Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 97 of 175
Found at i:30967060 original size:16 final size:16
Alignment explanation
Indices: 30966991--30967286 Score: 92
Period size: 16 Copynumber: 17.5 Consensus size: 16
30966981 GTTATGAAAC
*
30966991 TTATGTAAGTTATGTC
1 TTATGTAAGTTATGTA
*
30967007 TTATGTAAGTTATGCAAA
1 TTATGTAAGTTATG--TA
30967025 TTATGT-A-TTATGTAA
1 TTATGTAAGTTATGT-A
*
30967040 GTTATGTAAGTTGTGTA
1 -TTATGTAAGTTATGTA
*
30967057 TTATATAAGTTATGTAA
1 TTATGTAAGTTATGT-A
*
30967074 GTTGTGT-A-TTATGTAA
1 -TTATGTAAGTTATGT-A
*
30967090 GTTATGTAAGTTTTTGT-
1 -TTATGTAAG-TTATGTA
* *
30967107 TTTTGTGTA-TTATGTAA
1 TTATGT-AAGTTATGT-A
* *
30967124 CTTATTTAATTTATGTA
1 -TTATGTAAGTTATGTA
*
30967141 GGGTATGTATTA-TTATGTAA
1 --TTATGTA--AGTTATGT-A
* *
30967161 CTTATTTAATTTATGTA
1 -TTATGTAAGTTATGTA
*
30967178 GGGTATGTAAGTTATGTAA
1 --TTATGTAAGTTATGT-A
*
30967197 GTTATGT-A-TTATTTA
1 -TTATGTAAGTTATGTA
** *
30967212 CACATGTAAGTTGTGTA
1 -TTATGTAAGTTATGTA
*
30967229 TTATGTAAGTTATGCAA
1 TTATGTAAGTTATG-TA
*
30967246 GTTATGT-A-TTAAGTA
1 -TTATGTAAGTTATGTA
30967261 GGTTATGTAAGTTATGTA
1 --TTATGTAAGTTATGTA
30967279 TTATGTAA
1 TTATGTAA
30967287 ATTAATATAT
Statistics
Matches: 210, Mismatches: 40, Indels: 60
0.68 0.13 0.19
Matches are distributed among these distances:
15 12 0.06
16 93 0.44
17 20 0.10
18 66 0.31
19 17 0.08
20 2 0.01
ACGTcount: A:0.30, C:0.02, G:0.19, T:0.49
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:30967100 original size:34 final size:35
Alignment explanation
Indices: 30966930--30967286 Score: 197
Period size: 34 Copynumber: 10.2 Consensus size: 35
30966920 AAGTTATACA
*
30966930 TTATGTAAGTTGTGTAAGTTATGTAAGTTGTGTAAG
1 TTATGTAAGTTGTGT-AGTTATGTAAGTTATGTAAG
** * *
30966966 TTGCGTAAGTTGTGT-GTTATGAAACTTATGTAAG
1 TTATGTAAGTTGTGTAGTTATGTAAGTTATGTAAG
* * * *
30967000 TTATGT--CTTATGTAAGTTATGCAAATTATGT-A-
1 TTATGTAAGTTGTGT-AGTTATGTAAGTTATGTAAG
* * *
30967032 TTATGTAAGTTATGTAAGTTGTGT-A-TTATATAAG
1 TTATGTAAGTTGTGT-AGTTATGTAAGTTATGTAAG
30967066 TTATGTAAGTTGTGTA-TTATGTAAGTTATGTAAG
1 TTATGTAAGTTGTGTAGTTATGTAAGTTATGTAAG
* ** * * *
30967100 TTTTTGT-TTTTGTGTA-TTATGTAACTTATTTAAT
1 -TTATGTAAGTTGTGTAGTTATGTAAGTTATGTAAG
* * * * *
30967134 TTATGTAGGGTATGTATTA-TTATGTAACTTATTTAAT
1 TTATGTA-AGT-TGT-GTAGTTATGTAAGTTATGTAAG
* * * *
30967171 TTATGTAGGGTATGTAAGTTATGTAAGTTATGTATTAT
1 TTATGTAAGTTGTGT-AGTTATGTAAGTTATGTA--AG
*
30967209 TTACACATGTAAGTTGTGTA-TTATGTAAGTTATGCAAG
1 TT----ATGTAAGTTGTGTAGTTATGTAAGTTATGTAAG
**
30967247 TTATGT-A-TTAAGTAGGTTATGTAAGTTATGT-A-
1 TTATGTAAGTTGTGTA-GTTATGTAAGTTATGTAAG
30967279 TTATGTAA
1 TTATGTAA
30967287 ATTAATATAT
Statistics
Matches: 256, Mismatches: 41, Indels: 51
0.74 0.12 0.15
Matches are distributed among these distances:
32 32 0.12
33 13 0.05
34 110 0.43
35 9 0.04
36 32 0.12
37 27 0.11
38 7 0.03
40 15 0.06
41 1 0.00
42 10 0.04
ACGTcount: A:0.29, C:0.03, G:0.21, T:0.48
Consensus pattern (35 bp):
TTATGTAAGTTGTGTAGTTATGTAAGTTATGTAAG
Found at i:30967159 original size:37 final size:37
Alignment explanation
Indices: 30967114--30967186 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
30967104 TGTTTTTGTG
30967114 TATTATGTAACTTATTTAATTTATGTAGGGTATGTAT
1 TATTATGTAACTTATTTAATTTATGTAGGGTATGTAT
30967151 TATTATGTAACTTATTTAATTTATGTAGGGTATGTA
1 TATTATGTAACTTATTTAATTTATGTAGGGTATGTA
30967187 AGTTATGTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.30, C:0.03, G:0.16, T:0.51
Consensus pattern (37 bp):
TATTATGTAACTTATTTAATTTATGTAGGGTATGTAT
Found at i:30967290 original size:9 final size:9
Alignment explanation
Indices: 30966930--30967286 Score: 213
Period size: 9 Copynumber: 41.9 Consensus size: 9
30966920 AAGTTATACA
30966930 TTATGTAAG
1 TTATGTAAG
*
30966939 TTGTGTAAG
1 TTATGTAAG
30966948 TTATGTAAG
1 TTATGTAAG
*
30966957 TTGTGTAAG
1 TTATGTAAG
**
30966966 TTGCGTAAG
1 TTATGTAAG
*
30966975 TTGTGT--G
1 TTATGTAAG
* *
30966982 TTATGAAAC
1 TTATGTAAG
30966991 TTATGTAAG
1 TTATGTAAG
*
30967000 TTATGT--C
1 TTATGTAAG
30967007 TTATGTAAG
1 TTATGTAAG
* *
30967016 TTATGCAAA
1 TTATGTAAG
30967025 TTATGT-A-
1 TTATGTAAG
30967032 TTATGTAAG
1 TTATGTAAG
30967041 TTATGTAAG
1 TTATGTAAG
*
30967050 TTGTGT-A-
1 TTATGTAAG
*
30967057 TTATATAAG
1 TTATGTAAG
30967066 TTATGTAAG
1 TTATGTAAG
*
30967075 TTGTGT-A-
1 TTATGTAAG
30967082 TTATGTAAG
1 TTATGTAAG
30967091 TTATGTAAG
1 TTATGTAAG
* **
30967100 TTTTTGT-TT
1 -TTATGTAAG
*
30967109 TTGTGT-A-
1 TTATGTAAG
*
30967116 TTATGTAAC
1 TTATGTAAG
* *
30967125 TTATTTAAT
1 TTATGTAAG
*
30967134 TTATGTAGG
1 TTATGTAAG
*
30967143 GTATGTATTA-
1 TTATGTA--AG
*
30967153 TTATGTAAC
1 TTATGTAAG
* *
30967162 TTATTTAAT
1 TTATGTAAG
*
30967171 TTATGTAGG
1 TTATGTAAG
*
30967180 GTATGTAAG
1 TTATGTAAG
30967189 TTATGTAAG
1 TTATGTAAG
30967198 TTATGT-A-
1 TTATGTAAG
*
30967205 TTATTTACA-
1 TTATGTA-AG
*
30967214 -CATGTAAG
1 TTATGTAAG
*
30967222 TTGTGT-A-
1 TTATGTAAG
30967229 TTATGTAAG
1 TTATGTAAG
*
30967238 TTATGCAAG
1 TTATGTAAG
30967247 TTATGT-A-
1 TTATGTAAG
* *
30967254 TTAAGTAGG
1 TTATGTAAG
30967263 TTATGTAAG
1 TTATGTAAG
30967272 TTATGT-A-
1 TTATGTAAG
30967279 TTATGTAA
1 TTATGTAA
30967287 ATTAATATAT
Statistics
Matches: 268, Mismatches: 55, Indels: 51
0.72 0.15 0.14
Matches are distributed among these distances:
7 53 0.20
8 23 0.09
9 181 0.68
10 11 0.04
ACGTcount: A:0.29, C:0.03, G:0.21, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:30967650 original size:213 final size:213
Alignment explanation
Indices: 30967283--30967707 Score: 823
Period size: 213 Copynumber: 2.0 Consensus size: 213
30967273 TATGTATTAT
30967283 GTAAATTAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTATCAATTTATTATT
1 GTAAATTAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTATCAATTTATTATT
30967348 AATAAAATTTAAATATAACTTACATAAGCAATCTTTGCTTTTAAACTAATCTTCCACTGAATTAT
66 AATAAAATTTAAATATAACTTACATAAGCAATCTTTGCTTTTAAACTAATCTTCCACTGAATTAT
30967413 GGGTGGAGAGGTATATATGTTACTGATTTGACAACAAAATATGTTTAAATATTATTAATAAAATT
131 GGGTGGAGAGGTATATATGTTACTGATTTGACAACAAAATATGTTTAAATATTATTAATAAAATT
30967478 TAAATATAGCTTACATAC
196 TAAATATAGCTTACATAC
30967496 GTAAATTAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTATCAATTTATTATT
1 GTAAATTAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTATCAATTTATTATT
* *
30967561 AATAAAATTTAAATATAGCTTACATAATCAATCTTTGCTTTTAAACTAATCTTCCACTGAATTAT
66 AATAAAATTTAAATATAACTTACATAAGCAATCTTTGCTTTTAAACTAATCTTCCACTGAATTAT
*
30967626 GGGTGGAGAGGTATATGTGTTACTGATTTGACAACAAAATATGTTTAAATATTATTAATAAAATT
131 GGGTGGAGAGGTATATATGTTACTGATTTGACAACAAAATATGTTTAAATATTATTAATAAAATT
30967691 TAAATATAGCTTACATA
196 TAAATATAGCTTACATA
30967708 AGCAATCTTT
Statistics
Matches: 209, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
213 209 1.00
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (213 bp):
GTAAATTAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTATCAATTTATTATT
AATAAAATTTAAATATAACTTACATAAGCAATCTTTGCTTTTAAACTAATCTTCCACTGAATTAT
GGGTGGAGAGGTATATATGTTACTGATTTGACAACAAAATATGTTTAAATATTATTAATAAAATT
TAAATATAGCTTACATAC
Found at i:30972167 original size:41 final size:42
Alignment explanation
Indices: 30972113--30972276 Score: 135
Period size: 41 Copynumber: 4.0 Consensus size: 42
30972103 AGTGGCGTTT
*
30972113 TTAAACAAGCGCCGCTAAATGACACAG-T-ATTACCGGCGCTT-
1 TTAAA-AAACGCCGCTAAATGAC-CAGATCATTACCGGCGCTTA
* **
30972154 TTCCAAAAACGCCGCT-AATGACCAGATCATTAGTGGCGCTTA
1 TT-AAAAAACGCCGCTAAATGACCAGATCATTACCGGCGCTTA
* * *
30972196 TTAAAAAACGCCGCTAAA-GGCCAGAGCATTAGCGGCGCTTA
1 TTAAAAAACGCCGCTAAATGACCAGATCATTACCGGCGCTTA
* * * * *
30972237 -TAAGAAAATGCCGCTAAA-GGCTAGAGCATTAGCGGCGCTT
1 TTAA-AAAACGCCGCTAAATGACCAGATCATTACCGGCGCTT
30972277 TACGAAAATC
Statistics
Matches: 107, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
39 3 0.03
40 10 0.09
41 88 0.82
42 6 0.06
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.21
Consensus pattern (42 bp):
TTAAAAAACGCCGCTAAATGACCAGATCATTACCGGCGCTTA
Found at i:30972232 original size:82 final size:82
Alignment explanation
Indices: 30972058--30972235 Score: 189
Period size: 82 Copynumber: 2.2 Consensus size: 82
30972048 AGATTTTATT
** * * *
30972058 ATTAGCGGCGCTTTTTGGAAAAGCGCCGCTAAAAGAACGAACAATAGTGGCGTTTTTAAACAAGC
1 ATTAGCGGCGC-TTTTCCAAAAACGCCGCTAAAAGAACGAACAATAGTGGCGTTATTAAACAAAC
* *
30972123 GCCGCTAAATGACACAGT
65 GCCGCTAAAGGACACAGC
* * * * *
30972141 ATTACCGGCGCTTTTCCAAAAACGCCGCT-AATGACCAGATCATTAGTGGCGCTTATTAAA-AAA
1 ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAAGAAC-GAACAATAGTGGCG-TTATTAAACAAA
* *
30972204 CGCCGCTAAAGGCCAGAGC
64 CGCCGCTAAAGGACACAGC
30972223 ATTAGCGGCGCTT
1 ATTAGCGGCGCTT
30972236 ATAAGAAAAT
Statistics
Matches: 78, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
81 5 0.06
82 56 0.72
83 17 0.22
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (82 bp):
ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAAGAACGAACAATAGTGGCGTTATTAAACAAACG
CCGCTAAAGGACACAGC
Found at i:30972250 original size:82 final size:83
Alignment explanation
Indices: 30972076--30972276 Score: 185
Period size: 82 Copynumber: 2.4 Consensus size: 83
30972066 CGCTTTTTGG
* * * * * * *
30972076 AAAAGCGCCGCTAAAAGAAC-GAACAATAGTGGCG-TTTTTAAACAAGCGCCGCTAAATGACACA
1 AAAAACGCCGCT-AAAGACCAGAGCATTAGTGGCGCTTATTAAACAAACGCCGCTAAAGGACACA
* * *
30972139 GTATTACCGGCGCTTTTCC
65 GCATTACCGGCGCTTATCA
* * * *
30972158 AAAAACGCCGCTAATGACCAGATCATTAGTGGCGCTTATTAAA-AAACGCCGCTAAAGGCCAGAG
1 AAAAACGCCGCTAAAGACCAGAGCATTAGTGGCGCTTATTAAACAAACGCCGCTAAAGGACACAG
*
30972222 CATTAGCGGCGCTTAT-A
66 CATTACCGGCGCTTATCA
* * * *
30972239 AGAAAATGCCGCTAAAGGCTAGAGCATTAGCGGCGCTT
1 A-AAAACGCCGCTAAAGACCAGAGCATTAGTGGCGCTT
30972277 TACGAAAATC
Statistics
Matches: 96, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
81 6 0.06
82 83 0.86
83 7 0.07
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (83 bp):
AAAAACGCCGCTAAAGACCAGAGCATTAGTGGCGCTTATTAAACAAACGCCGCTAAAGGACACAG
CATTACCGGCGCTTATCA
Found at i:30972295 original size:41 final size:42
Alignment explanation
Indices: 30972158--30972295 Score: 167
Period size: 41 Copynumber: 3.4 Consensus size: 42
30972148 GCGCTTTTCC
* * * * *
30972158 AAAAACGCCGCTAATGACCAGATCATTAGTGGCGCTTATTAA-
1 AAAATCGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTA-TAAG
30972200 AAAA-CGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTATAAG
1 AAAATCGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTATAAG
* *
30972241 AAAAT-GCCGCTAAAGGCTAGAGCATTAGCGGCGCTT-TACG
1 AAAATCGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTATAAG
*
30972281 AAAATCGCCACTAAA
1 AAAATCGCCGCTAAA
30972296 AGTACTGAGA
Statistics
Matches: 86, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
40 11 0.13
41 71 0.83
42 4 0.05
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (42 bp):
AAAATCGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTATAAG
Found at i:30978106 original size:17 final size:17
Alignment explanation
Indices: 30978075--30978127 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
30978065 GGACCCATAT
30978075 GCCCATGTGGGCCCACAC
1 GCCCATGT-GGCCCACAC
*
30978093 GCCCGTGTGGCCCACAC
1 GCCCATGTGGCCCACAC
*
30978110 GCCCATTTGGCCCACAC
1 GCCCATGTGGCCCACAC
30978127 G
1 G
30978128 ACCTGGCCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
17 25 0.78
18 7 0.22
ACGTcount: A:0.15, C:0.45, G:0.26, T:0.13
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:30981860 original size:39 final size:39
Alignment explanation
Indices: 30981785--30981860 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 39
30981775 CATATTGCAT
* * *
30981785 ATATAATCACCTAACATACAAGCATTTATCACAATACCC
1 ATATAATCACATAACATACAAACATATATCACAATACCC
** * *
30981824 ATATAATCACATAACATTTAAACATATGTCAGAATAC
1 ATATAATCACATAACATACAAACATATATCACAATAC
30981861 TCGAAAACAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 30 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (39 bp):
ATATAATCACATAACATACAAACATATATCACAATACCC
Found at i:30982029 original size:66 final size:67
Alignment explanation
Indices: 30981916--30982067 Score: 207
Period size: 66 Copynumber: 2.3 Consensus size: 67
30981906 ATAAACACAT
* * * * * * *
30981916 ATCACAATACACATATGTTCATAATTTAGGATAATTTGCATAACAACCACATACTTATTTGGGCA
1 ATCACATTACACATATATACAT-ATTTAAGATAATTTGCATAACAACCACATACTCATTTAGACA
30981981 TAC
65 TAC
*
30981984 ATCACATTACACATATATACAT-TTTAAGATAATTTGCATAGCAACCACATACTCATTTAGACAT
1 ATCACATTACACATATATACATATTTAAGATAATTTGCATAACAACCACATACTCATTTAGACAT
*
30982048 TC
66 AC
30982050 ATCACATTACACATATAT
1 ATCACATTACACATATAT
30982068 CACAATACAC
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
66 56 0.75
68 19 0.25
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.33
Consensus pattern (67 bp):
ATCACATTACACATATATACATATTTAAGATAATTTGCATAACAACCACATACTCATTTAGACAT
AC
Found at i:30989566 original size:85 final size:86
Alignment explanation
Indices: 30989420--30989634 Score: 263
Period size: 85 Copynumber: 2.5 Consensus size: 86
30989410 AGTGTATTGT
* * * *
30989420 GGTAAACTGCTGTACAAACAGGTTGTAGTTTAAACTGCCAGATCAAAAATAGTACATAGCAAAGC
1 GGTAAACTGCTGTACAAATAAGTTGTAG-TTAAACTGCCAGATCAAAAATAATACACAGCAAAGC
*
30989485 TGACGTACATGT-G-AAAGTAC
65 TGACGTACAAGTGGTAAAGTAC
* *
30989505 GGTAAACTGCTGTACAAATAAGTTGTAGTTAAACTGCCAGATCAGATAATAATACGCAGCAAAGC
1 GGTAAACTGCTGTACAAATAAGTTGTAGTTAAACTGCCAGATCA-AAAATAATACACAGCAAAGC
* *
30989570 TGATGTACAAGTGGTATAGTAC
65 TGACGTACAAGTGGTAAAGTAC
** ** **
30989592 GGTAAACCACTGTACTGATAAGTTACAGTTAAACTGCCAGATC
1 GGTAAACTGCTGTACAAATAAGTTGTAGTTAAACTGCCAGATC
30989635 TGATCAGAAT
Statistics
Matches: 112, Mismatches: 15, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
84 16 0.14
85 52 0.46
86 1 0.01
87 43 0.38
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.25
Consensus pattern (86 bp):
GGTAAACTGCTGTACAAATAAGTTGTAGTTAAACTGCCAGATCAAAAATAATACACAGCAAAGCT
GACGTACAAGTGGTAAAGTAC
Found at i:30990860 original size:6 final size:6
Alignment explanation
Indices: 30990849--30990884 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
30990839 AGAATGAGCC
30990849 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
30990885 GATTAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:30991404 original size:23 final size:23
Alignment explanation
Indices: 30991378--30991425 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
30991368 CATATAAACA
*
30991378 AACATGTTCATGAATGTTAAATG
1 AACATGTTCATGAATGCTAAATG
*
30991401 AACATGTTCGTGAATGCTAAATG
1 AACATGTTCATGAATGCTAAATG
30991424 AA
1 AA
30991426 TCGAGCCCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (23 bp):
AACATGTTCATGAATGCTAAATG
Found at i:30994779 original size:50 final size:51
Alignment explanation
Indices: 30994684--30994779 Score: 124
Period size: 50 Copynumber: 1.9 Consensus size: 51
30994674 AAAGGAAAGG
*
30994684 AATGGTAAGTGTTCAAAATGAACTATGTCATGTATTTATGAAAATGATTGA
1 AATGGTAAGTGTTCAAAATGAACTATGTCATATATTTATGAAAATGATTGA
* * * *
30994735 AATGGTAAGT-TTCCAAATGAAAGTATGT-TTATATTTATGGAAATG
1 AATGGTAAGTGTTCAAAATG-AACTATGTCATATATTTATGAAAATG
30994780 TGAATGACTC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
50 22 0.56
51 17 0.44
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.36
Consensus pattern (51 bp):
AATGGTAAGTGTTCAAAATGAACTATGTCATATATTTATGAAAATGATTGA
Found at i:31000453 original size:40 final size:40
Alignment explanation
Indices: 31000388--31000598 Score: 257
Period size: 40 Copynumber: 5.3 Consensus size: 40
31000378 TCTTCGGAAT
* * * *
31000388 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* * * * *
31000427 TTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
* *
31000467 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
*
31000507 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* *
31000547 TTAACCCGGATAAAATCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
31000587 TTAGCCCGGATA
1 TTAGCCCGGATA
31000599 TCATTCAAAT
Statistics
Matches: 151, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 5 0.03
40 142 0.94
41 4 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
Found at i:31011764 original size:27 final size:27
Alignment explanation
Indices: 31011721--31011914 Score: 151
Period size: 27 Copynumber: 7.2 Consensus size: 27
31011711 AAAAGGTTGT
* *
31011721 TAAAATGATCG-ATTACCCCCGAAGGG
1 TAAAATTATCGAAATACCCCCGAAGGG
* * *
31011747 TAAAGTTA-CTGATATACCTCCGAAGGG
1 TAAAATTATC-GAAATACCCCCGAAGGG
* * *
31011774 TAAAATTATCGAAATACCCCCAAATGA
1 TAAAATTATCGAAATACCCCCGAAGGG
* * * * *
31011801 TAAAATTACCAAAATACTCTCGAAGGA
1 TAAAATTATCGAAATACCCCCGAAGGG
* * *
31011828 TAAAATTATCAAAATA-TCCCAAAGGG
1 TAAAATTATCGAAATACCCCCGAAGGG
* ***
31011854 TAAAATTACCGAAATACCCTTAAAGGG
1 TAAAATTATCGAAATACCCCCGAAGGG
* *
31011881 TAAAAATTACCGAAATACCCTCGAAGGG
1 T-AAAATTATCGAAATACCCCCGAAGGG
31011909 TAAAAT
1 TAAAAT
31011915 GACTGTTATG
Statistics
Matches: 135, Mismatches: 28, Indels: 9
0.78 0.16 0.05
Matches are distributed among these distances:
25 1 0.01
26 28 0.21
27 80 0.59
28 26 0.19
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.22
Consensus pattern (27 bp):
TAAAATTATCGAAATACCCCCGAAGGG
Found at i:31011893 original size:28 final size:27
Alignment explanation
Indices: 31011742--31011914 Score: 161
Period size: 27 Copynumber: 6.4 Consensus size: 27
31011732 ATTACCCCCG
* * * *
31011742 AAGGGTAAAGTTACTGATATA-CCTCCG
1 AAGGGTAAAATTACCGAAATACCCT-CA
* *
31011769 AAGGGTAAAATTATCGAAATACCCCCA
1 AAGGGTAAAATTACCGAAATACCCTCA
* * * * *
31011796 AATGATAAAATTACCAAAATACTCTCG
1 AAGGGTAAAATTACCGAAATACCCTCA
* * * *
31011823 AAGGATAAAATTATCAAAATATCC-CA
1 AAGGGTAAAATTACCGAAATACCCTCA
*
31011849 AAGGGTAAAATTACCGAAATACCCTTA
1 AAGGGTAAAATTACCGAAATACCCTCA
*
31011876 AAGGGTAAAAATTACCGAAATACCCTCG
1 AAGGGT-AAAATTACCGAAATACCCTCA
31011904 AAGGGTAAAAT
1 AAGGGTAAAAT
31011915 GACTGTTATG
Statistics
Matches: 118, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
26 21 0.18
27 70 0.59
28 27 0.23
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.22
Consensus pattern (27 bp):
AAGGGTAAAATTACCGAAATACCCTCA
Found at i:31012607 original size:17 final size:17
Alignment explanation
Indices: 31012585--31012625 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
31012575 CGTTAGACGG
31012585 TTCGGAGCTGCGTGGGA
1 TTCGGAGCTGCGTGGGA
31012602 TTCGGAGCTGCGTGGGA
1 TTCGGAGCTGCGTGGGA
*
31012619 CTCGGAG
1 TTCGGAG
31012626 AGGGCCACAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.12, C:0.20, G:0.46, T:0.22
Consensus pattern (17 bp):
TTCGGAGCTGCGTGGGA
Found at i:31017021 original size:19 final size:20
Alignment explanation
Indices: 31016973--31017022 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
31016963 AGCTAAACAC
31016973 AACTAAAATCAATAATAAAATA
1 AACTAAAA--AATAATAAAATA
*
31016995 AA-TGAAAAATAATAAAA-A
1 AACTAAAAAATAATAAAATA
31017013 AACTAAAAAA
1 AACTAAAAAA
31017023 GTGCAAAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 3 0.12
19 16 0.64
21 4 0.16
22 2 0.08
ACGTcount: A:0.74, C:0.06, G:0.02, T:0.18
Consensus pattern (20 bp):
AACTAAAAAATAATAAAATA
Found at i:31022150 original size:27 final size:27
Alignment explanation
Indices: 31022094--31022151 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
31022084 AGAGCATATG
* *
31022094 TGGGTCAAAACCCACTACAAAATTATT
1 TGGGTCAAAACCCACTACAAAATCAAT
*
31022121 TGGGTCACAACCCA-TAACAAAATCAAT
1 TGGGTCAAAACCCACT-ACAAAATCAAT
31022148 TGGG
1 TGGG
31022152 CCTAGCCCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (27 bp):
TGGGTCAAAACCCACTACAAAATCAAT
Found at i:31022770 original size:27 final size:27
Alignment explanation
Indices: 31022740--31022827 Score: 83
Period size: 27 Copynumber: 3.3 Consensus size: 27
31022730 GGGATTTCGA
31022740 TAATTTTTCAAACTGAGGGTATTTTAG
1 TAATTTTTCAAACTGAGGGTATTTTAG
*
31022767 TAATTTTGT-AAACT-AGGGGTACTTTAG
1 TAATTTT-TCAAACTGA-GGGTATTTTAG
* * * *
31022794 TAATTTTAC-AAGTCGAGGGTATTTCAA
1 TAATTTTTCAAACT-GAGGGTATTTTAG
31022821 TAATTTT
1 TAATTTT
31022828 ATAAATCAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
26 4 0.08
27 44 0.88
28 2 0.04
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (27 bp):
TAATTTTTCAAACTGAGGGTATTTTAG
Found at i:31024495 original size:3 final size:3
Alignment explanation
Indices: 31024487--31024524 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
31024477 GTTAAAATCT
* *
31024487 TTA TTA TTA TTG TTG TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
31024525 TCAATTTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:31027415 original size:27 final size:27
Alignment explanation
Indices: 31027385--31027463 Score: 99
Period size: 27 Copynumber: 2.9 Consensus size: 27
31027375 GCTGACCGAT
*
31027385 TTACCCCCACAAGGTAACATGACTGAA
1 TTACCCCCACAAGGTAAAATGACTGAA
*
31027412 TTACCCCCAC-AGGATAAAATGAAC-AAA
1 TTACCCCCACAAGG-TAAAATG-ACTGAA
*
31027439 TTACCCCCACAGGGTAAAATGACTG
1 TTACCCCCACAAGGTAAAATGACTG
31027464 TTATACCCCT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
26 5 0.11
27 35 0.80
28 4 0.09
ACGTcount: A:0.39, C:0.28, G:0.15, T:0.18
Consensus pattern (27 bp):
TTACCCCCACAAGGTAAAATGACTGAA
Found at i:31027470 original size:27 final size:26
Alignment explanation
Indices: 31027386--31027472 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 26
31027376 CTGACCGATT
* * *
31027386 TACCCCCACAAGGTAACATGACTGAA
1 TACCCCCACAGGGTAAAATGACTGTA
* **
31027412 TTACCCCCACAGGATAAAATGAAC-AAA
1 -TACCCCCACAGGGTAAAATG-ACTGTA
31027439 TTACCCCCACAGGGTAAAATGACTGTTA
1 -TACCCCCACAGGGTAAAATGACTG-TA
31027467 TACCCC
1 TACCCC
31027473 TAGGAGATGA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.04
27 45 0.90
28 3 0.06
ACGTcount: A:0.38, C:0.30, G:0.14, T:0.18
Consensus pattern (26 bp):
TACCCCCACAGGGTAAAATGACTGTA
Found at i:31029022 original size:24 final size:24
Alignment explanation
Indices: 31028981--31029049 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
31028971 CAAATGAAAA
*
31028981 AATAATAATATAGT-ATAACTTTTA-
1 AATAATAATACA-TAATAA-TTTTAG
*
31029005 AGTAATAATACATAATAATTTTAG
1 AATAATAATACATAATAATTTTAG
* *
31029029 AATAATAATACACAATGATTT
1 AATAATAATACATAATAATTT
31029050 CGAAAATATG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
23 6 0.16
24 32 0.84
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.38
Consensus pattern (24 bp):
AATAATAATACATAATAATTTTAG
Found at i:31032606 original size:6 final size:6
Alignment explanation
Indices: 31032595--31032632 Score: 67
Period size: 6 Copynumber: 6.2 Consensus size: 6
31032585 AAGCATGTTA
31032595 TATCTG TATCTG TATCTG TATCTG TATTCTG TATCTG T
1 TATCTG TATCTG TATCTG TATCTG TA-TCTG TATCTG T
31032633 TTTTGGGGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.53
Consensus pattern (6 bp):
TATCTG
Found at i:31032853 original size:21 final size:21
Alignment explanation
Indices: 31032829--31032869 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
31032819 ATGGTAGGAT
31032829 TCTGTATATT-TGATCTGCATA
1 TCTGTA-ATTGTGATCTGCATA
*
31032850 TCTGTAATTGTTATCTGCAT
1 TCTGTAATTGTGATCTGCAT
31032870 CTAAAATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.49
Consensus pattern (21 bp):
TCTGTAATTGTGATCTGCATA
Found at i:31036314 original size:193 final size:193
Alignment explanation
Indices: 31035999--31036484 Score: 532
Period size: 195 Copynumber: 2.5 Consensus size: 193
31035989 ATGTCGTTTT
* * * * *
31035999 TAATATTGCACGTGTTTTGCAAAGAACAATCTTATAATTTATGTAATTTATGGGGTTCAAATATA
1 TAATATTACACGTGTTTTGCAAAGATCAATATTATAATTTATTTAATTTAT-GGATTCAAATATA
* * * ** * *
31036064 AATTATTGT-GTTCATTCATTCATATGCAATTCTTTACGTTACACGTACTTGTGAAGATTGATCA
65 AATTATTGTCG-TCATTCATTCATATGTAGTTATCAACATTACACGTACTTGTGAAGATCGATCA
* * * *
31036128 GATAGTGGATTTGA-TTTT-GTGTTAAAATAAAAACTATAGTATTCATTTATTCTTATGCAGTTC
129 GATAATGGATTTGATTTTTAGAGTTAAAATAAAAACCATAGTATTCATTTATTATTATGCAGTT-
31036191 C
193 C
* ** *
31036192 TAATATTACATGTGTTTTGCAAAGATGGATATTATAATTTATTTAATTTACGAGATTCAAATATA
1 TAATATTACACGTGTTTTGCAAAGATCAATATTATAATTTATTTAATTTATG-GATTCAAATATA
* * * **
31036257 AATTATTATCGTCATGT-ATTCATATGTAGTTATCAATATTACTCGTGTTTGTGAAGATCGATCA
65 AATTATTGTCGTCAT-TCATTCATATGTAGTTATCAACATTACACGTACTTGTGAAGATCGATCA
* * * * * * * *
31036321 TATAATTGATTTTATTTTTAGAGTTCAAATACAAACCATCGTCTTCATTTATTATTATGTAGTTC
129 GATAATGGATTTGATTTTTAGAGTTAAAATAAAAACCATAGTATTCATTTATTATTATGCAGTTC
* * *
31036386 TCAATATTACACGTGTTTTGTC-AATATCAATAATATAGTTTATTTAATTTATTGGATTCAAATA
1 T-AATATTACACGTGTTTTG-CAAAGATCAATATTATAATTTATTTAATTTA-TGGATTCAAATA
*
31036450 TAAATTATTGTCGTCATTCATTCATACGTAGTTAT
63 TAAATTATTGTCGTCATTCATTCATATGTAGTTAT
31036485 TTAAATTACA
Statistics
Matches: 242, Mismatches: 42, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
192 1 0.00
193 112 0.46
194 9 0.04
195 118 0.49
196 2 0.01
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.44
Consensus pattern (193 bp):
TAATATTACACGTGTTTTGCAAAGATCAATATTATAATTTATTTAATTTATGGATTCAAATATAA
ATTATTGTCGTCATTCATTCATATGTAGTTATCAACATTACACGTACTTGTGAAGATCGATCAGA
TAATGGATTTGATTTTTAGAGTTAAAATAAAAACCATAGTATTCATTTATTATTATGCAGTTC
Found at i:31036481 original size:98 final size:97
Alignment explanation
Indices: 31036193--31036484 Score: 297
Period size: 97 Copynumber: 3.0 Consensus size: 97
31036183 TGCAGTTCCT
* * * *
31036193 AATATTACATGTGTTTTG-CAAAGATGGATATTATAATTTATTTAATTTA-CGAGATTCAAATAT
1 AATATTACACGTGTTTTGTC-AAGATCGATAATATAATTTATTTAATTTATTG-GATTCAAATAT
*
31036256 AAATTATTATCGTCATGTATTCATATGTAGTTATC
64 AAATTATTGTCGTCAT-TATTCATATGTAGTTATC
* * * * * * *
31036291 AATATTACTCGTG-TTTGTGAAGATCGATCATATAATTGATTTTATTT-TTAGAGTTCAAATACA
1 AATATTACACGTGTTTTGTCAAGATCGATAATATAATTTATTTAATTTATTGGA-TTCAAATATA
** * * *
31036354 AACCATCGTCTTCATTTATT-ATTATGTAGTTCTC
65 AATTATTGTCGTCA-TTATTCA-TATGTAGTTATC
* * *
31036388 AATATTACACGTGTTTTGTCAATATCAATAATATAGTTTATTTAATTTATTGGATTCAAATATAA
1 AATATTACACGTGTTTTGTCAAGATCGATAATATAATTTATTTAATTTATTGGATTCAAATATAA
*
31036453 ATTATTGTCGTCATTCATTCATACGTAGTTAT
66 ATTATTGTCGTCATT-ATTCATATGTAGTTAT
31036485 TTAAATTACA
Statistics
Matches: 152, Mismatches: 33, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
96 3 0.02
97 74 0.49
98 70 0.46
99 5 0.03
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.45
Consensus pattern (97 bp):
AATATTACACGTGTTTTGTCAAGATCGATAATATAATTTATTTAATTTATTGGATTCAAATATAA
ATTATTGTCGTCATTATTCATATGTAGTTATC
Found at i:31036500 original size:98 final size:97
Alignment explanation
Indices: 31036193--31036500 Score: 297
Period size: 98 Copynumber: 3.2 Consensus size: 97
31036183 TGCAGTTCCT
* * *
31036193 AATATTACATGTGTTTTG-CAAAGATGGATATTATAATTTATTTAATTTA-CGAGATTCAAATAT
1 AATATTACATGTGTTTTGTC-AAGATCGATAATATAATTTATTTAATTTATTG-GATTCAAATAT
*
31036256 AAATTATTATCGTCATGTATTCATATGTAGTTATC
64 AAATTATTGTCGTCAT-TATTCATATGTAGTTATC
* * * * * *
31036291 AATATTAC-TCGTG-TTTGTGAAGATCGATCATATAATTGATTTTATTT-TTAGAGTTCAAATAC
1 AATATTACAT-GTGTTTTGTCAAGATCGATAATATAATTTATTTAATTTATTGGA-TTCAAATAT
** * * *
31036353 AAACCATCGTCTTCATTTATT-ATTATGTAGTTCTC
64 AAATTATTGTCGTCA-TTATTCA-TATGTAGTTATC
* * * *
31036388 AATATTACACGTGTTTTGTCAATATCAATAATATAGTTTATTTAATTTATTGGATTCAAATATAA
1 AATATTACATGTGTTTTGTCAAGATCGATAATATAATTTATTTAATTTATTGGATTCAAATATAA
* *
31036453 ATTATTGTCGTCATTCATTCATACGTAGTTATTT
66 ATTATTGTCGTCATT-ATTCATATGTAGTTA-TC
31036487 AA-ATTACATGTGTT
1 AATATTACATGTGTT
31036501 CATGCAAACA
Statistics
Matches: 165, Mismatches: 33, Indels: 24
0.74 0.15 0.11
Matches are distributed among these distances:
96 3 0.02
97 74 0.45
98 80 0.48
99 8 0.05
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (97 bp):
AATATTACATGTGTTTTGTCAAGATCGATAATATAATTTATTTAATTTATTGGATTCAAATATAA
ATTATTGTCGTCATTATTCATATGTAGTTATC
Found at i:31037432 original size:24 final size:23
Alignment explanation
Indices: 31037392--31037437 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
31037382 CAATTATTTG
*
31037392 TAATGTTATTTGGTAACTTTTTT
1 TAATGTTATTTGGTAACATTTTT
**
31037415 TAATAGTTATTTTTTAACATTTT
1 TAAT-GTTATTTGGTAACATTTT
31037438 CTTTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (23 bp):
TAATGTTATTTGGTAACATTTTT
Found at i:31037525 original size:26 final size:26
Alignment explanation
Indices: 31037496--31037545 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
31037486 TGAGTTGTCA
*
31037496 AAAATCACATATATGGTTATGAATCT
1 AAAATCAAATATATGGTTATGAATCT
*
31037522 AAAATCAAATATTTGGTTATGAAT
1 AAAATCAAATATATGGTTATGAAT
31037546 ATGTCCAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (26 bp):
AAAATCAAATATATGGTTATGAATCT
Found at i:31041669 original size:18 final size:18
Alignment explanation
Indices: 31041646--31041680 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
31041636 TTAACTTTCA
*
31041646 TCAAATCAACCCTAAAAT
1 TCAAATCAACACTAAAAT
31041664 TCAAATCAACACTAAAA
1 TCAAATCAACACTAAAA
31041681 AGTTAGCATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.20
Consensus pattern (18 bp):
TCAAATCAACACTAAAAT
Found at i:31045940 original size:27 final size:27
Alignment explanation
Indices: 31045910--31046239 Score: 354
Period size: 27 Copynumber: 12.2 Consensus size: 27
31045900 AGAGGTTAGT
* **
31045910 AAATGACAGAAATACCCTTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
31045937 AAATGACTGAAATACCCCCATAGGATA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
31045964 ACATGACCGAAATACACTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
31045991 AAATGACCGAAATACCCCCGTAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
** **
31046018 AAATGATTGAAATACCCTAATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
31046045 AAATGACCGAAATACCCTCGTAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * ** *
31046072 GAATAACTGAAATACCATCATAGGGTT
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
31046099 GAATGATCAAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
31046126 GAATGACCGAAATACCCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
31046153 GAATGACCGAAATACCCCCATATGATA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
31046180 GAATGACCGTAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
31046207 AAATGATCGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
31046234 AAATGA
1 AAATGA
31046240 ATGTTATACC
Statistics
Matches: 254, Mismatches: 49, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 254 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:31045994 original size:54 final size:54
Alignment explanation
Indices: 31045911--31046239 Score: 390
Period size: 54 Copynumber: 6.1 Consensus size: 54
31045901 GAGGTTAGTA
* * * *
31045911 AATGACAGAAATACCCTTATAGGGTAAAATGACTGAAATACCCCCATAGGATA-
1 AATGACCGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAG
* * *
31045964 ACATGACCGAAATACACTCATAGGGTAAAATGACCGAAATACCCCCGTAGGGTAA
1 A-ATGACCGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAG
** * * *
31046019 AATGATTGAAATACCCTAATAGGGTAAAATGACCGAAATACCCTCGTAGGGTAG
1 AATGACCGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAG
* * * ** * *
31046073 AATAACTGAAATACCATCATAGGGTTGAATGATCAAAATACCCCCATAGGGTAG
1 AATGACCGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAG
* * * * *
31046127 AATGACCGAAATACCCCCATAAGGTAGAATGACCGAAATACCCCCATATGATAG
1 AATGACCGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAG
* * * *
31046181 AATGACCGTAATACCCTCATAGGGTAAAATGATCGAAATACCCCTATAGGGTAA
1 AATGACCGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAG
31046235 AATGA
1 AATGA
31046240 ATGTTATACC
Statistics
Matches: 233, Mismatches: 41, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
53 1 0.00
54 231 0.99
55 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (54 bp):
AATGACCGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAG
Found at i:31046248 original size:27 final size:27
Alignment explanation
Indices: 31046194--31046274 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
31046184 GACCGTAATA
**
31046194 CCCTCATAGGGTAAAATG-ATCGAAATAC
1 CCCT-ATAGGGTAAAATGAAT-GTTATAC
31046222 CCCTATAGGGTAAAATGAATGTTATAC
1 CCCTATAGGGTAAAATGAATGTTATAC
*
31046249 CCC--TAGGAGATAAAATGACTGTTATA
1 CCCTATAGG-G-TAAAATGAATGTTATA
31046275 GCCTTATGTT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
25 4 0.09
26 1 0.02
27 36 0.77
28 6 0.13
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (27 bp):
CCCTATAGGGTAAAATGAATGTTATAC
Found at i:31049730 original size:27 final size:27
Alignment explanation
Indices: 31049691--31050201 Score: 439
Period size: 27 Copynumber: 19.1 Consensus size: 27
31049681 AAAGGTCAAT
* * *
31049691 AAATGCCCGAAATACCCCCATAGAGTA
1 AAATGACCAAAATACCCCCATAGGGTA
* *
31049718 AAATGATCAAAATACCCCCATATGGTA
1 AAATGACCAAAATACCCCCATAGGGTA
* * * **
31049745 AACTGACCGAGAT-CCCCTGTAGGGTA
1 AAATGACCAAAATACCCCCATAGGGTA
* *
31049771 AAATGACCAAAATACCCCTATAGGATA
1 AAATGACCAAAATACCCCCATAGGGTA
** *
31049798 AAATGACTGAAATACCCTCGA-AGGGTA
1 AAATGACCAAAATACCC-CCATAGGGTA
* *
31049825 AAATGACCAAAATA-CCCCGTAAGGTA
1 AAATGACCAAAATACCCCCATAGGGTA
* * *
31049851 AAATGA-TAGACATACCCCTATAGGGTA
1 AAATGACCA-AAATACCCCCATAGGGTA
* * *
31049878 AATTGATCGAAATA-CCCCATAGGGTA
1 AAATGACCAAAATACCCCCATAGGGTA
* ** *
31049904 GAATGACTGAAATA-CCCTATAGGGTA
1 AAATGACCAAAATACCCCCATAGGGTA
* * *
31049930 GAATGACCGAAATACCCTCATAGGGTA
1 AAATGACCAAAATACCCCCATAGGGTA
* *
31049957 GAATGA-CAGAAATACCCCCATAGCGTA
1 AAATGACCA-AAATACCCCCATAGGGTA
* * *
31049984 AAATGA-TAGAAACACCCTCATAGGGTA
1 AAATGACCA-AAATACCCCCATAGGGTA
* * *
31050011 GAATGACCAAAATA-CCCCATAAGATA
1 AAATGACCAAAATACCCCCATAGGGTA
* * * * *
31050037 GAATGATCGAAATACCCTCATAAGGTA
1 AAATGACCAAAATACCCCCATAGGGTA
*
31050064 AAATGACCAAAATACCCCTATAGGGTA
1 AAATGACCAAAATACCCCCATAGGGTA
* * **
31050091 AAATGACGAAAATA-ACCCATATAGTA
1 AAATGACCAAAATACCCCCATAGGGTA
*
31050117 AAATGACCAAAATACCCCCATAAGGTA
1 AAATGACCAAAATACCCCCATAGGGTA
* * *
31050144 GAATGACCGAAATACCCTCATAGGGTA
1 AAATGACCAAAATACCCCCATAGGGTA
*
31050171 AAATGACAAAAATACCCCCATAGGGTA
1 AAATGACCAAAATACCCCCATAGGGTA
31050198 AAAT
1 AAAT
31050202 ACATCGATTT
Statistics
Matches: 388, Mismatches: 85, Indels: 22
0.78 0.17 0.04
Matches are distributed among these distances:
25 2 0.01
26 125 0.32
27 258 0.66
28 3 0.01
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.19
Consensus pattern (27 bp):
AAATGACCAAAATACCCCCATAGGGTA
Found at i:31049825 original size:80 final size:79
Alignment explanation
Indices: 31049691--31050201 Score: 425
Period size: 80 Copynumber: 6.4 Consensus size: 79
31049681 AAAGGTCAAT
* * * * * * *
31049691 AAATGCCCGAAATACCCCCATAGAGTAAAATGA-TCAAAATACCCCCATATGGTAAACTGACCGA
1 AAATGACCAAAATACCCCTATAGGGTAAAATGACT-GAAATA-CCCCATAGGGTAAAATGACCGA
* *
31049755 GATCCCCTGTAGGGTA
64 AATCCCCTATAGGGTA
* *
31049771 AAATGACCAAAATACCCCTATAGGATAAAATGACTGAAATACCCTCGA-AGGGTAAAATGACCAA
1 AAATGACCAAAATACCCCTATAGGGTAAAATGACTGAAATACCC-C-ATAGGGTAAAATGACCGA
31049835 AATACCCCGTA-A-GGTA
64 AAT-CCCC-TATAGGGTA
* * * * *
31049851 AAATGA-TAGACATACCCCTATAGGGTAAATTGA-TCGAAATACCCCATAGGGTAGAATGACTGA
1 AAATGACCA-AAATACCCCTATAGGGTAAAATGACT-GAAATACCCCATAGGGTAAAATGACCGA
*
31049914 AATACCCTATAGGGTA
64 AATCCCCTATAGGGTA
* * * * * **
31049930 GAATGACCGAAATA-CCCTCATAGGGTAGAATGACAGAAATACCCCCATAGCGTAAAATGATAGA
1 AAATGACCAAAATACCCCT-ATAGGGTAAAATGACTGAAATA-CCCCATAGGGTAAAATGACCGA
31049994 AA-CACCCTCATAGGGTA
64 AATC-CCCT-ATAGGGTA
* * * * * *
31050011 GAATGACCAAAATACCCC-ATAAGATAGAATGA-TCGAAATACCCTCATAAGGTAAAATGACCAA
1 AAATGACCAAAATACCCCTATAGGGTAAAATGACT-GAAATACCC-CATAGGGTAAAATGACCGA
31050074 AATACCCCTATAGGGTA
64 AAT-CCCCTATAGGGTA
* * ** * *
31050091 AAATGACGAAAATAACCCATATA--GTAAAATGACCAAAATACCCCCATAAGGTAGAATGACCGA
1 AAATGACCAAAAT-ACCCCTATAGGGTAAAATGACTGAAATA-CCCCATAGGGTAAAATGACCGA
*
31050154 AATACCCTCATAGGGTA
64 AATCCCCT-ATAGGGTA
* *
31050171 AAATGACAAAAATACCCCCATAGGGTAAAAT
1 AAATGACCAAAATACCCCTATAGGGTAAAAT
31050202 ACATCGATTT
Statistics
Matches: 350, Mismatches: 53, Indels: 55
0.76 0.12 0.12
Matches are distributed among these distances:
77 2 0.01
78 9 0.03
79 67 0.19
80 218 0.62
81 46 0.13
82 8 0.02
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.19
Consensus pattern (79 bp):
AAATGACCAAAATACCCCTATAGGGTAAAATGACTGAAATACCCCATAGGGTAAAATGACCGAAA
TCCCCTATAGGGTA
Found at i:31049876 original size:53 final size:54
Alignment explanation
Indices: 31049691--31050201 Score: 426
Period size: 53 Copynumber: 9.6 Consensus size: 54
31049681 AAAGGTCAAT
* * * *
31049691 AAATG-CCCGAAATACCCCCATAGAGTAAAATGATCAAAATACCCCCATATGGTA
1 AAATGACCAGAAATACCCCCATAGGGTAAAATGACCAAAATA-CCCCATAAGGTA
* * **
31049745 AACTGACC-GAGAT-CCCCTGTAGGGTAAAATGACCAAAATACCCC-TATAGGATA
1 AAATGACCAGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCATA-AGG-TA
* * *
31049798 AAATGA-CTGAAATACCCTCGA-AGGGTAAAATGACCAAAATACCCCGTAAGGTA
1 AAATGACCAGAAATACCC-CCATAGGGTAAAATGACCAAAATACCCCATAAGGTA
* * * * * * *
31049851 AAATGA-TAGACATACCCCTATAGGGTAAATTGATCGAAATACCCCATAGGGTA
1 AAATGACCAGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCATAAGGTA
* * * * * *
31049904 GAATGA-CTGAAATA-CCCTATAGGGTAGAATGACCGAAATACCCTCATAGGGTA
1 AAATGACCAGAAATACCCCCATAGGGTAAAATGACCAAAATACCC-CATAAGGTA
* * * * *
31049957 GAATGA-CAGAAATACCCCCATAGCGTAAAATGA-TAGAAACACCCTCATAGGGTA
1 AAATGACCAGAAATACCCCCATAGGGTAAAATGACCA-AAATACCC-CATAAGGTA
* * * * * *
31050011 GAATGACCA-AAATA-CCCCATAAGATAGAATGATCGAAATACCCTCATAAGGTA
1 AAATGACCAGAAATACCCCCATAGGGTAAAATGACCAAAATACCC-CATAAGGTA
* * *
31050064 AAATGACCA-AAATACCCCTATAGGGTAAAATGACGAAAATAACCCATATA-GTA
1 AAATGACCAGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCATA-AGGTA
* * * *
31050117 AAATGACCA-AAATACCCCCATAAGGTAGAATGACCGAAATACCCTCATAGGGTA
1 AAATGACCAGAAATACCCCCATAGGGTAAAATGACCAAAATACCC-CATAAGGTA
*
31050171 AAATGA-CAAAAATACCCCCATAGGGTAAAAT
1 AAATGACCAGAAATACCCCCATAGGGTAAAAT
31050202 ACATCGATTT
Statistics
Matches: 379, Mismatches: 60, Indels: 36
0.80 0.13 0.08
Matches are distributed among these distances:
51 2 0.01
52 35 0.09
53 199 0.53
54 136 0.36
55 7 0.02
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.19
Consensus pattern (54 bp):
AAATGACCAGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCATAAGGTA
Found at i:31052210 original size:97 final size:97
Alignment explanation
Indices: 31052109--31052321 Score: 223
Period size: 97 Copynumber: 2.2 Consensus size: 97
31052099 ATCTACAAAT
* * * *
31052109 TTCAAATATAAATTATTGTCGTCATTTATTCATATGTAGTTCTAAATATTACACATGTTTGTG-A
1 TTCAAATAAAAATTATTATCGTCATTTATTCATATGCAGTTCTAAATATCACACATGTTT-TGAA
*
31052173 AGATCAATCGTATAATTGATTTAATTTTTA-GA
65 AGATCAATCGTATAATTGATTTAATTTATAGGA
* ** * * * * * *
31052205 GTTCAAATACAAACCATCATCTTCATTTATTCTTCTGCAGTTCTTAATATCACACGTGTTTTGCA
1 -TTCAAATAAAAATTATTATCGTCATTTATTCATATGCAGTTCTAAATATCACACATGTTTTG-A
* * * *
31052270 AATATCAATCTTATAGTTTATTTAATTTATAGGA
64 AAGATCAATCGTATAATTGATTTAATTTATAGGA
31052304 TTCAAATAAAAATTATTA
1 TTCAAATAAAAATTATTA
31052322 ACATCATGAA
Statistics
Matches: 92, Mismatches: 21, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
96 2 0.02
97 48 0.52
98 40 0.43
99 2 0.02
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (97 bp):
TTCAAATAAAAATTATTATCGTCATTTATTCATATGCAGTTCTAAATATCACACATGTTTTGAAA
GATCAATCGTATAATTGATTTAATTTATAGGA
Found at i:31054042 original size:24 final size:23
Alignment explanation
Indices: 31054011--31054153 Score: 83
Period size: 26 Copynumber: 5.9 Consensus size: 23
31054001 AAAACAAAAT
* * *
31054011 AATATATAGAACAATTTGAGGTA
1 AATATATAAAACAATTTAAAGTA
31054034 AATAGTATAAAACAATTTAAAGTA
1 AATA-TATAAAACAATTTAAAGTA
* *
31054058 AATAATACGTAAAACAAATTAAAATA
1 AAT-ATA--TAAAACAATTTAAAGTA
* * *
31054084 AATAATATACCAAGCAATTCAAAATA
1 AAT-ATATA--AAACAATTTAAAGTA
* *
31054110 AATAACATATAAGACAATTTAAAAT-
1 AAT---ATATAAAACAATTTAAAGTA
*
31054135 AATATATAAAA-AGTTTAAA
1 AATATATAAAACAATTTAAA
31054154 ACAAATAATA
Statistics
Matches: 98, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
21 7 0.07
22 7 0.07
23 4 0.04
24 23 0.23
25 4 0.04
26 48 0.49
28 5 0.05
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.27
Consensus pattern (23 bp):
AATATATAAAACAATTTAAAGTA
Found at i:31054159 original size:25 final size:24
Alignment explanation
Indices: 31054130--31054214 Score: 89
Period size: 25 Copynumber: 3.3 Consensus size: 24
31054120 AAGACAATTT
*
31054130 AAAATAATATATAAAAAGTTTAAA
1 AAAATAATATAAAAAAAGTTTAAA
31054154 ACAAATAATATGTAAAAAGAAGTTTCAAA
1 A-AAATAATA--TAAAAA-AAGTTT-AAA
* *
31054183 TAAATAATATACAAAACAGTTTAAA
1 AAAATAATATA-AAAAAAGTTTAAA
31054208 AAAATAA
1 AAAATAA
31054215 ATGATATGTA
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
24 1 0.02
25 17 0.33
26 7 0.14
27 9 0.18
28 14 0.27
29 3 0.06
ACGTcount: A:0.64, C:0.05, G:0.06, T:0.26
Consensus pattern (24 bp):
AAAATAATATAAAAAAAGTTTAAA
Found at i:31054198 original size:28 final size:28
Alignment explanation
Indices: 31054145--31054214 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 28
31054135 AATATATAAA
**
31054145 AAGTTTAAAACAAATAATATGTAAAAAG
1 AAGTTTAAAACAAATAATATACAAAAAG
* *
31054173 AAGTTTCAAATAAATAATATAC-AAAA-
1 AAGTTTAAAACAAATAATATACAAAAAG
*
31054199 CAGTTTAAAA-AAATAA
1 AAGTTTAAAACAAATAA
31054215 ATGATATGTA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
25 6 0.17
26 8 0.22
27 4 0.11
28 18 0.50
ACGTcount: A:0.61, C:0.06, G:0.07, T:0.26
Consensus pattern (28 bp):
AAGTTTAAAACAAATAATATACAAAAAG
Found at i:31054251 original size:25 final size:26
Alignment explanation
Indices: 31054034--31054283 Score: 136
Period size: 26 Copynumber: 9.4 Consensus size: 26
31054024 ATTTGAGGTA
* *
31054034 AATAGTATAAAACAATTTAAAGTAAAT
1 AATA-TATAAAACAATTCAAAATAAAT
**
31054061 AATACGTAAAACAAATT-AAAATAAAT
1 AATATATAAAAC-AATTCAAAATAAAT
** *
31054087 AATATACCAAGCAATTCAAAATAAAT
1 AATATATAAAACAATTCAAAATAAAT
* * *
31054113 AACATATAAGACAATT---TA-AAAT
1 AATATATAAAACAATTCAAAATAAAT
* * *
31054135 AATATATAAAA-AGTTTAAAACAAAT
1 AATATATAAAACAATTCAAAATAAAT
* *
31054160 AATATGTAAAAAGAAGTTTC-AAATAAAT
1 AATATAT-AAAACAA--TTCAAAATAAAT
* * *
31054188 AATATACAAAACAGTTTAAAAAAATAAAT
1 AATATATAAAACA-ATT--CAAAATAAAT
*
31054217 GATATGTATAAAAACAATTCAAAATAAAT
1 -A-ATATAT-AAAACAATTCAAAATAAAT
** * *
31054246 AATATATATGACAGTTTAAAAATAAAT
1 AATATATAAAACA-ATTCAAAATAAAT
31054273 AATATATAAAA
1 AATATATAAAA
31054284 AAATGGATAA
Statistics
Matches: 167, Mismatches: 38, Indels: 36
0.69 0.16 0.15
Matches are distributed among these distances:
21 3 0.02
22 13 0.08
23 1 0.01
24 1 0.01
25 14 0.08
26 51 0.31
27 39 0.23
28 13 0.08
29 19 0.11
30 1 0.01
31 6 0.04
32 6 0.04
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (26 bp):
AATATATAAAACAATTCAAAATAAAT
Found at i:31054255 original size:33 final size:33
Alignment explanation
Indices: 31054190--31054255 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
31054180 AAATAAATAA
* *
31054190 TATACAAAACAGTTTAAAAAAATAAATGATATG
1 TATACAAAACAATTCAAAAAAATAAATGATATG
31054223 TATA-AAAACAATTCAAAATAAATAATAT-ATATG
1 TATACAAAACAATTCAAAA-AAATAA-ATGATATG
31054256 ACAGTTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 12 0.41
33 15 0.52
34 2 0.07
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (33 bp):
TATACAAAACAATTCAAAAAAATAAATGATATG
Found at i:31054364 original size:25 final size:24
Alignment explanation
Indices: 31054336--31054424 Score: 88
Period size: 29 Copynumber: 3.3 Consensus size: 24
31054326 GGAAAACTTG
31054336 AAATAAATAATAATAAAACAATTTA
1 AAATAAATAATAATAAAA-AATTTA
31054361 AAATAAATAATACATAAGAAAAAGGTTTA
1 AAATAAATAATA-AT-A-AAAAA--TTTA
*
31054390 AAATAAATAAATGAATAAAAAATTCAA
1 AAATAAAT-AAT-AATAAAAAATT-TA
31054417 AAATAAAT
1 AAATAAAT
31054425 TGAAATCAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 14
0.79 0.01 0.20
Matches are distributed among these distances:
25 12 0.22
26 4 0.07
27 12 0.22
28 8 0.15
29 13 0.24
30 5 0.09
31 1 0.02
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.25
Consensus pattern (24 bp):
AAATAAATAATAATAAAAAATTTA
Found at i:31055284 original size:17 final size:16
Alignment explanation
Indices: 31055244--31055294 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
31055234 GAGACGCAAG
* * *
31055244 AAAGAAAAAAATAATA
1 AAAGAAAAGAGTAAAA
31055260 AAAGAAAAGAGTAGAAA
1 AAAGAAAAGAGTA-AAA
*
31055277 AAATAAAAGAGTAAAA
1 AAAGAAAAGAGTAAAA
31055293 AA
1 AA
31055295 GACACCTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 16 0.53
17 14 0.47
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (16 bp):
AAAGAAAAGAGTAAAA
Found at i:31055715 original size:18 final size:18
Alignment explanation
Indices: 31055687--31055731 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
31055677 CATTTGTTTC
*
31055687 CAAAACATTATTC-ATTT
1 CAAAACGTTATTCAATTT
*
31055704 ACAAATCGTTATTCAATTT
1 -CAAAACGTTATTCAATTT
31055723 CAAAACGTT
1 CAAAACGTT
31055732 TTCTTATTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (18 bp):
CAAAACGTTATTCAATTT
Found at i:31056703 original size:17 final size:18
Alignment explanation
Indices: 31056672--31056705 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
31056662 CATGATGTTT
31056672 GCCCGTGTGGGCCCACAC
1 GCCCGTGTGGGCCCACAC
31056690 GCCCGTGT-GGCCCACA
1 GCCCGTGTGGGCCCACA
31056706 TGACCCAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.12, C:0.44, G:0.32, T:0.12
Consensus pattern (18 bp):
GCCCGTGTGGGCCCACAC
Found at i:31062006 original size:25 final size:25
Alignment explanation
Indices: 31061978--31062025 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
31061968 TATAGTCTAT
* *
31061978 CTATAGTAGTCTCAGTATATACTGC
1 CTATAGCAGTCTCAGGATATACTGC
*
31062003 CTATAGCAGTTTCAGGATATACT
1 CTATAGCAGTCTCAGGATATACT
31062026 ATCAAAGACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (25 bp):
CTATAGCAGTCTCAGGATATACTGC
Found at i:31062345 original size:19 final size:18
Alignment explanation
Indices: 31062323--31062378 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
31062313 TCTTATGTTA
31062323 ATTT-CAAATCGTGTCATTC
1 ATTTACAAATCGT-T-ATTC
* * *
31062342 ATTTCCAAAACATTATTC
1 ATTTACAAATCGTTATTC
31062360 ATTTACAAATCGTTATTC
1 ATTTACAAATCGTTATTC
31062378 A
1 A
31062379 ATTTCAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 20 0.65
19 5 0.16
20 6 0.19
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (18 bp):
ATTTACAAATCGTTATTC
Found at i:31062388 original size:19 final size:18
Alignment explanation
Indices: 31062323--31062388 Score: 57
Period size: 18 Copynumber: 3.6 Consensus size: 18
31062313 TCTTATGTTA
31062323 ATTTC-AAATCGTGTCATTC
1 ATTTCAAAATCGT-T-ATTC
*
31062342 ATTTCCAAAA-CATTATTC
1 ATTT-CAAAATCGTTATTC
31062360 ATTT-ACAAATCGTTATTC
1 ATTTCA-AAATCGTTATTC
31062378 AATTTCAAAAT
1 -ATTTCAAAAT
31062389 GTTTTCTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
16 1 0.03
17 3 0.08
18 15 0.38
19 13 0.33
20 4 0.10
21 3 0.08
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.41
Consensus pattern (18 bp):
ATTTCAAAATCGTTATTC
Found at i:31065523 original size:29 final size:29
Alignment explanation
Indices: 31065439--31065527 Score: 90
Period size: 31 Copynumber: 3.0 Consensus size: 29
31065429 GACTGAATCA
* * *
31065439 AAATTAAAGTTTCATGTTTACATATGAACC
1 AAATTAAAGTTTCATGTATAAAT-TGCACC
* *
31065469 ACAATCAAAGTTTCATATATATAATTGCACC
1 A-AATTAAAGTTTCATGTATA-AATTGCACC
31065500 AAATTAAAG-TTCATGTATCAAATTGCAC
1 AAATTAAAGTTTCATGTAT-AAATTGCAC
31065528 ATTAAAATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
29 16 0.33
30 9 0.18
31 22 0.45
32 2 0.04
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.34
Consensus pattern (29 bp):
AAATTAAAGTTTCATGTATAAATTGCACC
Found at i:31076210 original size:35 final size:35
Alignment explanation
Indices: 31076164--31076233 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
31076154 ACCTCTAGAG
31076164 TTAGACCGTATCCATGATGTGTTTCACGTCTCGAT
1 TTAGACCGTATCCATGATGTGTTTCACGTCTCGAT
31076199 TTAGACCGTATCCATGATGTGTTTCACGTCTCGAT
1 TTAGACCGTATCCATGATGTGTTTCACGTCTCGAT
31076234 GTTGAGGCGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (35 bp):
TTAGACCGTATCCATGATGTGTTTCACGTCTCGAT
Found at i:31086907 original size:50 final size:51
Alignment explanation
Indices: 31086782--31087023 Score: 179
Period size: 50 Copynumber: 4.7 Consensus size: 51
31086772 AATAATAACA
* * ** *
31086782 TGCCAAAGCCATGTCCCAGACATTGTCTTACATGGGATGTT-TCTTATAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTCATAT-CGG
* * * * *
31086831 TGCCGATGTCATATCCCAGATATGGTCTTACATGGGA-GTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTCATATCGG
* ** * * * *
31086881 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGA-CATCGCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTCATATCGG
* * * * * *
31086931 TGCCAACGCAATGTCCCAGACATGGTCTTATATGGGACCTATCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-TC-TCATATC---GG
*
31086987 TGCCAATGCCATGTCCCAGACATGGTCTTACACGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
31087024 TCTCATCACC
Statistics
Matches: 151, Mismatches: 33, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
48 4 0.03
49 36 0.24
50 70 0.46
51 1 0.01
52 2 0.01
53 5 0.03
56 33 0.22
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.27
Consensus pattern (51 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTCATATCGG
Found at i:31101509 original size:14 final size:15
Alignment explanation
Indices: 31101476--31101510 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
31101466 ATTAATTAAT
*
31101476 TTTTTTAATGTTCAA
1 TTTTTTAATATTCAA
*
31101491 TTTTTTAATATTCGA
1 TTTTTTAATATTCAA
31101506 TTTTT
1 TTTTT
31101511 CTTTTGCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.66
Consensus pattern (15 bp):
TTTTTTAATATTCAA
Found at i:31107669 original size:38 final size:38
Alignment explanation
Indices: 31107618--31107693 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
31107608 CCCCAAAAGA
*
31107618 CCAGCGTAAAATTGGTTTTACTTTCCCATACGGTACAT
1 CCAGCGTAAAATTGCTTTTACTTTCCCATACGGTACAT
31107656 CCAGCGTAAAATTGCTTTTACTTTCCCATACGGTACAT
1 CCAGCGTAAAATTGCTTTTACTTTCCCATACGGTACAT
31107694 TTGCTTTTAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.34
Consensus pattern (38 bp):
CCAGCGTAAAATTGCTTTTACTTTCCCATACGGTACAT
Found at i:31110025 original size:18 final size:17
Alignment explanation
Indices: 31109982--31110028 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
31109972 TAAATTTGAA
*
31109982 ATTTTATTTTTATTTTA
1 ATTTTATTTTTATTTTT
31109999 ATTTCTATTTTTAATGTTTT
1 ATTT-TATTTTT-AT-TTTT
31110019 -TTTTATTTTT
1 ATTTTATTTTT
31110029 TTACGTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 4 0.15
18 14 0.54
19 5 0.19
20 3 0.12
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (17 bp):
ATTTTATTTTTATTTTT
Found at i:31114043 original size:13 final size:13
Alignment explanation
Indices: 31114015--31114064 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 13
31114005 CGTTATATTG
31114015 ATTTCTTAACTTTTT
1 ATTT-TTAA-TTTTT
31114030 ATTTTTAATTTTT
1 ATTTTTAATTTTT
31114043 ATTTTATCAA--TTT
1 ATTTT-T-AATTTTT
31114056 ATTTTTAAT
1 ATTTTTAAT
31114065 CTTAAACCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
11 2 0.06
12 1 0.03
13 18 0.56
14 5 0.16
15 6 0.19
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTTTTAATTTTT
Found at i:31119192 original size:28 final size:28
Alignment explanation
Indices: 31119141--31119194 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
31119131 TAGTAACAGT
* *
31119141 ACAGTGTGGGCCTTAGCGCAATACAGAA
1 ACAGTGTGGGCCTAAGCCCAATACAGAA
*
31119169 ACAGTGTGGGCCTAAGCCCGATACAG
1 ACAGTGTGGGCCTAAGCCCAATACAG
31119195 TATCAATATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.30, C:0.24, G:0.30, T:0.17
Consensus pattern (28 bp):
ACAGTGTGGGCCTAAGCCCAATACAGAA
Found at i:31119421 original size:31 final size:31
Alignment explanation
Indices: 31119386--31119523 Score: 118
Period size: 32 Copynumber: 4.4 Consensus size: 31
31119376 GAATGGCTAC
* *
31119386 AAGCCATAAGTACAGTAATATGATTGGCACA
1 AAGCCATCAGTACAGTAATATGATCGGCACA
* * *
31119417 AAGCCATTAGTAGCAGTGATAT-ATCGGTACA
1 AAGCCATCAGTA-CAGTAATATGATCGGCACA
* *
31119448 CAA-CCATCAGTAACGGTAATATGACCGGCACA
1 -AAGCCATCAGT-ACAGTAATATGATCGGCACA
* * ** *
31119480 AAGCTATCAGCAACAGTAATATGATCGATAAA
1 AAGCCATCAG-TACAGTAATATGATCGGCACA
31119512 AAGCCATCAGTA
1 AAGCCATCAGTA
31119524 GCATCGCAGC
Statistics
Matches: 83, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
31 35 0.42
32 48 0.58
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.21
Consensus pattern (31 bp):
AAGCCATCAGTACAGTAATATGATCGGCACA
Found at i:31119543 original size:26 final size:26
Alignment explanation
Indices: 31119514--31119570 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
31119504 TCGATAAAAA
* * *
31119514 GCCATCAGTAGCATCGCAGCAAAGCT
1 GCCAACAGCAGCACCGCAGCAAAGCT
* *
31119540 GCCAACAGCAGTACCGCAGTAAAGCT
1 GCCAACAGCAGCACCGCAGCAAAGCT
31119566 GCCAA
1 GCCAA
31119571 TAATAATATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.33, C:0.32, G:0.23, T:0.12
Consensus pattern (26 bp):
GCCAACAGCAGCACCGCAGCAAAGCT
Found at i:31119715 original size:23 final size:23
Alignment explanation
Indices: 31119668--31119730 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
31119658 CCATGCTCAG
* * *
31119668 AATCAGTCATTCAAATCACAGACA
1 AATCAGTCATT-TAACCACAAACA
31119692 AATCAGTCATTTAACCACAAACA
1 AATCAGTCATTTAACCACAAACA
*
31119715 AATCAATCATTTAACC
1 AATCAGTCATTTAACC
31119731 TCGAGGGGCA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
23 24 0.69
24 11 0.31
ACGTcount: A:0.46, C:0.25, G:0.05, T:0.24
Consensus pattern (23 bp):
AATCAGTCATTTAACCACAAACA
Found at i:31119744 original size:27 final size:26
Alignment explanation
Indices: 31119714--31119766 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
31119704 AACCACAAAC
*
31119714 AAATCAATCATTTAACCTCGAGGGGCA
1 AAAT-AATCATTTAACCTCCAGGGGCA
* *
31119741 AAATAGTCATTTATCCTCCAGGGGCA
1 AAATAATCATTTAACCTCCAGGGGCA
31119767 TTATAGTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.25
Consensus pattern (26 bp):
AAATAATCATTTAACCTCCAGGGGCA
Found at i:31119750 original size:26 final size:26
Alignment explanation
Indices: 31119721--31119778 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
31119711 AACAAATCAA
*
31119721 TCATTTAACCTCGAGGGGCAAAATAG
1 TCATTTAACCTCCAGGGGCAAAATAG
* **
31119747 TCATTTATCCTCCAGGGGCATTATAG
1 TCATTTAACCTCCAGGGGCAAAATAG
31119773 TCATTT
1 TCATTT
31119779 TACATTATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (26 bp):
TCATTTAACCTCCAGGGGCAAAATAG
Found at i:31119790 original size:27 final size:27
Alignment explanation
Indices: 31119746--31120240 Score: 514
Period size: 27 Copynumber: 18.4 Consensus size: 27
31119736 GGGCAAAATA
* * * *
31119746 GTCA-TTTATCCTCCAGGGGCATTATA
1 GTCATTTTACCCTACAGGGGTATTATG
** *
31119772 GTCATTTTACATTATAGGGGTATTATG
1 GTCATTTTACCCTACAGGGGTATTATG
*
31119799 GTCATTTTACCCTACATGGGTATTATG
1 GTCATTTTACCCTACAGGGGTATTATG
* * *
31119826 GTCATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTATG
* * *
31119853 GCCATTTTACCTTACAGGGGTATTACGG
1 GTCATTTTACCCTACAGGGGTATTA-TG
* * * *
31119881 GT-ATTTTACCCTATAAGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTATG
*
31119907 GTCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTATG
* * **
31119934 GTTATTTTACCCTACAAGGGTATTACA
1 GTCATTTTACCCTACAGGGGTATTATG
*
31119961 GTCAATTTACCCTACAGGGGTATTATG
1 GTCATTTTACCCTACAGGGGTATTATG
* * * * *
31119988 ATCATTTTACCTTACAAGGGTCTTACG
1 GTCATTTTACCCTACAGGGGTATTATG
* * *
31120015 GTCATTTTACCCTACAAGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTATG
* * *
31120042 GTCATTTTACCCTACAAGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTATG
* *
31120069 GTCA-TTTACCCTATAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTATG
*
31120095 GTCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTATG
* *
31120122 GTCATTTTACCCTATAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTATG
*
31120149 GTCATTTTACCCTA-TGAGGGTATTATG
1 GTCATTTTACCCTACAG-GGGTATTATG
* *
31120176 GTTATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTATG
* *
31120203 GTCATTTTATCCTA-TGCGGGTATTATG
1 GTCATTTTACCCTACAG-GGGTATTATG
*
31120230 GTCATTATACC
1 GTCATTTTACC
31120241 TATTTTAGGG
Statistics
Matches: 399, Mismatches: 63, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
26 32 0.08
27 364 0.91
28 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTATG
Found at i:31119832 original size:54 final size:54
Alignment explanation
Indices: 31119746--31120240 Score: 577
Period size: 54 Copynumber: 9.2 Consensus size: 54
31119736 GGGCAAAATA
* * * ** ** *
31119746 GTCA-TTTATCCTCCAGGGGCATTATAGTCATTTTACATTATAGGGGTATTATG
1 GTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATAGGGGTATTACG
* * *
31119799 GTCATTTTACCCTACATGGGTATTATGGTCATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATAGGGGTATTACG
* * * *
31119853 GCCATTTTACCTTACAGGGGTATTACGGGT-ATTTTACCCTATAAGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTAC-GGTCATTTTACCCTATAGGGGTATTACG
* * * *
31119907 GTCATTTTACCCTACAGGGGTATTACGGTTATTTTACCCTACAAGGGTATTACA
1 GTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATAGGGGTATTACG
* * * * * * *
31119961 GTCAATTTACCCTACAGGGGTATTATGATCATTTTACCTTACAAGGGTCTTACG
1 GTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATAGGGGTATTACG
* * * * *
31120015 GTCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTACAAGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATAGGGGTATTACG
* *
31120069 GTCA-TTTACCCTATAGGGGTATTACGGTCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATAGGGGTATTACG
* *
31120122 GTCATTTTACCCTATAGGGGTATTACGGTCATTTTACCCTAT-GAGGGTATTATG
1 GTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATAG-GGGTATTACG
* * *
31120176 GTTATTTTACCCTACAGGGGTATTACGGTCATTTTATCCTAT-GCGGGTATTATG
1 GTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATAG-GGGTATTACG
*
31120230 GTCATTATACC
1 GTCATTTTACC
31120241 TATTTTAGGG
Statistics
Matches: 390, Mismatches: 47, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
53 56 0.14
54 331 0.85
55 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (54 bp):
GTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCCTATAGGGGTATTACG
Found at i:31125136 original size:14 final size:14
Alignment explanation
Indices: 31125117--31125143 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31125107 CTAAAGAAAA
31125117 TAACTAGAATAAAC
1 TAACTAGAATAAAC
31125131 TAACTAGAATAAA
1 TAACTAGAATAAA
31125144 TAGCAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
TAACTAGAATAAAC
Found at i:31128002 original size:24 final size:24
Alignment explanation
Indices: 31127940--31127991 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
31127930 TTTCTAGAAG
* *
31127940 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGTATTTATTAGCATAATAT
31127964 ATTTAGTATTTATTAGCATAATAT
1 ATTTAGTATTTATTAGCATAATAT
31127988 ATTT
1 ATTT
31127992 GACTTTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.52
Consensus pattern (24 bp):
ATTTAGTATTTATTAGCATAATAT
Found at i:31139064 original size:13 final size:13
Alignment explanation
Indices: 31139046--31139070 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31139036 AGCCCAATCC
31139046 AAAATAAACCAAA
1 AAAATAAACCAAA
31139059 AAAATAAACCAA
1 AAAATAAACCAA
31139071 TCCAAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.16, G:0.00, T:0.08
Consensus pattern (13 bp):
AAAATAAACCAAA
Found at i:31140109 original size:6 final size:6
Alignment explanation
Indices: 31140098--31140133 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
31140088 CTGTCGTGAT
31140098 TTTTAG TTTTAG ACTTTTAG TTTTAG TTTTAG TTTT
1 TTTTAG TTTTAG --TTTTAG TTTTAG TTTTAG TTTT
31140134 GGAATTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 22 0.79
8 6 0.21
ACGTcount: A:0.17, C:0.03, G:0.14, T:0.67
Consensus pattern (6 bp):
TTTTAG
Found at i:31140117 original size:14 final size:12
Alignment explanation
Indices: 31140098--31140133 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 12
31140088 CTGTCGTGAT
31140098 TTTTAGTTTTAG
1 TTTTAGTTTTAG
31140110 ACTTTTAGTTTTAG
1 --TTTTAGTTTTAG
31140124 TTTTAGTTTT
1 TTTTAGTTTT
31140134 GGAATTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 10 0.45
14 12 0.55
ACGTcount: A:0.17, C:0.03, G:0.14, T:0.67
Consensus pattern (12 bp):
TTTTAGTTTTAG
Found at i:31145249 original size:19 final size:18
Alignment explanation
Indices: 31145217--31145252 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
31145207 AACCCACAGA
*
31145217 ATTTTTTTATTTTTTCAT
1 ATTTTTTTACTTTTTCAT
31145235 ATTTTTTATACTTTTTCA
1 ATTTTTT-TACTTTTTCA
31145253 ATCACTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTTTTTACTTTTTCAT
Found at i:31148680 original size:20 final size:20
Alignment explanation
Indices: 31148655--31148700 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
31148645 TTATGAAATT
31148655 AAAATTATCAAAAAATT-ATA
1 AAAATTATC-AAAAATTAATA
*
31148675 AAAATTATCAATAATTAATA
1 AAAATTATCAAAAATTAATA
31148695 AAAATT
1 AAAATT
31148701 TCTAACAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATTATCAAAAATTAATA
Found at i:31153572 original size:15 final size:15
Alignment explanation
Indices: 31153552--31153587 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
31153542 TCCCAAAAAC
*
31153552 CACATTTCTAGTAAT
1 CACATTTCAAGTAAT
31153567 CACATTTCAAGTAAT
1 CACATTTCAAGTAAT
31153582 CACATT
1 CACATT
31153588 CCATTGGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.36
Consensus pattern (15 bp):
CACATTTCAAGTAAT
Found at i:31155122 original size:27 final size:27
Alignment explanation
Indices: 31155086--31155160 Score: 69
Period size: 27 Copynumber: 2.8 Consensus size: 27
31155076 TTACGGAGTT
* * *
31155086 CGCCGCAAAGTCATTCCTTTCATATTC
1 CGCCACAAAGGCATTCCTTTCATATTA
* * * *
31155113 CGCCATAAAGGCTTTTCTTTCATGTTA
1 CGCCACAAAGGCATTCCTTTCATATTA
* *
31155140 CGCCACAAAGGCTTTTCTTTC
1 CGCCACAAAGGCATTCCTTTC
31155161 TTGACATGTT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.21, C:0.29, G:0.13, T:0.36
Consensus pattern (27 bp):
CGCCACAAAGGCATTCCTTTCATATTA
Found at i:31157068 original size:2 final size:2
Alignment explanation
Indices: 31157061--31157091 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
31157051 AATAGGAGGG
31157061 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
31157092 CAGCAAGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:31162825 original size:32 final size:32
Alignment explanation
Indices: 31162789--31162859 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
31162779 TAATTTGATT
*
31162789 AATTTTACTTTTTTTTGTTATTCGAATTTTAA
1 AATTTCACTTTTTTTTGTTATTCGAATTTTAA
*
31162821 AATTTCAGTTTTTTTTGTTATTCGAATTTTAA
1 AATTTCACTTTTTTTTGTTATTCGAATTTTAA
31162853 AATTTCA
1 AATTTCA
31162860 GTCTTGATTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.59
Consensus pattern (32 bp):
AATTTCACTTTTTTTTGTTATTCGAATTTTAA
Found at i:31162860 original size:32 final size:32
Alignment explanation
Indices: 31162797--31162861 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
31162787 TTAATTTTAC
31162797 TTTTTTTTGTTATTCGAATTTTAAAATTTCAG
1 TTTTTTTTGTTATTCGAATTTTAAAATTTCAG
31162829 TTTTTTTTGTTATTCGAATTTTAAAATTTCAG
1 TTTTTTTTGTTATTCGAATTTTAAAATTTCAG
31162861 T
1 T
31162862 CTTGATTCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.25, C:0.06, G:0.09, T:0.60
Consensus pattern (32 bp):
TTTTTTTTGTTATTCGAATTTTAAAATTTCAG
Found at i:31168944 original size:50 final size:51
Alignment explanation
Indices: 31168841--31169082 Score: 217
Period size: 50 Copynumber: 4.7 Consensus size: 51
31168831 GGTAAAGAGA
* *
31168841 TCCCATGTAAGACCATGTCTGGGACATGGCATTGACATCATTGAGATTATGAGAAG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA-T-AG---ATGAGAAG
* *
31168897 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCA-AGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCATAGATGAGAAG
* * * * *
31168947 TCCTC-CGTAAGACCATGTCTGGGACATGACATGGGCACCA-ATATGAGAAC
1 TCC-CATGTAAGACCATGTCTGGGACATGGCATTGGCACCATAGATGAGAAG
* * * * ** *
31168997 TCCCATGTAAGACCATATCTGGGATATGACATTGGTAGTATAG--GA-AACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCATAGATGAGAA-G
* *
31169046 TCCTATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
31169083 TATTATTATC
Statistics
Matches: 156, Mismatches: 26, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
48 2 0.01
49 34 0.22
50 79 0.51
51 2 0.01
53 2 0.01
56 37 0.24
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (51 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCATAGATGAGAAG
Found at i:31177341 original size:123 final size:124
Alignment explanation
Indices: 31177135--31177374 Score: 347
Period size: 123 Copynumber: 1.9 Consensus size: 124
31177125 TCTCTATCAT
* * *
31177135 CTTTAAAAATTTATGAAAGCAATGAGTTAAAACTTCCCATTCGTTATTAAAGATGCTTAATGCAC
1 CTTTAAAAATTTATAAAAGCAATGAGTTAAAACTCCCCATTCATTATTAAAGATGCTTAATGCAC
*
31177200 GTGTTAATGAAGAAGTTAAATAAGCTTCATTTATTAATGTTGCATTGAATGTTTATAAC
66 GTGTTAATGAAGAAGTTAAATAAGCTTCATTTATTAATGATGCATTGAATGTTTATAAC
* * * * * **
31177259 CTTTAAACATTTATAAAAGTAATGAGTTGAATC-CCCCATTCATTATTAAAGATGTTTAATGTTC
1 CTTTAAAAATTTATAAAAGCAATGAGTTAAAACTCCCCATTCATTATTAAAGATGCTTAATGCAC
* * *
31177323 GTGTTAATGAAGCAGTTAAATAAGCTTCATTTATTTATGATGTATTGAATGT
66 GTGTTAATGAAGAAGTTAAATAAGCTTCATTTATTAATGATGCATTGAATGT
31177375 CAATGGCTTA
Statistics
Matches: 102, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
123 74 0.73
124 28 0.27
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.39
Consensus pattern (124 bp):
CTTTAAAAATTTATAAAAGCAATGAGTTAAAACTCCCCATTCATTATTAAAGATGCTTAATGCAC
GTGTTAATGAAGAAGTTAAATAAGCTTCATTTATTAATGATGCATTGAATGTTTATAAC
Found at i:31187569 original size:59 final size:61
Alignment explanation
Indices: 31187499--31187615 Score: 159
Period size: 62 Copynumber: 1.9 Consensus size: 61
31187489 ATCATTTTAA
* * * *
31187499 TATTAAATTAATATAATACT-TA-T-CGAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAATTAATAGAATA-TGTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
31187558 TATTAAATTAATAGAATATGTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAATTAATAGAATATGTA-CTACAAGATAAACATTAAATTAAATTTAATATTAA
31187616 GATAATCATA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
58 1 0.02
59 19 0.38
61 1 0.02
62 29 0.58
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (61 bp):
TATTAAATTAATAGAATATGTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:31187702 original size:37 final size:37
Alignment explanation
Indices: 31187623--31187702 Score: 85
Period size: 37 Copynumber: 2.2 Consensus size: 37
31187613 TAAGATAATC
* *
31187623 ATATT-AATATTAAATTAATAAAATACTATTAAGATA
1 ATATTAAATATTAAATTAATAAAATACTACTAAAATA
*
31187659 AGTATTAAAT-TTAATTTAATATTAAAT-CTACTAAAATA
1 A-TATTAAATATTAAATTAATA--AAATACTACTAAAATA
31187697 ATATTA
1 ATATTA
31187703 TTTTTGGAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
36 1 0.03
37 19 0.51
38 13 0.35
39 4 0.11
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.41
Consensus pattern (37 bp):
ATATTAAATATTAAATTAATAAAATACTACTAAAATA
Found at i:31188736 original size:31 final size:31
Alignment explanation
Indices: 31188694--31188752 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
31188684 TTTCAAAATT
* *
31188694 TTAAATAAAAACTTTCGAATAGTTTAGTAAC
1 TTAAATAAAAACTTTCAAATAATTTAGTAAC
*
31188725 TTAAATGAAAACTTTCAAATAATTTAGT
1 TTAAATAAAAACTTTCAAATAATTTAGT
31188753 GATCATTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.37
Consensus pattern (31 bp):
TTAAATAAAAACTTTCAAATAATTTAGTAAC
Found at i:31190960 original size:20 final size:20
Alignment explanation
Indices: 31190937--31191002 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
31190927 GAAGTACAAA
31190937 CAGGGGCACGTATGTACATT
1 CAGGGGCACGTATGTACATT
* * **
31190957 CAGGGGTACCG-AAGTACAAA
1 CAGGGGCA-CGTATGTACATT
**
31190977 CAGGGGCACGTATGTGGATT
1 CAGGGGCACGTATGTACATT
31190997 CAGGGG
1 CAGGGG
31191003 TACCGAAGTA
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 2 0.06
20 30 0.88
21 2 0.06
ACGTcount: A:0.27, C:0.18, G:0.36, T:0.18
Consensus pattern (20 bp):
CAGGGGCACGTATGTACATT
Found at i:31190975 original size:40 final size:40
Alignment explanation
Indices: 31190888--31191012 Score: 180
Period size: 40 Copynumber: 3.1 Consensus size: 40
31190878 AAGGATTATT
* * * * *
31190888 GAAGTACAAACAGAGGCACATATATACACTCA-GGGTACT
1 GAAGTACAAACAGGGGCACGTATGTACATTCAGGGGTACC
31190927 GAAGTACAAACAGGGGCACGTATGTACATTCAGGGGTACC
1 GAAGTACAAACAGGGGCACGTATGTACATTCAGGGGTACC
**
31190967 GAAGTACAAACAGGGGCACGTATGTGGATTCAGGGGTACC
1 GAAGTACAAACAGGGGCACGTATGTACATTCAGGGGTACC
31191007 GAAGTA
1 GAAGTA
31191013 AATTCACACA
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 28 0.36
40 50 0.64
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.18
Consensus pattern (40 bp):
GAAGTACAAACAGGGGCACGTATGTACATTCAGGGGTACC
Found at i:31191017 original size:20 final size:20
Alignment explanation
Indices: 31190954--31191018 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
31190944 ACGTATGTAC
31190954 ATTCAGGGGTACCGAAGTACA
1 ATTCAGGGGTACCGAAGTA-A
* * * **
31190975 A-ACAGGGGCA-CGTATGTGG
1 ATTCAGGGGTACCG-AAGTAA
31190994 ATTCAGGGGTACCGAAGTAA
1 ATTCAGGGGTACCGAAGTAA
31191014 ATTCA
1 ATTCA
31191019 CACATATATA
Statistics
Matches: 31, Mismatches: 10, Indels: 7
0.65 0.21 0.15
Matches are distributed among these distances:
19 3 0.10
20 25 0.81
21 3 0.10
ACGTcount: A:0.32, C:0.17, G:0.31, T:0.20
Consensus pattern (20 bp):
ATTCAGGGGTACCGAAGTAA
Found at i:31194267 original size:25 final size:24
Alignment explanation
Indices: 31194228--31194275 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
31194218 GATTTTAGGC
31194228 CAATGAAAATGTTTTTTCTTTAAA
1 CAATGAAAATGTTTTTTCTTTAAA
31194252 CAATGAAAATGTTTTTTCTTTAAA
1 CAATGAAAATGTTTTTTCTTTAAA
31194276 TGTTTTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (24 bp):
CAATGAAAATGTTTTTTCTTTAAA
Found at i:31204026 original size:10 final size:10
Alignment explanation
Indices: 31204011--31204043 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
31204001 TTACTTATTC
31204011 ATTTATTTTT
1 ATTTATTTTT
31204021 ATTTA-TTTT
1 ATTTATTTTT
*
31204030 AATTATTTTT
1 ATTTATTTTT
31204040 ATTT
1 ATTT
31204044 TTTAAAGAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:31206910 original size:21 final size:23
Alignment explanation
Indices: 31206872--31206915 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
31206862 TAATTTATTT
31206872 TATTTTATGATGTAAAAA-TAAA
1 TATTTTATGATGTAAAAAGTAAA
*
31206894 TATTTTAT-ATTTAAAAAGTAAA
1 TATTTTATGATGTAAAAAGTAAA
31206916 AAAACTTAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (23 bp):
TATTTTATGATGTAAAAAGTAAA
Found at i:31207921 original size:24 final size:24
Alignment explanation
Indices: 31207888--31207933 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
31207878 TCACAAATGA
* * *
31207888 GAAAGGTAAGGCATGTATATATGT
1 GAAAGATAAGGCACGCATATATGT
31207912 GAAAGATAAGGCACGCATATAT
1 GAAAGATAAGGCACGCATATAT
31207934 TTATAAAAGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.41, C:0.09, G:0.26, T:0.24
Consensus pattern (24 bp):
GAAAGATAAGGCACGCATATATGT
Found at i:31211753 original size:10 final size:10
Alignment explanation
Indices: 31211738--31211762 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
31211728 ATCCTGAATT
31211738 TTTTTTTCTC
1 TTTTTTTCTC
31211748 TTTTTTTCTC
1 TTTTTTTCTC
31211758 TTTTT
1 TTTTT
31211763 GCATTAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTTCTC
Found at i:31216434 original size:50 final size:50
Alignment explanation
Indices: 31216367--31216495 Score: 179
Period size: 50 Copynumber: 2.6 Consensus size: 50
31216357 GATGCAAACT
* *
31216367 TTAACTAATATGGGAGTTACATAATGCATGACATAATTTATGATACA-ATC
1 TTAACTAACATGAGAGTTACATAATGCATGACATAATTTATGATACATA-C
* * *
31216417 TTAACTAACATGAGAGTTACATAATGCATGTCATTATTTATGATGCATAC
1 TTAACTAACATGAGAGTTACATAATGCATGACATAATTTATGATACATAC
* *
31216467 GTAACTAACATGAAAGTTACATAATGCAT
1 TTAACTAACATGAGAGTTACATAATGCAT
31216496 AACTTTATTA
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
50 70 0.99
51 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (50 bp):
TTAACTAACATGAGAGTTACATAATGCATGACATAATTTATGATACATAC
Found at i:31220200 original size:22 final size:24
Alignment explanation
Indices: 31220166--31220209 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
31220156 CTTGGACCAA
31220166 GATTTTCAAGA-T-TTGAAATCTT
1 GATTTTCAAGATTCTTGAAATCTT
**
31220188 GATTTTCTCGATTCTTGAAATC
1 GATTTTCAAGATTCTTGAAATC
31220210 GCTCCAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 9 0.50
23 1 0.06
24 8 0.44
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (24 bp):
GATTTTCAAGATTCTTGAAATCTT
Found at i:31224765 original size:20 final size:21
Alignment explanation
Indices: 31224742--31224785 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
31224732 AATGGTTATA
*
31224742 GGTTTGATGTTTGAG-TTTAG
1 GGTTTGAGGTTTGAGATTTAG
*
31224762 GGTTTGGGGTTTGAGATTTAG
1 GGTTTGAGGTTTGAGATTTAG
31224783 GGT
1 GGT
31224786 AAAAAAGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.14, C:0.00, G:0.41, T:0.45
Consensus pattern (21 bp):
GGTTTGAGGTTTGAGATTTAG
Found at i:31224772 original size:27 final size:26
Alignment explanation
Indices: 31224710--31224776 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
31224700 GGGTTACGAA
*
31224710 TTTGGGGTTTAGAGTTTGAGTTAATGG
1 TTTGGGGTTT-GAGTTTGAGTTAAGGG
* *
31224737 TTAT-AGGTTTGATGTTTGAGTTTAGGG
1 TT-TGGGGTTTGA-GTTTGAGTTAAGGG
31224764 TTTGGGGTTTGAG
1 TTTGGGGTTTGAG
31224777 ATTTAGGGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
26 4 0.12
27 28 0.85
28 1 0.03
ACGTcount: A:0.16, C:0.00, G:0.37, T:0.46
Consensus pattern (26 bp):
TTTGGGGTTTGAGTTTGAGTTAAGGG
Found at i:31228890 original size:15 final size:15
Alignment explanation
Indices: 31228870--31228899 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
31228860 TTCACAAAGA
31228870 CAACTTAAAAATAGG
1 CAACTTAAAAATAGG
31228885 CAACTTAAAAATAGG
1 CAACTTAAAAATAGG
31228900 TGGAATGCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.20
Consensus pattern (15 bp):
CAACTTAAAAATAGG
Found at i:31230455 original size:26 final size:27
Alignment explanation
Indices: 31230403--31230465 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
31230393 TTTAAAATAC
* * *
31230403 TTTTAAAATGATTTTTTATTTTTTTTAT
1 TTTTAAAATAATTTTTTA-TATGTTTAT
31230431 TTTTAAAATAATTTTTTA-ATGTTTAT
1 TTTTAAAATAATTTTTTATATGTTTAT
*
31230457 TTTAAAAAT
1 TTTTAAAAT
31230466 GGGCCTGGCC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 14 0.45
28 17 0.55
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (27 bp):
TTTTAAAATAATTTTTTATATGTTTAT
Found at i:31235481 original size:41 final size:41
Alignment explanation
Indices: 31235424--31235640 Score: 335
Period size: 41 Copynumber: 5.3 Consensus size: 41
31235414 AATTTAACAT
* *
31235424 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* *
31235465 ATTCATATCACCGGCACTTAGCCTACTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
31235506 ATTCAGATCACCAGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
31235547 ATTCAGATCACCGGCACTTAGCTTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* * * *
31235588 ATTTAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTA
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
*
31235629 ATTCAAATCACC
1 ATTCAGATCACC
31235641 AATTTCAAAC
Statistics
Matches: 160, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 160 1.00
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
Found at i:31236026 original size:15 final size:17
Alignment explanation
Indices: 31235988--31236028 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
31235978 GAATTTAAAT
31235988 ATATATATATTACCTAC
1 ATATATATATTACCTAC
*
31236005 ATATATATATT-CGTAC
1 ATATATATATTACCTAC
31236021 AT-TATATA
1 ATATATATA
31236029 AACACAACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.26
16 6 0.26
17 11 0.48
ACGTcount: A:0.41, C:0.12, G:0.02, T:0.44
Consensus pattern (17 bp):
ATATATATATTACCTAC
Found at i:31237171 original size:13 final size:13
Alignment explanation
Indices: 31237153--31237177 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31237143 CAATCAAATG
31237153 CACACAAAATAAA
1 CACACAAAATAAA
31237166 CACACAAAATAA
1 CACACAAAATAA
31237178 GATTAAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:31239386 original size:20 final size:20
Alignment explanation
Indices: 31239361--31239400 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
31239351 CGTAAAATAA
*
31239361 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
31239381 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
31239401 AGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:31239390 original size:34 final size:35
Alignment explanation
Indices: 31239346--31239412 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
31239336 CAGTAAAATG
* *
31239346 TTTTCCGTAAAATAATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTAGAAAATATTTTAC
* *
31239380 TTTTCTGTAAAATGATTTACTAGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTAGAAAATATTTT
31239413 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTAGAAAATATTTTAC
Found at i:31242894 original size:41 final size:42
Alignment explanation
Indices: 31242838--31242940 Score: 115
Period size: 41 Copynumber: 2.5 Consensus size: 42
31242828 TGATTCAGTA
* * *
31242838 CACCGGC-TTTAAGCCTGCTAGACTTATAGTTTGAATTG-TTT
1 CACCGGCATTTAAGCCTGCTAGACGTAAAGTCTGAA-TGATTT
31242879 CACCGGCATTT-AGCCTGCTAGACGTAAAGTCTGAATGATTT
1 CACCGGCATTTAAGCCTGCTAGACGTAAAGTCTGAATGATTT
* * *
31242920 CATCGGCA-ATAAGCCTACTAG
1 CACCGGCATTTAAGCCTGCTAG
31242941 GCACTGAGCC
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
40 3 0.06
41 47 0.89
42 3 0.06
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (42 bp):
CACCGGCATTTAAGCCTGCTAGACGTAAAGTCTGAATGATTT
Found at i:31249164 original size:22 final size:22
Alignment explanation
Indices: 31249118--31249175 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
31249108 ACTATTTTTG
* * *
31249118 TTGTTG-TTTACTATTGTTATG
1 TTGTTGTTTTGCTACTGTTATA
31249139 TTGTTGTTTTGCTACTGTTATA
1 TTGTTGTTTTGCTACTGTTATA
31249161 TTGTTGTTTTGCTAC
1 TTGTTGTTTTGCTAC
31249176 CATTTCACTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 6 0.18
22 27 0.82
ACGTcount: A:0.12, C:0.09, G:0.19, T:0.60
Consensus pattern (22 bp):
TTGTTGTTTTGCTACTGTTATA
Found at i:31251732 original size:21 final size:21
Alignment explanation
Indices: 31251693--31251734 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
31251683 GCATCTAGAT
*
31251693 GTGTTCACACTAACAATTAAA
1 GTGTTCACACAAACAATTAAA
31251714 GTGTTCACACAAAGC-ATTAAA
1 GTGTTCACACAAA-CAATTAAA
31251735 ATTCTATCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.26
Consensus pattern (21 bp):
GTGTTCACACAAACAATTAAA
Found at i:31256050 original size:20 final size:20
Alignment explanation
Indices: 31256025--31256069 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
31256015 CTTTGAGCAA
* *
31256025 ATTTG-ACTTGTTTGAAAATT
1 ATTTGAACTTGGTT-AAAATC
31256045 ATTTGAACTTGGTTAAAATC
1 ATTTGAACTTGGTTAAAATC
31256065 ATTTG
1 ATTTG
31256070 CATTTGATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.31, C:0.07, G:0.16, T:0.47
Consensus pattern (20 bp):
ATTTGAACTTGGTTAAAATC
Found at i:31275514 original size:41 final size:41
Alignment explanation
Indices: 31275348--31275503 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
31275338 TTTATCGTTA
* * * *
31275348 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
31275389 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
31275430 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
31275471 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
31275504 AAGAGCCGGT
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 102 0.95
42 2 0.02
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:31275754 original size:33 final size:32
Alignment explanation
Indices: 31275716--31275779 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
31275706 ATAGATATGT
31275716 ATATATTATATATGT-TGCATTCGGCATAGGTGG
1 ATATATT-TATATGTATGCATTC-GCATAGGTGG
*
31275749 ATATATTTATGTGTATGCATTCGCATAGGTG
1 ATATATTTATATGTATGCATTCGCATAGGTG
31275780 AAAATAAGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.27, C:0.09, G:0.23, T:0.41
Consensus pattern (32 bp):
ATATATTTATATGTATGCATTCGCATAGGTGG
Found at i:31281424 original size:13 final size:13
Alignment explanation
Indices: 31281406--31281430 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31281396 TATTTTAATA
31281406 TTATTTTGTGTGT
1 TTATTTTGTGTGT
31281419 TTATTTTGTGTG
1 TTATTTTGTGTG
31281431 CATTCGATGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:31281632 original size:2 final size:2
Alignment explanation
Indices: 31281625--31281649 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
31281615 TGATGGCTAT
31281625 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
31281650 TAATTATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:31283132 original size:41 final size:41
Alignment explanation
Indices: 31282966--31283121 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
31282956 TTTATCGTTA
* * * *
31282966 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
31283007 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
31283048 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
31283089 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
31283122 AAGAGCCGGT
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 102 0.95
42 2 0.02
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:31283394 original size:33 final size:32
Alignment explanation
Indices: 31283338--31283401 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
31283328 AGATATGTAT
31283338 ATATATATATATGTTGCATTCGGCATAGGTGG
1 ATATATATATATGTTGCATTCGGCATAGGTGG
* *
31283370 ATATATTTATGTGTATGCATTCGGCATAGGTG
1 ATATATATATATGT-TGCATTCGGCATAGGTG
31283402 AAAATAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (32 bp):
ATATATATATATGTTGCATTCGGCATAGGTGG
Found at i:31283418 original size:33 final size:33
Alignment explanation
Indices: 31283345--31283418 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
31283335 TATATATATA
* * **
31283345 TATATGT-TGCATTCGGCATAGGTGGATATATT
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
31283377 TATGTGTATGCATTCGGCATAGGTGAAAATAAG
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
31283410 TGTATGTAT
1 TATATGTAT
31283419 CTATGCATTC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (33 bp):
TATATGTATGCATTCGGCATAGGTGAAAATAAG
Found at i:31293873 original size:45 final size:45
Alignment explanation
Indices: 31293790--31293878 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 45
31293780 AGGAGGGATC
*
31293790 AAGGTGAAAACCCAAAAAGGGCGCTTTGAATCCTAAAAAGAAACT
1 AAGGTGAAAACCCAAAAAGGGCGCTTTGAATCCTAAAAACAAACT
** * *
31293835 AAGGTGAAAACCCGCAAAGGGTGCTTTGAGT-CTAAAAAACAAAC
1 AAGGTGAAAACCCAAAAAGGGCGCTTTGAATCCT-AAAAACAAAC
31293879 AAATAAATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
44 2 0.05
45 36 0.95
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.16
Consensus pattern (45 bp):
AAGGTGAAAACCCAAAAAGGGCGCTTTGAATCCTAAAAACAAACT
Found at i:31295180 original size:45 final size:45
Alignment explanation
Indices: 31295126--31295761 Score: 439
Period size: 44 Copynumber: 14.4 Consensus size: 45
31295116 TATCTCTTTA
* * *
31295126 AAGTTGCAGTGGAGCGGATTGAGGATAGCAAGTCTTATCTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTG
* * *
31295171 AGGTTGCAGTGGAGCAGACTGAAGATAGCAAACCTTATC-CACCTG
1 AAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTC-CCTG
* * * * * *
31295216 AAGTTTCAGTGGGGCTGGTTGAAGATA-CAAATCCTATCTTCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTG
* * *
31295260 AAGTTTCAGTGGAGCAGATTGAATATAGCAAGTCTTATCTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTG
* * *
31295305 AAGTTGCAGCGGAGCAGACTGAAGATAGCAAATCCTATCTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTG
* * *
31295350 AAGTTGCAGTGGAGCGGATTAAAGATAGCAAGTCTTATCTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTG
* * * * *
31295395 ATGTTGCAGCGGAGTAGACTGAATA-AGCAAATCTTATCTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTG
* ** *
31295439 AAGTTGCAGTGGAGCAGATTAAAGCCA--ATAATCCTATCTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGATAGCA-AATCTTATCTCCCTG
* * * * * * * *
31295483 AAGTTGTAGCGGAACAAACTGAATAAATG--AATCTTATCCCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAGATA-GCAAATCTTATCTCCCTG
* * * * * *
31295527 AAGTTACAGTGGGGCAAATTAAAGCA-AGCGAATCTTAGCTCCCTG
1 AAGTTGCAGTGGAGCAGATTGAAG-ATAGCAAATCTTATCTCCCTG
* * ** * * *
31295572 AAGTTGCAGTGGATCAGATTAAAGCCA--ATAATCATATTTCCCTA
1 AAGTTGCAGTGGAGCAGATTGAAGATAGCA-AATCTTATCTCCCTG
* * * * * *
31295616 AAGTTGTAGCGGAGCGGATTAAAG-T-GACAGATCTTATCTCTCTG
1 AAGTTGCAGTGGAGCAGATTGAAGATAG-CAAATCTTATCTCCCTG
* * * * * *
31295660 AAGTTGCAG-AGAGTAGATCG--CAT--CTAATCTTATCTCCCTA
1 AAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTG
** * * * *
31295700 AAGTTGCAGCAGAGCAAACT-AAGCA-AGCAGATTTTATAC-CCCTG
1 AAGTTGCAGTGGAGCAGATTGAAG-ATAGCAAATCTTAT-CTCCCTG
31295744 AAGTTGCAGTGGAGCAGA
1 AAGTTGCAGTGGAGCAGA
31295762 CAGAAGAAAG
Statistics
Matches: 454, Mismatches: 114, Indels: 47
0.74 0.19 0.08
Matches are distributed among these distances:
40 22 0.05
41 6 0.01
42 1 0.00
43 9 0.02
44 210 0.46
45 206 0.45
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (45 bp):
AAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTG
Found at i:31295269 original size:44 final size:45
Alignment explanation
Indices: 31295109--31295591 Score: 408
Period size: 45 Copynumber: 10.8 Consensus size: 45
31295099 GGTGAAACCA
** * * *
31295109 CAAATCCTATCTCTTTAAAGTTGCAGTGGAGCGGATTGAGGATAG
1 CAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * *
31295154 CAAGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAGATAG
1 CAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * *
31295199 CAAA-CCTTATC-CACCTGAAGTTTCAGTGGGGCTGGTTGAAGATA-
1 CAAATCC-TATCTC-CCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * *
31295243 CAAATCCTATCTTCCTGAAGTTTCAGTGGAGCAGATTGAATATAG
1 CAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * *
31295288 CAAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAG
1 CAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* *
31295333 CAAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGATAG
1 CAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * * * * *
31295378 CAAGTCTTATCTCCCTGATGTTGCAGCGGAGTAGACTGAATA-AG
1 CAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * **
31295422 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-
1 CAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
* * * * * * *
31295466 -ATAATCCTATCTCCCTGAAGTTGTAGCGGAACAAACTGAATAAATG
1 CA-AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-G
* * * * * *
31295512 --AATCTTATCCCCCTGAAGTTACAGTGGGGCAAATTAAAGCA-AG
1 CAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-ATAG
* * * *
31295555 CGAATCTTAGCTCCCTGAAGTTGCAGTGGATCAGATT
1 CAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATT
31295592 AAAGCCAATA
Statistics
Matches: 348, Mismatches: 78, Indels: 24
0.77 0.17 0.05
Matches are distributed among these distances:
43 2 0.01
44 135 0.39
45 211 0.61
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (45 bp):
CAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG
Found at i:31295350 original size:134 final size:134
Alignment explanation
Indices: 31295108--31295488 Score: 452
Period size: 134 Copynumber: 2.9 Consensus size: 134
31295098 CGGTGAAACC
* * * **
31295108 ACAAATCCTATC-TCTTTAAAGTTGCAGTGGAGCGGATTGAGGATAGCAAGTCTTATCTCCCTGA
1 ACAAATCCTATCTTC-CTGAAGTTGCAGTGGAGCAGATTGAATATAGCAAGTCTTATCTCCCTGA
* * *
31295172 GGTTGCAGTGGAGCAGACTGAAGATAGCAAA-CCTTATC-CACCTGAAGTTTCAGTGGGGCTGG-
65 AGTTGCAGTGGAGCAGACTGAAGATAGCAAATCC-TATCTC-CCTGAAGTTGCAGTGGAGC-GGA
*
31295234 TTGAAGAT
127 TTAAAGAT
*
31295242 ACAAATCCTATCTTCCTGAAGTTTCAGTGGAGCAGATTGAATATAGCAAGTCTTATCTCCCTGAA
1 ACAAATCCTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAATATAGCAAGTCTTATCTCCCTGAA
*
31295307 GTTGCAGCGGAGCAGACTGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAA
66 GTTGCAGTGGAGCAGACTGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAA
31295372 AGAT
131 AGAT
* * * * * * * *
31295376 AGCAAGTCTTATCTCCCTGATGTTGCAGCGGAGTAGACTGAATA-AGCAAATCTTATCTCCCTGA
1 A-CAAATCCTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAATATAGCAAGTCTTATCTCCCTGA
* * **
31295440 AGTTGCAGTGGAGCAGATTAAAGCCA--ATAATCCTATCTCCCTGAAGTTG
65 AGTTGCAGTGGAGCAGACTGAAGATAGCA-AATCCTATCTCCCTGAAGTTG
31295489 TAGCGGAACA
Statistics
Matches: 216, Mismatches: 25, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
132 1 0.00
133 23 0.11
134 153 0.71
135 39 0.18
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (134 bp):
ACAAATCCTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAATATAGCAAGTCTTATCTCCCTGAA
GTTGCAGTGGAGCAGACTGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAA
AGAT
Done.