Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 61 of 211
Found at i:18615852 original size:29 final size:29
Alignment explanation
Indices: 18615819--18615876 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
18615809 ATAATCTATA
*
18615819 CATAGTTTCATTGACTCATCTTTCTTTTT
1 CATAGTTTCATTGACCCATCTTTCTTTTT
18615848 CATAGTTTCATTGACCCATCTTTCTTTTT
1 CATAGTTTCATTGACCCATCTTTCTTTTT
18615877 TATGAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.17, C:0.22, G:0.07, T:0.53
Consensus pattern (29 bp):
CATAGTTTCATTGACCCATCTTTCTTTTT
Found at i:18616706 original size:20 final size:20
Alignment explanation
Indices: 18616681--18616725 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
18616671 ATTATTGACC
**
18616681 TACAAACAAGGGTACTGAAG
1 TACAAACAAGGGTACCAAAG
18616701 TACAAACAAGGGTACCAAAG
1 TACAAACAAGGGTACCAAAG
18616721 TACAA
1 TACAA
18616726 GCATTCAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.49, C:0.18, G:0.20, T:0.13
Consensus pattern (20 bp):
TACAAACAAGGGTACCAAAG
Found at i:18622011 original size:38 final size:38
Alignment explanation
Indices: 18621951--18622027 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
18621941 TCAATGCATA
* *
18621951 TGCTCTGTTTTGTCATAAATTCTCACCATTGATGTTAG
1 TGCTATGTGTTGTCATAAATTCTCACCATTGATGTTAG
18621989 TGCTATGTGTTGTCATAAATTCTCACCATTGATGTTAG
1 TGCTATGTGTTGTCATAAATTCTCACCATTGATGTTAG
18622027 T
1 T
18622028 ATTAACATAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (38 bp):
TGCTATGTGTTGTCATAAATTCTCACCATTGATGTTAG
Found at i:18626038 original size:106 final size:106
Alignment explanation
Indices: 18625853--18626064 Score: 424
Period size: 106 Copynumber: 2.0 Consensus size: 106
18625843 AGCCCTCAGG
18625853 GTGTAAGTTTGCACAGGTCCGAGAGTCAAAAAAAGAAAGTCCACATATCCACTAAAAATCATATA
1 GTGTAAGTTTGCACAGGTCCGAGAGTCAAAAAAAGAAAGTCCACATATCCACTAAAAATCATATA
18625918 CATGTATTATATAAGAATCTGCATATACAAACTAAGCGAAA
66 CATGTATTATATAAGAATCTGCATATACAAACTAAGCGAAA
18625959 GTGTAAGTTTGCACAGGTCCGAGAGTCAAAAAAAGAAAGTCCACATATCCACTAAAAATCATATA
1 GTGTAAGTTTGCACAGGTCCGAGAGTCAAAAAAAGAAAGTCCACATATCCACTAAAAATCATATA
18626024 CATGTATTATATAAGAATCTGCATATACAAACTAAGCGAAA
66 CATGTATTATATAAGAATCTGCATATACAAACTAAGCGAAA
18626065 TATAGCCTCA
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 106 1.00
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.24
Consensus pattern (106 bp):
GTGTAAGTTTGCACAGGTCCGAGAGTCAAAAAAAGAAAGTCCACATATCCACTAAAAATCATATA
CATGTATTATATAAGAATCTGCATATACAAACTAAGCGAAA
Found at i:18637773 original size:25 final size:25
Alignment explanation
Indices: 18637739--18637788 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
18637729 TAAGGTCACG
*
18637739 CGGCCGTGTCACACGCCCGTGTGTC
1 CGGCCGTGTCACACACCCGTGTGTC
*
18637764 CGGCCGTGTCACACACTCGTGTGTC
1 CGGCCGTGTCACACACCCGTGTGTC
18637789 TAATTGTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.10, C:0.38, G:0.30, T:0.22
Consensus pattern (25 bp):
CGGCCGTGTCACACACCCGTGTGTC
Found at i:18638711 original size:35 final size:35
Alignment explanation
Indices: 18638648--18638799 Score: 151
Period size: 35 Copynumber: 4.3 Consensus size: 35
18638638 AGTCTAACCA
* *
18638648 AAACACACCAAATGCTCATAGGAACCAATCCAAACG
1 AAACACACC-AATACTCATAAGAACCAATCCAAACG
* * * *
18638684 AAACATACCAATACTCATAAGATCCAATTCAACCG
1 AAACACACCAATACTCATAAGAACCAATCCAAACG
* * * * *
18638719 AAACACACCAATGCTCATAAGAGCTAGTCCAATCG
1 AAACACACCAATACTCATAAGAACCAATCCAAACG
*** * *
18638754 AAACACACCAATACTCATAAGAGTTAGTCCAACCG
1 AAACACACCAATACTCATAAGAACCAATCCAAACG
18638789 AAACACACCAA
1 AAACACACCAA
18638800 ACAGAGAGTA
Statistics
Matches: 100, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
35 92 0.92
36 8 0.08
ACGTcount: A:0.45, C:0.30, G:0.10, T:0.15
Consensus pattern (35 bp):
AAACACACCAATACTCATAAGAACCAATCCAAACG
Found at i:18638735 original size:70 final size:70
Alignment explanation
Indices: 18638643--18638799 Score: 199
Period size: 70 Copynumber: 2.2 Consensus size: 70
18638633 TCGTCAGTCT
* * *
18638643 AACCAAAACACACCAAATGCTCATAGGAACCAATCCAAACGAAACATACCAATACTCATAAGA-T
1 AACCGAAACACACC-AATGCTCATAAGAACCAATCCAAACGAAACACACCAATACTCATAAGAGT
*
18638707 CCAATTC
65 -CAATCC
* * * * *
18638714 AACCGAAACACACCAATGCTCATAAGAGCTAGTCCAATCGAAACACACCAATACTCATAAGAGTT
1 AACCGAAACACACCAATGCTCATAAGAACCAATCCAAACGAAACACACCAATACTCATAAGAGTC
*
18638779 AGTCC
66 AATCC
18638784 AACCGAAACACACCAA
1 AACCGAAACACACCAA
18638800 ACAGAGAGTA
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
70 61 0.81
71 14 0.19
ACGTcount: A:0.46, C:0.30, G:0.10, T:0.15
Consensus pattern (70 bp):
AACCGAAACACACCAATGCTCATAAGAACCAATCCAAACGAAACACACCAATACTCATAAGAGTC
AATCC
Found at i:18641928 original size:16 final size:17
Alignment explanation
Indices: 18641904--18641938 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
18641894 CCAAAACAGA
18641904 AAATAAAAAAAT-GCCC
1 AAATAAAAAAATAGCCC
*
18641920 AAATCAAAAAATAGCCC
1 AAATAAAAAAATAGCCC
18641937 AA
1 AA
18641939 CAGGCCCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.63, C:0.20, G:0.06, T:0.11
Consensus pattern (17 bp):
AAATAAAAAAATAGCCC
Found at i:18642256 original size:1 final size:1
Alignment explanation
Indices: 18642252--18642337 Score: 64
Period size: 1 Copynumber: 86.0 Consensus size: 1
18642242 TATTTCAATA
* * * * * * * * *
18642252 TTTTTATTTTTTATTTTTTATTTTTTATTTTTATTTTTTATTTTTTATTTTTATTTTTTATTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
18642317 TATTTTTTATTTTTTATTTTT
1 TTTTTTTTTTTTTTTTTTTTT
18642338 GTATACGAAA
Statistics
Matches: 61, Mismatches: 24, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 61 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (1 bp):
T
Found at i:18642264 original size:7 final size:7
Alignment explanation
Indices: 18642252--18642337 Score: 158
Period size: 7 Copynumber: 12.6 Consensus size: 7
18642242 TATTTCAATA
18642252 TTTTTAT
1 TTTTTAT
18642259 TTTTTAT
1 TTTTTAT
18642266 TTTTTAT
1 TTTTTAT
18642273 TTTTTA-
1 TTTTTAT
18642279 TTTTTAT
1 TTTTTAT
18642286 TTTTTAT
1 TTTTTAT
18642293 TTTTTA-
1 TTTTTAT
18642299 TTTTTAT
1 TTTTTAT
18642306 TTTTTAT
1 TTTTTAT
18642313 TTTTTAT
1 TTTTTAT
18642320 TTTTTAT
1 TTTTTAT
18642327 TTTTTAT
1 TTTTTAT
18642334 TTTT
1 TTTT
18642338 GTATACGAAA
Statistics
Matches: 77, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
6 12 0.16
7 65 0.84
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTAT
Found at i:18642268 original size:27 final size:27
Alignment explanation
Indices: 18642253--18642337 Score: 136
Period size: 27 Copynumber: 3.1 Consensus size: 27
18642243 ATTTCAATAT
*
18642253 TTTTATTTTTTATTTTTTATTTTTTAT
1 TTTTATTTTTTATTTTTTATTTTATAT
18642280 TTTTATTTTTTATTTTTTATTTT-TATT
1 TTTTATTTTTTATTTTTTATTTTATA-T
*
18642307 TTTTATTTTTTATTTTTTATTTTTTAT
1 TTTTATTTTTTATTTTTTATTTTATAT
18642334 TTTT
1 TTTT
18642338 GTATACGAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
26 2 0.04
27 52 0.93
28 2 0.04
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (27 bp):
TTTTATTTTTTATTTTTTATTTTATAT
Found at i:18642273 original size:20 final size:21
Alignment explanation
Indices: 18642252--18642337 Score: 158
Period size: 20 Copynumber: 4.2 Consensus size: 21
18642242 TATTTCAATA
18642252 TTTTTATTTTTTATTTTTTAT
1 TTTTTATTTTTTATTTTTTAT
18642273 TTTTTA-TTTTTATTTTTTAT
1 TTTTTATTTTTTATTTTTTAT
18642293 TTTTTA-TTTTTATTTTTTAT
1 TTTTTATTTTTTATTTTTTAT
18642313 TTTTTATTTTTTATTTTTTAT
1 TTTTTATTTTTTATTTTTTAT
18642334 TTTT
1 TTTT
18642338 GTATACGAAA
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
20 40 0.62
21 24 0.38
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (21 bp):
TTTTTATTTTTTATTTTTTAT
Found at i:18643287 original size:26 final size:26
Alignment explanation
Indices: 18643240--18643289 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
18643230 ACACGCATAC
*
18643240 TTTTATAATATATATACGTACATATT
1 TTTTATAATATATATACATACATATT
* *
18643266 TTTTATAATTTATATATATACATA
1 TTTTATAATATATATACATACATA
18643290 CTTATATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (26 bp):
TTTTATAATATATATACATACATATT
Found at i:18643840 original size:71 final size:72
Alignment explanation
Indices: 18643724--18643862 Score: 235
Period size: 71 Copynumber: 1.9 Consensus size: 72
18643714 TTTCAAACTC
*
18643724 AAGTTTCAAACGATCTAGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCC-TTT
1 AAGTTTCAAACGATCTAGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCGTTT
18643788 TTTCCTT
66 TTTCCTT
* * *
18643795 AAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCTTAACTTACTGGGCATGATCCGTTT
1 AAGTTTCAAACGATCTAGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCGTTT
18643860 TTT
66 TTT
18643863 AAATCCGAGA
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 57 0.90
72 6 0.10
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.35
Consensus pattern (72 bp):
AAGTTTCAAACGATCTAGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCGTTT
TTTCCTT
Found at i:18647131 original size:46 final size:44
Alignment explanation
Indices: 18646999--18647134 Score: 123
Period size: 46 Copynumber: 3.0 Consensus size: 44
18646989 AAGAGAAAGG
* * *
18646999 GACCAAAGTGAAAACCAGCAAATGGGTGTTTTGAGTCCT--AAAAAA
1 GACCAAGGTGAAAACCA-CAAA-GGGCGCTTTGAGT-CTAAAAAAAA
* * * * *
18647044 GACTAAGGTGAAAACCCGCAAAGGACGCCTTAAGTTCTAAAAAAAA
1 GACCAAGGTGAAAA-CCACAAAGGGCGCTTTGAG-TCTAAAAAAAA
18647090 GACCAAGGTGAAAACTCACAAAGGGCGCTTTGAGTCGTAAAAAAA
1 GACCAAGGTGAAAAC-CACAAAGGGCGCTTTGAGTC-TAAAAAAA
18647135 TAATAAAAAG
Statistics
Matches: 72, Mismatches: 13, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
44 9 0.12
45 20 0.28
46 43 0.60
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (44 bp):
GACCAAGGTGAAAACCACAAAGGGCGCTTTGAGTCTAAAAAAAA
Found at i:18647288 original size:42 final size:41
Alignment explanation
Indices: 18647228--18647346 Score: 139
Period size: 42 Copynumber: 2.8 Consensus size: 41
18647218 AAAAGGGCGT
* * *
18647228 CTCAAATGTTGATCAGAATGGGGCATGATGTTATCAGAGTAG
1 CTCAAAT-TTGATCAGAATGGGGCATGATGTGATCAAAGTAA
* * *
18647270 CTCAAATTTCGATTAGAATAGGGTATGATGTGATCAAAGTAA
1 CTCAAATTT-GATCAGAATGGGGCATGATGTGATCAAAGTAA
* *
18647312 CTCAAATTTTGATCAGATTGGGGCATGTTGTGATC
1 CTCAAA-TTTGATCAGAATGGGGCATGATGTGATC
18647347 TTGCTATACC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 2 0.03
42 59 0.92
43 3 0.05
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (41 bp):
CTCAAATTTGATCAGAATGGGGCATGATGTGATCAAAGTAA
Found at i:18648150 original size:24 final size:24
Alignment explanation
Indices: 18648115--18648170 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
18648105 ATGTTCCAAA
*
18648115 ATTACAGCGGATTGAACATTGAAG
1 ATTACAGTGGATTGAACATTGAAG
*
18648139 ATTACAGTGGATTGAACCTTGAAG
1 ATTACAGTGGATTGAACATTGAAG
18648163 ATTACAGT
1 ATTACAGT
18648171 TGGGAGAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (24 bp):
ATTACAGTGGATTGAACATTGAAG
Found at i:18648834 original size:123 final size:123
Alignment explanation
Indices: 18648678--18649140 Score: 407
Period size: 123 Copynumber: 3.6 Consensus size: 123
18648668 TTTCCCTAAC
* * *
18648678 GTTGTAGCTGG-ACAAATTAAAGCTAAAGGTAGCGAATATTATTTCCCT-GCAGTTGCAGTGGAA
1 GTTGTAG-TGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGC-GTTGCAGTGGAA
*
18648741 TAGATTAAAGCTGAAGTTGAGCGGATTAAAGCAGAAGGCAGCGGATCTTATCTCTTTGAT
64 TAGATTAAAGCTGAAGTTGAGCGAATTAAAGCAGAAGGCAGCGGATCTTATCTCTTTGAT
* * * *
18648801 GTTGTGGTGGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTGCAGCGGAATA
1 GTTGTAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCGTTGCAGTGGAATA
* * *
18648866 GATTAAAGCTGAAG--GCAGTGAATCTTATCTCCCTAGCATTAAGACTGAGAGCAGCGAATCTTA
66 GATTAAAGCTGAAGTTG-AGCGAA--TTA------AAGC----AGA---AG-GCAGCGGATCTTA
* ** *
18648929 TTTCCCTGAC
114 TCTCTTTGAT
* * * *
18648939 GTTGTTGTGGAACAGATTAAAACTAAAGGTAGCGAATCTTGTTTCTCTAGCGTTGTAGTGGAATA
1 GTTGTAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCGTTGCAGTGGAATA
* * * * * * *
18649004 GGTTAAGGCTGAAGTGGAGTGAATTAAAGCTGAAGGCAGCGGATCCTATCTCTTTGGT
66 GATTAAAGCTGAAGTTGAGCGAATTAAAGCAGAAGGCAGCGGATCTTATCTCTTTGAT
* * * * *
18649062 -TTCATAGTGGAACAGATTAAAGTTAAAGGTAGCGAATCTTGTTTCTCTGGCGTTGCAG-CGAAG
1 GTT-GTAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCGTTGCAGTGGAA-
*
18649125 CAGATTAAAGCTGAAG
64 TAGATTAAAGCTGAAG
18649141 GCAACGAATC
Statistics
Matches: 274, Mismatches: 43, Indels: 46
0.75 0.12 0.13
Matches are distributed among these distances:
121 1 0.00
122 12 0.04
123 143 0.52
124 7 0.03
127 2 0.01
130 3 0.01
131 3 0.01
134 3 0.01
137 5 0.02
138 88 0.32
139 6 0.02
140 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (123 bp):
GTTGTAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCGTTGCAGTGGAATA
GATTAAAGCTGAAGTTGAGCGAATTAAAGCAGAAGGCAGCGGATCTTATCTCTTTGAT
Found at i:18648864 original size:51 final size:51
Alignment explanation
Indices: 18648809--18648905 Score: 149
Period size: 51 Copynumber: 1.9 Consensus size: 51
18648799 ATGTTGTGGT
* * *
18648809 GGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTGCAGC
1 GGAATAGATTAAAGCTAAAGGCAGCGAATCTTATCTCCCTAGCATTGCAGC
* *
18648860 GGAATAGATTAAAGCTGAAGGCAGTGAATCTTATCTCCCTAGCATT
1 GGAATAGATTAAAGCTAAAGGCAGCGAATCTTATCTCCCTAGCATT
18648906 AAGACTGAGA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (51 bp):
GGAATAGATTAAAGCTAAAGGCAGCGAATCTTATCTCCCTAGCATTGCAGC
Found at i:18649001 original size:261 final size:261
Alignment explanation
Indices: 18648643--18649157 Score: 714
Period size: 261 Copynumber: 2.0 Consensus size: 261
18648633 AAAGCTGGCG
*
18648643 TTAAGACTGAGAACAGAGAATCTTATTTCCCTAACGTTGTAGCTGGACAAATTAAAGCTAAAGGT
1 TTAAGACTGAGAACAGAGAATCTTATTTCCCTAACGTTGTAGCTGGACAAATTAAAACTAAAGGT
* *
18648708 AGCGAATATTATTTCCCTGCAGTTGCAGTGGAATAGATTAAAGCTGAAGTTGAGCGGATTAAAGC
66 AGCGAATATTATTTCCCTGCAGTTGCAGTGGAATAGATTAAAGCTGAAGTGGAGCGAATTAAAGC
* * * *
18648773 AGAAGGCAGCGGATCTTATCTCTTTGATGTT-GTGGTGGAATAGATTAAAGCTAAAGGTAGCGAA
131 AGAAGGCAGCGGATCCTATCTCTTTGAT-TTCATAGTGGAACAGATTAAAGCTAAAGGTAGCGAA
* **
18648837 TCTTGTTTCCCTAGCATTGCAGCGGAA-TAGATTAAAGCTGAAGGCAGTGAATCTTATCTCCCTA
195 TCTTGTTTCCCTAGCATTGCAGC-GAAGCAGATTAAAGCTGAAGGCAACGAATCTTATCTCCCTA
18648901 GCA
259 GCA
* * * * *
18648904 TTAAGACTGAGAGCAGCGAATCTTATTTCCCTGACGTTGTTG-TGGAACAGATTAAAACTAAAGG
1 TTAAGACTGAGAACAGAGAATCTTATTTCCCTAACGTTGTAGCTGG-ACAAATTAAAACTAAAGG
* * * * * * *
18648968 TAGCGAATCTTGTTTCTCTAGC-GTTGTAGTGGAATAGGTTAAGGCTGAAGTGGAGTGAATTAAA
65 TAGCGAATATTATTTCCCT-GCAGTTGCAGTGGAATAGATTAAAGCTGAAGTGGAGCGAATTAAA
* * *
18649032 GCTGAAGGCAGCGGATCCTATCTCTTTGGTTTCATAGTGGAACAGATTAAAGTTAAAGGTAGCGA
129 GCAGAAGGCAGCGGATCCTATCTCTTTGATTTCATAGTGGAACAGATTAAAGCTAAAGGTAGCGA
* * *
18649097 ATCTTGTTTCTCTGGCGTTGCAGCGAAGCAGATTAAAGCTGAAGGCAACGAATCTTATCTC
194 ATCTTGTTTCCCTAGCATTGCAGCGAAGCAGATTAAAGCTGAAGGCAACGAATCTTATCTC
18649158 TCTGGTGTTA
Statistics
Matches: 222, Mismatches: 28, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
260 8 0.04
261 212 0.95
262 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (261 bp):
TTAAGACTGAGAACAGAGAATCTTATTTCCCTAACGTTGTAGCTGGACAAATTAAAACTAAAGGT
AGCGAATATTATTTCCCTGCAGTTGCAGTGGAATAGATTAAAGCTGAAGTGGAGCGAATTAAAGC
AGAAGGCAGCGGATCCTATCTCTTTGATTTCATAGTGGAACAGATTAAAGCTAAAGGTAGCGAAT
CTTGTTTCCCTAGCATTGCAGCGAAGCAGATTAAAGCTGAAGGCAACGAATCTTATCTCCCTAGC
A
Found at i:18649015 original size:138 final size:139
Alignment explanation
Indices: 18648778--18649027 Score: 358
Period size: 138 Copynumber: 1.8 Consensus size: 139
18648768 AAAGCAGAAG
* ** * * *
18648778 GCAGCGGATCTTATCTCTTTGATGTTGTGGTGGAATAGATTAAAGCTAAAGGTAGCGAATCTTGT
1 GCAGCGAATCTTATCTCCCTGACGTTGTGGTGGAACAGATTAAAACTAAAGGTAGCGAATCTTGT
18648843 TTCCCTAGCATTGCAGCGGAATAGATTAAAGCTGAAG-GCAGTGAATCTTATCTCCCTAGCATTA
66 TTCCCTAGCATTGCAGCGGAATAGATTAAAGCTGAAGTGCAGTGAATCTTATCTCCCTAGCATTA
18648907 AGACTGAGA
131 AGACTGAGA
* *
18648916 GCAGCGAATCTTATTTCCCTGACGTTGTTGTGGAACAGATTAAAACTAAAGGTAGCGAATCTTGT
1 GCAGCGAATCTTATCTCCCTGACGTTGTGGTGGAACAGATTAAAACTAAAGGTAGCGAATCTTGT
* * * * * * *
18648981 TTCTCTAGCGTTGTAGTGGAATAGGTTAAGGCTGAAGTGGAGTGAAT
66 TTCCCTAGCATTGCAGCGGAATAGATTAAAGCTGAAGTGCAGTGAAT
18649028 TAAAGCTGAA
Statistics
Matches: 96, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
138 88 0.92
139 8 0.08
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (139 bp):
GCAGCGAATCTTATCTCCCTGACGTTGTGGTGGAACAGATTAAAACTAAAGGTAGCGAATCTTGT
TTCCCTAGCATTGCAGCGGAATAGATTAAAGCTGAAGTGCAGTGAATCTTATCTCCCTAGCATTA
AGACTGAGA
Found at i:18649339 original size:132 final size:132
Alignment explanation
Indices: 18649220--18649457 Score: 345
Period size: 132 Copynumber: 1.8 Consensus size: 132
18649210 GACAGACTAA
*
18649220 AGACGACGAATCTTA-TCTTTCCAAGGTAGTTGGGAAGCAGATTTAAGCCACCAGTCC-TATCTC
1 AGACGACGAATCTTACT-TTTCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAG-CCTTATCTC
* * ** * * *
18649283 TCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCCTGTCTCCTTAAGCAGTAGTGGAGTAGA
64 CCTAAGCAGCAGTGGAGTAGACTGAAGATAGCAAATCCTGTCTCCTTAAGCAGTAGTGGAGCAGA
18649348 TCGT
129 TCGT
*
18649352 AGACGACGAATCTTACTTTTCCAATGTAGTAGGGAAGCAGATTTAAGCCACCAGCCTTATCTCCC
1 AGACGACGAATCTTACTTTTCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGCCTTATCTCCC
* *
18649417 TAAGCAGTAGTGGAGTAGACTGAAGATAGCAAATCTTGTCT
66 TAAGCAGCAGTGGAGTAGACTGAAGATAGCAAATCCTGTCT
18649458 TCCTGTATTG
Statistics
Matches: 94, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
131 2 0.02
132 91 0.97
133 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (132 bp):
AGACGACGAATCTTACTTTTCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGCCTTATCTCCC
TAAGCAGCAGTGGAGTAGACTGAAGATAGCAAATCCTGTCTCCTTAAGCAGTAGTGGAGCAGATC
GT
Found at i:18649492 original size:88 final size:88
Alignment explanation
Indices: 18649400--18650014 Score: 696
Period size: 88 Copynumber: 7.0 Consensus size: 88
18649390 AGATTTAAGC
* * * *
18649400 CACCAGCCTTATCTCCCTAAGCAGTAGTGGAGTAGACTGAAGATAGCAAATCTTGTCTTCCTGTA
1 CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGACTGAAGATAACAGATCTTGTCTTCCTGTA
*
18649465 TTGACAGCGAAGTAGATCGAAGA
66 TTGGCAGCGAAGTAGATCGAAGA
* *
18649488 CACCAGCCTTATCTCTCTGAGCAGCAGTGGAGTAGACTGAAGATAACAGATCTTGTGTTCCTGTA
1 CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGACTGAAGATAACAGATCTTGTCTTCCTGTA
*
18649553 TTGGCAACGAAGTAGATCGAAGA
66 TTGGCAGCGAAGTAGATCGAAGA
* ** * * * * * *
18649576 CACCAGCCTTATCTCCTTGAGTTTGCAGCGGGGCAGACTAAAGATAACAGATCTTATTTTCCTGT
1 CACCAGCCTTATCTCCCTGAG-CAGCAGTGGAGTAGACTGAAGATAACAGATCTTGTCTTCCTGT
18649641 ATTGGCAGCGAAGTAGATCGAAGA
65 ATTGGCAGCGAAGTAGATCGAAGA
* * *** * * * * * *
18649665 AACCAACCTTGA-CTCCCTGAATTTGCAGCGGGGCAGACTGAAGATAGCAGATCTTATCTTCCTA
1 CACCAGCCTT-ATCTCCCTG-AGCAGCAGTGGAGTAGACTGAAGATAACAGATCTTGTCTTCCTG
18649729 T-TTGGCAGCGAAGTAGATCGAAGA
64 TATTGGCAGCGAAGTAGATCGAAGA
* * * ** * *
18649753 TACCAGCCTTATCTCCCTAAGCAGCAGTGAAGTAGGTTGAAGATAACAAATCTTTTCTTCCTGTA
1 CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGACTGAAGATAACAGATCTTGTCTTCCTGTA
*
18649818 TTGGCAGCGAAGTAGATCGAATA
66 TTGGCAGCGAAGTAGATCGAAGA
* * ** * *
18649841 TACCAGCCTTATCTCCCTGAGTAGCAGTGGAGTAGGTTGAAGATAGCAGATATTGTCTTCCTGTA
1 CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGACTGAAGATAACAGATCTTGTCTTCCTGTA
*
18649906 TTGGCAGCGAAGTAGATCAAAGA
66 TTGGCAGCGAAGTAGATCGAAGA
* * * ** * * *
18649929 TACCAGCTTTATCTCCCCGAGCAGCAGTGGAGTAGGTTGAAAATAACAGATTTTGTCTTCCTATA
1 CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGACTGAAGATAACAGATCTTGTCTTCCTGTA
* *
18649994 CTGACAGTC-AAGTAGATCGAA
66 TTGGCAG-CGAAGTAGATCGAA
18650015 TAAACCAATC
Statistics
Matches: 458, Mismatches: 63, Indels: 12
0.86 0.12 0.02
Matches are distributed among these distances:
87 33 0.07
88 311 0.68
89 112 0.24
90 2 0.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (88 bp):
CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGACTGAAGATAACAGATCTTGTCTTCCTGTA
TTGGCAGCGAAGTAGATCGAAGA
Found at i:18649737 original size:44 final size:44
Alignment explanation
Indices: 18649600--18649738 Score: 108
Period size: 44 Copynumber: 3.1 Consensus size: 44
18649590 CCTTGAGTTT
* * *
18649600 GCAGCGGGGCAGACTAAAGATAACAGATCTTATTTTCCTGTATTG
1 GCAGCGGGGCAGACTGAAGATAACAGATCTTATCTTCCTAT-TTG
** * * *
18649645 GCAGCGAAGTAGA-TCGAAGA-AACCA-ACCTTGA-CTCCCTGAATTT-
1 GCAGCGGGGCAGACT-GAAGATAA-CAGATCTT-ATCTTCCT--ATTTG
*
18649689 GCAGCGGGGCAGACTGAAGATAGCAGATCTTATCTTCCTATTTG
1 GCAGCGGGGCAGACTGAAGATAACAGATCTTATCTTCCTATTTG
18649733 GCAGCG
1 GCAGCG
18649739 AAGTAGATCG
Statistics
Matches: 70, Mismatches: 14, Indels: 21
0.67 0.13 0.20
Matches are distributed among these distances:
43 4 0.06
44 35 0.50
45 30 0.43
46 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (44 bp):
GCAGCGGGGCAGACTGAAGATAACAGATCTTATCTTCCTATTTG
Found at i:18650145 original size:353 final size:353
Alignment explanation
Indices: 18649406--18650149 Score: 752
Period size: 353 Copynumber: 2.1 Consensus size: 353
18649396 AAGCCACCAG
* * * * ** *
18649406 CCTTATCTCCCTAAGCAGTAGTGGAGTAGACTGAAGATAGCAAATCTTGTCTTCCTGTATTGACA
1 CCTTATCCCCCTAAGCAGCAGTGAAGCAGGTTGAAGATAACAAATCTTGTCTTCCTGTATTGACA
*
18649471 GCGAAGTAGATCGAAGACACCAGCCTTATCTCTCTGAGCAGCAGTGGAGTAGACTGAAGATAACA
66 GCGAAGTAGATCGAAGACACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGACTGAAGATAACA
* * * ** **
18649536 GATCTTGTGTTCCTGTATTGGCAACGAAGTAGATCGAAGACACCAGCCTTATCTCCTTGAGTTTG
131 GATATTGTCTTCCTGTATTGGCAACGAAGTAGATCAAAGACACCAGCCTTATCTCCCCGAGTCAG
* * * * *
18649601 CAGCGGGGCAGACTAAAGATAACAGATCTTATTTTCCTGTATTGGCAGCGAAGTAGATCGAAGAA
196 CAGCGGAGCAGACTAAAGATAACAGATCTTATCTTCCTATACTGACAGCGAAGTAGATCGAAGAA
**** * * * * * *
18649666 ACCAACCTTGACTCCCTGAATTTGCAGCGGGGCAGACTGAAGATAGCAGATCTTATCTTCCTATT
261 ACCAACCTTGACTCCCTGAAGCAACAGCGGAGCAGACTAAAGACAGCAAACCTTATCTTCCTAGT
* * *
18649731 TGGCAGCGAAGTAGATCGAAGATACCAG
326 TGGCAGAGAAGTAGATCGAAGATACAAA
* * * *
18649759 CCTTATCTCCCTAAGCAGCAGTGAAGTAGGTTGAAGATAACAAATCTTTTCTTCCTGTATTGGCA
1 CCTTATCCCCCTAAGCAGCAGTGAAGCAGGTTGAAGATAACAAATCTTGTCTTCCTGTATTGACA
* * * ** *
18649824 GCGAAGTAGATCGAATATACCAGCCTTATCTCCCTGAGTAGCAGTGGAGTAGGTTGAAGATAGCA
66 GCGAAGTAGATCGAAGACACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGACTGAAGATAACA
* * *
18649889 GATATTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATACCAGCTTTATCTCCCCGAG-CAG
131 GATATTGTCTTCCTGTATTGGCAACGAAGTAGATCAAAGACACCAGCCTTATCTCCCCGAGTCAG
* * ** * * *
18649953 CAGTGGAGTAGGTTGAAA-ATAACAGATTTTGTCTTCCTATACTGACAGTC-AAGTAGATCGAAT
196 CAGCGGAGCAGACT-AAAGATAACAGATCTTATCTTCCTATACTGACAG-CGAAGTAGATCGAAG
* ** * * * *
18650016 AAACCAATCTT-ATCTCTTTGAAGCAACAGTGGAGCAGATTAAAGCCA-CAAACCTTATC-TCTT
259 AAACCAACCTTGA-CTCCCTGAAGCAACAGCGGAGCAGACTAAAGACAGCAAACCTTATCTTC-C
* *
18650078 TGAAGTT-GCAGTAG-AGTAGGTTGAAG-TAACAAA
322 T--AGTTGGCAG-AGAAGTAGATCGAAGAT-ACAAA
* *
18650111 CCTTATCCCCCTAAAGCTGCAGTG-GGACAGGTTGAAGAT
1 CCTTATCCCCCT-AAGCAGCAGTGAAG-CAGGTTGAAGAT
18650150 GCAAGTCTTA
Statistics
Matches: 319, Mismatches: 62, Indels: 20
0.80 0.15 0.05
Matches are distributed among these distances:
350 2 0.01
351 12 0.04
352 107 0.34
353 198 0.62
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (353 bp):
CCTTATCCCCCTAAGCAGCAGTGAAGCAGGTTGAAGATAACAAATCTTGTCTTCCTGTATTGACA
GCGAAGTAGATCGAAGACACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGACTGAAGATAACA
GATATTGTCTTCCTGTATTGGCAACGAAGTAGATCAAAGACACCAGCCTTATCTCCCCGAGTCAG
CAGCGGAGCAGACTAAAGATAACAGATCTTATCTTCCTATACTGACAGCGAAGTAGATCGAAGAA
ACCAACCTTGACTCCCTGAAGCAACAGCGGAGCAGACTAAAGACAGCAAACCTTATCTTCCTAGT
TGGCAGAGAAGTAGATCGAAGATACAAA
Found at i:18650179 original size:44 final size:45
Alignment explanation
Indices: 18650112--18650236 Score: 112
Period size: 45 Copynumber: 2.8 Consensus size: 45
18650102 AGTAACAAAC
* * * * *
18650112 CTTATCCCCCTAAAGCTGCAGTGGGACAGGTTGAAGAT-GC-AAGT
1 CTTATCTCCCTGAAGTTACAGTGGGACAGATTGAAGATAGCGAA-T
* * *
18650156 CTTATCTCCCTGAAGTTATAGT-GGAGCAGACTAAAGATAGCGAAT
1 CTTATCTCCCTGAAGTTACAGTGGGA-CAGATTGAAGATAGCGAAT
* * *
18650201 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAG
1 CTTATCTCCCTGAAGTTACAGTGGGACAGATTGAAG
18650237 CTATAAATTA
Statistics
Matches: 63, Mismatches: 14, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
43 3 0.05
44 26 0.41
45 30 0.48
46 4 0.06
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTACAGTGGGACAGATTGAAGATAGCGAAT
Found at i:18650224 original size:45 final size:43
Alignment explanation
Indices: 18650042--18650672 Score: 305
Period size: 44 Copynumber: 14.3 Consensus size: 43
18650032 TTTGAAGCAA
** * **
18650042 CAGTGGAGCAGATTAAAGCCACAAACCTTATCTCTTTGAAGTTG
1 CAGTGGAGCAGATTAAAGATAC-AATCTTATCTCCCTGAAGTTG
* * * * * * * *
18650086 CAGTAGAGTAGGTTGAAG-TAACAAACCTTATCCCCCTAAAGCTG
1 CAGTGGAGCAGATTAAAGAT-AC-AATCTTATCTCCCTGAAGTTG
* * * *
18650130 CAGTGG-GACAGGTTGAAGATGCAAGTCTTATCTCCCTGAAGTTA
1 CAGTGGAG-CAGATTAAAGATACAA-TCTTATCTCCCTGAAGTTG
* * *
18650174 TAGTGGAGCAGACTAAAGATAGCGAATCTTATTTCCCTGAAGTTG
1 CAGTGGAGCAGATTAAAGATA-C-AATCTTATCTCCCTGAAGTTG
* * * *
18650219 CAGTGGAACAGATTGAAGCTATAAATTACAGATCTTATATCTCTGAAGTTG
1 CAGTGGAGCAGATT--A---A-AGA-TACA-ATCTTATCTCCCTGAAGTTG
* * * *
18650270 CAGTAGAGCAGA-T-AATAT-CAAACCTTATGTCCCTGAAGTTG
1 CAGTGGAGCAGATTAAAGATAC-AATCTTATCTCCCTGAAGTTG
* * *
18650311 CAGTGGAGTAGGTT-AA-A-CCAATCTTATCTCCCTGAAGTTG
1 CAGTGGAGCAGATTAAAGATACAATCTTATCTCCCTGAAGTTG
* ** * *
18650351 TAGTGGAGCAGATTAAAGCCACTAATCTTATCTTCCTAAAGTTG
1 CAGTGGAGCAGATTAAAGATAC-AATCTTATCTCCCTGAAGTTG
** * ** *
18650395 CAGTGGAGCAGATTAAAGCCACAAACCTTATCTCTATGAGGTTG
1 CAGTGGAGCAGATTAAAGATAC-AATCTTATCTCCCTGAAGTTG
* ** * * * *
18650439 CAGTAGAATAGGTTGAAG-TAACAAACCTTATC-CTCCTAAAGTTG
1 CAGTGGAGCAGATTAAAGAT-AC-AATCTTATCTC-CCTGAAGTTG
* * * * *
18650483 CAGTGGGGTAGGTTGAAGATGCAAGTCTTATC-CCCTTGAAGTTG
1 CAGTGGAGCAGATTAAAGATACAA-TCTTATCTCCC-TGAAGTTG
* * * *
18650527 CAGTAGAGCAGACTGAAGATAACAAACCTTATCTCCCTGAAGTTG
1 CAGTGGAGCAGATTAAAGAT-AC-AATCTTATCTCCCTGAAGTTG
* * *
18650572 CAGT-GAGGCAGGTTGAAGATACAAGTTTTATCTCCCTGAAGTTG
1 CAGTGGA-GCAGATTAAAGATACAA-TCTTATCTCCCTGAAGTTG
* * * * * * * *
18650616 TAGTAGAGAAGATTGAAGCTACTAATCCTATCTCCCTAAAGTTA
1 CAGTGGAGCAGATTAAAGATAC-AATCTTATCTCCCTGAAGTTG
18650660 CAGTGGAGCAGAT
1 CAGTGGAGCAGAT
18650673 AAAAACGATG
Statistics
Matches: 458, Mismatches: 95, Indels: 68
0.74 0.15 0.11
Matches are distributed among these distances:
40 30 0.07
41 31 0.07
42 5 0.01
43 13 0.03
44 269 0.59
45 66 0.14
46 7 0.02
47 1 0.00
50 3 0.01
51 31 0.07
52 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (43 bp):
CAGTGGAGCAGATTAAAGATACAATCTTATCTCCCTGAAGTTG
Found at i:18650309 original size:41 final size:39
Alignment explanation
Indices: 18650252--18650407 Score: 123
Period size: 40 Copynumber: 3.8 Consensus size: 39
18650242 AATTACAGAT
* *
18650252 CTTATATCTCTGAAGTTGCAGTAGAGCAGATAATATCAAAC
1 CTTATATCCCTGAAGTTGCAGTGGAGCAGATAA-A-CAAAC
* * * * *
18650293 CTTATGTCCCTGAAGTTGCAGTGGAGTAGGTTAAACCAAT
1 CTTATATCCCTGAAGTTGCAGTGGAGCA-GATAAACAAAC
* * *
18650333 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCACTAAT
1 CTTATATCCCTGAAGTTGCAGTGGAGCAGA-TAAA--CA--AAC
* * *
18650377 CTTATCTTCCTAAAGTTGCAGTGGAGCAGAT
1 CTTATATCCCTGAAGTTGCAGTGGAGCAGAT
18650408 TAAAGCCACA
Statistics
Matches: 94, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
39 1 0.01
40 32 0.34
41 25 0.27
42 5 0.05
43 1 0.01
44 30 0.32
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (39 bp):
CTTATATCCCTGAAGTTGCAGTGGAGCAGATAAACAAAC
Found at i:18650703 original size:353 final size:351
Alignment explanation
Indices: 18650042--18650676 Score: 856
Period size: 353 Copynumber: 1.8 Consensus size: 351
18650032 TTTGAAGCAA
* *
18650042 CAGTGGAGCAGATTAAAGCCACAAACCTTATCTCTTTGAAGTTGCAGTAGAGTAGGTTGAAGTAA
1 CAGTGGAGCAGATTAAAGCCACAAACCTTATCTCTATGAAGTTGCAGTAGAATAGGTTGAAGTAA
18650107 CAAACCTTATCCCCCTAAAGCTGCAGTGGGACAGGTTGAAGATGCAAGTCTTATCTCCCTGAAGT
66 CAAACCTTATCCCCCTAAAGCTGCAGTGGGACAGGTTGAAGATGCAAGTCTTATCTCCCTGAAGT
* * * * * *
18650172 TATAGTGGAGCAGACTAAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAG
131 TACAGTAGAGCAGACTAAAGATAACAAACCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG
* * * *
18650237 CTATAAATTACAGATCTTATATCTCTGAAGTTGCAGTAGAGCAGATAATATCAAACCTTATGTCC
196 C-AT-AATCACAGATCTTATATCCCTGAAGTTGCAGTAGAGAAGATAATATCAAACCTTATCTCC
* * * * *
18650302 CTGAAGTTGCAGTGGAGTAGGTTAAACCAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAA
259 CTAAAGTTACAGTGGAGCAGATAAAACCAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAA
18650367 AGCCACTAATCTTATCTTCCTAAAGTTG
324 AGCCACTAATCTTATCTTCCTAAAGTTG
*
18650395 CAGTGGAGCAGATTAAAGCCACAAACCTTATCTCTATGAGGTTGCAGTAGAATAGGTTGAAGTAA
1 CAGTGGAGCAGATTAAAGCCACAAACCTTATCTCTATGAAGTTGCAGTAGAATAGGTTGAAGTAA
* * **
18650460 CAAACCTTATCCTCCTAAAGTTGCAGTGGGGTAGGTTGAAGATGCAAGTCTTATC-CCCTTGAAG
66 CAAACCTTATCCCCCTAAAGCTGCAGTGGGACAGGTTGAAGATGCAAGTCTTATCTCCC-TGAAG
* * * *
18650524 TTGCAGTAGAGCAGACTGAAGATAACAAACCTTATCTCCCTGAAGTTGCAGT-GAGGCAGGTTGA
130 TTACAGTAGAGCAGACTAAAGATAACAAACCTTATCTCCCTGAAGTTGCAGTGGA-ACAGATTGA
* * * *
18650588 AG-AT-A-CA-AG-TTTTATCTCCCTGAAGTTGTAGTAGAGAAGATTGAAGCTA-CTAATCC-TA
194 AGCATAATCACAGATCTTATATCCCTGAAGTTGCAGTAGAGAAGA-T-AA--TATC-AAACCTTA
18650646 TCTCCCTAAAGTTACAGTGGAGCAGATAAAA
254 TCTCCCTAAAGTTACAGTGGAGCAGATAAAA
18650677 ACGATGAATC
Statistics
Matches: 245, Mismatches: 30, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
346 26 0.11
347 3 0.01
348 3 0.01
349 29 0.12
350 6 0.02
351 2 0.01
352 5 0.02
353 171 0.70
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.27
Consensus pattern (351 bp):
CAGTGGAGCAGATTAAAGCCACAAACCTTATCTCTATGAAGTTGCAGTAGAATAGGTTGAAGTAA
CAAACCTTATCCCCCTAAAGCTGCAGTGGGACAGGTTGAAGATGCAAGTCTTATCTCCCTGAAGT
TACAGTAGAGCAGACTAAAGATAACAAACCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG
CATAATCACAGATCTTATATCCCTGAAGTTGCAGTAGAGAAGATAATATCAAACCTTATCTCCCT
AAAGTTACAGTGGAGCAGATAAAACCAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAG
CCACTAATCTTATCTTCCTAAAGTTG
Found at i:18651533 original size:7 final size:7
Alignment explanation
Indices: 18651521--18651545 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18651511 AATCTTTCTA
18651521 TTTTTAT
1 TTTTTAT
18651528 TTTTTAT
1 TTTTTAT
18651535 TTTTTAT
1 TTTTTAT
18651542 TTTT
1 TTTT
18651546 GTATACGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:18652492 original size:26 final size:26
Alignment explanation
Indices: 18652445--18652494 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
18652435 ACACGCATAC
*
18652445 TTTTATAATATATATACGTACATATT
1 TTTTATAATATATATACATACATATT
* *
18652471 TTTTATAATTTATATATATACATA
1 TTTTATAATATATATACATACATA
18652495 CTTATATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (26 bp):
TTTTATAATATATATACATACATATT
Found at i:18653043 original size:71 final size:72
Alignment explanation
Indices: 18652927--18653065 Score: 235
Period size: 71 Copynumber: 1.9 Consensus size: 72
18652917 TTTCAAACTC
* * *
18652927 AAGTTTTAAACGATCTCGGGAATTAAGAAGAGACCGTGTCCTAACTTACTGGGCATGAT-CCTTT
1 AAGTTTCAAACGATCTAGGGAATTAAGAAAAGACCGTGTCCTAACTTACTGGGCATGATCCCTTT
18652991 TTTCCTT
66 TTTCCTT
*
18652998 AAGTTTCAAACGATCTAGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCCTTT
1 AAGTTTCAAACGATCTAGGGAATTAAGAAAAGACCGTGTCCTAACTTACTGGGCATGATCCCTTT
18653063 TTT
66 TTT
18653066 AAATCCGAGA
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 55 0.87
72 8 0.13
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (72 bp):
AAGTTTCAAACGATCTAGGGAATTAAGAAAAGACCGTGTCCTAACTTACTGGGCATGATCCCTTT
TTTCCTT
Found at i:18660200 original size:26 final size:25
Alignment explanation
Indices: 18660126--18660207 Score: 76
Period size: 26 Copynumber: 3.1 Consensus size: 25
18660116 TTAAACATAA
*
18660126 AATTAAATTAAAAAATAATTATTGGT
1 AATTAAATTAAATAATAATTATT-GT
*
18660152 AATATATAATTAAATACAAAATTATT-T
1 AAT-TA-AATTAAATA-ATAATTATTGT
*
18660179 AAGTTAAATTAAATGAATAATTTTTGT
1 AA-TTAAATTAAAT-AATAATTATTGT
18660206 AA
1 AA
18660208 AATTTTTATT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
26 18 0.39
27 11 0.24
28 9 0.20
29 8 0.17
ACGTcount: A:0.52, C:0.01, G:0.06, T:0.40
Consensus pattern (25 bp):
AATTAAATTAAATAATAATTATTGT
Found at i:18660606 original size:14 final size:14
Alignment explanation
Indices: 18660587--18660626 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
18660577 TTGATTGGCA
18660587 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
18660601 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
18660615 GGAAAATGTTTT
1 GTAAAATGTTTT
18660627 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:18660639 original size:34 final size:35
Alignment explanation
Indices: 18660595--18660661 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
18660585 CAGTAAAATG
* *
18660595 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
*
18660629 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGGAAAATATTTT
18660662 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGGAAAATATTTTAC
Found at i:18660648 original size:20 final size:20
Alignment explanation
Indices: 18660610--18660649 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
18660600 CGTAAAATGA
**
18660610 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
18660630 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
18660650 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:18662036 original size:27 final size:27
Alignment explanation
Indices: 18662006--18662075 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
18661996 AATAATCAAT
*
18662006 TCAATATCCAACAATGTTAAAACATA-A
1 TCAATATCCAACAAT-TCAAAACATATA
* *
18662033 TCAATATCTAACAAATTCAAGACATATA
1 TCAATATCCAAC-AATTCAAAACATATA
*
18662061 TCAAAATCCAACAAT
1 TCAATATCCAACAAT
18662076 CTAAAATTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.51, C:0.20, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCCAACAATTCAAAACATATA
Found at i:18663857 original size:40 final size:40
Alignment explanation
Indices: 18663802--18663878 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
18663792 AGTTAACAAT
18663802 ATGTTTTTATAAAGTTAACATGACTTAAAATATATTGATC
1 ATGTTTTTATAAAGTTAACATGACTTAAAATATATTGATC
*
18663842 ATGTTTTTATAAAGTTACCATGACTTAAAATATATTG
1 ATGTTTTTATAAAGTTAACATGACTTAAAATATATTG
18663879 CCCAAAAGCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (40 bp):
ATGTTTTTATAAAGTTAACATGACTTAAAATATATTGATC
Found at i:18667138 original size:18 final size:19
Alignment explanation
Indices: 18667100--18667136 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
18667090 GGGAGCAGGG
*
18667100 TTTTCACTTGAGTTAAAAA
1 TTTTCAATTGAGTTAAAAA
*
18667119 TTTTCAATTGATTTAAAA
1 TTTTCAATTGAGTTAAAA
18667137 TTGTTTTACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (19 bp):
TTTTCAATTGAGTTAAAAA
Found at i:18667178 original size:21 final size:21
Alignment explanation
Indices: 18667105--18667179 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 21
18667095 CAGGGTTTTC
*
18667105 ACTTGAGTTAAAAATT-TTCA
1 ACTTGAGTTAAAAATTGTTTA
* *
18667125 A-TTGA-TTTAAAATTGTTTT
1 ACTTGAGTTAAAAATTGTTTA
* * *
18667144 ACTCGATTTTAAAATTGTTTA
1 ACTTGAGTTAAAAATTGTTTA
18667165 ACTTGAGTTAAAAAT
1 ACTTGAGTTAAAAAT
18667180 ACTTGAAGTG
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
18 8 0.18
19 7 0.16
20 4 0.09
21 25 0.57
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.45
Consensus pattern (21 bp):
ACTTGAGTTAAAAATTGTTTA
Found at i:18669402 original size:20 final size:20
Alignment explanation
Indices: 18669377--18669429 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
18669367 TTTTTATAGA
*
18669377 TAAGTATCGATATTTTTTCT
1 TAAGTATCGATATATTTTCT
* * * *
18669397 TTAGTAGCGATAAATTTTGT
1 TAAGTATCGATATATTTTCT
18669417 TAAGTATCGATAT
1 TAAGTATCGATAT
18669430 GAAAGTGCCT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.47
Consensus pattern (20 bp):
TAAGTATCGATATATTTTCT
Found at i:18672156 original size:17 final size:19
Alignment explanation
Indices: 18672136--18672170 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
18672126 TTAAAATAGT
18672136 AACAAAA-TTA-ACAATAA
1 AACAAAAGTTATACAATAA
18672153 AACAAAAGTTATACAATA
1 AACAAAAGTTATACAATA
18672171 TCCAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.66, C:0.11, G:0.03, T:0.20
Consensus pattern (19 bp):
AACAAAAGTTATACAATAA
Found at i:18672737 original size:51 final size:52
Alignment explanation
Indices: 18672677--18672782 Score: 117
Period size: 51 Copynumber: 2.1 Consensus size: 52
18672667 ATAATAAATT
** * * * *
18672677 TAACCCTCAATTTTTACATATTATAT-CAATTTAGTCATAATTTTAAAA-AAA
1 TAACCCTCAAAATTTACAAATGAT-TCCAATTTAATCATAATTCTAAAATAAA
* *
18672728 TAACTCTCAAAATTTACAAATGATTCCAATTTAATCCTAATTCTAAAATAAA
1 TAACCCTCAAAATTTACAAATGATTCCAATTTAATCATAATTCTAAAATAAA
18672780 TAA
1 TAA
18672783 AAAAATACAT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
50 1 0.02
51 38 0.84
52 6 0.13
ACGTcount: A:0.45, C:0.15, G:0.02, T:0.38
Consensus pattern (52 bp):
TAACCCTCAAAATTTACAAATGATTCCAATTTAATCATAATTCTAAAATAAA
Found at i:18672852 original size:20 final size:23
Alignment explanation
Indices: 18672801--18672859 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 23
18672791 ATAAATATTT
18672801 TTAAATA-TATAATAAATTTAATA
1 TTAAATATTA-AATAAATTTAATA
18672824 TTAAATATTAAATAAA-TT-ATA
1 TTAAATATTAAATAAATTTAATA
18672845 TT-AATATTAAATAAA
1 TTAAATATTAAATAAA
18672860 ATAACCCCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
20 13 0.37
21 5 0.14
22 2 0.06
23 13 0.37
24 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
TTAAATATTAAATAAATTTAATA
Found at i:18673518 original size:18 final size:18
Alignment explanation
Indices: 18673497--18673536 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
18673487 TTATTTAATA
18673497 TTAAT-TAATTATATTTAT
1 TTAATATAATTATATTT-T
*
18673515 TTAATATTATTATATTTT
1 TTAATATAATTATATTTT
18673533 TTAA
1 TTAA
18673537 AAAATATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTAATATAATTATATTTT
Found at i:18673528 original size:19 final size:18
Alignment explanation
Indices: 18673481--18673536 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
18673471 TGGGAGATCT
*
18673481 TTTATTTTATTTAATATTAA
1 TTTATTATATTT-AT-TTAA
*
18673501 TTAATTATATTTATTTAA
1 TTTATTATATTTATTTAA
18673519 TATTATTATATTT-TTTAA
1 T-TTATTATATTTATTTAA
18673537 AAAATATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 10 0.31
19 12 0.38
20 10 0.31
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTATTATATTTATTTAA
Found at i:18673544 original size:19 final size:19
Alignment explanation
Indices: 18673504--18673553 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
18673494 ATATTAATTA
* *
18673504 ATTATATTTATTTAATATT
1 ATTATATTTATTTAAAAAT
18673523 ATTATATTT-TTTAAAAAAT
1 ATTATATTTATTT-AAAAAT
*
18673542 ATT-TATGTATTT
1 ATTATATTTATTT
18673554 TTATATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 7 0.27
19 19 0.73
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTATATTTATTTAAAAAT
Found at i:18675480 original size:19 final size:17
Alignment explanation
Indices: 18675439--18675473 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
18675429 CTACAACTTC
18675439 ATGTCACTATAATAAAA
1 ATGTCACTATAATAAAA
18675456 ATGTCACTATAATAAAA
1 ATGTCACTATAATAAAA
18675473 A
1 A
18675474 AATGTCATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (17 bp):
ATGTCACTATAATAAAA
Found at i:18680792 original size:19 final size:19
Alignment explanation
Indices: 18680770--18680834 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
18680760 ATCGGTTAAG
18680770 AATTTTGATATTTGATT-TA
1 AATTTTGATATTT-ATTATA
** * *
18680789 AATTTCAATACTTATTAGA
1 AATTTTGATATTTATTATA
18680808 AATTTTGATATTTAGTTATA
1 AATTTTGATATTTA-TTATA
18680828 AATTTTG
1 AATTTTG
18680835 GTACTATCAA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
18 3 0.08
19 22 0.61
20 11 0.31
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.52
Consensus pattern (19 bp):
AATTTTGATATTTATTATA
Found at i:18681539 original size:19 final size:19
Alignment explanation
Indices: 18681511--18681548 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
18681501 ATTTATTTAT
18681511 TAAAATAATATTTTTATAAA
1 TAAAATAATATTTTT-TAAA
18681531 TAAAA-AATATTTTTTAAA
1 TAAAATAATATTTTTTAAA
18681549 AAACCTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 9 0.50
20 5 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAAATAATATTTTTTAAA
Found at i:18682184 original size:16 final size:16
Alignment explanation
Indices: 18682165--18682195 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18682155 ATTTAAATAA
*
18682165 TTTTTTATTTTTTAAT
1 TTTTTTAATTTTTAAT
18682181 TTTTTTAATTTTTAA
1 TTTTTTAATTTTTAA
18682196 GAATTAAGGC
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTAATTTTTAAT
Found at i:18682586 original size:19 final size:19
Alignment explanation
Indices: 18682539--18682595 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
18682529 ATATGATGCG
*
18682539 ATACCAATATTTTTAAAGCA-
1 ATACCAATATTTAT-AA-CAT
18682559 ATACCAATATTTATAACAT
1 ATACCAATATTTATAACAT
* *
18682578 ATACTAATATTTCTAACA
1 ATACCAATATTTATAACA
18682596 AGAATGCCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 2 0.06
19 18 0.55
20 13 0.39
ACGTcount: A:0.46, C:0.16, G:0.02, T:0.37
Consensus pattern (19 bp):
ATACCAATATTTATAACAT
Found at i:18682646 original size:20 final size:19
Alignment explanation
Indices: 18682605--18682646 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
18682595 AAGAATGCCT
* *
18682605 AAATTTGTAACTGATACCA
1 AAATTTGCAACTGATACAA
18682624 AAATTTGCAACGTGATACAA
1 AAATTTGCAAC-TGATACAA
18682644 AAA
1 AAA
18682647 ACTCTATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.48, C:0.14, G:0.12, T:0.26
Consensus pattern (19 bp):
AAATTTGCAACTGATACAA
Found at i:18682713 original size:18 final size:19
Alignment explanation
Indices: 18682692--18682731 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
18682682 CAAAAATTGT
18682692 TAAT-GATAACAAAATTTC
1 TAATAGATAACAAAATTTC
* *
18682710 TAATAGATTACAATATTTC
1 TAATAGATAACAAAATTTC
18682729 TAA
1 TAA
18682732 CGCGATAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (19 bp):
TAATAGATAACAAAATTTC
Found at i:18683811 original size:13 final size:13
Alignment explanation
Indices: 18683793--18683818 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18683783 AACACAACCT
18683793 AGCTTACTTTTTC
1 AGCTTACTTTTTC
18683806 AGCTTACTTTTTC
1 AGCTTACTTTTTC
18683819 TTGGCACAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.08, T:0.54
Consensus pattern (13 bp):
AGCTTACTTTTTC
Found at i:18706684 original size:26 final size:27
Alignment explanation
Indices: 18706650--18706701 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
18706640 TCATGAATTA
*
18706650 TATTACAA-TATTTATTTTATTTTATTC
1 TATTACAATTA-TAATTTTATTTTATTC
18706677 TATT-CAATTATAATTTTATTTTATT
1 TATTACAATTATAATTTTATTTTATT
18706702 TCATTTCAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (27 bp):
TATTACAATTATAATTTTATTTTATTC
Found at i:18707080 original size:13 final size:13
Alignment explanation
Indices: 18707062--18707107 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
18707052 TTCTTCATTG
18707062 CTTTTGAAAAATA
1 CTTTTGAAAAATA
*
18707075 CTTTTGAAAAATG
1 CTTTTGAAAAATA
*
18707088 C-TGTGAAAAAGTA
1 CTTTTGAAAAA-TA
18707101 CTTTTGA
1 CTTTTGA
18707108 GAAGTGCTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
12 8 0.30
13 15 0.56
14 4 0.15
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (13 bp):
CTTTTGAAAAATA
Found at i:18707123 original size:26 final size:26
Alignment explanation
Indices: 18707060--18707125 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
18707050 AATTCTTCAT
* *
18707060 TGCTTTTGAAAAATACTTTTGAAAAA
1 TGCTTCTGAAAAGTACTTTTGAAAAA
* * *
18707086 TGC-TGTGAAAAAGTACTTTTGAGAAG
1 TGCTTCTG-AAAAGTACTTTTGAAAAA
18707112 TGCTTCTGAAAAGT
1 TGCTTCTGAAAAGT
18707126 TTAGTTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
25 3 0.09
26 27 0.82
27 3 0.09
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.35
Consensus pattern (26 bp):
TGCTTCTGAAAAGTACTTTTGAAAAA
Found at i:18716712 original size:23 final size:23
Alignment explanation
Indices: 18716686--18716737 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
18716676 TAATTTTTAA
* *
18716686 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAATAATAAT
*
18716709 ATTTATAATTATTTAATAATAAT
1 ATTTAGAATTATTTAATAATAAT
18716732 ATTTAG
1 ATTTAG
18716738 GAAAAATCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (23 bp):
ATTTAGAATTATTTAATAATAAT
Found at i:18722086 original size:23 final size:23
Alignment explanation
Indices: 18722073--18722124 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
18722063 TGATTTTTAA
18722073 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
* *
18722096 ATTTAGAATTATTTAATAATAAT
1 ATTTAGAATTATTTAGTGATAAT
18722119 ATTTAG
1 ATTTAG
18722125 GAAAAATCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Found at i:18742982 original size:119 final size:119
Alignment explanation
Indices: 18742771--18743010 Score: 444
Period size: 119 Copynumber: 2.0 Consensus size: 119
18742761 TCCAATGCAC
* *
18742771 ATACAATTTGGCAGATGGCCATGTATCCCTATTTTGAATACCCACATGGGCAGACACACGACCTG
1 ATACAATTTGGCACATGGCCATGTATCCCTATTTTGAATACCCACACGGGCAGACACACGACCTG
18742836 GGACACAGCTGTGTATCCAAAATTTGAATGTCCACATGGTCTGGGGTAGGTCAT
66 GGACACAGCTGTGTATCCAAAATTTGAATGTCCACATGGTCTGGGGTAGGTCAT
* *
18742890 ATACAATTTGGCACATGGCCATGTATCCCTATTTTGAATACCCACACGGGCTGACACACGAGCTG
1 ATACAATTTGGCACATGGCCATGTATCCCTATTTTGAATACCCACACGGGCAGACACACGACCTG
18742955 GGACACAGCTGTGTATCCAAAATTTGAATGTCCACATGGTCTGGGGTAGGTCAT
66 GGACACAGCTGTGTATCCAAAATTTGAATGTCCACATGGTCTGGGGTAGGTCAT
18743009 AT
1 AT
18743011 GGCTGTGTGA
Statistics
Matches: 117, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
119 117 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (119 bp):
ATACAATTTGGCACATGGCCATGTATCCCTATTTTGAATACCCACACGGGCAGACACACGACCTG
GGACACAGCTGTGTATCCAAAATTTGAATGTCCACATGGTCTGGGGTAGGTCAT
Found at i:18745311 original size:25 final size:26
Alignment explanation
Indices: 18745281--18745349 Score: 86
Period size: 25 Copynumber: 2.7 Consensus size: 26
18745271 GGTAGCTCTG
18745281 AAGAGCCATTAATCGGGAACCTC-CA
1 AAGAGCCATTAATCGGGAACCTCACA
** * *
18745306 GCGAGCCATTAATCAGGAAGCTCACA
1 AAGAGCCATTAATCGGGAACCTCACA
*
18745332 AAGAGCCTTTAATCGGGA
1 AAGAGCCATTAATCGGGA
18745350 TGCTCATAAG
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
25 19 0.54
26 16 0.46
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.17
Consensus pattern (26 bp):
AAGAGCCATTAATCGGGAACCTCACA
Found at i:18745344 original size:26 final size:26
Alignment explanation
Indices: 18745281--18745355 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
18745271 GGTAGCTCTG
*
18745281 AAGAGCCATTAATCGGGAACCTC-CA
1 AAGAGCCATTAATCGGGAAGCTCACA
** *
18745306 GCGAGCCATTAATCAGGAAGCTCACA
1 AAGAGCCATTAATCGGGAAGCTCACA
* *
18745332 AAGAGCCTTTAATCGGGATGCTCA
1 AAGAGCCATTAATCGGGAAGCTCA
18745356 TAAGAGTTGC
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
25 19 0.47
26 21 0.52
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.19
Consensus pattern (26 bp):
AAGAGCCATTAATCGGGAAGCTCACA
Found at i:18752129 original size:44 final size:44
Alignment explanation
Indices: 18752079--18752167 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
18752069 ACACTTTAAT
18752079 ACATTCACCAACCAATTCAAGACCTTAAAACCAAGCCAAAACTA
1 ACATTCACCAACCAATTCAAGACCTTAAAACCAAGCCAAAACTA
18752123 ACATTCACCAACCAATTCAAGACCTTAAAACCAAGCCAAAACTA
1 ACATTCACCAACCAATTCAAGACCTTAAAACCAAGCCAAAACTA
18752167 A
1 A
18752168 GTCTTATGCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.48, C:0.31, G:0.04, T:0.16
Consensus pattern (44 bp):
ACATTCACCAACCAATTCAAGACCTTAAAACCAAGCCAAAACTA
Found at i:18753141 original size:25 final size:24
Alignment explanation
Indices: 18753050--18753154 Score: 79
Period size: 25 Copynumber: 4.2 Consensus size: 24
18753040 ATAGCTCTTA
*
18753050 AGAGCCATTAATCAAGAAGCTCC-G
1 AGAGCCA-TAATCAGGAAGCTCCAG
* * * *
18753074 AATAGCCATATATCGGGAAGTTCAAG
1 -AGAGCCATA-ATCAGGAAGCTCCAG
* *
18753100 CGAGCCAT-ATTAGGAAGCTCCAG
1 AGAGCCATAATCAGGAAGCTCCAG
*
18753123 AGAGCCACTAATCAGGAAGCTCACAA
1 AGAGCCA-TAATCAGGAAGCTC-CAG
18753149 AGAGCC
1 AGAGCC
18753155 TTTATCGAGA
Statistics
Matches: 61, Mismatches: 14, Indels: 9
0.73 0.17 0.11
Matches are distributed among these distances:
23 17 0.28
24 3 0.05
25 32 0.52
26 9 0.15
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (24 bp):
AGAGCCATAATCAGGAAGCTCCAG
Found at i:18755946 original size:27 final size:28
Alignment explanation
Indices: 18755897--18755952 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
18755887 TGTATAAAAT
*
18755897 GTTGAATCAAATATAACACACATGAAGC
1 GTTGAATCAAATATAACACACATAAAGC
*
18755925 GTTGAATC-AATGTAACACACATAAAGC
1 GTTGAATCAAATATAACACACATAAAGC
18755952 G
1 G
18755953 CAGGATCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 18 0.69
28 8 0.31
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.21
Consensus pattern (28 bp):
GTTGAATCAAATATAACACACATAAAGC
Found at i:18760124 original size:37 final size:37
Alignment explanation
Indices: 18760053--18760208 Score: 197
Period size: 37 Copynumber: 4.2 Consensus size: 37
18760043 AGTACACAAG
* * * *
18760053 TAATCCAACCGA-AACATGCCGATCGCTTATAAGAGC
1 TAATCCACCCGATAACACGCCAATCGCTCATAAGAGC
* *
18760089 TAATCCACCCGATAACACGCCAATTGCTAATAAGAGC
1 TAATCCACCCGATAACACGCCAATCGCTCATAAGAGC
* * *
18760126 TAATCCACTCGATAACACACCAATCACTCATAAGAGC
1 TAATCCACCCGATAACACGCCAATCGCTCATAAGAGC
* *
18760163 TAATCCACTCGATAACATGCCAATCGCTCATAAGAGC
1 TAATCCACCCGATAACACGCCAATCGCTCATAAGAGC
*
18760200 CAATCCACC
1 TAATCCACC
18760209 TAAAAACACA
Statistics
Matches: 104, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
36 11 0.11
37 93 0.89
ACGTcount: A:0.37, C:0.31, G:0.12, T:0.19
Consensus pattern (37 bp):
TAATCCACCCGATAACACGCCAATCGCTCATAAGAGC
Found at i:18760203 original size:17 final size:17
Alignment explanation
Indices: 18760145--18760204 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
18760135 CGATAACACA
18760145 CCAATCACTCATAAGAG
1 CCAATCACTCATAAGAG
* *
18760162 CTAATCCACTCGATAACATG
1 CCAAT-CACTC-ATAAGA-G
*
18760182 CCAATCGCTCATAAGAG
1 CCAATCACTCATAAGAG
18760199 CCAATC
1 CCAATC
18760205 CACCTAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
17 11 0.31
18 10 0.29
19 9 0.26
20 5 0.14
ACGTcount: A:0.37, C:0.32, G:0.12, T:0.20
Consensus pattern (17 bp):
CCAATCACTCATAAGAG
Found at i:18760760 original size:16 final size:16
Alignment explanation
Indices: 18760742--18760806 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
18760732 TTCGCTATAT
* *
18760742 TGGATTAGAGGTGTAT
1 TGGAATAGAGGTGTAA
*
18760758 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
18760774 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
18760790 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
18760806 T
1 T
18760807 AGCAAATCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.37, T:0.31
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:18760839 original size:45 final size:41
Alignment explanation
Indices: 18760785--18760894 Score: 116
Period size: 45 Copynumber: 2.6 Consensus size: 41
18760775 GGAATAGAGG
18760785 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGG-T
* * * ***
18760827 GAATGTAATGGAATAGAGGCGTAAAAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
18760870 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
18760895 TAATGGAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
39 19 0.35
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.40
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.31
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
Found at i:18761043 original size:24 final size:24
Alignment explanation
Indices: 18761005--18761070 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 24
18760995 TTAATAATAA
*
18761005 ATAATTTAATCATATTTAAACATAATT
1 ATAATTAAAT-ATA-TTAAACAT-ATT
* *
18761032 ATTATTAAATATATTAAATATATT
1 ATAATTAAATATATTAAACATATT
18761056 ATAATTAAAATATAT
1 ATAATT-AAATATAT
18761071 AATTTAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
24 8 0.24
25 15 0.44
26 3 0.09
27 8 0.24
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (24 bp):
ATAATTAAATATATTAAACATATT
Found at i:18761272 original size:26 final size:28
Alignment explanation
Indices: 18761243--18761303 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
18761233 TATGAATTTG
*
18761243 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
18761269 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
18761297 TAAAATT
1 TATAATT
18761304 ATTGATAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:18761306 original size:44 final size:43
Alignment explanation
Indices: 18761243--18761386 Score: 123
Period size: 44 Copynumber: 3.2 Consensus size: 43
18761233 TATGAATTTG
18761243 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTATTATTA-ATATAATTTAATAATAATA
* **
18761287 TATAATTTCATAA-AATTATTGA-TAA-ATAATTTTTCTTATATGAATTTA
1 TATAATTT-AAAATAATTATT-ATTAATATAA--TTTAATA-AT-AA--TA
* * *
18761335 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTATTATT-AATATAATTTAATAATAATA
18761379 TATAATTT
1 TATAATTT
18761387 CTTAAAATTC
Statistics
Matches: 78, Mismatches: 10, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
42 4 0.05
43 1 0.01
44 31 0.40
45 6 0.08
46 3 0.04
47 6 0.08
48 21 0.27
49 2 0.03
50 4 0.05
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.47
Consensus pattern (43 bp):
TATAATTTAAAATAATTATTATTAATATAATTTAATAATAATA
Found at i:18761325 original size:92 final size:91
Alignment explanation
Indices: 18761209--18761426 Score: 303
Period size: 92 Copynumber: 2.4 Consensus size: 91
18761199 AATTTAAAAT
* * * * *
18761209 AATTA-TAACTAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATA
1 AATTATTAA-TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATA
18761273 ATTTAATAATAATATATAATTTCATAA
65 ATTTAATAATAATATATAATTTCATAA
* *
18761300 AATTATTGATAAATAATTTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATA
1 AATTATTAAT-AATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATA
* *
18761365 ATTTAATAATGATATATAATTTCTTAA
65 ATTTAATAATAATATATAATTTCATAA
* *
18761392 AATTCTTAATAATAAAATGTTCTTATATGAATTTA
1 AATTATTAATAAT-AAATTTTCTTATATGAATTTA
18761427 CTAAAATCAA
Statistics
Matches: 111, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
91 9 0.08
92 102 0.92
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
AATTATTAATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
TTTAATAATAATATATAATTTCATAA
Found at i:18765855 original size:21 final size:20
Alignment explanation
Indices: 18765831--18765873 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
18765821 TCTATTAGAA
18765831 TATTGTGTTTCAAGTCTAAAT
1 TATT-TGTTTCAAGTCTAAAT
*
18765852 TA-TTGTTTCAAGTCTATAT
1 TATTTGTTTCAAGTCTAAAT
18765871 TAT
1 TAT
18765874 ATGAAACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 17 0.85
20 1 0.05
21 2 0.10
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.51
Consensus pattern (20 bp):
TATTTGTTTCAAGTCTAAAT
Found at i:18765860 original size:19 final size:19
Alignment explanation
Indices: 18765836--18765873 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
18765826 TAGAATATTG
18765836 TGTTTCAAGTCTAAATTAT
1 TGTTTCAAGTCTAAATTAT
*
18765855 TGTTTCAAGTCTATATTAT
1 TGTTTCAAGTCTAAATTAT
18765874 ATGAAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.50
Consensus pattern (19 bp):
TGTTTCAAGTCTAAATTAT
Found at i:18770599 original size:37 final size:37
Alignment explanation
Indices: 18770530--18770655 Score: 166
Period size: 37 Copynumber: 3.4 Consensus size: 37
18770520 AGTACACAAG
* * *
18770530 TAATCCAACCGA-AACATGCCAATCGCTCATAAGAGC
1 TAATCCACCCGATAACACGCCAATCGCTTATAAGAGC
* * *
18770566 TAGTCCACTCGATAACACGCCAAACGCTTATAAGAGC
1 TAATCCACCCGATAACACGCCAATCGCTTATAAGAGC
18770603 TAATCCACCCGATAACACGCCAATCGCTTATAAGAG-
1 TAATCCACCCGATAACACGCCAATCGCTTATAAGAGC
*
18770639 TGAATCCACCTGATAAC
1 T-AATCCACCCGATAAC
18770656 TCACCAAAAC
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
36 10 0.13
37 68 0.87
ACGTcount: A:0.37, C:0.30, G:0.14, T:0.19
Consensus pattern (37 bp):
TAATCCACCCGATAACACGCCAATCGCTTATAAGAGC
Found at i:18772614 original size:39 final size:39
Alignment explanation
Indices: 18772507--18772622 Score: 117
Period size: 39 Copynumber: 2.9 Consensus size: 39
18772497 ATTTACATGG
* * * * *
18772507 TAATCATATTCACTTTTGAGCATGTATCACATTA-TACATA
1 TAATCATA-TAACATTTAAGCATATATCACAATACT-CATA
** * * *
18772547 TAATCGCATAACATTTAGGTATACATCACAATACTCATA
1 TAATCATATAACATTTAAGCATATATCACAATACTCATA
18772586 TAATCATATAACATTTAAGCATATATCACAATACTCA
1 TAATCATATAACATTTAAGCATATATCACAATACTCA
18772623 AAAACATGTT
Statistics
Matches: 60, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
39 53 0.88
40 7 0.12
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.34
Consensus pattern (39 bp):
TAATCATATAACATTTAAGCATATATCACAATACTCATA
Found at i:18777646 original size:16 final size:16
Alignment explanation
Indices: 18777625--18777656 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18777615 GTTTTGTTGC
*
18777625 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
18777641 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
18777657 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:18777942 original size:51 final size:51
Alignment explanation
Indices: 18777884--18778074 Score: 212
Period size: 51 Copynumber: 3.8 Consensus size: 51
18777874 CCGGTTCACA
*
18777884 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATACACG
* * * * * *
18777935 TAGTAGCCTACACATAGTACTACACACGTGATCGA--AGCTATCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCGATACACG
** * *
18777986 TAGTAGCCTGCACATAGTACTACACTTGCGACCTATCA-T-T-CTAGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGA-TACACG
18778036 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
18778075 TTCACTTTCA
Statistics
Matches: 113, Mismatches: 20, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
49 4 0.04
50 38 0.34
51 68 0.60
52 2 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATACACG
Found at i:18778050 original size:101 final size:102
Alignment explanation
Indices: 18777882--18778066 Score: 295
Period size: 101 Copynumber: 1.8 Consensus size: 102
18777872 TACCGGTTCA
* *
18777882 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTACA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCAGATACACGTAGTAGCCTACA
18777947 CATAGTACTACACACGTGATCGAAGCTATCTGGTACG
66 CATAGTACTACACACGTGATCGAAGCTATCTGGTACG
* *
18777984 CATAGTAGCCTGCACATAGTACTACACTTGCGACCTATCA-T-TCTAG-TACACGTAGTAGCCTG
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATC-AGATACACGTAGTAGCCTA
18778046 CACATAGTACTACACACGTGA
64 CACATAGTACTACACACGTGA
18778067 CCATCACTTT
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
101 38 0.49
102 35 0.45
103 4 0.05
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCAGATACACGTAGTAGCCTACA
CATAGTACTACACACGTGATCGAAGCTATCTGGTACG
Found at i:18778089 original size:101 final size:102
Alignment explanation
Indices: 18777877--18778100 Score: 260
Period size: 101 Copynumber: 2.2 Consensus size: 102
18777867 AATGATACCG
* *
18777877 GTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGC
1 GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCAGATACACGTAGTAGC
* **
18777942 CTACACATAGTACTACACACGTGATCGAAGCTATCTG
66 CTACACATAGTACTACACACGTGATCCAAGCTATCAC
* * *
18777979 GTACGCATAGTAGCCTGCACATAGTACTACACTTGCGACCTATCA-T-TCTAG-TACACGTAGTA
1 GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATC-AGATACACGTAGTA
* *
18778041 GCCTGCACATAGTACTACACACGTGA-CCATCA-CTTTCAC
64 GCCTACACATAGTACTACACACGTGATCCA--AGCTATCAC
* * *
18778080 TTTCACATAGTGGCCTACACA
1 GTTCACATAGTAGCCTGCACA
18778101 CAGTCCATGC
Statistics
Matches: 103, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
100 2 0.02
101 58 0.56
102 39 0.38
103 4 0.04
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (102 bp):
GTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCAGATACACGTAGTAGC
CTACACATAGTACTACACACGTGATCCAAGCTATCAC
Found at i:18782850 original size:21 final size:20
Alignment explanation
Indices: 18782826--18782864 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
18782816 GTTAAAAATA
18782826 ATTATCATTTTCATCATTTGG
1 ATTATCATTTTCAT-ATTTGG
18782847 ATTATCATTTTCATATTT
1 ATTATCATTTTCATATTT
18782865 TAATCCCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.26, C:0.13, G:0.05, T:0.56
Consensus pattern (20 bp):
ATTATCATTTTCATATTTGG
Found at i:18783766 original size:98 final size:98
Alignment explanation
Indices: 18783592--18783789 Score: 342
Period size: 98 Copynumber: 2.0 Consensus size: 98
18783582 GTACAATAAA
* **
18783592 ACTTTAAAAGAACATCCACTTATCTAAGATTTAAGAAATCACACACAATACGTTAGGGCACGGTT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACACAATACGTTAGGGCACAATT
*
18783657 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
* *
18783690 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATATGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACACAATACGTTAGGGCACAATT
18783755 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
18783788 AC
1 AC
18783790 GATTTTTAAA
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACACAATACGTTAGGGCACAATT
CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:18785818 original size:45 final size:45
Alignment explanation
Indices: 18785700--18785818 Score: 111
Period size: 45 Copynumber: 2.6 Consensus size: 45
18785690 TCAACTTTAA
* * *
18785700 TCTGCTCCACTGCAACTT-CAAGGAGATAAGATTTGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCCGA-GAGATAAAACTTGCCATCTTCAG
* * **
18785745 TCTGC-CTCACTGCAACCTCAG-GAGGATAAAACTTGCTTTGCTT-AG
1 TCTGCTC-CACTGCAACTTCCGAGA-GATAAAACTTGCCAT-CTTCAG
18785790 TCTGCTCCACTGCAACTTCCGAGAGATAA
1 TCTGCTCCACTGCAACTTCCGAGAGATAA
18785819 GACTAGATGC
Statistics
Matches: 59, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
44 3 0.05
45 50 0.85
46 6 0.10
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTCCGAGAGATAAAACTTGCCATCTTCAG
Found at i:18785942 original size:128 final size:128
Alignment explanation
Indices: 18785786--18786034 Score: 356
Period size: 128 Copynumber: 1.9 Consensus size: 128
18785776 CTTGCTTTGC
* * * *
18785786 TTAGTCTGCTCCACTGCAACTTCCGAGAGATAAGACTAGATGCGATT-TGCTCTCTGCAACTTTA
1 TTAGTCTACTCCACTACAACTTCAGAGAGATAAGACTAGATGCG-TTCTGCTCTCTGCAACTTCA
* * *
18785850 GAGAGATAAGATCCATCATTCTAATCCACTCCGCTACAACTTTAGGGAGATAGGATTTGTTTAT
65 GAGAGATAAGATCCAACATTCTAATCCACTCCACTACAACTTCAGGGAGATAGGATTTGTTTAT
*
18785914 TTAGTCTACTCTACTACAACTTCAGAGAGATAAGACTAGATGCGTTCTGCTCTCTGCAACTTCAG
1 TTAGTCTACTCCACTACAACTTCAGAGAGATAAGACTAGATGCGTTCTGCTCTCTGCAACTTCAG
* ** * * *
18785979 ATAGATAAGATCCAAGGTTTTAATCCGCTTCACTACAACTTCAGGGAGATAGGATT
66 AGAGATAAGATCCAACATTCTAATCCACTCCACTACAACTTCAGGGAGATAGGATT
18786035 ATCGGCTTTA
Statistics
Matches: 106, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
127 2 0.02
128 104 0.98
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (128 bp):
TTAGTCTACTCCACTACAACTTCAGAGAGATAAGACTAGATGCGTTCTGCTCTCTGCAACTTCAG
AGAGATAAGATCCAACATTCTAATCCACTCCACTACAACTTCAGGGAGATAGGATTTGTTTAT
Found at i:18786062 original size:128 final size:127
Alignment explanation
Indices: 18785790--18786076 Score: 353
Period size: 128 Copynumber: 2.2 Consensus size: 127
18785780 CTTTGCTTAG
* *
18785790 TCTGCTCCACTGCAACTTCCGAGAGATAAGACTAGATGCGATTTGCTCTCTGCAACTTTAGAGAG
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGATGCGATTTGCTCTCTGCAACTTCAGAGAG
* * * * *
18785855 ATAAGATCCATCATTCTAATCCACTCCGCTACAACTTTAGGGAGATAGGATTTGTTTATTTAG
66 ATAAGATCCAACATTCTAATCCACTCCACTACAACTTCAGGGAGATAGGATTTG-TGATTTAA
* * * *
18785918 TCTACTCTACTACAACTTCAGAGAGATAAGACTAGATGCG-TTCTGCTCTCTGCAACTTCAGATA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGATGCGATT-TGCTCTCTGCAACTTCAGAGA
** * * * *
18785982 GATAAGATCCAAGGTTTTAATCCGCTTCACTACAACTTCAGGGAGATAGGATTATCG-GCTTTAA
65 GATAAGATCCAACATTCTAATCCACTCCACTACAACTTCAGGGAGATAGGATT-T-GTGATTTAA
* *
18786046 TCTGTTCCACTGCAACTTCAGGGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGA
18786077 TTTGTCATCT
Statistics
Matches: 134, Mismatches: 22, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
127 2 0.01
128 130 0.97
129 1 0.01
130 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (127 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGACTAGATGCGATTTGCTCTCTGCAACTTCAGAGAG
ATAAGATCCAACATTCTAATCCACTCCACTACAACTTCAGGGAGATAGGATTTGTGATTTAA
Found at i:18786154 original size:218 final size:218
Alignment explanation
Indices: 18785914--18786307 Score: 644
Period size: 218 Copynumber: 1.8 Consensus size: 218
18785904 ATTTGTTTAT
* *
18785914 TTAGTCTACTCTACTACAACTTCAGAGAGATAAGACTAGATGCGTTCTGCTCTCTGCAACTTCAG
1 TTAGTCTACTCCACTACAACTTCAGAGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAG
* * * *
18785979 ATAGATAAGATCCAAGGTTTTAATCCGCTTCACTACAACTTCAGGGAGATAGGATTATCGGCTTT
66 AGAGATAAGATCCAAGGTTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCAGCTTT
* * * *
18786044 AATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGCCTGCCTCACTGCAACTT
131 AATATGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGCCTGCCTCACTGCAACTT
18786109 CAGGAGGATAAGACTTGCTTTGC
196 CAGGAGGATAAGACTTGCTTTGC
* *
18786132 TTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAG
1 TTAGTCTACTCCACTACAACTTCAGAGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAG
** * *
18786197 AGAGATAAGATCTGAGGTTTTAATCCACTCCACTATAATTTCAGGGAGATAGGATTATCAGCTTT
66 AGAGATAAGATCCAAGGTTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCAGCTTT
18786262 AATATGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCA
131 AATATGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCA
18786308 ATCTGCTCCG
Statistics
Matches: 160, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
218 160 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (218 bp):
TTAGTCTACTCCACTACAACTTCAGAGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAG
AGAGATAAGATCCAAGGTTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCAGCTTT
AATATGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGCCTGCCTCACTGCAACTT
CAGGAGGATAAGACTTGCTTTGC
Found at i:18790384 original size:29 final size:28
Alignment explanation
Indices: 18790348--18790425 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
18790338 TCATGAGATT
18790348 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
18790378 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
18790405 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
18790426 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:18790685 original size:173 final size:173
Alignment explanation
Indices: 18790378--18790703 Score: 555
Period size: 173 Copynumber: 1.9 Consensus size: 173
18790368 AAATTGTACA
* *
18790378 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
18790443 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGCGAT
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGCAAT
18790508 TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
18790551 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
*
18790616 TGTGC-AACCCAGTATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAG-CAA
18790680 TTTTGGACAGCGGAAAAGGTAAGT
130 TTTTGGACAGCGGAAAAGGTAAGT
18790704 ACCTTGAGTT
Statistics
Matches: 143, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
172 53 0.37
173 90 0.63
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (173 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGCAAT
TTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:18801257 original size:98 final size:98
Alignment explanation
Indices: 18801083--18801280 Score: 324
Period size: 98 Copynumber: 2.0 Consensus size: 98
18801073 GTACAATAAA
* * *
18801083 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCATACCCAATATGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* ** *
18801148 CCTTTAGAATCCCAAACTCGGAATATTTTCTTT
66 CCTTTAAAATCCCAAACTCAAAATATTTCCTTT
*
18801181 ACTTTAAAAGAACATCCGCTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
18801246 CCTTTAAAATCCCAAACTCAAAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCAAAATATTTCCTTT
18801279 AC
1 AC
18801281 GATTTTTAAA
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTTTAAAATCCCAAACTCAAAATATTTCCTTT
Found at i:18805081 original size:43 final size:43
Alignment explanation
Indices: 18805015--18805100 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
18805005 AGCCCTAAAA
*
18805015 ATGTCAAGAATGGGCCTGGTTCTTTACATTACTTTCATTTAAT
1 ATGTCAAGAATGGGCCTGCTTCTTTACATTACTTTCATTTAAT
*
18805058 ATGTCAAGAATGGGTCTGCTTCTTTACATTACTTTCATTTAAT
1 ATGTCAAGAATGGGCCTGCTTCTTTACATTACTTTCATTTAAT
18805101 CATACATAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (43 bp):
ATGTCAAGAATGGGCCTGCTTCTTTACATTACTTTCATTTAAT
Found at i:18816741 original size:37 final size:37
Alignment explanation
Indices: 18816691--18816762 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
18816681 TAAGCTATAG
18816691 TAAACCTAATGGAACCTGATGCTCGAATTTTACTTGC
1 TAAACCTAATGGAACCTGATGCTCGAATTTTACTTGC
18816728 TAAACCTAATGGAACCTGATGCTCGAATTTTACTT
1 TAAACCTAATGGAACCTGATGCTCGAATTTTACTT
18816763 ACTGACATAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (37 bp):
TAAACCTAATGGAACCTGATGCTCGAATTTTACTTGC
Found at i:18821244 original size:18 final size:19
Alignment explanation
Indices: 18821223--18821258 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
18821213 TCAACGACAA
18821223 ATTC-TTCATTTATATTTT
1 ATTCTTTCATTTATATTTT
*
18821241 ATTCTTTTATTTATATTT
1 ATTCTTTCATTTATATTT
18821259 CGTTTCTCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.69
Consensus pattern (19 bp):
ATTCTTTCATTTATATTTT
Found at i:18822011 original size:13 final size:13
Alignment explanation
Indices: 18821972--18822025 Score: 56
Period size: 13 Copynumber: 4.1 Consensus size: 13
18821962 AAATTTTGCT
*
18821972 TTTCTCTCTTTCTC
1 TTTCTTTCTTT-TC
*
18821986 TTTCCTTTTTTTTC
1 TTT-CTTTCTTTTC
18822000 TTTCTTTCTTTTC
1 TTTCTTTCTTTTC
*
18822013 TATC-TTCTTTTC
1 TTTCTTTCTTTTC
18822025 T
1 T
18822026 CCTCGTCTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
12 9 0.26
13 12 0.34
14 8 0.23
15 6 0.17
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCTTTCTTTTC
Found at i:18825421 original size:27 final size:27
Alignment explanation
Indices: 18825369--18825421 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
18825359 ATCAAATTTA
* *
18825369 ATAACTAACTAAAATATTTCATAAAAT
1 ATAACTAACTAAAATATTACACAAAAT
18825396 ATAACTAACTAAAAT-TTAACACAAAA
1 ATAACTAACTAAAATATT-ACACAAAA
18825422 ATATCAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.28
Consensus pattern (27 bp):
ATAACTAACTAAAATATTACACAAAAT
Found at i:18826789 original size:13 final size:13
Alignment explanation
Indices: 18826771--18826846 Score: 75
Period size: 13 Copynumber: 5.8 Consensus size: 13
18826761 GTTCTTTATT
18826771 GCTTTTGAGAAGA
1 GCTTTTGAGAAGA
* *
18826784 GCTTTTCAGAAGT
1 GCTTTTGAGAAGA
* *
18826797 GCTTTTCAGAAGC
1 GCTTTTGAGAAGA
*
18826810 G-TCTTTGAGAAGT
1 GCT-TTTGAGAAGA
18826823 GCTTTTGAGAAGTA
1 GCTTTTGAGAAG-A
18826837 -CTTTTGAGAA
1 GCTTTTGAGAA
18826847 ATTTGAGTGT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
12 1 0.02
13 52 0.96
14 1 0.02
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.36
Consensus pattern (13 bp):
GCTTTTGAGAAGA
Found at i:18826842 original size:26 final size:25
Alignment explanation
Indices: 18826770--18826846 Score: 93
Period size: 26 Copynumber: 3.0 Consensus size: 25
18826760 AGTTCTTTAT
*
18826770 TGCTTTTGAGAAGAGCTTTTCAGAAG
1 TGCTTTTGAGAAGA-CTTTTGAGAAG
*
18826796 TGCTTTTCAGAAG-CGTCTTTGAGAAG
1 TGCTTTTGAGAAGAC-T-TTTGAGAAG
18826822 TGCTTTTGAGAAGTACTTTTGAGAA
1 TGCTTTTGAGAAG-ACTTTTGAGAA
18826847 ATTTGAGTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
24 1 0.02
25 1 0.02
26 40 0.91
27 1 0.02
28 1 0.02
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.36
Consensus pattern (25 bp):
TGCTTTTGAGAAGACTTTTGAGAAG
Found at i:18833563 original size:14 final size:15
Alignment explanation
Indices: 18833539--18833572 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
18833529 AGAAAGTTCT
*
18833539 AATTATATTTTTTTG
1 AATTATATTTTTTTA
18833554 AATT-TATTTTTTTA
1 AATTATATTTTTTTA
18833568 AATTA
1 AATTA
18833573 AAAAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (15 bp):
AATTATATTTTTTTA
Found at i:18836935 original size:6 final size:6
Alignment explanation
Indices: 18836924--18836949 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
18836914 GTAATTGTTA
18836924 TATAAT TATAAT TATAAT TATAAT TA
1 TATAAT TATAAT TATAAT TATAAT TA
18836950 AAATAACCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TATAAT
Found at i:18838681 original size:30 final size:30
Alignment explanation
Indices: 18838647--18838705 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
18838637 ACTTTAATAC
* *
18838647 GAGCT-GAATTAACTTCCATTTCAGCTCAAT
1 GAGCTCGAATTAAC-TCAACTTCAGCTCAAT
*
18838677 GAGCTCGAATTAGCTCAACTTCAGCTCAA
1 GAGCTCGAATTAACTCAACTTCAGCTCAA
18838706 ACATTTTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (30 bp):
GAGCTCGAATTAACTCAACTTCAGCTCAAT
Found at i:18839035 original size:31 final size:32
Alignment explanation
Indices: 18838979--18839045 Score: 77
Period size: 31 Copynumber: 2.1 Consensus size: 32
18838969 TTATTTATAT
*
18838979 AGGTTGGCCGAATGTGTGGGATCA-TTTAACA
1 AGGTTAGCCGAATGTGTGGGATCATTTTAACA
*
18839010 AGGTTAGCCGAAT-T-TGGAGATTCATTTTAGCA
1 AGGTTAGCCGAATGTGTGG-GA-TCATTTTAACA
18839042 AGGT
1 AGGT
18839046 GCATGCATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 3 0.10
30 3 0.10
31 15 0.48
32 10 0.32
ACGTcount: A:0.27, C:0.12, G:0.30, T:0.31
Consensus pattern (32 bp):
AGGTTAGCCGAATGTGTGGGATCATTTTAACA
Found at i:18840207 original size:10 final size:10
Alignment explanation
Indices: 18840192--18840227 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
18840182 ATTTTTTTTT
18840192 AAAAAAATCG
1 AAAAAAATCG
*
18840202 AAAAAAATCA
1 AAAAAAATCG
18840212 AAAAAAAT-G
1 AAAAAAATCG
18840221 AAAAAAA
1 AAAAAAA
18840228 CAAGAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 7 0.29
10 17 0.71
ACGTcount: A:0.81, C:0.06, G:0.06, T:0.08
Consensus pattern (10 bp):
AAAAAAATCG
Found at i:18840239 original size:20 final size:20
Alignment explanation
Indices: 18840192--18840237 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
18840182 ATTTTTTTTT
18840192 AAAAAAATCGAAAAAAATCA
1 AAAAAAATCGAAAAAAATCA
18840212 AAAAAAAT-GAAAAAAA-CA
1 AAAAAAATCGAAAAAAATCA
18840230 AGAAAAAA
1 A-AAAAAA
18840238 ATTGTATACG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.12
19 14 0.56
20 8 0.32
ACGTcount: A:0.80, C:0.07, G:0.07, T:0.07
Consensus pattern (20 bp):
AAAAAAATCGAAAAAAATCA
Found at i:18842519 original size:14 final size:15
Alignment explanation
Indices: 18842490--18842519 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18842480 AGAGAGCGAG
18842490 AAAAGAAAAAGATGA
1 AAAAGAAAAAGATGA
18842505 AAAAGAAAAAG-TGA
1 AAAAGAAAAAGATGA
18842519 A
1 A
18842520 TGAAAAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (15 bp):
AAAAGAAAAAGATGA
Found at i:18853875 original size:23 final size:23
Alignment explanation
Indices: 18853828--18853877 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 23
18853818 TGTTTTAAGT
*
18853828 TTTATATGTATTATTATTTGAAA
1 TTTATATGTATCATTATTTGAAA
18853851 TTTATTATGTATCATTATTT-AAA
1 TTTA-TATGTATCATTATTTGAAA
18853874 TTTA
1 TTTA
18853878 GCATATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (23 bp):
TTTATATGTATCATTATTTGAAA
Found at i:18857627 original size:21 final size:21
Alignment explanation
Indices: 18857602--18857652 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
18857592 AGCGGTGGCA
*
18857602 GTGAGATTAGTTACTATAGCG
1 GTGAGATTAGATACTATAGCG
*
18857623 GTGAGATTAGATACTGTAGCG
1 GTGAGATTAGATACTATAGCG
*
18857644 ATGAGATTA
1 GTGAGATTA
18857653 AAAACAACGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.08, G:0.29, T:0.31
Consensus pattern (21 bp):
GTGAGATTAGATACTATAGCG
Found at i:18859490 original size:69 final size:69
Alignment explanation
Indices: 18859378--18859968 Score: 720
Period size: 69 Copynumber: 8.6 Consensus size: 69
18859368 GACCTTGCAG
** * * * *
18859378 CTGATATCAAAAAGGCTTAATGATTTAAGATCACAGCCACCAAAACAACTCGTGGACCTACGCTC
1 CTGATATCGTAAAGGCTTGATGATTTAAGATCACAGCCTCCAAAACAGCTCGCGGACCTACGCTC
* *
18859443 TCGA
66 CCAA
* * * *
18859447 CTGATATCATAAAGGGTTGATGATTTAAGATCACAGCCTCCAAAATAGCTCGCGGACCTATGCTC
1 CTGATATCGTAAAGGCTTGATGATTTAAGATCACAGCCTCCAAAACAGCTCGCGGACCTACGCTC
18859512 CCAA
66 CCAA
* * *
18859516 CTGATATCGTAAAGGC-TCACTGATTTAAGATCACAGCCTCCAAAATAGCTCACGGACCTACGCT
1 CTGATATCGTAAAGGCTTGA-TGATTTAAGATCACAGCCTCCAAAACAGCTCGCGGACCTACGCT
*
18859580 CCCGA
65 CCCAA
* * * * *
18859585 CTGATATCGTAAAGGCTCGATTATTTAAGATCATAGCCTCCAAAATAGCTCGCGGACCTACACTC
1 CTGATATCGTAAAGGCTTGATGATTTAAGATCACAGCCTCCAAAACAGCTCGCGGACCTACGCTC
18859650 CCAA
66 CCAA
* * * *
18859654 CTGATATCGTAAAGGCTTGATGATTTAAGACCACATCCTCCAAAACAGCTCGCGGACCTACGTTT
1 CTGATATCGTAAAGGCTTGATGATTTAAGATCACAGCCTCCAAAACAGCTCGCGGACCTACGCTC
**
18859719 CTGA
66 CCAA
* * * *
18859723 CTGATATCGTAAAGGCTTGATGATTTAAGATCACAGCTTCCAAAATAGATCGAGGACCTACGCTC
1 CTGATATCGTAAAGGCTTGATGATTTAAGATCACAGCCTCCAAAACAGCTCGCGGACCTACGCTC
*
18859788 TTC-A
66 -CCAA
* * * * * *
18859792 TTGATATCGTAAATGCTTGATGATTTAAGATCACAACCTCCTAAACAACTCGCGGACCTACGCTT
1 CTGATATCGTAAAGGCTTGATGATTTAAGATCACAGCCTCCAAAACAGCTCGCGGACCTACGCTC
*
18859857 TCAA
66 CCAA
* * * *
18859861 CTGGTATTGTAAAGGCTCGATGATTTAAGATCACAACCTCCAAAACAGCTCGCGGACCTACGCTC
1 CTGATATCGTAAAGGCTTGATGATTTAAGATCACAGCCTCCAAAACAGCTCGCGGACCTACGCTC
18859926 CCAA
66 CCAA
* * *
18859930 CTGATATTGTAAAGGC-TCACTGATTTAAGATCGCAGCCT
1 CTGATATCGTAAAGGCTTGA-TGATTTAAGATCACAGCCT
18859969 TCGAAATAGC
Statistics
Matches: 449, Mismatches: 68, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
68 5 0.01
69 443 0.99
70 1 0.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (69 bp):
CTGATATCGTAAAGGCTTGATGATTTAAGATCACAGCCTCCAAAACAGCTCGCGGACCTACGCTC
CCAA
Found at i:18861504 original size:14 final size:15
Alignment explanation
Indices: 18861482--18861516 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
18861472 AATACAAATA
18861482 ACAAT-ATAACAAT-
1 ACAATAATAACAATG
18861495 ACAATAATAACAATG
1 ACAATAATAACAATG
18861510 ACAATAA
1 ACAATAA
18861517 ATATAATACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 5 0.25
14 8 0.40
15 7 0.35
ACGTcount: A:0.63, C:0.14, G:0.03, T:0.20
Consensus pattern (15 bp):
ACAATAATAACAATG
Found at i:18862640 original size:4 final size:4
Alignment explanation
Indices: 18862631--18862657 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
18862621 AAAATATTTG
18862631 TAAA TAAA TAAA TAAA TAAA TAAA TAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAA
18862658 TATATGTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:18866951 original size:23 final size:22
Alignment explanation
Indices: 18866925--18866970 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
18866915 TATTTCAATA
*
18866925 TATATATTTTGTATTTTTTTCTT
1 TATAT-TTTTGTATTTATTTCTT
* *
18866948 TATATTTTTTTGTTTATTTCTT
1 TATATTTTTGTATTTATTTCTT
18866970 T
1 T
18866971 CATTTGTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.76
Consensus pattern (22 bp):
TATATTTTTGTATTTATTTCTT
Found at i:18867133 original size:15 final size:15
Alignment explanation
Indices: 18867113--18867146 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
18867103 TTTCTATGCC
18867113 ATTGTTGTATTTATT
1 ATTGTTGTATTTATT
*
18867128 ATTGTTGTATTTGTT
1 ATTGTTGTATTTATT
18867143 ATTG
1 ATTG
18867147 CGACATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.65
Consensus pattern (15 bp):
ATTGTTGTATTTATT
Found at i:18873541 original size:15 final size:14
Alignment explanation
Indices: 18873511--18873548 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
18873501 GTTCATATTC
18873511 AAAAAAA-AAGATG
1 AAAAAAAGAAGATG
*
18873524 AAAAAAAGATGATGG
1 AAAAAAAGAAGAT-G
18873539 AAAAAAAGAA
1 AAAAAAAGAA
18873549 AATAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 7 0.33
14 4 0.19
15 10 0.48
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (14 bp):
AAAAAAAGAAGATG
Found at i:18874875 original size:44 final size:44
Alignment explanation
Indices: 18874825--18874960 Score: 116
Period size: 44 Copynumber: 3.1 Consensus size: 44
18874815 AAACTCCAAC
*
18874825 CTTGTCTCCCTGAACAGCAGTGGAGTAGGTTGAAAATAGCAGAT
1 CTTGTCTCCCTGAACAGCAGTGGAGTAGGTTGAAAATAACAGAT
* ** * * * * * *
18874869 CTTGTCTTCCT-ATATTGGCAGCGAAGTA-GATCAAAGATACCAG-C
1 CTTGTCTCCCTGA-A-CAGCAGTGGAGTAGGTTGAAA-ATAACAGAT
* *
18874913 CTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAACAGAT
1 CTTGTCTCCCTGAACAGCAGTGGAGTAGGTTGAAAATAACAGAT
18874957 CTTG
1 CTTG
18874961 CCTTCCTATA
Statistics
Matches: 66, Mismatches: 20, Indels: 12
0.67 0.20 0.12
Matches are distributed among these distances:
43 15 0.23
44 35 0.53
45 16 0.24
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (44 bp):
CTTGTCTCCCTGAACAGCAGTGGAGTAGGTTGAAAATAACAGAT
Found at i:18874937 original size:88 final size:88
Alignment explanation
Indices: 18874824--18874993 Score: 286
Period size: 88 Copynumber: 1.9 Consensus size: 88
18874814 GAAACTCCAA
* *
18874824 CCTTGTCTCCCTGAACAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTATATTGGCA
1 CCTTGTCTCCCTGAACAGCAGTGGAGTAGGTTGAAAATAACAGATCTTGCCTTCCTATATTGGCA
*
18874889 GCGAAGTAGATCAAAGATACCAG
66 GCGAAGCAGATCAAAGATACCAG
* *
18874912 CCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAATAACAGATCTTGCCTTCCTATATTGGCA
1 CCTTGTCTCCCTGAACAGCAGTGGAGTAGGTTGAAAATAACAGATCTTGCCTTCCTATATTGGCA
*
18874977 GTGAAGCAGATCAAAGA
66 GCGAAGCAGATCAAAGA
18874994 CATCAGTCTT
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 76 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (88 bp):
CCTTGTCTCCCTGAACAGCAGTGGAGTAGGTTGAAAATAACAGATCTTGCCTTCCTATATTGGCA
GCGAAGCAGATCAAAGATACCAG
Found at i:18875506 original size:267 final size:267
Alignment explanation
Indices: 18875025--18875830 Score: 1146
Period size: 267 Copynumber: 3.0 Consensus size: 267
18875015 GTAGCAATGG
* * * * * *
18875025 AAAAGATTGAAGCCACAATGGCGAATCTTATTTCCCTGACGTTATAGCGGAGCAGATTGAAGCCA
1 AAAAGATTGAAGCCGCAACGACGAATCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCA
* *
18875090 CGACGGTGAATCTTATCTCCCTGGTGTTAAGGCTTGGATTAGCTGAAGTGGAGTGGATTGAAGCT
66 CGACGGTGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCT
* **
18875155 GTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGGAGCAGATT-AAGGCCGCAACGGTGAATC
131 GTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAA-GCCGCAACGGTGAATC
* * * *
18875219 TTACTCCCCTGGCAGTGTAGTGGAATAGATTGAATCTACTACGACGAATCTTGTTTCCTCAACAT
195 TTACTTCCCTGGCAGTGTAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCTCAACAT
18875284 TGCCATTA
260 TGCCATTA
*
18875292 AAAAGATTGAAGCCGCAACGATGAATCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCA
1 AAAAGATTGAAGCCGCAACGACGAATCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCA
* * *
18875357 CGACGGTGAATCTTATCTCCCTGGCGTTAAGGCTTAGATTAGCTGAAGTGGAGCGGGTTGAAGTT
66 CGACGGTGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCT
* *
18875422 GTGGGCAACGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAAGTCGCAACGGTGAATCT
131 GTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAAGCCGCAACGGTGAATCT
* * * *
18875487 TACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGTGAACCTTGTTTCCTCAACATT
196 TACTTCCCTGGCAGTGTAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCTCAACATT
18875552 G-C----
261 GCCATTA
* * * **
18875554 --AATATTGAAGCCGTAAC-AGCGAATCTTACTTCCCTAGTATTGTAGCGGAGCAGATTGAAGCC
1 AAAAGATTGAAGCCGCAACGA-CGAATCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCC
* * * *
18875616 ACGACGGCGAATCTTATCTCCCTGACATTAAGGCTTGGATTAGCTGAAGTGGAGCGGAATGAAGC
65 ACGACGGTGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGC
* *
18875681 TGTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAAGCCGCAATGGCGAATC
130 TGTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAAGCCGCAACGGTGAATC
* * *
18875746 TTACTTCCTTGGTAGTGTAGTGGAACT-GATTGAAGCTACGACGGCGAATCTTGTTTCCCCAACA
195 TTACTTCCCTGGCAGTGTAGTGGAA-TAGATTGAAGCTACGACGGCGAATCTTGTTTCCTCAACA
*
18875810 TTGCAATTA
259 TTGCCATTA
*
18875819 AAAAGACTGAAG
1 AAAAGATTGAAG
18875831 ATGGCGAATC
Statistics
Matches: 477, Mismatches: 52, Indels: 20
0.87 0.09 0.04
Matches are distributed among these distances:
259 1 0.00
260 232 0.49
266 1 0.00
267 241 0.51
268 2 0.00
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (267 bp):
AAAAGATTGAAGCCGCAACGACGAATCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCA
CGACGGTGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCT
GTGGGCAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAAGCCGCAACGGTGAATCT
TACTTCCCTGGCAGTGTAGTGGAATAGATTGAAGCTACGACGGCGAATCTTGTTTCCTCAACATT
GCCATTA
Found at i:18875687 original size:260 final size:260
Alignment explanation
Indices: 18875030--18875816 Score: 1103
Period size: 260 Copynumber: 3.0 Consensus size: 260
18875020 AATGGAAAAG
* * * * * *
18875030 ATTGAAGCCACAATGGCGAATCTTATTTCCCT-GACGTTATAGCGGAGCAGATTGAAGCCACGAC
1 ATTGAAGCCGCAACGACGAATCTTACTTCCCTAG-CATTGTAGCGGAGCAGATTGAAGCCACGAC
* *
18875094 GGTGAATCTTATCTCCCTGGTGTTAAGGCTTGGATTAGCTGAAGTGGAGTGGATTGAAGCTGTGG
65 GGTGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCTGTGG
* **
18875159 GCAGCGAATCCTATCTCTTTGGCATTACAGTGGAGCAGATT-AAGGCCGCAACGGTGAATCTTAC
130 GCAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAA-GCCGCAACGGTGAATCTTAC
* * * * *
18875223 TCCCCTGGCAGTGTAGTGGAATAGATTGAATCTACTACGACGAATCTTGTTTCCTCAACATTGCC
194 TTCCCTGGCAGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGTTTCCTCAACATTG-C
*
18875288 ATTAAAAAG
258 ------AAT
* * *
18875297 ATTGAAGCCGCAACGATGAATCTTACTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCACGACG
1 ATTGAAGCCGCAACGACGAATCTTACTTCCCTAGCATTGTAGCGGAGCAGATTGAAGCCACGACG
* * *
18875362 GTGAATCTTATCTCCCTGGCGTTAAGGCTTAGATTAGCTGAAGTGGAGCGGGTTGAAGTTGTGGG
66 GTGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCTGTGGG
* *
18875427 CAACGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAAGTCGCAACGGTGAATCTTACTT
131 CAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAAGCCGCAACGGTGAATCTTACTT
* * *
18875492 CCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGTGAACCTTGTTTCCTCAACATTGCAAT
196 CCCTGGCAGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGTTTCCTCAACATTGCAAT
* *
18875557 ATTGAAGCCGTAAC-AGCGAATCTTACTTCCCTAGTATTGTAGCGGAGCAGATTGAAGCCACGAC
1 ATTGAAGCCGCAACGA-CGAATCTTACTTCCCTAGCATTGTAGCGGAGCAGATTGAAGCCACGAC
* * * *
18875621 GGCGAATCTTATCTCCCTGACATTAAGGCTTGGATTAGCTGAAGTGGAGCGGAATGAAGCTGTGG
65 GGTGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCTGTGG
* *
18875686 GCAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAAGCCGCAATGGCGAATCTTACT
130 GCAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAAGCCGCAACGGTGAATCTTACT
* * * *
18875751 TCCTTGGTAGTGTAGTGGAACTGATTGAAGCTACGACGGCGAATCTTGTTTCCCCAACATTGCAA
195 TCCCTGGCAGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGTTTCCTCAACATTGCAA
18875816 T
260 T
18875817 TAAAAAGACT
Statistics
Matches: 469, Mismatches: 48, Indels: 13
0.88 0.09 0.02
Matches are distributed among these distances:
259 1 0.00
260 237 0.51
266 1 0.00
267 227 0.48
268 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (260 bp):
ATTGAAGCCGCAACGACGAATCTTACTTCCCTAGCATTGTAGCGGAGCAGATTGAAGCCACGACG
GTGAATCTTATCTCCCTGGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCTGTGGG
CAGCGAATCCTATCTCTTTGGCATTACAGTGAAAAAGATTGAAGCCGCAACGGTGAATCTTACTT
CCCTGGCAGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGTTTCCTCAACATTGCAAT
Found at i:18876067 original size:45 final size:44
Alignment explanation
Indices: 18875959--18876248 Score: 179
Period size: 44 Copynumber: 6.6 Consensus size: 44
18875949 GATCACATCT
*
18875959 AGTCTTATCTCCCTGAAGTTGGAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
*
18876003 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGGT-GGCGA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AA-GTAAGC-A
* * * *
18876049 A-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCAA-TA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGCA
* * * * **
18876093 A-TCCTATCTCCCTGAAGTTGCAGTGGAACGGATTAA--ATCCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* * * * * * * * *
18876134 TAGATTTTATCTCTCTGAAGTTGCTGTAGAGTAGA-TCA--CATCG
1 -AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* *
18876177 GGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAAGCA
* * *
18876222 AGTCTTATCCCCCTGAAATTACAGTGG
1 AGTCTTATCTCCCTGAAGTTGCAGTGG
18876249 GGCAAAAAAA
Statistics
Matches: 188, Mismatches: 41, Indels: 33
0.72 0.16 0.13
Matches are distributed among these distances:
40 1 0.01
41 27 0.14
42 3 0.02
43 9 0.05
44 84 0.45
45 57 0.30
46 7 0.04
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
Found at i:18877682 original size:16 final size:16
Alignment explanation
Indices: 18877661--18877694 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
18877651 AAATTTGATT
*
18877661 TTATTGTTATTAAGTA
1 TTATTGTTATTAAATA
18877677 TTATTGTTATTAAATA
1 TTATTGTTATTAAATA
18877693 TT
1 TT
18877695 CATTTATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (16 bp):
TTATTGTTATTAAATA
Found at i:18882552 original size:25 final size:26
Alignment explanation
Indices: 18882503--18882559 Score: 89
Period size: 25 Copynumber: 2.2 Consensus size: 26
18882493 CCATTAAGAT
*
18882503 TTTTGACAATTTTACCCTCGGTAAAA
1 TTTTGACAATTTTACCCTCGATAAAA
*
18882529 TTTTGACGATTTTA-CCTCGATAAAA
1 TTTTGACAATTTTACCCTCGATAAAA
18882554 TTTTGA
1 TTTTGA
18882560 GAAAATTCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 16 0.55
26 13 0.45
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (26 bp):
TTTTGACAATTTTACCCTCGATAAAA
Done.