Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 31 of 182
Found at i:10201606 original size:246 final size:246
Alignment explanation
Indices: 10201172--10201671 Score: 982
Period size: 246 Copynumber: 2.0 Consensus size: 246
10201162 NNNNNNNNNN
10201172 AAAAAAATAAACAAAAAGAATATGATTTCCAATCCTATAAAACTCTTATAGAACATTGGAAAGAA
1 AAAAAAATAAACAAAAAGAATATGATTTCCAATCCTATAAAACTCTTATAGAACATTGGAAAGAA
10201237 AAATTTTCTAATAGTAATGATCAACTAGAAAGAGTTGAATACTTAAAACTAATAGAAGAACTTTA
66 AAATTTTCTAATAGTAATGATCAACTAGAAAGAGTTGAATACTTAAAACTAATAGAAGAACTTTA
10201302 TGAAAAACATAAAGATCTATTTAGTCTGTTTAATTATCATTATATGTTAAAATATGATGATAGTA
131 TGAAAAACATAAAGATCTATTTAGTCTGTTTAATTATCATTATATGTTAAAATATGATGATAGTA
10201367 GCAGTTCAAGTAATTCTGAAAACACAGAATTATTTAAGAAACAATCTGATG
196 GCAGTTCAAGTAATTCTGAAAACACAGAATTATTTAAGAAACAATCTGATG
10201418 AAAAAAATAAACAAAAAGAATATGATTTCCAATCCTATAAAACTCTTATAGAACATTGGAAAGAA
1 AAAAAAATAAACAAAAAGAATATGATTTCCAATCCTATAAAACTCTTATAGAACATTGGAAAGAA
*
10201483 AAATTTTCTAATAGTAATGATCAACTAGAAAGAGTTGAATACTTAAAATTAATAGAAGAACTTTA
66 AAATTTTCTAATAGTAATGATCAACTAGAAAGAGTTGAATACTTAAAACTAATAGAAGAACTTTA
10201548 TGAAAAACATAAAGATCTATTTAGTCTGTTTAATTATCATTATATGTTAAAATATGATGATAGTA
131 TGAAAAACATAAAGATCTATTTAGTCTGTTTAATTATCATTATATGTTAAAATATGATGATAGTA
10201613 GCAGTTCAAGTAATTCTGAAAACACAGAATTATTTAAGAAACAATCTGATG
196 GCAGTTCAAGTAATTCTGAAAACACAGAATTATTTAAGAAACAATCTGATG
10201664 AAGAAAAA
1 AA-AAAAA
10201672 ACTTCAACAG
Statistics
Matches: 252, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
246 247 0.98
247 5 0.02
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.30
Consensus pattern (246 bp):
AAAAAAATAAACAAAAAGAATATGATTTCCAATCCTATAAAACTCTTATAGAACATTGGAAAGAA
AAATTTTCTAATAGTAATGATCAACTAGAAAGAGTTGAATACTTAAAACTAATAGAAGAACTTTA
TGAAAAACATAAAGATCTATTTAGTCTGTTTAATTATCATTATATGTTAAAATATGATGATAGTA
GCAGTTCAAGTAATTCTGAAAACACAGAATTATTTAAGAAACAATCTGATG
Found at i:10207941 original size:17 final size:17
Alignment explanation
Indices: 10207919--10207952 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
10207909 TGTCATGACA
10207919 TAGGATTTCCGATATGT
1 TAGGATTTCCGATATGT
10207936 TAGGATTTCCGATATGT
1 TAGGATTTCCGATATGT
10207953 GTTTTCATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.41
Consensus pattern (17 bp):
TAGGATTTCCGATATGT
Found at i:10207999 original size:43 final size:43
Alignment explanation
Indices: 10207952--10208054 Score: 161
Period size: 43 Copynumber: 2.4 Consensus size: 43
10207942 TTCCGATATG
*
10207952 TGTTTTCATGTAAGACCACGTATGGGACATTGACATCGATTTA
1 TGTTTTCATGTAAGACCACGTATAGGACATTGACATCGATTTA
* * * *
10207995 TGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCATCGATTTA
1 TGTTTTCATGTAAGACCACGTATAGGACATTGACATCGATTTA
10208038 TGTTTTCATGTAAGACC
1 TGTTTTCATGTAAGACC
10208055 TTGTCTGGGA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.36
Consensus pattern (43 bp):
TGTTTTCATGTAAGACCACGTATAGGACATTGACATCGATTTA
Found at i:10208064 original size:86 final size:86
Alignment explanation
Indices: 10207952--10208116 Score: 206
Period size: 86 Copynumber: 1.9 Consensus size: 86
10207942 TTCCGATATG
* * * * *
10207952 TGTTTTCATGTAAGACCACGTATGGGACA-TTGACATCGATTTATGTTTTCGTGTAAGACCACGT
1 TGTTTTCATGTAAGACCACGTATGGGACAGTAG-CATCGATCTATGATTACATGTAAGACCACGT
10208016 CTAGGACGTTGGCATCGATTTA
65 CTAGGACGTTGGCATCGATTTA
** * ** *
10208038 TGTTTTCATGTAAGACCTTGTCTGGGACAGTAGTGTCGATCTGTGATTACATGTAAGACCACGTC
1 TGTTTTCATGTAAGACCACGTATGGGACAGTAGCATCGATCTATGATTACATGTAAGACCACGTC
*
10208103 TGGGACGTTGGCAT
66 TAGGACGTTGGCAT
10208117 TGTATGAGCT
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
86 64 0.97
87 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (86 bp):
TGTTTTCATGTAAGACCACGTATGGGACAGTAGCATCGATCTATGATTACATGTAAGACCACGTC
TAGGACGTTGGCATCGATTTA
Found at i:10208077 original size:43 final size:42
Alignment explanation
Indices: 10207952--10208113 Score: 159
Period size: 43 Copynumber: 3.8 Consensus size: 42
10207942 TTCCGATATG
* *
10207952 TGTTTTCATGTAAGACCACGTATGGGACA-TTGACATCGATTTA
1 TGTTTTCATGTAAGACCACGTCTGGGACAGTTG--GTCGATTTA
* *
10207995 TGTTTTCGTGTAAGACCACGTCTAGGAC-GTTGGCATCGATTTA
1 TGTTTTCATGTAAGACCACGTCTGGGACAGTTGG--TCGATTTA
** * * *
10208038 TGTTTTCATGTAAGACCTTGTCTGGGACAGTAGTGTCGATCTG
1 TGTTTTCATGTAAGACCACGTCTGGGACAGTTG-GTCGATTTA
* *
10208081 TGATTACATGTAAGACCACGTCTGGGAC-GTTGG
1 TGTTTTCATGTAAGACCACGTCTGGGACAGTTGG
10208114 CATTGTATGA
Statistics
Matches: 98, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 90 0.92
44 3 0.03
45 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (42 bp):
TGTTTTCATGTAAGACCACGTCTGGGACAGTTGGTCGATTTA
Found at i:10220001 original size:20 final size:20
Alignment explanation
Indices: 10219976--10220015 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
10219966 TCTAATCATA
*
10219976 TAATAAATTATTTATTGTTT
1 TAATAAATTATTTAATGTTT
10219996 TAATAAATTATTTAATGTTT
1 TAATAAATTATTTAATGTTT
10220016 CAATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
TAATAAATTATTTAATGTTT
Found at i:10220985 original size:18 final size:19
Alignment explanation
Indices: 10220959--10220996 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
10220949 TATATAAAGT
*
10220959 TCAAATATA-AAATATTCA
1 TCAAATATATAAATACTCA
*
10220977 TCAATTATATAAATACTCA
1 TCAAATATATAAATACTCA
10220996 T
1 T
10220997 TAAAAATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (19 bp):
TCAAATATATAAATACTCA
Found at i:10224060 original size:31 final size:29
Alignment explanation
Indices: 10223997--10224064 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 29
10223987 GCGATAACGT
* *
10223997 AAGTGACT-AAATGTAACATTTCAAACAT
1 AAGTGACTAAAATGTAACATGTCAAACAA
*
10224025 AAGTGACTAAAATGTAACCTGAGTCAAACAA
1 AAGTGACTAAAATGTAACAT--GTCAAACAA
10224056 AAGTGACTA
1 AAGTGACTA
10224065 TTTGGATAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 8 0.24
29 10 0.29
31 16 0.47
ACGTcount: A:0.47, C:0.15, G:0.15, T:0.24
Consensus pattern (29 bp):
AAGTGACTAAAATGTAACATGTCAAACAA
Found at i:10224125 original size:38 final size:38
Alignment explanation
Indices: 10224074--10224151 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
10224064 ATTTGGATAG
*
10224074 TTTACCCATAAAAATAATTTCTCATTAAGTAACAAAAA
1 TTTACCCAAAAAAATAATTTCTCATTAAGTAACAAAAA
*
10224112 TTTACCCAAAAAAATAATTTCTCATTAAGTAACAACAA
1 TTTACCCAAAAAAATAATTTCTCATTAAGTAACAAAAA
10224150 TT
1 TT
10224152 AAAACCAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.49, C:0.17, G:0.03, T:0.32
Consensus pattern (38 bp):
TTTACCCAAAAAAATAATTTCTCATTAAGTAACAAAAA
Found at i:10225860 original size:23 final size:26
Alignment explanation
Indices: 10225832--10225892 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
10225822 CACATCTCGT
10225832 ATGAGCTTACCG-T-TTCAGCTC-G-
1 ATGAGCTTACCGTTCTTCAGCTCGGA
*
10225854 ATAGAGCTTATCGTTCTTCAGCTCGGA
1 AT-GAGCTTACCGTTCTTCAGCTCGGA
10225881 ATGAGCTTACCG
1 ATGAGCTTACCG
10225893 ATCATGGCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 2 0.06
23 9 0.28
24 1 0.03
25 8 0.25
26 10 0.31
27 2 0.06
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.31
Consensus pattern (26 bp):
ATGAGCTTACCGTTCTTCAGCTCGGA
Found at i:10227510 original size:16 final size:17
Alignment explanation
Indices: 10227485--10227521 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
10227475 AAATAAATAA
10227485 ATAATAATATAAATTTT
1 ATAATAATATAAATTTT
*
10227502 ATAAT-ATATAACTTTT
1 ATAATAATATAAATTTT
10227518 ATAA
1 ATAA
10227522 AAAAAAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
ATAATAATATAAATTTT
Found at i:10228694 original size:20 final size:20
Alignment explanation
Indices: 10228651--10228694 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
10228641 TCCTGATTTT
*
10228651 ATTTGATTCCAATCAATTTA
1 ATTTGATTCCAATCAAATTA
** *
10228671 ATTTGATTTTAATCAAATTG
1 ATTTGATTCCAATCAAATTA
10228691 ATTT
1 ATTT
10228695 AATTGCTTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (20 bp):
ATTTGATTCCAATCAAATTA
Found at i:10229142 original size:28 final size:29
Alignment explanation
Indices: 10229088--10229157 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
10229078 TCGTATATGA
*
10229088 TATTTTAAATATAAATTATTCAATTTATTT
1 TATTTTATATATAAATTATTCAATTTA-TT
**
10229118 TATTTTATATATAAA-TATT-TGTTTATT
1 TATTTTATATATAAATTATTCAATTTATT
10229145 TATATTTATATAT
1 TAT-TTTATATAT
10229158 TTTATCGCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 5 0.14
28 13 0.36
29 4 0.11
30 14 0.39
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (29 bp):
TATTTTATATATAAATTATTCAATTTATT
Found at i:10229149 original size:22 final size:23
Alignment explanation
Indices: 10229116--10229159 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
10229106 TTCAATTTAT
10229116 TTTATTTTATATATAAATATTTG
1 TTTATTTTATATATAAATATTTG
* *
10229139 TTTA-TTTATATTTATATATTT
1 TTTATTTTATATATAAATATTT
10229160 TATCGCTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (23 bp):
TTTATTTTATATATAAATATTTG
Found at i:10229404 original size:86 final size:84
Alignment explanation
Indices: 10229286--10229903 Score: 410
Period size: 83 Copynumber: 7.5 Consensus size: 84
10229276 AATCAAAATA
* * * *
10229286 AAAATTGAATAAAATTTATTTTGGGATTTATTCCCGCCGTTCAACAGATTTTATTCCATTTTTTA
1 AAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATT-CA-TTTTTA
*
10229351 TTTTGTTTCCAAACGAGTATT
64 TTTTGTTTCCAAACGAGAATT
*
10229372 AAAATTAAATAAAATCGGTTTCGGGATTTATTCCCGCCGTTCAAC-------A-T-A-TTTTATT
1 AAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATTCATTTTTATT
* *
10229427 TTGTTTCCAAATGAGCATT
66 TTGTTTCCAAACGAGAATT
* * *
10229446 AAAATTAAATAAAATCTGTTTCGGGATTTATTCCCACCATTCAACATATTTTATTCTATTTTTGA
1 AAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATTC-ATTTTT-A
* *
10229511 TTTTGTTACCAAACCAGAAATT
64 TTTTGTTTCCAAACGAG-AATT
* * * ** * *
10229533 AAAATTAAATAAAATATGTTTTGAGATTTATTCCCGTTGTTTAACAGATTTTATTCGATTTTAAT
1 AAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATTC-ATTTTTAT
**
10229598 TTTGTTTCCAAATTAGAATT
65 TTTGTTTCCAAACGAGAATT
* * * ** * * * * *
10229618 -AAATTGAAT--AATCTTTTTCAGGATTTATTCCTACCATTTAACA-ATCTGTATTCGATCTTGA
1 AAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAGAT-TTTATTC-ATTTTTA
*
10229679 TTTTGTTTCCAAACGAAGACTT
64 TTTTGTTTCCAAACG-AGAATT
*** * * * * * *
10229701 --AATCGTAT-AAATCTGTTTCGAGATATATTCCCGCAGTTTAACAG-TCTTTATTCGATCTTGA
1 AAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAGAT-TTTATTC-ATTTTTA
*
10229762 TTTTGTTTCCAAACGAAGACTT
64 TTTTGTTTCCAAACG-AGAATT
* * * * * * *
10229784 --AATCAAAT-AATTTTGTTTCGGGATTAATTCCCACCGTTTAACAGA--TT-TT-ATTTTGATT
1 AAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATTCATTTTTATT
*
10229842 TTGTTTCCAAACAAG-ATT
66 TTGTTTCCAAACGAGAATT
* * * * * * *
10229860 -TAATTAAAT-AATTTTGTTTCAGGATTTAATCCTGCCGTTTAACA
1 AAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACA
10229904 AATCCAAGGG
Statistics
Matches: 439, Mismatches: 74, Indels: 47
0.78 0.13 0.08
Matches are distributed among these distances:
74 66 0.15
76 3 0.01
77 39 0.09
78 21 0.05
79 1 0.00
80 2 0.00
81 5 0.01
82 56 0.13
83 104 0.24
84 9 0.02
85 8 0.02
86 70 0.16
87 55 0.13
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (84 bp):
AAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATTCATTTTTATT
TTGTTTCCAAACGAGAATT
Found at i:10229433 original size:74 final size:74
Alignment explanation
Indices: 10229346--10229500 Score: 265
Period size: 74 Copynumber: 2.1 Consensus size: 74
10229336 TTATTCCATT
* * *
10229346 TTTTATTTTGTTTCCAAACGAGTATTAAAATTAAATAAAATCGGTTTCGGGATTTATTCCCGCCG
1 TTTTATTTTGTTTCCAAACGAGCATTAAAATTAAATAAAATCGGTTTCGGGATTTATTCCCACCA
10229411 TTCAACATA
66 TTCAACATA
* *
10229420 TTTTATTTTGTTTCCAAATGAGCATTAAAATTAAATAAAATCTGTTTCGGGATTTATTCCCACCA
1 TTTTATTTTGTTTCCAAACGAGCATTAAAATTAAATAAAATCGGTTTCGGGATTTATTCCCACCA
10229485 TTCAACATA
66 TTCAACATA
10229494 TTTTATT
1 TTTTATT
10229501 CTATTTTTGA
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
74 76 1.00
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (74 bp):
TTTTATTTTGTTTCCAAACGAGCATTAAAATTAAATAAAATCGGTTTCGGGATTTATTCCCACCA
TTCAACATA
Found at i:10229476 original size:160 final size:161
Alignment explanation
Indices: 10229286--10229587 Score: 417
Period size: 160 Copynumber: 1.9 Consensus size: 161
10229276 AATCAAAATA
* * * * * *
10229286 AAAATTGAATAAAATTTATTTTGGGATTTATTCCCGCCGTTCAACAGATTTTATTCCATTTTTTA
1 AAAATTAAATAAAATCTATTTCGGGATTTATTCCCACCATTCAACAGATTTTATTCCATTTTTGA
* * * * *
10229351 TTTTGTTTCCAAACGAG-TATTAAAATTAAATAAAATCGGTTTCGGGATTTATTCCCGCCGTTCA
66 TTTTGTTACCAAACCAGAAATTAAAATTAAATAAAATAGGTTTCGAGATTTATTCCCGCCGTTCA
*
10229415 ACATATTTTATTTTGTTTCCAAATGAGCATT
131 ACAGATTTTATTTTGTTTCCAAATGAGCATT
* * *
10229446 AAAATTAAATAAAATCTGTTTCGGGATTTATTCCCACCATTCAACATATTTTATTCTATTTTTGA
1 AAAATTAAATAAAATCTATTTCGGGATTTATTCCCACCATTCAACAGATTTTATTCCATTTTTGA
* * ** *
10229511 TTTTGTTACCAAACCAGAAATTAAAATTAAATAAAATATGTTTTGAGATTTATTCCCGTTGTTTA
66 TTTTGTTACCAAACCAGAAATTAAAATTAAATAAAATAGGTTTCGAGATTTATTCCCGCCGTTCA
10229576 ACAGATTTTATT
131 ACAGATTTTATT
10229588 CGATTTTAAT
Statistics
Matches: 121, Mismatches: 20, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
160 71 0.59
161 50 0.41
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (161 bp):
AAAATTAAATAAAATCTATTTCGGGATTTATTCCCACCATTCAACAGATTTTATTCCATTTTTGA
TTTTGTTACCAAACCAGAAATTAAAATTAAATAAAATAGGTTTCGAGATTTATTCCCGCCGTTCA
ACAGATTTTATTTTGTTTCCAAATGAGCATT
Found at i:10229920 original size:77 final size:78
Alignment explanation
Indices: 10229761--10229920 Score: 171
Period size: 77 Copynumber: 2.1 Consensus size: 78
10229751 TTCGATCTTG
*
10229761 ATTTTGTTTCCAAACGAAGACTTAATCAAATAATTTTGTTTCGGGATTAATTCCCACCGTTTAAC
1 ATTTTGTTTCCAAACGAAGACTTAATCAAATAATTTTGTTTCAGGATTAATTCCCACCGTTTAAC
* *** *****
10229826 AGATTTTATTTTG
66 AAATCCAAGGGAA
* * **
10229839 ATTTTGTTTCCAAAC-AAGATTTAATTAAATAATTTTGTTTCAGGATTTAA-TCCTGCCGTTTAA
1 ATTTTGTTTCCAAACGAAGACTTAATCAAATAATTTTGTTTCAGGA-TTAATTCCCACCGTTTAA
10229902 CAAATCCAAGGGAA
65 CAAATCCAAGGGAA
10229916 ATTTT
1 ATTTT
10229921 TCTGTTTATG
Statistics
Matches: 67, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
77 48 0.72
78 19 0.28
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.41
Consensus pattern (78 bp):
ATTTTGTTTCCAAACGAAGACTTAATCAAATAATTTTGTTTCAGGATTAATTCCCACCGTTTAAC
AAATCCAAGGGAA
Found at i:10232907 original size:30 final size:30
Alignment explanation
Indices: 10232814--10232977 Score: 165
Period size: 29 Copynumber: 5.6 Consensus size: 30
10232804 TGTTTAAAAA
* * * *
10232814 AAAATTATATTTGGACCCCTCAAC-TTTTT
1 AAAATTACATTTTGACCCTTAAACTTTTTT
* * *
10232843 AAAATTTCACTTTGACCCCTAAAC-TTTTT
1 AAAATTACATTTTGACCCTTAAACTTTTTT
*
10232872 AAAATTACATTGTGACCCTTAAACTTTTTT
1 AAAATTACATTTTGACCCTTAAACTTTTTT
* * *
10232902 GAAATTGCATTTTGACCCTTGAACTTTTTT
1 AAAATTACATTTTGACCCTTAAACTTTTTT
* *
10232932 AAAATTATATTTTGACCC-T-AATTTTTTT
1 AAAATTACATTTTGACCCTTAAACTTTTTT
*
10232960 CAAAATTACATTTCGACC
1 -AAAATTACATTTTGACC
10232978 TAGAAGTTTT
Statistics
Matches: 114, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
28 8 0.07
29 60 0.53
30 46 0.40
ACGTcount: A:0.31, C:0.19, G:0.07, T:0.43
Consensus pattern (30 bp):
AAAATTACATTTTGACCCTTAAACTTTTTT
Found at i:10232959 original size:59 final size:59
Alignment explanation
Indices: 10232838--10232977 Score: 158
Period size: 59 Copynumber: 2.4 Consensus size: 59
10232828 ACCCCTCAAC
* *
10232838 TTTTTAAAATTTCACTTTGACCCCTAAACTTTTTAAAATTACATTGTGACCCTTAAACT
1 TTTTTAAAATTACATTTTGACCCCTAAACTTTTTAAAATTACATTGTGACCCTTAAACT
* * * * * * *
10232897 TTTTTGAAATTGCATTTTGACCCTTGAACTTTTTTAAAATTATATTTTGACCC-T-AATT
1 TTTTTAAAATTACATTTTGACCCCTAAAC-TTTTTAAAATTACATTGTGACCCTTAAACT
*
10232955 TTTTTCAAAATTACATTTCGACC
1 TTTTT-AAAATTACATTTTGACC
10232978 TAGAAGTTTT
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
58 8 0.12
59 39 0.57
60 21 0.31
ACGTcount: A:0.30, C:0.18, G:0.06, T:0.46
Consensus pattern (59 bp):
TTTTTAAAATTACATTTTGACCCCTAAACTTTTTAAAATTACATTGTGACCCTTAAACT
Found at i:10232979 original size:28 final size:28
Alignment explanation
Indices: 10232838--10232977 Score: 104
Period size: 30 Copynumber: 4.8 Consensus size: 28
10232828 ACCCCTCAAC
* **
10232838 TTTTTAAAATTTCACTTT-GACCCCTAAAC
1 TTTTTAAAATTACA-TTTCGA-CCCTAATT
*
10232867 TTTTTAAAATTACATTGT-GACCCTTAAACT
1 TTTTTAAAATTACATT-TCGACCC-T-AATT
* * * *
10232897 TTTTTGAAATTGCATTTTGACCCTTGAACT
1 TTTTTAAAATTACATTTCGACCC-T-AATT
* *
10232927 TTTTTAAAATTATATTTTGACCCTAATT
1 TTTTTAAAATTACATTTCGACCCTAATT
10232955 TTTTTCAAAATTACATTTCGACC
1 TTTTT-AAAATTACATTTCGACC
10232978 TAGAAGTTTT
Statistics
Matches: 94, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
28 13 0.14
29 34 0.36
30 47 0.50
ACGTcount: A:0.30, C:0.18, G:0.06, T:0.46
Consensus pattern (28 bp):
TTTTTAAAATTACATTTCGACCCTAATT
Found at i:10233253 original size:16 final size:15
Alignment explanation
Indices: 10233230--10233270 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
10233220 CAAAAAAAGA
10233230 AAAGAAAAGAGGAGG
1 AAAGAAAAGAGGAGG
10233245 AAAGAAAAAGAGGAGG
1 AAAG-AAAAGAGGAGG
10233261 --AGAAAAGAGG
1 AAAGAAAAGAGG
10233271 GAGTACCGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 8 0.32
14 2 0.08
15 4 0.16
16 11 0.44
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGAGGAGG
Found at i:10233344 original size:3 final size:3
Alignment explanation
Indices: 10233336--10233400 Score: 51
Period size: 3 Copynumber: 21.3 Consensus size: 3
10233326 CAGTACGGCT
* * * *
10233336 AGA AGA AGA AGA AGGA AGA AGA AGA AGA AAA AAA AGAA AGA AAA AAA
1 AGA AGA AGA AGA A-GA AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA
* *
10233383 AGA A-A AAA AGA AAA AGA A
1 AGA AGA AGA AGA AGA AGA A
10233401 AAAATAAATT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
2 2 0.04
3 44 0.85
4 6 0.12
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:10233355 original size:13 final size:13
Alignment explanation
Indices: 10233337--10233362 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10233327 AGTACGGCTA
10233337 GAAGAAGAAGAAG
1 GAAGAAGAAGAAG
10233350 GAAGAAGAAGAAG
1 GAAGAAGAAGAAG
10233363 AAAAAAAAGA
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:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (13 bp):
GAAGAAGAAGAAG
Found at i:10233362 original size:9 final size:9
Alignment explanation
Indices: 10233336--10233404 Score: 61
Period size: 9 Copynumber: 7.7 Consensus size: 9
10233326 CAGTACGGCT
*
10233336 AGAAGAAGA
1 AGAAAAAGA
*
10233345 AGAAGGAAGA
1 AGAA-AAAGA
*
10233355 AGAAGAAGA
1 AGAAAAAGA
*
10233364 AAAAAAAGAA
1 AGAAAAAG-A
*
10233374 AGAAAAAAA
1 AGAAAAAGA
10233383 AGAAAAA-A
1 AGAAAAAGA
10233391 AGAAAAAGA
1 AGAAAAAGA
10233400 A-AAAA
1 AGAAAA
10233405 TAAATTATAT
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
8 12 0.23
9 25 0.47
10 16 0.30
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (9 bp):
AGAAAAAGA
Found at i:10233376 original size:13 final size:13
Alignment explanation
Indices: 10233360--10233401 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
10233350 GAAGAAGAAG
10233360 AAGAAAAAAAAGA
1 AAGAAAAAAAAGA
10233373 AAGAAAAAAAAGA
1 AAGAAAAAAAAGA
*
10233386 AAAAAAGAAAAAGA
1 AAGAAA-AAAAAGA
10233400 AA
1 AA
10233402 AAATAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
13 18 0.67
14 9 0.33
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAAAGA
Found at i:10233390 original size:21 final size:21
Alignment explanation
Indices: 10233364--10233404 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
10233354 AAGAAGAAGA
10233364 AAAAAAAGAAAGAA-AAAAAAG
1 AAAAAAAGAAA-AAGAAAAAAG
10233385 AAAAAAAGAAAAAGAAAAAA
1 AAAAAAAGAAAAAGAAAAAA
10233405 TAAATTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (21 bp):
AAAAAAAGAAAAAGAAAAAAG
Found at i:10233402 original size:13 final size:12
Alignment explanation
Indices: 10233357--10233404 Score: 60
Period size: 13 Copynumber: 3.8 Consensus size: 12
10233347 AAGGAAGAAG
*
10233357 AAGAAGAAAAAA
1 AAGAAAAAAAAA
10233369 AAGAAAGAAAAAA
1 AAGAAA-AAAAAA
10233382 AAGAAAAAAAGAAA
1 AAG-AAAAAA-AAA
10233396 AAGAAAAAA
1 AAGAAAAAA
10233405 TAAATTATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
12 5 0.16
13 18 0.56
14 9 0.28
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAGAAAAAAAAA
Found at i:10233522 original size:17 final size:17
Alignment explanation
Indices: 10233499--10233551 Score: 61
Period size: 18 Copynumber: 3.0 Consensus size: 17
10233489 AGGCTGGCCC
10233499 AAAAAAAAAACAAAGCAG
1 AAAAAAAAAA-AAAGCAG
* * *
10233517 AAAAAAACATAAAGTAG
1 AAAAAAAAAAAAAGCAG
10233534 AAAAAGAAAAAAAAGCAG
1 AAAAA-AAAAAAAAGCAG
10233552 CAGGCCATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
17 11 0.39
18 17 0.61
ACGTcount: A:0.75, C:0.08, G:0.13, T:0.04
Consensus pattern (17 bp):
AAAAAAAAAAAAAGCAG
Found at i:10233721 original size:9 final size:9
Alignment explanation
Indices: 10233707--10233737 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
10233697 AAAGAGAGGG
10233707 AAAAAAAGA
1 AAAAAAAGA
10233716 AAAAAAAGA
1 AAAAAAAGA
*
10233725 AAAAAAGGA
1 AAAAAAAGA
10233734 AAAA
1 AAAA
10233738 TGGTTCAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:10244776 original size:78 final size:77
Alignment explanation
Indices: 10244042--10246910 Score: 2373
Period size: 78 Copynumber: 37.3 Consensus size: 77
10244032 TTTCAAGAAA
* *
10244042 TATTTTTCAATTTCTGTTTTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
1 TATTTTTTAATTTCTG--TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
*
10244106 GT--CACGCTGAGG
64 GTCACACGCCGAGG
* * * ** *
10244118 TA-GTTTCAATTTCTGTTTTT---TAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TAGA
1 TATTTTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
*
10244178 CACATGCCGAGG
66 CACACGCCGAGG
* *
10244190 TATTTCTTTTAAATTTCTATTTTTC--AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCG
1 TA-TT-TTTT-AATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
10244253 GGTCACACGCCGAGG
63 GGTCACACGCCGAGG
* * * *
10244268 TATTTTTTTTAATTTCTGTTTTTCAAAAAAATCAACTTATAATCCGAGAGGTGAGTTGAGCCTCA
1 TA--TTTTTTAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
* *
10244333 GGT--CATGCTGAGG
63 GGTCACACGCCGAGG
* * **
10244346 TA-TTTTAAATTTCTATTTTT-TTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
1 TATTTTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
**
10244409 --CACGCTTAGG
66 CACACGCCGAGG
* ***
10244419 TA-TTTTAAATTTCTGTTTTT-TTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
1 TATTTTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
**
10244482 --CACGCTTAGG
66 CACACGCCGAGG
* ***
10244492 TA-TTTTAAATTTCTGTTTTT-TTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
1 TATTTTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
**
10244555 --CACGCTTAGG
66 CACACGCCGAGG
* ***
10244565 TA-TTTTAAATTTCTGTTTTT-TTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
1 TATTTTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
**
10244628 --CACGCTTAGG
66 CACACGCCGAGG
* ***
10244638 TA-TTTTAAATTTCTGTTTTT-TTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
1 TATTTTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
* *
10244701 CACACACCGAGA
66 CACACGCCGAGG
* * *
10244713 TATTTTTTAATTTCTGTTTTTCAAAAAAATCAACTGATAATACGAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTTAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
10244778 TCACACGCCGAGG
65 TCACACGCCGAGG
* * * *
10244791 TATTTTTTTTAATTTCTGTTTTTCAAAAAAATCAACTTATAATCCGAGAGGTGAGTTGAGCCTCA
1 TA--TTTTTTAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
* *
10244856 GGT--CATGCTGAGG
63 GGTCACACGCCGAGG
* * ** *
10244869 TA-TTTTAAATTTCTATTTTT-TTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGGT
1 TATTTTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
* *
10244932 CACATGCCGATG
66 CACACGCCGAGG
* * *
10244944 TATCTTTTTTAATTTCTATTTTTCAAAAAAAAAATCAACTCATAGTGCGAGAAGTGAGTTGAGCC
1 TA--TTTTTTAATTTCTGTTTTTC----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
10245009 TCGGGT--CACGCTGAGG
60 TCGGGTCACACGCCGAGG
* * * * * *
10245025 TA-TTTTCAAATTCTGTTTTTTTTAAAAATTCAACTCATATTGTGAGAGGTGAGTTGAGCCT-TG
1 TATTTTTTAATTTCTG--TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
* *
10245088 GACACATGCCGAGG
64 GTCACACGCCGAGG
* *** *
10245102 TATTTCTTTTAAATTTCTATTTTT-TTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCG
1 TA-TT-TTTT-AATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
* *
10245166 GGTCACATGCCGATG
63 GGTCACACGCCGAGG
* * *
10245181 TATCTTTTTTAATTTCTATTTTTCAAAAAAAAAATCAACTCATAGTGCGAGAAGTGAGTTGAGCC
1 TA--TTTTTTAATTTCTGTTTTTC----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
10245246 TCGGGT--CACGCTGAGG
60 TCGGGTCACACGCCGAGG
* * * * * *
10245262 TA-TTTTCAAATTCTGTTTTTTTTAAAAATTCAACTCATATTGTGAGAGGTGAGTTGAGCCT-TG
1 TATTTTTTAATTTCTG--TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
* *
10245325 GACACATGCCGAGG
64 GTCACACGCCGAGG
* * *
10245339 TATTTCTTTTAAATTTCTGTTTTT-AAAAAATCAACTCATACTGCGAGAGGAGAGTTGAGTCTCG
1 TA-TT-TTTT-AATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
10245403 GGTCACACGCC-AGGG
63 GGTCACACGCCGA-GG
*
10245418 TATTTTTTAATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GG
1 TATTTTTTAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
* * *
10245482 ACACATGCCGATG
65 TCACACGCCGAGG
*
10245495 TATTTCTTTTAGATTTCTGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC
1 TA-TT-TTTTA-ATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* * *
10245560 -GGACACATGCCGATG
62 GGGTCACACGCCGAGG
* *
10245575 TATTTCTTTTAGATTTCTGTTTTTC-AAAAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCG
1 TA-TT-TTTTA-ATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
*
10245639 GGTCACACGCTGAGG
63 GGTCACACGCCGAGG
* * *
10245654 TATTTTTCTAATTTCTATTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCCCGG
1 TATTTTT-TAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
**
10245719 GT--CACGCTAAGG
64 GTCACACGCCGAGG
* * *
10245731 TA-TTTTAAATTTTTTTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--GT
1 TATTTTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
* *
10245792 AAACATGCCGAGG
66 -CACACGCCGAGG
10245805 TATTTCTTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-
1 TA-TT-TTTT-AATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
* *
10245868 -GTAAACATGCCGAGG
63 GGT-CACACGCCGAGG
10245883 TATTTCTTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
1 TA-TT-TTTT-AATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
10245947 GGTCACACGCCGAGG
63 GGTCACACGCCGAGG
* ** * *
10245962 TATCTTTTTTAATTTTTAATTTTCAAAAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCC
1 TA--TTTTTTAATTTCTGTTTTTC----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
10246027 CCGGGT--CACGCTGAGG
60 TCGGGTCACACGCCGAGG
* * * *** * ** * *
10246043 TA-TTTTCAATTTATATTTTTTTTTAAAATCAACTTATATTGTAAGAGGTGTGTTGAGCCT-TGG
1 TATTTTTTAATTTCT-GTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
* *
10246106 ACACATGCCGAGG
65 TCACACGCCGAGG
10246119 TATTTCTTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
1 TA-TT-TTTT-AATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
*
10246183 GGT--CACGCTGAGG
63 GGTCACACGCCGAGG
* *
10246196 TA-TTTTTAATTTCTATTTTTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 TATTTTTTAATTTC---TGTTTTT-CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* *
10246260 --GTAAACATGCCGAGG
62 GGGT-CACACGCCGAGG
* *
10246275 TATTTCTTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCA
1 TA-TT-TTTT-AATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
*
10246339 GGTCACACGCTGAGG
63 GGTCACACGCCGAGG
* * * * * * * * * * *
10246354 TATGTTTTTTAATTTCTATTTTTC--ATAATGCGA--GA-AGTGAGTTGAGCCTCAGGTCA-CGC
1 TA--TTTTTTAATTTCTGTTTTTCAAAAAAT-CAACTCATATTGCG-AGAG-GTGAGTTGAGC-C
* **** * **
10246413 T-GATGT-A-TTTTCAATT
60 TCG-GGTCACACGCCGAGG
* * * * * * *
10246429 TATGTTTT-GTTT-T-TTTTT---TAAATTAACTCATATTGCGAGAGGTGAGTTAAGCCT-TGGA
1 TATTTTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
*
10246487 CACATGCCGAGG
66 CACACGCCGAGG
* * * *
10246499 TATTTCTTTTAAATTTTTGTTTTTC-AAAATTCAACTCATATTACGAGAGGTTAGTTGAGCCTCG
1 TA-TT-TTTT-AATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
* *
10246563 AGTCACACGCCGGGG
63 GGTCACACGCCGAGG
* * *
10246578 TATTTTTTAATTTCTGTTTTTCAAAAAAATCAACTTAGAATGCGAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTTAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
*
10246643 T--CACGCTGAGG
65 TCACACGCCGAGG
* ** *** * ***
10246654 TA-GTTCCAATTTCTGTTTTT-TTTAAATCAACTCATATTGCGACAGGTGAGTTGAGCCTC-AAA
1 TATTTTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
* *
10246716 CATATGCCGAGG
66 CACACGCCGAGG
10246728 TATTTCTTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
1 TA-TT-TTTT-AATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
*
10246792 GGTCACACGCTGAGG
63 GGTCACACGCCGAGG
* * * *
10246807 TATCTTTCTTAATTTCTATTTTTCAAAAAAAAAATAATCAACTCATAATGTGAGAAGTGAGTTGA
1 TAT-TTT-TTAATTTCTGTTTTTC------AAAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
*
10246872 GCCTCGGGT--CACGCTGAGG
57 GCCTCGGGTCACACGCCGAGG
* *
10246891 TA-TTTTCAATTTTTGTTTTT
1 TATTTTTTAATTTCTGTTTTT
10246911 TTTTTTAAAA
Statistics
Matches: 2336, Mismatches: 315, Indels: 279
0.80 0.11 0.10
Matches are distributed among these distances:
68 2 0.00
69 11 0.00
70 16 0.01
71 42 0.02
72 17 0.01
73 445 0.19
74 27 0.01
75 134 0.06
76 169 0.07
77 141 0.06
78 686 0.29
79 185 0.08
80 228 0.10
81 55 0.02
82 7 0.00
83 120 0.05
84 12 0.01
85 3 0.00
86 36 0.02
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (77 bp):
TATTTTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
CACACGCCGAGG
Found at i:10246706 original size:151 final size:152
Alignment explanation
Indices: 10246529--10246808 Score: 397
Period size: 151 Copynumber: 1.8 Consensus size: 152
10246519 TTTTCAAAAT
* * ** *
10246529 TCAACTCATATTACGAGAGGTTAGTTGAGCCTCGAGTCACACGCCGGGGTA-TT-TTTT-AATTT
1 TCAACTCATATTACGACAGGTGAGTTGAGCCTC-AAACACACGCCGAGGTATTTCTTTTAAATTT
*
10246591 CTGTTTTTCAAAAAAATCAACTTAGAATGCGAGAGGTGAGTTGAGCCTCGGGT-CACGCTGAGGT
65 CTGTTTTTC--AAAAATCAACTCAGAATGCGAGAGGTGAGTTGAGCCTCGGGTACACGCTGAGGT
10246655 AGTTCCAATTTCTGTTTTTTTTAAA
128 AGTTCCAATTTCTGTTTTTTTTAAA
* * *
10246680 TCAACTCATATTGCGACAGGTGAGTTGAGCCTCAAACATATGCCGAGGTATTTCTTTTAAATTTC
1 TCAACTCATATTACGACAGGTGAGTTGAGCCTCAAACACACGCCGAGGTATTTCTTTTAAATTTC
* *
10246745 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTA
66 TGTTTTTCAAAAATCAACTCAGAATGCGAGAGGTGAGTTGAGCCTCGGGT-ACACGCTGAGGTA
10246809 TCTTTCTTAA
Statistics
Matches: 113, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
150 12 0.11
151 71 0.63
152 4 0.04
153 26 0.23
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (152 bp):
TCAACTCATATTACGACAGGTGAGTTGAGCCTCAAACACACGCCGAGGTATTTCTTTTAAATTTC
TGTTTTTCAAAAATCAACTCAGAATGCGAGAGGTGAGTTGAGCCTCGGGTACACGCTGAGGTAGT
TCCAATTTCTGTTTTTTTTAAA
Found at i:10247197 original size:78 final size:76
Alignment explanation
Indices: 10246938--10248660 Score: 1500
Period size: 78 Copynumber: 22.3 Consensus size: 76
10246928 ATATTGATTA
* *
10246938 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGTGAGAGTTGAGTTGAGCCTCGGGTCACA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-GGGTCACA
* *
10247003 CGCTGAGGTA--
65 TGCCGAGGTATT
* ** * *
10247013 TTTTCAATTTCTGTTTTTTTTAAAATCAACTAATATTGCGAGAGGTGAGTTGAGCCTCGTGTCAC
1 TTTTAAATTTCTG-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-GGGTCAC
*
10247078 --GCTGAGGTA-T
64 ATGCCGAGGTATT
** * * * * *
10247088 TTTT-AATTTCTGTTTTTTTAAAATCATCTCATATTACAAGAGGTGAGTTGAGCCTTGGACACAT
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTGGGTCACAT
10247152 GCCGAGGTATTT
66 GCCGAGGTA-TT
* *
10247164 CTTTTAAATTTCTGTTTTACAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
1 -TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-GGGTCAC
* *
10247229 ACGCCGGGGTATT
64 ATGCCGAGGTATT
* * * *
10247242 TTTTAAGTTT-TGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGACAC
1 TTTTAAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTGGGTCAC
10247306 ATGCCGAGGTATTT
64 ATGCCGAGGTA-TT
* * * *
10247320 CTTTTAAATTTCTGTTTTACAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CGACACA
1 -TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTGGGTCACA
*
10247384 TGTCGAGGTATTT
65 TGCCGAGGTA-TT
* *
10247397 ATTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGTGAGAGTTGAGTTGAGCCTCGGGTCAC
1 -TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-GGGTCAC
* *
10247462 ACGCTGAGGTA--
64 ATGCCGAGGTATT
* ** * *
10247473 TTTTCAATTTCTGTTTTTTTTAAAATCAACTAATATTGCGAGAGGTGAGTTGAGCCTCGTGTCAC
1 TTTTAAATTTCTG-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-GGGTCAC
*
10247538 --GCTGAGGTA-T
64 ATGCCGAGGTATT
** * * * * *
10247548 TTTT-AATTTCTGTTTTTTTAAAATCATCTCATATTACAAGAGGTGAGTTGAGCCTTGGACACAT
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTGGGTCACAT
10247612 GCCGAGGTATTT
66 GCCGAGGTA-TT
*
10247624 CTTTTAAATTTCTGTTTTTCAAAAATCCAA-TCATATTGCTAGAGGTGAGTTGAGCCTCGGGTCA
1 -TTTTAAATTTCTGTTTTTCAAAAAT-CAACTCATATTGCGAGAGGTGAGTTGAGCCT-GGGTCA
* * *
10247688 TACGCCGAGGCATTT
63 CATGCCGAGGTA-TT
* * *
10247703 TTTTTAATTT-TCGTTTTTCAAAAAAATCAACTTATAATGCGAGAGGTGAGTTGAGCCTCGGGTC
1 TTTTAAATTTCT-GTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-GGGTC
*
10247767 AC--GCTGAGGTA--
62 ACATGCCGAGGTATT
* * * *
10247778 TTTTAAATTTCTGTTTTTTAAAAATGAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACAT
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTGGGTCACAT
10247843 GCCGAGGTATTT
66 GCCGAGGTA-TT
* *
10247855 CTTTTAAATTTTTGTTTTTCAAAAAAAATCAACTCATAATGCAGAAAAAAAGAGAGGTGAGTTGA
1 -TTTTAAATTTCTGTTTTTC---AAAAATCAACTCATATTGC---------GAGAGGTGAGTTGA
**
10247920 GCCTCGGGTCACA--CTAAGGTA-T
53 GCCT-GGGTCACATGCCGAGGTATT
* * *
10247942 TTTCAAA-TTCTATTTTT-TAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-GGGTCACA
**
10248005 --CTAAGGTA-T
65 TGCCGAGGTATT
* * *
10248014 TTTCAAA-TTCTATTTTT-TAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-GGGTCACA
*
10248077 CGCCGAGGTATCT
65 TGCCGAGGTAT-T
* * * *
10248090 TTTTTAATTTCTAG-TTTTCAAAAAAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCCCG
1 TTTTAAATTTCT-GTTTTTC------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CCTG
*
10248154 GGTCAC--GCTGAGGTA--
58 GGTCACATGCCGAGGTATT
* ** * * * *
10248169 TTTTCAATTTCTGTTTTTTTTAAAATCAACTTATATTGTGAGAGGTGAGTTGAGCCTTGGACACA
1 TTTTAAATTTCTG-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTGGGTCACA
10248234 TGCCGAGGTATTT
65 TGCCGAGGTA-TT
* *
10248247 CTTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGTCAC
1 -TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-GGGTCAC
10248312 ATGCCGAGGTATT
64 ATGCCGAGGTATT
*
10248325 TTTT-AA-TT-T-TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGTCA
1 TTTTAAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-GGGTCA
* *
10248386 C--GCTGATGTATTTTT
63 CATGCCGAGGTA---TT
* * *
10248401 TTTTAAATTTCTGTTTTTCATATAAAGAAAAATCAACTCATATTGCGAGAGGTAATTTGAGCCTC
1 TTTTAAATTTCTGTTTTTC--------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTG
*
10248466 GGACACATGCCGAGGTATTT
58 GGTCACATGCCGAGGTA-TT
* * *
10248486 CTTTTAAATTT-TGGTTTTTTCTAAAATGAACTCATATTGCGAGAGGTGAGTTGAGCTTGGGTCA
1 -TTTTAAATTTCT-G-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTGGGTCA
* *
10248550 CATACCGAGGTATC
63 CATGCCGAGGTATT
* ** * * *
10248564 TTTTAAATTTCTATTTTTCAAAAAGAAACTCATAATGCTAGAGGTGAGTTGAGCCTCGGGCCACA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-GGGTCACA
** *
10248629 CACCTAGGTA--
65 TGCCGAGGTATT
* *
10248639 TTTTCAAGTTCTGTTTTTCAAA
1 TTTTAAATTTCTGTTTTTCAAA
10248661 GAAAAAGAAA
Statistics
Matches: 1386, Mismatches: 167, Indels: 190
0.80 0.10 0.11
Matches are distributed among these distances:
72 112 0.08
73 132 0.10
74 94 0.07
75 119 0.09
76 151 0.11
77 141 0.10
78 246 0.18
79 142 0.10
80 54 0.04
81 34 0.02
82 8 0.01
84 38 0.03
85 19 0.01
86 52 0.04
87 14 0.01
89 6 0.00
90 18 0.01
91 6 0.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (76 bp):
TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTGGGTCACAT
GCCGAGGTATT
Found at i:10247930 original size:163 final size:152
Alignment explanation
Indices: 10246938--10248622 Score: 1059
Period size: 153 Copynumber: 10.9 Consensus size: 152
10246928 ATATTGATTA
* * *
10246938 TTTTAAA-TTTCTGTTTTTC--AAAAATCAACTCATATTGTGAGAGTTGAGTTGAGCCTCGGGTC
1 TTTTAAATTTTC-GTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTC
* * * *
10247000 ACACGCTGAGGTATTTTCAATTTCTGTTTTTTTTAAAATCAACTAATATTGCGAGAGGTGAGTTG
65 ACA--CTAAGGTATTTTAAATTTCTG-TTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* * *
10247065 AGCCTCGTG--TCACGCTGAGG--TAT
127 AGCCTCG-GACACACGCCGAGGCATTT
** * * * * * *
10247088 TTTT-AA-TTTCTGTTTTT--TTAAAATCATCTCATATTACAAGAGGTGAGTTGAGCCT-TGGAC
1 TTTTAAATTTTC-GTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTC
** ** *
10247148 ACATGCCGAGGTATTTCTTTTAAATTTCTGTTTTACAAAATTCAACTCATATTGCGAGAGGTGAG
65 ACA--CTAAGGTA----TTTTAAATTTCTGTTTTTTAAAAATCAACTCATATTGCGAGAGGTGAG
* * *
10247213 TTGAGCCTCGGGTCACACGCCGGGGTA-TT
124 TTGAGCCTC-GGACACACGCCGAGGCATTT
* * *
10247242 TTTTAAGTTTT-GTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCT-TGGACA
1 TTTTAAATTTTCGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCA
** ** *
10247305 CATGCCGAGGTATTTCTTTTAAATTTCTGTTTTACAAAATTCAACTCATATTGCGAGAGGTGAGT
66 CA--CTAAGGTA----TTTTAAATTTCTGTTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGT
* * *
10247370 TGAGCCTC-GACACATGTCGAGGTATTT
125 TGAGCCTCGGACACACGCCGAGGCATTT
* * *
10247397 ATTTTAAA-TTTCTGTTTTTC--AAAAATCAACTCATATTGTGAGAGTTGAGTTGAGCCTCGGGT
1 -TTTTAAATTTTC-GTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGT
* * * *
10247459 CACACGCTGAGGTATTTTCAATTTCTGTTTTTTTTAAAATCAACTAATATTGCGAGAGGTGAGTT
64 CACA--CTAAGGTATTTTAAATTTCTG-TTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTT
* * *
10247524 GAGCCTCGTG--TCACGCTGAGG--TAT
126 GAGCCTCG-GACACACGCCGAGGCATTT
** * * * * * *
10247548 TTTT-AA-TTTCTGTTTTT--TTAAAATCATCTCATATTACAAGAGGTGAGTTGAGCCT-TGGAC
1 TTTTAAATTTTC-GTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTC
** * *
10247608 ACATGCCGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAAATCCAA-TCATATTGCTAGAGGTGA
65 ACA--CTAAGGTA----TTTTAAATTTCTGTTTTTTAAAAAT-CAACTCATATTGCGAGAGGTGA
* *
10247672 GTTGAGCCTCGGGTCATACGCCGAGGCATTT
123 GTTGAGCCTC-GGACACACGCCGAGGCATTT
* *
10247703 TTTTTAATTTTCGTTTTTCAAAAAAATCAACTTATAATGCGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTAAATTTTCGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCA
* * *
10247768 CGCTGAGGTATTTTAAATTTCTGTTTTTTAAAAATGAACTCATATTGCGAGAGGTGAGTTGAGCC
66 CACTAAGGTATTTTAAATTTCTGTTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
10247833 TCGGACACATGCCGAGGTATTT
131 TCGGACACACGCCGAGGCATTT
*
10247855 CTTTTAAATTTTTGTTTTTCAAAAAAAATCAACTCATAATGCAGAAAAAAAGAGAGGTGAGTTGA
1 -TTTTAAATTTTCGTTTTTC-AAAAAAATCAACTCATAATGC---------GAGAGGTGAGTTGA
*
10247920 GCCTCGGGTCACACTAAGGTATTTTCAAA-TTCTATTTTTT-AAAATCAACTCATATTGCGAGAG
55 GCCTCGGGTCACACTAAGGTATTTT-AAATTTCTGTTTTTTAAAAATCAACTCATATTGCGAGAG
* ** *
10247983 GTGAGTTGAGCCTCGGGTCACA--CTAAGG--TAT
119 GTGAGTTGAGCCTC-GGACACACGCCGAGGCATTT
* * * * *
10248014 TTTCAAATTCT-ATTTTT---TAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTAAATTTTCGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCA
** * ** * *
10248075 CACGCCGAGGTATCTTTTTTAATTTCTAGTTTTCAAAAAAAAAAATCAACTCATAATGCGAGAAG
66 CA--CTAAGGTA---TTTTAAATTTCT-GTTTT-----TTAAAAATCAACTCATATTGCGAGAGG
* ** * *
10248140 TGAGTTGAGCCCCGG-GTCACGCTGAGG---TA
120 TGAGTTGAGCCTCGGACACACGCCGAGGCATTT
* *** * * * * *
10248169 TTTTCAA-TTTCTGTTTTT-TTTAAAATCAACTTATATTGTGAGAGGTGAGTTGAGCCT-TGGAC
1 TTTTAAATTTTC-GTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTC
** * *
10248231 ACATGCCGAGGTATTTCTTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG
65 ACA--CTAAGGTA----TTTTAAATTTCTGTTTTTTAAAAATCAACTCATATTGCGAGAGGTGAG
* * * *
10248296 TTGAGTCTCGGGTCACATGCCGAGGTA-TT
124 TTGAGCCTC-GGACACACGCCGAGGCATTT
* *
10248325 TTTT-AA-TTT--TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGTCA
1 TTTTAAATTTTCGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCA
* * *
10248386 CGCTGATGTATTTTTTTTTAAATTTCTGTTTTTCATATAAAGAAAAATCAACTCATATTGCGAGA
66 CACTAAGGTA-----TTTTAAATTTCTG-TTTT--T-T----AAAAATCAACTCATATTGCGAGA
* * * *
10248451 GGTAATTTGAGCCTCGGACACATGCCGAGGTATTT
118 GGTGAGTTGAGCCTCGGACACACGCCGAGGCATTT
* * * * *
10248486 CTTTTAAATTTTGGTTTTTTC--TAAAATGAACTCATATTGCGAGAGGTGAGTTGAG-CTTGGGT
1 -TTTTAAATTTTCG-TTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGT
* * ** * *
10248548 CACA-TACCGAGGTATCTTTTAAATTTCTATTTTTCAAAAAGAAACTCATAATGCTAGAGGTGAG
64 CACACTA---AGGTA--TTTTAAATTTCTGTTTTTTAAAAATCAACTCATATTGCGAGAGGTGAG
10248612 TTGAGCCTCGG
124 TTGAGCCTCGG
10248623 GCCACACACC
Statistics
Matches: 1263, Mismatches: 175, Indels: 189
0.78 0.11 0.12
Matches are distributed among these distances:
144 27 0.02
146 6 0.00
148 30 0.02
149 96 0.08
150 12 0.01
151 79 0.06
152 104 0.08
153 197 0.16
154 64 0.05
155 93 0.07
156 192 0.15
157 42 0.03
158 87 0.07
159 7 0.01
160 17 0.01
161 41 0.03
162 44 0.03
163 69 0.05
164 15 0.01
165 31 0.02
166 4 0.00
167 6 0.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (152 bp):
TTTTAAATTTTCGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCA
CACTAAGGTATTTTAAATTTCTGTTTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
TCGGACACACGCCGAGGCATTT
Found at i:10247994 original size:72 final size:73
Alignment explanation
Indices: 10247906--10248629 Score: 580
Period size: 72 Copynumber: 9.4 Consensus size: 73
10247896 CAGAAAAAAA
* *
10247906 GAGAGGTGAGTTGAGCCTCGGGTCACACTAAGGTATTTTCAAATTCTATTTTT-TAAAATCAACT
1 GAGAGGTGAGTTGAGCCTCGGGTCACACTGAGGTATTTTTAAATTCTATTTTTCTAAAATCAACT
10247970 CATATTGC
66 CATATTGC
* *
10247978 GAGAGGTGAGTTGAGCCTCGGGTCACACTAAGGTATTTTCAAATTCTATTTTT-TAAAATCAACT
1 GAGAGGTGAGTTGAGCCTCGGGTCACACTGAGGTATTTTTAAATTCTATTTTTCTAAAATCAACT
10248042 CATATTGC
66 CATATTGC
* * *
10248050 GAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATCTTTTTTAATTTCTAGTTTTCAAAAAA
1 GAGAGGTGAGTTGAGCCTCGGGTCACA--CTGAGGTA---TTTTTAAATTCTATTTTTC------
* *
10248115 AAAAATCAACTCATAATGC
55 TAAAATCAACTCATATTGC
* * * * * * *
10248134 GAGAAGTGAGTTGAGCCCCGGGTCACGCTGAGGTATTTTCAATTTCTGTTTTTTTTAAAATCAAC
1 GAGAGGTGAGTTGAGCCTCGGGTCACACTGAGGTATTTTTAAATTCT-ATTTTTCTAAAATCAAC
* *
10248199 TTATATTGT
65 TCATATTGC
* * * *
10248208 GAGAGGTGAGTTGAGCCT-TGGACACATGCCGAGGTATTTCTTTTAAATTTCTATTTTTCAAAAA
1 GAGAGGTGAGTTGAGCCTCGGGTCACA--CTGAGGTA--T-TTTTAAA-TTCTATTTTTCTAAAA
10248272 TCAACTCATATTGC
60 TCAACTCATATTGC
* * * *
10248286 GAGAGGTGAGTTGAGTCTCGGGTCACATGCCGAGGTATTTTTTAATT-T-TTTTTCAAAAAAATC
1 GAGAGGTGAGTTGAGCCTCGGGTCACA--CTGAGGTATTTTTAAATTCTATTTTTC--TAAAATC
10248349 AACTCATATTGC
62 AACTCATATTGC
* * * *
10248361 GAGAGGTGAGTTAAGCCTCGGGTCACGCTGATGTATTTTTTTTTAAATTTCTGTTTTTCATATAA
1 GAGAGGTGAGTTGAGCCTCGGGTCACACTGAGGTA----TTTTTAAA-TTCTATTTTTC---T--
10248426 AGAAAAATCAACTCATATTGC
56 ---AAAATCAACTCATATTGC
* * * * * *
10248447 GAGAGGTAATTTGAGCCTC-GGACACATGCCGAGGTATTTCTTTTAAATTTTGGTTTTTTCTAAA
1 GAGAGGTGAGTTGAGCCTCGGGTCACA--CTGAGGTA--T-TTTTAAATTCT--ATTTTTCTAAA
*
10248511 ATGAACTCATATTGC
59 ATCAACTCATATTGC
* * * **
10248526 GAGAGGTGAGTTGAG-CTTGGGTCACATACCGAGGTATCTTTTAAATTTCTATTTTTCAAAAAGA
1 GAGAGGTGAGTTGAGCCTCGGGTCAC--ACTGAGGTAT-TTTTAAA-TTCTATTTTTCTAAAATC
*
10248590 AACTCATAATGC
62 AACTCATATTGC
* *
10248602 TAGAGGTGAGTTGAGCCTCGGGCCACAC
1 GAGAGGTGAGTTGAGCCTCGGGTCACAC
10248630 ACCTAGGTAT
Statistics
Matches: 540, Mismatches: 67, Indels: 87
0.78 0.10 0.13
Matches are distributed among these distances:
72 99 0.18
73 17 0.03
74 38 0.07
75 54 0.10
76 41 0.08
77 41 0.08
78 50 0.09
79 75 0.14
80 10 0.02
81 2 0.00
82 7 0.01
84 42 0.08
85 11 0.02
86 41 0.08
87 12 0.02
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (73 bp):
GAGAGGTGAGTTGAGCCTCGGGTCACACTGAGGTATTTTTAAATTCTATTTTTCTAAAATCAACT
CATATTGC
Found at i:10248084 original size:235 final size:225
Alignment explanation
Indices: 10246957--10248629 Score: 1267
Period size: 231 Copynumber: 7.2 Consensus size: 225
10246947 TCTGTTTTTC
* * * * *
10246957 AAAAATCAACTCATATTGTGAG-AGTTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAAT
1 AAAAATCAACTCATAATGCGAGAAG-TGAGTTGAGCCCCGGGTCACA--CTAAGGTATTTTCAAA
* * * *
10247021 TTCTGTTTTTTTTAAAATCAACTAATATTGCGAGAGGTGAGTTGAGCCTCGTGTCACGCTGAGGT
63 TTC-GTATTTTTTAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACTGAGGT
* * * * * * *
10247086 ATTTTTAATTTCTGTTTTTTTAAAATCATCTCATATTACAAGAGGTGAGTTGAGCCT-TGGACAC
127 ATTTTAAATTTCT-ATTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
* *
10247150 ATGCCGAGGTATTTCTTTTAAATTTCTG-TTTT--AC
191 ATGCCGAGGTATTT-TTTT-AATTTTTGTTTTTCAAA
* * * * *** *
10247184 AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGGGGTATTTTTTAAG
1 AAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCCCGGGTCACA--CTAAGGTA-TTTTCAA-
* * ** * * * * *
10247249 TTTTGT-TTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCT-TGGACACATGCCG
62 ATTCGTATTTT--TTAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA--CTG
* **
10247312 AGGTATTTCTTTTAAATTTCTGTTTTACAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCT
123 AGGTA----TTTTAAATTTCTATTTTTTAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* * *
10247377 C--GACACATGTCGAGGTATTTATTTTAAATTTCTGTTTTTC---
183 CGGGTCACATGCCGAGGTATTT-TTTT-AATTTTTGTTTTTCAAA
* * * * *
10247417 AAAAATCAACTCATATTGTGAG-AGTTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTCAAT
1 AAAAATCAACTCATAATGCGAGAAG-TGAGTTGAGCCCCGGGTCACA--CTAAGGTATTTTCAAA
* * * *
10247481 TTCTGTTTTTTTTAAAATCAACTAATATTGCGAGAGGTGAGTTGAGCCTCGTGTCACGCTGAGGT
63 TTC-GTATTTTTTAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACTGAGGT
* * * * * * *
10247546 ATTTTTAATTTCTGTTTTTTTAAAATCATCTCATATTACAAGAGGTGAGTTGAGCCT-TGGACAC
127 ATTTTAAATTTCT-ATTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
*
10247610 ATGCCGAGGTATTTCTTTTAAATTTCTGTTTTTC---
191 ATGCCGAGGTATTT-TTTT-AATTTTTGTTTTTCAAA
* * * * * ** * *
10247644 AAAAATCCAA-TCATATTGCTAGAGGTGAGTTGAGCCTCGGGTCATACGCCGAGGCATTTTTTTT
1 AAAAAT-CAACTCATAATGCGAGAAGTGAGTTGAGCCCCGGGTC--ACACTAAGG---TATTTTC
* ** * *
10247708 AATTTTCGT-TTTTCAAAAAAATCAACTTATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGCT
60 AA-ATTCGTATTTT--TTAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACT
* *
10247772 GAGGTATTTTAAATTTCTGTTTTTTAAAAATGAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G
122 GAGGTATTTTAAATTTCTATTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
*
10247836 GACACATGCCGAGGTATTTCTTTTAAATTTTTGTTTTTCAAA
186 GTCACATGCCGAGGTATTT-TTTT-AATTTTTGTTTTTCAAA
*
10247878 AAAAATCAACTCATAATGCAGAAAAAAAGAGAGGTGAGTTGAGCCTCGGGTCACACTAAGGTATT
1 AAAAATCAACTCATAATGC-G------AGA-A-GTGAGTTGAGCCCCGGGTCACACTAAGGTATT
*
10247943 TTCAAATTC-TATTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACT
57 TTCAAATTCGTATTTTTTAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACT
*
10248007 AAGGTATTTTCAAA-TTCTATTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
122 GAGGTATTTT-AAATTTCTATTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
* *
10248071 GTCACACGCCGAGGTATCTTTTTTAATTTCTAG-TTTTCAAAAAA
186 GTCACATGCCGAGGTAT-TTTTTTAATTT-TTGTTTTTC---AAA
* * *
10248115 AAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCCCGGGTCACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCCCGGGTCACACTAAGGTATTTTCAAATTC
* * * * *
10248180 TGTTTTTTTTAAAATCAACTTATATTGTGAGAGGTGAGTTGAGCCT-TGGACACATGCCGAGGTA
66 -GTATTTTTTAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACA--CTGAGGTA
* *
10248244 TTTCTTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGT
128 ----TTTTAAATTTCTATTTTT-TAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
10248309 CACATGCCGAGGTA-TTTTTTAA--TTT-TTTTTC-AA
188 CACATGCCGAGGTATTTTTTTAATTTTTGTTTTTCAAA
* * * * * * * *
10248342 AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGTCACGCTGATGTATTTTTTTTTAA
1 AAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCCCGGGTCACACTAAGGTA----TTTTCAA
* * * *
10248407 ATTTCTGT-TTTTCATATAAAGAAAAATCAACTCATATTGCGAGAGGTAATTTGAGCCTC-GGAC
62 A-TTC-GTATTTT--T-T-----AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
* * *
10248470 ACATGCCGAGGTATTTCTTTTAAATTT-TGGTTTTTTCTAAAATGAACTCATATTGCGAGAGGTG
117 ACA--CTGAGGTA----TTTTAAATTTCT--ATTTTT-TAAAATCAACTCATATTGCGAGAGGTG
* * * * * *
10248534 AGTTGAG-CTTGGGTCACATACCGAGGTATCTTTTAAATTTCTATTTTTC-AA
173 AGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTTTAATTTTTGTTTTTCAAA
* * * * *
10248585 AAAGA--AACTCATAATGCTAGAGGTGAGTTGAGCCTCGGGCCACAC
1 AAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCCCGGGTCACAC
10248630 ACCTAGGTAT
Statistics
Matches: 1231, Mismatches: 129, Indels: 158
0.81 0.08 0.10
Matches are distributed among these distances:
226 40 0.03
227 188 0.15
228 54 0.04
229 50 0.04
230 73 0.06
231 195 0.16
232 20 0.02
233 96 0.08
234 116 0.09
235 99 0.08
236 60 0.05
237 29 0.02
238 8 0.01
239 82 0.07
240 44 0.04
241 44 0.04
242 2 0.00
243 31 0.03
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.36
Consensus pattern (225 bp):
AAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCCCGGGTCACACTAAGGTATTTTCAAATTC
GTATTTTTTAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACTGAGGTATTT
TAAATTTCTATTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCC
GAGGTATTTTTTTAATTTTTGTTTTTCAAA
Found at i:10248491 original size:86 final size:86
Alignment explanation
Indices: 10248342--10248622 Score: 260
Period size: 86 Copynumber: 3.5 Consensus size: 86
10248332 TTTTTTTCAA
* * * *
10248342 AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGTCAC--GCTGATGTATTTTTTTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCACATGCCGAGGTA-TTTCTTTT
10248405 AAATTTCTGTTTTTCATATAAAG
64 AAATTTCTGTTTTTCATATAAAG
* * *
10248428 AAAAATCAACTCATATTGCGAGAGGTAATTTGAGCCTCGGACACATGCCGAGGTATTTCTTTTAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACATGCCGAGGTATTTCTTTTAA
*
10248493 ATTT-TGGTTTTT--TCT----
66 ATTTCT-GTTTTTCATATAAAG
* * * *
10248508 -AAAATGAACTCATATTGCGAGAGGTGAGTTGAGCTTGGGTCACATACCGAGGTA--TCTTTTAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACATGCCGAGGTATTTCTTTTAA
*
10248570 ATTTCTATTTTTCA-A-AAAG
66 ATTTCTGTTTTTCATATAAAG
* *
10248589 ----A--AACTCATAATGCTAGAGGTGAGTTGAGCCTCGG
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
10248623 GCCACACACC
Statistics
Matches: 164, Mismatches: 21, Indels: 30
0.76 0.10 0.14
Matches are distributed among these distances:
76 29 0.18
77 17 0.10
78 2 0.01
79 47 0.29
84 2 0.01
85 6 0.04
86 54 0.33
87 7 0.04
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.35
Consensus pattern (86 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACATGCCGAGGTATTTCTTTTAA
ATTTCTGTTTTTCATATAAAG
Found at i:10248638 original size:77 final size:76
Alignment explanation
Indices: 10248435--10248660 Score: 228
Period size: 79 Copynumber: 3.0 Consensus size: 76
10248425 AAGAAAAATC
* * *
10248435 AACTCATATTGCGAGAGGTAATTTGAGCCTC-GGACACATGCCGAGGTATTTCTTTTAAATTT-T
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACATACCGAGGTA--TCTTTTAAATTTCT
* *
10248498 GGTTTTTTCTAAAATG
64 --ATTTTTC-AAAAAG
* *
10248514 AACTCATATTGCGAGAGGTGAGTTGAG-CTTGGGTCACATACCGAGGTATCTTTTAAATTTCTAT
1 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACATACCGAGGTATCTTTTAAATTTCTAT
10248578 TTTTCAAAAAG
66 TTTTCAAAAAG
* * * * * * * *
10248589 AAACTCATAATGCTAGAGGTGAGTTGAGCCTCGGGCCACACACCTAGGTA--TTTTCAAGTTCTG
1 -AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACATACCGAGGTATCTTTTAAATTTCTA
10248652 TTTTTCAAA
65 TTTTTCAAA
10248661 GAAAAAGAAA
Statistics
Matches: 127, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
75 24 0.19
76 31 0.24
77 29 0.23
78 3 0.02
79 40 0.31
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (76 bp):
AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACATACCGAGGTATCTTTTAAATTTCTAT
TTTTCAAAAAG
Found at i:10248825 original size:30 final size:29
Alignment explanation
Indices: 10248791--10248957 Score: 165
Period size: 29 Copynumber: 5.7 Consensus size: 29
10248781 GATTTCGTGT
10248791 TTTTTTAAATTTACATTTTAACCCCTAAAC
1 TTTTTTAAA-TTACATTTTAACCCCTAAAC
* * *
10248821 TTTTTAAAATTTCATTTTGACCCCTAAAC
1 TTTTTTAAATTACATTTTAACCCCTAAAC
* * * * *
10248850 TTTTTAAAATTGCATTGTGACCCTTAAAC
1 TTTTTTAAATTACATTTTAACCCCTAAAC
* *
10248879 TTTTTTGAAATTGCATTTTGACCCCTAAAC
1 TTTTTT-AAATTACATTTTAACCCCTAAAC
* * **
10248909 TTTCTTGAAATTATATTTTAA-CCCTAATT
1 TTT-TTTAAATTACATTTTAACCCCTAAAC
10248938 TTTTTTAAAATTACATTTTA
1 TTTTTT-AAATTACATTTTA
10248958 GCCTAGAAGT
Statistics
Matches: 117, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
28 2 0.02
29 70 0.60
30 43 0.37
31 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.05, T:0.47
Consensus pattern (29 bp):
TTTTTTAAATTACATTTTAACCCCTAAAC
Found at i:10248890 original size:59 final size:58
Alignment explanation
Indices: 10248792--10248956 Score: 179
Period size: 59 Copynumber: 2.8 Consensus size: 58
10248782 ATTTCGTGTT
* * *
10248792 TTTTTAAATTTACATTTTAACCCCTAAACTTTTTAAAATTTCATTTTGACCCCTAAAC
1 TTTTTAAAATTACATTGTAACCCCTAAACTTTTTAAAATTGCATTTTGACCCCTAAAC
* * * *
10248850 TTTTTAAAATTGCATTGTGACCCTTAAACTTTTTTGAAATTGCATTTTGACCCCTAAAC
1 TTTTTAAAATTACATTGTAACCCCTAAAC-TTTTTAAAATTGCATTTTGACCCCTAAAC
* * * ** *
10248909 TTTCTTGAAATTATATTTTAA-CCCTAATTTTTTTTAAAATTACATTTT
1 TTT-TTAAAATTACATTGTAACCCCTAA-ACTTTTTAAAATTGCATTTT
10248957 AGCCTAGAAG
Statistics
Matches: 87, Mismatches: 17, Indels: 5
0.80 0.16 0.05
Matches are distributed among these distances:
58 24 0.28
59 51 0.59
60 12 0.14
ACGTcount: A:0.31, C:0.17, G:0.05, T:0.47
Consensus pattern (58 bp):
TTTTTAAAATTACATTGTAACCCCTAAACTTTTTAAAATTGCATTTTGACCCCTAAAC
Found at i:10249237 original size:16 final size:15
Alignment explanation
Indices: 10249212--10249251 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
10249202 GAAAAAAGAG
10249212 AAGAAAAGAGGAGGA
1 AAGAAAAGAGGAGGA
10249227 AAGAGAAAGAGGAGG-
1 AAGA-AAAGAGGAGGA
10249242 -AGAAAAGAGG
1 AAGAAAAGAGG
10249252 GAGTACTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 7 0.29
14 3 0.12
15 4 0.17
16 10 0.42
ACGTcount: A:0.57, C:0.00, G:0.42, T:0.00
Consensus pattern (15 bp):
AAGAAAAGAGGAGGA
Found at i:10249325 original size:3 final size:3
Alignment explanation
Indices: 10249317--10249381 Score: 60
Period size: 3 Copynumber: 21.3 Consensus size: 3
10249307 CGCCGCGACT
* *
10249317 AGA AGA AGA AGA AGGA AGA AGA AGA AGA AGA AAA AGAA AGA A-A AAA
1 AGA AGA AGA AGA A-GA AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA
* * *
10249363 AGA AAA AAA AGA AAA AGA A
1 AGA AGA AGA AGA AGA AGA A
10249382 AAAATAAATT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
2 2 0.04
3 44 0.85
4 6 0.12
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:10249343 original size:9 final size:9
Alignment explanation
Indices: 10249317--10249385 Score: 70
Period size: 9 Copynumber: 7.7 Consensus size: 9
10249307 CGCCGCGACT
*
10249317 AGAAGAAGA
1 AGAAAAAGA
*
10249326 AGAAGGAAGA
1 AGAA-AAAGA
*
10249336 AGAAGAAGA
1 AGAAAAAGA
10249345 AGAAAAAGAA
1 AGAAAAAG-A
10249355 AGAAAAA-A
1 AGAAAAAGA
*
10249363 AGAAAAAAA
1 AGAAAAAGA
10249372 AGAAAAAGA
1 AGAAAAAGA
10249381 A-AAAA
1 AGAAAA
10249386 TAAATTATAT
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
8 12 0.22
9 26 0.47
10 17 0.31
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (9 bp):
AGAAAAAGA
Found at i:10249366 original size:8 final size:8
Alignment explanation
Indices: 10249348--10249385 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
10249338 AAGAAGAAGA
10249348 AAAAGAAAG
1 AAAA-AAAG
10249357 AAAAAAAG
1 AAAAAAAG
10249365 AAAAAAA-
1 AAAAAAAG
*
10249372 AGAAAAAG
1 AAAAAAAG
10249380 AAAAAA
1 AAAAAA
10249386 TAAATTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
7 6 0.23
8 16 0.62
9 4 0.15
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:10249373 original size:17 final size:18
Alignment explanation
Indices: 10249344--10249378 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
10249334 GAAGAAGAAG
10249344 AAGAAAAAGAAAGAAAAA
1 AAGAAAAAGAAAGAAAAA
10249362 AAGAAAAA-AAAGAAAAA
1 AAGAAAAAGAAAGAAAAA
10249379 GAAAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (18 bp):
AAGAAAAAGAAAGAAAAA
Found at i:10249507 original size:16 final size:16
Alignment explanation
Indices: 10249481--10249530 Score: 73
Period size: 16 Copynumber: 3.0 Consensus size: 16
10249471 AGCCGGCCCA
10249481 AAAAGAAAACAAAGCAG
1 AAAA-AAAACAAAGCAG
10249498 AAAAAAAACAAAGCAG
1 AAAAAAAACAAAGCAG
*
10249514 AAAAAGAAAAAAAGCAG
1 AAAAA-AAACAAAGCAG
10249531 CAGGCCATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 17 0.55
17 14 0.45
ACGTcount: A:0.74, C:0.10, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAAAAACAAAGCAG
Found at i:10249518 original size:17 final size:18
Alignment explanation
Indices: 10249480--10249530 Score: 81
Period size: 17 Copynumber: 3.0 Consensus size: 18
10249470 AAGCCGGCCC
10249480 AAAAAGAAAACAAAGCAG
1 AAAAAGAAAACAAAGCAG
10249498 -AAAA-AAAACAAAGCAG
1 AAAAAGAAAACAAAGCAG
10249514 AAAAAGAAAA-AAAGCAG
1 AAAAAGAAAACAAAGCAG
10249531 CAGGCCATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 12 0.39
17 15 0.48
18 4 0.13
ACGTcount: A:0.75, C:0.10, G:0.16, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAACAAAGCAG
Found at i:10249658 original size:21 final size:20
Alignment explanation
Indices: 10249633--10249697 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 20
10249623 AGCCCAGCAC
10249633 AAAAAGAAAAAAGAGAGGGAA
1 AAAAAGAAAAAAGA-AGGGAA
* **
10249654 AAAAAGAAAAAAAAAAGAAAAA
1 AAAAAG-AAAAAAGAAG-GGAA
10249676 AAAAAGAAAAAAGAA-GGAA
1 AAAAAGAAAAAAGAAGGGAA
10249695 AAA
1 AAA
10249698 TGGTTCAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
19 5 0.14
21 16 0.44
22 15 0.42
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (20 bp):
AAAAAGAAAAAAGAAGGGAA
Found at i:10249666 original size:11 final size:11
Alignment explanation
Indices: 10249652--10249697 Score: 74
Period size: 11 Copynumber: 4.2 Consensus size: 11
10249642 AAAGAGAGGG
10249652 AAAAAAAGAAA
1 AAAAAAAGAAA
10249663 AAAAAAAGAAA
1 AAAAAAAGAAA
10249674 AAAAAAAGAAA
1 AAAAAAAGAAA
* *
10249685 AAAGAAGGAAA
1 AAAAAAAGAAA
10249696 AA
1 AA
10249698 TGGTTCAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:10249697 original size:18 final size:17
Alignment explanation
Indices: 10249653--10249690 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 17
10249643 AAGAGAGGGA
10249653 AAAAAAGAAAAAAAAAAG
1 AAAAAA-AAAAAAAAAAG
10249671 AAAAAAAAAAGAAAAAAG
1 AAAAAAAAAA-AAAAAAG
10249689 AA
1 AA
10249691 GGAAAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAAAAG
Found at i:10249868 original size:5 final size:5
Alignment explanation
Indices: 10249858--10249882 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
10249848 TTATATTTTC
10249858 AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT
10249883 TAAATAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:10251644 original size:14 final size:14
Alignment explanation
Indices: 10251602--10251647 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
10251592 TTCAATTTAT
10251602 TTTAT-TTTATATA
1 TTTATATTTATATA
** *
10251615 TAAATATTTATTTA
1 TTTATATTTATATA
10251629 TTTATATTTATATA
1 TTTATATTTATATA
10251643 TTTAT
1 TTTAT
10251648 TCGTTAATGT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 3 0.12
14 23 0.88
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTATATTTATATA
Found at i:10252328 original size:17 final size:18
Alignment explanation
Indices: 10252306--10252341 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10252296 CTAAAATTTT
10252306 ATTTTAA-TATATTATAC
1 ATTTTAATTATATTATAC
*
10252323 ATTTTAATTTTATTATAC
1 ATTTTAATTATATTATAC
10252341 A
1 A
10252342 CATTTTAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTTTAATTATATTATAC
Found at i:10254743 original size:34 final size:34
Alignment explanation
Indices: 10254673--10254743 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 34
10254663 CTAGAGATTT
* * * *
10254673 AATTGAATAACTCAAAAAATGTGAACAGGGACAA
1 AATTGAATAACTCAAAAAATGGGAAAAGGAAAAA
* **
10254707 AATTGAATGACTCAAAAAATGGGAAAATTAAAAA
1 AATTGAATAACTCAAAAAATGGGAAAAGGAAAAA
10254741 AAT
1 AAT
10254744 ATAAAAAAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.56, C:0.08, G:0.15, T:0.20
Consensus pattern (34 bp):
AATTGAATAACTCAAAAAATGGGAAAAGGAAAAA
Found at i:10260358 original size:19 final size:19
Alignment explanation
Indices: 10260336--10260376 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
10260326 ATAATTTGAT
* *
10260336 TTGTTAAAAGATTTTTAAC
1 TTGTGAAAAGAATTTTAAC
*
10260355 TTGTGAAAATAATTTTAAC
1 TTGTGAAAAGAATTTTAAC
10260374 TTG
1 TTG
10260377 ATTTTAAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.46
Consensus pattern (19 bp):
TTGTGAAAAGAATTTTAAC
Found at i:10261381 original size:31 final size:32
Alignment explanation
Indices: 10261322--10261387 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
10261312 GGCAAATTAC
10261322 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
10261354 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
10261385 AAG
1 AAG
10261388 TTATCTAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 14 0.41
32 20 0.59
ACGTcount: A:0.47, C:0.12, G:0.11, T:0.30
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:10265842 original size:40 final size:41
Alignment explanation
Indices: 10265798--10265957 Score: 175
Period size: 40 Copynumber: 4.0 Consensus size: 41
10265788 TTTTTAAATA
* * *
10265798 TTTACCAATATTTTTAAAGG-TTTAC-CAAAATTTCTAAGGT
1 TTTACCAAAATTTAT-AAGGATTTACAAAAAATTTCTAAGGT
* *
10265838 TTTACCAAAATTTATAAGGATTTTCAAAAAATTTCTAAGGC
1 TTTACCAAAATTTATAAGGATTTACAAAAAATTTCTAAGGT
10265879 TTTACCAAAATTTATAAGGATTT-CAAAAAATTTCTAAGGT
1 TTTACCAAAATTTATAAGGATTTACAAAAAATTTCTAAGGT
** * * * * *
10265919 TGAATCAAAATATCTAGGGATTTACCAAAAA-TTCTAAGG
1 TTTACCAAAATTTATAAGGATTTACAAAAAATTTCTAAGG
10265958 GCATTTTGGT
Statistics
Matches: 104, Mismatches: 13, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
39 4 0.04
40 58 0.56
41 42 0.40
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (41 bp):
TTTACCAAAATTTATAAGGATTTACAAAAAATTTCTAAGGT
Found at i:10265855 original size:20 final size:20
Alignment explanation
Indices: 10265780--10265957 Score: 130
Period size: 20 Copynumber: 8.8 Consensus size: 20
10265770 CATTTTGGCA
* *
10265780 TACCAAAATTTTTAA-ATATT
1 TACCAAAATTTCTAAGGT-TT
* *
10265800 TACCAATATTTTTAAAGG-TT
1 TACCAAAATTTCT-AAGGTTT
10265820 TACCAAAATTTCTAAGGTTT
1 TACCAAAATTTCTAAGGTTT
*
10265840 TACCAAAATTTATAAGGATTT
1 TACCAAAATTTCTAAGG-TTT
* *
10265861 T-CAAAAAATTTCTAAGGCTT
1 TAC-CAAAATTTCTAAGGTTT
* *
10265881 TACCAAAATTTATAAGGATT
1 TACCAAAATTTCTAAGGTTT
* *
10265901 T-CAAAAAATTTCTAAGGTTG
1 TAC-CAAAATTTCTAAGGTTT
* * * * *
10265921 AATCAAAATATCTAGGGATT
1 TACCAAAATTTCTAAGGTTT
*
10265941 TACCAAAAATTCTAAGG
1 TACCAAAATTTCTAAGG
10265958 GCATTTTGGT
Statistics
Matches: 123, Mismatches: 27, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
19 5 0.04
20 99 0.80
21 19 0.15
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.37
Consensus pattern (20 bp):
TACCAAAATTTCTAAGGTTT
Found at i:10265872 original size:41 final size:40
Alignment explanation
Indices: 10265824--10265919 Score: 174
Period size: 41 Copynumber: 2.4 Consensus size: 40
10265814 AAGGTTTACC
10265824 AAAATTTCTAAGGTTTTACCAAAATTTATAAGGATTTTCAA
1 AAAATTTCTAAGGTTTTACCAAAATTTATAAGGA-TTTCAA
*
10265865 AAAATTTCTAAGGCTTTACCAAAATTTATAAGGATTTCAA
1 AAAATTTCTAAGGTTTTACCAAAATTTATAAGGATTTCAA
10265905 AAAATTTCTAAGGTT
1 AAAATTTCTAAGGTT
10265920 GAATCAAAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
40 20 0.38
41 33 0.62
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (40 bp):
AAAATTTCTAAGGTTTTACCAAAATTTATAAGGATTTCAA
Found at i:10266137 original size:20 final size:20
Alignment explanation
Indices: 10266114--10266239 Score: 84
Period size: 20 Copynumber: 6.4 Consensus size: 20
10266104 CGGTAAACTT
10266114 TTAGAAATATTGTTAAATCC
1 TTAGAAATATTGTTAAATCC
* * *
10266134 TTAGAAATTTTGGT-AATGCT
1 TTAGAAATATTGTTAAAT-CC
* * *
10266154 TTCGAAATATTGATAAATAC
1 TTAGAAATATTGTTAAATCC
* *
10266174 TTAGATATTTTGTTATAAT-C
1 TTAGAAATATTGTTA-AATCC
*
10266194 TTAGAAAT-TTTTGTAAATCC
1 TTAGAAATATTGT-TAAATCC
*
10266214 TTAG--ATATTAG-TAAAACC
1 TTAGAAATATT-GTTAAATCC
10266232 TTAGAAAT
1 TTAGAAAT
10266240 TTTGGTACAT
Statistics
Matches: 81, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
18 12 0.15
19 11 0.14
20 52 0.64
21 6 0.07
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (20 bp):
TTAGAAATATTGTTAAATCC
Found at i:10266149 original size:40 final size:40
Alignment explanation
Indices: 10266105--10266218 Score: 108
Period size: 40 Copynumber: 2.9 Consensus size: 40
10266095 TAGAAACATC
10266105 GGTAAACTTTTAGAAATATTGTTAAATCCTTAGAAATTTT
1 GGTAAACTTTTAGAAATATTGTTAAATCCTTAGAAATTTT
* * * * *
10266145 GGTAATGC-TTTCGAAATATTGATAAATACTTAGATATTTT
1 GGTAA-ACTTTTAGAAATATTGTTAAATCCTTAGAAATTTT
* * *
10266185 GTTATAA-TCTTAGAAAT-TTTTGTAAATCCTTAGA
1 GGTA-AACTTTTAGAAATATTGT-TAAATCCTTAGA
10266219 TATTAGTAAA
Statistics
Matches: 58, Mismatches: 12, Indels: 8
0.74 0.15 0.10
Matches are distributed among these distances:
39 2 0.03
40 54 0.93
41 2 0.03
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.43
Consensus pattern (40 bp):
GGTAAACTTTTAGAAATATTGTTAAATCCTTAGAAATTTT
Found at i:10266427 original size:80 final size:79
Alignment explanation
Indices: 10266282--10266431 Score: 187
Period size: 80 Copynumber: 1.9 Consensus size: 79
10266272 AGCCAAAATA
* * * * *
10266282 TTAAGTTTATCAAGTTTGGGACATTAAGGAAATCTTTAAAAGTTTTGGTAAATCTTTAGCAATTT
1 TTAAGTTGATCAAGATTGAGACACTAAGGAAATCTTTAAAAGTTTTGGTAAACCTTTAG-AATTT
10266347 TGGTATGTCAAGATG
65 TGGTATGTCAAGATG
* *
10266362 TTAAGTTGATCGAGATTGAGACACTAAGGAAATTTTTAGAAA-TTTTGGTAAACCCTTT-GAGAT
1 TTAAGTTGATCAAGATTGAGACACTAAGGAAATCTTTA-AAAGTTTTGGTAAA-CCTTTAGA-AT
10266425 TTTGGTA
63 TTTGGTA
10266432 AGGCTTTAGA
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
79 1 0.02
80 52 0.87
81 7 0.12
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.39
Consensus pattern (79 bp):
TTAAGTTGATCAAGATTGAGACACTAAGGAAATCTTTAAAAGTTTTGGTAAACCTTTAGAATTTT
GGTATGTCAAGATG
Found at i:10266518 original size:40 final size:40
Alignment explanation
Indices: 10266462--10266540 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
10266452 CTCTTATATA
* *
10266462 TTTTGGTATAACCTTATAAATTTTGATAAATCTTTAAAAT
1 TTTTGGTAAAACCTTATAAATTTTGATAAATCCTTAAAAT
* *
10266502 TTTTGGTAAAATCTTATAAATTTTGGTAAATCCTTAAAA
1 TTTTGGTAAAACCTTATAAATTTTGATAAATCCTTAAAA
10266541 AGATTATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.46
Consensus pattern (40 bp):
TTTTGGTAAAACCTTATAAATTTTGATAAATCCTTAAAAT
Found at i:10266537 original size:20 final size:20
Alignment explanation
Indices: 10266401--10266537 Score: 97
Period size: 20 Copynumber: 7.0 Consensus size: 20
10266391 AAATTTTTAG
*
10266401 AAATTTTGGTAAACCCTT-T
1 AAATTTTGGTAAATCCTTAT
* ** * *
10266420 GAGATTTTGGTAAGGCTTTAG
1 -AAATTTTGGTAAATCCTTAT
* *
10266441 AAATTTTGAT-ACT-CTTAT
1 AAATTTTGGTAAATCCTTAT
*
10266459 ATATTTTGGTATAA-CCTTAT
1 AAATTTTGGTA-AATCCTTAT
* *
10266479 AAATTTTGATAAATCTTTA-
1 AAATTTTGGTAAATCCTTAT
10266498 AAATTTTTGGTAAAAT-CTTAT
1 AAA-TTTTGGT-AAATCCTTAT
10266519 AAATTTTGGTAAATCCTTA
1 AAATTTTGGTAAATCCTTA
10266538 AAAAGATTAT
Statistics
Matches: 89, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
18 11 0.12
19 10 0.11
20 61 0.69
21 7 0.08
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (20 bp):
AAATTTTGGTAAATCCTTAT
Found at i:10266693 original size:33 final size:33
Alignment explanation
Indices: 10266643--10266705 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
10266633 TAAAAATTCA
10266643 AGTAAATCCTTAAATATTTTAGAATAACCTTAT
1 AGTAAATCCTTAAATATTTTAGAATAACCTTAT
* * *
10266676 AGTAAATCTTTAGATATTTTAGTATAACCT
1 AGTAAATCCTTAAATATTTTAGAATAACCT
10266706 AATAAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (33 bp):
AGTAAATCCTTAAATATTTTAGAATAACCTTAT
Found at i:10266721 original size:40 final size:40
Alignment explanation
Indices: 10266672--10266859 Score: 143
Period size: 40 Copynumber: 4.7 Consensus size: 40
10266662 TAGAATAACC
* * *
10266672 TTATAGTAAATCTTTAGATATTTTAGTATAACCTAATAAA
1 TTATGGTAAATCCTTAGATATTTTAGTATAACCTAACAAA
* * *
10266712 TTATGGTAAATCCTTAGA-ATTTTTGGTGAT--CTTTACAAA
1 TTATGGTAAATCCTTAGATA-TTTTAGT-ATAACCTAACAAA
* *
10266751 TTATGGTAAATCCTTAGATATTTTAGTATAAACTAAGAAA
1 TTATGGTAAATCCTTAGATATTTTAGTATAACCTAACAAA
* * * * * *
10266791 TTTTGATAAATCCTCAAATATTTT--TATAAATCTTTACAAA
1 TTATGGTAAATCCTTAGATATTTTAGTAT-AA-CCTAACAAA
* * * *
10266831 TTTTAGTAAATCCTTAGAAATTTTGGTAT
1 TTATGGTAAATCCTTAGATATTTTAGTAT
10266860 GTCATAATGT
Statistics
Matches: 115, Mismatches: 24, Indels: 16
0.74 0.15 0.10
Matches are distributed among these distances:
38 5 0.04
39 33 0.29
40 72 0.63
41 2 0.02
42 3 0.03
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (40 bp):
TTATGGTAAATCCTTAGATATTTTAGTATAACCTAACAAA
Found at i:10266772 original size:79 final size:80
Alignment explanation
Indices: 10266672--10266859 Score: 236
Period size: 79 Copynumber: 2.4 Consensus size: 80
10266662 TAGAATAACC
* * * * *
10266672 TTATAGTAAATCTTTAGATATTTTAGTATAACCTAATAAATTATGGTAAATCCTTAGAAT-TTTT
1 TTATAGTAAATCCTTAGATATTTTAGTATAAACTAAGAAATTATGATAAATCCTCA-AATATTTT
* *
10266736 GGT-GATCTTTACAAA
65 GATAAATCTTTACAAA
* * *
10266751 TTATGGTAAATCCTTAGATATTTTAGTATAAACTAAGAAATTTTGATAAATCCTCAAATATTTTT
1 TTATAGTAAATCCTTAGATATTTTAGTATAAACTAAGAAATTATGATAAATCCTCAAATATTTTG
10266816 ATAAATCTTTACAAA
66 ATAAATCTTTACAAA
* * *
10266831 TTTTAGTAAATCCTTAGAAATTTTGGTAT
1 TTATAGTAAATCCTTAGATATTTTAGTAT
10266860 GTCATAATGT
Statistics
Matches: 93, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
78 3 0.03
79 54 0.58
80 36 0.39
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (80 bp):
TTATAGTAAATCCTTAGATATTTTAGTATAAACTAAGAAATTATGATAAATCCTCAAATATTTTG
ATAAATCTTTACAAA
Found at i:10266833 original size:20 final size:19
Alignment explanation
Indices: 10266788--10266854 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 19
10266778 ATAAACTAAG
* *
10266788 AAATTTTGATAAATCCTCA
1 AAATTTTTATAAATCCTTA
*
10266807 AATATTTTTATAAATCTTTA
1 AA-ATTTTTATAAATCCTTA
10266827 CAAA-TTTTAGTAAATCCTTA
1 -AAATTTTTA-TAAATCCTTA
10266847 GAAATTTT
1 -AAATTTT
10266855 GGTATGTCAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 7 0.18
20 27 0.69
21 5 0.13
ACGTcount: A:0.40, C:0.10, G:0.04, T:0.45
Consensus pattern (19 bp):
AAATTTTTATAAATCCTTA
Found at i:10267638 original size:21 final size:23
Alignment explanation
Indices: 10267605--10267647 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
10267595 GTTTTTTTTT
10267605 ATTTTCTCAAATC-AAA-AAATA
1 ATTTTCTCAAATCTAAACAAATA
**
10267626 ATTTTCTTTAATCTAAACAAAT
1 ATTTTCTCAAATCTAAACAAAT
10267648 TAACATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 11 0.61
22 3 0.17
23 4 0.22
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (23 bp):
ATTTTCTCAAATCTAAACAAATA
Found at i:10270075 original size:7 final size:7
Alignment explanation
Indices: 10270063--10270093 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
10270053 AGAATGATAA
10270063 AAAATTC
1 AAAATTC
10270070 AAAATTC
1 AAAATTC
10270077 AAAATTC
1 AAAATTC
10270084 AAAATTC
1 AAAATTC
10270091 AAA
1 AAA
10270094 CAAGACATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAATTC
Found at i:10278399 original size:13 final size:12
Alignment explanation
Indices: 10278381--10278413 Score: 57
Period size: 13 Copynumber: 2.7 Consensus size: 12
10278371 GGTAGGTAAC
10278381 TTTTTTTTTGCGG
1 TTTTTTTTTGC-G
10278394 TTTTTTTTTGCG
1 TTTTTTTTTGCG
10278406 TTTTTTTT
1 TTTTTTTT
10278414 GTGTTTTTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.00, C:0.06, G:0.15, T:0.79
Consensus pattern (12 bp):
TTTTTTTTTGCG
Found at i:10278419 original size:11 final size:11
Alignment explanation
Indices: 10278382--10278421 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
10278372 GTAGGTAACT
10278382 TTTTTTTTGCGG
1 TTTTTTTTGC-G
10278394 TTTTTTTTTGCG
1 -TTTTTTTTGCG
*
10278406 TTTTTTTTGTG
1 TTTTTTTTGCG
10278417 TTTTT
1 TTTTT
10278422 GCTTTTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 15 0.58
12 1 0.04
13 10 0.38
ACGTcount: A:0.00, C:0.05, G:0.17, T:0.78
Consensus pattern (11 bp):
TTTTTTTTGCG
Found at i:10278427 original size:15 final size:14
Alignment explanation
Indices: 10278409--10278451 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
10278399 TTTTGCGTTT
10278409 TTTTTGTGTTTTTGC
1 TTTTTGTGTTTTT-C
* *
10278424 TTTTTTTCTTTTTC
1 TTTTTGTGTTTTTC
10278438 TTTTTGTTGTTTTT
1 TTTTTG-TGTTTTT
10278452 TAAAGAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.00, C:0.07, G:0.12, T:0.81
Consensus pattern (14 bp):
TTTTTGTGTTTTTC
Found at i:10278430 original size:21 final size:19
Alignment explanation
Indices: 10278405--10278452 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
10278395 TTTTTTTTGC
*
10278405 GTTTTTTTTGTGTTTTTGCTT
1 GTTTTTTTT-TCTTTTTG-TT
*
10278426 TTTTTCTTTTTCTTTTTGTT
1 GTTTT-TTTTTCTTTTTGTT
10278446 GTTTTTT
1 GTTTTTT
10278453 AAAGAATAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 2 0.09
20 6 0.26
21 11 0.48
22 4 0.17
ACGTcount: A:0.00, C:0.06, G:0.12, T:0.81
Consensus pattern (19 bp):
GTTTTTTTTTCTTTTTGTT
Found at i:10279038 original size:31 final size:32
Alignment explanation
Indices: 10278979--10279043 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
10278969 GGCAAATTAC
10278979 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
10279011 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
10279042 AA
1 AA
10279044 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:10279443 original size:40 final size:40
Alignment explanation
Indices: 10279388--10279468 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
10279378 TATAATTCCA
10279388 TGTATACTTAAAAGTGTTTTCACCTTGAAGCTCTCATGCT
1 TGTATACTTAAAAGTGTTTTCACCTTGAAGCTCTCATGCT
10279428 TGTATACTTAAAAGTGTTTTCACCTTGAAGCTCTCATGCT
1 TGTATACTTAAAAGTGTTTTCACCTTGAAGCTCTCATGCT
10279468 T
1 T
10279469 CTCTTGTCTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.41
Consensus pattern (40 bp):
TGTATACTTAAAAGTGTTTTCACCTTGAAGCTCTCATGCT
Found at i:10281509 original size:28 final size:28
Alignment explanation
Indices: 10281474--10281557 Score: 89
Period size: 28 Copynumber: 3.0 Consensus size: 28
10281464 TATCATACAC
*
10281474 ATAAGATAGTCCTGACGAACTTCCACAT
1 ATAAGATAGTCTTGACGAACTTCCACAT
* * *
10281502 ATAAGATAGTCTTGGC-AGACTTCTACAC
1 ATAAGATAGTCTTGACGA-ACTTCCACAT
* * *
10281530 ATAAGATAATCTTGACGGACTTCGACAT
1 ATAAGATAGTCTTGACGAACTTCCACAT
10281558 TTATGGTAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
27 1 0.02
28 44 0.98
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (28 bp):
ATAAGATAGTCTTGACGAACTTCCACAT
Found at i:10281657 original size:22 final size:22
Alignment explanation
Indices: 10281600--10281662 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
10281590 CATTCATACA
*
10281600 TCCCATAAAAGGG-ATCTCATATG
1 TCCCAT-AAAGGGCA-CTCAAATG
* *
10281623 TCCCATGAGGGGCACTCAAATG
1 TCCCATAAAGGGCACTCAAATG
*
10281645 TCCCATAAAGGGCTCTCA
1 TCCCATAAAGGGCACTCA
10281663 TATACTGGTG
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
22 26 0.79
23 7 0.21
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (22 bp):
TCCCATAAAGGGCACTCAAATG
Found at i:10284359 original size:7 final size:7
Alignment explanation
Indices: 10284334--10284377 Score: 61
Period size: 7 Copynumber: 6.0 Consensus size: 7
10284324 AAATTACAGG
10284334 AAAAATA
1 AAAAATA
*
10284341 AAATACAAA
1 AAA-A-ATA
10284350 AAAAATA
1 AAAAATA
10284357 AAAAATA
1 AAAAATA
10284364 AAAAATA
1 AAAAATA
10284371 AAAAATA
1 AAAAATA
10284378 TATTCTGTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
7 26 0.79
8 2 0.06
9 5 0.15
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAATA
Found at i:10286237 original size:50 final size:50
Alignment explanation
Indices: 10286162--10286404 Score: 237
Period size: 50 Copynumber: 4.9 Consensus size: 50
10286152 CATTTGGGTA
*
10286162 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGAT
*
10286212 AAGAGGTCCCATGTAAGACCATGTCTGGTACATGGCATTGGC-TCTGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC-GAGAT
* * * *
10286262 GAGAGGTTCCC-TGTAAGACCATGTCTGGGACATGGCATGGGCACCGATAT
1 AAGAGG-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGAT
* ** * * * *
10286312 GAGAACTCCAATGTAAGACCATATTTGGGATATGGCATTGGCAGTAC-AGGA-
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-T-CGA-GAT
* * * * *
10286363 AACA--TACCATGTAAGACTATGTCTGGGACATAGCTTTGGCAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
10286405 GTTATATTCA
Statistics
Matches: 160, Mismatches: 26, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
48 1 0.01
49 34 0.21
50 115 0.72
51 8 0.05
52 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGAT
Found at i:10286632 original size:16 final size:16
Alignment explanation
Indices: 10286611--10286641 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10286601 GTTATTTAAG
10286611 CAAGTAAGTAAGTAAA
1 CAAGTAAGTAAGTAAA
*
10286627 CAAGTAAGTGAGTAA
1 CAAGTAAGTAAGTAA
10286642 GTAAAGAAGA
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:0.52, C:0.06, G:0.23, T:0.19
Consensus pattern (16 bp):
CAAGTAAGTAAGTAAA
Found at i:10286640 original size:20 final size:20
Alignment explanation
Indices: 10286612--10286657 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
10286602 TTATTTAAGC
* *
10286612 AAGTAAGTAAGTAAACAAGT
1 AAGTGAGTAAGTAAACAAGA
*
10286632 AAGTGAGTAAGTAAAGAAGA
1 AAGTGAGTAAGTAAACAAGA
10286652 AAGTGA
1 AAGTGA
10286658 ATATCCTAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.54, C:0.02, G:0.26, T:0.17
Consensus pattern (20 bp):
AAGTGAGTAAGTAAACAAGA
Found at i:10303269 original size:19 final size:19
Alignment explanation
Indices: 10303242--10303280 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
10303232 ACATAAATTG
* *
10303242 TGGAATTTTTATAAATATT
1 TGGAATTTTAAAAAATATT
*
10303261 TGGATTTTTAAAAAATATT
1 TGGAATTTTAAAAAATATT
10303280 T
1 T
10303281 TCAATTATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.51
Consensus pattern (19 bp):
TGGAATTTTAAAAAATATT
Found at i:10303411 original size:18 final size:18
Alignment explanation
Indices: 10303384--10303421 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
10303374 CACCAATTTG
*
10303384 TTATTTGAGTT-TTTCAAA
1 TTATTCGAGTTATTT-AAA
10303402 TTATTCGAGTTATTTAAA
1 TTATTCGAGTTATTTAAA
10303420 TT
1 TT
10303422 GTAATATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (18 bp):
TTATTCGAGTTATTTAAA
Found at i:10304198 original size:28 final size:29
Alignment explanation
Indices: 10304145--10304199 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
10304135 TAGGCAGAAC
* *
10304145 AAAAATATAGATAACATATTAGACAAACT
1 AAAAATACAAATAACATATTAGACAAACT
*
10304174 AAAAATACAAATACCATATT-GACAAA
1 AAAAATACAAATAACATATTAGACAAA
10304200 TTTATTCTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.60, C:0.13, G:0.05, T:0.22
Consensus pattern (29 bp):
AAAAATACAAATAACATATTAGACAAACT
Found at i:10306310 original size:6 final size:6
Alignment explanation
Indices: 10306295--10306364 Score: 59
Period size: 6 Copynumber: 10.8 Consensus size: 6
10306285 AACGATGTAA
* * *
10306295 AAAAATG AAAACG AAAAGG AAAAAG AAAAAG AAAGAAA AAGAAAG AAAAGAG
1 AAAAA-G AAAAAG AAAAAG AAAAAG AAAAAG AAA-AAG AA-AAAG AAAA-AG
*
10306347 AAAGAAG GAAAAG AAAAA
1 AAA-AAG AAAAAG AAAAA
10306365 AAACAGAACG
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
6 29 0.56
7 21 0.40
8 2 0.04
ACGTcount: A:0.76, C:0.01, G:0.21, T:0.01
Consensus pattern (6 bp):
AAAAAG
Found at i:10306331 original size:10 final size:10
Alignment explanation
Indices: 10306316--10306352 Score: 65
Period size: 10 Copynumber: 3.6 Consensus size: 10
10306306 CGAAAAGGAA
10306316 AAAGAAAAAG
1 AAAGAAAAAG
10306326 AAAGAAAAAG
1 AAAGAAAAAG
10306336 AAAGAAAAGAG
1 AAAGAAAA-AG
10306347 AAAGAA
1 AAAGAA
10306353 GGAAAAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 18 0.69
11 8 0.31
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAG
Found at i:10306343 original size:25 final size:24
Alignment explanation
Indices: 10306314--10306367 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
10306304 AACGAAAAGG
10306314 AAAAAGAAAAAGAAAGAAAAAGAAA
1 AAAAAGAAAAAG-AAGAAAAAGAAA
* * *
10306339 GAAAAGAGAAAGAAGGAAAAGAAA
1 AAAAAGAAAAAGAAGAAAAAGAAA
10306363 AAAAA
1 AAAAA
10306368 CAGAACGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (24 bp):
AAAAAGAAAAAGAAGAAAAAGAAA
Found at i:10306344 original size:15 final size:15
Alignment explanation
Indices: 10306307--10306364 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
10306297 AAATGAAAAC
10306307 GAAAAGGAAAAAGAAA
1 GAAAA-GAAAAAGAAA
*
10306323 AAGAAAGAAAAAGAAA
1 GA-AAAGAAAAAGAAA
* *
10306339 GAAAAGAGAAAGAAG
1 GAAAAGAAAAAGAAA
10306354 GAAAAGAAAAA
1 GAAAAGAAAAA
10306365 AAACAGAACG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
15 21 0.58
16 12 0.33
17 3 0.08
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
GAAAAGAAAAAGAAA
Found at i:10315250 original size:43 final size:43
Alignment explanation
Indices: 10315185--10315381 Score: 263
Period size: 43 Copynumber: 4.6 Consensus size: 43
10315175 TACGATTAGG
*
10315185 CTTCGGTTTATCCGATGATGCACTATATGTGCTAGTATATATA
1 CTTCGGTTTATCCGATGATGCACTATATGTGCTAGTATAGATA
* * * * * *
10315228 TTTTGGTTTATCCGATAATGCACTGTGTCTGCTAGT-TAGATA
1 CTTCGGTTTATCCGATGATGCACTATATGTGCTAGTATAGATA
** *
10315270 CTTCGGTTTATCCGATGATGCACTATGCGTGCCAGTATAGATA
1 CTTCGGTTTATCCGATGATGCACTATATGTGCTAGTATAGATA
*
10315313 CTTCGGTTTAGT-CGATGATGCACTGTATGTGCTAGTATAGATA
1 CTTCGGTTTA-TCCGATGATGCACTATATGTGCTAGTATAGATA
*
10315356 CTTCAGTTTATCCGATGATGCACTAT
1 CTTCGGTTTATCCGATGATGCACTAT
10315382 GTGCGCCAAT
Statistics
Matches: 131, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
42 35 0.27
43 95 0.73
44 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.38
Consensus pattern (43 bp):
CTTCGGTTTATCCGATGATGCACTATATGTGCTAGTATAGATA
Found at i:10315334 original size:85 final size:86
Alignment explanation
Indices: 10315185--10315382 Score: 283
Period size: 85 Copynumber: 2.3 Consensus size: 86
10315175 TACGATTAGG
** * * * *
10315185 CTTCGGTTTATCCGATGATGCACTATATGTGCTAGTATATATATTTTGGTTTATCCGATAATGCA
1 CTTCGGTTTATCCGATGATGCACTATGCGTGCCAGTATAGATACTTCGGTTTATCCGATAATGCA
*
10315250 CTGTGTCTGCTAGT-TAGATA
66 CTGTATCTGCTAGTATAGATA
*
10315270 CTTCGGTTTATCCGATGATGCACTATGCGTGCCAGTATAGATACTTCGGTTTAGT-CGATGATGC
1 CTTCGGTTTATCCGATGATGCACTATGCGTGCCAGTATAGATACTTCGGTTTA-TCCGATAATGC
*
10315334 ACTGTATGTGCTAGTATAGATA
65 ACTGTATCTGCTAGTATAGATA
*
10315356 CTTCAGTTTATCCGATGATGCACTATG
1 CTTCGGTTTATCCGATGATGCACTATG
10315383 TGCGCCAATA
Statistics
Matches: 101, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
85 68 0.67
86 33 0.33
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (86 bp):
CTTCGGTTTATCCGATGATGCACTATGCGTGCCAGTATAGATACTTCGGTTTATCCGATAATGCA
CTGTATCTGCTAGTATAGATA
Found at i:10322564 original size:4 final size:4
Alignment explanation
Indices: 10322555--10322579 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
10322545 CTTTCACCAT
10322555 TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA T
10322580 ATTTTGAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:10323133 original size:20 final size:20
Alignment explanation
Indices: 10323096--10323138 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
10323086 TTAAGGGCTT
*
10323096 TTTTTTTTAAATTCAATATAG
1 TTTTATTTAAATTCAATA-AG
10323117 TTTTATTTAAATT-AATAAG
1 TTTTATTTAAATTCAATAAG
10323136 TTT
1 TTT
10323139 GAATATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
20 4 0.19
21 12 0.57
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (20 bp):
TTTTATTTAAATTCAATAAG
Found at i:10323268 original size:50 final size:52
Alignment explanation
Indices: 10323192--10323310 Score: 122
Period size: 52 Copynumber: 2.3 Consensus size: 52
10323182 TAATAAAGTT
*
10323192 ATGCATTTTGTAACTTC-CATGCTAG-TTAAG-CATGCATCA-TAAA-TAATGAC
1 ATGCATTATGTAAC-TCACATGCTAGTTTAAGTC-TGCATCATTAAATTAA-GAC
* * *
10323242 ATGCATTATGTAACTCACGTGTTAGTTTAAGTCTGCATCATTAAATTAAGTC
1 ATGCATTATGTAACTCACATGCTAGTTTAAGTCTGCATCATTAAATTAAGAC
* *
10323294 TTGCATTAAGTAACTCA
1 ATGCATTATGTAACTCA
10323311 TTTGTTCATT
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
49 2 0.03
50 19 0.33
51 12 0.21
52 22 0.38
53 3 0.05
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (52 bp):
ATGCATTATGTAACTCACATGCTAGTTTAAGTCTGCATCATTAAATTAAGAC
Found at i:10328010 original size:40 final size:40
Alignment explanation
Indices: 10327973--10328198 Score: 330
Period size: 40 Copynumber: 5.7 Consensus size: 40
10327963 GCTACTCGTT
* *
10327973 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
10328013 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
10328053 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
10328093 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
10328133 CAAATGCCTTCGGGTCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
*
10328174 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
10328199 CATCATTCAA
Statistics
Matches: 173, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
40 163 0.94
41 10 0.06
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:10336022 original size:40 final size:39
Alignment explanation
Indices: 10335985--10336076 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
10335975 GCTACTCGTT
*
10335985 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
10336025 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
10336064 CAAATGCCTTCGG
1 CAAATGCCTTCGG
10336077 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:10336056 original size:39 final size:40
Alignment explanation
Indices: 10335966--10336129 Score: 176
Period size: 40 Copynumber: 4.1 Consensus size: 40
10335956 CGGAATTTAA
** *
10335966 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
10336006 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
10336045 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
10336085 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
10336125 CCGGA
1 CCGGA
10336130 CATCATTCAA
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.30
40 58 0.55
41 12 0.11
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:10338773 original size:27 final size:27
Alignment explanation
Indices: 10338735--10338796 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
10338725 GTAAACATGC
* *
10338735 CATGAAAGAAAAGTC-TTTGTGGTGAAT
1 CATGAAAGAAAA-ACGTTTGTGATGAAT
10338762 CATGAAAGAAAAACGTTTGTGATGAAT
1 CATGAAAGAAAAACGTTTGTGATGAAT
*
10338789 TATGAAAG
1 CATGAAAG
10338797 GATCGCCTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 1 0.03
27 30 0.97
ACGTcount: A:0.42, C:0.06, G:0.24, T:0.27
Consensus pattern (27 bp):
CATGAAAGAAAAACGTTTGTGATGAAT
Found at i:10347445 original size:19 final size:21
Alignment explanation
Indices: 10347406--10347445 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
10347396 TTGAAACATG
*
10347406 AAAGATTTACTTAAAATATAA
1 AAAGATTTACTTAAAAAATAA
10347427 AAAGATTT-C-TAAAAAATAA
1 AAAGATTTACTTAAAAAATAA
10347446 GTAATTCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 1 0.06
21 8 0.44
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (21 bp):
AAAGATTTACTTAAAAAATAA
Found at i:10348434 original size:21 final size:21
Alignment explanation
Indices: 10348400--10348466 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
10348390 CAAATATATA
**
10348400 TACCTTTATTATCGATTTATC
1 TACCTTTACAATCGATTTATC
* **
10348421 TACCTTTACAATCGAGTTGCC
1 TACCTTTACAATCGATTTATC
* * *
10348442 CACCTTTACAATCTATTTATT
1 TACCTTTACAATCGATTTATC
10348463 TACC
1 TACC
10348467 CAATTTTTAT
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.43
Consensus pattern (21 bp):
TACCTTTACAATCGATTTATC
Found at i:10354570 original size:93 final size:93
Alignment explanation
Indices: 10354451--10354641 Score: 321
Period size: 93 Copynumber: 2.1 Consensus size: 93
10354441 GAAGGTATTC
* * *
10354451 AGTTTTAAGTACTTAGATTTGAGATTTATCATATGCAATTCTATACTTGGGTCTCCAAGTTACAT
1 AGTTTTAAGCACTTAGATTTGAGATTTATCATATGAAATTCTATACTTGGGTCTCCAAATTACAT
*
10354516 CATGTGTGAGTTTTAGTCTAGTCC-ATT
66 CATATGTGAGTTTTAGTCTAGTCCAATT
*
10354543 GAGTTTTAAGCACTTAGATTTGAGATTTATCATGTGAAATTCTATACTTGGGTCTCCAAATTACA
1 -AGTTTTAAGCACTTAGATTTGAGATTTATCATATGAAATTCTATACTTGGGTCTCCAAATTACA
10354608 TCATATGTGAGTTTTAGTCTAGTCCAATT
65 TCATATGTGAGTTTTAGTCTAGTCCAATT
10354637 AGTTT
1 AGTTT
10354642 AGTTTGTTGG
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
93 89 0.97
94 3 0.03
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (93 bp):
AGTTTTAAGCACTTAGATTTGAGATTTATCATATGAAATTCTATACTTGGGTCTCCAAATTACAT
CATATGTGAGTTTTAGTCTAGTCCAATT
Found at i:10367291 original size:193 final size:193
Alignment explanation
Indices: 10366962--10367348 Score: 756
Period size: 193 Copynumber: 2.0 Consensus size: 193
10366952 TTATCTTTAT
*
10366962 CTAACATTGACGAAAATTTGCCTAGTGTGTTTCAGTCTCTTTTGCAGGATTATGAGGATGTTTTT
1 CTAACATTGACGAAAATTTGCCTAGTGTGTTTCAGTCTCTTTTGCAGGATTATGAGGACGTTTTT
*
10367027 AGTGAGGCCCCAAAAGGGTTACCACCTTTAAGAGGGATAGAGCATCAAATTGACTTAGTACCTGG
66 AATGAGGCCCCAAAAGGGTTACCACCTTTAAGAGGGATAGAGCATCAAATTGACTTAGTACCTGG
10367092 AGCTTCAATACCAAATCGACCAGCCTATAGGTGCAATACCGAGGAGACAAAGGAATTGCAAAG
131 AGCTTCAATACCAAATCGACCAGCCTATAGGTGCAATACCGAGGAGACAAAGGAATTGCAAAG
10367155 CTAACATTGACGAAAATTTGCCTAGTGTGTTTCAGTCTCTTTTGCAGGATTATGAGGACGTTTTT
1 CTAACATTGACGAAAATTTGCCTAGTGTGTTTCAGTCTCTTTTGCAGGATTATGAGGACGTTTTT
10367220 AATGAGGCCCCAAAAGGGTTACCACCTTTAAGAGGGATAGAGCATCAAATTGACTTAGTACCTGG
66 AATGAGGCCCCAAAAGGGTTACCACCTTTAAGAGGGATAGAGCATCAAATTGACTTAGTACCTGG
10367285 AGCTTCAATACCAAATCGACCAGCCTATAGGTGCAATACCGAGGAGACAAAGGAATTGCAAAG
131 AGCTTCAATACCAAATCGACCAGCCTATAGGTGCAATACCGAGGAGACAAAGGAATTGCAAAG
10367348 C
1 C
10367349 CAAGTTGAGG
Statistics
Matches: 192, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
193 192 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (193 bp):
CTAACATTGACGAAAATTTGCCTAGTGTGTTTCAGTCTCTTTTGCAGGATTATGAGGACGTTTTT
AATGAGGCCCCAAAAGGGTTACCACCTTTAAGAGGGATAGAGCATCAAATTGACTTAGTACCTGG
AGCTTCAATACCAAATCGACCAGCCTATAGGTGCAATACCGAGGAGACAAAGGAATTGCAAAG
Found at i:10383632 original size:43 final size:41
Alignment explanation
Indices: 10383571--10383690 Score: 150
Period size: 42 Copynumber: 2.9 Consensus size: 41
10383561 CACATTATAT
*
10383571 TCAATGATACGGGGAATCAGCACATAGCAACCCCTTTCACAA
1 TCAATGATACGGGGAATCAGCACTTAGCAACCCCTTT-ACAA
* *
10383613 TCAAGGATACGGTGGAATCAGCACTTAGCAACCACCTTTAGAA
1 TCAATGATACGG-GGAATCAGCACTTAGCAACC-CCTTTACAA
* ** *
10383656 TCAATAATTTGGGGAATCAACACTTAGCAACCCCT
1 TCAATGATACGGGGAATCAGCACTTAGCAACCCCT
10383691 CAGGGAATCT
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
41 3 0.04
42 30 0.44
43 30 0.44
44 5 0.07
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (41 bp):
TCAATGATACGGGGAATCAGCACTTAGCAACCCCTTTACAA
Found at i:10383682 original size:42 final size:42
Alignment explanation
Indices: 10383577--10383690 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 42
10383567 ATATTCAATG
* *
10383577 ATACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAGG
1 ATACGGGGAATCAGCACTTAGCAACCCCTTTCACAATCAAGA
* *
10383619 ATACGGTGGAATCAGCACTTAGCAACCACCTTT-AGAATCAATA
1 ATACGG-GGAATCAGCACTTAGCAACC-CCTTTCACAATCAAGA
** *
10383662 ATTTGGGGAATCAACACTTAGCAACCCCT
1 ATACGGGGAATCAGCACTTAGCAACCCCT
10383691 CAGGGAATCT
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
41 3 0.05
42 25 0.40
43 30 0.48
44 5 0.08
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (42 bp):
ATACGGGGAATCAGCACTTAGCAACCCCTTTCACAATCAAGA
Found at i:10383696 original size:26 final size:26
Alignment explanation
Indices: 10383667--10383716 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
10383657 CAATAATTTG
10383667 GGGAATCAACACTTAGCAACCCCTCA
1 GGGAATCAACACTTAGCAACCCCTCA
*
10383693 GGGAATCTACACTTAGCAACCCCT
1 GGGAATCAACACTTAGCAACCCCT
10383717 TTTTGATCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (26 bp):
GGGAATCAACACTTAGCAACCCCTCA
Found at i:10383735 original size:41 final size:41
Alignment explanation
Indices: 10383690--10383881 Score: 285
Period size: 41 Copynumber: 4.7 Consensus size: 41
10383680 TAGCAACCCC
* * *
10383690 TCAGGGAATCTACACTTAGCAACCCCTTTTTGATCAGTGAT
1 TCAGGGAATCTGCACTTAGCAACCCCTTTTCGATCAATGAT
* *
10383731 TCAGGGAATCTGCATTTAGCAACCCCTTTTCTATCAATGAT
1 TCAGGGAATCTGCACTTAGCAACCCCTTTTCGATCAATGAT
* *
10383772 TCGGGGAATTTGCACTTAGCAACCCCTTTTCGATCAATGAT
1 TCAGGGAATCTGCACTTAGCAACCCCTTTTCGATCAATGAT
* **
10383813 TCGGGGAATCTGCACTTAGCAACCAGTTTTCGATCAATGAT
1 TCAGGGAATCTGCACTTAGCAACCCCTTTTCGATCAATGAT
*
10383854 TTAGGGAATCTGCACTTAGCAACCCCTT
1 TCAGGGAATCTGCACTTAGCAACCCCTT
10383882 ACATTCAATG
Statistics
Matches: 135, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 135 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (41 bp):
TCAGGGAATCTGCACTTAGCAACCCCTTTTCGATCAATGAT
Found at i:10385937 original size:32 final size:32
Alignment explanation
Indices: 10385896--10386120 Score: 198
Period size: 34 Copynumber: 6.8 Consensus size: 32
10385886 TAATATATAA
*
10385896 ATACATATACAAATCAATTCGGCAATAGGTGT
1 ATACATATACAATTCAATTCGGCAATAGGTGT
* ***
10385928 ATACGTATACAATTCAATTCGGCAATATAAGT
1 ATACATATACAATTCAATTCGGCAATAGGTGT
* * *
10385960 ATATATATACAATTCAATTCAGAAATAGGTGT
1 ATACATATACAATTCAATTCGGCAATAGGTGT
* * * *
10385992 ATACCTATACAATTCAATTCGACAATATAAGTAT
1 ATACATATACAATTCAATTCGGC-A-ATAGGTGT
* * *
10386026 ATATATATACAATTCAATTCGGCAATATAAGTTT
1 ATACATATACAATTCAATTCGGC-A-ATAGGTGT
* ** * *
10386060 ATATATATACAATTCAATTTAGCAATATAAGTAT
1 ATACATATACAATTCAATTCGGC-A-ATAGGTGT
* *
10386094 ATATATATACAATTCAATTCGGAAATA
1 ATACATATACAATTCAATTCGGCAATA
10386121 AATAAAACAT
Statistics
Matches: 162, Mismatches: 29, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
32 73 0.45
33 2 0.01
34 87 0.54
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.34
Consensus pattern (32 bp):
ATACATATACAATTCAATTCGGCAATAGGTGT
Found at i:10385968 original size:64 final size:65
Alignment explanation
Indices: 10385900--10386120 Score: 300
Period size: 68 Copynumber: 3.4 Consensus size: 65
10385890 ATATAAATAC
* * *
10385900 ATATACAAATCAATTCGGCAATAGGTGTATACGTATACAATTCAATTCGGCAATATAAG-TATAT
1 ATATACAATTCAATTCGGAAATAGGTGTATACATATACAATTCAATTCGGCAATATAAGATATAT
* * *
10385964 ATATACAATTCAATTCAGAAATAGGTGTATACCTATACAATTCAATTCGACAATATAAGTATATA
1 ATATACAATTCAATTCGGAAATAGGTGTATACATATACAATTCAATTCGGCAATATAAG-ATATA
10386029 T
65 T
* * * **
10386030 ATATACAATTCAATTCGGCAATATAAGTTTATATATATACAATTCAATTTAGCAATATAAGTATA
1 ATATACAATTCAATTCGG-AA-ATAGGTGTATACATATACAATTCAATTCGGCAATATAAG-ATA
10386095 TAT
63 TAT
10386098 ATATACAATTCAATTCGGAAATA
1 ATATACAATTCAATTCGGAAATA
10386121 AATAAAACAT
Statistics
Matches: 140, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
64 54 0.39
66 25 0.18
67 4 0.03
68 57 0.41
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (65 bp):
ATATACAATTCAATTCGGAAATAGGTGTATACATATACAATTCAATTCGGCAATATAAGATATAT
Found at i:10386040 original size:34 final size:34
Alignment explanation
Indices: 10385933--10386114 Score: 239
Period size: 34 Copynumber: 5.5 Consensus size: 34
10385923 GGTGTATACG
*
10385933 TATACAATTCAATTCGGCAATATAAG--TATATA
1 TATACAATTCAATTCGACAATATAAGTATATATA
* * * **
10385965 TATACAATTCAATTC-AGAA-ATAGGTGTATACC
1 TATACAATTCAATTCGACAATATAAGTATATATA
10385997 TATACAATTCAATTCGACAATATAAGTATATATA
1 TATACAATTCAATTCGACAATATAAGTATATATA
* *
10386031 TATACAATTCAATTCGGCAATATAAGTTTATATA
1 TATACAATTCAATTCGACAATATAAGTATATATA
*
10386065 TATACAATTCAATT-TAGCAATATAAGTATATATA
1 TATACAATTCAATTCGA-CAATATAAGTATATATA
10386099 TATACAATTCAATTCG
1 TATACAATTCAATTCG
10386115 GAAATAAATA
Statistics
Matches: 128, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
30 4 0.03
31 2 0.02
32 34 0.27
33 3 0.02
34 85 0.66
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.36
Consensus pattern (34 bp):
TATACAATTCAATTCGACAATATAAGTATATATA
Found at i:10400578 original size:25 final size:25
Alignment explanation
Indices: 10400518--10400578 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
10400508 CTCCTAAATT
*
10400518 TTAATTTAATTATCTAATTTTTCAA
1 TTAATTAAATTATCTAATTTTTCAA
* *
10400543 TTTATTGAATTAT-TAATATTTT-ATA
1 TTAATTAAATTATCTAAT-TTTTCA-A
10400568 TTAATTAAATT
1 TTAATTAAATT
10400579 TTTGAGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 5 0.17
25 25 0.83
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATCTAATTTTTCAA
Found at i:10414290 original size:14 final size:14
Alignment explanation
Indices: 10414260--10414306 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
10414250 ATGTTATTTC
10414260 TTTCTTT-CTTTTCT
1 TTTCTTTCCTTTT-T
*
10414274 TTTTTTTCCTTTTT
1 TTTCTTTCCTTTTT
10414288 TTTCTTTCCTTTTT
1 TTTCTTTCCTTTTT
*
10414302 CTTCT
1 TTTCT
10414307 GTTTGTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 24 0.83
15 5 0.17
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTCTTTCCTTTTT
Found at i:10417298 original size:19 final size:19
Alignment explanation
Indices: 10417265--10417304 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
10417255 AAAATATCAT
*
10417265 ATTAATTTTAATTTATTTG
1 ATTAATTTTAATTTAATTG
10417284 ATTAA-TTTAATTTTAATTG
1 ATTAATTTTAA-TTTAATTG
10417303 AT
1 AT
10417305 CAAAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTAATTTTAATTTAATTG
Found at i:10421153 original size:12 final size:11
Alignment explanation
Indices: 10421116--10421178 Score: 53
Period size: 12 Copynumber: 5.7 Consensus size: 11
10421106 AATCACCTTA
10421116 ATATTAAATTT
1 ATATTAAATTT
10421127 A-ATCT-AATATT
1 ATAT-TAAAT-TT
10421138 -TATTAAATATT
1 ATATTAAAT-TT
10421149 ATATTAAATTT
1 ATATTAAATTT
*
10421160 AATATTAAATCT
1 -ATATTAAATTT
10421172 -TATTAAA
1 ATATTAAA
10421179 ATAATATAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
10 13 0.29
11 14 0.31
12 18 0.40
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (11 bp):
ATATTAAATTT
Found at i:10426755 original size:2 final size:2
Alignment explanation
Indices: 10426748--10426810 Score: 117
Period size: 2 Copynumber: 31.5 Consensus size: 2
10426738 TTAATATTTT
10426748 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
10426790 TC GC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC T
10426811 ACTTTTTGTG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.00, C:0.49, G:0.02, T:0.49
Consensus pattern (2 bp):
TC
Found at i:10429408 original size:31 final size:31
Alignment explanation
Indices: 10429339--10429397 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
10429329 AATGATCGTT
10429339 GAACTATTCAAAAGTTTTCATTTAAGTCATC
1 GAACTATTCAAAAGTTTTCATTTAAGTCATC
*
10429370 GAACTATTCAAAAGTTTTTATTTAAGTC
1 GAACTATTCAAAAGTTTTCATTTAAGTC
10429398 TCTCGGCTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.41
Consensus pattern (31 bp):
GAACTATTCAAAAGTTTTCATTTAAGTCATC
Found at i:10431969 original size:22 final size:22
Alignment explanation
Indices: 10431941--10432006 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
10431931 TCCACAATTT
10431941 TTACTGGCAGTTTATCTACAAA
1 TTACTGGCAGTTTATCTACAAA
* * * *
10431963 TTACTGGCGGTTCATCCACAAC
1 TTACTGGCAGTTTATCTACAAA
* * *
10431985 TTACTGACAGCTTATCTGCAAA
1 TTACTGGCAGTTTATCTACAAA
10432007 CTTTTTATCT
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (22 bp):
TTACTGGCAGTTTATCTACAAA
Found at i:10431989 original size:44 final size:44
Alignment explanation
Indices: 10431907--10432007 Score: 107
Period size: 44 Copynumber: 2.3 Consensus size: 44
10431897 CTGCAAACTT
* * *
10431907 TTTATCTA-AAACACTGGTGGTCCATCCACAATTTTTACTGGCAG
1 TTTATCTACAAACACTGGCGGTCCATCCACAA-TCTTACTGACAG
* *
10431951 TTTATCTACAAATTACTGGCGGTTCATCCACAA-CTTACTGACAG
1 TTTATCTACAAA-CACTGGCGGTCCATCCACAATCTTACTGACAG
* *
10431995 CTTATCTGCAAAC
1 TTTATCTACAAAC
10432008 TTTTTATCTA
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
44 27 0.57
45 3 0.06
46 17 0.36
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.33
Consensus pattern (44 bp):
TTTATCTACAAACACTGGCGGTCCATCCACAATCTTACTGACAG
Found at i:10432047 original size:103 final size:103
Alignment explanation
Indices: 10431868--10432294 Score: 617
Period size: 103 Copynumber: 4.1 Consensus size: 103
10431858 AAACATTGGT
* * *
10431868 GGTTCATCCACAACTTACTGGCAGCTTGTCTGCAAACTTTTTATCTAAAACACTGGTGGTCCATC
1 GGTTCATCCACAACTTACTGACAGCTTGTCTGCAAACTTTTTATCTAAAACACTAGTGGTTCATC
*
10431933 CACAATTTTTACTGGCAGTTTATCTACAAATTACTGGC
66 CACAATTTTTACTGGCAGTTTATCTGCAAATTACTGGC
* *
10431971 GGTTCATCCACAACTTACTGACAGCTTATCTGCAAACTTTTTATCTAAAACACTGGTGGTTCATC
1 GGTTCATCCACAACTTACTGACAGCTTGTCTGCAAACTTTTTATCTAAAACACTAGTGGTTCATC
*** *
10432036 CACAATTTTTACAAACAGTTTATTTGCAAATTACT-GC
66 CACAATTTTTACTGGCAGTTTATCTGCAAATTACTGGC
* *
10432073 TGGTTCATCCACAACTTACTAGA-AGCTTGTTTGCAAATTTTTTATCTAAAACACTAGTGGTTCA
1 -GGTTCATCCACAACTTACT-GACAGCTTGTCTGCAAACTTTTTATCTAAAACACTAGTGGTTCA
* *
10432137 TCCACAATTTTTACTGGCAGATTATCTGCAAATTACTGGT
64 TCCACAATTTTTACTGGCAGTTTATCTGCAAATTACTGGC
* * *
10432177 GGTTCATCCAAAACTTATTGGCAGCTTGTCTGCAAACTTTTTATCT-AAACACTAGTGGTTCATC
1 GGTTCATCCACAACTTACTGACAGCTTGTCTGCAAACTTTTTATCTAAAACACTAGTGGTTCATC
* *
10432241 CACAATTTTTTTTACTGGCAGTTTATCTGCACATTACTGGT
66 CACAA---TTTTTACTGGCAGTTTATCTGCAAATTACTGGC
10432282 GGTTCATCCACAA
1 GGTTCATCCACAA
10432295 AACGGAGTGT
Statistics
Matches: 291, Mismatches: 26, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
102 26 0.09
103 219 0.75
104 3 0.01
105 43 0.15
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (103 bp):
GGTTCATCCACAACTTACTGACAGCTTGTCTGCAAACTTTTTATCTAAAACACTAGTGGTTCATC
CACAATTTTTACTGGCAGTTTATCTGCAAATTACTGGC
Found at i:10433397 original size:20 final size:20
Alignment explanation
Indices: 10433372--10433409 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10433362 TCACGTGACA
*
10433372 ATTAAATTTAAAATAAAAGT
1 ATTAAAGTTAAAATAAAAGT
*
10433392 ATTAAAGTTAAATTAAAA
1 ATTAAAGTTAAAATAAAA
10433410 ATAAAAAATT
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:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
ATTAAAGTTAAAATAAAAGT
Found at i:10433847 original size:20 final size:20
Alignment explanation
Indices: 10433822--10433870 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
10433812 TTTTTTAGAA
*
10433822 ATATTTTTTACAATACTTTT
1 ATATTTTTTACAATACTCTT
*
10433842 ATATTTTTTACAATTCTCTT
1 ATATTTTTTACAATACTCTT
*
10433862 ACATTTTTT
1 ATATTTTTT
10433871 GTAATAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (20 bp):
ATATTTTTTACAATACTCTT
Done.