Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 207 of 328
Found at i:62145092 original size:93 final size:93
Alignment explanation
Indices: 62144980--62145151 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
62144970 GCCCATAAGT
* *
62144980 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62145045 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
62145073 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62145138 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
62145152 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:62145147 original size:46 final size:46
Alignment explanation
Indices: 62144972--62145147 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
62144962 TGTAACCCGC
* * *
62144972 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
62145018 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
62145068 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
62145111 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
62145148 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:62152192 original size:40 final size:40
Alignment explanation
Indices: 62152090--62152256 Score: 146
Period size: 40 Copynumber: 4.2 Consensus size: 40
62152080 AAATTGAATG
* * ** *
62152090 ATATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGTGACT
* * *
62152130 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
* *
62152170 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTG-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* * *
62152209 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGACT
62152249 ATATCCGG
1 ATATCCGG
62152257 TTATATTCCG
Statistics
Matches: 104, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
39 34 0.33
40 69 0.66
41 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Found at i:62158933 original size:41 final size:42
Alignment explanation
Indices: 62158881--62159079 Score: 138
Period size: 45 Copynumber: 4.6 Consensus size: 42
62158871 TTTTATCAAA
* * * *
62158881 TCACCGGCATTTAGCCTACTAGGTTTTAAACCCGAGT-TTA-T
1 TCACCGGCATTTAGCCTGCTAGGCTTGAAACCCGA-TATCATT
* *
62158922 TCACCGGCATTTCGCCTGCTAGGCTTGAAGCCCGATATCATT
1 TCACCGGCATTTAGCCTGCTAGGCTTGAAACCCGATATCATT
* * *
62158964 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCTCGAATAGT-ATT
1 TCACCGGCATT-TAGCCTGCTAGGCTTGAA-ACCCG-ATA-TCATT
* * * *
62159009 TCGCTGGCATTGTAGCCTGCTAGGC-TCAAAGGCCCGAATAGT-ATC
1 TCACCGGCATT-TAGCCTGCTAGGCTTGAAA--CCCG-ATA-TCATT
*
62159054 TCACCGGCATCATAGCCTGCTAGGCT
1 TCACCGGCAT-TTAGCCTGCTAGGCT
62159080 CAAAATCCCA
Statistics
Matches: 128, Mismatches: 20, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
40 1 0.01
41 32 0.25
42 12 0.09
43 16 0.12
44 6 0.05
45 60 0.47
46 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.28
Consensus pattern (42 bp):
TCACCGGCATTTAGCCTGCTAGGCTTGAAACCCGATATCATT
Found at i:62159025 original size:45 final size:45
Alignment explanation
Indices: 62158921--62159080 Score: 202
Period size: 45 Copynumber: 3.6 Consensus size: 45
62158911 CCCGAGTTTA
* *
62158921 TTCACCGGCATT-TCGCCTGCTAGGCTTGAA-GCCCG-ATA-TCAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-AT
*
62158963 TTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCTCGAATAGTAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTAT
* * * *
62159008 TTCGCTGGCATTGTAGCCTGCTAGGCTCAAAGGCCCGAATAGTAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTAT
* *
62159053 CTCACCGGCATCATAGCCTGCTAGGCTC
1 TTCACCGGCATTATAGCCTGCTAGGCTC
62159081 AAAATCCCAA
Statistics
Matches: 101, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
42 12 0.12
43 16 0.16
44 4 0.04
45 68 0.67
46 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (45 bp):
TTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTAT
Found at i:62166664 original size:40 final size:40
Alignment explanation
Indices: 62166609--62166763 Score: 190
Period size: 40 Copynumber: 3.9 Consensus size: 40
62166599 GGATATAGCT
* * *
62166609 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
62166649 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
* *
62166689 ACTCGCACAAATGCCTTCGGGACTT-GCCCGG-GACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* * *
62166728 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
62166764 CATCCAAATA
Statistics
Matches: 99, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
39 32 0.32
40 64 0.65
41 3 0.03
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:62170248 original size:28 final size:28
Alignment explanation
Indices: 62170208--62170336 Score: 172
Period size: 29 Copynumber: 4.5 Consensus size: 28
62170198 AAAATTGTAC
* *
62170208 AGCACTAAGTGTGCGAGCTTG-ATTCTAT
1 AGCACTAAGTGTGCGAGC-TGAAATATAT
62170236 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTG-AAATATAT
* *
62170265 AGCACTAAGTGTGCGAGCTTG-ATTCTAT
1 AGCACTAAGTGTGCGAGC-TGAAATATAT
62170293 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTG-AAATATAT
62170322 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
62170337 GATTCACTAT
Statistics
Matches: 90, Mismatches: 6, Indels: 9
0.86 0.06 0.09
Matches are distributed among these distances:
27 4 0.04
28 41 0.46
29 43 0.48
30 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTGAAATATAT
Found at i:62170275 original size:29 final size:29
Alignment explanation
Indices: 62170179--62170336 Score: 180
Period size: 28 Copynumber: 5.5 Consensus size: 29
62170169 GACAAGATTG
* * * * *
62170179 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
* *
62170209 GCACTAAGTGTGCGAGCTTG--ATTCTATA
1 GCACTAAGTGTGCGAGC-TGAAAATATATA
62170237 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
* *
62170266 GCACTAAGTGTGCGAGCTTG--ATTCTATA
1 GCACTAAGTGTGCGAGC-TGAAAATATATA
62170294 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
62170323 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
62170337 GATTCACTAT
Statistics
Matches: 110, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
27 4 0.04
28 44 0.40
29 44 0.40
30 17 0.15
31 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:62170283 original size:57 final size:57
Alignment explanation
Indices: 62170179--62170336 Score: 262
Period size: 57 Copynumber: 2.8 Consensus size: 57
62170169 GACAAGATTG
* * * * *
62170179 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGCTTGATTCTATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGCTTGATTCTATA
62170237 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGCTTGATTCTATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGCTTGATTCTATA
62170294 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
62170337 GATTCACTAT
Statistics
Matches: 95, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
57 75 0.79
58 20 0.21
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGCTTGATTCTATA
Found at i:62175141 original size:40 final size:40
Alignment explanation
Indices: 62175084--62175263 Score: 215
Period size: 40 Copynumber: 4.5 Consensus size: 40
62175074 ACGAATGATG
* * * *
62175084 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
62175124 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
62175164 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** *
62175204 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
62175245 -CCGGGCTATGTCCCGAAGG
1 TCCGGACTAAGTCCCGAAGG
62175264 TATTGAACGA
Statistics
Matches: 127, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
39 1 0.01
40 116 0.91
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:62182794 original size:40 final size:40
Alignment explanation
Indices: 62182739--62182948 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
62182729 AACATTGGAA
62182739 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
62182779 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
62182819 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
62182859 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
62182898 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
62182939 CTATATCCGG
1 ATATATCCGG
62182949 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:62184118 original size:40 final size:40
Alignment explanation
Indices: 62184052--62184218 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
62184042 AAATTGAATG
* * *
62184052 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
62184091 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
62184131 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
62184171 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
62184211 ATATCCGG
1 ATATCCGG
62184219 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:62191221 original size:17 final size:18
Alignment explanation
Indices: 62191179--62191227 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
62191169 AGTTGAAAAG
62191179 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
62191198 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
62191215 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
62191228 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:62192110 original size:40 final size:40
Alignment explanation
Indices: 62192044--62192194 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
62192034 AAATTGAATG
* * *
62192044 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
62192083 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
62192123 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
62192163 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
62192195 ACTTGATTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:62192208 original size:40 final size:40
Alignment explanation
Indices: 62192080--62192210 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 40
62192070 TATGCTGGAA
* * * *
62192080 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
** * *
62192120 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
*
62192160 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACTTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
62192200 ATTATATCCGG
1 ATTATATCCGG
62192211 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.04
40 70 0.95
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
Found at i:62194160 original size:40 final size:40
Alignment explanation
Indices: 62194087--62194294 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 40
62194077 CAATTGAATG
* * ** *
62194087 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * * **
62194127 ATATCCGGGTTAAGATCCGAAGGCCATT-GTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAAGTAATT
* **
62194167 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * **
62194207 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * **
62194247 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
62194287 ATATCCGG
1 ATATCCGG
62194295 TTGTATTCCG
Statistics
Matches: 139, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 4 0.03
40 131 0.94
41 4 0.03
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
Found at i:62194227 original size:80 final size:80
Alignment explanation
Indices: 62194089--62194294 Score: 227
Period size: 80 Copynumber: 2.6 Consensus size: 80
62194079 ATTGAATGAT
* * ** * * * *
62194089 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGATCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
62194153 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
62194169 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
62194234 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
62194249 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
62194295 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 2 0.02
80 102 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:62199186 original size:28 final size:28
Alignment explanation
Indices: 62199139--62199202 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
62199129 TAAACAGCGC
* *
62199139 ATACAGTAACAGTCTAGGCCTTAGCCCT
1 ATACAGTAACAGTCTAGGCCTAAGCCCA
* *
62199167 ATATAGTAACAGTCTGGGCCTAAGCCCA
1 ATACAGTAACAGTCTAGGCCTAAGCCCA
62199195 ATACAGTA
1 ATACAGTA
62199203 TCAATACAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (28 bp):
ATACAGTAACAGTCTAGGCCTAAGCCCA
Found at i:62199427 original size:27 final size:27
Alignment explanation
Indices: 62199348--62199447 Score: 98
Period size: 27 Copynumber: 3.8 Consensus size: 27
62199338 TAATAATGCA
**
62199348 GCATAGCTGCCAG-AACAGTAAGA-GTG
1 GCATAGCCACCAGTAACAGTAA-ATGTG
* * *
62199374 GCAAAGCCACCAGTATCAGTAATTGTG
1 GCATAGCCACCAGTAACAGTAAATGTG
62199401 GCATAGCCACCAGTAACAGTAAATGTG
1 GCATAGCCACCAGTAACAGTAAATGTG
* * *
62199428 ACGTAGTCACCAGT-ACAGTA
1 GCATAGCCACCAGTAACAGTA
62199448 CTTCCTCCAT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
26 16 0.26
27 45 0.74
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
GCATAGCCACCAGTAACAGTAAATGTG
Found at i:62199613 original size:27 final size:27
Alignment explanation
Indices: 62199595--62199755 Score: 232
Period size: 27 Copynumber: 6.0 Consensus size: 27
62199585 CATTTTATGA
* * *
62199595 TACAAGGGTATTACGGTCATTTTACCT
1 TACAGGGGCATTACGGTCATTTTACCC
* * *
62199622 TATAGGGGTATTATGGTCATTTTACCC
1 TACAGGGGCATTACGGTCATTTTACCC
62199649 TACAGGGGCATTACGGTCATTTTACCC
1 TACAGGGGCATTACGGTCATTTTACCC
62199676 TACAGGGGCATTACGGTCATTTTACCC
1 TACAGGGGCATTACGGTCATTTTACCC
* *
62199703 TACAAGGGCATTACGGTCATTTTACCG
1 TACAGGGGCATTACGGTCATTTTACCC
**
62199730 TACAGAAGCATTACGGTCATTTTACC
1 TACAGGGGCATTACGGTCATTTTACC
62199756 TACTTTGGGG
Statistics
Matches: 122, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 122 1.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (27 bp):
TACAGGGGCATTACGGTCATTTTACCC
Found at i:62203958 original size:16 final size:16
Alignment explanation
Indices: 62203937--62203994 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 16
62203927 CATTTCATAA
62203937 TCATTTCTCATATTTT
1 TCATTTCTCATATTTT
*
62203953 TCATTTC-AATATTTT
1 TCATTTCTCATATTTT
62203968 CTCA--TCTCATA---T
1 -TCATTTCTCATATTTT
62203980 TCATTTCTCATATTT
1 TCATTTCTCATATTT
62203995 ACCATTTCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
11 3 0.09
12 1 0.03
13 7 0.21
14 2 0.06
15 10 0.30
16 10 0.30
ACGTcount: A:0.22, C:0.21, G:0.00, T:0.57
Consensus pattern (16 bp):
TCATTTCTCATATTTT
Found at i:62203978 original size:43 final size:43
Alignment explanation
Indices: 62203922--62204007 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
62203912 TCATATTTCA
* **
62203922 TTTCTCATTTCATAATCATTTCTCATATTTTTCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTACCATTTCAATAT
*
62203965 TTTCTCATCTCATATTCATTTCTCATATTTACCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTACCATTTCAATAT
62204008 CAATCACATA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.53
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTCTCATATTTACCATTTCAATAT
Found at i:62208741 original size:28 final size:28
Alignment explanation
Indices: 62208709--62208835 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
62208699 ATAATAAGCC
* *
62208709 CGCACACTTAGTGCT-TAATAGTCGAACT
1 CGCACACTTAGTGCTAT-ATAATCAAACT
62208737 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
62208765 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** *
62208793 CGCACACTTAGTGCTATACAATTTGAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
62208822 CGCACACTTAGTGC
1 CGCACACTTAGTGC
62208836 CAATCTCATG
Statistics
Matches: 91, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
28 72 0.79
29 19 0.21
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:62210718 original size:2 final size:2
Alignment explanation
Indices: 62210711--62210738 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
62210701 TTGTTTGATG
62210711 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
62210739 TCGGCAATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62212013 original size:48 final size:48
Alignment explanation
Indices: 62211942--62212229 Score: 504
Period size: 48 Copynumber: 6.0 Consensus size: 48
62211932 AGATAAATAT
*
62211942 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
62211990 ATATATGTGTGATATGTAGATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
62212038 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
62212086 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
62212134 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
62212182 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
62212230 TGTTGTAACA
Statistics
Matches: 227, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 227 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (48 bp):
ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Found at i:62212324 original size:37 final size:37
Alignment explanation
Indices: 62212274--62212359 Score: 154
Period size: 37 Copynumber: 2.3 Consensus size: 37
62212264 GGAAATATAT
*
62212274 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
62212311 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
62212348 TCTGGGTAAGAC
1 TCCGGGTAAGAC
62212360 TTCGTAATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:62213173 original size:19 final size:19
Alignment explanation
Indices: 62213137--62213176 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
62213127 TTCCATGAGC
*
62213137 TTCTTCTCTCTTTCTTTCT
1 TTCTTCTCTCTTTATTTCT
* *
62213156 TTCTTTTCTTTTTATTTCT
1 TTCTTCTCTCTTTATTTCT
62213175 TT
1 TT
62213177 TCTAATTCAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.75
Consensus pattern (19 bp):
TTCTTCTCTCTTTATTTCT
Found at i:62213451 original size:25 final size:25
Alignment explanation
Indices: 62213423--62213473 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
62213413 TGGGACCACA
62213423 AATCTGAGGTCATAAAATTTATTTT
1 AATCTGAGGTCATAAAATTTATTTT
62213448 AATCTGAGGTCATAAAATTTATTTT
1 AATCTGAGGTCATAAAATTTATTTT
62213473 A
1 A
62213474 GTATTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.43
Consensus pattern (25 bp):
AATCTGAGGTCATAAAATTTATTTT
Found at i:62216949 original size:53 final size:54
Alignment explanation
Indices: 62216754--62216950 Score: 207
Period size: 55 Copynumber: 3.6 Consensus size: 54
62216744 GGGTTTAAGA
* * * *
62216754 ATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGG
1 ATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGCAAGG
* * * * * * * * *
62216808 AAATCATGTAAGACCATGTCAAGACATGCCATTGATAAACTACTATAAGGCAAAG
1 ATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCTATAAGGCAAGG
* * *
62216863 ATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGCAAGG
1 ATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGCAAGG
* * *
62216916 ATACCATGTAAGACCATGTCAAGACACGACAATGG
1 ATACCATGTAAGACCATGCCAAGACATGGCAATGG
62216951 CTAGTTTAAA
Statistics
Matches: 114, Mismatches: 28, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 40 0.35
54 32 0.28
55 42 0.37
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (54 bp):
ATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGCAAGG
Found at i:62227237 original size:29 final size:29
Alignment explanation
Indices: 62227195--62227250 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
62227185 GATAATCTAT
62227195 AAAACAGGGAAAGAACACACAAAGTAAAC
1 AAAACAGGGAAAGAACACACAAAGTAAAC
* *
62227224 AAAATAGGGAAAGAACACACCAAGTAA
1 AAAACAGGGAAAGAACACACAAAGTAA
62227251 GCTTTAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.61, C:0.16, G:0.18, T:0.05
Consensus pattern (29 bp):
AAAACAGGGAAAGAACACACAAAGTAAAC
Found at i:62230000 original size:17 final size:18
Alignment explanation
Indices: 62229978--62230027 Score: 70
Period size: 17 Copynumber: 2.9 Consensus size: 18
62229968 CTTTCATAAA
62229978 AAAAAGGAAAAAGAAA-T
1 AAAAAGGAAAAAGAAAGT
62229995 AAAAAGG-AAAAGAAAGT
1 AAAAAGGAAAAAGAAAGT
62230012 AAAAA-GAACAAAGAAA
1 AAAAAGGAA-AAAGAAA
62230028 AAGAAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 9 0.30
17 14 0.47
18 7 0.23
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.04
Consensus pattern (18 bp):
AAAAAGGAAAAAGAAAGT
Found at i:62230452 original size:22 final size:23
Alignment explanation
Indices: 62230422--62230468 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
62230412 TTGCCTTTTT
62230422 TATAATTTTT-AATTTTTTAAAA
1 TATAATTTTTAAATTTTTTAAAA
*
62230444 TATATTTTTTAAAATTTTTTAAAA
1 TATAATTTTT-AAATTTTTTAAAA
62230468 T
1 T
62230469 GATTTTCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.41
24 13 0.59
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TATAATTTTTAAATTTTTTAAAA
Found at i:62234192 original size:2 final size:2
Alignment explanation
Indices: 62234185--62234212 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
62234175 CTGGAAAATT
62234185 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
62234213 AAGCAAAGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:62241291 original size:71 final size:71
Alignment explanation
Indices: 62241207--62241370 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
62241197 CGATTTGTCT
62241207 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
62241272 CTTTCA
66 CTTTCA
62241278 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
62241343 CTTTCA
66 CTTTCA
62241349 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
62241371 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:62241408 original size:71 final size:70
Alignment explanation
Indices: 62241207--62241404 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
62241197 CGATTTGTCT
* * * *
62241207 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
62241272 CTTTCA
65 CTTTCA
* * * *
62241278 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
62241343 CTTTCA
65 CTTTCA
* *
62241349 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
62241405 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:62248878 original size:71 final size:71
Alignment explanation
Indices: 62248794--62248957 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
62248784 CGATTTGTCT
62248794 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
62248859 CTTTCA
66 CTTTCA
62248865 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
62248930 CTTTCA
66 CTTTCA
62248936 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
62248958 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:62248995 original size:71 final size:70
Alignment explanation
Indices: 62248794--62248991 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
62248784 CGATTTGTCT
* * * *
62248794 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
62248859 CTTTCA
65 CTTTCA
* * * *
62248865 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
62248930 CTTTCA
65 CTTTCA
* *
62248936 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
62248992 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:62255038 original size:15 final size:15
Alignment explanation
Indices: 62255020--62255050 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
62255010 AATGCTGGCA
62255020 AAAAAAATGACAAAC
1 AAAAAAATGACAAAC
62255035 AAAAAAATGACAAAC
1 AAAAAAATGACAAAC
62255050 A
1 A
62255051 CCCAGTCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.74, C:0.13, G:0.06, T:0.06
Consensus pattern (15 bp):
AAAAAAATGACAAAC
Found at i:62258955 original size:46 final size:46
Alignment explanation
Indices: 62258905--62259080 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
62258895 TGGTTGAGCA
62258905 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62258951 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
62258996 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * **
62259044 CCCGAGCTCGTTGAGTTGAGTCCGAGTTTGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62259081 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:62259061 original size:93 final size:93
Alignment explanation
Indices: 62258902--62259071 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 93
62258892 GGATGGTTGA
* *
62258902 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
62258967 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
62258995 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
62259060 TGAGTCCGAGTT
66 TGAGTCCGAGTT
62259072 TGCTTATGGG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:62267622 original size:44 final size:43
Alignment explanation
Indices: 62267532--62267632 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 43
62267522 TTTTCTCAAA
* * *
62267532 TCACCGGCATT-TTGCCTGTTAGGCTCGAGGCCCGATATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAGGCCCAATATCAGT
62267574 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCAA-AT-AGTAT
1 TCACCGGCATTATAGCCTGCTAGGCTCG-AGGCCCAATATCAG--T
*
62267618 TCACCGGTATTATAG
1 TCACCGGCATTATAG
62267633 TTTGCTAAGC
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
42 13 0.25
43 16 0.31
44 22 0.43
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (43 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAGGCCCAATATCAGT
Found at i:62268035 original size:43 final size:43
Alignment explanation
Indices: 62267987--62268194 Score: 236
Period size: 43 Copynumber: 4.6 Consensus size: 43
62267977 CCGGCATTAC
62267987 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
62268030 GCCTGCTAGGCACAAAGGCCCGAGGCCCGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCAC----G---AAGGCCCGAATACACATCACCGGCACGAA
* * * *
62268080 GCCTGCTAGGCATGCAGGCCCGGATACACATCACCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACAT---CACCGGCACGAA
* ** *
62268126 GCCTGCTAGGCACGAAGGCCCGAATACACATTACCGTTACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
62268169 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
62268195 TAATACCAGC
Statistics
Matches: 142, Mismatches: 13, Indels: 20
0.81 0.07 0.11
Matches are distributed among these distances:
43 63 0.44
46 39 0.27
47 1 0.01
50 39 0.27
ACGTcount: A:0.29, C:0.34, G:0.25, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:62268061 original size:50 final size:49
Alignment explanation
Indices: 62268002--62268148 Score: 171
Period size: 50 Copynumber: 3.0 Consensus size: 49
62267992 CTAGGCACGA
62268002 AGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACAAAGGCCCG
1 AGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCAC-AAGGCCCG
* *
62268052 AGGCCCGAATACACATCACTGGCACGAAGCCTGCTAGG--C-ATG--C-
1 AGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACAAGGCCCG
* *
62268095 AGGCCCGGATACACATCACCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCG
1 AGGCCCGAATACACAT---CACCGGCACGAAGCCTGCTAGGCAC-AAGGCCCG
62268148 A
1 A
62268149 ATACACATTA
Statistics
Matches: 81, Mismatches: 6, Indels: 17
0.78 0.06 0.16
Matches are distributed among these distances:
43 15 0.19
44 1 0.01
46 22 0.27
48 2 0.02
50 39 0.48
52 1 0.01
53 1 0.01
ACGTcount: A:0.29, C:0.35, G:0.26, T:0.10
Consensus pattern (49 bp):
AGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACAAGGCCCG
Found at i:62268145 original size:46 final size:43
Alignment explanation
Indices: 62268052--62268215 Score: 188
Period size: 43 Copynumber: 3.8 Consensus size: 43
62268042 CAAAGGCCCG
* * * *
62268052 AGGCCCGAATACACATCACTGGCACGAAGCCTGCTAGGCATGC
1 AGGCCCGAATACACATCACCGGCACTAAGCCTGCTAGGCACGA
*
62268095 AGGCCCGGATACACATCACCACCGGCACTAAGCCTGCTAGGCACGA
1 AGGCCCGAATACACAT---CACCGGCACTAAGCCTGCTAGGCACGA
* **
62268141 AGGCCCGAATACACATTACCGTTACTAAGCCTGCTAGGCACGA
1 AGGCCCGAATACACATCACCGGCACTAAGCCTGCTAGGCACGA
* * *
62268184 AGGCCCGAATATA-AT-ACCAGCAGTAAGCCTGC
1 AGGCCCGAATACACATCACCGGCACTAAGCCTGC
62268216 GGGATTTATC
Statistics
Matches: 104, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
41 13 0.12
42 2 0.02
43 51 0.49
46 38 0.37
ACGTcount: A:0.30, C:0.32, G:0.23, T:0.15
Consensus pattern (43 bp):
AGGCCCGAATACACATCACCGGCACTAAGCCTGCTAGGCACGA
Found at i:62269206 original size:56 final size:58
Alignment explanation
Indices: 62269059--62269231 Score: 307
Period size: 58 Copynumber: 3.0 Consensus size: 58
62269049 TAGCCTTAAA
62269059 TCATTACATATTTGGCACATTAACTAAATAAAATTTACATTCCTTTTCCATATTAATT
1 TCATTACATATTTGGCACATTAACTAAATAAAATTTACATTCCTTTTCCATATTAATT
62269117 TCATTACATATTTGGCACATTAACTAAAT-AAATTTACATTCC-TTTCCATATTAATT
1 TCATTACATATTTGGCACATTAACTAAATAAAATTTACATTCCTTTTCCATATTAATT
*
62269173 TCATTACATA-TCGGCACATTAACTAAATAAAATTTACATTCCCTTTTCCATATTAATT
1 TCATTACATATTTGGCACATTAACTAAATAAAATTTACATT-CCTTTTCCATATTAATT
62269231 T
1 T
62269232 AACTCTTAGG
Statistics
Matches: 111, Mismatches: 1, Indels: 6
0.94 0.01 0.05
Matches are distributed among these distances:
55 17 0.15
56 35 0.32
57 15 0.14
58 44 0.40
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.42
Consensus pattern (58 bp):
TCATTACATATTTGGCACATTAACTAAATAAAATTTACATTCCTTTTCCATATTAATT
Found at i:62271049 original size:39 final size:40
Alignment explanation
Indices: 62270950--62271099 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
62270940 CGAATGATGT
* * * * *
62270950 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTAATAAAC
* * * *
62270990 CCGGACTAGGAT-TCGAAGGCATTCGTGCGAGTTAAT-AAC
1 CCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTAATAAAC
*
62271029 TCCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAAC
1 -CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTAATAAAC
*
62271068 CCGGGTTAAGTCCCGAAGGCATTCGTGCAAGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGT
62271100 CGCTATAACC
Statistics
Matches: 88, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
38 19 0.22
39 26 0.30
40 36 0.41
41 7 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTAATAAAC
Found at i:62271095 original size:78 final size:80
Alignment explanation
Indices: 62270949--62271095 Score: 192
Period size: 78 Copynumber: 1.9 Consensus size: 80
62270939 TCGAATGATG
* * * * *
62270949 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATTCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
62271014 GTGCGAGTTAATAAC
66 GTGCGAGTTAATAAC
* **
62271029 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
62271091 CGTGC
65 CGTGC
62271096 AAGTCGCTAT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
77 1 0.02
78 31 0.53
79 15 0.26
80 11 0.19
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAC
Found at i:62271112 original size:40 final size:39
Alignment explanation
Indices: 62271030--62271164 Score: 109
Period size: 39 Copynumber: 3.5 Consensus size: 39
62271020 GTTAATAACT
* **
62271030 CCGGGCTAAG-CCCGAAGGCATTGTGCAAGTTACTA-AA
1 CCGGGTTAAGTCCCGAAGGCATTGTGCAAGTCGCTATAA
62271067 CCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA
1 -CCGGGTTAAGTCCCGAAGGCATT-GTGCAAGTCGCTATAA
* * * * *
62271108 CCGGGCTT-CGT-CCGAAGGCATTTGAGCGAGTCGTTATAT
1 CCGGG-TTAAGTCCCGAAGGCA-TTGTGCAAGTCGCTATAA
* *
62271147 CC-GGTTAATTTCCGAAGG
1 CCGGGTTAAGTCCCGAAGG
62271165 TACGTGATTC
Statistics
Matches: 80, Mismatches: 10, Indels: 13
0.78 0.10 0.13
Matches are distributed among these distances:
37 2 0.03
38 12 0.15
39 42 0.52
40 20 0.25
41 4 0.05
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGTTAAGTCCCGAAGGCATTGTGCAAGTCGCTATAA
Found at i:62271123 original size:39 final size:39
Alignment explanation
Indices: 62270950--62271129 Score: 111
Period size: 40 Copynumber: 4.6 Consensus size: 39
62270940 CGAATGATGT
* * * * *
62270950 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTGTGC-AAGTCACTAAAC
** * * * * *
62270990 CCGGACTAGGAT-TCGAAGGCATTCGTGCGAGTTAAT-AAC
1 CCGGGTTAAG-TCCCGAAGGCATT-GTGCAAGTCACTAAAC
* *
62271029 TCCGGGCTAAG-CCCGAAGGCATTGTGCAAGTTACTAAAC
1 -CCGGGTTAAGTCCCGAAGGCATTGTGCAAGTCACTAAAC
*
62271068 CCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA-
1 CCGGGTTAAGTCCCGAAGGCATT-GTGCAAGTCACTA-AAC
*
62271108 CCGGGCTT-CGT-CCGAAGGCATT
1 CCGGG-TTAAGTCCCGAAGGCATT
62271130 TGAGCGAGTC
Statistics
Matches: 113, Mismatches: 18, Indels: 19
0.75 0.12 0.13
Matches are distributed among these distances:
38 19 0.17
39 37 0.33
40 48 0.42
41 9 0.08
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (39 bp):
CCGGGTTAAGTCCCGAAGGCATTGTGCAAGTCACTAAAC
Found at i:62283019 original size:27 final size:27
Alignment explanation
Indices: 62282965--62283021 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
62282955 ACATCACATA
* **
62282965 GGGCATAACAGTCATTTTAGTGTATAG
1 GGGCATAACAATCATTTTAGTCAATAG
62282992 GGGCATAACAATCATTTTA-TCAATTAG
1 GGGCATAACAATCATTTTAGTCAA-TAG
62283019 GGG
1 GGG
62283022 GTCTAGGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 2 0.08
27 24 0.92
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.32
Consensus pattern (27 bp):
GGGCATAACAATCATTTTAGTCAATAG
Found at i:62294549 original size:2 final size:2
Alignment explanation
Indices: 62294537--62294571 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
62294527 TGCTTAGTTG
62294537 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
62294572 GAATGTTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:62296190 original size:17 final size:18
Alignment explanation
Indices: 62296168--62296213 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
62296158 ACTTGTTATA
*
62296168 GCCCGATAAATGAA-AGT
1 GCCCGATAAATGAATAAT
*
62296185 GCCCGATTAAT-AATAAT
1 GCCCGATAAATGAATAAT
*
62296202 GCTCGATAAATG
1 GCCCGATAAATG
62296214 GTAAATGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (18 bp):
GCCCGATAAATGAATAAT
Found at i:62299530 original size:3 final size:3
Alignment explanation
Indices: 62299524--62299553 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
62299514 TATATAATGA
62299524 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
62299554 GAGAACACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:62308122 original size:11 final size:11
Alignment explanation
Indices: 62308088--62308136 Score: 57
Period size: 11 Copynumber: 4.4 Consensus size: 11
62308078 TATTCTAAAT
62308088 AATTGTGATTA
1 AATTGTGATTA
62308099 AATTGAATG-TT-
1 AATTG--TGATTA
62308110 AATATGTGATTA
1 AAT-TGTGATTA
62308122 AATTGTGATTA
1 AATTGTGATTA
62308133 AATT
1 AATT
62308137 AATATATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
10 2 0.06
11 22 0.67
12 7 0.21
13 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (11 bp):
AATTGTGATTA
Found at i:62313078 original size:55 final size:54
Alignment explanation
Indices: 62312949--62313202 Score: 223
Period size: 53 Copynumber: 4.8 Consensus size: 54
62312939 CATTAGGGTT
* **
62312949 CAAGGATAC-CATGTAATACCATG-CTAAGGTATGGCAATTGGTAAGGTTTC-TAAGG
1 CAAGGATACTCATGTAAGACCATGTC-AAGACATGGC-ATTGGTAA-G-TTCATAAGG
*
62313004 CAA-GA-A-TCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGG
1 CAAGGATACTCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-C-ATAAGG
* * *
62313057 CAAAGG-T-CTCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGG
1 C-AAGGATACTCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGG
*
62313110 CAAGGATAC-CATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT--TCAA--
1 CAAGGATACTCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCAT-AAGG
* * * *
62313160 -AAGGATAC-CACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 CAAGGATACTCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
62313203 GTACCCGTGT
Statistics
Matches: 172, Mismatches: 15, Indels: 30
0.79 0.07 0.14
Matches are distributed among these distances:
49 40 0.23
50 2 0.01
51 3 0.02
52 13 0.08
53 69 0.40
54 7 0.04
55 38 0.22
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (54 bp):
CAAGGATACTCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGG
Found at i:62313154 original size:108 final size:108
Alignment explanation
Indices: 62312958--62313155 Score: 285
Period size: 108 Copynumber: 1.8 Consensus size: 108
62312948 TCAAGGATAC
* * * *
62312958 CATGTAATACCATGCTAAGGTATGGCAATTGGTAAGGTTTCTAAGGCAAGAATCATGTAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGAACCATGTAAGACCA
*
62313023 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCT
66 TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCT
*
62313066 CATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGA
1 CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAA-GA-ACCATGTAAGA
*
62313128 CCATGTCAAGACATGGCAATGGTAAGTT
63 CCATGTCAAGACATGGCAATGATAAGTT
62313156 TCAAAAGGAT
Statistics
Matches: 80, Mismatches: 7, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
105 3 0.04
106 9 0.11
107 9 0.11
108 59 0.74
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (108 bp):
CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGAACCATGTAAGACCA
TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCT
Found at i:62313419 original size:16 final size:16
Alignment explanation
Indices: 62313398--62313428 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62313388 ATAAATTTGA
62313398 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
62313414 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
62313429 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:62317140 original size:40 final size:40
Alignment explanation
Indices: 62317032--62317201 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
62317022 CGGGATTTAA
* * * * *
62317032 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
62317072 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
62317112 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
62317152 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
62317192 CCGGATATAT
1 CCGGATATAT
62317202 TTCCAATGTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 112 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:62325237 original size:40 final size:40
Alignment explanation
Indices: 62325129--62325298 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
62325119 CGGGATTTAA
* * * * *
62325129 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
62325169 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
62325209 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
62325249 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
62325289 CCGGATATAT
1 CCGGATATAT
62325299 TTCCAATGTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 112 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:62335283 original size:21 final size:20
Alignment explanation
Indices: 62335246--62335285 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
62335236 ATAACTGAGG
*
62335246 AAATTTTTGGAAAACAGAGA
1 AAATTTTTGAAAAACAGAGA
*
62335266 AAATTTTTTAAAATACAGAG
1 AAATTTTTGAAAA-ACAGAG
62335286 GACATCACGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.50, C:0.05, G:0.15, T:0.30
Consensus pattern (20 bp):
AAATTTTTGAAAAACAGAGA
Found at i:62338824 original size:101 final size:98
Alignment explanation
Indices: 62338630--62338872 Score: 324
Period size: 100 Copynumber: 2.4 Consensus size: 98
62338620 TATTGTGAGG
* * * *
62338630 TCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGGGTAGTACT
62338695 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACCCGATAA-TT-GA
* * ** *
62338730 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGGGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGGGTAGTAC
* * *
62338795 TAAGTGCAGGCTACTATGTGTACCGGATAATTGG
65 TAAGTGCAGGCTACTATGCGTACCCGATAATTGA
* * *
62338829 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
62338873 GCTTTGGCTA
Statistics
Matches: 124, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
99 39 0.31
100 43 0.35
101 42 0.34
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (98 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGGGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGATAATTGA
Found at i:62338860 original size:49 final size:50
Alignment explanation
Indices: 62338627--62338872 Score: 307
Period size: 49 Copynumber: 4.9 Consensus size: 50
62338617 ATCTATTGTG
* * *
62338627 AGGTCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * *
62338677 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TT
* * * * * **
62338727 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * *
62338777 AGGTCACGTGGGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* *
62338827 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
62338873 GCTTTGGCTA
Statistics
Matches: 167, Mismatches: 27, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
49 83 0.50
50 46 0.28
51 38 0.23
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
Found at i:62347929 original size:29 final size:28
Alignment explanation
Indices: 62347894--62347997 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 28
62347884 ATAATCGATT
*
62347894 TCGCACACTTAGTGCCATGTGATTTAAGC
1 TCGCACACTTAGTGCCATAT-ATTTAAGC
* * *
62347923 TCGCACACATAGTGCCATACAATTTAAGT
1 TCGCACACTTAGTGCCATA-TATTTAAGC
*
62347952 TTGCACACTTAGTGCCATATATTTCAAGC
1 TCGCACACTTAGTGCCATATATTT-AAGC
*
62347981 TTGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
62347998 ATCTTGTCAC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
28 4 0.06
29 61 0.94
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATATATTTAAGC
Found at i:62360814 original size:17 final size:17
Alignment explanation
Indices: 62360792--62360827 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
62360782 GCCGAGCAAG
62360792 AGAGTTCCAAGAGATTA
1 AGAGTTCCAAGAGATTA
62360809 AGAGTTCCAAGAGATTA
1 AGAGTTCCAAGAGATTA
62360826 AG
1 AG
62360828 GCTTGGTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.25, T:0.22
Consensus pattern (17 bp):
AGAGTTCCAAGAGATTA
Found at i:62363131 original size:37 final size:36
Alignment explanation
Indices: 62363081--62363252 Score: 175
Period size: 37 Copynumber: 4.7 Consensus size: 36
62363071 CAATTGCTTG
* *
62363081 TAAGAGCTAATCCACCCGATAACACTGCATATGGTCA
1 TAAGAGCTAATCCACCCGATAACAC-GCAGATGCTCA
* *
62363118 TAAGAGCTAATCCA-ACGAATAACACGCTAGATGCTTA
1 TAAGAGCTAATCCACCCG-ATAACACGC-AGATGCTCA
* * * * *
62363155 TAAAAACTAATACACCCTATAACACACCAGATGCTCA
1 TAAGAGCTAATCCACCCGATAACAC-GCAGATGCTCA
*
62363192 TAAGAGCTAATCCACCAGATAACACGCCAGATGCTCA
1 TAAGAGCTAATCCACCCGATAACACG-CAGATGCTCA
* * *
62363229 TAAGAGCTAGTCCAACCGAAAACA
1 TAAGAGCTAATCCACCCGATAACA
62363253 TGCTGAAACA
Statistics
Matches: 109, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
36 4 0.04
37 103 0.94
38 2 0.02
ACGTcount: A:0.41, C:0.27, G:0.14, T:0.19
Consensus pattern (36 bp):
TAAGAGCTAATCCACCCGATAACACGCAGATGCTCA
Found at i:62363196 original size:74 final size:74
Alignment explanation
Indices: 62363087--62363231 Score: 193
Period size: 74 Copynumber: 2.0 Consensus size: 74
62363077 CTTGTAAGAG
* ** * * * *
62363087 CTAATCCACCCGATAACACTGCATATGGTCATAAGAGCTAATCCAAC-GAATAACACGCTAGATG
1 CTAATACACCCGATAACACACCAGATGCTCATAAGAGCTAATCCACCAG-ATAACACGCCAGATG
*
62363151 CTTATAAAAA
65 CTCATAAAAA
*
62363161 CTAATACACCCTATAACACACCAGATGCTCATAAGAGCTAATCCACCAGATAACACGCCAGATGC
1 CTAATACACCCGATAACACACCAGATGCTCATAAGAGCTAATCCACCAGATAACACGCCAGATGC
62363226 TCATAA
66 TCATAA
62363232 GAGCTAGTCC
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
74 60 0.98
75 1 0.02
ACGTcount: A:0.40, C:0.28, G:0.12, T:0.20
Consensus pattern (74 bp):
CTAATACACCCGATAACACACCAGATGCTCATAAGAGCTAATCCACCAGATAACACGCCAGATGC
TCATAAAAA
Found at i:62369545 original size:43 final size:43
Alignment explanation
Indices: 62369493--62369633 Score: 151
Period size: 43 Copynumber: 3.3 Consensus size: 43
62369483 AAGATCAAGA
* ** *
62369493 CTTTTAGCGGCATTTGTGAGAAAAGCGCCGCTAAAAGTCATGG
1 CTTTTAGCGGCGTTTGTGAGGGAAGCGCCACTAAAAGTCATGG
*
62369536 CTTTTAGCGGTGTTTGTTG-GGGAAGCGCCACT-AAAGTCATGG
1 CTTTTAGCGGCGTTTG-TGAGGGAAGCGCCACTAAAAGTCATGG
** * * * *
62369578 CTTTTTAATGGTGTTTGTTAGGGAAGCGCCACTAAAAGCCATGA
1 C-TTTTAGCGGCGTTTGTGAGGGAAGCGCCACTAAAAGTCATGG
62369622 CTTTTAGCGGCG
1 CTTTTAGCGGCG
62369634 CTTCCCCAAC
Statistics
Matches: 81, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
42 12 0.15
43 58 0.72
44 11 0.14
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (43 bp):
CTTTTAGCGGCGTTTGTGAGGGAAGCGCCACTAAAAGTCATGG
Found at i:62369750 original size:31 final size:30
Alignment explanation
Indices: 62369715--62369772 Score: 98
Period size: 31 Copynumber: 1.9 Consensus size: 30
62369705 CATTAAATGC
62369715 AACCAAAAACAACAAATATAGCATGAAATCA
1 AACCAAAAACAACAAATATAGCA-GAAATCA
*
62369746 AACCAAAAACAGCAAATATAGCAGAAA
1 AACCAAAAACAACAAATATAGCAGAAA
62369773 AAAATATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.62, C:0.19, G:0.09, T:0.10
Consensus pattern (30 bp):
AACCAAAAACAACAAATATAGCAGAAATCA
Found at i:62375438 original size:35 final size:35
Alignment explanation
Indices: 62375399--62375470 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
62375389 AAGTTTGTAC
62375399 TCCATTTCGATAGGCGTTGCTTACCCTTGACAATT
1 TCCATTTCGATAGGCGTTGCTTACCCTTGACAATT
62375434 TCCATTTCGATAGGCGTTGCTTACCCTTGACAATT
1 TCCATTTCGATAGGCGTTGCTTACCCTTGACAATT
62375469 TC
1 TC
62375471 ATCCAACTCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (35 bp):
TCCATTTCGATAGGCGTTGCTTACCCTTGACAATT
Found at i:62375570 original size:9 final size:9
Alignment explanation
Indices: 62375556--62375892 Score: 401
Period size: 9 Copynumber: 37.7 Consensus size: 9
62375546 TAACTCTAAT
62375556 TAAGTTATG
1 TAAGTTATG
62375565 TAAGTTATG
1 TAAGTTATG
* * *
62375574 ATATGATATA
1 -TAAGTTATG
* *
62375584 T-ATTTAAG
1 TAAGTTATG
*
62375592 T-A-TTATA
1 TAAGTTATG
62375599 TAAGTTATG
1 TAAGTTATG
*
62375608 TAAATTATG
1 TAAGTTATG
62375617 TAAGTTATG
1 TAAGTTATG
62375626 TAAGTTATG
1 TAAGTTATG
*
62375635 TGAGTTATG
1 TAAGTTATG
*
62375644 TGAGTTATG
1 TAAGTTATG
*
62375653 TGAGTTATG
1 TAAGTTATG
*
62375662 CAAGTTATG
1 TAAGTTATG
*
62375671 TAAGTTATA
1 TAAGTTATG
62375680 TAAGTTATG
1 TAAGTTATG
62375689 TAAGTTATG
1 TAAGTTATG
*
62375698 TAAGTTATA
1 TAAGTTATG
62375707 TAAGTTATG
1 TAAGTTATG
*
62375716 TAAGTAATG
1 TAAGTTATG
*
62375725 TGAGTTATG
1 TAAGTTATG
*
62375734 TGAGTTATG
1 TAAGTTATG
*
62375743 TGAGTTATG
1 TAAGTTATG
*
62375752 TGAGTTATG
1 TAAGTTATG
*
62375761 TGAGTTATG
1 TAAGTTATG
62375770 TAAGTTATG
1 TAAGTTATG
* *
62375779 TGAGATATG
1 TAAGTTATG
*
62375788 TGAGTTATG
1 TAAGTTATG
*
62375797 TGAGTTATG
1 TAAGTTATG
*
62375806 TGAGTTATG
1 TAAGTTATG
*
62375815 TGAGTTATG
1 TAAGTTATG
62375824 TAAGTTATG
1 TAAGTTATG
62375833 TAAGTTATG
1 TAAGTTATG
62375842 TAAGTTATG
1 TAAGTTATG
*
62375851 TAAGTTATA
1 TAAGTTATG
62375860 TAAGTTATG
1 TAAGTTATG
62375869 TAAGTTATG
1 TAAGTTATG
*
62375878 TGAGTTATG
1 TAAGTTATG
62375887 TAAGTT
1 TAAGTT
62375893 CAAGTATATA
Statistics
Matches: 292, Mismatches: 33, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
7 4 0.01
8 5 0.02
9 277 0.95
10 6 0.02
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:62378706 original size:11 final size:11
Alignment explanation
Indices: 62378690--62378722 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
62378680 CATAAACATC
62378690 AAAATAATTAT
1 AAAATAATTAT
62378701 AAAATAATTAT
1 AAAATAATTAT
62378712 AAAATAATTAT
1 AAAATAATTAT
62378723 TTCTATCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAATAATTAT
Found at i:62385316 original size:28 final size:28
Alignment explanation
Indices: 62385251--62385351 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
62385241 ATAGTGAATC
*
62385251 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
62385280 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
62385308 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
62385338 CGCACACTTAGTGC
1 CGCACACTTAGTGC
62385352 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:62389688 original size:29 final size:28
Alignment explanation
Indices: 62389655--62389721 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 28
62389645 ATCACATGGA
*
62389655 AAAAAATTATTTTAATTAAATAATATTT
1 AAAAAATTATATTAATTAAATAATATTT
* *
62389683 ATAAAAATAATATTAATTTAATAATATTT
1 A-AAAAATTATATTAATTAAATAATATTT
62389712 AAATAAATTA
1 AAA-AAATTA
62389722 ATCCAAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
AAAAAATTATATTAATTAAATAATATTT
Found at i:62389759 original size:19 final size:19
Alignment explanation
Indices: 62389717--62389841 Score: 110
Period size: 19 Copynumber: 6.3 Consensus size: 19
62389707 TATTTAAATA
62389717 AATTAATCCAAATTATATTATT
1 AATTAATCCAAA-T-TA-TATT
*
62389739 AATTAATCCAAATTGTATT
1 AATTAATCCAAATTATATT
* * *
62389758 AATTAAAT-AATAATTAAATA
1 AATT-AATCCA-AATTATATT
62389778 AATTAATCCAAATTATATT
1 AATTAATCCAAATTATATT
* * *
62389797 AATTAAAT-AATAATTAAATA
1 AATT-AATCCA-AATTATATT
62389817 AATTAATCCAAATTATATT
1 AATTAATCCAAATTATATT
62389836 AATTAA
1 AATTAA
62389842 AATAAGATTG
Statistics
Matches: 83, Mismatches: 14, Indels: 15
0.74 0.12 0.13
Matches are distributed among these distances:
19 40 0.48
20 30 0.36
21 1 0.01
22 12 0.14
ACGTcount: A:0.53, C:0.06, G:0.01, T:0.40
Consensus pattern (19 bp):
AATTAATCCAAATTATATT
Found at i:62389786 original size:39 final size:39
Alignment explanation
Indices: 62389739--62389842 Score: 199
Period size: 39 Copynumber: 2.7 Consensus size: 39
62389729 TTATATTATT
*
62389739 AATTAATCCAAATTGTATTAATTAAATAATAATTAAATA
1 AATTAATCCAAATTATATTAATTAAATAATAATTAAATA
62389778 AATTAATCCAAATTATATTAATTAAATAATAATTAAATA
1 AATTAATCCAAATTATATTAATTAAATAATAATTAAATA
62389817 AATTAATCCAAATTATATTAATTAAA
1 AATTAATCCAAATTATATTAATTAAA
62389843 ATAAGATTGA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 64 1.00
ACGTcount: A:0.55, C:0.06, G:0.01, T:0.38
Consensus pattern (39 bp):
AATTAATCCAAATTATATTAATTAAATAATAATTAAATA
Found at i:62389836 original size:15 final size:12
Alignment explanation
Indices: 62389755--62389842 Score: 72
Period size: 11 Copynumber: 6.8 Consensus size: 12
62389745 TCCAAATTGT
62389755 ATTAATTAAATA
1 ATTAATTAAATA
62389767 A-TAATTAAATAA
1 ATTAATTAAAT-A
*
62389779 ATTAATCCAAATTA
1 ATTAAT-TAAA-TA
62389793 TATTAATTAAATA
1 -ATTAATTAAATA
62389806 A-TAATTAAATAA
1 ATTAATTAAAT-A
*
62389818 ATTAATCCAAATTA
1 ATTAAT-TAAA-TA
62389832 TATTAATTAAA
1 -ATTAATTAAA
62389843 ATAAGATTGA
Statistics
Matches: 62, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
11 18 0.29
12 6 0.10
13 10 0.16
14 14 0.23
15 14 0.23
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (12 bp):
ATTAATTAAATA
Found at i:62389844 original size:15 final size:14
Alignment explanation
Indices: 62389658--62389842 Score: 82
Period size: 15 Copynumber: 13.2 Consensus size: 14
62389648 ACATGGAAAA
*
62389658 AAATTATTTTAATT
1 AAATTATATTAATT
* * *
62389672 AAATAATATTTATAA
1 AAATTATATTAAT-T
*
62389687 AAATAATATTAATT
1 AAATTATATTAATT
* * *
62389701 TAATAATATTTAAAT
1 AAATTATA-TTAATT
*
62389716 AAATTA-ATCCAAATT
1 AAATTATAT--TAATT
* *
62389731 ATATTATTAATTAATCC
1 AAATTA-T-ATTAAT-T
*
62389748 AAATTGTATTAATT
1 AAATTATATTAATT
62389762 AAA-TA-A-TAATT
1 AAATTATATTAATT
* *
62389773 AAA-TAAATTAATCC
1 AAATTATATTAAT-T
62389787 AAATTATATTAATT
1 AAATTATATTAATT
62389801 AAA-TA-A-TAATT
1 AAATTATATTAATT
* *
62389812 AAA-TAAATTAATCC
1 AAATTATATTAAT-T
62389826 AAATTATATTAATT
1 AAATTATATTAATT
62389840 AAA
1 AAA
62389843 ATAAGATTGA
Statistics
Matches: 130, Mismatches: 25, Indels: 32
0.70 0.13 0.17
Matches are distributed among these distances:
11 20 0.15
12 4 0.03
13 12 0.09
14 33 0.25
15 51 0.39
16 4 0.03
17 4 0.03
18 2 0.02
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.42
Consensus pattern (14 bp):
AAATTATATTAATT
Found at i:62393675 original size:74 final size:74
Alignment explanation
Indices: 62393539--62393699 Score: 179
Period size: 75 Copynumber: 2.2 Consensus size: 74
62393529 ATTTCACATC
*
62393539 TTTTGTGGCGTTTATAAAAGCGCCACTAATAAAAGGCTATAAAACGATGACGTTTTGAAATCT-C
1 TTTTGTGGCGTTTTTAAAAGCGCCACTAATAAAAGGCTATAAAACGATGACGTTTTGAAATCTAC
*
62393603 T-TTAGATG
66 TAATAGATG
** * * *
62393611 TTTTGTGGCGTTTTTCCAAGAAGCGCCACTAATAACTTGG-TA-ATAACGATGCCGTTTTGCAAT
1 TTTTGTGGCGTTTTT--AA-AAGCGCCACTAATAA-AAGGCTATAAAACGATGACGTTTTGAAAT
62393674 CTACTAATAGATG
62 CTACTAATAGATG
*
62393687 -TTTGTGGCATTTT
1 TTTTGTGGCGTTTT
62393700 CTAGTGAAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
72 14 0.19
74 22 0.29
75 31 0.41
76 8 0.11
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.36
Consensus pattern (74 bp):
TTTTGTGGCGTTTTTAAAAGCGCCACTAATAAAAGGCTATAAAACGATGACGTTTTGAAATCTAC
TAATAGATG
Found at i:62393756 original size:188 final size:187
Alignment explanation
Indices: 62393476--62393832 Score: 443
Period size: 188 Copynumber: 1.9 Consensus size: 187
62393466 AAATGACGCA
* * * * ** *
62393476 GTTTCTGCAATCTATTAATAGATTTTTGTGGCGTTTCTAGGGAAAATGCCGGTATTTCACATCTT
1 GTTTCTGCAATCTACTAATAGATGTTTGTGGCGTTTCTAGGGAAAACGCCAGTAAATCACACCTT
** * * *
62393541 TTGTGGCGTTTATAAAAGCGCCACTAATAA-AAGGCTATAAAACGATGACGTTTTGA-AATCTCT
66 TTGCAGCGTTTATAAAAGCGCCACTAATAAGAAGGATAT-AAACAACGACGTTTT-ACAATCTCT
*
62393604 T-TAGATGTTTTGTGGCGTTTTTCCAAGAAGCGCCACTAATAACTTGGTAATAACGATGCC
129 TATAGATGTTTTGTGGCATTTTT--AAGAAGCGCCACTAATAACTTGGTAATAACGATGCC
* * *
62393664 GTTT-TGCAATCTACTAATAGATGTTTGTGGCATTTTCTAGTGAAAACGCTAGTAAATCACACCT
1 GTTTCTGCAATCTACTAATAGATGTTTGTGGC-GTTTCTAGGGAAAACGCCAGTAAATCACACCT
* * * *
62393728 TTTGCAGCGTTTATAGAAGCGCCACTAATAAGAAGGATGTAAACAACGTCGTTTTACATTCTCTT
65 TTTGCAGCGTTTATAAAAGCGCCACTAATAAGAAGGATATAAACAACGACGTTTTACAATCTCTT
*
62393793 AATAGATGTTTTGTGGCATTTTTTAGAAGCGCCACTAATA
130 -ATAGATGTTTTGTGGCATTTTTAAGAAGCGCCACTAATA
62393833 TCAAAGCTTC
Statistics
Matches: 143, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
187 26 0.18
188 91 0.64
189 6 0.04
190 20 0.14
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (187 bp):
GTTTCTGCAATCTACTAATAGATGTTTGTGGCGTTTCTAGGGAAAACGCCAGTAAATCACACCTT
TTGCAGCGTTTATAAAAGCGCCACTAATAAGAAGGATATAAACAACGACGTTTTACAATCTCTTA
TAGATGTTTTGTGGCATTTTTAAGAAGCGCCACTAATAACTTGGTAATAACGATGCC
Found at i:62394336 original size:21 final size:21
Alignment explanation
Indices: 62394310--62394363 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
62394300 AGTTTAAGGT
*
62394310 TTTATGGTTTTGGATTTAGGG
1 TTTATGGTTTTAGATTTAGGG
*
62394331 TTTATGGTTTAAGATTTAGGG
1 TTTATGGTTTTAGATTTAGGG
*
62394352 TTTATAGTTTTA
1 TTTATGGTTTTA
62394364 AGACGTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.00, G:0.26, T:0.54
Consensus pattern (21 bp):
TTTATGGTTTTAGATTTAGGG
Found at i:62394527 original size:21 final size:21
Alignment explanation
Indices: 62394302--62394527 Score: 70
Period size: 21 Copynumber: 10.2 Consensus size: 21
62394292 CTGTCTATAG
* *
62394302 TTTAAGGTTTTATGGTTTTGGA
1 TTTAAGG-TTTATAGTTTAGGA
* * *
62394324 TTTAGGGTTTATGGTTTAAGA
1 TTTAAGGTTTATAGTTTAGGA
* *
62394345 TTTAGGGTTTATAGTTTTAAGACGT
1 TTTAAGGTTTATAG-TTT-AG--GA
* *
62394370 TTTATA-ATTTA-AGGTCTAGTGA
1 TTTA-AGGTTTATA-GTTTAG-GA
*
62394392 TTT-AGGTTTATAGTTTTATGA
1 TTTAAGGTTTATAG-TTTAGGA
* *
62394413 TTT-AGGAATCTATA-TTTAAGGG
1 TTTAAGG--TTTATAGTTT-AGGA
*
62394435 TTTAAGGGTTTAGTATTGTTTA-TA
1 TTTAA-GGTTTA-TA--GTTTAGGA
* *
62394459 GTTTAGGGTTTTATGGTTTAGGA
1 -TTTAAGG-TTTATAGTTTAGGA
* *
62394482 TTCAAGGTTTAATA-TTTAGGG
1 TTTAAGGTTT-ATAGTTTAGGA
*
62394503 TTTAAGGTTTATAGTTTATGA
1 TTTAAGGTTTATAGTTTAGGA
62394524 TTTA
1 TTTA
62394528 CAATTATAGA
Statistics
Matches: 151, Mismatches: 30, Indels: 47
0.66 0.13 0.21
Matches are distributed among these distances:
20 4 0.03
21 68 0.45
22 37 0.25
23 12 0.08
24 8 0.05
25 19 0.13
26 3 0.02
ACGTcount: A:0.25, C:0.02, G:0.23, T:0.50
Consensus pattern (21 bp):
TTTAAGGTTTATAGTTTAGGA
Found at i:62396517 original size:42 final size:42
Alignment explanation
Indices: 62396461--62396540 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
62396451 GGCCATGTAG
* * *
62396461 CACACGGCTAAGACACATGCCCATGTCTCTGCCTGTGTAGCA
1 CACACGGCTAAGACACACGCACATGTCTCTGCCCGTGTAGCA
*
62396503 CACACGGCTAAGACACACGCACGTGTCTCTGCCCGTGT
1 CACACGGCTAAGACACACGCACATGTCTCTGCCCGTGT
62396541 GCTCAATTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.23, C:0.35, G:0.23, T:0.20
Consensus pattern (42 bp):
CACACGGCTAAGACACACGCACATGTCTCTGCCCGTGTAGCA
Found at i:62408379 original size:30 final size:30
Alignment explanation
Indices: 62408335--62408401 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
62408325 GTTGAAAGAT
62408335 ACCATGGCAACCTGATATGAAATGTGTAAG
1 ACCATGGCAACCTGATATGAAATGTGTAAG
* *
62408365 ACTATGGCAGCCTGATATGAAATGTGTAAG
1 ACCATGGCAACCTGATATGAAATGTGTAAG
62408395 ACCATGG
1 ACCATGG
62408402 TTGAAAGATA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.24
Consensus pattern (30 bp):
ACCATGGCAACCTGATATGAAATGTGTAAG
Found at i:62408441 original size:46 final size:46
Alignment explanation
Indices: 62408381--62408511 Score: 165
Period size: 46 Copynumber: 2.8 Consensus size: 46
62408371 GCAGCCTGAT
** ***
62408381 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGTGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
62408427 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGACAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
62408473 A-GAAAATGAATAAGACCATAGTTGAAAGACACTATGGCA
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCA
62408512 TCATACCAAA
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
45 1 0.01
46 73 0.99
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:62408441 original size:76 final size:76
Alignment explanation
Indices: 62408300--62408447 Score: 224
Period size: 76 Copynumber: 1.9 Consensus size: 76
62408290 AGTGTGCTCT
* **
62408300 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAG
*
62408365 ACTATGGCAGC
66 ACCATGGCAGC
* ***
62408376 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGTGTGACATGAAATGAATAAG
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAG
62408441 ACCATGG
66 ACCATGG
62408448 TTGAAAGATA
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
76 64 1.00
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (76 bp):
CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAG
ACCATGGCAGC
Found at i:62410832 original size:40 final size:40
Alignment explanation
Indices: 62410758--62410976 Score: 345
Period size: 40 Copynumber: 5.5 Consensus size: 40
62410748 AACCCGAGTA
* *
62410758 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
62410797 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
62410837 CCTTTGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
62410877 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
62410917 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
62410956 CCTTTGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
62410977 GTCATCCGAA
Statistics
Matches: 168, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 35 0.21
40 132 0.79
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:62413695 original size:40 final size:40
Alignment explanation
Indices: 62413570--62413696 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 40
62413560 AAATTGAATG
* * * ***
62413570 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
* *
62413609 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
* *
62413649 ACATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTA-GTGGTT
62413689 ATATCCGG
1 ATATCCGG
62413697 TTATATTCCG
Statistics
Matches: 73, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 14 0.19
40 59 0.81
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTT
Found at i:62421488 original size:123 final size:120
Alignment explanation
Indices: 62421271--62421489 Score: 278
Period size: 123 Copynumber: 1.8 Consensus size: 120
62421261 AATTATGTGG
* * * *
62421271 AATGAAATATGGATGTATTGATTATTGATTTATGTGTGTATGAGTATTCGATAATACCCGGGCTA
1 AATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGATAATACCCGGGCTA
* * * **
62421336 AGTCCCGAAGGCGATTATGCTAGTGATTATAATTGTGTTTGAGCCTTAGTAACGA
66 AGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
* * *
62421391 AATGAAATATGTATGTCCAATGATTATTGATGTATGTGTGCATGAGAAATT-GAATGATATCCGG
1 AATGAAATATGGATGT--AATGATTATTGATGTATGTGTGCATGAG-AATTCG-ATAATACCCGG
*
62421455 GCTAAGCCCCGAAGACAATTATGCTGGAAATTATA
62 GCTAAGCCCCGAAGACAATTATGCTAGAAATTATA
62421490 TCCGGGTTAA
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
120 15 0.18
122 26 0.32
123 41 0.50
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (120 bp):
AATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGATAATACCCGGGCTA
AGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
Found at i:62421533 original size:40 final size:40
Alignment explanation
Indices: 62421448--62421598 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
62421438 AATTGAATGA
* * * *
62421448 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
62421488 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
62421529 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
62421568 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
62421599 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:62421612 original size:40 final size:40
Alignment explanation
Indices: 62421485--62421614 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
62421475 ATGCTGGAAA
* * *
62421485 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
62421525 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
62421565 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
62421605 TTATATCCGG
1 TTATATCCGG
62421615 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:62421613 original size:80 final size:80
Alignment explanation
Indices: 62421447--62421614 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
62421437 AAATTGAATG
* *
62421447 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
62421512 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
62421527 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
62421590 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
62421607 ATATCCGG
1 ATATCCGG
62421615 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:62425844 original size:14 final size:15
Alignment explanation
Indices: 62425825--62425874 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
62425815 GTGTGTATAT
62425825 ATAAAAAAGG-GAAA
1 ATAAAAAAGGAGAAA
*
62425839 AT-AAAAAGGAAAAA
1 ATAAAAAAGGAGAAA
62425853 ATAAAAAAAGGAGAGAA
1 AT-AAAAAAGGAGA-AA
62425870 ATAAA
1 ATAAA
62425875 GAAACAAAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
13 7 0.23
14 7 0.23
16 12 0.40
17 4 0.13
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (15 bp):
ATAAAAAAGGAGAAA
Found at i:62425938 original size:19 final size:20
Alignment explanation
Indices: 62425908--62425946 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
62425898 GCAGGGGAAG
62425908 GAAAGAAAGAAAAGAGAAAA
1 GAAAGAAAGAAAAGAGAAAA
*
62425928 GAAAG-AAGAAAAGGGAAAA
1 GAAAGAAAGAAAAGAGAAAA
62425947 TCAAAGGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (20 bp):
GAAAGAAAGAAAAGAGAAAA
Found at i:62427952 original size:30 final size:30
Alignment explanation
Indices: 62427908--62427974 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
62427898 GTTGAAAGAT
62427908 ACCATGGCAACCTGATATGAAATGTGTAAG
1 ACCATGGCAACCTGATATGAAATGTGTAAG
* *
62427938 ACTATGGCAGCCTGATATGAAATGTGTAAG
1 ACCATGGCAACCTGATATGAAATGTGTAAG
62427968 ACCATGG
1 ACCATGG
62427975 TTGAAAGATA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.24
Consensus pattern (30 bp):
ACCATGGCAACCTGATATGAAATGTGTAAG
Found at i:62428014 original size:46 final size:46
Alignment explanation
Indices: 62427954--62428084 Score: 165
Period size: 46 Copynumber: 2.8 Consensus size: 46
62427944 GCAGCCTGAT
* ***
62427954 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGTGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
62428000 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGACAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
62428046 A-GAAAGTGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATGAAA-TGAGTAAGACCATGGTTGAAAGATACCATGGCA
62428085 TCATACAAAG
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
45 4 0.05
46 69 0.95
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:62428014 original size:76 final size:76
Alignment explanation
Indices: 62427873--62428020 Score: 233
Period size: 76 Copynumber: 1.9 Consensus size: 76
62427863 AGTGTGCTCT
* **
62427873 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAG
*
62427938 ACTATGGCAGC
66 ACCATGGCAGC
***
62427949 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGTGTGACATGAAATGAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAG
62428014 ACCATGG
66 ACCATGG
62428021 TTGAAAGATA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 65 1.00
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (76 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAG
ACCATGGCAGC
Found at i:62444663 original size:47 final size:47
Alignment explanation
Indices: 62444591--62444863 Score: 355
Period size: 47 Copynumber: 5.9 Consensus size: 47
62444581 CCCTTCGGGA
* * * * *
62444591 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTT-GGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
* * *
62444638 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62444685 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62444732 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62444779 C---T----TATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62444819 CTTATCACATATATTATATACACTTTCACATTCATCACATCGGCC
1 CTTATCAC----A-TATATACACTTTCACATTCATCACATCGGCC
62444864 TAATATCACA
Statistics
Matches: 203, Mismatches: 10, Indels: 21
0.87 0.04 0.09
Matches are distributed among these distances:
40 39 0.19
43 1 0.00
44 1 0.00
46 2 0.01
47 129 0.64
52 31 0.15
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:62444670 original size:25 final size:25
Alignment explanation
Indices: 62444641--62444719 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
62444631 ACTTGGCCCT
*
62444641 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACATTCACATTC
** * *
62444666 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACATTC-ACATTC
*
62444688 ATCACATATATACACCTTCACATTC
1 ATCACATATATACACATTCACATTC
62444713 ATCACAT
1 ATCACAT
62444720 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACATTCACATTC
Found at i:62444786 original size:40 final size:40
Alignment explanation
Indices: 62444741--62444823 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
62444731 CCTTATCACA
62444741 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
62444781 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
62444821 TAT
1 TAT
62444824 CACATATATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.34
Consensus pattern (40 bp):
TATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
Found at i:62444831 original size:87 final size:89
Alignment explanation
Indices: 62444694--62444863 Score: 290
Period size: 87 Copynumber: 1.9 Consensus size: 89
62444684 CCTTATCACA
62444694 TATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-A-TATATACACTTTCACA
1 TATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATTATATACACTTTCACA
62444757 TTCATCACATCGGCCATTAGGCCT
66 TTCATCACATCGGCCATTAGGCCT
*
62444781 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATTATATACACTTTC
1 TATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--A-ATTATATACACTTTC
62444846 ACATTCATCACATCGGCC
63 ACATTCATCACATCGGCC
62444864 TAATATCACA
Statistics
Matches: 77, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
87 45 0.58
91 1 0.01
92 31 0.40
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (89 bp):
TATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATTATATACACTTTCACA
TTCATCACATCGGCCATTAGGCCT
Found at i:62447749 original size:40 final size:40
Alignment explanation
Indices: 62447689--62447910 Score: 313
Period size: 40 Copynumber: 5.6 Consensus size: 40
62447679 TACTCAGATG
* *
62447689 ATATTCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
62447729 ATATCCGGGCTAAGTCCCGAAGGCCTTTGCGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
62447769 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
62447809 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * ** *
62447849 GTATCCGGACTAAAACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
62447889 ATA-CCCGGCTAATTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
62447911 TACTTGGGTT
Statistics
Matches: 163, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
39 15 0.09
40 146 0.90
41 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:62451497 original size:27 final size:27
Alignment explanation
Indices: 62451442--62451546 Score: 97
Period size: 27 Copynumber: 3.9 Consensus size: 27
62451432 TCTCGACGAT
* *
62451442 ATACGCTTAGTTTACTAAAATTACCGAA
1 ATACGCTTAGTTT-GTAAAATTACTGAA
*
62451470 ATACGCTTAGTTTGTAAAAATACTGAA
1 ATACGCTTAGTTTGTAAAATTACTGAA
* * *
62451497 ATAC-CCTCGATTTGTAAAATTACTAAA
1 ATACGCTTAG-TTTGTAAAATTACTGAA
* *
62451524 ATAC-CTTCGACTTGTAAAATTAC
1 ATACGCTTAG-TTTGTAAAATTAC
62451547 CAAAGTACCC
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
26 3 0.04
27 51 0.76
28 13 0.19
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.33
Consensus pattern (27 bp):
ATACGCTTAGTTTGTAAAATTACTGAA
Found at i:62451555 original size:27 final size:26
Alignment explanation
Indices: 62451481--62451556 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
62451471 TACGCTTAGT
* * *
62451481 TTGTAAAAATACTGAAATACCCTCGAT
1 TTGTAAAATTAC-CAAATACCCTCGAC
* *
62451508 TTGTAAAATTACTAAAATACCTTCGAC
1 TTGTAAAATTAC-CAAATACCCTCGAC
62451535 TTGTAAAATTACCAAAGTACCC
1 TTGTAAAATTACCAAA-TACCC
62451557 CCGATTTACA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 3 0.07
27 39 0.93
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (26 bp):
TTGTAAAATTACCAAATACCCTCGAC
Found at i:62451571 original size:27 final size:27
Alignment explanation
Indices: 62451541--62451602 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
62451531 CGACTTGTAA
62451541 AATTACCAAAGTACCCCCGATTTACAG
1 AATTACCAAAGTACCCCCGATTTACAG
*** *
62451568 AATTACCATTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAG
62451595 AATTACCA
1 AATTACCA
62451603 TTTTACCCCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.35, C:0.29, G:0.06, T:0.29
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAG
Found at i:62451603 original size:27 final size:27
Alignment explanation
Indices: 62451552--62451619 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
62451542 ATTACCAAAG
62451552 TACCCCCGATTTACAGAATTACCATTT
1 TACCCCCGATTTACAGAATTACCATTT
*
62451579 TACCCCCGATTTACATAATTACCATTT
1 TACCCCCGATTTACAGAATTACCATTT
*
62451606 TACCCCCGTTTTAC
1 TACCCCCGATTTAC
62451620 CCTCGACTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.26, C:0.32, G:0.06, T:0.35
Consensus pattern (27 bp):
TACCCCCGATTTACAGAATTACCATTT
Found at i:62451610 original size:54 final size:54
Alignment explanation
Indices: 62451552--62451746 Score: 156
Period size: 54 Copynumber: 3.4 Consensus size: 54
62451542 ATTACCAAAG
* * *
62451552 TACCCCCGATTTACAGAATTACCATTTTACCCCCGATTTACATAATTACCATTT
1 TACCCCCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTATCATTT
* * *
62451606 TACCCCCGTTTTACCCTCGACTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTATCGTTT
1 TACCCCCG----A---T----TTACAGAATTACCATTTTACCCTCGATTTACAGAATTATCATTT
** * * ** *
62451671 TACCGTCGATTTATAGAATTACTATTTTACCCTTAATTTACAGAATTATTATTT
1 TACCCCCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTATCATTT
* *
62451725 TACCCTCGATTTACAAAATTAC
1 TACCCCCGATTTACAGAATTAC
62451747 TAAAATACCC
Statistics
Matches: 113, Mismatches: 17, Indels: 22
0.74 0.11 0.14
Matches are distributed among these distances:
54 65 0.58
58 2 0.02
61 2 0.02
65 44 0.39
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.39
Consensus pattern (54 bp):
TACCCCCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTATCATTT
Found at i:62451618 original size:38 final size:38
Alignment explanation
Indices: 62451576--62451657 Score: 101
Period size: 38 Copynumber: 2.2 Consensus size: 38
62451566 AGAATTACCA
* *
62451576 TTTTACCCCCGATTTACATAATTACCATTTTACCCCCG
1 TTTTACCCCCGACTTACAGAATTACCATTTTACCCCCG
* * * *
62451614 TTTTACCCTCGACTTATAGAATTACCGTTTTACCCTCG
1 TTTTACCCCCGACTTACAGAATTACCATTTTACCCCCG
*
62451652 ATTTAC
1 TTTTAC
62451658 AGAATTATCG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.39
Consensus pattern (38 bp):
TTTTACCCCCGACTTACAGAATTACCATTTTACCCCCG
Found at i:62451641 original size:27 final size:27
Alignment explanation
Indices: 62451611--62451746 Score: 146
Period size: 27 Copynumber: 5.0 Consensus size: 27
62451601 CATTTTACCC
*
62451611 CCGTTTTACCCTCGACTTATAGAATTA
1 CCGTTTTACCCTCGATTTATAGAATTA
*
62451638 CCGTTTTACCCTCGATTTACAGAATTA
1 CCGTTTTACCCTCGATTTATAGAATTA
* *
62451665 TCGTTTTACCGTCGATTTATAGAATTA
1 CCGTTTTACCCTCGATTTATAGAATTA
** ** *
62451692 CTATTTTACCCTTAATTTACAGAATTA
1 CCGTTTTACCCTCGATTTATAGAATTA
*** * *
62451719 TTATTTTACCCTCGATTTACAAAATTA
1 CCGTTTTACCCTCGATTTATAGAATTA
62451746 C
1 C
62451747 TAAAATACCC
Statistics
Matches: 92, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 92 1.00
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (27 bp):
CCGTTTTACCCTCGATTTATAGAATTA
Found at i:62451656 original size:65 final size:65
Alignment explanation
Indices: 62451552--62451674 Score: 174
Period size: 65 Copynumber: 1.9 Consensus size: 65
62451542 ATTACCAAAG
* *
62451552 TACCCCCGATTTACAGAATTACCATTTTACCCCCGATTTACATAATTACCATTTTACCCCCGTTT
1 TACCCCCGACTTACAGAATTACCATTTTACCCCCGATTTACAGAATTACCATTTTACCCCCGTTT
* * * * * *
62451617 TACCCTCGACTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTATCGTTTTACC
1 TACCCCCGACTTACAGAATTACCATTTTACCCCCGATTTACAGAATTACCATTTTACC
62451675 GTCGATTTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
65 50 1.00
ACGTcount: A:0.26, C:0.29, G:0.08, T:0.37
Consensus pattern (65 bp):
TACCCCCGACTTACAGAATTACCATTTTACCCCCGATTTACAGAATTACCATTTTACCCCCGTTT
Found at i:62451747 original size:54 final size:54
Alignment explanation
Indices: 62451614--62451748 Score: 180
Period size: 54 Copynumber: 2.5 Consensus size: 54
62451604 TTTACCCCCG
* ** * *
62451614 TTTTACCCTCGACTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTATCG
1 TTTTACCCTCGATTTATAGAATTACTATTTTACCCTCAATTTACAGAATTATCA
* * *
62451668 TTTTACCGTCGATTTATAGAATTACTATTTTACCCTTAATTTACAGAATTATTA
1 TTTTACCCTCGATTTATAGAATTACTATTTTACCCTCAATTTACAGAATTATCA
* *
62451722 TTTTACCCTCGATTTACAAAATTACTA
1 TTTTACCCTCGATTTATAGAATTACTA
62451749 AAATACCCTT
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 70 1.00
ACGTcount: A:0.30, C:0.20, G:0.08, T:0.42
Consensus pattern (54 bp):
TTTTACCCTCGATTTATAGAATTACTATTTTACCCTCAATTTACAGAATTATCA
Found at i:62451755 original size:27 final size:27
Alignment explanation
Indices: 62451725--62451946 Score: 146
Period size: 27 Copynumber: 8.1 Consensus size: 27
62451715 ATTATTATTT
* * *
62451725 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* *
62451752 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* *
62451779 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTATAAAATTACCAAAA
* * * * *
62451806 TAACCTTGGTTTGTGAAATTACCGAAA
1 TACCCTTGATTTATAAAATTACCAAAA
** *
62451833 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* *
62451860 TACGCC-TGATTTACAAAGTTA-CAGAAA
1 TAC-CCTTGATTTATAAAATTACCA-AAA
* *
62451887 TACCCTTGACTTTTTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAT-AAAATTACCA-AAA
* * * **
62451916 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTATAAAATTACCAAAA
62451943 TACC
1 TACC
62451947 TTTGGTTTGT
Statistics
Matches: 155, Mismatches: 32, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
26 4 0.03
27 124 0.80
28 9 0.06
29 18 0.12
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
TACCCTTGATTTATAAAATTACCAAAA
Found at i:62451783 original size:54 final size:54
Alignment explanation
Indices: 62451725--62451862 Score: 188
Period size: 54 Copynumber: 2.6 Consensus size: 54
62451715 ATTATTATTT
* ** *
62451725 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * * *
62451779 TACCC-CTAGTTTGTAAAATTACCAAAATAACCTTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
62451833 TACCCTCAATTTGTAAAATTACCAAAATAC
1 TACCCTCAATTTGTAAAATTACCAAAATAC
62451863 GCCTGATTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
53 1 0.01
54 70 0.97
55 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
Found at i:62451951 original size:27 final size:26
Alignment explanation
Indices: 62451899--62451954 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
62451889 CCCTTGACTT
62451899 TTTAAAAATTATAGAAATACCATTGG
1 TTTAAAAATTATAGAAATACCATTGG
*
62451925 TTTACAAAATTACT-GAAATACCTTTGG
1 TTTA-AAAATTA-TAGAAATACCATTGG
62451952 TTT
1 TTT
62451955 GTTGATTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 4 0.15
27 22 0.81
28 1 0.04
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (26 bp):
TTTAAAAATTATAGAAATACCATTGG
Found at i:62452041 original size:27 final size:27
Alignment explanation
Indices: 62452006--62452073 Score: 102
Period size: 27 Copynumber: 2.5 Consensus size: 27
62451996 ATGCCCCAAT
*
62452006 TAGGGTAAAGTGACCGTAA-AGCCCCTG
1 TAGGGTAAAATGACCGTAATA-CCCCTG
62452033 TAGGGTAAAATGACCGTAATACCCCTG
1 TAGGGTAAAATGACCGTAATACCCCTG
*
62452060 TATGGTAAAATGAC
1 TAGGGTAAAATGAC
62452074 GAATATGCCC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (27 bp):
TAGGGTAAAATGACCGTAATACCCCTG
Found at i:62453349 original size:11 final size:11
Alignment explanation
Indices: 62453313--62453368 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
62453303 CATGGTATGT
62453313 ATGATATGCAC
1 ATGATATGCAC
* *
62453324 ATGACATG--T
1 ATGATATGCAC
62453333 ATGATATGCAC
1 ATGATATGCAC
*
62453344 ATGATATG--T
1 ATGATATGCAC
62453353 ATGATATGCAC
1 ATGATATGCAC
62453364 ATGAT
1 ATGAT
62453369 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:62453368 original size:20 final size:20
Alignment explanation
Indices: 62453302--62453368 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
62453292 ATTTTGATAA
*
62453302 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
62453322 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
62453342 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
62453362 ACATGAT
1 ACATGAT
62453369 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:62453474 original size:24 final size:24
Alignment explanation
Indices: 62453417--62453584 Score: 207
Period size: 24 Copynumber: 7.0 Consensus size: 24
62453407 GGAGGAAGTG
*
62453417 AAAAAGGGCTTATGCCCCAGTAAT
1 AAAAAGGGCTTATGCCCCAGTTAT
*
62453441 -TAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT
*
62453464 AAAAAGGGCTTATGTCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT
* * *
62453488 CAAAAGGGCTTACGCCCCGGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT
*
62453512 -TAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT
*
62453535 AAAAAGGGCTTTTGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT
* *
62453559 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAG-GGCTTATGCC-CCAGTTAT
62453584 A
1 A
62453585 TGATAAAGCA
Statistics
Matches: 123, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
23 41 0.33
24 71 0.58
25 11 0.09
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAAGGGCTTATGCCCCAGTTAT
Found at i:62453517 original size:47 final size:46
Alignment explanation
Indices: 62453419--62453584 Score: 199
Period size: 47 Copynumber: 3.5 Consensus size: 46
62453409 AGGAAGTGAA
* * *
62453419 AAAGGGCTTATGCCCCAGTAATTAAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT-T
* * *
62453466 AAAGGGCTTATGTCCCAGTTATCAAAAGGGCTTACGCCCCGGTTATT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
*
62453513 AAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
*
62453560 AAAAGAGGC-TAGGCCTCCAGTTATA
1 -AAAG-GGCTTATGCC-CCAGTTATA
62453585 TGATAAAGCA
Statistics
Matches: 103, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
47 62 0.60
48 30 0.29
49 11 0.11
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
Found at i:62453534 original size:71 final size:71
Alignment explanation
Indices: 62453418--62453569 Score: 241
Period size: 71 Copynumber: 2.1 Consensus size: 71
62453408 GAGGAAGTGA
* *
62453418 AAAAGGGCTTATGCCCCAGTAATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGTCCCA
1 AAAAGGGCTTACGCCCCAGTAATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
62453483 GTTATC
66 GTTATC
* * *
62453489 AAAAGGGCTTACGCCCCGGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTAATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
62453554 GTTATT
66 GTTATC
62453560 AAAAGAGGCT
1 AAAAG-GGCT
62453570 AGGCCTCCAG
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
71 70 0.95
72 4 0.05
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTAATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:62453814 original size:31 final size:31
Alignment explanation
Indices: 62453776--62453839 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
62453766 CGTTTTGAGT
* *
62453776 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCAAGTAATATGAAAAATGA
**
62453807 AAAGGCTTCGGCCAAGTGTTATGAAAAATGA
1 AAAGGCTTCGGCCAAGTAATATGAAAAATGA
62453838 AA
1 AA
62453840 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCAAGTAATATGAAAAATGA
Done.