Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
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: 12876159
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 47 of 54
Found at i:11185791 original size:31 final size:31
Alignment explanation
Indices: 11185756--11185829 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
11185746 CACAACGTCC
* *
11185756 AAGTGACCAAAATTTAATAAAA-GAATAACGT
1 AAGTGACCAAAACTTAATAAAATG-ATAAAGT
*
11185787 AAGTGACTAAAACTTAATAAAATGATAAAGT
1 AAGTGACCAAAACTTAATAAAATGATAAAGT
*
11185818 AAGTAACCAAAA
1 AAGTGACCAAAA
11185830 ATTATGTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 36 0.97
32 1 0.03
ACGTcount: A:0.57, C:0.09, G:0.12, T:0.22
Consensus pattern (31 bp):
AAGTGACCAAAACTTAATAAAATGATAAAGT
Found at i:11187017 original size:2 final size:2
Alignment explanation
Indices: 11187010--11187084 Score: 134
Period size: 2 Copynumber: 38.0 Consensus size: 2
11187000 GTTTTAATAA
*
11187010 AT AT AT AT GT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11187051 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11187085 GAGAGAGTTA
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
1 1 0.01
2 69 0.99
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (2 bp):
AT
Found at i:11192977 original size:21 final size:21
Alignment explanation
Indices: 11192935--11192977 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
11192925 TTTCTGGGTT
* * *
11192935 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
11192956 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
11192977 A
1 A
11192978 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:11193093 original size:66 final size:68
Alignment explanation
Indices: 11192957--11193107 Score: 261
Period size: 67 Copynumber: 2.2 Consensus size: 68
11192947 ACCCATTCAA
11192957 GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
11193022 -GG
66 GGG
* *
11193024 GGGGAACCGATACCCCCTCAACGAATATGAA-TTCCAGAATGCTAGTGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
11193088 GGG
66 GGG
*
11193091 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
11193108 ATGAGAAAAA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
66 31 0.39
67 49 0.61
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (68 bp):
GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
GGG
Found at i:11193778 original size:149 final size:149
Alignment explanation
Indices: 11193587--11193890 Score: 599
Period size: 149 Copynumber: 2.0 Consensus size: 149
11193577 GGGTAGAGGG
11193587 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
11193652 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
11193717 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
11193736 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
11193801 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
11193866 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
11193885 TCTACG
1 TCTACG
11193891 GGGCACTTCG
Statistics
Matches: 154, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 154 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (149 bp):
TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:11193913 original size:23 final size:23
Alignment explanation
Indices: 11193869--11193913 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
11193859 ATCATTATAT
*
11193869 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
11193892 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
11193914 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:11199987 original size:21 final size:21
Alignment explanation
Indices: 11199945--11199987 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
11199935 TTTCTGGGTT
* * *
11199945 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
11199966 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
11199987 A
1 A
11199988 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:11200047 original size:66 final size:66
Alignment explanation
Indices: 11199967--11200116 Score: 248
Period size: 66 Copynumber: 2.3 Consensus size: 66
11199957 ACCCATTCAA
11199967 GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATA-CCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAA-TTCCAGAATACTAGAGGGGAATCGATACCCCCA
11200031 GG
65 GG
* *
11200033 GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTAGTGGGGAATCGATACCCCCAG
1 GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATACTAGAGGGGAATCGATACCCCCAG
11200098 G
66 G
*
11200099 GAGGGAACCGATTCCCCC
1 G-GGGAACCGATACCCCC
11200117 ATGAGAAAAA
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
65 25 0.32
66 39 0.49
67 15 0.19
ACGTcount: A:0.31, C:0.28, G:0.25, T:0.16
Consensus pattern (66 bp):
GGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATACTAGAGGGGAATCGATACCCCCAG
G
Found at i:11200778 original size:149 final size:149
Alignment explanation
Indices: 11200596--11200899 Score: 581
Period size: 149 Copynumber: 2.0 Consensus size: 149
11200586 GGGTAGAGGG
*
11200596 TCTACGCGGTTCTTTAGGATATATATATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATATATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
11200661 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
11200726 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
11200745 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATATATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
11200810 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
11200875 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
11200894 TCTACG
1 TCTACG
11200900 GGGCACTTCG
Statistics
Matches: 152, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
149 152 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (149 bp):
TCTACGCGGTTCTTTAGGACATATATATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:11200922 original size:23 final size:23
Alignment explanation
Indices: 11200878--11200922 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
11200868 ATCATTATAT
*
11200878 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
11200901 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
11200923 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:11207812 original size:24 final size:23
Alignment explanation
Indices: 11207763--11207810 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
11207753 TAATAAAATG
11207763 AATTTTGCCTATTTTTATTTAAA
1 AATTTTGCCTATTTTTATTTAAA
11207786 AATTTTGCCTATTTTTATTTAAA
1 AATTTTGCCTATTTTTATTTAAA
11207809 AA
1 AA
11207811 ATGAATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.54
Consensus pattern (23 bp):
AATTTTGCCTATTTTTATTTAAA
Found at i:11214458 original size:26 final size:25
Alignment explanation
Indices: 11214428--11214485 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 25
11214418 TCGAGGTTAC
11214428 TTTGGTCATCTTAGAGTTTA-AGGTAT
1 TTTGGTC-TCTTAGAGTTTAGA-GTAT
* *
11214454 TTTGGTTCTTTTAGGGTTTAGAGTAT
1 TTTGG-TCTCTTAGAGTTTAGAGTAT
11214480 TTTGGT
1 TTTGGT
11214486 TATTTGAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
25 1 0.04
26 24 0.86
27 3 0.11
ACGTcount: A:0.17, C:0.05, G:0.26, T:0.52
Consensus pattern (25 bp):
TTTGGTCTCTTAGAGTTTAGAGTAT
Found at i:11218071 original size:2 final size:2
Alignment explanation
Indices: 11218064--11218112 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
11218054 TCCATTTTGT
11218064 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11218106 TA TA TA T
1 TA TA TA T
11218113 TAACATTTGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11218617 original size:7 final size:7
Alignment explanation
Indices: 11218569--11218615 Score: 85
Period size: 7 Copynumber: 6.7 Consensus size: 7
11218559 CTTAAGATTT
11218569 ACTGCCG
1 ACTGCCG
11218576 ACTGCCG
1 ACTGCCG
11218583 ACTGCCG
1 ACTGCCG
11218590 ACTGCCG
1 ACTGCCG
11218597 ACTGCCG
1 ACTGCCG
*
11218604 ACTGCTG
1 ACTGCCG
11218611 ACTGC
1 ACTGC
11218616 TGTAAAAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.15, C:0.40, G:0.28, T:0.17
Consensus pattern (7 bp):
ACTGCCG
Found at i:11219467 original size:77 final size:79
Alignment explanation
Indices: 11219386--11219573 Score: 213
Period size: 82 Copynumber: 2.4 Consensus size: 79
11219376 TTGCACACGT
* * * * * *
11219386 GAATGTTATGGTTTACTAAAAAATATGTT-A-CGAT-CTAAAATGTTAATATTTTTATTAATAAA
1 GAATGTTATGGTTCACTAAAAAATAAGTTAATCGATAATAAAATATTAATATTTTT-TAAAGAAA
11219448 AT-GTGTTGCGCCCAA
65 ATAG-GTTGCGCCCAA
*
11219463 GAATGTTATGGTTCACTAAGAAAATAAGTTGCAATCTATAATAAAATATTAATATTTTTTAAAGA
1 GAATGTTATGGTTCACTAA-AAAATAAGTT--AATCGATAATAAAATATTAATATTTTTTAAAGA
*
11219528 AAATAGGTTGCGTCCAA
63 AAATAGGTTGCGCCCAA
* *
11219545 GGATGTTATGGTTCACTAAGAAATAAGTT
1 GAATGTTATGGTTCACTAAAAAATAAGTT
11219574 GCAATATGTT
Statistics
Matches: 94, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
77 18 0.19
78 9 0.10
81 10 0.11
82 39 0.41
83 18 0.19
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (79 bp):
GAATGTTATGGTTCACTAAAAAATAAGTTAATCGATAATAAAATATTAATATTTTTTAAAGAAAA
TAGGTTGCGCCCAA
Found at i:11219552 original size:82 final size:82
Alignment explanation
Indices: 11219421--11219578 Score: 239
Period size: 82 Copynumber: 1.9 Consensus size: 82
11219411 TGTTACGATC
* * *
11219421 TAAAATGTTAATATTTTTATTAATAAAATGTGTTGCGCCCAAGAATGTTATGGTTCACTAAGAAA
1 TAAAATATTAATATTTTTATAAAGAAAATGTGTTGCGCCCAAGAATGTTATGGTTCACTAAG-AA
11219486 ATAAGTTGCAATCTATAA
65 ATAAGTTGCAATCTATAA
* *
11219504 TAAAATATTAATATTTTT-TAAAGAAAATAG-GTTGCGTCCAAGGATGTTATGGTTCACTAAGAA
1 TAAAATATTAATATTTTTATAAAGAAAAT-GTGTTGCGCCCAAGAATGTTATGGTTCACTAAGAA
11219567 ATAAGTTGCAAT
65 ATAAGTTGCAAT
11219579 ATGTTATATT
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
81 14 0.20
82 37 0.54
83 18 0.26
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (82 bp):
TAAAATATTAATATTTTTATAAAGAAAATGTGTTGCGCCCAAGAATGTTATGGTTCACTAAGAAA
TAAGTTGCAATCTATAA
Found at i:11219665 original size:21 final size:22
Alignment explanation
Indices: 11219641--11219682 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11219631 AAAATTTAAA
11219641 TATCAATAC-TTAAAATATTAT
1 TATCAATACTTTAAAATATTAT
* *
11219662 TATCGATACTTTTAAATATTA
1 TATCAATACTTTAAAATATTA
11219683 AAAAAAGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (22 bp):
TATCAATACTTTAAAATATTAT
Found at i:11219848 original size:19 final size:19
Alignment explanation
Indices: 11219812--11219848 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11219802 TTTCAAATTT
*
11219812 AAAAGTATCAATATTTTGG
1 AAAAGTATCAATACTTTGG
*
11219831 AAAAGTATCCATACTTTG
1 AAAAGTATCAATACTTTG
11219849 TAGCCTTATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.35
Consensus pattern (19 bp):
AAAAGTATCAATACTTTGG
Found at i:11219982 original size:20 final size:19
Alignment explanation
Indices: 11219950--11219989 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
11219940 TTTTTATTCG
11219950 AAAAAATCAATACTTGTGA
1 AAAAAATCAATACTTGTGA
* *
11219969 AAAAATATCCATACTTTTGA
1 AAAAA-ATCAATACTTGTGA
11219989 A
1 A
11219990 TTTAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.30
Consensus pattern (19 bp):
AAAAAATCAATACTTGTGA
Found at i:11222235 original size:18 final size:19
Alignment explanation
Indices: 11222200--11222248 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
11222190 ATGTCAAAAT
11222200 GGTATCGATACTGAAAAGG
1 GGTATCGATACTGAAAAGG
11222219 GGTATCGATACTG-AAAGG
1 GGTATCGATACTGAAAAGG
11222237 GGATATCGATAC
1 GG-TATCGATAC
11222249 CATAGTATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.24
19 22 0.76
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.22
Consensus pattern (19 bp):
GGTATCGATACTGAAAAGG
Found at i:11223552 original size:64 final size:64
Alignment explanation
Indices: 11223499--11223661 Score: 211
Period size: 65 Copynumber: 2.5 Consensus size: 64
11223489 CGGTGCACCA
11223499 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAA-ATAGCCTTGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAT-GCCTTGTGCATCGATGCATGG
** * * ***
11223563 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATATGCCTTGTGCATCGATGCATGG
* * *
11223628 AGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
11223662 CAATTAATTC
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
64 31 0.37
65 51 0.61
66 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATATGCCTTGTGCATCGATGCATGG
Found at i:11223633 original size:19 final size:19
Alignment explanation
Indices: 11223609--11223659 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
11223599 GAAAATATTC
11223609 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
11223628 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
11223647 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
11223660 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:11231091 original size:64 final size:64
Alignment explanation
Indices: 11231017--11231179 Score: 211
Period size: 65 Copynumber: 2.5 Consensus size: 64
11231007 CGGTGCACCA
* *
11231017 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGTCTG-GTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGTCAGAGTGCAACGATGCATGG
** * * *
11231081 CTTGTGCATCGATGCATCAAATGTATTCGATGTTTTGAAAATATTCAGAGTGCAACGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGTCAGAGTGCAACGATGCATGG
* * *
11231146 AGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
11231180 CAATTAATTC
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
64 39 0.47
65 44 0.53
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGTCAGAGTGCAACGATGCATGG
Found at i:11231151 original size:19 final size:19
Alignment explanation
Indices: 11231127--11231165 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
11231117 GAAAATATTC
11231127 AGAGTGCAACGATGCATGG
1 AGAGTGCAACGATGCATGG
* *
11231146 AGAGTGCATCGGTGCATGG
1 AGAGTGCAACGATGCATGG
11231165 A
1 A
11231166 ATGCATTCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.15, G:0.38, T:0.18
Consensus pattern (19 bp):
AGAGTGCAACGATGCATGG
Found at i:11231547 original size:46 final size:46
Alignment explanation
Indices: 11231478--11231864 Score: 614
Period size: 46 Copynumber: 8.4 Consensus size: 46
11231468 GTTTTCAACA
* *
11231478 AAAATGCATGAAATGATTG-ATTAAGGCATGAAAGGATGCCAAAACT
1 AAAATGCATGAAAGGA-TGCATTAAGGCATGAAAGGATGCCATAACT
* * *
11231524 AAAATGCATGAAAGAATGTATTAAGGCATGAAATGATGCCATAACT
1 AAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACT
* *
11231570 AAAATGCATTAAAGGATGCATTAAGGCATGAAAGGATGTCATAACT
1 AAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACT
* * * * *
11231616 AAAATACATGGAAGGATGTATTAAGGCATGAAAGGATGACGTAACT
1 AAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACT
* *
11231662 AAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGGCATAACT
1 AAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACT
*
11231708 AAAATGCATGAAAGGATGGATTAAGGCATGAAAGGATGCCATAACT
1 AAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACT
11231754 AAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACT
1 AAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACT
*
11231800 AAAATGCATGAAAGAATGCATTAAGGCATGAAAGGATGCCATAACT
1 AAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACT
11231846 AAAATGCATGAAAGGATGC
1 AAAATGCATGAAAGGATGC
11231865 CATAACCAAA
Statistics
Matches: 313, Mismatches: 27, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
45 2 0.01
46 311 0.99
ACGTcount: A:0.44, C:0.11, G:0.23, T:0.21
Consensus pattern (46 bp):
AAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACT
Found at i:11231722 original size:72 final size:71
Alignment explanation
Indices: 11231503--11231922 Score: 339
Period size: 72 Copynumber: 6.0 Consensus size: 71
11231493 ATTGATTAAG
* * *
11231503 GCATGAAAGGATGCCAAAACTAAAATGCATGAAAGAATGTATTAAGGCATGAAATGATGCCATAA
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAG-ATGCATTAAGGCATGAAAGGATGCCATAA
11231568 CTAAAAT
65 CTAAAAT
* * ** *
11231575 GCATTAAAGGATG-CAT---T--AAGGCATGAAAGGATGTCATAACTAAAATACATGGAAGGATG
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAA-GATG-CAT---T--AAGGCATGAAAGGATG
* *
11231634 ---T-A-T-TAAG
59 CCATAACTAAAAT
* * *
11231641 GCATGAAAGGATGACGTAACTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGGCATAA
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAA-GATGCATTAAGGCATGAAAGGATGCCATAA
11231706 CTAAAAT
65 CTAAAAT
* * *
11231713 GCATGAAAGGATG-GAT---T--AAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATG
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAA-GATG-CAT---T--AAGGCATGAAAGGATG
*
11231772 -CAT---T--AAG
59 CCATAACTAAAAT
11231779 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGAATGCATTAAGGCATGAAAGGATGCCATAA
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAG-ATGCATTAAGGCATGAAAGGATGCCATAA
11231844 CTAAAAT
65 CTAAAAT
* *
11231851 GCATGAAAGGATGCCATAACCAAAATGCATGAAAAGATGCATTAAGGCCTGAAAGGATGCCATAA
1 GCATGAAAGGATGCCATAACTAAAATGCATG-AAAGATGCATTAAGGCATGAAAGGATGCCATAA
11231916 CTAAAAT
65 CTAAAAT
11231923 TTAAGAATAA
Statistics
Matches: 278, Mismatches: 31, Indels: 78
0.72 0.08 0.20
Matches are distributed among these distances:
66 84 0.30
67 14 0.05
68 6 0.02
69 2 0.01
70 6 0.02
71 14 0.05
72 148 0.53
73 4 0.01
ACGTcount: A:0.45, C:0.12, G:0.23, T:0.20
Consensus pattern (71 bp):
GCATGAAAGGATGCCATAACTAAAATGCATGAAAGATGCATTAAGGCATGAAAGGATGCCATAAC
TAAAAT
Found at i:11238718 original size:26 final size:26
Alignment explanation
Indices: 11238688--11238743 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
11238678 ATGCATTAAG
*
11238688 GCATGAATGGATGCCATAACTAAAAT
1 GCATGAAAGGATGCCATAACTAAAAT
11238714 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAAAGGATGCCATAACTAAAAT
11238740 GCAT
1 GCAT
11238744 AACTAAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.21
Consensus pattern (26 bp):
GCATGAAAGGATGCCATAACTAAAAT
Found at i:11238746 original size:13 final size:13
Alignment explanation
Indices: 11238702--11238756 Score: 60
Period size: 13 Copynumber: 4.2 Consensus size: 13
11238692 GAATGGATGC
11238702 CATAACTAAAATG
1 CATAACTAAAATG
**
11238715 CATGAA--AGGATG
1 CAT-AACTAAAATG
11238727 CCATAACTAAAATG
1 -CATAACTAAAATG
11238741 CATAACTAAAATG
1 CATAACTAAAATG
11238754 CAT
1 CAT
11238757 GAAATGATGC
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
12 6 0.18
13 22 0.65
14 6 0.18
ACGTcount: A:0.49, C:0.16, G:0.13, T:0.22
Consensus pattern (13 bp):
CATAACTAAAATG
Found at i:11239691 original size:327 final size:320
Alignment explanation
Indices: 11239086--11239726 Score: 1086
Period size: 327 Copynumber: 2.0 Consensus size: 320
11239076 AGCAGCAGTG
11239086 ATCATCAATTAAGGTTGACTCATCAGTTACAATAGGACAATCCCTTGTATTTTGGAAAACTTATT
1 ATCATCAATTAAGGTTGACTCATCAGTTACAATAGGACAATCCCTTGTATTTTGGAAAACTTATT
* *
11239151 TAGCATGTAATTAAAGTACTAAGAATGAAGTTTTAATTAAGTAGAACTTTGTAATAGAATAAAAT
66 TAGCATGTAATTAAAGCACTAAGAATGAAGTTTTAATTAAGTAGAACTTTGTAACAGAATAAAAT
*
11239216 CAATGTTTTGTTTTATATTAAAAATGTTATGTTTTAAGAAATAAAAAAAACAAAAATTTTATGGG
131 CAATGTTTTGTTGTATATTAAAAATGTTATGTTTTAAGAAATAAAAAAAACAAAAATTTTATGGG
* **
11239281 TTTTCAAATGAGGAACTGTTTTATAAAGTGATGCGACATCTGTACCTTGTGTACTAAAATGTATA
196 TTTTCAAATGAGGAACTGTTTTATAAAGTGATGCGACATATGTACCTCATGTACTAAAATGTATA
*
11239346 CGGGAGATGAGTGTTACAGATCACGT-CCGCGACAGCCACAACACCTTACGTAACATCCGT
261 CAGGAGATGAGTGTTACAGATCAC-TCCCGCGACAGCCACAACACCTTACGTAACATCCGT
11239406 ATCATCAATTAAGGTTGACTCATCAGTTACAATAGGACAATCCCTTGTATTTTGGAAAACTTATT
1 ATCATCAATTAAGGTTGACTCATCAGTTACAATAGGACAATCCCTTGTATTTTGGAAAACTTATT
*
11239471 TGGCATGTAATTAAAGCACTAAGAATATTTTGAAGTTTTAATTAAGTAGAACTTTGTAACAGAAT
66 TAGCATGTAATTAAAGCACTAAG-A-A---TGAAGTTTTAATTAAGTAGAACTTTGTAACAGAAT
11239536 AAAATCAATGTTTTGTTGTATATTAAAAATGTTATGTTTTAAGAAATCGAAAAAAAACAAAAATT
126 AAAATCAATGTTTTGTTGTATATTAAAAATGTTATGTTTTAAGAAAT--AAAAAAAACAAAAATT
* *
11239601 TTATGGGTTTTCAAATGAGGAACTGTTTTATAAAGTGATGTGACATATGTACCTCATGTACTGAA
189 TTATGGGTTTTCAAATGAGGAACTGTTTTATAAAGTGATGCGACATATGTACCTCATGTACTAAA
* * *
11239666 ATGTATACAGGAGATGGGTGTTACAGATCACTCCCGCGACAGCTACAACATCTTACGTAAC
254 ATGTATACAGGAGATGAGTGTTACAGATCACTCCCGCGACAGCCACAACACCTTACGTAAC
11239727 GTCTGTAACA
Statistics
Matches: 300, Mismatches: 13, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
320 86 0.29
321 1 0.00
322 1 0.00
325 80 0.27
326 1 0.00
327 131 0.44
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (320 bp):
ATCATCAATTAAGGTTGACTCATCAGTTACAATAGGACAATCCCTTGTATTTTGGAAAACTTATT
TAGCATGTAATTAAAGCACTAAGAATGAAGTTTTAATTAAGTAGAACTTTGTAACAGAATAAAAT
CAATGTTTTGTTGTATATTAAAAATGTTATGTTTTAAGAAATAAAAAAAACAAAAATTTTATGGG
TTTTCAAATGAGGAACTGTTTTATAAAGTGATGCGACATATGTACCTCATGTACTAAAATGTATA
CAGGAGATGAGTGTTACAGATCACTCCCGCGACAGCCACAACACCTTACGTAACATCCGT
Found at i:11241527 original size:13 final size:13
Alignment explanation
Indices: 11241498--11241529 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
11241488 CCTTTTTTTT
11241498 TAATTTTTAAATA
1 TAATTTTTAAATA
11241511 -AATTTTTAAATA
1 TAATTTTTAAATA
11241523 TAATTTT
1 TAATTTT
11241530 AAAGGATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAATTTTTAAATA
Found at i:11244135 original size:32 final size:32
Alignment explanation
Indices: 11244094--11244216 Score: 164
Period size: 31 Copynumber: 3.9 Consensus size: 32
11244084 AGAGTCGAGG
11244094 TTACCTATGTCTTTCGGGACATATGGACAATA
1 TTACCTATGTCTTTCGGGACATATGGACAATA
*
11244126 TTACCTATGTCTTTCGGGACATATGGACAGT-
1 TTACCTATGTCTTTCGGGACATATGGACAATA
* *
11244157 TTACCTATGT-TCTTCGAGACATATGGATAA-A
1 TTACCTATGTCT-TTCGGGACATATGGACAATA
*
11244188 TTACCTTTGTTCTTT-GGGACATATGGACA
1 TTACCTATG-TCTTTCGGGACATATGGACA
11244217 GATTATTATA
Statistics
Matches: 80, Mismatches: 7, Indels: 9
0.83 0.07 0.09
Matches are distributed among these distances:
30 1 0.01
31 45 0.56
32 33 0.41
33 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.37
Consensus pattern (32 bp):
TTACCTATGTCTTTCGGGACATATGGACAATA
Found at i:11244179 original size:63 final size:62
Alignment explanation
Indices: 11244094--11244217 Score: 180
Period size: 63 Copynumber: 2.0 Consensus size: 62
11244084 AGAGTCGAGG
*
11244094 TTACCTATGTCTTTCGGGACATATGGACAATATTACCTATG-TCTTTCGGGACATATGGACAGT
1 TTACCTATGTCTTTCGAGACATATGGACAA-ATTACCTATGTTCTTT-GGGACATATGGACAGT
* *
11244157 TTACCTATGT-TCTTCGAGACATATGGATAAATTACCTTTGTTCTTTGGGACATATGGACAG
1 TTACCTATGTCT-TTCGAGACATATGGACAAATTACCTATGTTCTTTGGGACATATGGACAG
11244218 ATTATTATAC
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
62 25 0.45
63 31 0.55
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (62 bp):
TTACCTATGTCTTTCGAGACATATGGACAAATTACCTATGTTCTTTGGGACATATGGACAGT
Found at i:11247551 original size:18 final size:19
Alignment explanation
Indices: 11247510--11247552 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
11247500 GTTCCTAAAC
*
11247510 TTTTTAATTTAGTTACATT
1 TTTTTAATTTAGATACATT
11247529 TTTTTAATTT-GAT-CATT
1 TTTTTAATTTAGATACATT
11247546 TCTTTTA
1 T-TTTTA
11247553 TGCCCGAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 5 0.23
18 7 0.32
19 10 0.45
ACGTcount: A:0.23, C:0.07, G:0.05, T:0.65
Consensus pattern (19 bp):
TTTTTAATTTAGATACATT
Found at i:11248276 original size:7 final size:7
Alignment explanation
Indices: 11248266--11248291 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
11248256 TCAAACTTAA
11248266 AATTTCT
1 AATTTCT
11248273 AATTTCT
1 AATTTCT
11248280 AATTTCT
1 AATTTCT
11248287 AATTT
1 AATTT
11248292 TAAAATATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTCT
Found at i:11248879 original size:21 final size:20
Alignment explanation
Indices: 11248838--11248913 Score: 66
Period size: 21 Copynumber: 3.8 Consensus size: 20
11248828 ATGTCATGCG
*
11248838 AAATGCAAAGATGTAAATGT
1 AAATGCAAAGATGCAAATGT
*
11248858 AGAATGCAAAGATGCAAGTGT
1 A-AATGCAAAGATGCAAATGT
* * *
11248879 AAATGTAAACA--CAAATGCA
1 AAATGCAAAGATGCAAATG-T
*
11248898 AAATGCAAAGGTGCAA
1 AAATGCAAAGATGCAA
11248914 GTGCAAGTGC
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
18 5 0.12
19 8 0.19
20 9 0.21
21 21 0.49
ACGTcount: A:0.50, C:0.11, G:0.21, T:0.18
Consensus pattern (20 bp):
AAATGCAAAGATGCAAATGT
Found at i:11248952 original size:13 final size:13
Alignment explanation
Indices: 11248921--11248958 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
11248911 CAAGTGCAAG
11248921 TGCAAATGT-CAA
1 TGCAAATGTACAA
*
11248933 TGAAAATGTACAA
1 TGCAAATGTACAA
*
11248946 TGCAAATATACAA
1 TGCAAATGTACAA
11248959 ATTTTATGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 8 0.36
13 14 0.64
ACGTcount: A:0.50, C:0.13, G:0.13, T:0.24
Consensus pattern (13 bp):
TGCAAATGTACAA
Found at i:11262447 original size:60 final size:63
Alignment explanation
Indices: 11262381--11262537 Score: 187
Period size: 66 Copynumber: 2.5 Consensus size: 63
11262371 TGCACTAAGA
* * * *
11262381 GTGCATCGATGCATGAAGTGCATTCGATGTTT-AT-AA-CCTGAGTTCATCGATGCAT-GTCTT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCATAAACCCTGAGTGCATCGATGCATGGT-AT
* *
11262441 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAACCCTGAGTGCATCGATTCATGGTA
1 GTGCATCGATGCATAAAATGCATTCGATG-TTTCAT--AAACCCTGAGTGCATCGATGCATGGTA
11262506 T
63 T
*
11262507 GTGCATCGATGAATAAAATGCATTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
11262538 CAATTTATTC
Statistics
Matches: 83, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
60 27 0.33
61 3 0.04
62 2 0.02
65 4 0.05
66 45 0.54
67 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCATAAACCCTGAGTGCATCGATGCATGGTAT
Found at i:11262584 original size:20 final size:20
Alignment explanation
Indices: 11262548--11262585 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11262538 CAATTTATTC
*
11262548 ATTGGTGCATTGATGCATAG
1 ATTGGTGCATCGATGCATAG
*
11262568 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
11262586 TCCTTTGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.13, G:0.32, T:0.34
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATAG
Found at i:11270569 original size:2 final size:2
Alignment explanation
Indices: 11270558--11270599 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
11270548 GCATGATAAG
11270558 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11270599 T
1 T
11270600 TAATGTCAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11276706 original size:25 final size:25
Alignment explanation
Indices: 11276672--11276721 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
11276662 AATTGGCTCT
11276672 AATACCACTGGTGGGATCTTCGATA
1 AATACCACTGGTGGGATCTTCGATA
11276697 AATACCACTGGTGGGATCTTCGATA
1 AATACCACTGGTGGGATCTTCGATA
11276722 TAACCCCTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (25 bp):
AATACCACTGGTGGGATCTTCGATA
Found at i:11278950 original size:10 final size:10
Alignment explanation
Indices: 11278931--11278969 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
11278921 AAAAATAGAA
11278931 AAACAAATTG
1 AAACAAATTG
*
11278941 AAATAAATTG
1 AAACAAATTG
*
11278951 AGACAAATTG
1 AAACAAATTG
*
11278961 AGACAAATT
1 AAACAAATT
11278970 AACGAGAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.56, C:0.08, G:0.13, T:0.23
Consensus pattern (10 bp):
AAACAAATTG
Found at i:11278988 original size:19 final size:19
Alignment explanation
Indices: 11278964--11279007 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
11278954 CAAATTGAGA
*
11278964 CAAATTAACGA-GAATGAAG
1 CAAATTAACAAGGAAT-AAG
11278983 CAAATTTAACAAGGAATAAG
1 CAAA-TTAACAAGGAATAAG
11279003 CAAAT
1 CAAAT
11279008 GAAATACAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 5 0.23
20 13 0.59
21 4 0.18
ACGTcount: A:0.55, C:0.11, G:0.16, T:0.18
Consensus pattern (19 bp):
CAAATTAACAAGGAATAAG
Found at i:11282243 original size:182 final size:181
Alignment explanation
Indices: 11281680--11282949 Score: 1663
Period size: 182 Copynumber: 7.0 Consensus size: 181
11281670 ACAATATAAT
*
11281680 CGGTCTCAAAATGACAAAACCGGTAAAACTCTACCGGATATGTTGAAAGTGTCGATAATTTAATA
1 CGGTCTCAAAATGACAAAACCGGTAAAA-ACTACCGGATATGTTGAAAGTGTCGATAATTTAATA
* * * *
11281745 TATGTATCGACACTTTCT-GAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTATCGAAATT
65 TAAGTATCGACACTTT-TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACT
* * *
11281809 TTATGAAAATGAATCGATCCATAACAATATAACAGCTAAAAATATGATAAAAT
129 TTATGAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAAC
* * * *
11281862 CGGTCTCAAAATAATAAAA-AGAGTAAATAACTACCGGATATGTTGAAAGTGTCGATATTTTAAT
1 CGGTCTCAAAATGACAAAACCG-GTAAA-AACTACCGGATATGTTGAAAGTGTCGATAATTTAAT
* * * * * * * *
11281926 ATAATTATCGATACTTTTGGAATTTAAAAGAGAATAAATTATAGCGTCTATAATGTGTCGATACT
64 ATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACT
* ** * * * *
11281991 TTA-AAAAAAATATTGATCCATAACAATATAAAAGGTAAAAATATGACAAAAT
129 TTATGAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAAC
* * * *
11282043 CGGTTTCAAAATGACAAAACCGGTAAAACGCTACCAGATATGTTGAAAGTGTCAATAATTTAATA
1 CGGTCTCAAAATGACAAAACCGGTAAAA-ACTACCGGATATGTTGAAAGTGTCGATAATTTAATA
* * * * *
11282108 TAAGTATCTACACTTTCT-GAATTTAAAAGAAAATAAGTTATAGCGCCTAAAAAATATCGACACT
65 TAAGTATCGACACTTT-TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACT
11282172 TTATGAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAAC
129 TTATGAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAAC
* * *
11282225 CGGTCTCAAAATGACAAAACAGGTAAATAACTATCGGATATGTTGAAAGTGTCGATACTTTAATA
1 CGGTCTCAAAATGACAAAACCGGTAAA-AACTACCGGATATGTTGAAAGTGTCGATAATTTAATA
* *
11282290 TAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTT
65 TAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTT
* * * *
11282355 TA-AAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGACAAAAG
130 TATGAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAAC
** * * * ** *
11282406 ATGTCTAAAAATGAAAAAACCGGTAAAAAGATATTGGATATGTTGAAAGTGTTGATAATTTAATA
1 CGGTCTCAAAATGACAAAACCGGTAAAAA-CTACCGGATATGTTGAAAGTGTCGATAATTTAATA
* *
11282471 TAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGCTAT-GCGCCTAAAAAGTGTAGACACTT
65 TAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTT
*
11282535 TATGAAAATGTATCGATTCATAACAATATAACAGCTAAAAATATGACAAAAC
130 TATGAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAAC
* *** *
11282587 CGGTCTCAAAATGACAAAACAGGTAAATAACTATTAGATATGTTGAAAGTGTCGATACTTTAATA
1 CGGTCTCAAAATGACAAAACCGGTAAA-AACTACCGGATATGTTGAAAGTGTCGATAATTTAATA
* * * * *
11282652 TAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGTCTATAAAGTGTCGATAATT
65 TAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTT
** * * *
11282717 TAAAAAAATGTATCGATCCATAACAATATAATAGGTAAAAATATGATAAAAC
130 TATGAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAAC
* ** *
11282769 CGGTCTCAAAATGACAAAATCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATAATATAATA
1 CGGTCTCAAAATGACAAAACCGGTAAA-AACTACCGGATATGTTGAAAGTGTCGATAATTTAATA
* * *
11282834 TAAGTATTGACAGTTTCT-GAATTTAAAAGAGAAGAAGTTATAGCGTCTAAAAAGTGTCGACACT
65 TAAGTATCGACACTTT-TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACT
* * *
11282898 TTATGAAAATGTATTGATCGATAACAATATAACAGCTAAAAATATGAGAAAA
129 TTATGAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAA
11282950 TAGGTCAACA
Statistics
Matches: 943, Mismatches: 131, Indels: 28
0.86 0.12 0.03
Matches are distributed among these distances:
180 25 0.03
181 425 0.45
182 490 0.52
183 3 0.00
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (181 bp):
CGGTCTCAAAATGACAAAACCGGTAAAAACTACCGGATATGTTGAAAGTGTCGATAATTTAATAT
AAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTT
ATGAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAAC
Found at i:11282349 original size:363 final size:363
Alignment explanation
Indices: 11281677--11282949 Score: 1958
Period size: 363 Copynumber: 3.5 Consensus size: 363
11281667 ATAACAATAT
*
11281677 AATCGGTCTCAAAATGACAAAACCGGTAAAACTCTACCGGATATGTTGAAAGTGTCGATAATTTA
1 AATCGGTCTCAAAATGACAAAACCGGTAAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTA
* *
11281742 ATATATGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTATCGAAA
66 ATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTATCGACA
* * * *
11281807 TTTTATGAAAATGAATCGATCCATAACAATATAACAGCTAAAAATATGATAAAATCGGTCTCAAA
131 CTTTATGAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAACCGGTCTCAAA
* * * * *
11281872 ATAATAAAA-AGAGTAAATAACTACCGGATATGTTGAAAGTGTCGATATTTTAATATAATTATCG
196 ATGACAAAACAG-GTAAATAACTATCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCG
* * * * *
11281936 ATACTTTTGGAATTTAAAAGAGAATAAATTATAGCGTCTATAATGTGTCGATACTTTAAAAAAAA
260 ACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGTCTATAAAGTGTCGATACTTTAAAAAAAG
*
11282001 TATTGATCCATAACAATATAAAAGGTAAAAATATGACAA
325 TATCGATCCATAACAATATAAAAGGTAAAAATATGACAA
* * *
11282040 AATCGGTTTCAAAATGACAAAACCGGTAAAACGCTACCAGATATGTTGAAAGTGTCAATAATTTA
1 AATCGGTCTCAAAATGACAAAACCGGTAAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTA
* * * *
11282105 ATATAAGTATCTACACTTTCTGAATTTAAAAGAAAATAAGTTATAGCGCCTAAAAAATATCGACA
66 ATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTATCGACA
11282170 CTTTATGAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAACCGGTCTCAAA
131 CTTTATGAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAACCGGTCTCAAA
11282235 ATGACAAAACAGGTAAATAACTATCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGA
196 ATGACAAAACAGGTAAATAACTATCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGA
* *
11282300 CACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAATGT
261 CACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGTCTATAAAGTGTCGATACTTTAAAAAAAGT
* *
11282365 ATCGATCTATAACAATATAACAGGTAAAAATATGACAA
326 ATCGATCCATAACAATATAAAAGGTAAAAATATGACAA
*** * * * * ** *
11282403 AAGATGTCTAAAAATGAAAAAACCGGTAAAAAGATATTGGATATGTTGAAAGTGTTGATAATTTA
1 AATCGGTCTCAAAATGACAAAACCGGTAAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTA
* * *
11282468 ATATAAGTATCGACACTTT-TGGAATTTAAAAGAGAAGAAGCTAT-GCGCCTAAAAAGTGTAGAC
66 ATATAAGTATCGACACTTTCT-GAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTATCGAC
*
11282531 ACTTTATGAAAATGTATCGATTCATAACAATATAACAGCTAAAAATATGACAAAACCGGTCTCAA
130 ACTTTATGAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAACCGGTCTCAA
**
11282596 AATGACAAAACAGGTAAATAACTATTAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCG
195 AATGACAAAACAGGTAAATAACTATCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCG
* *
11282661 ACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGTCTATAAAGTGTCGATAATTTAAAAAAAT
260 ACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGTCTATAAAGTGTCGATACTTTAAAAAAA-
* *
11282726 GTATCGATCCATAACAATATAATAGGTAAAAATATGATAA
324 GTATCGATCCATAACAATATAAAAGGTAAAAATATGACAA
* * * *
11282766 AACCGGTCTCAAAATGACAAAATCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATAATATA
1 AATCGGTCTCAAAATGACAAAACCGGTAAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTA
* * * *
11282831 ATATAAGTATTGACAGTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGTCTAAAAAGTGTCGACA
66 ATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTATCGACA
* * *
11282896 CTTTATGAAAATGTATTGATCGATAACAATATAACAGCTAAAAATATGAGAAAA
131 CTTTATGAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAA
11282950 TAGGTCAACA
Statistics
Matches: 824, Mismatches: 81, Indels: 9
0.90 0.09 0.01
Matches are distributed among these distances:
362 204 0.25
363 549 0.67
364 71 0.09
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (363 bp):
AATCGGTCTCAAAATGACAAAACCGGTAAAACGCTACCGGATATGTTGAAAGTGTCGATAATTTA
ATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTATCGACA
CTTTATGAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAACCGGTCTCAAA
ATGACAAAACAGGTAAATAACTATCGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGA
CACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGTCTATAAAGTGTCGATACTTTAAAAAAAGT
ATCGATCCATAACAATATAAAAGGTAAAAATATGACAA
Found at i:11282727 original size:544 final size:543
Alignment explanation
Indices: 11281680--11282955 Score: 1731
Period size: 544 Copynumber: 2.3 Consensus size: 543
11281670 ACAATATAAT
*
11281680 CGGTCTCAAAATGACAAAACCGGTAAAACTCTACCGGATATGTTGAAAGTGTCGATAATTTAATA
1 CGGTCTCAAAATGACAAAA-CGGTAAAA-ACTACCGGATATGTTGAAAGTGTCGATAATTTAATA
* * *
11281745 TATGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTATCGAAATTT
64 TAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGAAACTT
* * ** *
11281810 TATGAAAATGAATCGATCCATAACAATATAACAGCTAAAAATATGATAAAATCGGTCTCAAAATA
129 TATGAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAAGAGGTCTAAAAATA
* * * *
11281875 ATAAAAAGAGTAAATAACTACCGGATATGTTGAAAGTGTCGATATTTTAATATAATTATCGATAC
194 ATAAAAAGAGTAAATAAATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACAC
* * * * * * * *
11281940 TTTTGGAATTTAAAAGAGAATAAATTATAGCGTCTATAATGTGTCGATACTTTAAAAAAAATATT
259 TTTTGGAATTTAAAAGAGAAGAAACTATAGCGCCTAAAAAGTGTAGACACTTTAAAAAAAATATC
* * * *
11282005 GATCCATAACAATATAAAAGGTAAAAATATGACAAAATCGGTTTCAAAATGACAAAACCGGTAAA
324 GATCCATAACAATATAAAAGCTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAA
* *
11282070 ACGCTACCAGATATGTTGAAAGTGTCAATAATTTAATATAAGTATCTACACTTTCTGAATTTAAA
389 ACACTACCAGATATGTTGAAAGTGTCAATAATTTAATATAAGTATCGACACTTTCTGAATTTAAA
* * **
11282135 AGAAAATAAGTTATAGCGCCTAAAAAATATCGACACTTTATGAAAATGTATCGATCCATAACAAT
454 AGAAAAGAAGTTATAGCGCCTAAAAAATATCGACAATTTAAAAAAATGTATCGATCCATAACAAT
11282200 ATAACAGCTAAAAATATGACAAAAC
519 ATAACAGCTAAAAATATGACAAAAC
* *
11282225 CGGTCTCAAAATGACAAAACAGGTAAATAACTATCGGATATGTTGAAAGTGTCGATACTTTAATA
1 CGGTCTCAAAATGACAAAAC-GGTAAA-AACTACCGGATATGTTGAAAGTGTCGATAATTTAATA
* *
11282290 TAAGTATCGACACTTT-TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACT
64 TAAGTATCGACACTTTCT-GAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGAAACT
* * * *
11282354 TTA-AAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGACAAAAGATGTCTAAAAAT
128 TTATGAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAAGAGGTCTAAAAAT
* ** *
11282418 GAA-AAAACCG-GTAAA-AAGATATTGGATATGTTGAAAGTGTTGATAATTTAATATAAGTATCG
193 -AATAAAA-AGAGTAAATAA-ATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCG
* * *
11282480 ACACTTTTGGAATTTAAAAGAGAAGAAGCTAT-GCGCCTAAAAAGTGTAGACACTTTATGAAAAT
255 ACACTTTTGGAATTTAAAAGAGAAGAAACTATAGCGCCTAAAAAGTGTAGACACTTTA-AAAAAA
* * *
11282544 GTATCGATTCATAACAATATAACAGCTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAG
319 ATATCGATCCATAACAATATAAAAGCTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAG
** * *
11282609 GTAAATA-ACTATTAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTT-TGGA
384 GTAAA-ACACTACCAGATATGTTGAAAGTGTCAATAATTTAATATAAGTATCGACACTTTCT-GA
* * * * *
11282672 ATTTAAAAGAAAAGAAGTTATAGCGTCTATAAAGTGTCGATAATTTAAAAAAATGTATCGATCCA
447 ATTTAAAAGAAAAGAAGTTATAGCGCCTAAAAAATATCGACAATTTAAAAAAATGTATCGATCCA
* * *
11282737 TAACAATATAATAGGTAAAAATATGATAAAAC
512 TAACAATATAACAGCTAAAAATATGACAAAAC
** *
11282769 CGGTCTCAAAATGACAAAATCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATAATATAATA
1 CGGTCTCAAAATGACAAAA-CGGTAAA-AACTACCGGATATGTTGAAAGTGTCGATAATTTAATA
* * * *
11282834 TAAGTATTGACAGTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGTCTAAAAAGTGTCGACACTT
64 TAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGAAACTT
* * * *
11282899 TATGAAAATGTATTGATCGATAACAATATAACAGCTAAAAATATGAGAAAATAGGTC
129 TATGAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAAGAGGTC
11282956 AACATAAAGT
Statistics
Matches: 640, Mismatches: 79, Indels: 24
0.86 0.11 0.03
Matches are distributed among these distances:
543 23 0.04
544 445 0.70
545 171 0.27
546 1 0.00
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (543 bp):
CGGTCTCAAAATGACAAAACGGTAAAAACTACCGGATATGTTGAAAGTGTCGATAATTTAATATA
AGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGAAACTTTA
TGAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAAGAGGTCTAAAAATAAT
AAAAAGAGTAAATAAATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
TTGGAATTTAAAAGAGAAGAAACTATAGCGCCTAAAAAGTGTAGACACTTTAAAAAAAATATCGA
TCCATAACAATATAAAAGCTAAAAATATGACAAAACCGGTCTCAAAATGACAAAACAGGTAAAAC
ACTACCAGATATGTTGAAAGTGTCAATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAG
AAAAGAAGTTATAGCGCCTAAAAAATATCGACAATTTAAAAAAATGTATCGATCCATAACAATAT
AACAGCTAAAAATATGACAAAAC
Found at i:11283434 original size:87 final size:86
Alignment explanation
Indices: 11283332--11283498 Score: 271
Period size: 87 Copynumber: 1.9 Consensus size: 86
11283322 AAATATGTCA
* * *
11283332 ATATAAACGCGACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAACGCGACCTATTACATTATATAAGCGCTACCCAATACGTTATTGTACTTAATAATATTT
11283397 CCGGTTAAATGCATATTTTATT
66 CCGGTTAAATG-ATATTTTATT
* *
11283419 ATATAAACGCTACCTATTACATTATATAAGCGCTACCCAATACGTTATTGTGCTTAATAATATTT
1 ATATAAACGCGACCTATTACATTATATAAGCGCTACCCAATACGTTATTGTACTTAATAATATTT
*
11283484 TCGGTTAAATGATAT
66 CCGGTTAAATGATAT
11283499 AACATAACCG
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
86 4 0.05
87 70 0.95
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (86 bp):
ATATAAACGCGACCTATTACATTATATAAGCGCTACCCAATACGTTATTGTACTTAATAATATTT
CCGGTTAAATGATATTTTATT
Found at i:11283466 original size:23 final size:23
Alignment explanation
Indices: 11283416--11283466 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
11283406 TGCATATTTT
* *
11283416 ATTATATAAACGCTACCTATTAC
1 ATTATATAAACGCTACCCAATAC
*
11283439 ATTATATAAGCGCTACCCAATAC
1 ATTATATAAACGCTACCCAATAC
*
11283462 GTTAT
1 ATTAT
11283467 TGTGCTTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (23 bp):
ATTATATAAACGCTACCCAATAC
Found at i:11284093 original size:16 final size:17
Alignment explanation
Indices: 11284063--11284094 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11284053 ATATTTATTT
11284063 ATATAAAATATAATATA
1 ATATAAAATATAATATA
11284080 ATATAAAA-ATAATAT
1 ATATAAAATATAATAT
11284095 TATGATAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATATAAAATATAATATA
Found at i:11284704 original size:14 final size:13
Alignment explanation
Indices: 11284685--11284897 Score: 71
Period size: 13 Copynumber: 16.8 Consensus size: 13
11284675 TTATCGCCAC
*
11284685 ATATATGAATACTA
1 ATATAT-AATAATA
*
11284699 ATATATTCATAATA
1 ATATA-TAATAATA
11284713 ATATATAATAATA
1 ATATATAATAATA
*
11284726 CTA-ACTAAT-A-A
1 ATATA-TAATAATA
*
11284737 ATA-ATACTAA-A
1 ATATATAATAATA
*
11284748 ATATTTAACTAATA
1 ATATATAA-TAATA
* *
11284762 TTA-ATAAATAATC
1 ATATAT-AATAATA
*
11284775 ACA-ATAATAATA
1 ATATATAATAATA
* *
11284787 ATATTTATCATAGTA
1 ATA--TATAATAATA
*
11284802 ATA-A-AATACTA
1 ATATATAATAATA
11284813 A-ATACTAATAATA
1 ATATA-TAATAATA
*
11284826 ATATATAGTAATA
1 ATATATAATAATA
*
11284839 ATA-ATATGTAATTA
1 ATATATA-ATAA-TA
11284853 A-ATATAAT-A-A
1 ATATATAATAATA
*
11284863 ATAAATAATAA-A
1 ATATATAATAATA
* *
11284875 CTAAAT-ATAATA
1 ATATATAATAATA
*
11284887 TTATATAATAA
1 ATATATAATAA
11284898 AAATTATGTT
Statistics
Matches: 152, Mismatches: 26, Indels: 43
0.69 0.12 0.19
Matches are distributed among these distances:
10 6 0.04
11 26 0.17
12 29 0.19
13 51 0.34
14 29 0.19
15 11 0.07
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.36
Consensus pattern (13 bp):
ATATATAATAATA
Found at i:11284862 original size:3 final size:3
Alignment explanation
Indices: 11284707--11284844 Score: 73
Period size: 3 Copynumber: 44.0 Consensus size: 3
11284697 TAATATATTC
* * *
11284707 ATA ATA ATA TATA ATA ATA CTA ACTA ATAA ATA ATA CTA A-A ATA TTTA
1 ATA ATA ATA -ATA ATA ATA ATA A-TA AT-A ATA ATA ATA ATA ATA -ATA
* * * * * * *
11284755 ACTA ATA TTA ATAA ATA ATC ACA ATA ATA ATA ATA TTT ATC ATA GTA
1 A-TA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
11284802 ATA A-A ATA CTAA ATA CTA ATA ATA ATA TATA GTA ATA ATA ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
11284845 TGTAATTAAA
Statistics
Matches: 100, Mismatches: 25, Indels: 20
0.69 0.17 0.14
Matches are distributed among these distances:
2 4 0.04
3 74 0.74
4 22 0.22
ACGTcount: A:0.57, C:0.07, G:0.01, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:11299559 original size:29 final size:31
Alignment explanation
Indices: 11299521--11299589 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
11299511 TTAAATAGTT
* *
11299521 ATTA-TATTTTATATT-AATATATTTATGTA
1 ATTATTATTTTATATTAAAAATATTTATATA
*
11299550 A-TATTATTTTTTATTAAAAAATATTTATATA
1 ATTATTATTTTATATT-AAAAATATTTATATA
11299581 ATTATTATT
1 ATTATTATT
11299590 ATTTAGAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
28 2 0.06
29 11 0.33
31 13 0.39
32 7 0.21
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (31 bp):
ATTATTATTTTATATTAAAAATATTTATATA
Found at i:11299754 original size:17 final size:17
Alignment explanation
Indices: 11299732--11299783 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
11299722 AATGTTAATA
11299732 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * *
11299749 TTTAAAGTTATTATGA-
1 TTTAAATTTATTTTTAT
* *
11299765 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
11299782 TT
1 TT
11299784 GTATAATGTA
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:11299801 original size:33 final size:32
Alignment explanation
Indices: 11299721--11299801 Score: 78
Period size: 33 Copynumber: 2.5 Consensus size: 32
11299711 TTTTTATAAT
*
11299721 TAATGT-TAATATTTAAATTTATTTTTATTTTA
1 TAATGTAT-ATATTTAAATTAATTTTTATTTTA
*
11299753 -AA-GTTATTATGATTTATATTAATTTTTATTTGTA
1 TAATG-TA-TAT-ATTTAAATTAATTTTTATTT-TA
11299787 TAATGTATATATTTA
1 TAATGTATATATTTA
11299802 GGATACTGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
30 1 0.03
31 3 0.08
32 2 0.05
33 24 0.60
34 5 0.12
35 4 0.10
36 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (32 bp):
TAATGTATATATTTAAATTAATTTTTATTTTA
Found at i:11301300 original size:21 final size:21
Alignment explanation
Indices: 11301270--11301317 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
11301260 GCAGGGGTAC
* *
11301270 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
11301291 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
11301312 ATGCCA
1 ATGCCA
11301318 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:11301414 original size:21 final size:21
Alignment explanation
Indices: 11301321--11301406 Score: 129
Period size: 21 Copynumber: 4.1 Consensus size: 21
11301311 TATGCCATCT
11301321 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCGAGC
11301342 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCGAGC
*
11301363 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCGAGC
* *
11301384 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCGAGC
11301405 CC
1 CC
11301407 ATAGGGTTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
21 60 0.97
22 2 0.03
ACGTcount: A:0.19, C:0.36, G:0.26, T:0.20
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCGAGC
Found at i:11301962 original size:28 final size:28
Alignment explanation
Indices: 11301931--11302009 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 28
11301921 GATAAATGTT
* *
11301931 TTTAAAATACAAATTATATTATTCAAAA
1 TTTAAAATAAAAATAATATTATTCAAAA
*
11301959 TTTAAAATAAAAATAATATTATTCGAAA
1 TTTAAAATAAAAATAATATTATTCAAAA
*
11301987 TTTAAATTTAAAATATAA-ATTAT
1 TTTAAA-ATAAAA-ATAATATTAT
11302010 AGTATTCGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 31 0.69
29 10 0.22
30 4 0.09
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (28 bp):
TTTAAAATAAAAATAATATTATTCAAAA
Found at i:11301972 original size:34 final size:33
Alignment explanation
Indices: 11301934--11302025 Score: 95
Period size: 28 Copynumber: 2.9 Consensus size: 33
11301924 AAATGTTTTT
*
11301934 AAAATACAAATTATATTATTCAAAATTTAAAATA
1 AAAATA-AAATTATATTATTCGAAATTTAAAATA
* *
11301968 AAAAT---A--ATATTATTCGAAATTTAAATTT
1 AAAATAAAATTATATTATTCGAAATTTAAAATA
*
11301996 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATA-AAATTATATTATTCGAAATTTAA
11302026 CATTAAATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
28 24 0.50
30 1 0.02
32 1 0.02
34 22 0.46
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.38
Consensus pattern (33 bp):
AAAATAAAATTATATTATTCGAAATTTAAAATA
Found at i:11302021 original size:28 final size:28
Alignment explanation
Indices: 11301931--11302034 Score: 93
Period size: 28 Copynumber: 3.5 Consensus size: 28
11301921 GATAAATGTT
* *
11301931 TTTAAAATACAAATTATATTATTCAAAA
1 TTTAAAATATAAATTATATTATTCGAAA
* *
11301959 TTTAAAATAAAAATAATATTATTCGAAATTTAAA
1 TTTAAAATATAAATTATATTATTCG------AAA
*
11301993 TTTAAAATATAAATTATAGTATTCGAAA
1 TTTAAAATATAAATTATATTATTCGAAA
*
11302021 TTTAACAT-TAAATT
1 TTTAAAATATAAATT
11302035 TCAACTTAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
27 6 0.10
28 32 0.51
34 25 0.40
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (28 bp):
TTTAAAATATAAATTATATTATTCGAAA
Found at i:11302032 original size:34 final size:32
Alignment explanation
Indices: 11301932--11302032 Score: 111
Period size: 34 Copynumber: 3.2 Consensus size: 32
11301922 ATAAATGTTT
* *
11301932 TTAAAATACAAATTATATTATTCAAAATTTAAA
1 TTAAAATATAAATTATA-TATTCGAAATTTAAA
*
11301965 ATAAAA-AT-AA-TAT-TATTCGAAATTTAAA
1 TTAAAATATAAATTATATATTCGAAATTTAAA
11301993 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATATAAATTATA-TATTCGAAATTTAA-A
11302028 TTAAA
1 TTAAA
11302033 TTTCAACTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
28 14 0.25
29 5 0.09
30 5 0.09
31 4 0.07
32 4 0.07
33 5 0.09
34 19 0.33
35 1 0.02
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (32 bp):
TTAAAATATAAATTATATATTCGAAATTTAAA
Found at i:11302651 original size:128 final size:128
Alignment explanation
Indices: 11302423--11303049 Score: 1048
Period size: 128 Copynumber: 4.9 Consensus size: 128
11302413 TTACATGATT
*
11302423 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTA
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
***
11302488 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCT-GAGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGT-GAATAGAGAAATAATAGG
* *
11302551 TACTGATATGA-ATAATGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCT
1 TACTGATAT-ATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCT
* *
11302615 CTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
65 CTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTGAATAGAGAAATAATAGG
11302679 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * *
11302744 TGATAAAATAATGGAAGGCGTGCCCCCGGGAACGCGCCTT-AATGTGAATAGTGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAA-GTGAATAGAGAAATAATAGG
11302807 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
11302872 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTA-AAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTGAATAG-AGAAATAATAGG
*
11302935 TACTGATATATCTAGTGTCCTCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCT-
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
11302999 TGACAAAATAATGGAAGGCGCGCCCCCGGGAATGCGCCTTCATGTGAATAG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTGAATAG
11303050 TACTCCGATT
Statistics
Matches: 474, Mismatches: 19, Indels: 13
0.94 0.04 0.03
Matches are distributed among these distances:
127 53 0.11
128 419 0.88
129 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTGAATAGAGAAATAATAGG
Found at i:11303134 original size:8 final size:8
Alignment explanation
Indices: 11303121--11303161 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
11303111 TCACAAGCTT
11303121 TCAAATTC
1 TCAAATTC
11303129 TCAAATTC
1 TCAAATTC
* *
11303137 CCAAACTC
1 TCAAATTC
11303145 T-AAATTC
1 TCAAATTC
11303152 TCAAATTC
1 TCAAATTC
11303160 TC
1 TC
11303162 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:11307231 original size:31 final size:31
Alignment explanation
Indices: 11307196--11307294 Score: 110
Period size: 31 Copynumber: 3.2 Consensus size: 31
11307186 TGGCTAAACT
* **
11307196 TTAATTTAAACTTTAAATTTTGGATAAAATA
1 TTAATTTAAACTTTAAACTTTACATAAAATA
** *
11307227 TTAATTT-GGCCTTAAACTTTACATAAAATA
1 TTAATTTAAACTTTAAACTTTACATAAAATA
* * *
11307257 TTAATTTAACCTCTAAACTTTATATAAAATA
1 TTAATTTAAACTTTAAACTTTACATAAAATA
11307288 TTAATTT
1 TTAATTT
11307295 GATCCTTGAA
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
30 24 0.43
31 32 0.57
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.44
Consensus pattern (31 bp):
TTAATTTAAACTTTAAACTTTACATAAAATA
Found at i:11307253 original size:30 final size:31
Alignment explanation
Indices: 11307219--11307296 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
11307209 TAAATTTTGG
*
11307219 ATAAAATATTAATTTGGCCT-TAAACTTTAC
1 ATAAAATATTAATTTGACCTCTAAACTTTAC
* *
11307249 ATAAAATATTAATTTAACCTCTAAACTTTAT
1 ATAAAATATTAATTTGACCTCTAAACTTTAC
11307280 ATAAAATATTAATTTGA
1 ATAAAATATTAATTTGA
11307297 TCCTTGAATC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
30 18 0.42
31 25 0.58
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.41
Consensus pattern (31 bp):
ATAAAATATTAATTTGACCTCTAAACTTTAC
Found at i:11309313 original size:13 final size:13
Alignment explanation
Indices: 11309297--11309323 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11309287 ACTATCATAG
11309297 AACCAAAATAAGA
1 AACCAAAATAAGA
11309310 AACCAAAATAAGA
1 AACCAAAATAAGA
11309323 A
1 A
11309324 TGAGAAGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.15, G:0.07, T:0.07
Consensus pattern (13 bp):
AACCAAAATAAGA
Found at i:11316413 original size:20 final size:22
Alignment explanation
Indices: 11316384--11316433 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
11316374 GGCCGGGAGA
11316384 AGGCGCGCGCCTTTCGTAGGCG
1 AGGCGCGCGCCTTTCGTAGGCG
11316406 AGGCGCGCGCCTTTCGTAGGCG
1 AGGCGCGCGCCTTTCGTAGGCG
11316428 AGGCGC
1 AGGCGC
11316434 ACTTTTATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.10, C:0.32, G:0.42, T:0.16
Consensus pattern (22 bp):
AGGCGCGCGCCTTTCGTAGGCG
Found at i:11318967 original size:23 final size:23
Alignment explanation
Indices: 11318938--11318988 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
11318928 GACCCTGGGT
** *
11318938 CGGGTCAATATGCGGACCCTGAA
1 CGGGTCAATACACGAACCCTGAA
11318961 CGGGTCAATACACGAACCCTGAA
1 CGGGTCAATACACGAACCCTGAA
11318984 CGGGT
1 CGGGT
11318989 AAATGGGTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.27, G:0.29, T:0.16
Consensus pattern (23 bp):
CGGGTCAATACACGAACCCTGAA
Found at i:11320332 original size:31 final size:31
Alignment explanation
Indices: 11320271--11320355 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 31
11320261 ACCGAACTCG
* **
11320271 AAGGTTTGGTGTTTCAAGATAAACCTTTTCA
1 AAGGTTTGGTGTTTCAAGAGAAACAATTTCA
* *
11320302 AAGGTTTTGTGTTTCAAGAGAAATAATTTCA
1 AAGGTTTGGTGTTTCAAGAGAAACAATTTCA
*
11320333 AA-GATTGGTGCTTT-AAGAGAAAC
1 AAGGTTTGGTG-TTTCAAGAGAAAC
11320356 TGTCCCAAGA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
30 14 0.31
31 31 0.69
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.35
Consensus pattern (31 bp):
AAGGTTTGGTGTTTCAAGAGAAACAATTTCA
Found at i:11320394 original size:37 final size:37
Alignment explanation
Indices: 11320344--11320455 Score: 127
Period size: 37 Copynumber: 3.1 Consensus size: 37
11320334 AGATTGGTGC
11320344 TTTAAGAGAAACTGTCCCAAGAGAGACAAAACTTTGT
1 TTTAAGAGAAACTGTCCCAAGAGAGACAAAACTTTGT
* * *
11320381 TTTAAGGGAAACTGTCTCAAGAGAGACAAAACTTAGT
1 TTTAAGAGAAACTGTCCCAAGAGAGACAAAACTTTGT
** * *** *
11320418 TCCAAAAGAAACTGTCTTGAGAGAGACGAAA-TTTGT
1 TTTAAGAGAAACTGTCCCAAGAGAGACAAAACTTTGT
11320454 TT
1 TT
11320456 AATGTAAAAC
Statistics
Matches: 63, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
36 5 0.08
37 58 0.92
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TTTAAGAGAAACTGTCCCAAGAGAGACAAAACTTTGT
Found at i:11320494 original size:29 final size:30
Alignment explanation
Indices: 11320462--11320525 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
11320452 GTTTAATGTA
*
11320462 AAAC-ATATTCAAAGATTT-TGTTTCAAGGG
1 AAACTATATTCAAAG-TTTATGTTTCAAGAG
* *
11320491 AAACTGTTTTCAAAGTTTATGTTTCAAGAG
1 AAACTATATTCAAAGTTTATGTTTCAAGAG
11320521 AAACT
1 AAACT
11320526 GTCTCAAGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (30 bp):
AAACTATATTCAAAGTTTATGTTTCAAGAG
Found at i:11320505 original size:30 final size:30
Alignment explanation
Indices: 11320469--11320527 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
11320459 GTAAAACATA
*
11320469 TTCAAAGATTT-TGTTTCAAGGGAAACTGTT
1 TTCAAAG-TTTATGTTTCAAGAGAAACTGTT
11320499 TTCAAAGTTTATGTTTCAAGAGAAACTGT
1 TTCAAAGTTTATGTTTCAAGAGAAACTGT
11320528 CTCAAGGGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 3 0.11
30 24 0.89
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (30 bp):
TTCAAAGTTTATGTTTCAAGAGAAACTGTT
Found at i:11320560 original size:36 final size:36
Alignment explanation
Indices: 11320510--11320695 Score: 140
Period size: 36 Copynumber: 5.4 Consensus size: 36
11320500 TCAAAGTTTA
* * *
11320510 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
*
11320546 TGTTTAAAGGGAAAC-ATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
** * * * *
11320581 CATTTTAAGGGAAA-TATTTTC-A-A-TG-----TTT
1 TGTTTCAAGGGAAACTA-TCTCAAGAGAGACAAAATT
* * *
11320609 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 -TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
*
11320646 TGTTTCAAGGGAAACTATCTCAAGAGAAACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
**
11320682 CATTTCAAGGGAAA
1 TGTTTCAAGGGAAA
11320696 TGTTTTCAAT
Statistics
Matches: 113, Mismatches: 25, Indels: 24
0.70 0.15 0.15
Matches are distributed among these distances:
28 2 0.02
29 13 0.12
30 2 0.02
32 1 0.01
33 1 0.01
34 1 0.01
35 31 0.27
36 60 0.53
37 2 0.02
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.27
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
Found at i:11320574 original size:35 final size:35
Alignment explanation
Indices: 11320527--11320594 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
11320517 AGAGAAACTG
* **
11320527 TCTCAAGGGAGACAAAATTTGTTTAAAGGGAAACA
1 TCTCAAGAGAGACAAAATTCATTTAAAGGGAAACA
*
11320562 TCTCAAGAGAGACAAAATTCATTTTAAGGGAAA
1 TCTCAAGAGAGACAAAATTCATTTAAAGGGAAA
11320595 TATTTTCAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.24
Consensus pattern (35 bp):
TCTCAAGAGAGACAAAATTCATTTAAAGGGAAACA
Found at i:11320624 original size:100 final size:101
Alignment explanation
Indices: 11320482--11320734 Score: 438
Period size: 100 Copynumber: 2.5 Consensus size: 101
11320472 AAAGATTTTG
*
11320482 TTTCAAGGGAAACTGTTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TTTCAAGGGAAA-TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
*
11320547 GTTTAAAGGGAAAC-ATCTCAAGAGAGACAAAATTCA
65 GTTTAAAGGGAAACTATCTCAAGAGAAACAAAATTCA
* *
11320583 TTTTAAGGGAAATATTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTG
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTG
*
11320648 TTTCAAGGGAAACTATCTCAAGAGAAACAAAATTCA
66 TTTAAAGGGAAACTATCTCAAGAGAAACAAAATTCA
11320684 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTC-AGAGAAACTGTCTCAAGG
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGG
11320735 ACAAATTTTC
Statistics
Matches: 144, Mismatches: 7, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
100 81 0.56
101 63 0.44
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (101 bp):
TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTG
TTTAAAGGGAAACTATCTCAAGAGAAACAAAATTCA
Found at i:11320745 original size:57 final size:58
Alignment explanation
Indices: 11320684--11320792 Score: 202
Period size: 57 Copynumber: 1.9 Consensus size: 58
11320674 ACAAAATTCA
11320684 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTC-AGAGAAACTGTCTCAAGGACAAAT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGACAAAT
*
11320741 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTTAAGG
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGG
11320793 GAGACAAAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
57 33 0.66
58 17 0.34
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (58 bp):
TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGACAAAT
Found at i:11320773 original size:29 final size:29
Alignment explanation
Indices: 11320684--11320781 Score: 94
Period size: 29 Copynumber: 3.4 Consensus size: 29
11320674 ACAAAATTCA
*
11320684 TTTCAAGGGAAATGTTTTCAATGTTTATG
1 TTTCAAGAGAAATGTTTTCAATGTTTATG
* * ***
11320713 TTTC-AGAGAAACTG-TCTCAAGGACAAAT-
1 TTTCAAGAGAAA-TGTTTTCAATG-TTTATG
*
11320741 TTTCAAGGGAAATGTTTTCAATGTTTATG
1 TTTCAAGAGAAATGTTTTCAATGTTTATG
11320770 TTTCAAGAGAAA
1 TTTCAAGAGAAA
11320782 CTGTCTTAAG
Statistics
Matches: 51, Mismatches: 13, Indels: 10
0.69 0.18 0.14
Matches are distributed among these distances:
28 20 0.39
29 31 0.61
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (29 bp):
TTTCAAGAGAAATGTTTTCAATGTTTATG
Found at i:11320924 original size:72 final size:72
Alignment explanation
Indices: 11320844--11321055 Score: 336
Period size: 72 Copynumber: 2.9 Consensus size: 72
11320834 GATAAAATCT
*
11320844 TGTTTTAAGAAAAACAATCTTGAGGGAAATAAATCTTCTTTCGAGTAAAACAGTCTTAAGTGAGA
1 TGTTTTAAGAAAAACAATCTTGAGGGAAATAAATCTTCTTTCGAGTAAAACAGTCTCAAGTGAGA
11320909 CGAA-GTC
66 C-AAGGTC
*
11320916 TGTTTTAAGAAAAACAATCTTGAGGGAAATAAATCTTCTTTCGAGTAAAACAATCTCAAGTGAGA
1 TGTTTTAAGAAAAACAATCTTGAGGGAAATAAATCTTCTTTCGAGTAAAACAGTCTCAAGTGAGA
11320981 CAAGGTC
66 CAAGGTC
** * ** *
11320988 TGTTTTAAGAATGATAATCTCAAGGGAAATAAATCTTCTTTCAAGTAAAACAGTCTCAAGTGAGA
1 TGTTTTAAGAAAAACAATCTTGAGGGAAATAAATCTTCTTTCGAGTAAAACAGTCTCAAGTGAGA
11321053 CAA
66 CAA
11321056 ATCATCTGTA
Statistics
Matches: 130, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
71 2 0.02
72 128 0.98
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (72 bp):
TGTTTTAAGAAAAACAATCTTGAGGGAAATAAATCTTCTTTCGAGTAAAACAGTCTCAAGTGAGA
CAAGGTC
Found at i:11321045 original size:36 final size:36
Alignment explanation
Indices: 11320818--11321047 Score: 137
Period size: 36 Copynumber: 6.4 Consensus size: 36
11320808 GTTTCGATGG
* * * * * *
11320818 AAACTATCTCAAGCGAGATAAAATCTTGTTTTAAGAA
1 AAACAATCTCAAGGGAAAT-AAATCTTCTTTCAAGTA
** *
11320855 AAACAATCTTGAGGGAAATAAATCTTCTTTCGAGTA
1 AAACAATCTCAAGGGAAATAAATCTTCTTTCAAGTA
* * * ** * *
11320891 AAACAGTCTTAAGTGAGACGAAGTCTGT-TTT-AAGAA
1 AAACAATCTCAAGGGA-AATAAATCT-TCTTTCAAGTA
** *
11320927 AAACAATCTTGAGGGAAATAAATCTTCTTTCGAGTA
1 AAACAATCTCAAGGGAAATAAATCTTCTTTCAAGTA
* * * *
11320963 AAACAATCTCAAGTGAGACAAGGTCTGT-TTT-AAG-A
1 AAACAATCTCAAGGGAAATAA-ATCT-TCTTTCAAGTA
* *
11320998 ATGATAATCTCAAGGGAAATAAATCTTCTTTCAAGTA
1 A-AACAATCTCAAGGGAAATAAATCTTCTTTCAAGTA
*
11321035 AAACAGTCTCAAG
1 AAACAATCTCAAG
11321048 TGAGACAAAT
Statistics
Matches: 142, Mismatches: 41, Indels: 21
0.70 0.20 0.10
Matches are distributed among these distances:
34 2 0.01
35 17 0.12
36 90 0.63
37 31 0.22
38 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (36 bp):
AAACAATCTCAAGGGAAATAAATCTTCTTTCAAGTA
Found at i:11326407 original size:32 final size:31
Alignment explanation
Indices: 11326359--11326419 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 31
11326349 TAAAGCTAAA
11326359 AAATATAATAATAAAAT-AAAGATAAAGAAGT
1 AAATATAATAATAAAATGAAA-ATAAAGAAGT
11326390 AAATA-AATTAATCAAAATGAAAATAAAGAA
1 AAATATAA-TAAT-AAAATGAAAATAAAGAA
11326420 ACAGAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
30 2 0.07
31 9 0.33
32 13 0.48
33 3 0.11
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.21
Consensus pattern (31 bp):
AAATATAATAATAAAATGAAAATAAAGAAGT
Found at i:11337409 original size:64 final size:63
Alignment explanation
Indices: 11337324--11337483 Score: 164
Period size: 64 Copynumber: 2.5 Consensus size: 63
11337314 TTGTTTAAGG
* * * *
11337324 TGCATCGATGCACATGCAGTGCATCGATGCAT-TAATTTAAA-AGAAAACATCAAAATAAGATTT
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCAA-TTAAATA-AAAACATC-AAATAAGATTT
11337387 A
63 A
* * * *
11337388 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCAT-CCAATTAAATAAAAACATCAAATAAGATTTA
*
11337452 TGCATCGATGCAT-GGTGTAGTGCATCGATGCA
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCA
11337484 CACTCCATTA
Statistics
Matches: 82, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
63 1 0.01
64 53 0.65
65 26 0.32
66 2 0.02
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (63 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCAATTAAATAAAAACATCAAATAAGATTTA
Found at i:11338095 original size:96 final size:98
Alignment explanation
Indices: 11337944--11338141 Score: 321
Period size: 97 Copynumber: 2.0 Consensus size: 98
11337934 AGGGTCTATG
* *
11337944 TGGTCCTTCGGGACATATATGTATTCTTTGGAACTGTGTGAGGTCTGGTGAGACACATAC-TGAT
1 TGGTCATTCGGGACA-ATATGTATTCTTTGGAACTGTATGAGGTCTGGTGAGACACATACTTGAT
*
11338008 CCTTGGCATATG-TATGATTCTTAAGGAATGATA
65 CCTTGGCATATGATATGATTCTTAAGGAATAATA
11338041 TGGTCATTCGGGAC-ATATGTATTCTTTGGAACATGTATGAGGTCTGGTGAGACACATACTTGAT
1 TGGTCATTCGGGACAATATGTATTCTTTGGAAC-TGTATGAGGTCTGGTGAGACACATACTTGAT
11338105 CCTTGGCATATGTATATGATTCTTAAGGAATAATA
65 CCTTGGCATATG-ATATGATTCTTAAGGAATAATA
11338140 TG
1 TG
11338142 TGGTCCTTAT
Statistics
Matches: 94, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
95 18 0.19
96 25 0.27
97 29 0.31
99 22 0.23
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (98 bp):
TGGTCATTCGGGACAATATGTATTCTTTGGAACTGTATGAGGTCTGGTGAGACACATACTTGATC
CTTGGCATATGATATGATTCTTAAGGAATAATA
Found at i:11338222 original size:21 final size:22
Alignment explanation
Indices: 11338165--11338249 Score: 109
Period size: 23 Copynumber: 3.7 Consensus size: 22
11338155 CATTATTATA
11338165 GGCACTACGGTTGCAATTCTACGC
1 GGCACT-CGG-TGCAATTCTACGC
11338189 GGCACTCCGGTGCAATTCTACGC
1 GGCACT-CGGTGCAATTCTACGC
*
11338212 GGC-CTCGGTGCAATTCTACGT
1 GGCACTCGGTGCAATTCTACGC
*
11338233 GGCACTTAGGTGCAATT
1 GGCAC-TCGGTGCAATT
11338250 ATATGAGCTG
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
21 18 0.32
22 3 0.05
23 26 0.46
24 9 0.16
ACGTcount: A:0.19, C:0.28, G:0.27, T:0.26
Consensus pattern (22 bp):
GGCACTCGGTGCAATTCTACGC
Found at i:11341010 original size:36 final size:35
Alignment explanation
Indices: 11340959--11341026 Score: 127
Period size: 36 Copynumber: 1.9 Consensus size: 35
11340949 ACCTCAGAAC
11340959 AAGTATCCCCTTCCGCGCATTGATGACTTGTTGAT
1 AAGTATCCCCTTCCGCGCATTGATGACTTGTTGAT
11340994 AAGTATCCCCCTTCCGCGCATTGATGACTTGTT
1 AAGTAT-CCCCTTCCGCGCATTGATGACTTGTT
11341027 TGATCAACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 6 0.19
36 26 0.81
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (35 bp):
AAGTATCCCCTTCCGCGCATTGATGACTTGTTGAT
Found at i:11343935 original size:60 final size:63
Alignment explanation
Indices: 11343854--11344010 Score: 214
Period size: 64 Copynumber: 2.5 Consensus size: 63
11343844 TTGTTTAAGG
* * * *
11343854 TGCATCGATGCACATGCAGTGCATCGATGCAT-TAATTAAA-A-AAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCAATTAAATACAAACATCGAATAGGATTTA
11343914 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCAATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCAT-CCAATTAAATACAAACATCGAATAGGATTTA
*
11343978 TGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
11344011 ACCTCCATTA
Statistics
Matches: 86, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
60 29 0.34
62 7 0.08
63 2 0.02
64 33 0.38
65 15 0.17
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (63 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCAATTAAATACAAACATCGAATAGGATTTA
Found at i:11344592 original size:21 final size:20
Alignment explanation
Indices: 11344568--11344608 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
11344558 TTAAGGAATG
*
11344568 ATATGTGGTCTTTCGGGACAT
1 ATATGTAGTCTTT-GGGACAT
*
11344589 ATATGTATTCTTTGGGACAT
1 ATATGTAGTCTTTGGGACAT
11344609 GTGTGAGGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.22, C:0.12, G:0.24, T:0.41
Consensus pattern (20 bp):
ATATGTAGTCTTTGGGACAT
Found at i:11344691 original size:103 final size:103
Alignment explanation
Indices: 11344466--11344683 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
11344456 GTAGAGGGTC
11344466 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
*
11344531 TTGATCCTTGACATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGACATATGTATATGATTCTTAAGGAATAA
* *
11344569 TATGTGGTCTTTCGGGACATATATGTATTCTTTGGGACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
*
11344634 TTGATCTTTGACATATGTATATGATTCTTAAGGAATAA
66 TTGATCCTTGACATATGTATATGATTCTTAAGGAATAA
11344672 TATGTGGTCCTT
1 TATGTGGTCCTT
11344684 ATGGACATTA
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
TTGATCCTTGACATATGTATATGATTCTTAAGGAATAA
Found at i:11344733 original size:23 final size:23
Alignment explanation
Indices: 11344700--11344762 Score: 92
Period size: 23 Copynumber: 2.7 Consensus size: 23
11344690 ATTATTATAT
11344700 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
11344723 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
11344746 GGCACTTA-GGTGCAATT
1 GGCAC-TACGGTGCAATT
11344763 ATATGAGCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 35 0.97
24 1 0.03
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:11345482 original size:2 final size:2
Alignment explanation
Indices: 11345471--11345504 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
11345461 AAATTTATTA
11345471 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11345505 ATTATTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11348597 original size:167 final size:167
Alignment explanation
Indices: 11348321--11348655 Score: 670
Period size: 167 Copynumber: 2.0 Consensus size: 167
11348311 CAGAACATAA
11348321 GTTAACAGCCCCACTACTATTAAATACTTCTTTCCCTATGACACACCTATTGACAAGCATGCCAC
1 GTTAACAGCCCCACTACTATTAAATACTTCTTTCCCTATGACACACCTATTGACAAGCATGCCAC
11348386 TCCCATGTGGAGAATCTAAGACCCATGCTTCTACCCTGTTATGAGAGCCTGACATCGTCTGGCTA
66 TCCCATGTGGAGAATCTAAGACCCATGCTTCTACCCTGTTATGAGAGCCTGACATCGTCTGGCTA
11348451 CCCATTTGCCCATCCTGACCTTCGACACCATCCCCTT
131 CCCATTTGCCCATCCTGACCTTCGACACCATCCCCTT
11348488 GTTAACAGCCCCACTACTATTAAATACTTCTTTCCCTATGACACACCTATTGACAAGCATGCCAC
1 GTTAACAGCCCCACTACTATTAAATACTTCTTTCCCTATGACACACCTATTGACAAGCATGCCAC
11348553 TCCCATGTGGAGAATCTAAGACCCATGCTTCTACCCTGTTATGAGAGCCTGACATCGTCTGGCTA
66 TCCCATGTGGAGAATCTAAGACCCATGCTTCTACCCTGTTATGAGAGCCTGACATCGTCTGGCTA
11348618 CCCATTTGCCCATCCTGACCTTCGACACCATCCCCTT
131 CCCATTTGCCCATCCTGACCTTCGACACCATCCCCTT
11348655 G
1 G
11348656 GCTCCAGTCC
Statistics
Matches: 168, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
167 168 1.00
ACGTcount: A:0.24, C:0.34, G:0.14, T:0.27
Consensus pattern (167 bp):
GTTAACAGCCCCACTACTATTAAATACTTCTTTCCCTATGACACACCTATTGACAAGCATGCCAC
TCCCATGTGGAGAATCTAAGACCCATGCTTCTACCCTGTTATGAGAGCCTGACATCGTCTGGCTA
CCCATTTGCCCATCCTGACCTTCGACACCATCCCCTT
Found at i:11350158 original size:7 final size:7
Alignment explanation
Indices: 11350142--11350174 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
11350132 AAAGCAATAT
*
11350142 TATCATA
1 TATCAGA
11350149 TATCAGA
1 TATCAGA
11350156 TATCAGA
1 TATCAGA
11350163 TATCAGA
1 TATCAGA
11350170 TATCA
1 TATCA
11350175 ACAAGGGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.33
Consensus pattern (7 bp):
TATCAGA
Found at i:11352072 original size:25 final size:25
Alignment explanation
Indices: 11352044--11352124 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
11352034 TAATATACAC
11352044 TAACTCTTAGAAAGTTAGATAAAGA
1 TAACTCTTAGAAAGTTAGATAAAGA
* * * *
11352069 TAACTACTAAG-TAGTTTAGTTTAAA-T
1 TAACT-CTTAGAAAG-TTAG-ATAAAGA
*
11352095 TAACTCTTAGAAAGTTAGATAAGGA
1 TAACTCTTAGAAAGTTAGATAAAGA
11352120 TAACT
1 TAACT
11352125 ACTAAGTAGT
Statistics
Matches: 42, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
24 3 0.07
25 20 0.48
26 15 0.36
27 4 0.10
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (25 bp):
TAACTCTTAGAAAGTTAGATAAAGA
Found at i:11352098 original size:26 final size:26
Alignment explanation
Indices: 11352069--11352148 Score: 78
Period size: 26 Copynumber: 3.1 Consensus size: 26
11352059 TAGATAAAGA
11352069 TAACTACTAAGTAGTTTAGTTTAAAT
1 TAACTACTAAGTAGTTTAGTTTAAAT
* * *
11352095 TAACT-CTTAGAAAG-TTAG-ATAAGGA-
1 TAACTACTAAG-TAGTTTAGTTTAA--AT
11352120 TAACTACTAAGTAGTTTAGTTTAAAT
1 TAACTACTAAGTAGTTTAGTTTAAAT
11352146 TAA
1 TAA
11352149 ATAGTTGTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
24 3 0.07
25 16 0.39
26 19 0.46
27 3 0.07
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (26 bp):
TAACTACTAAGTAGTTTAGTTTAAAT
Found at i:11352099 original size:51 final size:51
Alignment explanation
Indices: 11352044--11352148 Score: 201
Period size: 51 Copynumber: 2.1 Consensus size: 51
11352034 TAATATACAC
11352044 TAACTCTTAGAAAGTTAGATAAAGATAACTACTAAGTAGTTTAGTTTAAAT
1 TAACTCTTAGAAAGTTAGATAAAGATAACTACTAAGTAGTTTAGTTTAAAT
*
11352095 TAACTCTTAGAAAGTTAGATAAGGATAACTACTAAGTAGTTTAGTTTAAAT
1 TAACTCTTAGAAAGTTAGATAAAGATAACTACTAAGTAGTTTAGTTTAAAT
11352146 TAA
1 TAA
11352149 ATAGTTGTTC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (51 bp):
TAACTCTTAGAAAGTTAGATAAAGATAACTACTAAGTAGTTTAGTTTAAAT
Found at i:11352135 original size:25 final size:24
Alignment explanation
Indices: 11352056--11352135 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 24
11352046 ACTCTTAGAA
11352056 AGTTAGATAAAGATAACTACTAAGT
1 AGTTAGAT-AAGATAACTACTAAGT
* * *
11352081 AGTTTAGTTTAA-ATTAACT-CTTAGAA
1 AG-TTAG-ATAAGA-TAACTACTAAG-T
11352107 AGTTAGATAAGGATAACTACTAAGT
1 AGTTAGATAA-GATAACTACTAAGT
11352132 AGTT
1 AGTT
11352136 TAGTTTAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
24 3 0.07
25 20 0.48
26 18 0.43
27 1 0.02
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.34
Consensus pattern (24 bp):
AGTTAGATAAGATAACTACTAAGT
Found at i:11355921 original size:3 final size:3
Alignment explanation
Indices: 11355845--11355906 Score: 117
Period size: 3 Copynumber: 21.0 Consensus size: 3
11355835 TATATTATAT
11355845 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11355892 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
11355907 ATAATAAAAT
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 56 0.97
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:11355959 original size:49 final size:49
Alignment explanation
Indices: 11355898--11355995 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
11355888 ATTATTATTA
11355898 TTATTATTAATAATAAAATTATTACATGTGTTTGCAGGCCCAGACTTAG
1 TTATTATTAATAATAAAATTATTACATGTGTTTGCAGGCCCAGACTTAG
11355947 TTATTATTAATAATAAAATTATTACATGTGTTTGCAGGCCCAGACTTAG
1 TTATTATTAATAATAAAATTATTACATGTGTTTGCAGGCCCAGACTTAG
11355996 AGCCAATACA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (49 bp):
TTATTATTAATAATAAAATTATTACATGTGTTTGCAGGCCCAGACTTAG
Found at i:11356850 original size:2 final size:2
Alignment explanation
Indices: 11356843--11356872 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
11356833 TTTAGATTTC
*
11356843 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11356873 TAACTAAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11357552 original size:44 final size:42
Alignment explanation
Indices: 11357399--11357552 Score: 100
Period size: 38 Copynumber: 3.8 Consensus size: 42
11357389 TTAGTTTTTA
11357399 TTATTTTAGTCATTAAAGTATTTATTTTTCTA--T-TTTAAAT
1 TTATTTTAGTCA-TAAAGTATTTATTTTTCTATTTCTTTAAAT
* * *
11357439 TT-TGTAAGT-ATATAA-T-TTTATTATTTC-ATTTCCTT-AAT
1 TTATTTTAGTCATA-AAGTATTTATT-TTTCTATTTCTTTAAAT
* * *
11357477 TGA-TATAG-CATAAAATA-TTATTTCATT-TATTTCTTTAAAT
1 TTATTTTAGTCATAAAGTATTTATTT--TTCTATTTCTTTAAAT
11357517 GTTATTTTAGTCATTAAAGTATTTATTTTTCTATTT
1 -TTATTTTAGTCA-TAAAGTATTTATTTTTCTATTT
11357553 TATTATTTTA
Statistics
Matches: 84, Mismatches: 11, Indels: 34
0.65 0.09 0.26
Matches are distributed among these distances:
36 7 0.08
37 10 0.12
38 19 0.23
39 16 0.19
40 5 0.06
41 2 0.02
42 4 0.05
43 4 0.05
44 11 0.13
45 6 0.07
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (42 bp):
TTATTTTAGTCATAAAGTATTTATTTTTCTATTTCTTTAAAT
Found at i:11360976 original size:10 final size:10
Alignment explanation
Indices: 11360937--11360981 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
11360927 GGGGTACAGA
11360937 ATGCGGTCTG
1 ATGCGGTCTG
* *
11360947 ATGCGATCCG
1 ATGCGGTCTG
*
11360957 ATGTGG-CTG
1 ATGCGGTCTG
11360966 ATGCGGTCTG
1 ATGCGGTCTG
11360976 ATGCGG
1 ATGCGG
11360982 ACCGATGCGT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
9 7 0.25
10 21 0.75
ACGTcount: A:0.13, C:0.20, G:0.40, T:0.27
Consensus pattern (10 bp):
ATGCGGTCTG
Found at i:11365736 original size:25 final size:26
Alignment explanation
Indices: 11365685--11365742 Score: 91
Period size: 25 Copynumber: 2.3 Consensus size: 26
11365675 GGTTGTAGAT
*
11365685 AAGAAACATTCGTTTCTTTTTTTTGC
1 AAGAAACATTCGTTTCTTTTTTCTGC
*
11365711 AAGAAACCTTCGTTTC-TTTTTCTGC
1 AAGAAACATTCGTTTCTTTTTTCTGC
11365736 AAGAAAC
1 AAGAAAC
11365743 GAAATTGGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 15 0.50
26 15 0.50
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (26 bp):
AAGAAACATTCGTTTCTTTTTTCTGC
Found at i:11372528 original size:14 final size:14
Alignment explanation
Indices: 11372496--11372548 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
11372486 ATTTTAAATA
* *
11372496 ATTTACATTTACGT
1 ATTTACATTTGCAT
*
11372510 TTTTACATTTGCAT
1 ATTTACATTTGCAT
*
11372524 ATTTACATTGGCAT
1 ATTTACATTTGCAT
* *
11372538 CTTTGCATTTG
1 ATTTACATTTG
11372549 TATTTTTTAT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.23, C:0.15, G:0.11, T:0.51
Consensus pattern (14 bp):
ATTTACATTTGCAT
Found at i:11375510 original size:2 final size:2
Alignment explanation
Indices: 11375503--11375566 Score: 114
Period size: 2 Copynumber: 33.0 Consensus size: 2
11375493 TTATCCTTTA
11375503 AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11375543 AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
11375567 CCTTTGTTGT
Statistics
Matches: 60, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 58 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11375537 original size:25 final size:25
Alignment explanation
Indices: 11375503--11375564 Score: 115
Period size: 25 Copynumber: 2.5 Consensus size: 25
11375493 TTATCCTTTA
11375503 ATATATATATATTATATATATATAT
1 ATATATATATATTATATATATATAT
*
11375528 ATATATATATAATATATATATATAT
1 ATATATATATATTATATATATATAT
11375553 ATATATATATAT
1 ATATATATATAT
11375565 ATCCTTTGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
ATATATATATATTATATATATATAT
Found at i:11375774 original size:26 final size:27
Alignment explanation
Indices: 11375744--11375797 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 27
11375734 TATTATACTC
11375744 ATCCAGCAAAGAAA-GAAAAAAGAAAA
1 ATCCAGCAAAGAAAGGAAAAAAGAAAA
*
11375770 ATCCAGTAAAGAAAGGAAAAAAGAAAA
1 ATCCAGCAAAGAAAGGAAAAAAGAAAA
11375797 A
1 A
11375798 AAAGAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.69, C:0.09, G:0.17, T:0.06
Consensus pattern (27 bp):
ATCCAGCAAAGAAAGGAAAAAAGAAAA
Found at i:11375800 original size:9 final size:9
Alignment explanation
Indices: 11375786--11375856 Score: 63
Period size: 9 Copynumber: 7.3 Consensus size: 9
11375776 TAAAGAAAGG
11375786 AAAAAAGAA
1 AAAAAAGAA
11375795 AAAAAAGAAA
1 AAAAAAG-AA
11375805 AAAAAAGGGGAA
1 AAAAAA---GAA
*
11375817 AGAAATAGAA
1 A-AAAAAGAA
*
11375827 AAAAAAGAG
1 AAAAAAGAA
11375836 AAAAAAGAA
1 AAAAAAGAA
11375845 AAAGAAA-AA
1 AAA-AAAGAA
11375854 AAA
1 AAA
11375857 TTGAATCAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
9 29 0.56
10 15 0.29
12 3 0.06
13 5 0.10
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.01
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:11375846 original size:15 final size:14
Alignment explanation
Indices: 11375787--11375855 Score: 54
Period size: 15 Copynumber: 4.9 Consensus size: 14
11375777 AAAGAAAGGA
11375787 AAAAAGAAAAAAA-
1 AAAAAGAAAAAAAG
* *
11375800 AGAAA-AAAAAAGG
1 AAAAAGAAAAAAAG
**
11375813 GGAAAGAAATAGAAA-
1 AAAAAGAAA-A-AAAG
11375828 AAAAAGAGAAAAAAG
1 AAAAAGA-AAAAAAG
11375843 AAAAAGAAAAAAA
1 AAAAAGAAAAAAA
11375856 ATTGAATCAA
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
12 6 0.14
13 8 0.18
14 12 0.27
15 14 0.32
16 4 0.09
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.01
Consensus pattern (14 bp):
AAAAAGAAAAAAAG
Found at i:11375867 original size:24 final size:24
Alignment explanation
Indices: 11375796--11375856 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
11375786 AAAAAAGAAA
***
11375796 AAAAAGAAAAAAAA-AGGGGAAAG
1 AAAAAGAAAAAAAAGAGAAAAAAG
*
11375819 AAATAGAAAAAAAAGAGAAAAAAG
1 AAAAAGAAAAAAAAGAGAAAAAAG
11375843 AAAAAGAAAAAAAA
1 AAAAAGAAAAAAAA
11375857 TTGAATCAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 13 0.41
24 19 0.59
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (24 bp):
AAAAAGAAAAAAAAGAGAAAAAAG
Found at i:11376504 original size:32 final size:32
Alignment explanation
Indices: 11376463--11376524 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
11376453 GTCAAACACA
* *
11376463 AGAAGTATCTCTATC-AGATGATCATAACAACG
1 AGAAATATCTCTA-CAAGATGAGCATAACAACG
11376495 AGAAATATCTCTACAAGATGAGCATAACAA
1 AGAAATATCTCTACAAGATGAGCATAACAA
11376525 TCATTTCTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 1 0.04
32 26 0.96
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.23
Consensus pattern (32 bp):
AGAAATATCTCTACAAGATGAGCATAACAACG
Found at i:11380385 original size:40 final size:40
Alignment explanation
Indices: 11380330--11380409 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
11380320 TGAGCAGAGT
*
11380330 CCACAGAAAATGATGAATGCGTTGTCAAATGTTTTACATC
1 CCACAGAAAAGGATGAATGCGTTGTCAAATGTTTTACATC
* *
11380370 CCACAGAAAAGGATGAATGTGTTGTCAAGTGTTTTACATC
1 CCACAGAAAAGGATGAATGCGTTGTCAAATGTTTTACATC
11380410 TAAGCTGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (40 bp):
CCACAGAAAAGGATGAATGCGTTGTCAAATGTTTTACATC
Found at i:11380817 original size:22 final size:22
Alignment explanation
Indices: 11380791--11380870 Score: 115
Period size: 22 Copynumber: 3.6 Consensus size: 22
11380781 TACATCTACA
11380791 CTCTTCAAAGATGATAGATTCT
1 CTCTTCAAAGATGATAGATTCT
*
11380813 CTCTTCAAAGATGATAGATTCC
1 CTCTTCAAAGATGATAGATTCT
* * *
11380835 CTTTTTAAAGATGACAGATTCT
1 CTCTTCAAAGATGATAGATTCT
*
11380857 CTTTTCAAAGATGA
1 CTCTTCAAAGATGA
11380871 AAGCTTTATC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (22 bp):
CTCTTCAAAGATGATAGATTCT
Found at i:11381473 original size:17 final size:17
Alignment explanation
Indices: 11381451--11381508 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
11381441 CATCTGAAGA
11381451 AGAAGAAGTTCATAATG
1 AGAAGAAGTTCATAATG
* *
11381468 AGAAGAA-CTCAT-CTG
1 AGAAGAAGTTCATAATG
11381483 AAAGAAGAAGTTCATAATG
1 --AGAAGAAGTTCATAATG
11381502 AGAAGAA
1 AGAAGAA
11381509 CTTGTTCAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
15 2 0.06
16 4 0.12
17 21 0.64
18 4 0.12
19 2 0.06
ACGTcount: A:0.50, C:0.09, G:0.22, T:0.19
Consensus pattern (17 bp):
AGAAGAAGTTCATAATG
Found at i:11381493 original size:34 final size:36
Alignment explanation
Indices: 11381421--11381510 Score: 157
Period size: 34 Copynumber: 2.6 Consensus size: 36
11381411 TACCAGTTCG
*
11381421 AGTTCATAATAAGAAGAACTCATCTGAAGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGA
11381457 AGTTCATAATGAGAAGAACTCATCTG-A-AAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGA
11381491 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
11381511 TGTTCAACTT
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
34 27 0.51
35 1 0.02
36 25 0.47
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.21
Consensus pattern (36 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGA
Found at i:11381511 original size:143 final size:145
Alignment explanation
Indices: 11381341--11381620 Score: 402
Period size: 143 Copynumber: 1.9 Consensus size: 145
11381331 CTGAAGAAAG
*
11381341 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTACTTGAATTCATCATTCAATTGATC
1 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTACTTGAATTCATCATTCAATGGATC
* ****
11381406 AGCATTACCAGTTCGAGTTCATAATAAGAAGAACTCATCT-GAA-GAAGAAGAAGTTCATAATGA
66 AGCATTACAAGAGAAAGTTCATAATAAGAAGAACTCATCTAGAAGGAAGAAGAAGTTCATAATGA
11381469 GAAGAACTCATCTGA
131 GAAGAACTCATCTGA
** * *
11381484 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATTCATCCTTCGATGGATC
1 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTACTTGAATTCATCATTCAATGGATC
* * * *
11381549 ATCATTTCAAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAAT
66 AGCATTACAAGAGAAAGTTCATAATAAGAAGAACTCATCT--AGAAGGAAGAAGAAGTTCATAAT
11381614 GAGAAGA
129 GAGAAGA
11381621 GCTTGTTCAA
Statistics
Matches: 119, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
143 91 0.76
146 3 0.03
147 25 0.21
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.29
Consensus pattern (145 bp):
AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTACTTGAATTCATCATTCAATGGATC
AGCATTACAAGAGAAAGTTCATAATAAGAAGAACTCATCTAGAAGGAAGAAGAAGTTCATAATGA
GAAGAACTCATCTGA
Found at i:11381637 original size:113 final size:114
Alignment explanation
Indices: 11381456--11382208 Score: 883
Period size: 113 Copynumber: 6.6 Consensus size: 114
11381446 GAAGAAGAAG
*
11381456 AAGTTCATAATGAGAAGAACTCATCT---G-A--AAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * *
11381515 CAACTTTTTGTTTGAATTCATC-CTTCGATGGATCATCATTTCAAGAGA
66 CAACCTTTTGCTTGAATTCATCACTTCGATGGATCAGCATTTCCAGAGA
*
11381563 AAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
1 AAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
** * *
11381628 CAACCTTTTGCTCAAATCCATCAC-TCGATGGATCAGCTTTTCCAGA-A
66 CAACCTTTTGCTTGAATTCATCACTTCGATGGATCAGCATTTCCAGAGA
* * * * *
11381675 GAGTTCATAATGAGAAGAACTCATTTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * * *
11381740 CAACTTTTTGTTTGAATTCATC-CTTCGATGGATCATCATTTCAAGAGA
66 CAACCTTTTGCTTGAATTCATCACTTCGATGGATCAGCATTTCCAGAGA
* *
11381788 AAGTTCATAATGAGAAGAACTTATCTAAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
1 AAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
** * * *
11381853 CAACCTTTTGCTCAAATCCATCAC-TCGATAGATCAGCTTTTCCAGAGA
66 CAACCTTTTGCTTGAATTCATCACTTCGATGGATCAGCATTTCCAGAGA
* * *
11381901 TAGTTCATAATGAGAAGAACTCATCTGAAGAGGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * *
11381966 CAA-CTTTTCACTTGAATTCATCA-TTCGATGGATCCGCATTGCCAGAGA
66 CAACCTTTT-GCTTGAATTCATCACTTCGATGGATCAGCATTTCCAGAGA
* *
11382014 GAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
1 AAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* *** * *
11382079 CAACCTTTTG-TAT-AACTCTATCACAGAAGGAGATAGATCAACACCAACTTTTCCAGAGA
66 CAACCTTTTGCT-TGAATTC-ATCAC----TTCGATGGAT---CAGC-A--TTTCCAGAGA
**
11382138 AAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAA-AAGGAAAATCATAATGAGAAGAACTTGT
1 AAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAA-GAAGTTCATAATGAGAAGAACTTGT
11382201 TCAACCTT
65 TCAACCTT
11382209 GCATTGATTC
Statistics
Matches: 549, Mismatches: 70, Indels: 38
0.84 0.11 0.06
Matches are distributed among these distances:
107 25 0.05
110 1 0.00
111 2 0.00
112 106 0.19
113 324 0.59
114 7 0.01
118 6 0.01
121 2 0.00
122 3 0.01
123 35 0.06
124 38 0.07
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (114 bp):
AAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
CAACCTTTTGCTTGAATTCATCACTTCGATGGATCAGCATTTCCAGAGA
Found at i:11381733 original size:225 final size:224
Alignment explanation
Indices: 11381451--11382088 Score: 1070
Period size: 225 Copynumber: 2.9 Consensus size: 224
11381441 CATCTGAAGA
11381451 AGAAGAAGTTCATAATGAGAAGAACTCATCT---G-A-AAGAAGAAGTTCATAATGAGAAGAACT
1 AGAAG-AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAACT
11381511 TGTTCAACTTTTTGTTTGAATTCATCCTTCGATGGATCATCATTTCAAGAGAAAGTTCATAATGA
65 TGTTCAACTTTTTGTTTGAATTCATCCTTCGATGGATCATCATTTCAAGAGAAAGTTCATAATGA
11381576 GAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTC
130 GAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTC
*
11381641 AAATCCATCACTCGATGGATCAGCTTTTCC
195 AAATCCATCACTCGATAGATCAGCTTTTCC
* *
11381671 AGAAGAGTTCATAATGAGAAGAACTCATTTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACT
1 AGAAGAGTTCATAATGAGAAGAACTCATCTGAAG-AAGAAGAAGAAGTTCATAATGAGAAGAACT
11381736 TGTTCAACTTTTTGTTTGAATTCATCCTTCGATGGATCATCATTTCAAGAGAAAGTTCATAATGA
65 TGTTCAACTTTTTGTTTGAATTCATCCTTCGATGGATCATCATTTCAAGAGAAAGTTCATAATGA
*
11381801 GAAGAACTTATCTAAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTC
130 GAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTC
11381866 AAATCCATCACTCGATAGATCAGCTTTTCC
195 AAATCCATCACTCGATAGATCAGCTTTTCC
* *
11381896 AGAGATAGTTCATAATGAGAAGAACTCATCTGAAGAGGGAAGAAGAAGTTCATAATGAGAAGAAC
1 AGA-AGAGTTCATAATGAGAAGAACTCATCTGAAGA-AGAAGAAGAAGTTCATAATGAGAAGAAC
*** * ** * * *
11381961 TTGTTCAACTTTTCACTTGAATTCATCATTCGATGGATCCGCATTGCCAGAGAGAGTTCATAATG
64 TTGTTCAACTTTTTGTTTGAATTCATCCTTCGATGGATCATCATTTCAAGAGAAAGTTCATAATG
11382026 AGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTG
129 AGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTG
11382089 TATAACTCTA
Statistics
Matches: 392, Mismatches: 18, Indels: 10
0.93 0.04 0.02
Matches are distributed among these distances:
219 24 0.06
220 5 0.01
222 1 0.00
224 1 0.00
225 188 0.48
226 173 0.44
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (224 bp):
AGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAACTT
GTTCAACTTTTTGTTTGAATTCATCCTTCGATGGATCATCATTTCAAGAGAAAGTTCATAATGAG
AAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCA
AATCCATCACTCGATAGATCAGCTTTTCC
Found at i:11382038 original size:226 final size:225
Alignment explanation
Indices: 11381456--11382221 Score: 1068
Period size: 225 Copynumber: 3.4 Consensus size: 225
11381446 GAAGAAGAAG
11381456 AAGTTCATAATGAGAAGAACTCATCT---GA--AAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
**
11381516 AACTTTTTGTTTGAATTCATCCTTCGATGGATCATCATTTCAAGAGAAAGTTCATAATGAGAAGA
66 AACTTTTCATTTGAATTCATCCTTCGATGGATCATCATTTCAAGAGAAAGTTCATAATGAGAAGA
11381581 ACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATC
131 ACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATC
*
11381646 CATCACTCGATGGATCAGCTTTTCCAGA-A
196 CATCACTCGATAGATCAGCTTTTCCAGAGA
* * * *
11381675 GAGTTCATAATGAGAAGAACTCATTTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
**
11381740 CAACTTTTTGTTTGAATTCATCCTTCGATGGATCATCATTTCAAGAGAAAGTTCATAATGAGAAG
65 CAACTTTTCATTTGAATTCATCCTTCGATGGATCATCATTTCAAGAGAAAGTTCATAATGAGAAG
*
11381805 AACTTATCTAAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAAT
130 AACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAAT
11381870 CCATCACTCGATAGATCAGCTTTTCCAGAGA
195 CCATCACTCGATAGATCAGCTTTTCCAGAGA
*
11381901 TAGTTCATAATGAGAAGAACTCATCTGAAGAGGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGA-GGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* * ** * * *
11381966 CAACTTTTCACTTGAATTCATCATTCGATGGATCCGCATTGCCAGAGAGAGTTCATAATGAGAAG
65 CAACTTTTCATTTGAATTCATCCTTCGATGGATCATCATTTCAAGAGAAAGTTCATAATGAGAAG
11382031 AACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTG-T-ATAA
130 AACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCA-AA
* ** *
11382094 CTCTATCACAGAAGGAGATAGATCAACACCAACTTTTCCAGAGA
194 -TCCATCAC-----TCGATAGAT------CAGCTTTTCCAGAGA
* **
11382138 AAGTTCATAATGAGAAGAACTTATCTGAAGAGGAA-AAGGAAAATCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAA-GAAGTTCATAATGAGAAGAACTTGTT
* *
11382202 CAACCTTGCA-TTG-ATTCATC
65 CAACTTTTCATTTGAATTCATC
11382222 TCCTATGAAA
Statistics
Matches: 496, Mismatches: 29, Indels: 29
0.90 0.05 0.05
Matches are distributed among these distances:
219 24 0.05
222 1 0.00
223 1 0.00
224 1 0.00
225 191 0.39
226 180 0.36
231 7 0.01
234 7 0.01
235 5 0.01
236 36 0.07
237 43 0.09
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (225 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACTTTTCATTTGAATTCATCCTTCGATGGATCATCATTTCAAGAGAAAGTTCATAATGAGAAGA
ACTTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATC
CATCACTCGATAGATCAGCTTTTCCAGAGA
Found at i:11390009 original size:2 final size:2
Alignment explanation
Indices: 11390002--11390048 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
11389992 GTGCATCATA
11390002 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11390044 AT AT A
1 AT AT A
11390049 ATGTTTAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11390895 original size:14 final size:14
Alignment explanation
Indices: 11390872--11390901 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11390862 ATGTTAACCG
11390872 TTAATAAATTATAA
1 TTAATAAATTATAA
*
11390886 TTAATTAATTATAA
1 TTAATAAATTATAA
11390900 TT
1 TT
11390902 TTTAGAGAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTAATAAATTATAA
Found at i:11397186 original size:94 final size:94
Alignment explanation
Indices: 11397025--11397218 Score: 379
Period size: 94 Copynumber: 2.1 Consensus size: 94
11397015 AGGTTGGCTG
*
11397025 GTAATTAAGATTGATCTGGAGAAAGTTTATGATCGCTTTGAATGAGATTTCATTGAAGATACGTT
1 GTAATTAAGATTGATCTGGAGAAAATTTATGATCGCTTTGAATGAGATTTCATTGAAGATACGTT
11397090 GGTTGATGTTGGTATTCATGTGTAATTGT
66 GGTTGATGTTGGTATTCATGTGTAATTGT
11397119 GTAATTAAGATTGATCTGGAGAAAATTTATGATCGCTTTGAATGAGATTTCATTGAAGATACGTT
1 GTAATTAAGATTGATCTGGAGAAAATTTATGATCGCTTTGAATGAGATTTCATTGAAGATACGTT
11397184 GGTTGATGTTGGTATTCATGTGTAATTGT
66 GGTTGATGTTGGTATTCATGTGTAATTGT
11397213 GTAATT
1 GTAATT
11397219 TGATTATGTA
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 99 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (94 bp):
GTAATTAAGATTGATCTGGAGAAAATTTATGATCGCTTTGAATGAGATTTCATTGAAGATACGTT
GGTTGATGTTGGTATTCATGTGTAATTGT
Found at i:11399985 original size:43 final size:44
Alignment explanation
Indices: 11399937--11400032 Score: 124
Period size: 43 Copynumber: 2.2 Consensus size: 44
11399927 TTCTACTAAT
*
11399937 AAACGCCACTAAAAGTCATGTTAT-TTAGCGACG-TTGAGTATAC
1 AAACGCCACTAAAAGTCATGTTATATT-GCGACGTTTGAGAATAC
* * * *
11399980 AAACGCCGCTAAAGGTCATGTTATATTGCGGCGTTTTAGAATAC
1 AAACGCCACTAAAAGTCATGTTATATTGCGACGTTTGAGAATAC
11400024 AAACGCCAC
1 AAACGCCAC
11400033 AATAGGTTAG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
43 27 0.60
44 18 0.40
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (44 bp):
AAACGCCACTAAAAGTCATGTTATATTGCGACGTTTGAGAATAC
Found at i:11400228 original size:116 final size:116
Alignment explanation
Indices: 11400061--11400316 Score: 467
Period size: 116 Copynumber: 2.2 Consensus size: 116
11400051 CGGCTTTTTT
* * *
11400061 GGCACAAACGCCGCATTAGGTTTGATATTTATAGGCGTTTTCCCGATACAGGTTCGATATTTAGC
1 GGCAGAAACACCGCAATAGG-TTGATATTTATAGGCGTTTTCCCGATACAGGTTCGATATTTAGC
11400126 GATGTTTGTAGTCACAAACACCGCAATAGATTTGATATGTAGCGGCTCGTCC
65 GATGTTTGTAGTCACAAACACCGCAATAGATTTGATATGTAGCGGCTCGTCC
11400178 GGCAGAAACACCGCAATAGGTTGATATTTATAGGCGTTTTCCCGATACAGGTTCGATATTTAGCG
1 GGCAGAAACACCGCAATAGGTTGATATTTATAGGCGTTTTCCCGATACAGGTTCGATATTTAGCG
11400243 ATGTTTGTAGTCACAAACACCGCAATAGATTTGATATGTAGCGGCTCGTCC
66 ATGTTTGTAGTCACAAACACCGCAATAGATTTGATATGTAGCGGCTCGTCC
*
11400294 GGCAGAAACACCGCAATAAGTTG
1 GGCAGAAACACCGCAATAGGTTG
11400317 GTCATTTAGT
Statistics
Matches: 135, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
116 118 0.87
117 17 0.13
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (116 bp):
GGCAGAAACACCGCAATAGGTTGATATTTATAGGCGTTTTCCCGATACAGGTTCGATATTTAGCG
ATGTTTGTAGTCACAAACACCGCAATAGATTTGATATGTAGCGGCTCGTCC
Done.