Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 38 of 204
Found at i:10965821 original size:41 final size:39
Alignment explanation
Indices: 10965776--10965945 Score: 121
Period size: 41 Copynumber: 4.2 Consensus size: 39
10965766 TTTAATCAAC
10965776 CGCCGCTAAAGTTAAGGTATTTAGCGGCGATTTCTTTGAAG
1 CGCCGCTAAAGTTAAGGT-TTTAGCGGCG-TTTCTTTGAAG
* * *
10965817 CGCCGCGAATA-TT-TGGTCTTCTAGCGGCGTTT-TTATATAAG
1 CGCCGCTAA-AGTTAAGGT-TT-TAGCGGCGTTTCTT-T-GAAG
* * * * *
10965858 TGACGCTAAAGTTAAGATTTTTAGCGGCGATTCTATGATAAG
1 CGCCGCTAAAGTTAAG-GTTTTAGCGGCGTTTCTTTG--AAG
* * *
10965900 CGCCGCTAATGTTAGGGTTTTAGCGGCGTTTTTGTTGAAG
1 CGCCGCTAAAGTTAAGGTTTTAGCGGCGTTTCT-TTGAAG
10965940 CGCCGC
1 CGCCGC
10965946 AAAAAAAAAC
Statistics
Matches: 98, Mismatches: 20, Indels: 23
0.70 0.14 0.16
Matches are distributed among these distances:
39 2 0.02
40 19 0.19
41 54 0.55
42 22 0.22
43 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.34
Consensus pattern (39 bp):
CGCCGCTAAAGTTAAGGTTTTAGCGGCGTTTCTTTGAAG
Found at i:10965867 original size:82 final size:81
Alignment explanation
Indices: 10965750--10965932 Score: 210
Period size: 82 Copynumber: 2.2 Consensus size: 81
10965740 TAATGGTCGG
* ** * * *
10965750 GGGTTTTAGTGGCGTTTTTA-ATCAACCGCCGCTAAAGTTAAGGTATTTAGCGGCGATTTCTTTG
1 GGGTTTTAGCGGCGTTTTTATAT-AAGTGACGCTAAAGTTAAGATATTTAGCGGCGA-TTCTATG
10965814 -AAGCGCCGCGAATATT-
64 AAAGCGCCGCGAATATTA
* *
10965830 TGGTCTTCTAGCGGCGTTTTTATATAAGTGACGCTAAAGTTAAGATTTTTAGCGGCGATTCTATG
1 GGGT-TT-TAGCGGCGTTTTTATATAAGTGACGCTAAAGTTAAGATATTTAGCGGCGATTCTATG
* *
10965895 ATAAGCGCCGCTAATGTTA
64 A-AAGCGCCGCGAATATTA
10965914 GGGTTTTAGCGGCGTTTTT
1 GGGTTTTAGCGGCGTTTTT
10965933 GTTGAAGCGC
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
80 3 0.03
81 8 0.09
82 54 0.63
83 18 0.21
84 3 0.03
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (81 bp):
GGGTTTTAGCGGCGTTTTTATATAAGTGACGCTAAAGTTAAGATATTTAGCGGCGATTCTATGAA
AGCGCCGCGAATATTA
Found at i:10965907 original size:42 final size:41
Alignment explanation
Indices: 10965776--10965927 Score: 123
Period size: 41 Copynumber: 3.7 Consensus size: 41
10965766 TTTAATCAAC
* *
10965776 CGCCGCTAAAGTTAAGGTATTTAGCGGCGATTTCTTTG--AAG
1 CGCCGCTAAAGTT-AGGTTTTTAGCGGCGA-TTCTATGATAAG
* * * * *
10965817 CGCCGCGAATA-TTTGGTCTTCTAGCGGCGTTTTTAT-ATAAG
1 CGCCGCTAA-AGTTAGGT-TTTTAGCGGCGATTCTATGATAAG
* * *
10965858 TGACGCTAAAGTTAAGATTTTTAGCGGCGATTCTATGATAAG
1 CGCCGCTAAAGTT-AGGTTTTTAGCGGCGATTCTATGATAAG
* *
10965900 CGCCGCTAATGTTAGGGTTTTAGCGGCG
1 CGCCGCTAAAGTTAGGTTTTTAGCGGCG
10965928 TTTTTGTTGA
Statistics
Matches: 84, Mismatches: 20, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
40 8 0.10
41 58 0.69
42 18 0.21
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (41 bp):
CGCCGCTAAAGTTAGGTTTTTAGCGGCGATTCTATGATAAG
Found at i:10966976 original size:16 final size:15
Alignment explanation
Indices: 10966941--10967013 Score: 119
Period size: 15 Copynumber: 4.7 Consensus size: 15
10966931 GGATATAAGG
10966941 TTTAGGGGTTAGGAA
1 TTTAGGGGTTAGGAA
*
10966956 TTTAGGGGCTAGGATA
1 TTTAGGGGTTAGGA-A
10966972 TTTAGGGGTTAGGAA
1 TTTAGGGGTTAGGAA
10966987 TTTAGGGGTTAGGAGA
1 TTTAGGGGTTAGGA-A
10967003 TTTAGGGGTTA
1 TTTAGGGGTTA
10967014 AGGTTAGGGA
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
15 28 0.52
16 26 0.48
ACGTcount: A:0.25, C:0.01, G:0.40, T:0.34
Consensus pattern (15 bp):
TTTAGGGGTTAGGAA
Found at i:10966976 original size:31 final size:31
Alignment explanation
Indices: 10966941--10967013 Score: 128
Period size: 31 Copynumber: 2.4 Consensus size: 31
10966931 GGATATAAGG
*
10966941 TTTAGGGGTTAGGAATTTAGGGGCTAGGATA
1 TTTAGGGGTTAGGAATTTAGGGGCTAGGAGA
*
10966972 TTTAGGGGTTAGGAATTTAGGGGTTAGGAGA
1 TTTAGGGGTTAGGAATTTAGGGGCTAGGAGA
10967003 TTTAGGGGTTA
1 TTTAGGGGTTA
10967014 AGGTTAGGGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.25, C:0.01, G:0.40, T:0.34
Consensus pattern (31 bp):
TTTAGGGGTTAGGAATTTAGGGGCTAGGAGA
Found at i:10972507 original size:66 final size:65
Alignment explanation
Indices: 10972400--10972570 Score: 209
Period size: 66 Copynumber: 2.6 Consensus size: 65
10972390 GAGCAAATTA
* * *
10972400 CACAACTTAAAGCGGATGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAAAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAAAACTCCA
10972464 G
65 G
* *
10972465 CTACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAAAACTCCA
10972530 G
65 G
* ** * * *
10972531 CAGCAGCTTAAAATAGATGCGGCAGCAAGAGAAGCAGAGG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGG
10972571 CGGCAGCGAG
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 2 0.02
66 86 0.93
67 4 0.04
ACGTcount: A:0.42, C:0.19, G:0.26, T:0.14
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAAAACTCCAG
Found at i:10972598 original size:42 final size:42
Alignment explanation
Indices: 10972552--10972653 Score: 141
Period size: 42 Copynumber: 2.4 Consensus size: 42
10972542 AATAGATGCG
* * *
10972552 GCAGCAAGAGAAGCAGAGGCGGCAGCGAGAGAAGTATAGGCT
1 GCAGCAAGGGAAGCAGAGGCGACAGCGAGAGAAGTAGAGGCT
* * *
10972594 GCAGCAAGGGAAGCAGAGGCTATAGCGAGGGAAGTAGAGGCT
1 GCAGCAAGGGAAGCAGAGGCGACAGCGAGAGAAGTAGAGGCT
*
10972636 GCAGCGAGGGAAGCAGAG
1 GCAGCAAGGGAAGCAGAG
10972654 CAGCGTCAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.34, C:0.16, G:0.43, T:0.07
Consensus pattern (42 bp):
GCAGCAAGGGAAGCAGAGGCGACAGCGAGAGAAGTAGAGGCT
Found at i:10972614 original size:21 final size:21
Alignment explanation
Indices: 10972552--10972653 Score: 114
Period size: 21 Copynumber: 4.9 Consensus size: 21
10972542 AATAGATGCG
* * *
10972552 GCAGCAAGAGAAGCAGAGGCG
1 GCAGCGAGGGAAGCAGAGGCT
* * *
10972573 GCAGCGAGAGAAGTATAGGCT
1 GCAGCGAGGGAAGCAGAGGCT
*
10972594 GCAGCAAGGGAAGCAGAGGCT
1 GCAGCGAGGGAAGCAGAGGCT
** *
10972615 ATAGCGAGGGAAGTAGAGGCT
1 GCAGCGAGGGAAGCAGAGGCT
10972636 GCAGCGAGGGAAGCAGAG
1 GCAGCGAGGGAAGCAGAG
10972654 CAGCGTCAAA
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 66 1.00
ACGTcount: A:0.34, C:0.16, G:0.43, T:0.07
Consensus pattern (21 bp):
GCAGCGAGGGAAGCAGAGGCT
Found at i:10973036 original size:43 final size:43
Alignment explanation
Indices: 10972978--10973166 Score: 184
Period size: 43 Copynumber: 4.4 Consensus size: 43
10972968 GTTTTTTTTA
* * * * * *
10972978 AAAAACGCCACTAAAGGTGTTGGCCTTTAGCGGCGTTTTTGAT
1 AAAAGCGCCGCTAAAGATGATGGTCTTTAGCGGCGTTTGTGAT
* *
10973021 AAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGA-
1 AAAAGCGCCGCTAAAGATGATGGTCTTTAGCGGCGTTTGT-GAT
* * * **
10973064 AAAAACGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGATGATGGTCTTTAGCGGCGTTTGTGAT
* * *
10973107 GAAAGCGCCGCTAAAGATG-TGGTTCTTTAGTGGCGTTTGTGGT
1 AAAAGCGCCGCTAAAGATGATGG-TCTTTAGCGGCGTTTGTGAT
**
10973150 CGAAGCGCCGCTAAAGA
1 AAAAGCGCCGCTAAAGA
10973167 ACCTAATCTT
Statistics
Matches: 122, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
42 4 0.03
43 116 0.95
44 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGATGATGGTCTTTAGCGGCGTTTGTGAT
Found at i:10973078 original size:86 final size:86
Alignment explanation
Indices: 10972977--10973148 Score: 236
Period size: 86 Copynumber: 2.0 Consensus size: 86
10972967 TGTTTTTTTT
* ** * *
10972977 AAAAAACGCCACTAAAGGTGTTGGCCTTTAGCGGCGTTTTTGATAAAAGCGCCGCTAAAGATAAG
1 AAAAAACGCCACTAAAGATCATGGCCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGATAAG
10973042 GGTCTTTAGCGGCGTTTGTGG
66 GGTCTTTAGCGGCGTTTGTGG
* * * **
10973063 AAAAAACGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATGTG
1 AAAAAACGCCACTAAAGATCATGGCCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGATAAG
* *
10973128 GTTCTTTAGTGGCGTTTGTGG
66 GGTCTTTAGCGGCGTTTGTGG
10973149 TCGAAGCGCC
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
86 74 1.00
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (86 bp):
AAAAAACGCCACTAAAGATCATGGCCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGATAAG
GGTCTTTAGCGGCGTTTGTGG
Found at i:10973164 original size:86 final size:86
Alignment explanation
Indices: 10973002--10973184 Score: 213
Period size: 86 Copynumber: 2.1 Consensus size: 86
10972992 AGGTGTTGGC
* *
10973002 CTTTAGCGGCGTTTTTGATAAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAA
1 CTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAA
* **
10973067 AACGCCACTAAAGATCATGGT
66 AACGCCACTAAAGAACATAAT
* * ** * * ***
10973088 CTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATGTGGTTCTTTAGTGGCGTTTGTGGTCGA
1 CTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAA
* * *
10973153 AGCGCCGCTAAAGAACCTAAT
66 AACGCCACTAAAGAACATAAT
10973174 CTTTAGCGGCG
1 CTTTAGCGGCG
10973185 CTTCTTGCAA
Statistics
Matches: 80, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
86 80 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (86 bp):
CTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAA
AACGCCACTAAAGAACATAAT
Found at i:10973177 original size:43 final size:43
Alignment explanation
Indices: 10973002--10973290 Score: 135
Period size: 43 Copynumber: 6.7 Consensus size: 43
10972992 AGGTGTTGGC
* * **
10973002 CTTTAGCGGCGTTTTTGATAAAAGCGCCGCTAAAG-A--TAAGGGT
1 CTTTAGCGGCGTTTGTGGTCGAAGCGCCGCTAAAGAACCTAA---T
*** * * * * **
10973045 CTTTAGCGGCGTTTGTGGAAAAAACGCCACTAAAGATCATGGT
1 CTTTAGCGGCGTTTGTGGTCGAAGCGCCGCTAAAGAACCTAAT
* ** **
10973088 CTTTAGCGGCGTTTGTGG-GGAAAGCGCCGCTAAAG-ATGTGGTT
1 CTTTAGCGGCGTTTGTGGTCG-AAGCGCCGCTAAAGAACCT-AAT
*
10973131 CTTTAGTGGCGTTTGTGGTCGAAGCGCCGCTAAAGAACCTAAT
1 CTTTAGCGGCGTTTGTGGTCGAAGCGCCGCTAAAGAACCTAAT
* * * * *
10973174 CTTTAGCGGCGCTTCTTG-C-AAGAACGCCGCTAAAGACCCTGAT
1 CTTTAGCGGCGTTTGTGGTCGAAG--CGCCGCTAAAGAACCTAAT
* ** * * ** * *
10973217 CTTTAGCGGCGCTT-CAGTGGAAGCGCCACTAAAGGTCTTAGT
1 CTTTAGCGGCGTTTGTGGTCGAAGCGCCGCTAAAGAACCTAAT
* * *
10973259 CTTCAGCGGCGTTTGTGCTAGAAGCGCCGCTA
1 CTTTAGCGGCGTTTGTGGTCGAAGCGCCGCTA
10973291 TAGACCAGCA
Statistics
Matches: 190, Mismatches: 44, Indels: 24
0.74 0.17 0.09
Matches are distributed among these distances:
41 3 0.02
42 28 0.15
43 152 0.80
44 6 0.03
46 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGTCGAAGCGCCGCTAAAGAACCTAAT
Found at i:10973758 original size:56 final size:50
Alignment explanation
Indices: 10973667--10973855 Score: 191
Period size: 50 Copynumber: 3.7 Consensus size: 50
10973657 GGTGATGAGA
* * *
10973667 TCCCATGTAAGACCATGTTTGGAACATGGCATTGGCATCATTGAGATTATGAAAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAAAGG
* *
10973723 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAAAGG
** * * * *
10973773 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACTGATATGAGAA-C
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA-AAGG
* *
10973823 TCCCATGTAAGACCATATCTGGGATATGGCATT
1 TCCCATGTAAGACCATGTCTGGGACATGGCATT
10973856 AGCAGTACAA
Statistics
Matches: 114, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
50 75 0.66
51 1 0.01
53 3 0.03
55 1 0.01
56 34 0.30
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAAAGG
Found at i:10993871 original size:50 final size:50
Alignment explanation
Indices: 10993764--10994009 Score: 201
Period size: 50 Copynumber: 4.8 Consensus size: 50
10993754 TTTGGGTGAT
* * * * *
10993764 GAGATCCCATGTAAGACCATGTTTGGAACATGGAATTGGCATCATTGAGATTATGA
1 GAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C----CGA-CATGA
* * *
10993820 GAGATCACATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGA
1 GAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGA
* ** * * * *
10993870 GAGGTCCCCCGTAAGACCATGTCTAGGACATGACATGGGCACCGATATGA
1 GAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGA
* * * *
10993920 GA-ACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAAGA
1 GAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-ACATGA
* * *
10993969 AACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 GAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
10994010 TGTTATTATC
Statistics
Matches: 155, Mismatches: 32, Indels: 13
0.77 0.16 0.06
Matches are distributed among these distances:
48 1 0.01
49 38 0.25
50 77 0.50
51 2 0.01
55 1 0.01
56 36 0.23
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (50 bp):
GAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGA
Found at i:10998650 original size:45 final size:45
Alignment explanation
Indices: 10998586--10998686 Score: 139
Period size: 45 Copynumber: 2.2 Consensus size: 45
10998576 TTAGGTTGGA
* * *
10998586 TTTGGTATGCTGGTGTTGATTTTTGCTTATTGTTTTAAGGTCGAT
1 TTTGGTATGCTGATATTGATTTTTGCTTATTATTTTAAGGTCGAT
* * *
10998631 TTTGGTATGTTGATATTGATTTTTGCTTATTATTTTAAGGTTGGT
1 TTTGGTATGCTGATATTGATTTTTGCTTATTATTTTAAGGTCGAT
*
10998676 TTTTGTATGCT
1 TTTGGTATGCT
10998687 AAAATTTATT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.15, C:0.05, G:0.24, T:0.56
Consensus pattern (45 bp):
TTTGGTATGCTGATATTGATTTTTGCTTATTATTTTAAGGTCGAT
Found at i:10998698 original size:45 final size:45
Alignment explanation
Indices: 10998601--10998699 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
10998591 TATGCTGGTG
* * * *
10998601 TTGATTTTTGCTTATTGTTTTAAGGTCGATTTTGGTATGTTGATA
1 TTGATTTTTGCTTATTATTTTAAGGTCGATTTTGGTATGCTAAAA
* * *
10998646 TTGATTTTTGCTTATTATTTTAAGGTTGGTTTTTGTATGCTAAAA
1 TTGATTTTTGCTTATTATTTTAAGGTCGATTTTGGTATGCTAAAA
*
10998691 TTTATTTTT
1 TTGATTTTT
10998700 AGAAATTGTT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.19, C:0.04, G:0.18, T:0.59
Consensus pattern (45 bp):
TTGATTTTTGCTTATTATTTTAAGGTCGATTTTGGTATGCTAAAA
Found at i:11000803 original size:51 final size:51
Alignment explanation
Indices: 11000682--11000826 Score: 170
Period size: 51 Copynumber: 2.9 Consensus size: 51
11000672 AGTGAAACTG
* * *
11000682 ATGGTCACGTGTGTAGTACTATATGCAGG-TGACTATGTGTACCGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCT-ACTACGTGTACCGGAATGAT
* * *
11000733 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTACGTGTATC-GAATGGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT
* * *
11000782 AATGGTCACATGTGTAGTACTATGTGTAGGCTACTATGTGAACCG
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
11000827 AACATCATTG
Statistics
Matches: 79, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
49 6 0.08
50 35 0.44
51 38 0.48
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT
Found at i:11015867 original size:3 final size:3
Alignment explanation
Indices: 11015859--11015886 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
11015849 ATTTTTTAGC
11015859 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
11015887 GTATATCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11020382 original size:6 final size:6
Alignment explanation
Indices: 11020359--11020436 Score: 74
Period size: 6 Copynumber: 12.8 Consensus size: 6
11020349 AGGAATGTCC
*
11020359 AAAA-A AAAAG- AAAA-A AAAAGAA AAAAGA ATAGAAAA AAAAGAA AAGAAGA
1 AAAAGA AAAAGA AAAAGA AAAAG-A AAAAGA A-A-AAGA AAAAG-A AA-AAGA
11020409 AAAAG- AAAAGA AAAAGA AAAAGA AAAAG
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAG
11020437 GAGAGGCCAA
Statistics
Matches: 62, Mismatches: 2, Indels: 17
0.77 0.02 0.21
Matches are distributed among these distances:
5 17 0.27
6 24 0.39
7 14 0.23
8 7 0.11
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.01
Consensus pattern (6 bp):
AAAAGA
Found at i:11020384 original size:17 final size:18
Alignment explanation
Indices: 11020362--11020434 Score: 87
Period size: 17 Copynumber: 3.9 Consensus size: 18
11020352 AATGTCCAAA
11020362 AAAAAAGAAAAA-AAAAG
1 AAAAAAGAAAAAGAAAAG
*
11020379 AAAAAAGAATAGAAAAAAAAG
1 AAAAAAG-A-A-AAAGAAAAG
11020400 AAAAGAAGAAAAAGAAAAG
1 AAAA-AAGAAAAAGAAAAG
11020419 -AAAAAGAAAAAGAAAA
1 AAAAAAGAAAAAGAAAA
11020435 AGGAGAGGCC
Statistics
Matches: 50, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
17 20 0.40
18 4 0.08
19 9 0.18
20 4 0.08
21 10 0.20
22 3 0.06
ACGTcount: A:0.84, C:0.00, G:0.15, T:0.01
Consensus pattern (18 bp):
AAAAAAGAAAAAGAAAAG
Found at i:11020396 original size:14 final size:14
Alignment explanation
Indices: 11020360--11020435 Score: 75
Period size: 14 Copynumber: 5.4 Consensus size: 14
11020350 GGAATGTCCA
*
11020360 AAAAAAAAGAAAAAAA
1 AAAAAAAAG--AAAAG
*
11020376 AAGAAAAAAGAATAG
1 AA-AAAAAAGAAAAG
11020391 AAAAAAAAGAAAAG
1 AAAAAAAAGAAAAG
*
11020405 AAGAAAAAGAAAAG
1 AAAAAAAAGAAAAG
*
11020419 -AAAAAGA-AAAAG
1 AAAAAAAAGAAAAG
11020431 AAAAA
1 AAAAA
11020436 GGAGAGGCCA
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
12 5 0.10
13 9 0.17
14 24 0.46
15 5 0.10
16 2 0.04
17 7 0.13
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.01
Consensus pattern (14 bp):
AAAAAAAAGAAAAG
Found at i:11020403 original size:28 final size:29
Alignment explanation
Indices: 11020362--11020429 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 29
11020352 AATGTCCAAA
*
11020362 AAAAAAGAAAAAAA-AAGAAAAAAGAATAG
1 AAAAAAGAAAAAAAGAAG-AAAAAGAAAAG
*
11020391 AAAAAA-AAGAAAAGAAGAAAAAGAAAAG
1 AAAAAAGAAAAAAAGAAGAAAAAGAAAAG
11020419 -AAAAAGAAAAA
1 AAAAAAGAAAAA
11020430 GAAAAAGGAG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 5 0.15
28 20 0.59
29 9 0.26
ACGTcount: A:0.84, C:0.00, G:0.15, T:0.01
Consensus pattern (29 bp):
AAAAAAGAAAAAAAGAAGAAAAAGAAAAG
Found at i:11020881 original size:104 final size:106
Alignment explanation
Indices: 11020756--11020967 Score: 277
Period size: 108 Copynumber: 2.0 Consensus size: 106
11020746 TAATTTATTC
* ** * * * * *
11020756 TCATTTTGTATCTTAGCAAAATTTGCTAT-T-TTGATTTATTTATTTCGAGTTTTATTCTCAATA
1 TCATTTTGAATCTTAGCAAAATTCACTATCTCTTAATTTATTTATTTAGAGCTCTACTCTCAATA
11020819 AAATTTCATCTTGT-CCATTGTGATAATCCTTTTCATCTTAT
66 AAATTTCATCTT-TCCCATTGTGATAATCCTTTTCATCTTAT
* *
11020860 TCATTTTGAATCTTAGCAAAATTCACTATCCTGCTTAATTTATTTGTTTAGAGCTCTGCTCTCAA
1 TCATTTTGAATCTTAGCAAAATTCACTAT-CT-CTTAATTTATTTATTTAGAGCTCTACTCTCAA
*
11020925 TAAAATTTCATCTTTCCCATTGTGATAATCTTTTTCATCTTAT
64 TAAAATTTCATCTTTCCCATTGTGATAATCCTTTTCATCTTAT
11020968 CTTAGCAAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
104 26 0.28
106 1 0.01
107 1 0.01
108 64 0.70
ACGTcount: A:0.25, C:0.17, G:0.08, T:0.49
Consensus pattern (106 bp):
TCATTTTGAATCTTAGCAAAATTCACTATCTCTTAATTTATTTATTTAGAGCTCTACTCTCAATA
AAATTTCATCTTTCCCATTGTGATAATCCTTTTCATCTTAT
Found at i:11020995 original size:97 final size:97
Alignment explanation
Indices: 11020869--11021058 Score: 258
Period size: 97 Copynumber: 2.0 Consensus size: 97
11020859 TTCATTTTGA
* **
11020869 ATCTTAGCAAAATTCACTATCCTGCTTAATTTATTTGTTTAGAGCTCTGCTCTCAATAAAATTTC
1 ATCTTAGCAAAATTCACTATCCTGATTAATTTATTCATTTAGAGCTCTGCTCTCAATAAAATTTC
11020934 ATCTT-TCCCAT-TGTGATAATCTTTTTCATCTT
66 ATCTTGT-CCATAT-TGATAATCTTTTTCATCTT
*** * * * *
11020966 ATCTTAGCAAAATTTGTTATCTTGATTAATTTATTCATTTTGAGCTTTGTTCTCAATAAAATTTC
1 ATCTTAGCAAAATTCACTATCCTGATTAATTTATTCATTTAGAGCTCTGCTCTCAATAAAATTTC
11021031 ATCTTGTCCATATTGATAATCTTTTTCA
66 ATCTTGTCCATATTGATAATCTTTTTCA
11021059 AGCATTTTAC
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
97 79 0.98
98 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.08, T:0.47
Consensus pattern (97 bp):
ATCTTAGCAAAATTCACTATCCTGATTAATTTATTCATTTAGAGCTCTGCTCTCAATAAAATTTC
ATCTTGTCCATATTGATAATCTTTTTCATCTT
Found at i:11022010 original size:46 final size:46
Alignment explanation
Indices: 11021949--11022811 Score: 1138
Period size: 46 Copynumber: 19.2 Consensus size: 46
11021939 GACTAGAAGC
* * **
11021949 AGCAGATTTTGTCTTCCTGTATTTGGCAGCAGAGTAGATTAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* * *
11021995 AGCAGATCTTATCTTCCTGTATTTGGCAGTGGAGAAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* *
11022041 AGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGTAGAACGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
**
11022087 AGCAGATCTTGTCTTCCTGTATTTGGCAGAAGAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
11022133 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* *
11022179 AACAGATCTTGTCTTCCTGTATTTGGCAACGGAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* * *
11022225 AACAGATCTTGTATTCCTGTATTTGGCAGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* *
11022271 AGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGAAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* *
11022317 ATCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
*
11022363 AGCAGA--------T-CT-TATTTGGCAGCGGAGAAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* * *
11022399 AGTAGATCTTGTCTTCCTGTA-TTGGCGGCAGAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* * *
11022444 AGCAAATCTTGTCTTCCTATATTTGGCAGCGGAGTAGATTGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* *
11022490 AGCAGATCTTGTCTTCTTGTATTTGGCAGCAGAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* * * * *
11022536 AACAGATATTGTCTTTCTGTATTTGGCAGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* * * ** *
11022582 AGCAGATCTTGTCTTTCTGTATTTGGTAGCGAAACAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* *
11022628 AACAGA-----TC-T--T-T-TTTGGCAGCGGAGAAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* * *
11022664 AGCAGATCTTGTCTTCCTATATTTGGCAGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
* * *
11022710 AGCAGATCTTGTCTTCTTATATTTGGCAGCAGAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
11022756 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
*
11022802 TGCAGATCTT
1 AGCAGATCTT
11022812 ATATTCCTAA
Statistics
Matches: 716, Mismatches: 80, Indels: 42
0.85 0.10 0.05
Matches are distributed among these distances:
36 55 0.08
37 3 0.00
38 2 0.00
40 1 0.00
41 4 0.01
42 1 0.00
44 2 0.00
45 42 0.06
46 606 0.85
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (46 bp):
AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGAT
Found at i:11022376 original size:36 final size:36
Alignment explanation
Indices: 11022336--11022408 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
11022326 TGTCTTCCTG
*
11022336 TATTTGGCAGCGAAGTAGATCGAAGATAGCAGATCT
1 TATTTGGCAGCGAAGAAGATCGAAGATAGCAGATCT
* *
11022372 TATTTGGCAGCGGAGAAGATCGAAGATAGTAGATCT
1 TATTTGGCAGCGAAGAAGATCGAAGATAGCAGATCT
11022408 T
1 T
11022409 GTCTTCCTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (36 bp):
TATTTGGCAGCGAAGAAGATCGAAGATAGCAGATCT
Found at i:11022689 original size:174 final size:174
Alignment explanation
Indices: 11022465--11022786 Score: 497
Period size: 174 Copynumber: 1.9 Consensus size: 174
11022455 TCTTCCTATA
* * * *
11022465 TTTGGCAGCGGAGTAGATTGAAGATAGCAGATCTTGTCTTCTTGTATTTGGCAGCAG-AGTAGAT
1 TTTGGCAGCGGAGAAGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAG-AGAAGTAGAT
* *
11022529 CGAAGATAACAGATATTGTCTT-TCTGTATTTGGCAG-TGAAGTAGATCGAAGATAGCAGATCTT
65 CGAAGATAACAGATATTGTCTTCT-TATATTTGGCAGCAG-AGTAGATCGAAGATAGCAGATCTT
* *
11022592 GTCTTTCTGTATTTGGTAGCGAAACAGATCAAAGATAACAGATCTTT
128 GTCTTCCTGTATTTGGCAGCGAAACAGATCAAAGATAACAGATCTTT
*
11022639 TTTGGCAGCGGAGAAGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGTGAAGTAGATC
1 TTTGGCAGCGGAGAAGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGAGAAGTAGATC
* *
11022704 GAAGATAGCAGATCTTGTCTTCTTATATTTGGCAGCAGAGTAGATCGAAGATAGCAGATCTTGTC
66 GAAGATAACAGATATTGTCTTCTTATATTTGGCAGCAGAGTAGATCGAAGATAGCAGATCTTGTC
11022769 TTCCTGTATTTGGCAGCG
131 TTCCTGTATTTGGCAGCG
11022787 GAGTAGATCG
Statistics
Matches: 134, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
173 1 0.01
174 131 0.98
175 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (174 bp):
TTTGGCAGCGGAGAAGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGAGAAGTAGATC
GAAGATAACAGATATTGTCTTCTTATATTTGGCAGCAGAGTAGATCGAAGATAGCAGATCTTGTC
TTCCTGTATTTGGCAGCGAAACAGATCAAAGATAACAGATCTTT
Found at i:11023234 original size:44 final size:43
Alignment explanation
Indices: 11023085--11023423 Score: 239
Period size: 44 Copynumber: 7.9 Consensus size: 43
11023075 AAGCTATATG
* * ** **
11023085 TCTTATCTCACTGAGGTTGCAGTAGAATAGATTAAAGATAACAGA
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAA-ACCA-AGA
* ** * *
11023130 TCTTATCTCTTTGAAGTTGCAGTAGAGCAG---ACCACGATGAA
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAACCAAG-A
* * *
11023171 TCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCATAGA
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAACCA-AGA
*** *
11023215 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCC-AG-
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAACCAAGA
* * * * **
11023256 TCTTATCTCCCT-AAGTAGTAGTGGAGCAGACAAAAAAAACC-A-A
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAG---ATTAAAACCAAGA
* * *
11023299 TCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACCAAAGA
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAACC-AAGA
* * *
11023343 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCC-AG-
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAACCAAGA
* * *
11023384 TCTTATCTCTCTGAAGTTACAGTGGAGCAGACTAAAACCA
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAACCA
11023424 CAAACTTCGT
Statistics
Matches: 227, Mismatches: 53, Indels: 31
0.73 0.17 0.10
Matches are distributed among these distances:
40 15 0.07
41 80 0.35
42 5 0.02
43 17 0.07
44 84 0.37
45 26 0.11
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (43 bp):
TCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAACCAAGA
Found at i:11023263 original size:85 final size:85
Alignment explanation
Indices: 11023084--11023414 Score: 278
Period size: 85 Copynumber: 3.9 Consensus size: 85
11023074 GAAGCTATAT
* * ** * *
11023084 GTCTTATCTCACTGAGGTTGCAGTAGAATAGATTAAAGATAACAGATCTTATCTCTTTGAAGTTG
1 GTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAA-ACAACAGATCTTATCTCTCTGAAGTTG
* *
11023149 CAGTAGAGCAGACCACGAT-GA
65 CAGTAGAGCAGATCAC-ATCCA
* * * * *
11023170 ATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCATAGATCTTATCTCTCTGAAGTTGC
1 GTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACAACAGATCTTATCTCTCTGAAGTTGC
*
11023235 AGTAGAGCAGATCGCATCCA
66 AGTAGAGCAGATCACATCCA
* * * ** * * *
11023255 GTCTTATCTCCCT-AAGTAGTAGTGGAGCAGACAAAAAAAACCA-ATCCTATCTCCCTGAAGTTG
1 GTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACAA-CAGATCTTATCTCTCTGAAGTTG
* * * *
11023318 CAGTAGAGCGGATTAAAACCAAA
65 CAGTAGAGCAGATCACATCC--A
* * * * *
11023341 GATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATC--CAG-TCTTATCTCTCTGAAGTTA
1 G-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACAACAGATCTTATCTCTCTGAAGTTG
*
11023403 CAGTGGAGCAGA
65 CAGTAGAGCAGA
11023415 CTAAAACCAC
Statistics
Matches: 194, Mismatches: 44, Indels: 15
0.77 0.17 0.06
Matches are distributed among these distances:
84 56 0.29
85 78 0.40
86 32 0.16
87 11 0.06
88 17 0.09
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (85 bp):
GTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACAACAGATCTTATCTCTCTGAAGTTGC
AGTAGAGCAGATCACATCCA
Found at i:11023316 original size:128 final size:129
Alignment explanation
Indices: 11023169--11023420 Score: 418
Period size: 128 Copynumber: 2.0 Consensus size: 129
11023159 GACCACGATG
* *
11023169 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCATAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCAAAGATCTTATCTCTCTGAAGTTG
* *
11023234 CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCT-AAG-TAGTAGTGGAGCAGACAAAAAAAACC
66 CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTA-CAGTGGAGCAGACAAAAAAAACC
*
11023297 AATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACCAAAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCAAAGATCTTATCTCTCTGAAGTTG
* *
11023362 CAGTAGAGCAGATCACATCCAGTCTTATCTCTCTGAAGTTACAGTGGAGCAGACTAAAA
66 CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACAAAAA
11023421 CCACAAACTT
Statistics
Matches: 115, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
128 94 0.82
129 19 0.17
130 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (129 bp):
AATCCTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAACCAAAGATCTTATCTCTCTGAAGTTG
CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACAAAAAAAACC
Found at i:11025530 original size:98 final size:98
Alignment explanation
Indices: 11025356--11025552 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
11025346 GTACAATAAA
*
11025356 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
11025421 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
11025454 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
11025519 CCTTTAAAATCCCAAACTTAGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
11025552 A
1 A
11025553 TTATTTTTTA
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCAGAATATTTCCTTT
Found at i:11028175 original size:218 final size:218
Alignment explanation
Indices: 11027797--11028814 Score: 1687
Period size: 218 Copynumber: 4.7 Consensus size: 218
11027787 CCTACTCCAC
* * *
11027797 TGTCGGCTTTAATCTGCTCCACCGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTGCCTC
1 TGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGCCTGCCTC
* *
11027862 ACTGCAACTTCAGGAGGATAAGACTTGCTTTGCTTAGTCTGTTCCACTGCTACTTCAGGGAGATA
66 ACTGCAACTTCAGGAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
* * * * *
11027927 AGGCTAGATGCGATCTACTCTTTGCAACTTCAGACAGATAAGATCTGAGGTTTTAATCCACTCCA
131 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCA
* ** *
11027992 CTATAATTTCAGGGAGATAGGAT
196 ATGCAACTTCAGGGAGATAGGAT
*
11028015 TGTCGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCCATCTTCAGCCTGCCTC
1 TGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGCCTGCCTC
* *
11028080 ACTGCAACTTCAGGAGGATAATACTTGCTTTGCTTAGTCTGCTCCACTGCAACTTCAAGGAGATA
66 ACTGCAACTTCAGGAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
*
11028145 AGACTAGATACGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCA
131 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCA
11028210 ATGCAACTTCAGGGAGATAGGAT
196 ATGCAACTTCAGGGAGATAGGAT
* *
11028233 TGTTGGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCCATCTTCAGCCTGCCTC
1 TGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGCCTGCCTC
* * * *
11028298 ACTGCAACTTCAGGAGGATACGACTTACGTTGCTTAGTCTGCTCCACTACAACTTCAGGGAGATA
66 ACTGCAACTTCAGGAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
* *
11028363 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAAGTTTTAATCTGCTCCA
131 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCA
11028428 ATGCAACTTCAGGGAGATAGGAT
196 ATGCAACTTCAGGGAGATAGGAT
* * *
11028451 TGTTGGCTTTAATCTACTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGCCTGCCTC
1 TGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGCCTGCCTC
* *
11028516 ACTGCAACTTCAGGAGGATACGACTTGCGTTGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
66 ACTGCAACTTCAGGAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
* *
11028581 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAAAGATAAGATCTGAGGTTTTAATCCGCTTCA
131 AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCA
11028646 ATGCAACTTCAGGGAGATAGGAT
196 ATGCAACTTCAGGGAGATAGGAT
* *
11028669 TATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTC
1 TGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGCCTGCCTC
* * *
11028734 ACTGTAACTTCAGGAGGATAAGACTTG-TTTACTTAGTCTGCTCCACTGTAACTTCAGGGAGATA
66 ACTGCAACTTCAGGAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
11028798 AGACTAGATGCGATCTG
131 AGACTAGATGCGATCTG
11028815 TTATCTTCAC
Statistics
Matches: 751, Mismatches: 49, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
217 51 0.07
218 700 0.93
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (218 bp):
TGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGCCTGCCTC
ACTGCAACTTCAGGAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
AGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCA
ATGCAACTTCAGGGAGATAGGAT
Found at i:11039833 original size:40 final size:40
Alignment explanation
Indices: 11039796--11040020 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
11039786 GCTACTCGTT
* *
11039796 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
11039836 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
11039876 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
11039916 CAAATGCCTTCGAG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
11039955 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
11039996 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
11040021 CATCATTCGA
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 1 0.01
39 33 0.20
40 118 0.72
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:11039980 original size:119 final size:120
Alignment explanation
Indices: 11039796--11040020 Score: 296
Period size: 119 Copynumber: 1.9 Consensus size: 120
11039786 GCTACTCGTT
* *
11039796 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGAGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
11039861 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
11039916 CAAATGCCTTCGAG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGAGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
11039978 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
11040021 CATCATTCGA
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 21 0.23
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGAGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:11047881 original size:40 final size:40
Alignment explanation
Indices: 11047844--11048068 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
11047834 GCTACTCGTT
* *
11047844 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
11047884 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
11047924 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
11047964 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * * *
11048003 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
11048044 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
11048069 CATCATTCAA
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 116 0.71
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:11048052 original size:119 final size:120
Alignment explanation
Indices: 11047844--11048068 Score: 296
Period size: 119 Copynumber: 1.9 Consensus size: 120
11047834 GCTACTCGTT
*
11047844 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
11047909 ATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
66 ATATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
* * ** *
11047964 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCT
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
11048026 GGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCGGA
11048069 CATCATTCAA
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
118 4 0.04
119 65 0.71
120 22 0.24
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
Found at i:11049586 original size:33 final size:34
Alignment explanation
Indices: 11049525--11049588 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
11049515 CACACTAAGT
11049525 CTATTTACTAAAATTCACACTACAATTAAACGTC
1 CTATTTACTAAAATTCACACTACAATTAAACGTC
11049559 CTATTTACTAAAATTCAC-CTACAATTAAAC
1 CTATTTACTAAAATTCACACTACAATTAAAC
11049589 AAAATTCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 12 0.40
34 18 0.60
ACGTcount: A:0.42, C:0.23, G:0.02, T:0.33
Consensus pattern (34 bp):
CTATTTACTAAAATTCACACTACAATTAAACGTC
Found at i:11051653 original size:98 final size:98
Alignment explanation
Indices: 11051479--11051675 Score: 367
Period size: 98 Copynumber: 2.0 Consensus size: 98
11051469 GTACAATAAA
*
11051479 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
11051544 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
11051577 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
11051642 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
11051675 A
1 A
11051676 TTATTTTTTA
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:11051966 original size:9 final size:9
Alignment explanation
Indices: 11051952--11051976 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
11051942 TGCAAATGCT
11051952 ATAATAACA
1 ATAATAACA
11051961 ATAATAACA
1 ATAATAACA
11051970 ATAATAA
1 ATAATAA
11051977 ATACATCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAATAACA
Found at i:11066466 original size:16 final size:16
Alignment explanation
Indices: 11066445--11066483 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
11066435 TTTGGTTTAT
11066445 TGTAATGGAATAAAAC
1 TGTAATGGAATAAAAC
*
11066461 TGTAATGGAATAAAAT
1 TGTAATGGAATAAAAC
11066477 TGTAATG
1 TGTAATG
11066484 AAATTGAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.46, C:0.03, G:0.21, T:0.31
Consensus pattern (16 bp):
TGTAATGGAATAAAAC
Found at i:11071178 original size:5 final size:5
Alignment explanation
Indices: 11071168--11071199 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
11071158 AATATATATT
11071168 TTTTC TTTTC TTTTC TCTTTC TTTTC TTTTC T
1 TTTTC TTTTC TTTTC T-TTTC TTTTC TTTTC T
11071200 CTTTTATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:11071190 original size:16 final size:16
Alignment explanation
Indices: 11071169--11071203 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
11071159 ATATATATTT
11071169 TTTCTTTTCTTTTCTC
1 TTTCTTTTCTTTTCTC
11071185 TTTCTTTTCTTTTCTC
1 TTTCTTTTCTTTTCTC
11071201 TTT
1 TTT
11071204 TATTCATTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTCTTTTCTTTTCTC
Found at i:11072461 original size:31 final size:31
Alignment explanation
Indices: 11072399--11072471 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 31
11072389 CTACTTCATT
* * * *
11072399 TTTTTATTAGTATATATGTATTATTATTATG
1 TTTTTATTTGTATATATGAACTAATATTATG
11072430 TTTTTATTTGTATATATGAAACTAATA-TATG
1 TTTTTATTTGTATATATG-AACTAATATTATG
*
11072461 TATGTTATTTG
1 T-TTTTATTTG
11072472 CTTCAAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
31 22 0.63
32 13 0.37
ACGTcount: A:0.30, C:0.01, G:0.11, T:0.58
Consensus pattern (31 bp):
TTTTTATTTGTATATATGAACTAATATTATG
Found at i:11084080 original size:30 final size:30
Alignment explanation
Indices: 11084044--11084104 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
11084034 AGCCATGCAG
11084044 ATACCCCCAAAATGTGTTGTCCCTAGTTTC
1 ATACCCCCAAAATGTGTTGTCCCTAGTTTC
11084074 ATACCCCCAAAATGTGTTGTCCCTAGTTTC
1 ATACCCCCAAAATGTGTTGTCCCTAGTTTC
11084104 A
1 A
11084105 GTTCTTACCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.33
Consensus pattern (30 bp):
ATACCCCCAAAATGTGTTGTCCCTAGTTTC
Found at i:11084597 original size:17 final size:17
Alignment explanation
Indices: 11084575--11084623 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
11084565 AGTAATAATA
*
11084575 ATTAAAATTTTAAAAAT
1 ATTAAAAATTTAAAAAT
*
11084592 ATTAAAAATTTAAGAAT
1 ATTAAAAATTTAAAAAT
* *
11084609 A-AAAAAATTCAAAAA
1 ATTAAAAATTTAAAAA
11084624 AAAAGTGTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
16 11 0.41
17 16 0.59
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (17 bp):
ATTAAAAATTTAAAAAT
Found at i:11096986 original size:12 final size:11
Alignment explanation
Indices: 11096969--11096999 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
11096959 TTTAGCTTAG
11096969 TTAGTTTAATT
1 TTAGTTTAATT
11096980 ATTAGTTTAATT
1 -TTAGTTTAATT
11096992 TTAGTTTA
1 TTAGTTTA
11097000 TAAACAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (11 bp):
TTAGTTTAATT
Found at i:11098385 original size:20 final size:20
Alignment explanation
Indices: 11098360--11098401 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
11098350 AGAAGTAGAG
11098360 TAAGAACTCTTTAAAGTTTC
1 TAAGAACTCTTTAAAGTTTC
11098380 TAAGAACTCTTTAAAGTTTC
1 TAAGAACTCTTTAAAGTTTC
11098400 TA
1 TA
11098402 TATAATGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (20 bp):
TAAGAACTCTTTAAAGTTTC
Found at i:11101364 original size:19 final size:19
Alignment explanation
Indices: 11101340--11101377 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
11101330 TGCAAATGAA
11101340 TCATTTCTCATTTT-ATTTT
1 TCATTTCT-ATTTTCATTTT
11101359 TCATTTCTATTTTCATTTT
1 TCATTTCTATTTTCATTTT
11101378 GAGAAAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (19 bp):
TCATTTCTATTTTCATTTT
Found at i:11105169 original size:21 final size:21
Alignment explanation
Indices: 11105140--11105180 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
11105130 GCCTAGTTGT
*
11105140 GGATCTTGATATTAAATTTTGG
1 GGATCTTGAT-TAAAATTTTGG
11105162 GGAT-TTGATTAAAATTTTG
1 GGATCTTGATTAAAATTTTG
11105181 AAAGATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 5 0.28
22 4 0.22
ACGTcount: A:0.29, C:0.02, G:0.22, T:0.46
Consensus pattern (21 bp):
GGATCTTGATTAAAATTTTGG
Found at i:11105259 original size:21 final size:21
Alignment explanation
Indices: 11105229--11105275 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
11105219 AATTAAAACT
*
11105229 TTTAAAAAATTGCAAGAGA-A
1 TTTAAAAAATTGCAAAAGAGA
*
11105249 TTTACAAAAATTTCAAAAGAGA
1 TTTA-AAAAATTGCAAAAGAGA
11105271 TTTAA
1 TTTAA
11105276 TTAAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 14 0.61
22 5 0.22
ACGTcount: A:0.53, C:0.06, G:0.11, T:0.30
Consensus pattern (21 bp):
TTTAAAAAATTGCAAAAGAGA
Found at i:11107058 original size:17 final size:16
Alignment explanation
Indices: 11107036--11107085 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
11107026 TATTTTTCAA
11107036 TAAAAATTCTAAAATTT
1 TAAAAATT-TAAAATTT
* *
11107053 TAAAAATATATAATTT
1 TAAAAATTTAAAATTT
*
11107069 TGAAAATTTCAAAATTT
1 TAAAAATTT-AAAATTT
11107086 ATGAAAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 14 0.52
17 13 0.48
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (16 bp):
TAAAAATTTAAAATTT
Found at i:11107621 original size:10 final size:9
Alignment explanation
Indices: 11107594--11107625 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
11107584 AAAAAATATA
11107594 TTTATTATT
1 TTTATTATT
11107603 TTTATTATT
1 TTTATTATT
11107612 TTTATGTATT
1 TTTAT-TATT
11107622 TTTA
1 TTTA
11107626 AAGAGTGAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (9 bp):
TTTATTATT
Found at i:11108456 original size:12 final size:12
Alignment explanation
Indices: 11108439--11108491 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
11108429 ATGGTTGCCC
*
11108439 TCATCATTGTCA
1 TCATCATTATCA
11108451 TCATCATTATCA
1 TCATCATTATCA
* * *
11108463 TTATCATCAACA
1 TCATCATTATCA
*
11108475 TCATCGTTATCA
1 TCATCATTATCA
11108487 TCATC
1 TCATC
11108492 TTCTACTTCA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.30, C:0.26, G:0.04, T:0.40
Consensus pattern (12 bp):
TCATCATTATCA
Found at i:11108464 original size:18 final size:18
Alignment explanation
Indices: 11108439--11108491 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
11108429 ATGGTTGCCC
*
11108439 TCATCATTGTCATCATCA
1 TCATCATTATCATCATCA
* *
11108457 TTATCATTATCATCAACA
1 TCATCATTATCATCATCA
*
11108475 TCATCGTTATCATCATC
1 TCATCATTATCATCATC
11108492 TTCTACTTCA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.30, C:0.26, G:0.04, T:0.40
Consensus pattern (18 bp):
TCATCATTATCATCATCA
Found at i:11110295 original size:6 final size:6
Alignment explanation
Indices: 11110284--11110310 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
11110274 AATTTAGCCT
11110284 TTGGCA TTGGCA TTGGCA TTGGCA TTG
1 TTGGCA TTGGCA TTGGCA TTGGCA TTG
11110311 CTCAAAGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.33, T:0.37
Consensus pattern (6 bp):
TTGGCA
Found at i:11116654 original size:19 final size:21
Alignment explanation
Indices: 11116630--11116671 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 21
11116620 TTAGTAAATT
11116630 AGTAAATAAAA-ATAAAA-AA
1 AGTAAATAAAACATAAAATAA
11116649 AGTAAATAAAACATAAAATAA
1 AGTAAATAAAACATAAAATAA
11116670 AG
1 AG
11116672 ACTTTGTCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 11 0.52
20 6 0.29
21 4 0.19
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (21 bp):
AGTAAATAAAACATAAAATAA
Found at i:11124176 original size:35 final size:35
Alignment explanation
Indices: 11124137--11124226 Score: 117
Period size: 35 Copynumber: 2.6 Consensus size: 35
11124127 ACTGATACTT
11124137 TGATTCGCATGTTAAGCATGTTACTATTCTGATTA
1 TGATTCGCATGTTAAGCATGTTACTATTCTGATTA
* * * *
11124172 TGATTTGCATGTTGAGCATGTTATTATTCTGATTC
1 TGATTCGCATGTTAAGCATGTTACTATTCTGATTA
* * *
11124207 TGAATCACTTGTTAAGCATG
1 TGATTCGCATGTTAAGCATG
11124227 CCATTGTGTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.43
Consensus pattern (35 bp):
TGATTCGCATGTTAAGCATGTTACTATTCTGATTA
Found at i:11128259 original size:39 final size:39
Alignment explanation
Indices: 11128214--11128295 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
11128204 AAGCAAGACA
*
11128214 CTGGAAATGTATCCGGTCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
11128253 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
11128292 CTGG
1 CTGG
11128296 TAACATAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.20, C:0.26, G:0.30, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:11133099 original size:22 final size:22
Alignment explanation
Indices: 11133069--11133120 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
11133059 AGGTGTTAAA
* *
11133069 ACAACGAAAGAGTTGTCTTAGT
1 ACAACGAAAAAGTTGTCTGAGT
*
11133091 ACAATGAAAAAGTTGTCTGAGT
1 ACAACGAAAAAGTTGTCTGAGT
11133113 ACAACGAA
1 ACAACGAA
11133121 CCCAAATCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.23
Consensus pattern (22 bp):
ACAACGAAAAAGTTGTCTGAGT
Found at i:11142541 original size:13 final size:13
Alignment explanation
Indices: 11142508--11142550 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
11142498 TGATATTTTG
11142508 TTATTAATTTATTA
1 TTATTAA-TTATTA
*
11142522 TTA-TAATTATAA
1 TTATTAATTATTA
11142534 TTATTAATTATTA
1 TTATTAATTATTA
11142547 TTAT
1 TTAT
11142551 CGTTTTCTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 8 0.31
13 15 0.58
14 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTATTAATTATTA
Found at i:11143241 original size:17 final size:18
Alignment explanation
Indices: 11143219--11143252 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11143209 GAAATAAGTT
11143219 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
11143236 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
11143253 AAAATAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:11150103 original size:13 final size:13
Alignment explanation
Indices: 11150085--11150126 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
11150075 TATGAATTAA
11150085 ATATTATTATATT
1 ATATTATTATATT
*
11150098 ATATTATTATAAT
1 ATATTATTATATT
*
11150111 GTATTATTAATATT
1 ATATTATT-ATATT
11150125 AT
1 AT
11150127 TAACTAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 19 0.79
14 5 0.21
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (13 bp):
ATATTATTATATT
Found at i:11156504 original size:23 final size:23
Alignment explanation
Indices: 11156475--11156541 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
11156465 TAAATGACAT
11156475 TTTTATTAAATAATAATTTAATA
1 TTTTATTAAATAATAATTTAATA
*
11156498 TTTTATTTAA-AATAA--TAATA
1 TTTTATTAAATAATAATTTAATA
* *
11156518 TTTTAATAAGTAAT-ATTATAATA
1 TTTTATTAAATAATAATT-TAATA
11156541 T
1 T
11156542 ATGTAAAAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
20 13 0.36
21 3 0.08
22 5 0.14
23 15 0.42
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (23 bp):
TTTTATTAAATAATAATTTAATA
Found at i:11162620 original size:18 final size:18
Alignment explanation
Indices: 11162587--11162639 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
11162577 ATTCACCTAA
*
11162587 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
** *
11162606 ATTCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
11162624 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
11162640 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:11162757 original size:9 final size:9
Alignment explanation
Indices: 11162743--11162800 Score: 82
Period size: 9 Copynumber: 6.4 Consensus size: 9
11162733 GTAGTGATTC
11162743 AATTCGGTT
1 AATTCGGTT
*
11162752 AATTCGGGT
1 AATTCGGTT
11162761 AATTCGGTT
1 AATTCGGTT
*
11162770 AATTCAAG-T
1 AATTC-GGTT
11162779 AATTCGGTT
1 AATTCGGTT
11162788 AATTCGGTT
1 AATTCGGTT
11162797 AATT
1 AATT
11162801 TTTAACCAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
8 1 0.02
9 41 0.95
10 1 0.02
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:11164168 original size:31 final size:29
Alignment explanation
Indices: 11164115--11164175 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 29
11164105 AATTATACAT
* **
11164115 ATGAAATTTTGATTTTGGTTCAAATATCTAC
1 ATGAAATTTTAATTTTAATTC-AAT-TCTAC
11164146 ATGAAATTTTAATTTTAATTCAATTCTAC
1 ATGAAATTTTAATTTTAATTCAATTCTAC
11164175 A
1 A
11164176 CCTTTAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 6 0.22
30 3 0.11
31 18 0.67
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (29 bp):
ATGAAATTTTAATTTTAATTCAATTCTAC
Found at i:11165451 original size:19 final size:20
Alignment explanation
Indices: 11165414--11165461 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
11165404 TTCGGGGATC
11165414 ATTTTGAAACAAAACAAAAA
1 ATTTTGAAACAAAACAAAAA
* *
11165434 ATTTTGGAA-AAAATAAAAA
1 ATTTTGAAACAAAACAAAAA
*
11165453 ATTTCGAAA
1 ATTTTGAAA
11165462 ACAAGGGTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.60, C:0.06, G:0.08, T:0.25
Consensus pattern (20 bp):
ATTTTGAAACAAAACAAAAA
Found at i:11166833 original size:45 final size:44
Alignment explanation
Indices: 11166760--11166851 Score: 105
Period size: 45 Copynumber: 2.1 Consensus size: 44
11166750 GTCTTACCCA
* * * *
11166760 TTTTGGTTTAATGCCATAGTATCATTCAA-CTATGTTCTTTTCTT
1 TTTTGATTTAATGACATAGTATCATTCAATC-ATGGTCTTTCCTT
**
11166804 TTTTGATTATAATGACATAGTATTTTTCAATCATGGTCTTTCCTT
1 TTTTGATT-TAATGACATAGTATCATTCAATCATGGTCTTTCCTT
11166849 TTT
1 TTT
11166852 CTCAAACAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
44 7 0.17
45 32 0.80
46 1 0.03
ACGTcount: A:0.22, C:0.14, G:0.11, T:0.53
Consensus pattern (44 bp):
TTTTGATTTAATGACATAGTATCATTCAATCATGGTCTTTCCTT
Found at i:11172944 original size:20 final size:19
Alignment explanation
Indices: 11172919--11172968 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
11172909 TTCGGTGATC
* *
11172919 ATTTTGAAACAAAATAGTAA
1 ATTTTGAAAAAAAAT-GAAA
11172939 ATTTTGAAAAAAAATGAAA
1 ATTTTGAAAAAAAATGAAA
11172958 ACTTTTGAAAA
1 A-TTTTGAAAA
11172969 TAGGGGTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.56, C:0.04, G:0.10, T:0.30
Consensus pattern (19 bp):
ATTTTGAAAAAAAATGAAA
Found at i:11176158 original size:53 final size:52
Alignment explanation
Indices: 11176100--11176229 Score: 138
Period size: 53 Copynumber: 2.4 Consensus size: 52
11176090 TAATATAAAA
*
11176100 TTTAAATCTATTATTATATTTTTTAAAAAAAAT-ATTTATATACTTTTATA-TAT
1 TTTAAATTTATTATTATATTTTTT--AAAAAATCATTTATA-ACTTTTATATTAT
* * * * *
11176153 TTTAAATTTATATATTATTATTTTTTCAATAATCATTTTTAATTTTTATATTTT
1 TTTAAATTTAT-TATTA-TATTTTTTAAAAAATCATTTATAACTTTTATATTAT
11176207 TTTAAATTTTATTATTATATTTT
1 TTTAAA-TTTATTATTATATTTT
11176230 AAAATTATTT
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
53 29 0.44
54 24 0.36
55 13 0.20
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (52 bp):
TTTAAATTTATTATTATATTTTTTAAAAAATCATTTATAACTTTTATATTAT
Found at i:11176224 original size:51 final size:54
Alignment explanation
Indices: 11176143--11176260 Score: 140
Period size: 51 Copynumber: 2.3 Consensus size: 54
11176133 ATTTATATAC
* *
11176143 TTTTATA-TATTTTAAATTTATATATTATTATTTTTTCAATAATCA-TT-TTTAAT
1 TTTTATATTTTTTTAAATTTATATATTATTATATTTT-AA-AATCATTTATTTAAT
* *
11176196 TTTTATATTTTTTTAAA-TT-T-TATTATTATATTTTAAAATTATTTATTTATT
1 TTTTATATTTTTTTAAATTTATATATTATTATATTTTAAAATCATTTATTTAAT
11176247 TTTTATATTTTTTT
1 TTTTATATTTTTTT
11176261 TGAATTTTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
49 4 0.07
50 4 0.07
51 32 0.55
52 1 0.02
53 9 0.16
54 8 0.14
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (54 bp):
TTTTATATTTTTTTAAATTTATATATTATTATATTTTAAAATCATTTATTTAAT
Found at i:11176249 original size:20 final size:18
Alignment explanation
Indices: 11176187--11176249 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 18
11176177 TTCAATAATC
11176187 ATTTTT-AATTTTTATATT
1 ATTTTTAAATTTTTAT-TT
11176205 -TTTTTAAATTTTATTATTAT
1 ATTTTTAAA-TTT-TTATT-T
*
11176225 ATTTTAAAATTATTTATTT
1 ATTTTTAAATT-TTTATTT
11176244 ATTTTT
1 ATTTTT
11176250 TATATTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
17 5 0.14
18 2 0.05
19 10 0.27
20 12 0.32
21 8 0.22
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
ATTTTTAAATTTTTATTT
Found at i:11176250 original size:21 final size:21
Alignment explanation
Indices: 11176201--11176251 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
11176191 TTAATTTTTA
* *
11176201 TATTTTTTTAAATTTTATTAT
1 TATTTTTTAAAATTATATTAT
*
11176222 TATATTTTAAAATTAT-TTATT
1 TATTTTTTAAAATTATATTA-T
11176243 TATTTTTTA
1 TATTTTTTA
11176252 TATTTTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 3 0.12
21 22 0.88
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
TATTTTTTAAAATTATATTAT
Found at i:11176320 original size:51 final size:51
Alignment explanation
Indices: 11176263--11176373 Score: 127
Period size: 51 Copynumber: 2.2 Consensus size: 51
11176253 ATTTTTTTTG
* * * * *
11176263 AATTTTTTAGAATTAGGA-TCAAATTGAGATCATTTGTAAATTTTGAGGGTT-
1 AATTTTTTAAAATTAGGACT-AAATCGAGATAATTTGTAAA-GTTAAGGGTTA
* *
11176314 AATTTTTTAAAATTATGACTAAATCGATATAATTTGTAAAGTTAAGGGTTA
1 AATTTTTTAAAATTAGGACTAAATCGAGATAATTTGTAAAGTTAAGGGTTA
11176365 AATTTTTTA
1 AATTTTTTA
11176374 TTATACCAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
50 8 0.16
51 42 0.82
52 1 0.02
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.44
Consensus pattern (51 bp):
AATTTTTTAAAATTAGGACTAAATCGAGATAATTTGTAAAGTTAAGGGTTA
Found at i:11184141 original size:17 final size:16
Alignment explanation
Indices: 11184088--11184138 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
11184078 ATATTTTTAT
11184088 TTTTTTAATTTTAAAA
1 TTTTTTAATTTTAAAA
**
11184104 -TACTT--TTTTAAAA
1 TTTTTTAATTTTAAAA
11184117 TTTTTTAATTTTAAAA
1 TTTTTTAATTTTAAAA
11184133 TTTTTT
1 TTTTTT
11184139 TAAAATACTT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
13 8 0.29
14 3 0.11
15 3 0.11
16 14 0.50
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTTTAATTTTAAAA
Found at i:11184151 original size:29 final size:28
Alignment explanation
Indices: 11184088--11184144 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 28
11184078 ATATTTTTAT
11184088 TTTTTTAATTTTAAAATACTTTTTTAAAA
1 TTTTTTAATTTTAAAATA-TTTTTTAAAA
11184117 TTTTTTAATTTTAAAAT-TTTTTTAAAA
1 TTTTTTAATTTTAAAATATTTTTTAAAA
11184144 T
1 T
11184145 ACTTTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 11 0.39
29 17 0.61
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTTTTAATTTTAAAATATTTTTTAAAA
Found at i:11184162 original size:39 final size:39
Alignment explanation
Indices: 11184096--11184206 Score: 181
Period size: 39 Copynumber: 2.9 Consensus size: 39
11184086 ATTTTTTTAA
* *
11184096 TTTTAAAATACTTTTTTAAAATTTTTTAATTTTAAAATTT
1 TTTTAAAATACTTTTTT-TAATTTTTTAATTTTAAAATAT
11184136 TTTTAAAATACTTTTTTTAATTTTTTAATTTTAAAATAT
1 TTTTAAAATACTTTTTTTAATTTTTTAATTTTAAAATAT
11184175 TTTTAAAATACTTTTTTTAA-TTTTT-ATTTTAA
1 TTTTAAAATACTTTTTTTAATTTTTTAATTTTAA
11184207 TTTTTAAAAT
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
37 7 0.10
38 5 0.07
39 40 0.58
40 17 0.25
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (39 bp):
TTTTAAAATACTTTTTTTAATTTTTTAATTTTAAAATAT
Found at i:11184189 original size:28 final size:28
Alignment explanation
Indices: 11184136--11184189 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
11184126 TTTAAAATTT
** *
11184136 TTTTAAAATACTTTTTTTAATTTTTTAA
1 TTTTAAAATACTTTTTAAAATCTTTTAA
11184164 TTTTAAAATA-TTTTTAAAATACTTTT
1 TTTTAAAATACTTTTTAAAAT-CTTTT
11184190 TTTAATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 8 0.36
28 14 0.64
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTTAAAATACTTTTTAAAATCTTTTAA
Found at i:11190561 original size:17 final size:18
Alignment explanation
Indices: 11190539--11190574 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
11190529 CAATTTGGGT
11190539 CATGTGGG-CCACACGGG
1 CATGTGGGCCCACACGGG
11190556 CATGTGGGCCCACACGGG
1 CATGTGGGCCCACACGGG
11190574 C
1 C
11190575 GAACACCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.17, C:0.33, G:0.39, T:0.11
Consensus pattern (18 bp):
CATGTGGGCCCACACGGG
Found at i:11191473 original size:18 final size:18
Alignment explanation
Indices: 11191450--11191484 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
11191440 ATAAGAAAAT
11191450 GATTTG-AAATTGAATAAC
1 GATTTGTAAA-TGAATAAC
11191468 GATTTGTAAATGAATAA
1 GATTTGTAAATGAATAA
11191485 TATTTTGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.46, C:0.03, G:0.17, T:0.34
Consensus pattern (18 bp):
GATTTGTAAATGAATAAC
Found at i:11193480 original size:507 final size:507
Alignment explanation
Indices: 11192534--11193528 Score: 1600
Period size: 507 Copynumber: 2.0 Consensus size: 507
11192524 CTTTCGACCC
* * *
11192534 TGGTCGAGAAGGCGAAAATAGCCAAGAAGGGTATGGAGGTAGTCATGATCGGAGAACATCGAAAC
1 TGGTCGAAAAGGCGAAAATAGCCAAGAAGGATATGGAGGTAGTCATGATCGGAGAACATCAAAAC
* * ** *
11192599 TACTTATCTAATGTGATCTCTGTACTGGTGGCGGAGAAGTTGGTTCGTAAGGGATGTGAGGCATT
66 TACTTATCTAATGTGATCTCTGCACTAGTGGCGGAGAAGTTAATTCATAAGGGATGTGAGGCATT
*
11192664 CTTGGCCTATGTAAGTGTTTCAGATTCTAGGGACTCTACAGTTAAGGATATCAGAACAGAAAAGG
131 CTTGGCCTATGTAAGTGTTTCAGATTCTAGGGACTCTACAGTTAAGGATATCAAAACAGAAAAGG
* *
11192729 ATGTTCCAGACATTTTTCCTGATGAGCTATCGGGTTTACCTCCGAATCGTGAAGTGGAGTTTGGG
196 ATGTTCCAGACATCTTTCCTAATGAGCTATCGGGTTTACCTCCGAATCGTGAAGTGGAGTTTGGG
* *
11192794 ATAGAGCTCATTCCTGGTACAGCTCCGGTGTCCATCGCTTCCTATAGAATGGCACCGAAGGAGTT
261 ATAGAGCTCATTCCTAGTACAGCTCCGGTGTCCATCGCTTCCTATAGAATGGCACCGAAGGAGCT
* *
11192859 TGTGGAGTTTAAAGCTCAGATTCAAGAGCTTTTAGATCATGGGTTCATCTACCCTAGTGTATCTC
326 TGAGGAGCTTAAAGCTCAGATTCAAGAGCTTTTAGATCATGGGTTCATCTACCCTAGTGTATCTC
* *
11192924 CGTGGGGAGCACCAGTTCTGTTTGTAAAGAAAAAGGATGGATACATGCGTATGTGCATCGACTAC
391 CGTGGGGAGCACCAGTTCTGTTTGTAAAGAAAAAAGATGGATACATGCGTATGTGCATCAACTAC
* *
11192989 AAGCAGCTGAATAAATTAACAATTAAGAATAAGTAATGAAATCTTTCTGCCT
456 AAGCAACTAAATAAATTAACAATTAAGAATAAGTAATGAAATCTTTCTGCCT
* * *
11193041 TGGTCGAAAAGGCGAAAATCA-CCGAGGAGGATATGGAGGTAGTCATGATCGGAGAACTTCAAAA
1 TGGTCGAAAAGGCGAAAAT-AGCCAAGAAGGATATGGAGGTAGTCATGATCGGAGAACATCAAAA
11193105 CTACTTATCTAATGTGATCTCTGCACTAGTGGCGGAGAAGTTAATTCATAAGGGATGTGAGGCAT
65 CTACTTATCTAATGTGATCTCTGCACTAGTGGCGGAGAAGTTAATTCATAAGGGATGTGAGGCAT
** * *
11193170 TCTTGGCCTATGTAAGTGTTTCAGATTCTAGGGACTCTACAGTTAAGGATATCAAAATGGTAAAT
130 TCTTGGCCTATGTAAGTGTTTCAGATTCTAGGGACTCTACAGTTAAGGATATCAAAACAGAAAAG
* * *
11193235 GATGTTCC-GAACGTCTTTCCTAATGAGCTATTGGGTTTACCTTCGAATCGTGAAGTGGAGTTTG
195 GATGTTCCAG-ACATCTTTCCTAATGAGCTATCGGGTTTACCTCCGAATCGTGAAGTGGAGTTTG
*
11193299 GGATAGAGCTCTTTCCTAGTACAGCTCCGGTGTCCATCGC-TCCTTATAGAATGGCACCGAAGGA
259 GGATAGAGCTCATTCCTAGTACAGCTCCGGTGTCCATCGCTTCC-TATAGAATGGCACCGAAGGA
* * * *
11193363 GCTTGAGGAGCTTAAGGCTCAGATTCAAGAGCTTTTAGATCGTGGGTTCATCTGCCCTAGTGTGT
323 GCTTGAGGAGCTTAAAGCTCAGATTCAAGAGCTTTTAGATCATGGGTTCATCTACCCTAGTGTAT
* *
11193428 CTCCGTGGGGAGCACCGGTTCTGTTTGTAAAGAAAAAAGATGGATCCATGCGTATGTGCATCAAC
388 CTCCGTGGGGAGCACCAGTTCTGTTTGTAAAGAAAAAAGATGGATACATGCGTATGTGCATCAAC
* *
11193493 TACAGGCAACTAAATAAATTAACCATTAAGAATAAG
453 TACAAGCAACTAAATAAATTAACAATTAAGAATAAG
11193529 GGCCCCTACC
Statistics
Matches: 447, Mismatches: 38, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
506 4 0.01
507 442 0.99
508 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (507 bp):
TGGTCGAAAAGGCGAAAATAGCCAAGAAGGATATGGAGGTAGTCATGATCGGAGAACATCAAAAC
TACTTATCTAATGTGATCTCTGCACTAGTGGCGGAGAAGTTAATTCATAAGGGATGTGAGGCATT
CTTGGCCTATGTAAGTGTTTCAGATTCTAGGGACTCTACAGTTAAGGATATCAAAACAGAAAAGG
ATGTTCCAGACATCTTTCCTAATGAGCTATCGGGTTTACCTCCGAATCGTGAAGTGGAGTTTGGG
ATAGAGCTCATTCCTAGTACAGCTCCGGTGTCCATCGCTTCCTATAGAATGGCACCGAAGGAGCT
TGAGGAGCTTAAAGCTCAGATTCAAGAGCTTTTAGATCATGGGTTCATCTACCCTAGTGTATCTC
CGTGGGGAGCACCAGTTCTGTTTGTAAAGAAAAAAGATGGATACATGCGTATGTGCATCAACTAC
AAGCAACTAAATAAATTAACAATTAAGAATAAGTAATGAAATCTTTCTGCCT
Found at i:11195001 original size:19 final size:20
Alignment explanation
Indices: 11194977--11195022 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
11194967 CATCCAAACA
11194977 CCAGAAAAGTAAATCA-TTT
1 CCAGAAAAGTAAATCATTTT
11194996 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
11195016 CCAGAAA
1 CCAGAAA
11195023 TTATTTTCCG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:11198932 original size:47 final size:48
Alignment explanation
Indices: 11198863--11198965 Score: 154
Period size: 47 Copynumber: 2.2 Consensus size: 48
11198853 GGTGACCAGG
**
11198863 CACTATTATTCATTATTCGTGTAGGTTTAACCCTGATAGGTAACCAAA
1 CACTATTATTCATTATTCGTGTAGGTTTAACCCAAATAGGTAACCAAA
* * *
11198911 CACTATTATTCATT-TTTGTGTAGGTTTAACCCAAATGGGTAACCAGA
1 CACTATTATTCATTATTCGTGTAGGTTTAACCCAAATAGGTAACCAAA
11198958 CACTATTA
1 CACTATTA
11198966 CTTTCACCTA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 36 0.72
48 14 0.28
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (48 bp):
CACTATTATTCATTATTCGTGTAGGTTTAACCCAAATAGGTAACCAAA
Found at i:11204641 original size:26 final size:26
Alignment explanation
Indices: 11204605--11204656 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
11204595 ACTAATCCCT
11204605 ATAGAGGGAATTAGTGAGTGGAGATA
1 ATAGAGGGAATTAGTGAGTGGAGATA
11204631 ATAGAGGGAATTAGTGAGTGGAGATA
1 ATAGAGGGAATTAGTGAGTGGAGATA
11204657 TGAATAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.23
Consensus pattern (26 bp):
ATAGAGGGAATTAGTGAGTGGAGATA
Found at i:11206155 original size:54 final size:54
Alignment explanation
Indices: 11206038--11206449 Score: 278
Period size: 54 Copynumber: 7.8 Consensus size: 54
11206028 AATTTGCTAA
* * * * *
11206038 TTACAAGATTTTTCGAGTCTTG-TGACTTGTC-AATTAAGATTGCAACCTTATAC
1 TTACAAGATTTTTCGAATCTTGCAG-CTTGTCGATTTAAGATCGTAACCTTATAC
*** * * *
11206091 TTATTGGATTTTTCGAATCTTGCAGTTTGTCGATTTAAGATCGTAATCTTATGC
1 TTACAAGATTTTTCGAATCTTGCAGCTTGTCGATTTAAGATCGTAACCTTATAC
*
11206145 TTAAAAGA-TTTTCAGAATCTTGCAGCTTGTCGATTTAAGATCG-AAGCCTTATAC
1 TTACAAGATTTTTC-GAATCTTGCAGCTTGTCGATTTAAGATCGTAA-CCTTATAC
* * * * * * * * *
11206199 TTACAAGATTTTTTGTATCTTACGGCTCGTCAATTTAATATTGTAGCCTTATAC
1 TTACAAGATTTTTCGAATCTTGCAGCTTGTCGATTTAAGATCGTAACCTTATAC
* * * * *
11206253 TCATAAGATTTTTCGAATCTTGCAGCTT-TCTGATTTAAGATTGCAGCCTTATAC
1 TTACAAGATTTTTCGAATCTTGCAGCTTGTC-GATTTAAGATCGTAACCTTATAC
* * * * *
11206307 TTACAAGA-TTTTCTGAATCTTG-TGGTT-T-G---CAATATCGCAACCTTATAC
1 TTACAAGATTTTTC-GAATCTTGCAGCTTGTCGATTTAAGATCGTAACCTTATAC
* * * * ** *
11206355 TTACAAGA-TTCTCAGAATCTTGCAGCTCGTCGATGTAAAATCCCAAACTTATAC
1 TTACAAGATTTTTC-GAATCTTGCAGCTTGTCGATTTAAGATCGTAACCTTATAC
* * * *
11206409 TTACAAGA-TTTCCAAAATCTTGTAG-TTGCCGATTTAAGATC
1 TTACAAGATTTTTC-GAATCTTGCAGCTTGTCGATTTAAGATC
11206450 ACAACATTCT
Statistics
Matches: 283, Mismatches: 62, Indels: 28
0.76 0.17 0.08
Matches are distributed among these distances:
48 35 0.12
49 2 0.01
50 1 0.00
51 2 0.01
53 53 0.19
54 185 0.65
55 5 0.02
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (54 bp):
TTACAAGATTTTTCGAATCTTGCAGCTTGTCGATTTAAGATCGTAACCTTATAC
Found at i:11206706 original size:23 final size:23
Alignment explanation
Indices: 11206679--11206722 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
11206669 GAAATTTCAT
11206679 TGTACAGCTCGCCGAATTTTTGA
1 TGTACAGCTCGCCGAATTTTTGA
**
11206702 TGTACAGCTCGCTTAATTTTT
1 TGTACAGCTCGCCGAATTTTT
11206723 CGATTTATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.41
Consensus pattern (23 bp):
TGTACAGCTCGCCGAATTTTTGA
Found at i:11211807 original size:27 final size:27
Alignment explanation
Indices: 11211769--11211823 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
11211759 TATGTGTAAA
11211769 AAATAATACTCCATAATATTAATGTTT
1 AAATAATACTCCATAATATTAATGTTT
11211796 AAATAATACTCCATAATATTAATGTTT
1 AAATAATACTCCATAATATTAATGTTT
11211823 A
1 A
11211824 CACATTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (27 bp):
AAATAATACTCCATAATATTAATGTTT
Found at i:11212555 original size:20 final size:20
Alignment explanation
Indices: 11212529--11212585 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 20
11212519 AGTGAAAAAA
11212529 AAAACAAGAAAAAAAACAAG
1 AAAACAAGAAAAAAAACAAG
* *
11212549 CAAACAATAATAAAAAACAAG
1 AAAACAAGAA-AAAAAACAAG
11212570 AAAACAGTAGAAAAAA
1 AAAACA--AGAAAAAA
11212586 CAATTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 8 0.27
21 15 0.50
22 4 0.13
23 3 0.10
ACGTcount: A:0.75, C:0.11, G:0.09, T:0.05
Consensus pattern (20 bp):
AAAACAAGAAAAAAAACAAG
Found at i:11212565 original size:21 final size:20
Alignment explanation
Indices: 11212529--11212588 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
11212519 AGTGAAAAAA
*
11212529 AAAACAAGAAAAAAAACAAG
1 AAAACAATAAAAAAAACAAG
*
11212549 CAAACAATAATAAAAAACAAG
1 AAAACAATAA-AAAAAACAAG
* *
11212570 AAAACAGTAGAAAAAACAA
1 AAAACAATAAAAAAAACAA
11212589 TTTTTTTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 17 0.50
21 17 0.50
ACGTcount: A:0.75, C:0.12, G:0.08, T:0.05
Consensus pattern (20 bp):
AAAACAATAAAAAAAACAAG
Found at i:11221891 original size:47 final size:47
Alignment explanation
Indices: 11221832--11222184 Score: 550
Period size: 47 Copynumber: 7.6 Consensus size: 47
11221822 ATTCATGAAT
* ** **
11221832 TTGGTCAGCATATATAAAACAGTTTGGGCAGCATTTAAGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
11221879 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
* **
11221926 TTGGACAGCAT-TATGTAACAAATTGGGCAGCTTTTATTCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
*
11221972 TTGGACAGCATATATGTAATAAATTGGGCAGCATTTAAGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
* * *
11222019 TTGGACAGCAT-TATGTAACAAATTGAGCAGCTTTTATGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
*
11222065 TTGGACAGCATATATGTAATAAATTGGGCAGCATTTAAGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
*
11222112 TTGGACAGCAT-TATGTAACAAATTGGGCAGCATTTATGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
*
11222158 TTGGACAGCATATATGTAATAAATTGG
1 TTGGACAGCATATATGTAACAAATTGG
11222185 TTCAACTCAT
Statistics
Matches: 280, Mismatches: 23, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
46 129 0.46
47 151 0.54
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (47 bp):
TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
Found at i:11222014 original size:93 final size:93
Alignment explanation
Indices: 11221855--11222184 Score: 606
Period size: 93 Copynumber: 3.5 Consensus size: 93
11221845 ATAAAACAGT
* *
11221855 TTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCA
1 TTGGGCAGCATTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGGGCAGCATTTAAGCA
11221920 TCAAAATTGGACAGCATTATGTAACAAA
66 TCAAAATTGGACAGCATTATGTAACAAA
* *
11221948 TTGGGCAGCTTTTATTCATCAAAATTGGACAGCATATATGTAATAAATTGGGCAGCATTTAAGCA
1 TTGGGCAGCATTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGGGCAGCATTTAAGCA
11222013 TCAAAATTGGACAGCATTATGTAACAAA
66 TCAAAATTGGACAGCATTATGTAACAAA
* *
11222041 TTGAGCAGCTTTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGGGCAGCATTTAAGCA
1 TTGGGCAGCATTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGGGCAGCATTTAAGCA
11222106 TCAAAATTGGACAGCATTATGTAACAAA
66 TCAAAATTGGACAGCATTATGTAACAAA
11222134 TTGGGCAGCATTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGG
1 TTGGGCAGCATTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGG
11222185 TTCAACTCAT
Statistics
Matches: 229, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 229 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (93 bp):
TTGGGCAGCATTTATGCATCAAAATTGGACAGCATATATGTAATAAATTGGGCAGCATTTAAGCA
TCAAAATTGGACAGCATTATGTAACAAA
Found at i:11223115 original size:42 final size:43
Alignment explanation
Indices: 11223029--11223156 Score: 165
Period size: 42 Copynumber: 3.0 Consensus size: 43
11223019 AACTCGTACA
* * *
11223029 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCG
*
11223072 ATGCC-ACTGTCCCAGATA-GGTCTTACACGTAAACACA-AGTCG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAACACATA-TCG
11223114 ATGCCAACGTCCCAGACATGGTCTTACACG-ATAACACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTA-AACACATATCG
11223157 GAAATCCTAT
Statistics
Matches: 74, Mismatches: 5, Indels: 12
0.81 0.05 0.13
Matches are distributed among these distances:
41 1 0.01
42 37 0.50
43 35 0.47
44 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCG
Found at i:11223151 original size:43 final size:42
Alignment explanation
Indices: 11223029--11223156 Score: 163
Period size: 43 Copynumber: 3.0 Consensus size: 42
11223019 AACTCGTACA
* *
11223029 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAA-CACATATCG
*
11223072 ATGCC-ACTGTCCCAGATA-GGTCTTACACGTAAACACA-AGTCG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGT-AACACATA-TCG
11223114 ATGCCAACGTCCCAGACATGGTCTTACACGATAACACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-TAACACATATCG
11223157 GAAATCCTAT
Statistics
Matches: 74, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
41 1 0.01
42 34 0.46
43 37 0.50
44 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAACACATATCG
Found at i:11229505 original size:28 final size:28
Alignment explanation
Indices: 11229468--11229528 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
11229458 GAATTTAGAA
*
11229468 GAATGGCGTTGAATGCTATTTTGAATTT
1 GAATGACGTTGAATGCTATTTTGAATTT
11229496 GAATGACGTTGAATGCTATTTTGAATTT
1 GAATGACGTTGAATGCTATTTTGAATTT
11229524 GAATG
1 GAATG
11229529 TTATTTTCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.28, C:0.07, G:0.25, T:0.41
Consensus pattern (28 bp):
GAATGACGTTGAATGCTATTTTGAATTT
Found at i:11235507 original size:9 final size:9
Alignment explanation
Indices: 11235489--11235543 Score: 76
Period size: 9 Copynumber: 6.2 Consensus size: 9
11235479 TTGGGTAATT
11235489 TTCGGGTAA
1 TTCGGGTAA
*
11235498 TTCGGTTAA
1 TTCGGGTAA
*
11235507 TTCGGTTAA
1 TTCGGGTAA
*
11235516 TTCGGTTAA
1 TTCGGGTAA
11235525 -TCGGGTAA
1 TTCGGGTAA
11235533 TTCGGGTAA
1 TTCGGGTAA
11235542 TT
1 TT
11235544 TTTAACCAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
8 7 0.16
9 36 0.84
ACGTcount: A:0.22, C:0.11, G:0.27, T:0.40
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:11235516 original size:18 final size:18
Alignment explanation
Indices: 11235489--11235543 Score: 85
Period size: 18 Copynumber: 3.1 Consensus size: 18
11235479 TTGGGTAATT
11235489 TTCGGGTAATTCGGTTAA
1 TTCGGGTAATTCGGTTAA
*
11235507 TTCGGTTAATTCGGTTAA
1 TTCGGGTAATTCGGTTAA
*
11235525 -TCGGGTAATTCGGGTAA
1 TTCGGGTAATTCGGTTAA
11235542 TT
1 TT
11235544 TTTAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
17 15 0.45
18 18 0.55
ACGTcount: A:0.22, C:0.11, G:0.27, T:0.40
Consensus pattern (18 bp):
TTCGGGTAATTCGGTTAA
Found at i:11235643 original size:29 final size:29
Alignment explanation
Indices: 11235606--11235684 Score: 149
Period size: 29 Copynumber: 2.7 Consensus size: 29
11235596 TTATTAACCG
11235606 AAAAAAATTCGGTTCGGTTAATTTTTTTT
1 AAAAAAATTCGGTTCGGTTAATTTTTTTT
*
11235635 AAAAAAATTTGGTTCGGTTAATTTTTTTT
1 AAAAAAATTCGGTTCGGTTAATTTTTTTT
11235664 AAAAAAATTCGGTTCGGTTAA
1 AAAAAAATTCGGTTCGGTTAA
11235685 CGGTTAAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.44
Consensus pattern (29 bp):
AAAAAAATTCGGTTCGGTTAATTTTTTTT
Found at i:11237729 original size:20 final size:18
Alignment explanation
Indices: 11237682--11237738 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 18
11237672 GACGAAAAGG
*
11237682 ATGAGAAATGGATATGAT
1 ATGAGAAATGGATATGAA
*
11237700 ATGGGAAATGGAATATGAA
1 ATGAGAAATGG-ATATGAA
11237719 ATGATGAAATGGGATATGAA
1 ATGA-GAAAT-GGATATGAA
11237739 TATTGAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 10 0.30
19 9 0.27
20 12 0.36
21 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.30, T:0.25
Consensus pattern (18 bp):
ATGAGAAATGGATATGAA
Found at i:11237730 original size:27 final size:27
Alignment explanation
Indices: 11237695--11237749 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
11237685 AGAAATGGAT
*
11237695 ATGATATGGGAAATGGAATA-TGAAATG
1 ATGAAATGGGAAAT-GAATATTGAAATG
*
11237722 ATGAAATGGGATATGAATATTGAAATG
1 ATGAAATGGGAAATGAATATTGAAATG
11237749 A
1 A
11237750 ATTCATGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.45, C:0.00, G:0.27, T:0.27
Consensus pattern (27 bp):
ATGAAATGGGAAATGAATATTGAAATG
Found at i:11237747 original size:19 final size:20
Alignment explanation
Indices: 11237686--11237748 Score: 71
Period size: 19 Copynumber: 3.3 Consensus size: 20
11237676 AAAAGGATGA
*
11237686 GAAAT-GGATATG-ATATGG
1 GAAATGGGATATGAATATGT
*
11237704 GAAATGGAATATGAA-ATGAT
1 GAAATGGGATATGAATATG-T
11237724 GAAATGGGATATGAATAT-T
1 GAAATGGGATATGAATATGT
11237743 GAAATG
1 GAAATG
11237749 AATTCATGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
18 5 0.13
19 16 0.42
20 15 0.39
21 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.29, T:0.27
Consensus pattern (20 bp):
GAAATGGGATATGAATATGT
Found at i:11251210 original size:17 final size:18
Alignment explanation
Indices: 11251173--11251210 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
11251163 GATTGAGAGT
* *
11251173 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
11251191 GAAAAGAAAT-TGAAAAA
1 GAAAAGAAATGTGAAAAA
11251208 GAA
1 GAA
11251211 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.63, C:0.03, G:0.24, T:0.11
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:11251223 original size:13 final size:12
Alignment explanation
Indices: 11251192--11251246 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
11251182 TGTGAAACAG
*
11251192 AAAAGAAATTGA
1 AAAAGAAGTTGA
11251204 AAAAGAAGTTGA
1 AAAAGAAGTTGA
*
11251216 AGAAAGAAG-AGA
1 A-AAAGAAGTTGA
*
11251228 AAATG-AGTTAGA
1 AAAAGAAGTT-GA
11251240 AAAAGAA
1 AAAAGAA
11251247 ACAAAAGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 2 0.06
11 3 0.09
12 21 0.62
13 8 0.24
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.13
Consensus pattern (12 bp):
AAAAGAAGTTGA
Found at i:11256246 original size:24 final size:24
Alignment explanation
Indices: 11256211--11256267 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
11256201 ACAGCAGCAG
*
11256211 CAACAGCAGAATTCACAACTGCAA
1 CAACAGCAGAATCCACAACTGCAA
* *
11256235 CAGCAGCAGAATCCACAGCTGCAA
1 CAACAGCAGAATCCACAACTGCAA
11256259 CAACAGCAG
1 CAACAGCAG
11256268 CTTCCGCACT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.42, C:0.32, G:0.18, T:0.09
Consensus pattern (24 bp):
CAACAGCAGAATCCACAACTGCAA
Found at i:11256343 original size:24 final size:24
Alignment explanation
Indices: 11256312--11256395 Score: 89
Period size: 24 Copynumber: 3.5 Consensus size: 24
11256302 TACAACAAAA
11256312 GCAGCAGCAGCAGCTACCACAGCT
1 GCAGCAGCAGCAGCTACCACAGCT
* *
11256336 GCAACAGCAGCAGCTTTCC-CAGCT
1 GCAGCAGCAGCAGC-TACCACAGCT
* * * * *
11256360 GCAGCAGCAACAACAACAACAGCA
1 GCAGCAGCAGCAGCTACCACAGCT
11256384 GCAGCAGCAGCA
1 GCAGCAGCAGCA
11256396 ACTGCAGCAA
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
23 1 0.02
24 44 0.92
25 3 0.06
ACGTcount: A:0.35, C:0.36, G:0.23, T:0.07
Consensus pattern (24 bp):
GCAGCAGCAGCAGCTACCACAGCT
Found at i:11256349 original size:33 final size:33
Alignment explanation
Indices: 11256279--11256341 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
11256269 TTCCGCACTT
* *
11256279 GCAGCAGCAGCAACTCCCTCAGCTACAACAAAA
1 GCAGCAGCAGCAACTACCACAGCTACAACAAAA
* *
11256312 GCAGCAGCAGCAGCTACCACAGCTGCAACA
1 GCAGCAGCAGCAACTACCACAGCTACAACA
11256342 GCAGCAGCTT
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:0.37, C:0.37, G:0.19, T:0.08
Consensus pattern (33 bp):
GCAGCAGCAGCAACTACCACAGCTACAACAAAA
Found at i:11256402 original size:9 final size:9
Alignment explanation
Indices: 11256361--11256408 Score: 60
Period size: 9 Copynumber: 5.3 Consensus size: 9
11256351 TTCCCAGCTG
11256361 CAGCAGCAA
1 CAGCAGCAA
* *
11256370 CAACAACAA
1 CAGCAGCAA
*
11256379 CAGCAGCAG
1 CAGCAGCAA
11256388 CAGCAGCAA
1 CAGCAGCAA
*
11256397 CTGCAGCAA
1 CAGCAGCAA
11256406 CAG
1 CAG
11256409 TCGCAACACC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.44, C:0.33, G:0.21, T:0.02
Consensus pattern (9 bp):
CAGCAGCAA
Found at i:11262111 original size:21 final size:22
Alignment explanation
Indices: 11262083--11262136 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
11262073 AACAGCGGTG
11262083 GCGGTGAGATTAAG-TACTGTA
1 GCGGTGAGATTAAGATACTGTA
* *
11262104 GTGGTGAGATT-GGATACTGTA
1 GCGGTGAGATTAAGATACTGTA
*
11262125 GCAGTGAGATTA
1 GCGGTGAGATTA
11262137 GAAACAGCGG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.28, C:0.07, G:0.35, T:0.30
Consensus pattern (22 bp):
GCGGTGAGATTAAGATACTGTA
Found at i:11262274 original size:19 final size:18
Alignment explanation
Indices: 11262250--11262296 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
11262240 CGAAGTTTTT
*
11262250 AAAATTATTTAACAATTA
1 AAAATTATTAAACAATTA
* *
11262268 CAAAATTAATAAAGAATTA
1 -AAAATTATTAAACAATTA
11262287 AAAATTATTA
1 AAAATTATTA
11262297 CAATTATATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (18 bp):
AAAATTATTAAACAATTA
Found at i:11262345 original size:30 final size:30
Alignment explanation
Indices: 11262305--11262361 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
11262295 TACAATTATA
* *
11262305 TTTATTTGTATTGCTCTTACAAAAATACCT
1 TTTATGTGTATTGCGCTTACAAAAATACCT
11262335 TTTATGTGTATTGCGCTTACAAAAATA
1 TTTATGTGTATTGCGCTTACAAAAATA
11262362 TTGAATATAA
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:0.32, C:0.14, G:0.11, T:0.44
Consensus pattern (30 bp):
TTTATGTGTATTGCGCTTACAAAAATACCT
Found at i:11265377 original size:6 final size:6
Alignment explanation
Indices: 11265366--11265391 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
11265356 TTTGCAACCA
11265366 AAGGGG AAGGGG AAGGGG AAGGGG AA
1 AAGGGG AAGGGG AAGGGG AAGGGG AA
11265392 AGGAGAGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:11266761 original size:21 final size:21
Alignment explanation
Indices: 11266711--11266762 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
11266701 AATAATAATG
*
11266711 TCTATTCAAACAACAAAAGAA
1 TCTATTCAAACAACAAAACAA
* * *
11266732 TCGAGTCAATCAACAAAACAA
1 TCTATTCAAACAACAAAACAA
11266753 TCTATTCAAA
1 TCTATTCAAA
11266763 GTGGCTACAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.52, C:0.21, G:0.06, T:0.21
Consensus pattern (21 bp):
TCTATTCAAACAACAAAACAA
Found at i:11267315 original size:16 final size:16
Alignment explanation
Indices: 11267296--11267341 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
11267286 CATCTTGGCC
11267296 AGCTCGCATTTTGATG
1 AGCTCGCATTTTGATG
*
11267312 AGCTCGCATTTTGGTG
1 AGCTCGCATTTTGATG
11267328 AGCTCGCACTTTTG
1 AGCTCGCA-TTTTG
11267342 TAGCTCACTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
16 23 0.82
17 5 0.18
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (16 bp):
AGCTCGCATTTTGATG
Found at i:11277240 original size:18 final size:18
Alignment explanation
Indices: 11277197--11277242 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
11277187 CAAAGTCACG
* *
11277197 ATCAATAGCGTCACTATC
1 ATCAATATCGTCACTAGC
11277215 ATCAATATCGTCACTAGC
1 ATCAATATCGTCACTAGC
11277233 ATCAATATCG
1 ATCAATATCG
11277243 ATATCATCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.28
Consensus pattern (18 bp):
ATCAATATCGTCACTAGC
Found at i:11278339 original size:24 final size:24
Alignment explanation
Indices: 11278293--11278363 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 24
11278283 ATCTATGTAG
11278293 ATTTTATATATTTTATTATAAAT-CAT
1 ATTTTATATA-TTTA-TA-AAATACAT
*
11278319 ATTTTATATATTTATACAAATATAT
1 ATTTTATATATTTATA-AAATACAT
11278344 ATTTTATAT-TTTATAAAATA
1 ATTTTATATATTTATAAAATA
11278364 GGCTGCGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
23 5 0.12
24 12 0.29
25 15 0.36
26 10 0.24
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (24 bp):
ATTTTATATATTTATAAAATACAT
Found at i:11278351 original size:23 final size:23
Alignment explanation
Indices: 11278293--11278363 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 23
11278283 ATCTATGTAG
11278293 ATTTTATATATTTTATTATAAATCAT
1 ATTTTATATATTTTA-TA-AAAT-AT
11278319 ATTTTATATA-TTTATACAAATAT
1 ATTTTATATATTTTATA-AAATAT
11278342 ATATTT-TATATTTTATAAAATA
1 AT-TTTATATATTTTATAAAATA
11278364 GGCTGCGAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
23 13 0.31
24 15 0.36
25 4 0.10
26 10 0.24
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTTTATATATTTTATAAAATAT
Found at i:11278790 original size:43 final size:42
Alignment explanation
Indices: 11278732--11279079 Score: 340
Period size: 42 Copynumber: 8.3 Consensus size: 42
11278722 TTTTAGAAAT
11278732 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTC-CAC
*
11278775 AAACACCGCTAAAGACCAA-ACCTTTAGCGGCGCTTTTACCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTT-CCAC
* *
11278817 AAACGCCGCTAAAGACCATGACCTTTAGCGGTGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTT-CCAC
* *
11278860 AAACGTCGCTAAAGACAAAGACCTTTA-----GCTTTTACCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTT-CCAC
* * *
11278898 AAACGCCACTAAAGACCATGACCTTTAGCGGTGCTTTTCCTAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCC-AC
* * * *
11278941 AAACGCCGCTATAGA--ATCGACCTGTAGCGGCGTTTTTCCCAC
1 AAACGCCGCTAAAGACCA-AGACCTTTAGCGGCGCTTTT-CCAC
* *
11278983 AAACGCTGCTATAGA--ATAGACCTTTAGCGGCGCTTTTCACAC
1 AAACGCCGCTAAAGACCA-AGACCTTTAGCGGCGCTTTTC-CAC
* * * * * *
11279025 AAACGCCGATATAGAACAA-ACCTTTAGCGACGCTTCTCGCAA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTC-CAC
*
11279067 AAACGCCACTAAA
1 AAACGCCGCTAAA
11279080 AACATAACAT
Statistics
Matches: 260, Mismatches: 32, Indels: 27
0.82 0.10 0.08
Matches are distributed among these distances:
38 33 0.13
41 2 0.01
42 136 0.52
43 88 0.34
44 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (42 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCAC
Found at i:11278900 original size:38 final size:38
Alignment explanation
Indices: 11278732--11278926 Score: 160
Period size: 43 Copynumber: 4.8 Consensus size: 38
11278722 TTTTAGAAAT
*
11278732 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTT-CTCAC
1 AAACGCCGCTAAAGACCATGACCTTTA-----GCTTTTAC-CAC
* *
11278775 AAACACCGCTAAAGACCA-AACCTTTAGCGGCGCTTTTACCAC
1 AAACGCCGCTAAAGACCATGACCTTTA-----GCTTTTACCAC
*
11278817 AAACGCCGCTAAAGACCATGACCTTTAGCGGTGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTA-----GCTTTTACCAC
* * *
11278860 AAACGTCGCTAAAGACAAAGACCTTTAGCTTTTACCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCTTTTACCAC
*
11278898 AAACGCCACTAAAGACCATGACCTTTAGC
1 AAACGCCGCTAAAGACCATGACCTTTAGC
11278927 GGTGCTTTTC
Statistics
Matches: 136, Mismatches: 14, Indels: 9
0.86 0.09 0.06
Matches are distributed among these distances:
38 35 0.26
42 38 0.28
43 63 0.46
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (38 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCTTTTACCAC
Found at i:11278923 original size:81 final size:81
Alignment explanation
Indices: 11278732--11279051 Score: 326
Period size: 85 Copynumber: 3.9 Consensus size: 81
11278722 TTTTAGAAAT
* * * * *
11278732 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCTCACAAACACCGCTAAAGACCAAACC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGTGCTTTTCCCACAAACGCCGCTAAAGACAAAACC
11278797 TTTAGCGGCGCTTTTACCAC
66 TTTA---G-GCTTTTACCAC
*
11278817 AAACGCCGCTAAAGACCATGACCTTTAGCGGTGCTTTTCCCACAAACGTCGCTAAAGACAAAGAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGTGCTTTTCCCACAAACGCCGCTAAAGACAAA-AC
11278882 CTTTA-GCTTTTACCAC
65 CTTTAGGCTTTTACCAC
* * * **
11278898 AAACGCCACTAAAGACCATGACCTTTAGCGGTGCTTTTCCTACAAACGCCGCTATAGA-ATCGAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGTGCTTTTCCCACAAACGCCGCTAAAGACA-AAAC
* *
11278962 CTGTAGCGGCGTTTTTCCCAC
65 CTTTA--GGC--TTTTACCAC
* * * * * *
11278983 AAACGCTGCTATAGA--ATAGACCTTTAGCGGCGCTTTTCACACAAACGCCGATATAGA-ACAAA
1 AAACGCCGCTAAAGACCAT-GACCTTTAGCGGTGCTTTTCCCACAAACGCCGCTAAAGACA-AAA
11279045 CCTTTAG
64 CCTTTAG
11279052 CGACGCTTCT
Statistics
Matches: 202, Mismatches: 25, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
80 7 0.03
81 65 0.32
82 1 0.00
83 4 0.02
84 42 0.21
85 76 0.38
86 7 0.03
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (81 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGTGCTTTTCCCACAAACGCCGCTAAAGACAAAACC
TTTAGGCTTTTACCAC
Found at i:11281148 original size:29 final size:30
Alignment explanation
Indices: 11281089--11281146 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
11281079 TCCGAGCCTT
*
11281089 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
11281119 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
11281147 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:11281376 original size:13 final size:13
Alignment explanation
Indices: 11281358--11281389 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
11281348 TTTCCAGCAA
11281358 TTATGAATTTATT
1 TTATGAATTTATT
11281371 TTATGAATTTATT
1 TTATGAATTTATT
*
11281384 TGATGA
1 TTATGA
11281390 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Done.