Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold56
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: 1793205
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 19648 characters in sequence are not A, C, G, or T
File 6 of 11
Found at i:852128 original size:19 final size:18
Alignment explanation
Indices: 852106--852154 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
852096 CATCCTCCGC
852106 AAAAAA-AAAAAGACAAAA
1 AAAAAACAAAAAGA-AAAA
852124 AAAAAACAAAAAGAAAAA
1 AAAAAACAAAAAGAAAAA
*
852142 AAACAACAAAAAG
1 AAAAAACAAAAAG
852155 GGTCTGGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 22 0.76
19 7 0.24
ACGTcount: A:0.86, C:0.08, G:0.06, T:0.00
Consensus pattern (18 bp):
AAAAAACAAAAAGAAAAA
Found at i:852140 original size:14 final size:13
Alignment explanation
Indices: 852105--852153 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
852095 GCATCCTCCG
852105 CAAAAAAAAAAAGA
1 CAAAAAAAAAAA-A
852119 CAAAAAAAAAACAA
1 CAAAAAAAAAA-AA
*
852133 -AAAGAAAAAAAA
1 CAAAAAAAAAAAA
852145 CAACAAAAA
1 CAA-AAAAA
852154 GGGTCTGGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 2 0.07
13 11 0.37
14 16 0.53
15 1 0.03
ACGTcount: A:0.86, C:0.10, G:0.04, T:0.00
Consensus pattern (13 bp):
CAAAAAAAAAAAA
Found at i:853216 original size:37 final size:37
Alignment explanation
Indices: 853175--853259 Score: 170
Period size: 37 Copynumber: 2.3 Consensus size: 37
853165 TGCCACAATC
853175 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
853212 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
853249 ATGCATTTGTG
1 ATGCATTTGTG
853260 CTTCATCTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (37 bp):
ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
Found at i:853658 original size:28 final size:27
Alignment explanation
Indices: 853619--854025 Score: 421
Period size: 28 Copynumber: 14.6 Consensus size: 27
853609 ACATTTCTTA
** *
853619 CTTTCAAAGCCCATGAGTTAGTGGCAC
1 CTTTCAAAGCCCACAAGTCAGTGGCAC
853646 CTTTTCAAAGCCCACAAGTCAGTGGCAAC
1 C-TTTCAAAGCCCACAAGTCAGTGGC-AC
853675 C-TTCAAAAGCCCACAAGTCAGTGGCAC
1 CTTTC-AAAGCCCACAAGTCAGTGGCAC
* *
853702 CTTTCCGAAGCCCACAAGTCAATGGCAAC
1 CTTT-CAAAGCCCACAAGTCAGTGGC-AC
*
853731 CTTTAAAAGCCCACAAGTCAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCA-C
853759 CTTTCAAAGCCCACAAGTCAGTGGCAAC
1 CTTTCAAAGCCCACAAGTCAGTGGC-AC
* *
853787 C-TTCAAAAGCTCACAAGTTAGTGGCAC
1 CTTTC-AAAGCCCACAAGTCAGTGGCAC
*
853814 CTTTCCAAAGCCCACAAGTCAGTAGCAAC
1 CTTT-CAAAGCCCACAAGTCAGTGGC-AC
* *
853843 C-TTCAAAAGCCTACAAGTTAGTGGCACC
1 CTTTC-AAAGCCCACAAGTCAGTGGCA-C
*
853871 CTTTCAAAGCCCACAAGTTAGTGGCAAC
1 CTTTCAAAGCCCACAAGTCAGTGGC-AC
* *
853899 C-TTCAAAAGCCTACAAGTTAGTGGCAC
1 CTTTC-AAAGCCCACAAGTCAGTGGCAC
* * * *
853926 CTTTTTAAAGCCCACAAGTTATTGGAAAC
1 C-TTTCAAAGCCCACAAGTCAGTGG-CAC
*
853955 C-TTCAAAAGCCCACAAGTTAGTGGCACC
1 CTTTC-AAAGCCCACAAGTCAGTGGCA-C
853983 CTTTCAAAGCCCACAAGTCAGTGGCAAC
1 CTTTCAAAGCCCACAAGTCAGTGGC-AC
854011 C-TTCAAAAGCCCACA
1 CTTTC-AAAGCCCACA
854026 CAAGTTGGTG
Statistics
Matches: 328, Mismatches: 27, Indels: 49
0.81 0.07 0.12
Matches are distributed among these distances:
27 28 0.09
28 272 0.83
29 28 0.09
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.20
Consensus pattern (27 bp):
CTTTCAAAGCCCACAAGTCAGTGGCAC
Found at i:853685 original size:56 final size:56
Alignment explanation
Indices: 853624--854025 Score: 615
Period size: 56 Copynumber: 7.2 Consensus size: 56
853614 TCTTACTTTC
**
853624 AAAGCCCATGAGTTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * * * *
853680 AAAGCCCACAAGTCAGTGGCACCTTTCCGAAGCCCACAAGTCAATGGCAACCTTTA
1 AAAGCCCACAAGTTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCA
* *
853736 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * *
853792 AAAGCTCACAAGTTAGTGGCACCTTTCCAAAGCCCACAAGTCAGTAGCAACCTTCA
1 AAAGCCCACAAGTTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * *
853848 AAAGCCTACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCAACCTTCA
1 AAAGCCCACAAGTTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * * * *
853904 AAAGCCTACAAGTTAGTGGCACCTTTTTAAAGCCCACAAGTTATTGGAAACCTTCA
1 AAAGCCCACAAGTTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCA
*
853960 AAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCA
854016 AAAGCCCACA
1 AAAGCCCACA
854026 CAAGTTGGTG
Statistics
Matches: 313, Mismatches: 33, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 313 1.00
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (56 bp):
AAAGCCCACAAGTTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCA
Found at i:854172 original size:52 final size:51
Alignment explanation
Indices: 854045--854353 Score: 272
Period size: 52 Copynumber: 6.0 Consensus size: 51
854035 GGCATATTCT
* * *
854045 TTTAAGTCTAATGTTGCTGGCCTTGAATCAGCACATTGGTACC--TTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATC
* *
854094 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATC
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTT-TCATC
* *
854146 TTTAAGTCCAATGTCGCTGGCTTTGAATCAGCACATTAGCACC--TTCA-C
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATC
** * * *
854194 TTTAAAACCCAATGTCGCTGGCCTTGAATCAACACATTGGCATTCTTCTCATC
1 TTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTTTCATC
* * * * * * * *
854247 TTCAAGTCTAATGTCG-TTGACTGTGAATCAACACATTGACATTCTTTACATC
1 TTTAAGTCCAATGTCGCTGGCCT-TGAATCAGCACATTGGCA-CCTTTTCATC
* * * * *
854299 TTTAAGCCCAATATCACTGGTCC-TGAATCAGCATATTAGCACCTTTATCACTC
1 TTTAAGTCCAATGTCGCTGG-CCTTGAATCAGCACATTGGCACCTTT-TCA-TC
854352 TT
1 TT
854354 CTCATCTTCA
Statistics
Matches: 209, Mismatches: 38, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
48 4 0.02
49 74 0.35
50 2 0.01
51 9 0.04
52 110 0.53
53 9 0.04
54 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (51 bp):
TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTTCATC
Found at i:854220 original size:101 final size:100
Alignment explanation
Indices: 854045--854353 Score: 327
Period size: 101 Copynumber: 3.0 Consensus size: 100
854035 GGCATATTCT
* * * *
854045 TTTAAGTCTAATGTTGCTGGCCTTGAATCAGCACATTGGTACCTTCATCTTTAAGTCCAATATCG
1 TTTAAGTCTAATGTCGCTGGCTTTGAATCAGCACATT-GCACCTTCATCTTTAAGCCCAATATCG
*
854110 CTGGCCTTGAATCAGCATATTGGCACCTTTGTCATC
65 CTGGCCTTGAATCAGCATATTGGCACCTTTATCATC
* * *
854146 TTTAAGTCCAATGTCGCTGGCTTTGAATCAGCACATTAGCACCTTCA-CTTTAAAACCCAATGTC
1 TTTAAGTCTAATGTCGCTGGCTTTGAATCAGCACATT-GCACCTTCATCTTT-AAGCCCAATATC
* * * *
854210 GCTGGCCTTGAATCAACACATTGGCA-TTCTTCTCATC
64 GCTGGCCTTGAATCAGCATATTGGCACCT-TTATCATC
* * * * * *
854247 TTCAAGTCTAATGTCGTTGACTGTGAATCAACACATTGACATTCTTTACATCTTTAAGCCCAATA
1 TTTAAGTCTAATGTCGCTGGCTTTGAATCAGCACATTG-CA--CCTT-CATCTTTAAGCCCAATA
* *
854312 TCACTGGTCC-TGAATCAGCATATTAGCACCTTTATCACTC
62 TCGCTGG-CCTTGAATCAGCATATTGGCACCTTTATCA-TC
854352 TT
1 TT
854354 CTCATCTTCA
Statistics
Matches: 171, Mismatches: 27, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
100 6 0.04
101 115 0.67
103 3 0.02
104 36 0.21
105 11 0.06
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (100 bp):
TTTAAGTCTAATGTCGCTGGCTTTGAATCAGCACATTGCACCTTCATCTTTAAGCCCAATATCGC
TGGCCTTGAATCAGCATATTGGCACCTTTATCATC
Found at i:855074 original size:20 final size:20
Alignment explanation
Indices: 855046--855102 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
855036 ACTGCCAAGG
*
855046 AAATATATCGATACATTACT
1 AAATGTATCGATACATTACT
855066 AAATGTATCGATACATTACT
1 AAATGTATCGATACATTACT
*
855086 CAATGTATCGATACATT
1 AAATGTATCGATACATT
855103 GTATCGATAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (20 bp):
AAATGTATCGATACATTACT
Found at i:855107 original size:13 final size:13
Alignment explanation
Indices: 855089--855116 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
855079 CATTACTCAA
855089 TGTATCGATACAT
1 TGTATCGATACAT
855102 TGTATCGATACAT
1 TGTATCGATACAT
855115 TG
1 TG
855117 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:868904 original size:30 final size:30
Alignment explanation
Indices: 868858--868914 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
868848 TCGTAATGGC
* *
868858 TAGGGAAATACTCTAACTTAAATTGAAGGT
1 TAGGCAAATACACTAACTTAAATTGAAGGT
868888 TAGGCAAATACACTAACTTAAATTGAA
1 TAGGCAAATACACTAACTTAAATTGAA
868915 CCCTTTCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (30 bp):
TAGGCAAATACACTAACTTAAATTGAAGGT
Found at i:878736 original size:18 final size:18
Alignment explanation
Indices: 878715--878750 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
878705 ATCATGATAA
878715 TTGTAAACATCTTATTTT
1 TTGTAAACATCTTATTTT
878733 TTGTAAACATCTTATTTT
1 TTGTAAACATCTTATTTT
878751 GTCCGGGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.06, T:0.56
Consensus pattern (18 bp):
TTGTAAACATCTTATTTT
Found at i:879149 original size:50 final size:50
Alignment explanation
Indices: 879022--879155 Score: 173
Period size: 50 Copynumber: 2.7 Consensus size: 50
879012 TTTTACTGTT
*
879022 TGTATCGATACATTATTCATTATATCGATACATTCTGGGTTTTTACCTAGA
1 TGTATCGATACATTATTCATTATATCGATACATTC-GGGATTTTACCTAGA
* *
879073 TGAATCGATACATTCTTCATTATATCGATACATTAC-GGATTTTA-CTCAGA
1 TGTATCGATACATTATTCATTATATCGATACATT-CGGGATTTTACCT-AGA
* * *
879123 TGTATCGATATATTATTCAATGTATCGATACAT
1 TGTATCGATACATTATTCATTATATCGATACAT
879156 ACAAGCAAAT
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
49 2 0.03
50 38 0.52
51 32 0.44
52 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.41
Consensus pattern (50 bp):
TGTATCGATACATTATTCATTATATCGATACATTCGGGATTTTACCTAGA
Found at i:880077 original size:20 final size:21
Alignment explanation
Indices: 880038--880078 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
880028 ACAGCCCATG
880038 TTCATGCATTTTGAGCTATGT
1 TTCATGCATTTTGAGCTATGT
*
880059 TTCATGCATTTTTAG-TATGT
1 TTCATGCATTTTGAGCTATGT
880079 CCAACACCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.12, G:0.17, T:0.51
Consensus pattern (21 bp):
TTCATGCATTTTGAGCTATGT
Found at i:883116 original size:13 final size:13
Alignment explanation
Indices: 883098--883123 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
883088 ACAAAGATCG
883098 ATGTATCGATACA
1 ATGTATCGATACA
883111 ATGTATCGATACA
1 ATGTATCGATACA
883124 TTCTACAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:884142 original size:13 final size:13
Alignment explanation
Indices: 884124--884149 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
884114 ACACCAAAGT
884124 ATGTATCGATACA
1 ATGTATCGATACA
884137 ATGTATCGATACA
1 ATGTATCGATACA
884150 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:884147 original size:33 final size:33
Alignment explanation
Indices: 884105--884169 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
884095 TAGCCAAACT
* *
884105 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
884138 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
884170 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:885553 original size:171 final size:165
Alignment explanation
Indices: 885180--885808 Score: 780
Period size: 171 Copynumber: 3.7 Consensus size: 165
885170 AAACGAAATA
* *
885180 CGTCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAATGTGT
1 CGTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTCGTGTGGGCTTTG-AAA-G----GCGT
* *
885244 CCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTACGAAGAGAAAGCATCCT
59 CCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTA--AA-AG---GCGTCCT
885308 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGG
117 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGG
* *
885357 TGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTCATC
1 CGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCG------TC
* ** *
885422 CTGCTCTTTGAGGACTGGAAAATGCCCCCAACTTGTGTGGATTTTAAAAGGTGTCCTGCTCTTTG
60 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTG
885487 AGGACTGGAAAATGCCACCAACTTGT-TCGGGCTTTGAAAGG
125 AGGACTGGAAAATGCCACCAACTTGTGT-GGGCTTTGAAAGG
* ** *
885528 CGTCTTGCTCTTTGAGGACTGGAAAATGCCATTAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTC
1 CGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTC
* * *
885593 TTTGAGGACTGGAAGATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGTTCTTTGAGGACT
66 TTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACT
*
885658 GGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAATG
131 GGAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAGG
* * *
885699 TGTCCTGTTCTTTGAGGACTAGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTC
1 CGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTC
*
885764 TTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTAAAAGG
66 TTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGG
885809 AAAAGGCATC
Statistics
Matches: 403, Mismatches: 32, Indels: 40
0.85 0.07 0.08
Matches are distributed among these distances:
165 93 0.23
166 1 0.00
170 2 0.00
171 208 0.52
172 2 0.00
174 2 0.00
175 3 0.01
176 3 0.01
177 81 0.20
178 8 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (165 bp):
CGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTC
TTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACT
GGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
Found at i:885806 original size:116 final size:114
Alignment explanation
Indices: 885180--885839 Score: 805
Period size: 116 Copynumber: 5.7 Consensus size: 114
885170 AAACGAAATA
* * *
885180 CGTCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAATGTGT
1 CGTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT-AAAA-GAAAGGTGT
*
885244 CCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTACGAAGAGAAAG
63 CCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT--GAA-AG---G
*
885302 CATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--AAG--AGGTGTCCT
1 CGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAGGTGTCCT
885363 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
66 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
* * *
885412 CGTCCTCATCCTGCTCTTTGAGGACTGGAAAATGCCCCCAACTTGTGT-GGATTT--TA-AAAGG
1 CG------TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAGG
885473 TGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGT-TCGGGCTTTGAAAGG
60 TGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGT-GGGCTTTGAAAGG
* ** *
885528 CGTCTTGCTCTTTGAGGACTGGAAAATGCCATTAACTTGTGTGGGCTTT----GAAAGGCGTCCT
1 CGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAGGTGTCCT
*
885589 GCTCTTTGAGGACTGGAAGATGCCACCAACTTGTGTGGGCTTT-AAGAGG
66 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGG
* *
885638 CGTCCTGTTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAATGTGTC
1 CGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAAAG-AAAGGTGTC
* * *
885703 CTGTTCTTTGAGGACTAGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGG
64 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
* **
885754 CGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCATC
1 CGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAA-G-AAAGGTGTC
*
885819 CTACTCTTTGAGGACT-GAAAA
64 CTGCTCTTTGAGGACTGGAAAA
885840 GTGGAAGGAG
Statistics
Matches: 482, Mismatches: 33, Indels: 53
0.85 0.06 0.09
Matches are distributed among these distances:
109 2 0.00
110 136 0.28
111 6 0.01
113 2 0.00
114 3 0.01
115 17 0.04
116 262 0.54
117 6 0.01
118 1 0.00
119 2 0.00
122 41 0.09
123 4 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.28
Consensus pattern (114 bp):
CGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAGGTGTCCT
GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
Found at i:885808 original size:55 final size:55
Alignment explanation
Indices: 885180--885808 Score: 760
Period size: 55 Copynumber: 11.0 Consensus size: 55
885170 AAACGAAATA
* *
885180 CGTCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAATG
1 CGTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT-AAAA-G----G
* *
885241 TGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTACGAAGAGAAAG
1 CGTCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTA--AA-AG---G
* *
885302 CATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGG
1 CGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGG
* *
885357 TGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
1 CGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGG
* **
885412 CGTCCTCATCCTGCTCTTTGAGGACTGGAAAATGCCCCCAACTTGTGTGGATTTTAAAAGG
1 CG------TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGG
* *
885473 TGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGT-TCGGGCTTTGAAAGG
1 CGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGT-GGGCTTTAAAAGG
* ** *
885528 CGTCTTGCTCTTTGAGGACTGGAAAATGCCATTAACTTGTGTGGGCTTTGAAAGG
1 CGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGG
* *
885583 CGTCCTGCTCTTTGAGGACTGGAAGATGCCACCAACTTGTGTGGGCTTTAAGAGG
1 CGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGG
*
885638 CGTCCTGTTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAATG
1 CGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAAAG-----G
* * * * *
885699 TGTCCTGTTCTTTGAGGACTAGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGG
1 CGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGG
*
885754 CGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTAAAAGG
1 CGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGG
885809 AAAAGGCATC
Statistics
Matches: 503, Mismatches: 46, Indels: 44
0.85 0.08 0.07
Matches are distributed among these distances:
54 1 0.00
55 295 0.59
56 5 0.01
58 2 0.00
59 1 0.00
60 5 0.01
61 186 0.37
62 7 0.01
63 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (55 bp):
CGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGG
Found at i:886828 original size:11 final size:11
Alignment explanation
Indices: 886796--886857 Score: 63
Period size: 11 Copynumber: 5.6 Consensus size: 11
886786 AAGCAGATTC
*
886796 TTCTTTCTTTT
1 TTCTTTGTTTT
* *
886807 TTCTCTCTTTT
1 TTCTTTGTTTT
886818 TTCTTTGTTTT
1 TTCTTTGTTTT
*
886829 TTTTTTGTTTT
1 TTCTTTGTTTT
*
886840 TTTTTTGTGTTT
1 TTCTTTGT-TTT
886852 TT-TTTG
1 TTCTTTG
886858 AAAAAGAATG
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
11 41 0.89
12 5 0.11
ACGTcount: A:0.00, C:0.10, G:0.08, T:0.82
Consensus pattern (11 bp):
TTCTTTGTTTT
Found at i:891825 original size:20 final size:19
Alignment explanation
Indices: 891779--891835 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
891769 TTGTATCGAT
* *
891779 ACATTGTATTGATACATGT
1 ACATTGTATCGATACATGC
*
891798 TCATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
891817 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
891836 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:893410 original size:15 final size:15
Alignment explanation
Indices: 893387--893417 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
893377 ATCAAAGATA
893387 ATGAAGATAATGATG
1 ATGAAGATAATGATG
*
893402 ATGATGATAATGATG
1 ATGAAGATAATGATG
893417 A
1 A
893418 ACTTGACTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (15 bp):
ATGAAGATAATGATG
Found at i:897979 original size:13 final size:13
Alignment explanation
Indices: 897961--897987 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
897951 ATAATTTTCT
897961 TTGTATCGATACA
1 TTGTATCGATACA
897974 TTGTATCGATACA
1 TTGTATCGATACA
897987 T
1 T
897988 AGGTTACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:904745 original size:9 final size:9
Alignment explanation
Indices: 904733--904793 Score: 56
Period size: 9 Copynumber: 7.1 Consensus size: 9
904723 CTCTCTCTAT
904733 TATCTCTCC
1 TATCTCTCC
904742 TATCTCTCC
1 TATCTCTCC
* *
904751 T-CCTAT-C
1 TATCTCTCC
*
904758 -ATCCCTCC
1 TATCTCTCC
*
904766 TATCTCTAC
1 TATCTCTCC
904775 TATCTCTCC
1 TATCTCTCC
*
904784 TGTCTCTCC
1 TATCTCTCC
904793 T
1 T
904794 CCTATCATCC
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
7 3 0.08
8 4 0.10
9 33 0.82
ACGTcount: A:0.11, C:0.44, G:0.02, T:0.43
Consensus pattern (9 bp):
TATCTCTCC
Found at i:904753 original size:12 final size:12
Alignment explanation
Indices: 904738--904772 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
904728 TCTATTATCT
904738 CTCCTATCTCTC
1 CTCCTATCTCTC
904750 CTCCTATCATC-C
1 CTCCTATC-TCTC
904762 CTCCTATCTCT
1 CTCCTATCTCT
904773 ACTATCTCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 2 0.10
12 17 0.81
13 2 0.10
ACGTcount: A:0.11, C:0.49, G:0.00, T:0.40
Consensus pattern (12 bp):
CTCCTATCTCTC
Found at i:904757 original size:42 final size:42
Alignment explanation
Indices: 904705--904823 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
904695 TTTTTCTCTC
*
904705 CTCCTCCTATCATCCCTCCTCTCTCTATTATCTCTCCTATCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTATCT
* *
904747 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTATCT
* *
904789 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
904824 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.10, C:0.46, G:0.01, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTATCT
Found at i:907154 original size:13 final size:13
Alignment explanation
Indices: 907136--907162 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
907126 ACATTATGCT
907136 TTGTATCGATACA
1 TTGTATCGATACA
907149 TTGTATCGATACA
1 TTGTATCGATACA
907162 T
1 T
907163 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:907177 original size:32 final size:33
Alignment explanation
Indices: 907119--907181 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
907109 TATCCAGATA
*
907119 TATCGATACATTATGCTTTGTATCGATACATTG
1 TATCGATACATTATGCATTGTATCGATACATTG
907152 TATCGATACATGT-T-CATTGTATCGATACAT
1 TATCGATACAT-TATGCATTGTATCGATACAT
907182 GCACAATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.54
33 12 0.43
34 1 0.04
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (33 bp):
TATCGATACATTATGCATTGTATCGATACATTG
Found at i:907192 original size:20 final size:19
Alignment explanation
Indices: 907146--907199 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
907136 TTGTATCGAT
*
907146 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGC
*
907165 TCATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
907184 ACAATTGTATCGATAC
1 AC-ATTGTATCGATAC
907200 GTGAAACTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 18 0.58
20 13 0.42
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:907257 original size:20 final size:20
Alignment explanation
Indices: 907231--907284 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
907221 CTACCATTGT
*
907231 TTGTATCGATACATAGAATAA
1 TTGTATCGATACAT-GAAAAA
*
907252 -TGTATCGACACATGAAAAA
1 TTGTATCGATACATGAAAAA
907271 TTGTATCGATACAT
1 TTGTATCGATACAT
907285 TGTCCCAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 5 0.17
20 24 0.83
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (20 bp):
TTGTATCGATACATGAAAAA
Found at i:915854 original size:2 final size:2
Alignment explanation
Indices: 915847--915881 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
915837 GACCAATTAG
915847 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
915882 AGTAGGCTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:916484 original size:155 final size:155
Alignment explanation
Indices: 916222--916503 Score: 424
Period size: 155 Copynumber: 1.8 Consensus size: 155
916212 CCATTTTTAC
* * * * * *
916222 TATACCATATAATGCCTTTTAAAAGGATCACTTTAACTTTTTATGGAAGCTATGATTCCATATCT
1 TATACAATATAATGCCTCTTAAAAGAATAAATTTAACTCTTTATGGAAGCTATGATTCCATATCT
*
916287 ACAAGTAAGGCTCTAATCAAGTATAATTCATATGCACAATGAACCAATC-AAATAGCTTACTATT
66 ACAAGTAAGGCTCTAATCAAGTATAATTCATATACACAATGAACCAATCTAAA-AGCTTACTATT
916351 TCGACTGAGGCCTTGTCTACTTTCAT
130 TCGACTGAGGCCTTGTCTACTTTCAT
*
916377 TATACAATATAATGCCTCTTAAAAGAATAAATTTAACTCTTTATGGGAGCTATGATTCCATATCT
1 TATACAATATAATGCCTCTTAAAAGAATAAATTTAACTCTTTATGGAAGCTATGATTCCATATCT
* * * *
916442 ACAAGTAAGGCTCTCATTAAGTATAATTCATATAC-CTAATGAATCAGTCTAAAAGCTTACTA
66 ACAAGTAAGGCTCTAATCAAGTATAATTCATATACAC-AATGAACCAATCTAAAAGCTTACTA
916504 CTTTGAGATG
Statistics
Matches: 113, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
154 1 0.01
155 109 0.96
156 3 0.03
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (155 bp):
TATACAATATAATGCCTCTTAAAAGAATAAATTTAACTCTTTATGGAAGCTATGATTCCATATCT
ACAAGTAAGGCTCTAATCAAGTATAATTCATATACACAATGAACCAATCTAAAAGCTTACTATTT
CGACTGAGGCCTTGTCTACTTTCAT
Found at i:917900 original size:14 final size:15
Alignment explanation
Indices: 917881--917913 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
917871 TTTCTTTGAT
917881 AAAAAATAA-AATAA
1 AAAAAATAATAATAA
917895 AAAAAATAATAATAA
1 AAAAAATAATAATAA
917910 AAAA
1 AAAA
917914 GTCATAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (15 bp):
AAAAAATAATAATAA
Found at i:917920 original size:26 final size:26
Alignment explanation
Indices: 917890--917962 Score: 74
Period size: 29 Copynumber: 2.7 Consensus size: 26
917880 TAAAAAATAA
*
917890 AATAAAAAAAATAATAATAAAAAAGT
1 AATAAAAAAAATAAAAATAAAAAAGT
* **
917916 CATAAAATATAAAATAAAAATAATCAAGT
1 AAT-AAA-A-AAAATAAAAATAAAAAAGT
*
917945 AATCAAAAAAATAAAAAT
1 AATAAAAAAAATAAAAAT
917963 TCAAATTCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 13 0.34
27 4 0.11
28 3 0.08
29 18 0.47
ACGTcount: A:0.73, C:0.04, G:0.03, T:0.21
Consensus pattern (26 bp):
AATAAAAAAAATAAAAATAAAAAAGT
Found at i:917930 original size:38 final size:41
Alignment explanation
Indices: 917879--917954 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 41
917869 ATTTTCTTTG
917879 ATAAAAAATAAAATAAAAAAAAT-AA-TAAT-AAAAAAGTC
1 ATAAAAAATAAAATAAAAAAAATCAAGTAATCAAAAAAGTC
* *
917917 ATAAAATATAAAATAAAAATAATCAAGTAATCAAAAAA
1 ATAAAAAATAAAATAAAAAAAATCAAGTAATCAAAAAA
917955 ATAAAAATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 21 0.64
39 2 0.06
40 4 0.12
41 6 0.18
ACGTcount: A:0.74, C:0.04, G:0.03, T:0.20
Consensus pattern (41 bp):
ATAAAAAATAAAATAAAAAAAATCAAGTAATCAAAAAAGTC
Found at i:918923 original size:21 final size:22
Alignment explanation
Indices: 918886--918936 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
918876 GAGTTCAGCT
*
918886 AAAAAAGAAGGACAAAGA-AAGA
1 AAAAAAGAA-GACAAAGAGAAAA
918908 AAAAAAGAA-ACAAAAGAGAAAA
1 AAAAAAGAAGAC-AAAGAGAAAA
918930 AAAAAAG
1 AAAAAAG
918937 CTAAGAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 2 0.08
21 5 0.19
22 19 0.73
ACGTcount: A:0.78, C:0.04, G:0.18, T:0.00
Consensus pattern (22 bp):
AAAAAAGAAGACAAAGAGAAAA
Found at i:918927 original size:19 final size:21
Alignment explanation
Indices: 918886--918932 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
918876 GAGTTCAGCT
918886 AAAAAAGAAGGACAAAGAAAGA
1 AAAAAAGAA-GACAAAGAAAGA
*
918908 AAAAAAGAA-ACAAA-AGAGA
1 AAAAAAGAAGACAAAGAAAGA
918927 AAAAAA
1 AAAAAA
918933 AAAGCTAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 10 0.42
20 5 0.21
22 9 0.38
ACGTcount: A:0.79, C:0.04, G:0.17, T:0.00
Consensus pattern (21 bp):
AAAAAAGAAGACAAAGAAAGA
Found at i:924652 original size:20 final size:19
Alignment explanation
Indices: 924623--924697 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
924613 AAAAAGACAT
924623 AATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
* *
924642 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTGA-A
* *
924663 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTG-AA
924683 AATGTATCGATACAT
1 AATGTATCGATACAT
924698 CTAGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:924680 original size:40 final size:39
Alignment explanation
Indices: 924620--924697 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
924610 GGTAAAAAGA
*
924620 CATAATGTATCGATACATTGAAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
924659 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
924698 CTAGGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:925471 original size:29 final size:29
Alignment explanation
Indices: 925257--926261 Score: 1153
Period size: 29 Copynumber: 34.3 Consensus size: 29
925247 TTTTTTAAAA
* *
925257 AAAAGGGTGCCACTAACTTATGTGGGCCTTG
1 AAAAGGGTGCCACTGAC-T-TGTGGGCTTTG
* * *
925288 AAAAGAGTTTCCACCGACTCGTGTGGGCTTTG
1 AAAAG-GGTGCCACTGACT--TGTGGGCTTTG
* * *
925320 GAAAGAGTTACCACT-AGCTTGTGGGCTTT-
1 AAAAG-GGTGCCACTGA-CTTGTGGGCTTTG
925349 AAAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* * *
925378 -GAAGGGTACCACTGATTTGTGTGGGCTTTG
1 AAAAGGGTGCCACTGA-CT-TGTGGGCTTTG
* ** *
925408 AAAAGAGTTGTTACCGACTTGTGTGGGCTTTG
1 AAAAG-GGTGCCACTGAC-T-TGTGGGCTTTG
*
925440 AAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* *
925469 AAAAGAGTGCCACTGACTTGTGGGTTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
925498 AAAA-GGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* *
925526 AAAGGGGTGTCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* *
925555 AAAGGGGTGCCACTTGTCTTGTGGGCTTTG
1 AAAAGGGTGCCAC-TGACTTGTGGGCTTTG
* *
925585 AAAAGAGTGCCACTAACTTGTGGGCTTT-
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
**
925613 AAAAGGGTGCTGCTGACTTGCGTGGGCTTTG
1 AAAAGGGTGCCACTGACTT--GTGGGCTTTG
925644 -AAAGAGGTGCCACTGACTTGTGGGCTTTG
1 AAAAG-GGTGCCACTGACTTGTGGGCTTTG
*
925673 AAAGGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
*
925702 -AAAGGGTGCCACTGACTTGTGGGTTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* *
925730 -AAAGGAGTTACCACCGACTCGTGTGGGCTTTG
1 AAAAGG-G-TGCCACTGACT--TGTGGGCTTTG
* *
925762 AAAAGAGTGCCAGTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* *
925791 AAAAGAGTGCCACTAACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
925820 -AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* *
925848 -AAAGAGTGCCACTGATTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* * *
925876 AAAGGGGTGTCACTGTCTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
*
925905 AAAAGAGTGCCACTGACTTGTGGGCTTT-
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* *
925933 AAAAGGGTGCTAGTGACTTGCGTGGGCTTTG
1 AAAAGGGTGCCACTGACTT--GTGGGCTTTG
*
925964 AAAGGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
*
925993 -AAAGGGTACCACTGACTTGTGTGGGCTTTG
1 AAAAGGGTGCCACTGAC-T-TGTGGGCTTTG
*
926023 AAAGGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
*
926052 -AAAGGGTGCCACTGACTTGTGGGTTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* * *
926080 AAAAGAGTTGCCACCGACTCGTGTAGGCTTTG
1 AAAAG-GGTGCCACTGACT--TGTGGGCTTTG
*
926112 AAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
926141 -AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
926169 -AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* * *
926197 AAAGGGGTGCCACTGACTTATAGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
*
926226 -AAAGAGTGCCACTTGACTTGTGGGCTTTG
1 AAAAGGGTGCCAC-TGACTTGTGGGCTTTG
926255 -AAAGGGT
1 AAAAGGGT
926262 TTGAACGTTC
Statistics
Matches: 841, Mismatches: 98, Indels: 72
0.83 0.10 0.07
Matches are distributed among these distances:
28 276 0.33
29 298 0.35
30 105 0.12
31 77 0.09
32 81 0.10
33 4 0.00
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
AAAAGGGTGCCACTGACTTGTGGGCTTTG
Found at i:926018 original size:350 final size:350
Alignment explanation
Indices: 925257--926257 Score: 1376
Period size: 350 Copynumber: 2.8 Consensus size: 350
925247 TTTTTTAAAA
* * * * * *
925257 AAAAGGGTGCCACTAACTTATGTGGGCCTTGAAAAGAGTTTCCACCGACTCGTGTGGGCTTTGGA
1 AAAAGGGTGCCACTGAC-T-TGTGGGCTTTG-AAAGAGGTACCACTGACTTGTGTGGGCTTT-GA
* * * * * *
925322 AAGAGTTACCACT-AGCTTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGGAAGG-G-
62 AAGGGGTGCCACTGA-CTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGTTTTGAAAGGAGT
* * * ** *
925384 TACCACTGATTTGTGTGGGCTTTGAAAAGAGTTGTTACCGACTTGTGTGGGCTTTGAAAAGAGTG
126 TACCACCGACTCGTGTGGGCTTTGAAAAGAG-TGCCACTGAC-T-TGTGGGCTTTGAAAAGAGTG
* *
925449 CCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGTTTTGAAA-AGGTGCCACTGA
188 CCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGA-GTGCCACTGA
* * *
925513 CTTGTGGGCTTTGAAAGGGGTGTCACTGACTTGTGGGCTTTGAAAGGGGTGCCACTTGTCTTGTG
251 CTTGTGGGCTTTGAAAGGGGTGTCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTTGACTTGTG
925578 GGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTT
316 GGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTT
** *
925613 AAAAGGGTGCTGCTGACTTGCGTGGGCTTTGAAAGAGGTGCCACTGAC-T-TGTGGGCTTTGAAA
1 AAAAGGGTGCCACTGACTT--GTGGGCTTTGAAAGAGGTACCACTGACTTGTGTGGGCTTTGAAA
925676 GGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGTTTTGAAAGGAGTTAC
64 GGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGTTTTGAAAGGAGTTAC
* *
925741 CACCGACTCGTGTGGGCTTTGAAAAGAGTGCCAGTGACTTGTGGGCTTTGAAAAGAGTGCCACTA
129 CACCGACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTG
*
925806 ACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGATTTGTGGG
194 ACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGG
*
925871 CTTTGAAAGGGGTGTCACTGTCTTGTGGGCTTTGAAAAGAGTGCCAC-TGACTTGTGGGCTTT-A
259 CTTTGAAAGGGGTGTCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTTGACTTGTGGGCTTTGA
* * * *
925934 AAAGGGTGCTAGTGACTTGCGTGGGCTTT
324 AAAGAGTGCCACTAACTT--GTGGGCTTT
*
925963 GAAAGGGGTGCCACTGACTTGTGGGCTTTGAAAG-GGTACCACTGACTTGTGTGGGCTTTGAAAG
1 -AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGGTACCACTGACTTGTGTGGGCTTTGAAAG
* *
926027 GGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGTTTTGAAAAGAGTTGCC
65 GGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGTTTTGAAAGGAGTTACC
* *
926092 ACCGACTCGTGTAGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGA
130 ACCGACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGA
* * *
926156 CTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACTGACTTATAGG
195 CTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGG
* *
926221 CTTTGAAA-GAGTGCCACTTGACTTGTGGGCTTTGAAA
259 CTTTGAAAGGGGTGTCAC-TGACTTGTGGGCTTTGAAA
926258 GGGTTTGAAC
Statistics
Matches: 582, Mismatches: 50, Indels: 32
0.88 0.08 0.05
Matches are distributed among these distances:
348 26 0.04
349 93 0.16
350 266 0.46
351 56 0.10
352 56 0.10
353 18 0.03
354 29 0.05
355 15 0.03
356 23 0.04
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (350 bp):
AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGGTACCACTGACTTGTGTGGGCTTTGAAAGG
GGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGTTTTGAAAGGAGTTACCA
CCGACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGAC
TTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCT
TTGAAAGGGGTGTCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTTGACTTGTGGGCTTTGAAA
AGAGTGCCACTAACTTGTGGGCTTT
Found at i:927346 original size:10 final size:8
Alignment explanation
Indices: 927332--927398 Score: 61
Period size: 7 Copynumber: 8.6 Consensus size: 8
927322 GACCCTTCTA
927332 TTTTTTTGC
1 TTTTTTT-C
927341 TATTTTTTC
1 T-TTTTTTC
927350 TTTTTTT-
1 TTTTTTTC
927357 TTTTTTT-
1 TTTTTTTC
*
927364 TTTTTTTG
1 TTTTTTTC
*
927372 TTTTGTT-
1 TTTTTTTC
927379 TTTTTTT-
1 TTTTTTTC
*
927386 TTGTTTTC
1 TTTTTTTC
927394 TTTTT
1 TTTTT
927399 GGGTGTAAAG
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
7 26 0.51
8 16 0.31
9 3 0.06
10 6 0.12
ACGTcount: A:0.01, C:0.04, G:0.06, T:0.88
Consensus pattern (8 bp):
TTTTTTTC
Found at i:927347 original size:1 final size:1
Alignment explanation
Indices: 927343--927398 Score: 67
Period size: 1 Copynumber: 56.0 Consensus size: 1
927333 TTTTTTGCTA
* * * * *
927343 TTTTTTCTTTTTTTTTTTTTTTTTTTTTGTTTTGTTTTTTTTTTTGTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
927399 GGGTGTAAAG
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.00, C:0.04, G:0.05, T:0.91
Consensus pattern (1 bp):
T
Found at i:927363 original size:17 final size:17
Alignment explanation
Indices: 927332--927398 Score: 73
Period size: 17 Copynumber: 3.8 Consensus size: 17
927322 GACCCTTCTA
*
927332 TTTTTTTGCTATTTTTTCT
1 TTTTTTTTCT-TTTTTT-T
927351 TTTTTTTT-TTTTTTTT
1 TTTTTTTTCTTTTTTTT
*
927367 TTTTGTTTTGTTTTTTTT
1 TTTT-TTTTCTTTTTTTT
*
927385 TTTGTTTTCTTTTT
1 TTTTTTTTCTTTTT
927399 GGGTGTAAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
16 5 0.12
17 19 0.44
18 12 0.28
19 7 0.16
ACGTcount: A:0.01, C:0.04, G:0.06, T:0.88
Consensus pattern (17 bp):
TTTTTTTTCTTTTTTTT
Found at i:934894 original size:18 final size:18
Alignment explanation
Indices: 934871--934907 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
934861 ATGTGAATGC
934871 ATTTGGGACAATTAGCTT
1 ATTTGGGACAATTAGCTT
*
934889 ATTTGGGATAATTAGCTT
1 ATTTGGGACAATTAGCTT
934907 A
1 A
934908 CGGAATAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.41
Consensus pattern (18 bp):
ATTTGGGACAATTAGCTT
Found at i:937143 original size:19 final size:19
Alignment explanation
Indices: 937119--937158 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
937109 AAATAATAGG
*
937119 AATGAATAGCAAGAAAAAA
1 AATGAACAGCAAGAAAAAA
* *
937138 AATGAACATCAATAAAAAA
1 AATGAACAGCAAGAAAAAA
937157 AA
1 AA
937159 ATGACCCTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.70, C:0.07, G:0.10, T:0.12
Consensus pattern (19 bp):
AATGAACAGCAAGAAAAAA
Found at i:941429 original size:20 final size:19
Alignment explanation
Indices: 941404--941475 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 19
941394 AGACATAATG
941404 TATCGATACATTGAAGAATA
1 TATCGATACATTGAA-AATA
* * *
941424 TATCGATACATTCATACATG
1 TATCGATACATTGA-AAATA
*
941444 TATCGATATATTGAAAA-A
1 TATCGATACATTGAAAATA
941462 TGAATCGATACATT
1 T--ATCGATACATT
941476 TGGAAAAATA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
18 1 0.02
19 2 0.05
20 37 0.90
21 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (19 bp):
TATCGATACATTGAAAATA
Found at i:941457 original size:40 final size:39
Alignment explanation
Indices: 941397--941475 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 39
941387 GTAAAAAAGA
*
941397 CATAATGTATCGATACATTGAAGAAT-ATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATGA-ATCGATACATT
*
941436 CATACATGTATCGATATATTGAAAAATGAATCGATACATT
1 CATA-ATGTATCGATACATTGAAAAATGAATCGATACATT
941476 TGGAAAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
39 4 0.11
40 31 0.86
41 1 0.03
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATGAATCGATACATT
Found at i:942244 original size:29 final size:29
Alignment explanation
Indices: 942082--942643 Score: 659
Period size: 28 Copynumber: 19.5 Consensus size: 29
942072 CATCGACTCG
* * * *
942082 TGTGGGCTTTGGAAAGAGTTACCACTGGCT
1 TGTGGGCTTTGAAAAG-GGTGCCACTGACT
942112 TGTGGGCTTT-AAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
* *
942140 TGTGGGCTTTG-GAAGGGTGCCACTGATTT
1 TGTGGGCTTTGAAAAGGGTGCCACTGA-CT
* * * *
942169 GTGTGGGCTTTGTAAAGAGTTGCTACCGACTT
1 -TGTGGGCTTTGAAAAG-GGTGCCACTGAC-T
*
942201 GTGTGGGCTTTGAAAAGAGTGCCACTGACT
1 -TGTGGGCTTTGAAAAGGGTGCCACTGACT
* *
942231 TTTGGGTTTTGAAAA-GGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
* *
942259 TGTGGGCTTTGAAAGGGGTGTCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
* **
942288 TGTGGGCTTTGAAAGGGGTGCCACTTTCT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
* * *
942317 TATGGGCTTTGAAAAGAGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
942346 TGTGGGCTTT-AAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
942374 TGCAT-GGC-TTG--AAGGGTG-CACTGACT
1 TG--TGGGCTTTGAAAAGGGTGCCACTGACT
*
942400 TGT-GGCTTTGAAAGGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
942428 TGTGGGCTTTG-AAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
942456 TGTGGGCTTTG-AAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
* *
942484 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTGAAAAG-GGTGCCACTGACT
* *
942514 CGTGTGGGCTTTGAAAAGAGTGCCATTGACT
1 --TGTGGGCTTTGAAAAGGGTGCCACTGACT
*
942545 TATGGGCTTTG-AAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
*
942573 TGTGGGCTTTG-AAAGGGTGCTACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACT
942601 TGTGGGCTTT-AAAAGGGGTGCCACTGACT
1 TGTGGGCTTTGAAAA-GGGTGCCACTGACT
942630 TGTGGGCTTTGAAA
1 TGTGGGCTTTGAAA
942644 GGATTTGAAC
Statistics
Matches: 462, Mismatches: 48, Indels: 44
0.83 0.09 0.08
Matches are distributed among these distances:
24 4 0.01
25 3 0.01
26 10 0.02
27 13 0.03
28 198 0.43
29 136 0.29
30 37 0.08
31 20 0.04
32 41 0.09
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (29 bp):
TGTGGGCTTTGAAAAGGGTGCCACTGACT
Found at i:942269 original size:57 final size:57
Alignment explanation
Indices: 942082--942643 Score: 626
Period size: 57 Copynumber: 9.8 Consensus size: 57
942072 CATCGACTCG
* * * *
942082 TGTGGGCTTTGGAAAGAGTTACCACTGGCTTGTGGGCTTT-AAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAG-GGTGCCACTGACTTGTGGGCTTTGAAAA-GGTGCCACTGACT
* * * * *
942140 TGTGGGCTTTG-GAAGGGTGCCACTGATTTGTGTGGGCTTTGTAAAGAGTTGCTACCGACTT
1 TGTGGGCTTTGAAAAGGGTGCCACTGA-CT-TGTGGGCTTTG-AAA-AGGTGCCACTGAC-T
* * *
942201 GTGTGGGCTTTGAAAAGAGTGCCACTGACTTTTGGGTTTTGAAAAGGTGCCACTGACT
1 -TGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACT
* * * **
942259 TGTGGGCTTTGAAAGGGGTGTCACTGACTTGTGGGCTTTGAAAGGGGTGCCACTTTCT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAA-AGGTGCCACTGACT
* * *
942317 TATGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTT-AAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAA-GGTGCCACTGACT
*
942374 TGCAT-GGC-TTG--AAGGGTG-CACTGACTTGT-GGCTTTGAAAGGGGTGCCACTGACT
1 TG--TGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAA-AGGTGCCACTGACT
*
942428 TGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACT
* * *
942484 TGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGTGCCATTGACT
1 TGTGGGCTTTGAAAAG-GGTGCCACTGACT--TGTGGGCTTTGAAAAG-GTGCCACTGACT
* * *
942545 TATGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCTACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACT
942601 TGTGGGCTTT-AAAAGGGGTGCCACTGACTTGTGGGCTTTGAAA
1 TGTGGGCTTTGAAAA-GGGTGCCACTGACTTGTGGGCTTTGAAA
942644 GGATTTGAAC
Statistics
Matches: 431, Mismatches: 47, Indels: 53
0.81 0.09 0.10
Matches are distributed among these distances:
52 1 0.00
53 9 0.02
54 31 0.07
55 13 0.03
56 66 0.15
57 117 0.27
58 81 0.19
59 22 0.05
60 34 0.08
61 32 0.07
62 12 0.03
63 13 0.03
ACGTcount: A:0.20, C:0.17, G:0.33, T:0.30
Consensus pattern (57 bp):
TGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACT
Found at i:945047 original size:16 final size:16
Alignment explanation
Indices: 945028--945069 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
945018 AGTACGAGTT
945028 ATTTTGAGTTCAACTC
1 ATTTTGAGTTCAACTC
* *
945044 A-TTTCATGTTCAAGTC
1 ATTTTGA-GTTCAACTC
945060 ATTTTGAGTT
1 ATTTTGAGTT
945070 TGGATAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
15 4 0.19
16 13 0.62
17 4 0.19
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.48
Consensus pattern (16 bp):
ATTTTGAGTTCAACTC
Found at i:946895 original size:12 final size:11
Alignment explanation
Indices: 946878--946945 Score: 55
Period size: 12 Copynumber: 5.7 Consensus size: 11
946868 ATTTGAGTCG
946878 ATTTAAATTATT
1 ATTTAAA-TATT
*
946890 ATTTAAATTTT
1 ATTTAAATATT
946901 ATTATAAATATT
1 ATT-TAAATATT
* *
946913 AATATAAAAATT
1 -ATTTAAATATT
*
946925 ATTTTAAAAATT
1 A-TTTAAATATT
946937 ATTTTAAAT
1 A-TTTAAAT
946946 TATAAAATAA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
11 7 0.15
12 38 0.81
13 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
ATTTAAATATT
Found at i:947552 original size:15 final size:16
Alignment explanation
Indices: 947534--947569 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
947524 TTTAAAAATT
*
947534 AAAAATTT-AAATTTA
1 AAAAATTTGAAATCTA
947549 AAAAATTTGAAATCTA
1 AAAAATTTGAAATCTA
947565 AAAAA
1 AAAAA
947570 AACTTAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (16 bp):
AAAAATTTGAAATCTA
Found at i:951000 original size:27 final size:27
Alignment explanation
Indices: 950970--951027 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
950960 AATTATATTG
* *
950970 TAAAATTAATTATTATAATAATAAAAT
1 TAAAATTAATAATAATAATAATAAAAT
** *
950997 TAAAATTTGTAATAATAATATTAAAAT
1 TAAAATTAATAATAATAATAATAAAAT
951024 TAAA
1 TAAA
951028 GATAAATATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (27 bp):
TAAAATTAATAATAATAATAATAAAAT
Found at i:951009 original size:21 final size:21
Alignment explanation
Indices: 950985--951024 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
950975 TTAATTATTA
950985 TAATAATAAAATTAAAATTTG
1 TAATAATAAAATTAAAATTTG
*
951006 TAATAATAATATTAAAATT
1 TAATAATAAAATTAAAATT
951025 AAAGATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (21 bp):
TAATAATAAAATTAAAATTTG
Found at i:951164 original size:35 final size:34
Alignment explanation
Indices: 951117--951209 Score: 100
Period size: 35 Copynumber: 2.6 Consensus size: 34
951107 ATATATGTAA
*
951117 TAAATAAAAAAATATTAAA-AAAATTATATTTATA-T
1 TAAATAATAAAATA-TAAATAAAATTATA-TTA-AGT
951152 TAAATAATAAAATATAAATTAAAATTATATTAAGT
1 TAAATAATAAAATATAAA-TAAAATTATATTAAGT
951187 TAAATAATATTAAATAATAAATA
1 TAAATAATA--AAAT-ATAAATA
951210 TTTAAAATAA
Statistics
Matches: 51, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
34 5 0.10
35 26 0.51
36 9 0.18
37 6 0.12
38 5 0.10
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (34 bp):
TAAATAATAAAATATAAATAAAATTATATTAAGT
Found at i:953952 original size:16 final size:15
Alignment explanation
Indices: 953931--953961 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
953921 TAATCATAAT
953931 AAAATATTAATAATTA
1 AAAATATTAA-AATTA
953947 AAAATATTAAAATTA
1 AAAATATTAAAATTA
953962 CTTAGATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AAAATATTAAAATTA
Found at i:953957 original size:24 final size:25
Alignment explanation
Indices: 953897--953959 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
953887 TTAAAAATAT
*
953897 AAATATAATAAATATTATCATAATTAA
1 AAATATTA-AAATATTA-CATAATTAA
** *
953924 TCATAATAAAATATTA-ATAATTAA
1 AAATATTAAAATATTACATAATTAA
953948 AAATATTAAAAT
1 AAATATTAAAAT
953960 TACTTAGATA
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
24 17 0.59
26 8 0.28
27 4 0.14
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (25 bp):
AAATATTAAAATATTACATAATTAA
Found at i:954961 original size:12 final size:12
Alignment explanation
Indices: 954944--954968 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
954934 TATTTTGATT
954944 TAAAAAAACTAC
1 TAAAAAAACTAC
954956 TAAAAAAACTAC
1 TAAAAAAACTAC
954968 T
1 T
954969 TTCTTTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.16, G:0.00, T:0.20
Consensus pattern (12 bp):
TAAAAAAACTAC
Found at i:955344 original size:17 final size:17
Alignment explanation
Indices: 955322--955360 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
955312 ATCAAAACAA
*
955322 TAAAAA-TAAGAATAATT
1 TAAAAATTAA-AAAAATT
955339 TAAAAATTAAAAAAATT
1 TAAAAATTAAAAAAATT
955356 TAAAA
1 TAAAA
955361 CGTTGAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (17 bp):
TAAAAATTAAAAAAATT
Found at i:956226 original size:20 final size:20
Alignment explanation
Indices: 956180--956233 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
956170 TTACCACTGT
** *
956180 TTGTATCGATACATGGTACA
1 TTGTATCGATACATAATAAA
*
956200 TTATATCGATACATAATAAA
1 TTGTATCGATACATAATAAA
*
956220 TTGTATCTATACAT
1 TTGTATCGATACAT
956234 TGCTTCAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATAATAAA
Found at i:957826 original size:3 final size:3
Alignment explanation
Indices: 957812--957850 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
957802 ACTATCAAAA
* *
957812 ATG ATG AAG ATG ATG ATG ATG ATG ATG ATA ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
957851 TTGACTCGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (3 bp):
ATG
Found at i:967834 original size:68 final size:68
Alignment explanation
Indices: 967721--967864 Score: 207
Period size: 68 Copynumber: 2.1 Consensus size: 68
967711 AGGGTGAGAA
* * * * * * *
967721 TATGGCATGCTTGGGGAATGAGGTTTGGGTGTTTGATGCTGTTTCGGCTGAAATCAGCTAGCATA
1 TATGGCATGCTTAGGGAATGAGGGTTGGGTGTTTGACGCTATTTCGACTAAAATAAGCTAGCATA
967786 GCT
66 GCT
* *
967789 TATGGCATGCTTAGGTAATGAGGGTTGGGTGTTTGACGCTATTTCGACTAAAATAAGCTAGTATA
1 TATGGCATGCTTAGGGAATGAGGGTTGGGTGTTTGACGCTATTTCGACTAAAATAAGCTAGCATA
967854 GCT
66 GCT
967857 TATGGCAT
1 TATGGCAT
967865 TGGCTTCTTC
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.23, C:0.12, G:0.31, T:0.34
Consensus pattern (68 bp):
TATGGCATGCTTAGGGAATGAGGGTTGGGTGTTTGACGCTATTTCGACTAAAATAAGCTAGCATA
GCT
Found at i:971375 original size:20 final size:20
Alignment explanation
Indices: 971333--971382 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
971323 TCTTTTTCAA
*
971333 GTATCGATACAATGCAACAT
1 GTATCGATACAATGAAACAT
* **
971353 GTATCGATACAATTAAATGT
1 GTATCGATACAATGAAACAT
971373 GTATCGATAC
1 GTATCGATAC
971383 TTTTCAGGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (20 bp):
GTATCGATACAATGAAACAT
Found at i:973672 original size:20 final size:21
Alignment explanation
Indices: 973643--973683 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
973633 TGTTTTTGAA
973643 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
973662 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
973684 AAGAATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:973823 original size:13 final size:13
Alignment explanation
Indices: 973805--973843 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
973795 ATAATCCCCT
*
973805 TGTATCGATACAG
1 TGTATCGATACAA
973818 TGTATCGATACAA
1 TGTATCGATACAA
973831 TGTATCGATACAA
1 TGTATCGATACAA
973844 AGAATACTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:975937 original size:15 final size:15
Alignment explanation
Indices: 975917--975947 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
975907 ATTTCGTTTG
*
975917 GAGCTTCTTCAATTT
1 GAGCTTCCTCAATTT
975932 GAGCTTCCTCAATTT
1 GAGCTTCCTCAATTT
975947 G
1 G
975948 GATATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (15 bp):
GAGCTTCCTCAATTT
Found at i:980047 original size:19 final size:20
Alignment explanation
Indices: 980004--980054 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
979994 TACAAGCCAA
*
980004 TGTATCGATACATTTTATGG
1 TGTATCGATACATCTTATGG
980024 TGTATCGATACATACTT-T-G
1 TGTATCGATACAT-CTTATGG
*
980043 TGTATTGATACA
1 TGTATCGATACA
980055 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 12 0.43
20 14 0.50
21 2 0.07
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATCTTATGG
Found at i:980145 original size:13 final size:13
Alignment explanation
Indices: 980127--980154 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
980117 ACAATGCAAC
980127 ATGTATCGATACA
1 ATGTATCGATACA
980140 ATGTATCGATACA
1 ATGTATCGATACA
980153 AT
1 AT
980155 TAAATGTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:980165 original size:33 final size:33
Alignment explanation
Indices: 980109--980171 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
980099 TCTTTTTCAA
*
980109 GTATCGATACAATGCAACATGTATCGATACAAT
1 GTATCGATACAATGAAACATGTATCGATACAAT
* **
980142 GTATCGATACAATTAAATGTGTATCGATAC
1 GTATCGATACAATGAAACATGTATCGATAC
980172 TTTTCAGGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (33 bp):
GTATCGATACAATGAAACATGTATCGATACAAT
Found at i:986833 original size:13 final size:13
Alignment explanation
Indices: 986815--986841 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
986805 ACATTATGCT
986815 TTGTATCGATACA
1 TTGTATCGATACA
986828 TTGTATCGATACA
1 TTGTATCGATACA
986841 T
1 T
986842 GCACAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:988550 original size:3 final size:3
Alignment explanation
Indices: 988535--988565 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
988525 AACCATCAAA
*
988535 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
988566 TTGACTCGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:993108 original size:13 final size:13
Alignment explanation
Indices: 993090--993116 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
993080 GAAAAACCCA
993090 AATGTATCGATAC
1 AATGTATCGATAC
993103 AATGTATCGATAC
1 AATGTATCGATAC
993116 A
1 A
993117 TGGGTTACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:995547 original size:13 final size:13
Alignment explanation
Indices: 995529--995554 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
995519 CACATCCAGA
995529 TGTATCGATACAT
1 TGTATCGATACAT
995542 TGTATCGATACAT
1 TGTATCGATACAT
995555 GTTCATTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:995585 original size:20 final size:19
Alignment explanation
Indices: 995539--995595 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
995529 TGTATCGATA
*
995539 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGAT
995558 CATTGTATCGATACATGCAT
1 CATTGTATCGATACATG-AT
995578 -AGTTGTATCGATACATGA
1 CA-TTGTATCGATACATGA
995596 AACTCGCAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
19 19 0.54
20 16 0.46
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.37
Consensus pattern (19 bp):
CATTGTATCGATACATGAT
Found at i:1000253 original size:13 final size:13
Alignment explanation
Indices: 1000235--1000259 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1000225 TTTTCCAGAT
1000235 TGTATCGATACAA
1 TGTATCGATACAA
1000248 TGTATCGATACA
1 TGTATCGATACA
1000260 TTACTTCAGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1001933 original size:13 final size:13
Alignment explanation
Indices: 1001915--1001940 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1001905 TACAGCAAGT
1001915 ATGTATCGATACA
1 ATGTATCGATACA
1001928 ATGTATCGATACA
1 ATGTATCGATACA
1001941 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1005513 original size:27 final size:27
Alignment explanation
Indices: 1005477--1005549 Score: 128
Period size: 27 Copynumber: 2.7 Consensus size: 27
1005467 TTTATTCACA
1005477 GGGATACTCCAACCTCATTCTTTCGAG
1 GGGATACTCCAACCTCATTCTTTCGAG
*
1005504 GGGATACTCCAACCTCATTCTTTCGCG
1 GGGATACTCCAACCTCATTCTTTCGAG
*
1005531 GGGATGCTCCAACCTCATT
1 GGGATACTCCAACCTCATT
1005550 TTTAAACTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.29
Consensus pattern (27 bp):
GGGATACTCCAACCTCATTCTTTCGAG
Found at i:1007642 original size:79 final size:79
Alignment explanation
Indices: 1007540--1007748 Score: 226
Period size: 79 Copynumber: 2.6 Consensus size: 79
1007530 GGAGTATCCC
* * *
1007540 CAAAAATAACGGGGTTGAAGTATCCCTGATGGTGAAAAATCAATGTTTTAAAAATAAAATC-AAG
1 CAAAAATAACGAGGTTG-AGTATCCCCGATGGTGAAAAATCAATGTTTTAAAAATAAAAACTAAG
*
1007604 GTTGGAGTA-TCTCCT
65 GTTGGACTATTCT-CT
* * * * * * **
1007619 TAGAAATAACGAGGTTAGAGTATCCCCAATTGTGAAAAATTAATTTTTTAAAAATAAAAACTGGG
1 CAAAAATAACGAGGTT-GAGTATCCCCGATGGTGAAAAATCAATGTTTTAAAAATAAAAACTAAG
1007684 GTTGGACTATTCTCT
65 GTTGGACTATTCTCT
* *
1007699 CAAAAATAAC-AGGGTTGGAGTATCCCCGATGGTGGAAAATCGATGTTTTA
1 CAAAAATAACGA-GGTT-GAGTATCCCCGATGGTGAAAAATCAATGTTTTA
1007749 GAACCGGGTT
Statistics
Matches: 105, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
79 51 0.49
80 51 0.49
81 3 0.03
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (79 bp):
CAAAAATAACGAGGTTGAGTATCCCCGATGGTGAAAAATCAATGTTTTAAAAATAAAAACTAAGG
TTGGACTATTCTCT
Found at i:1007773 original size:44 final size:44
Alignment explanation
Indices: 1007710--1007810 Score: 184
Period size: 44 Copynumber: 2.3 Consensus size: 44
1007700 AAAAATAACA
1007710 GGGTTGGAGTATCCCCGATGGTGGAAAATCGATGTTTTAGAACC
1 GGGTTGGAGTATCCCCGATGGTGGAAAATCGATGTTTTAGAACC
* *
1007754 GGGTTGGAGTATCCTCGATGGTGGAAAATCTATGTTTTAGAACC
1 GGGTTGGAGTATCCCCGATGGTGGAAAATCGATGTTTTAGAACC
1007798 GGGTTGGAGTATC
1 GGGTTGGAGTATC
1007811 TCCTCGAAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.24, C:0.14, G:0.33, T:0.30
Consensus pattern (44 bp):
GGGTTGGAGTATCCCCGATGGTGGAAAATCGATGTTTTAGAACC
Found at i:1007897 original size:50 final size:49
Alignment explanation
Indices: 1007816--1007942 Score: 164
Period size: 50 Copynumber: 2.5 Consensus size: 49
1007806 GTATCTCCTC
* * * * *
1007816 GAAAATAACGGGGTTGGAGTATCACCGATGGTGGAACATCGATGTTTTA
1 GAAAAAAACGGGGTTGGAGTATCCCCAATGGTGAAAAATCGATGTTTTA
*
1007865 GAAAAAAATCGGGGTTGGAGTATCCCCAATGGTGAAAAATCGATGTTTTG
1 GAAAAAAA-CGGGGTTGGAGTATCCCCAATGGTGAAAAATCGATGTTTTA
*
1007915 GAAATAAAACCGAGGTTGGAGTATCCCC
1 GAAA-AAAA-CGGGGTTGGAGTATCCCC
1007943 TCGAAAATAA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
49 7 0.10
50 40 0.59
51 21 0.31
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.24
Consensus pattern (49 bp):
GAAAAAAACGGGGTTGGAGTATCCCCAATGGTGAAAAATCGATGTTTTA
Found at i:1007965 original size:79 final size:79
Alignment explanation
Indices: 1007865--1008319 Score: 528
Period size: 79 Copynumber: 5.7 Consensus size: 79
1007855 CGATGTTTTA
* * *
1007865 GAAAAAAATCGGGGTTGGAGTATCCCCAATGGTGAAAAATC-GATGTTTTGGAAATAAAACCGAG
1 GAAAATAA-CGGGGTTGGAGTATCCCCGATTGTGAAAAATCAG-TGTTTTGGAAATAAAACCGAG
1007929 GTTGGAGTATCCCCTC
64 GTTGGAGTATCCCCTC
* * * *
1007945 GAAAATAACGGGGTTGGAGTATCCACGATTGTGGAAAATCAGTGTTTTAGAAATAAAATC-AGGG
1 GAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTGTTTTGGAAATAAAACCGA-GG
*
1008009 TTGGAGTATCTCCTC
65 TTGGAGTATCCCCTC
* * * * * *
1008024 GAAAATAATGGGGTTGGAGTATTCTCGATTGT-AGAAAATCAGTATTTTGAAAATAAAACCGAAG
1 GAAAATAACGGGGTTGGAGTATCCCCGATTGTGA-AAAATCAGTGTTTTGGAAATAAAACCGAGG
*
1008088 TTGGAGTATCCTCT-
65 TTGGAGTATCCCCTC
* * **
1008102 TAGAAATAACGGGGTTGGAGTATCGCTAATTTGTGAAAAATCAGTGTTTTGGAAATAAAACCGAG
1 GA-AAATAACGGGGTTGGAGTATCCCCGA-TTGTGAAAAATCAGTGTTTTGGAAATAAAACCGAG
1008167 GTTGGAGTATCCCCTC
64 GTTGGAGTATCCCCTC
* * *
1008183 -AGAAATAACAGGGTTGGAGTATCCCTGATTGTGGAAAATC-GATGTTTTGGAAATAAAACC-AG
1 GA-AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAG-TGTTTTGGAAATAAAACCGA-
*
1008245 GGTTGGAGTATCCCCTT
63 GGTTGGAGTATCCCCTC
* * * * *
1008262 GAAAATAACAGGGTTGGAGTATCCCTGATTGTGAAAAATCGGTATTTTAGAAATAAAA
1 GAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTGTTTTGGAAATAAAA
1008320 ACATCAATGA
Statistics
Matches: 325, Mismatches: 38, Indels: 25
0.84 0.10 0.06
Matches are distributed among these distances:
78 4 0.01
79 240 0.74
80 80 0.25
81 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (79 bp):
GAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTGTTTTGGAAATAAAACCGAGGT
TGGAGTATCCCCTC
Found at i:1008179 original size:238 final size:237
Alignment explanation
Indices: 1007874--1008319 Score: 663
Period size: 238 Copynumber: 1.9 Consensus size: 237
1007864 AGAAAAAAAT
1007874 CGGGGTTGGAGTATCCCCAATGGTGAAAAATCGATGTTTTGGAAATAAAACCGAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATGGTGAAAAATCGATGTTTTGGAAATAAAACCGAGGTTGGAGTAT
*
1007939 CCCCTC-GAAAATAACGGGGTTGGAGTATCCAC-GATTGTGGAAAATC-AGTGTTTTAGAAATAA
66 CCCCTCAG-AAATAACAGGGTTGGAGTATCC-CTGATTGTGGAAAATCGA-TGTTTTAGAAATAA
* * ** *
1008001 AATCAGGGTTGGAGTATCTCCTCGAAAATAATGGGGTTGGAGTAT-TCTCGATTGT-AGAAAATC
128 AACCAGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCT-GATTGTGA-AAAATC
1008064 AGTATTTT-GAAAATAAAACCGAAGTTGGAGTATCCTCTTAGAAATAA
191 AGTATTTTAG-AAATAAAACCGAAGTTGGAGTATCCTCTTAGAAATAA
* * *
1008111 CGGGGTTGGAGTATCGCTAATTTGTGAAAAATC-AGTGTTTTGGAAATAAAACCGAGGTTGGAGT
1 CGGGGTTGGAGTATCCCCAA-TGGTGAAAAATCGA-TGTTTTGGAAATAAAACCGAGGTTGGAGT
*
1008175 ATCCCCTCAGAAATAACAGGGTTGGAGTATCCCTGATTGTGGAAAATCGATGTTTTGGAAATAAA
64 ATCCCCTCAGAAATAACAGGGTTGGAGTATCCCTGATTGTGGAAAATCGATGTTTTAGAAATAAA
* *
1008240 ACCAGGGTTGGAGTATCCCCTTGAAAATAACAGGGTTGGAGTATCCCTGATTGTGAAAAATCGGT
129 ACCAGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCTGATTGTGAAAAATCAGT
1008305 ATTTTAGAAATAAAA
194 ATTTTAGAAATAAAA
1008320 ACATCAATGA
Statistics
Matches: 189, Mismatches: 12, Indels: 15
0.88 0.06 0.07
Matches are distributed among these distances:
237 20 0.11
238 163 0.86
239 6 0.03
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (237 bp):
CGGGGTTGGAGTATCCCCAATGGTGAAAAATCGATGTTTTGGAAATAAAACCGAGGTTGGAGTAT
CCCCTCAGAAATAACAGGGTTGGAGTATCCCTGATTGTGGAAAATCGATGTTTTAGAAATAAAAC
CAGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCTGATTGTGAAAAATCAGTAT
TTTAGAAATAAAACCGAAGTTGGAGTATCCTCTTAGAAATAA
Found at i:1008321 original size:159 final size:158
Alignment explanation
Indices: 1007876--1008322 Score: 566
Period size: 159 Copynumber: 2.8 Consensus size: 158
1007866 AAAAAAATCG
** * *
1007876 GGGTTGGAGTATCCCCAATGGTGAAAAATCGATGTTTTGGAAATAAAACCGAGGTTGGAGTATCC
1 GGGTTGGAGTATCCCTGATTGTGGAAAATCGATGTTTTGGAAATAAAACCGAGGTTGGAGTATCC
* * *
1007941 CCTCGAAAATAACGGGGTTGGAGTATCCAC-GATTGTGGAAAATCAGTGTTTTAGAAATAAAATC
66 CCTTGAAAATAACGGGGTTGGAGTATCC-CTGATTGTGAAAAATCAGTGTTTTAGAAATAAAAAC
* **
1008005 AGGGTTGGAGTATCTCCTCGAAAATAATG
130 AGGGTTGGAGTATCCCCTCGAAAATAACA
* * * * *
1008034 GGGTTGGAGTAT-TCTCGATTGTAGAAAATC-AGTATTTTGAAAATAAAACCGAAGTTGGAGTAT
1 GGGTTGGAGTATCCCT-GATTGTGGAAAATCGA-TGTTTTGGAAATAAAACCGAGGTTGGAGTAT
* * * *
1008097 CCTCTT-AGAAATAACGGGGTTGGAGTATCGCTAATTTGTGAAAAATCAGTGTTTTGGAAAT-AA
64 CCCCTTGA-AAATAACGGGGTTGGAGTATCCCTGA-TTGTGAAAAATCAGTGTTTTAGAAATAAA
*
1008160 AACCGAGGTTGGAGTATCCCCTC-AGAAATAACA
127 AACAG-GGTTGGAGTATCCCCTCGA-AAATAACA
1008193 GGGTTGGAGTATCCCTGATTGTGGAAAATCGATGTTTTGGAAATAAAACC-AGGGTTGGAGTATC
1 GGGTTGGAGTATCCCTGATTGTGGAAAATCGATGTTTTGGAAATAAAACCGA-GGTTGGAGTATC
* * *
1008257 CCCTTGAAAATAACAGGGTTGGAGTATCCCTGATTGTGAAAAATCGGTATTTTAGAAATAAAAAC
65 CCCTTGAAAATAACGGGGTTGGAGTATCCCTGATTGTGAAAAATCAGTGTTTTAGAAATAAAAAC
1008322 A
130 A
1008323 TCAATGAGAT
Statistics
Matches: 244, Mismatches: 33, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
157 4 0.02
158 106 0.43
159 130 0.53
160 4 0.02
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (158 bp):
GGGTTGGAGTATCCCTGATTGTGGAAAATCGATGTTTTGGAAATAAAACCGAGGTTGGAGTATCC
CCTTGAAAATAACGGGGTTGGAGTATCCCTGATTGTGAAAAATCAGTGTTTTAGAAATAAAAACA
GGGTTGGAGTATCCCCTCGAAAATAACA
Found at i:1010739 original size:50 final size:50
Alignment explanation
Indices: 1010675--1010790 Score: 171
Period size: 50 Copynumber: 2.3 Consensus size: 50
1010665 AAAAATGCTT
* * * *
1010675 GAATGTATCGATACATTG-AGAAATGTATCGATACATTTGGGTAAAACCTA
1 GAATGTATCGATACAATGAAG-AATGTATCAATACATCTGGGTAAAACCCA
1010725 GAATGTATCGATACAATGAAGAATGTATCAATACATCTGGGTAAAACCCA
1 GAATGTATCGATACAATGAAGAATGTATCAATACATCTGGGTAAAACCCA
*
1010775 TAATGTATCGATACAA
1 GAATGTATCGATACAA
1010791 ATTATGAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
50 58 0.97
51 2 0.03
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.28
Consensus pattern (50 bp):
GAATGTATCGATACAATGAAGAATGTATCAATACATCTGGGTAAAACCCA
Found at i:1013696 original size:52 final size:52
Alignment explanation
Indices: 1013614--1013718 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 52
1013604 AATCTCATTT
*
1013614 TCACTATTTATCACTGTTCATGTATCGATACATTATGAATAGTATCGATACA
1 TCACTATTCATCACTGTTCATGTATCGATACATTATGAATAGTATCGATACA
*
1013666 TCACTATTCATCACTGTTCATGTATTGATACATTATGAATAGTATCGATACA
1 TCACTATTCATCACTGTTCATGTATCGATACATTATGAATAGTATCGATACA
1013718 T
1 T
1013719 TGAGTCCAAC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.39
Consensus pattern (52 bp):
TCACTATTCATCACTGTTCATGTATCGATACATTATGAATAGTATCGATACA
Found at i:1014204 original size:26 final size:26
Alignment explanation
Indices: 1014175--1014228 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
1014165 CTATCTTAGC
* *
1014175 CTTTGAAAAAGATAGGGAGAGAGGTT
1 CTTTGAAAAAGATAGAGAGAGAAGTT
1014201 CTTTGAAAAAGATAGAGAGAGAAGTT
1 CTTTGAAAAAGATAGAGAGAGAAGTT
1014227 CT
1 CT
1014229 ATCTTAGCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.41, C:0.06, G:0.30, T:0.24
Consensus pattern (26 bp):
CTTTGAAAAAGATAGAGAGAGAAGTT
Found at i:1014275 original size:31 final size:30
Alignment explanation
Indices: 1014221--1014280 Score: 86
Period size: 32 Copynumber: 2.0 Consensus size: 30
1014211 GATAGAGAGA
*
1014221 GAAGTTCTATCTTAGCTCGTGAAAAGATAGG
1 GAAGTTCTATCTTAGCTCATGAAAA-ATAGG
1014252 GAAGTTTCTATCTTAGC-CATGAAAAATAG
1 GAAG-TTCTATCTTAGCTCATGAAAAATAG
1014281 TGTTGTAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 4 0.15
31 11 0.41
32 12 0.44
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (30 bp):
GAAGTTCTATCTTAGCTCATGAAAAATAGG
Found at i:1018917 original size:2 final size:2
Alignment explanation
Indices: 1018910--1018944 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1018900 TCTTTCAAAC
1018910 TA TA TA TA TA 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 TA TA TA TA TA T
1018945 TACTATATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1020613 original size:20 final size:20
Alignment explanation
Indices: 1020585--1020623 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1020575 GGAAATAGAG
* *
1020585 AATTGTGTTTTTAGGAATGC
1 AATTATGTTATTAGGAATGC
*
1020605 AATTATGTTATTATGAATG
1 AATTATGTTATTAGGAATG
1020624 TGCATATAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.46
Consensus pattern (20 bp):
AATTATGTTATTAGGAATGC
Found at i:1020648 original size:20 final size:20
Alignment explanation
Indices: 1020623--1020660 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1020613 TATTATGAAT
1020623 GTGCATATAAAAGACTAAAC
1 GTGCATATAAAAGACTAAAC
1020643 GTGCATATAAAAGACTAA
1 GTGCATATAAAAGACTAA
1020661 GCAAGCATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.21
Consensus pattern (20 bp):
GTGCATATAAAAGACTAAAC
Found at i:1020668 original size:20 final size:20
Alignment explanation
Indices: 1020625--1020668 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1020615 TTATGAATGT
**
1020625 GCATATAAAAGACTAAACGT
1 GCATATAAAAGACTAAACAA
*
1020645 GCATATAAAAGACTAAGCAA
1 GCATATAAAAGACTAAACAA
1020665 GCAT
1 GCAT
1020669 GTAATAAGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.18
Consensus pattern (20 bp):
GCATATAAAAGACTAAACAA
Found at i:1024714 original size:16 final size:16
Alignment explanation
Indices: 1024673--1024715 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
1024663 ACTTATTAAA
1024673 ATTAATTCTTTAAAAAT
1 ATTAATT-TTTAAAAAT
* *
1024690 ATTTTATTTTTAAAATT
1 A-TTAATTTTTAAAAAT
1024707 ATTAATTTT
1 ATTAATTTT
1024716 AAAGTTCGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 7 0.32
17 10 0.45
18 5 0.23
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTAATTTTTAAAAAT
Found at i:1032886 original size:24 final size:24
Alignment explanation
Indices: 1032846--1032892 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1032836 TATATTTTAA
* *
1032846 TAAATTTATTTAGAATATAAGTAT
1 TAAATTTATTGAGAATACAAGTAT
*
1032870 TAAATTTATTGATAATACAAGTA
1 TAAATTTATTGAGAATACAAGTA
1032893 ATCATGTTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.43
Consensus pattern (24 bp):
TAAATTTATTGAGAATACAAGTAT
Found at i:1033359 original size:2 final size:2
Alignment explanation
Indices: 1033354--1033385 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1033344 GTAATAGGCT
1033354 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1033386 AAGAAATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1035434 original size:20 final size:20
Alignment explanation
Indices: 1035409--1035459 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
1035399 GTTGGGCTTA
*
1035409 ATGTATCGATACATTTCATC
1 ATGTATCGATACAATTCATC
1035429 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCATC
1035449 ATGTATCGATA
1 ATGTATCGATA
1035460 TAATGTATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACAATTCATC
Found at i:1035547 original size:19 final size:20
Alignment explanation
Indices: 1035523--1035571 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
1035513 TATTTCAAGG
1035523 TGTATCGATACCAAG-AACA
1 TGTATCGATACCAAGCAACA
* *
1035542 TGTATCGATACTAAGCAATA
1 TGTATCGATACCAAGCAACA
1035562 TGTATCGATA
1 TGTATCGATA
1035572 TATCTGGGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (20 bp):
TGTATCGATACCAAGCAACA
Found at i:1036281 original size:19 final size:19
Alignment explanation
Indices: 1036259--1036317 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 19
1036249 AAAAAAATCC
1036259 CTCTTTTATAAAACTAATA
1 CTCTTTTATAAAACTAATA
*
1036278 CTCTTCCTTA-AAAA--AATCC
1 CTCTT--TTATAAAACTAAT-A
*
1036297 CTCTTTTATAAAACTCATA
1 CTCTTTTATAAAACTAATA
1036316 CT
1 CT
1036318 TCTTCTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 12
0.67 0.07 0.26
Matches are distributed among these distances:
17 3 0.10
18 7 0.23
19 12 0.39
20 6 0.19
21 3 0.10
ACGTcount: A:0.37, C:0.24, G:0.00, T:0.39
Consensus pattern (19 bp):
CTCTTTTATAAAACTAATA
Found at i:1036300 original size:38 final size:39
Alignment explanation
Indices: 1036234--1036322 Score: 153
Period size: 38 Copynumber: 2.3 Consensus size: 39
1036224 ACAAAATATT
1036234 TAATACTCTTCCTTAAAAAAAATCCCTCTTTTATAAAAC
1 TAATACTCTTCCTTAAAAAAAATCCCTCTTTTATAAAAC
1036273 TAATACTCTTCCTT-AAAAAAATCCCTCTTTTATAAAAC
1 TAATACTCTTCCTTAAAAAAAATCCCTCTTTTATAAAAC
*
1036311 TCATACTTCTTC
1 TAATAC-TCTTC
1036323 TTTTTAATAA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
38 29 0.60
39 19 0.40
ACGTcount: A:0.37, C:0.25, G:0.00, T:0.38
Consensus pattern (39 bp):
TAATACTCTTCCTTAAAAAAAATCCCTCTTTTATAAAAC
Found at i:1042867 original size:3 final size:3
Alignment explanation
Indices: 1042859--1042892 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
1042849 CGAGTCAACT
*
1042859 TCA TCA TCA TCA TCA TCA TCA TCA TCT TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1042893 ATATTAATGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.38
Consensus pattern (3 bp):
TCA
Found at i:1045890 original size:51 final size:51
Alignment explanation
Indices: 1045746--1045890 Score: 184
Period size: 51 Copynumber: 2.8 Consensus size: 51
1045736 AAATAACGAG
* * * *
1045746 GTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAGAAATTGGTG-TTTTGGAAATAAAATCAGA
* *
1045798 GTTGGAGTATCCCCGATTATG-GCAAATGGGTGTTTTAGAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTATGAG-AAATTGGTGTTTTGGAAATAAAATCAGA
* * *
1045849 GTTGGAGTATCCCCGATTAAGAGAAATTGATGTTTCGGAAAT
1 GTTGGAGTATCCCCGATTATGAGAAATTGGTGTTTTGGAAAT
1045891 GAAACCAGGA
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
51 52 0.65
52 28 0.35
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAGAAATTGGTGTTTTGGAAATAAAATCAGA
Found at i:1046134 original size:51 final size:51
Alignment explanation
Indices: 1046033--1046153 Score: 156
Period size: 51 Copynumber: 2.4 Consensus size: 51
1046023 GATTAACGGG
* * *
1046033 GTTGGAGTATCCCCGATGAAAAAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAAAAAAATTAGTG-TTTTTGAAAATAAAATCGGA
*
1046085 GTTGGAGTATCCCCGATTATAGAAAATTAGTG-TTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTA-AAAAAATTAGTGTTTTTGAAAATAAAATCGGA
*
1046136 G-TGAGAATATCCCCGATT
1 GTTG-GAGTATCCCCGATT
1046154 GCGGAGAATT
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
50 2 0.03
51 32 0.52
52 18 0.29
53 10 0.16
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTAAAAAAATTAGTGTTTTTGAAAATAAAATCGGA
Found at i:1046605 original size:11 final size:12
Alignment explanation
Indices: 1046580--1046608 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
1046570 GGATTTCATG
1046580 AAAATGTTGGAA
1 AAAATGTTGGAA
1046592 AAAATGTTGGAA
1 AAAATGTTGGAA
1046604 AAAAT
1 AAAAT
1046609 CAAAAATATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.21, T:0.24
Consensus pattern (12 bp):
AAAATGTTGGAA
Found at i:1048533 original size:13 final size:13
Alignment explanation
Indices: 1048515--1048540 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1048505 CAAAGAATAG
1048515 ATGTATCGATACA
1 ATGTATCGATACA
1048528 ATGTATCGATACA
1 ATGTATCGATACA
1048541 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1048533 original size:34 final size:33
Alignment explanation
Indices: 1048494--1048624 Score: 99
Period size: 33 Copynumber: 4.0 Consensus size: 33
1048484 AACTTCCTAG
* *
1048494 ATGTATTGATACAAAGAATAGATGTATCGATACA
1 ATGTATCGATACAAAGAA-AAATGTATCGATACA
*
1048528 ATGTATCGATACACAGAAAAATGTATCGATAC-
1 ATGTATCGATACAAAGAAAAATGTATCGATACA
* * * **** *
1048560 A--TCTGGGTA-AACTTCTTAGATGTATCGATACA
1 ATGTATCGATACAA--AGAAAAATGTATCGATACA
*
1048592 ATGTATCGATACACAGAAAAATGTATCGATACA
1 ATGTATCGATACAAAGAAAAATGTATCGATACA
1048625 TTTCCTTGGC
Statistics
Matches: 70, Mismatches: 21, Indels: 13
0.67 0.20 0.12
Matches are distributed among these distances:
29 1 0.01
30 5 0.07
31 13 0.19
32 2 0.03
33 27 0.39
34 21 0.30
35 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAAAATGTATCGATACA
Found at i:1048597 original size:13 final size:13
Alignment explanation
Indices: 1048579--1048604 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1048569 AACTTCTTAG
1048579 ATGTATCGATACA
1 ATGTATCGATACA
1048592 ATGTATCGATACA
1 ATGTATCGATACA
1048605 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1048680 original size:19 final size:18
Alignment explanation
Indices: 1048656--1048718 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
1048646 AGTGATACAT
1048656 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
1048675 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1048688 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
1048707 TGTATCGATACA
1 TGTATCGATACA
1048719 TTTACTGAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:1048690 original size:32 final size:32
Alignment explanation
Indices: 1048649--1048720 Score: 135
Period size: 32 Copynumber: 2.2 Consensus size: 32
1048639 GCCTCCTAGT
1048649 GATACATTGTATCGATACAAAACTTATGTATC
1 GATACATTGTATCGATACAAAACTTATGTATC
*
1048681 GATACATTGTATCGATACAACACTTATGTATC
1 GATACATTGTATCGATACAAAACTTATGTATC
1048713 GATACATT
1 GATACATT
1048721 TACTGAATGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (32 bp):
GATACATTGTATCGATACAAAACTTATGTATC
Found at i:1048693 original size:13 final size:13
Alignment explanation
Indices: 1048675--1048699 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1048665 ACAAAACTTA
1048675 TGTATCGATACAT
1 TGTATCGATACAT
1048688 TGTATCGATACA
1 TGTATCGATACA
1048700 ACACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1049401 original size:40 final size:42
Alignment explanation
Indices: 1049357--1049453 Score: 101
Period size: 42 Copynumber: 2.3 Consensus size: 42
1049347 CCACTTTTCA
* *
1049357 AGGACAAAGGAAAAG-AG-AATGAAATAG-GTCTTGCTCCTTG
1 AGGACAAAGGAAAAGAAGAAAAGAAA-AGTGTCCTGCTCCTTG
* * * *
1049397 AGGACCAAGGAAGAGAAGAAAAGGAAAGTGTCCTGCTTCTTG
1 AGGACAAAGGAAAAGAAGAAAAGAAAAGTGTCCTGCTCCTTG
1049439 AGGACAAAGTGAAAA
1 AGGACAAAG-GAAAA
1049454 AGAGTACGTC
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
40 13 0.29
41 4 0.09
42 24 0.53
43 4 0.09
ACGTcount: A:0.42, C:0.12, G:0.29, T:0.16
Consensus pattern (42 bp):
AGGACAAAGGAAAAGAAGAAAAGAAAAGTGTCCTGCTCCTTG
Found at i:1049632 original size:55 final size:55
Alignment explanation
Indices: 1049546--1050223 Score: 742
Period size: 55 Copynumber: 12.0 Consensus size: 55
1049536 ATAAAGTGTA
* * * * *
1049546 TCCTGCTCTTTGAGGACTAAAAAGTGTCACCAACTCGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
1049601 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
1049656 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* ** * *
1049711 TCCTGCTCTTTAAGGACTGAAAAATACCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * *
1049766 TCTTGCTCTTT-AGGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGA-GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCG
* *
1049827 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1049882 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
1049937 TCCTGCTCTTTGAGGACAGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
1049991 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCG
* * *
1050052 CCCTGCTCTTTGAGGACTG-AAGGTGCCACTAACTTGTGTAGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
* * * *
1050111 TCCTGCTCTTTGGGGACTGGAAA-ATGCCACCAACTTGTGCGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCG
* * *
1050172 TCCTGCTCTTTGAAGACTG-AAGGTGCCACCAACTTGTGTGGGATTTAAAAGG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
1050224 AAAAGGCATC
Statistics
Matches: 548, Mismatches: 47, Indels: 57
0.84 0.07 0.09
Matches are distributed among these distances:
54 55 0.10
55 285 0.52
56 16 0.03
59 34 0.06
60 72 0.13
61 85 0.16
62 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:1049681 original size:26 final size:26
Alignment explanation
Indices: 1049592--1049681 Score: 74
Period size: 26 Copynumber: 3.3 Consensus size: 26
1049582 GTGTGGGCTT
**
1049592 TGAAAGGCATCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGAGGAC
** * * *
1049618 TGAAAGGTG-CCACCAACTTGTGTGGGC
1 TGAAAGGTGTCCTGC-TCTT-TGAGGAC
1049645 TTTGAAAGGTGTCCTGCTCTTTGAGGAC
1 --TGAAAGGTGTCCTGCTCTTTGAGGAC
1049673 TGAAAGGTG
1 TGAAAGGTG
1049682 CCACCAACTT
Statistics
Matches: 47, Mismatches: 12, Indels: 10
0.68 0.17 0.14
Matches are distributed among these distances:
25 3 0.06
26 19 0.40
27 5 0.11
28 5 0.11
29 12 0.26
30 3 0.06
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGAGGAC
Found at i:1049862 original size:226 final size:223
Alignment explanation
Indices: 1049545--1050161 Score: 874
Period size: 226 Copynumber: 2.7 Consensus size: 223
1049535 AATAAAGTGT
* *
1049545 ATCCTGCTCTTTGAGGACTAAAAAGTGTCACCAACTCGTGTGGGCTTTG-AAAG---GCATCCTG
1 ATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAGCATCCTG
1049606 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGG
66 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGG
* *
1049671 ACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTAAGGACTGAAAA
131 ACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTAAGGACAG-AAA
*
1049734 ATACCACCAACTTGTGTGGGCTTTGAAAGGT
193 ATACCACCAACTTGTGTGGGCTTTGAAAGGC
* *
1049765 GTCTTGCTCTTT-AGGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGCATC
1 ATCCTGCTCTTTGA-GGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAG--AAAGCATC
*
1049829 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTG
63 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTG
*
1049894 AGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACAGAAA
128 AGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTAAGGACAGAAA
*
1049959 ATGCCACCAACTTGTGTGGGCTTTGAAAGGC
193 ATACCACCAACTTGTGTGGGCTTTGAAAGGC
* * **
1049990 ATCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCGCC
1 ATCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTCGTGTGGGCTTTGAAA--AGAAAGCATC
* * *
1050054 CTGCTCTTTGAGGACTG-AAGGTGCCACTAACTTGTGTAGGCTTTAAAAGAAAAGGCGTCCTGCT
63 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTCCTGCT
* *
1050118 CTTTGGGGACTGGAAAATGCCACCAACTTGTGCGGGCTTTGAAA
123 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAA
1050162 AGAAAAAGCA
Statistics
Matches: 357, Mismatches: 22, Indels: 27
0.88 0.05 0.07
Matches are distributed among these distances:
219 1 0.00
220 43 0.12
221 4 0.01
224 25 0.07
225 95 0.27
226 126 0.35
227 8 0.02
229 55 0.15
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (223 bp):
ATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAGCATCCTG
CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGG
ACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTAAGGACAGAAAATA
CCACCAACTTGTGTGGGCTTTGAAAGGC
Found at i:1049879 original size:29 final size:29
Alignment explanation
Indices: 1049846--1049936 Score: 73
Period size: 29 Copynumber: 3.2 Consensus size: 29
1049836 TTGAGGACTG
1049846 AAAGGTGCCACCAACTTGTGTGGGCTTTA
1 AAAGGTGCCACCAACTTGTGTGGGCTTTA
** * * * **
1049875 AAAGGTGTCCTGC-TCTT-TGAGGACTGGA
1 AAAGGTG-CCACCAACTTGTGTGGGCTTTA
*
1049903 AAA--TGCCACCAACTTGTGTGGGCTTTG
1 AAAGGTGCCACCAACTTGTGTGGGCTTTA
1049930 AAAGGTG
1 AAAGGTG
1049937 TCCTGCTCTT
Statistics
Matches: 42, Mismatches: 15, Indels: 10
0.63 0.22 0.15
Matches are distributed among these distances:
25 3 0.07
26 5 0.12
27 9 0.21
28 10 0.24
29 12 0.29
30 3 0.07
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (29 bp):
AAAGGTGCCACCAACTTGTGTGGGCTTTA
Found at i:1073044 original size:60 final size:57
Alignment explanation
Indices: 1072805--1073054 Score: 294
Period size: 57 Copynumber: 4.3 Consensus size: 57
1072795 GACCATCTTC
* * *
1072805 TCCTGCCTCTTGAGGACTGGAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCG
1 TCCTG-CTCTTGAGGACTGGAAATGCCACCAACTTGTGT-GGCTTT-AAAAGAAAAGGCA
* * *
1072865 TCCTGCTCTTGA-GACT-GAAGTGCCACTAACTTGTGTGGCTTTGAAA-AAAAGGCA
1 TCCTGCTCTTGAGGACTGGAAATGCCACCAACTTGTGTGGCTTTAAAAGAAAAGGCA
* *
1072919 TCCTGCTCTTGTGGACTGGAAAATGCCACCAACTTGTG-GGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTGAGGACTGG-AAATGCCACCAACTTGTGTGGCTTT-AAAAGAAAAGGCA
*
1072977 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGCATTTAAAAGGAAAAGGCA
1 TCCTGCTC-TTGAGGACTGGAA-ATGCCACCAACTTGTGTGGC-TTTAAAA-GAAAAGGCA
1073037 TCCTGCTCCTTGAGGACT
1 TCCTGCT-CTTGAGGACT
1073055 AAAAGCGAAA
Statistics
Matches: 165, Mismatches: 14, Indels: 22
0.82 0.07 0.11
Matches are distributed among these distances:
54 17 0.10
55 6 0.04
56 13 0.08
57 39 0.24
58 35 0.21
59 22 0.13
60 32 0.19
61 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (57 bp):
TCCTGCTCTTGAGGACTGGAAATGCCACCAACTTGTGTGGCTTTAAAAGAAAAGGCA
Found at i:1086538 original size:78 final size:78
Alignment explanation
Indices: 1086437--1086632 Score: 223
Period size: 78 Copynumber: 2.5 Consensus size: 78
1086427 AATAACAGGG
* * * * ** * *
1086437 TTGGAGTGTCCCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TTAG
1 TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTAG
*
1086501 AAAAAAAATCGGGA
65 AAAAAAAACCGGGA
*
1086515 TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATA-TTTAG
* * * *
1086580 GAATAAAGCCGGGG
65 AAAAAAAACCGGGA
**
1086594 TTGGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCC
1 TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCC
1086633 TCGATGAAAT
Statistics
Matches: 100, Mismatches: 16, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
77 1 0.01
78 50 0.50
79 49 0.49
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (78 bp):
TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGA
AAAAAAACCGGGA
Found at i:1086645 original size:28 final size:28
Alignment explanation
Indices: 1086589--1086665 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
1086579 GGAATAAAGC
**
1086589 CGGGGTTGGAGTATCCCCTCG--GAGGTAA
1 CGGGGTTGGAGTAT--CCTCGATGAAATAA
1086617 CGGGGTTGGAGTATCCTCGATGAAATAA
1 CGGGGTTGGAGTATCCTCGATGAAATAA
*
1086645 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCTCGAT
1086666 TGTGAAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 5 0.11
28 39 0.89
ACGTcount: A:0.22, C:0.18, G:0.35, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCTCGATGAAATAA
Found at i:1086786 original size:51 final size:51
Alignment explanation
Indices: 1086649--1086793 Score: 200
Period size: 51 Copynumber: 2.8 Consensus size: 51
1086639 AAATAACGAG
* *
1086649 GTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTG-TTTTGGAAATAAAATCGGA
* * *
1086701 GTTGGAGTATCCCCGATTATGAAAAATGGGTGTTTTAGAAATAAAATTGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
* * **
1086752 GTTGGAGTATCCCCGATTAAGAGAAATTAATGTTTTGGAAAT
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAAT
1086794 GAAACCGAGA
Statistics
Matches: 82, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
51 53 0.65
52 29 0.35
ACGTcount: A:0.33, C:0.08, G:0.26, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
Found at i:1086890 original size:27 final size:27
Alignment explanation
Indices: 1086828--1086905 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
1086818 GAATAAAGCA
*
1086828 GGGGTTGGAGTATCCCCTCGA-AAATAAC
1 GGGGTTGGAGTAT-CCC-CGATGAATAAC
* *
1086856 GGGATTGGAGTATCCCCGATGATTAAC
1 GGGGTTGGAGTATCCCCGATGAATAAC
1086883 GGGGTTGGAGTATCCCCGATGAA
1 GGGGTTGGAGTATCCCCGATGAA
1086906 AAAAATTGGT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
26 3 0.07
27 29 0.66
28 12 0.27
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCGATGAATAAC
Found at i:1086990 original size:51 final size:51
Alignment explanation
Indices: 1086886--1087006 Score: 147
Period size: 51 Copynumber: 2.4 Consensus size: 51
1086876 GATTAACGGG
* * * *
1086886 GTTGGAGTATCCCCGATGAAAAAAATTGGTGTTTTTTGGAAATAAAATTGGA
1 GTTGGAGTATCCCCGATTAAAAAAATTAGTG-TTTTTGAAAATAAAATCGGA
*
1086938 GTTGGAGTATCCCCGATTATAGAAAATTAGTG-TTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTA-AAAAAATTAGTGTTTTTGAAAATAAAATCGGA
*
1086989 G-TGAGAATATCCCCGATT
1 GTTG-GAGTATCCCCGATT
1087007 GCGGAGAATT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
50 2 0.03
51 31 0.51
52 18 0.30
53 10 0.16
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTAAAAAAATTAGTGTTTTTGAAAATAAAATCGGA
Done.