GGTTCGCATACTAAATCAC
1 ATAAGGGTTCGCATAATAAATCAC
* *
47487766 ATAATGGTTCGCATAATAAATTAC
1 ATAAGGGTTCGCATAATAAATCAC
** ** **
47487790 ATGGGGGTTCATATACAT-AATCGT
1 ATAAGGGTTCGCATA-ATAAATCAC
*** *
47487814 ACGGGGGTTCGAAT-ATGAAATC-C
1 ATAAGGGTTCGCATAAT-AAATCAC
* * *
47487837 ATAAGGGTTCGCATATTAAAACAA
1 ATAAGGGTTCGCATAATAAATCAC
* * *
47487861 ATAGGGGTTCTCATACTAAATC-C
1 ATAAGGGTTCGCATAATAAATCAC
47487884 ATAAGGGCTTC-CATA
1 ATAAGGG-TTCGCATA
47487899 TAGGGTTCGC
Statistics
Matches: 99, Mismatches: 27, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
22 2 0.02
23 28 0.28
24 67 0.68
25 2 0.02
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (24 bp):
ATAAGGGTTCGCATAATAAATCAC
Found at i:47487948 original size:59 final size:59
Alignment explanation
Indices: 47487872--47488036 Score: 210
Period size: 58 Copynumber: 2.8 Consensus size: 59
47487862 TAGGGGTTCT
* *
47487872 CATACTAAATC-CATAAGGGCTTCCATATAGGGTTCGCATAATATATAGTAAGAGATCA
1 CATACTAAATCATATAAGGGTTTCCATATAGGGTTCGCATAATATATAGTAAGAGATCA
* * * *
47487930 CATACTAAGTCATATAAGGGTTTGCATAT-GGGTTCGCATAATTTATGGTAAGAGATCA
1 CATACTAAATCATATAAGGGTTTCCATATAGGGTTCGCATAATATATAGTAAGAGATCA
* * * *
47487988 TATACTAAATCATATAAAAGATTTTCATATA-GGTTCGCATAATATATAG
1 CATACTAAATCATAT-AAGGGTTTCCATATAGGGTTCGCATAATATATAG
47488037 GGTTCACATA
Statistics
Matches: 91, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
58 50 0.55
59 41 0.45
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (59 bp):
CATACTAAATCATATAAGGGTTTCCATATAGGGTTCGCATAATATATAGTAAGAGATCA
Found at i:47488046 original size:18 final size:17
Alignment explanation
Indices: 47488014--47488059 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
47488004 AAAGATTTTC
* *
47488014 ATATAGGTTCGCATAAT
1 ATATAGGTTCACATAAG
47488031 ATATAGGGTTCACATAAG
1 ATATA-GGTTCACATAAG
47488049 ATATAAGGTTC
1 ATAT-AGGTTC
47488060 GTATTATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 5 0.20
18 19 0.76
19 1 0.04
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.33
Consensus pattern (17 bp):
ATATAGGTTCACATAAG
Found at i:47488233 original size:16 final size:16
Alignment explanation
Indices: 47488212--47488257 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
47488202 TTCACCTAAG
*
47488212 GGGTTCGCATTCATAA
1 GGGTTCGCATACATAA
* *
47488228 GGGTTCACATACCTAA
1 GGGTTCGCATACATAA
*
47488244 GGGTTCGTATACAT
1 GGGTTCGCATACAT
47488258 GGGGTTTCGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (16 bp):
GGGTTCGCATACATAA
Found at i:47488266 original size:16 final size:16
Alignment explanation
Indices: 47488247--47488315 Score: 90
Period size: 16 Copynumber: 4.5 Consensus size: 16
47488237 TACCTAAGGG
47488247 TTCGTATACATGGGGT
1 TTCGTATACATGGGGT
*
47488263 TTCGTATATATGGGGT
1 TTCGTATACATGGGGT
* *
47488279 TT-GCATACATGGGGG
1 TTCGTATACATGGGGT
47488294 TTCGTATACAT-GGGT
1 TTCGTATACATGGGGT
47488309 TT-GTATA
1 TTCGTATA
47488316 ACAGATTACC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
14 5 0.11
15 17 0.37
16 24 0.52
ACGTcount: A:0.20, C:0.10, G:0.30, T:0.39
Consensus pattern (16 bp):
TTCGTATACATGGGGT
Found at i:47488279 original size:31 final size:30
Alignment explanation
Indices: 47488244--47488315 Score: 99
Period size: 31 Copynumber: 2.4 Consensus size: 30
47488234 ACATACCTAA
* * *
47488244 GGGTTCGTATACATGGGGTTTCGTATATAT
1 GGGTTTGTATACATGGGGGTTCGTATACAT
*
47488274 GGGGTTTGCATACATGGGGGTTCGTATACAT
1 -GGGTTTGTATACATGGGGGTTCGTATACAT
47488305 GGGTTTGTATA
1 GGGTTTGTATA
47488316 ACAGATTACC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 10 0.28
31 26 0.72
ACGTcount: A:0.19, C:0.10, G:0.33, T:0.38
Consensus pattern (30 bp):
GGGTTTGTATACATGGGGGTTCGTATACAT
Found at i:47490432 original size:20 final size:20
Alignment explanation
Indices: 47490409--47490446 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
47490399 AAAAAATGAA
**
47490409 ATTTAAAATTAAAGTAATAT
1 ATTTAAAAGAAAAGTAATAT
47490429 ATTTAAAAGAAAAGTAAT
1 ATTTAAAAGAAAAGTAAT
47490447 TCAACATAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (20 bp):
ATTTAAAAGAAAAGTAATAT
Found at i:47495772 original size:16 final size:16
Alignment explanation
Indices: 47495748--47495785 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
47495738 TTTGGTTCGC
* *
47495748 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
47495764 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
47495780 TGTAAT
1 TGTAAT
47495786 AGCATAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:47495935 original size:16 final size:16
Alignment explanation
Indices: 47495916--47495956 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
47495906 TTAATCATAT
*
47495916 TTAAATATAATTATTA
1 TTAAATATAATTATAA
47495932 TTAAATAT-ATTATAA
1 TTAAATATAATTATAA
47495947 TTAAAATATA
1 TT-AAATATA
47495957 TAATTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTAAATATAATTATAA
Found at i:47495964 original size:14 final size:15
Alignment explanation
Indices: 47495916--47495966 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
47495906 TTAATCATAT
*
47495916 TTAAATATAATTATTA
1 TTAAATAT-ATTATAA
47495932 TTAAATATATTATAA
1 TTAAATATATTATAA
47495947 TTAAA-ATA-TATAA
1 TTAAATATATTATAA
*
47495960 TTTAATA
1 TTAAATA
47495967 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 9 0.28
14 4 0.12
15 11 0.34
16 8 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAAATATATTATAA
Done.